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how to get allele frequencies with Pindel? #117

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myourshaw opened this issue Dec 20, 2019 · 0 comments
Open

how to get allele frequencies with Pindel? #117

myourshaw opened this issue Dec 20, 2019 · 0 comments

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@myourshaw
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myourshaw commented Dec 20, 2019 •
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I'm interested in detecting internal tandem repeats in FLT3 with Pindel. Is there a way to determine (or even estimate) the variant allele frequency? I see an AD for the alt allele, but the ref portion of AD is always zero in my results, and the RD field is never used.

This is my VCF result for a 300bp TD from the Horizon HD829 reference.

chr13	28033909	.	CTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATCACTTTTCCAAAAGCACCTGATCCTAGTACCTTCCCTGCAAAGACAAATGGTGAGTACGTGCATTTTAAAGATTTTCCAATGGAAAAGAAATGCTGCAGAAACATTTGGCACATTCCATTCTTACCAAACTCTAAATTTTCTCTTGGAAACTCCCATTTGAGATCATATTCATATTCTCTGAAATCAACGTAGAAGTACTCATTATCTfGAGGAGCCGGTCACCTGTACCATCTGTAG	CTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATCACTTTTCCAAAAGCACCTGATCCTAGTACCTTCCCTGCAAAGACAAATGGTGAGTACGTGCATTTTAAAGATTTTCCAATGGAAAAGAAATGCTGCAGAAACATTTGGCACATTCCATTCTTACCAAACTCTAAATTTTCTCTTGGAAACTCCCATTTGAGATCATATTCATATTCTCTGAAATCAACGTAGAAGTACTCATTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATCACTTTTCCAAAAGCACCTGATCCTAGTACCTTCCCTGCAAAGACAAATGGTGAGTACGTGCATTTTAAAGATTTTCCAATGGAAAAGAAATGCTGCAGAAACATTTGGCACATTCCATTCTTACCAAACTCTAAATTTTCTCTTGGAAACTCCCATTTGAGATCATATTCATATTCTCTGAAATCAACGTAGAAGTACTCATTATCTGAGGAGCCGGTCACCTGTACCATCTGTAG	.	PASS	END=28034193;HOMLEN=0;SVLEN=284;SVTYPE=DUP:TANDEM;NTLEN=16	GT:AD	1/1:0,104

This is the relevant pindel output:

5	TD 284	NT 16 "TGCTTGAATCCGACTG"	ChrID chr13	BP 28033909	28034194	BP_range 28033909	28034194	Supports 104	104	+ 36	36	- 68	68	S1 2553	SUM_MS 3678	1	NumSupSamples 1	1	HD829 0 0 36 36 68 68
CCATTTGAGATCATATTCATATTCTCTGAAATCAACGTAGAAGTACTCATTATCTGAGGAGCCGGTCACCTGTACCATCTGTAG                tggattgagactcctgttttgctaattccataagctgttgcgttcatcacttttccaaaagcacctgatcctagtaccttccct
                                                                          CCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATCA
	+	28033951	0	HD829	@NB551050:207:HVWYGBGX9:2:12106:10347:17618:TTAAATTC
                                                                          CCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATCAC
	-	28034252	70	HD829	@NB551050:207:HVWYGBGX9:2:12309:19545:19915:GGGCGGAG
                                                                          CCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATCAC
	-	28034252	70	HD829	@NB551050:207:HVWYGBGX9:2:11303:1945:6705:GGGCGGAG
                                                                          CCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATCAC
	-	28034251	70	HD829	@NB551050:207:HVWYGBGX9:1:13108:20254:4960:GGGCGGAG
                                                                         ACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATCA
	+	28033951	0	HD829	@NB551050:207:HVWYGBGX9:4:12611:14246:5494:TTAAATTC
                                                                         ACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATCA
	+	28033951	0	HD829	@NB551050:207:HVWYGBGX9:4:12502:13194:15006:TTAAATTC
                                                                         ACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATCA
	+	28033951	0	HD829	@NB551050:207:HVWYGBGX9:2:23104:6526:16936:TTAAATTC
                                                                         ACCATCTGTAGGGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATCA
	+	28033951	0	HD829	@NB551050:207:HVWYGBGX9:2:11305:26232:5971:TTAAATTC
                                                                         ACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATCA
	+	28033951	0	HD829	@NB551050:207:HVWYGBGX9:1:13302:4351:14440:TTAAATTC
                                                                        TACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATC
	+	28034043	0	HD829	@NB551050:207:HVWYGBGX9:3:12606:19024:6635:TTTATTAG
                                                                        TACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATC
	+	28034043	0	HD829	@NB551050:207:HVWYGBGX9:2:21101:12036:3704:TTTATTAG
                                                                        TACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATC
	+	28034043	0	HD829	@NB551050:207:HVWYGBGX9:1:21302:17014:13350:TTTATTAG
                                                                        TACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCATC
	+	28034043	0	HD829	@NB551050:207:HVWYGBGX9:1:12108:14390:4730:TTTATTAG
                                                                       GTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTC
	-	28034439	70	HD829	@NB551050:207:HVWYGBGX9:4:11503:6235:16676:TCAATTTG
                                                                       GTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCAT
	-	28034088	70	HD829	@NB551050:207:HVWYGBGX9:3:22412:21934:14131:ATGCGCCC
                                                                       GTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCAT
	-	28034088	70	HD829	@NB551050:207:HVWYGBGX9:2:23210:10332:6756:ATGCGCCC
                                                                       GTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCAT
	-	28034087	70	HD829	@NB551050:207:HVWYGBGX9:2:22205:8591:13822:ATGCGCCC
                                                                       GTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCAAAAGCTGTTGCGTTCAT
	-	28034087	70	HD829	@NB551050:207:HVWYGBGX9:2:13308:7570:4608:ATGCGCCC
                                                                       GTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCAT
	-	28034441	70	HD829	@NB551050:207:HVWYGBGX9:1:23310:14372:13006:TCAATTTG
                                                                       GTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCAT
	-	28034087	70	HD829	@NB551050:207:HVWYGBGX9:1:23105:26150:10227:ATGCGCCC
                                                                       GTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCAT
	-	28034087	70	HD829	@NB551050:207:HVWYGBGX9:1:22212:10625:11351:ATGCGCCC
                                                                       GTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCAT
	-	28034087	70	HD829	@NB551050:207:HVWYGBGX9:1:22203:13586:19359:ATGCGCCC
                                                                       GTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCAT
	-	28034081	70	HD829	@NB551050:207:HVWYGBGX9:1:21307:3357:1342:TATTAATA
                                                                       GTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCAT
	-	28034087	70	HD829	@NB551050:207:HVWYGBGX9:1:21112:14535:7682:ATGCGCCC
                                                                      TGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCA
	+	28034006	0	HD829	@NB551050:207:HVWYGBGX9:3:22408:11497:18158:GATGCTAA
                                                                      TGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCA
	+	28034006	0	HD829	@NB551050:207:HVWYGBGX9:1:21312:5124:10200:GATGCTAA
                                                                      TGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCA
	-	28034118	70	HD829	@NB551050:207:HVWYGBGX9:3:22508:14456:12120:GGGTGAGG
                                                                      TGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCA
	-	28034118	70	HD829	@NB551050:207:HVWYGBGX9:3:11405:20064:5799:GGGTGAGG
                                                                      TGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTCA
	-	28034118	70	HD829	@NB551050:207:HVWYGBGX9:2:23203:2047:10968:GGGTGAGG
                                                                     CTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTTC
	-	28034178	70	HD829	@NB551050:207:HVWYGBGX9:3:23407:5988:11756:CTGTACCT
                                                                    CCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTT
	-	28034051	70	HD829	@NB551050:207:HVWYGBGX9:4:22512:18360:14598:CACACGCA
                                                                    CCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTT
	-	28034190	70	HD829	@NB551050:207:HVWYGBGX9:4:21608:17341:6781:TGATCTGC
                                                                    CCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTT
	-	28034051	70	HD829	@NB551050:207:HVWYGBGX9:4:13602:14377:6354:CACACGCA
                                                                    CCTGTACCATCTGTAGTGCTTGAATCAGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGATGCGTT
	-	28034247	70	HD829	@NB551050:207:HVWYGBGX9:4:12610:22280:10403:GTCTTCTA
                                                                    CCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTT
	-	28034051	70	HD829	@NB551050:207:HVWYGBGX9:3:13401:18674:3865:CACACGCA
                                                                    CCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTG
	-	28034247	24	HD829	@NB551050:207:HVWYGBGX9:2:22303:26516:10162:GAGGAGGT
                                                                    CCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTG
	-	28034244	14	HD829	@NB551050:207:HVWYGBGX9:2:22106:7501:14519:GAGGAGGT
                                                                    CCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTT
	-	28034395	70	HD829	@NB551050:207:HVWYGBGX9:2:21208:26053:12414:ACAAAGTA
                                                                    CCTGTACCATCTGTAGTGCTTGAATCAGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGC
	-	28034392	70	HD829	@NB551050:207:HVWYGBGX9:2:21201:10460:17099:ACAAAGTA
                                                                    CCTGTACCATCTGTAGTGCTTGAATCAGACTGTGGATTGAGACTCCTGTTTTGATAATTCCATAAGCTGTTGCGTT
	-	28034247	70	HD829	@NB551050:207:HVWYGBGX9:2:21105:20030:20197:GTCTTCTA
                                                                    CCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTT
	-	28034106	70	HD829	@NB551050:207:HVWYGBGX9:2:12307:9576:16463:ATTGTACC
                                                                    CCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTT
	-	28034139	70	HD829	@NB551050:207:HVWYGBGX9:2:12209:13951:20124:ACCATTTT
                                                                    CCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCGTT
	-	28034139	70	HD829	@NB551050:207:HVWYGBGX9:1:11307:1880:8527:ACCATTTT
                                                                  CACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCG
	+	28034006	0	HD829	@NB551050:207:HVWYGBGX9:4:22511:7918:4406:TACGCAAT
                                                                  CACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCG
	+	28034006	0	HD829	@NB551050:207:HVWYGBGX9:1:11111:2826:18615:TACGCAAT
                                                                  CACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTGCG
	+	28034006	0	HD829	@NB551050:207:HVWYGBGX9:1:11107:10906:2941:TACGCAAT
                                                                GTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTG
	+	28033997	0	HD829	@NB551050:207:HVWYGBGX9:4:23401:14336:18003:TCGACCCC
                                                                GTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTG
	+	28033997	0	HD829	@NB551050:207:HVWYGBGX9:3:21403:13039:10860:TCGACCCC
                                                                GTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTG
	+	28033997	0	HD829	@NB551050:207:HVWYGBGX9:2:12308:9701:6442:TCGACCCC
                                                                GTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGCCTCCTGTTTTGCTAATTCCATAAGCTGTTG
	-	28034168	70	HD829	@NB551050:207:HVWYGBGX9:3:22610:9239:6870:ACGTTTGG
                                                                GTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTG
	-	28034168	70	HD829	@NB551050:207:HVWYGBGX9:1:22303:22003:12429:ACGTTTGG
                                                                GTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGTTG
	-	28034168	70	HD829	@NB551050:207:HVWYGBGX9:1:22208:18967:12899:ACGTTTGG
                                                              CGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGT
	-	28034002	70	HD829	@NB551050:207:HVWYGBGX9:4:13412:26560:16802:ATCTACAT
                                                              CGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGT
	-	28034156	70	HD829	@NB551050:207:HVWYGBGX9:4:13409:5172:8987:CGTCCTCA
                                                              CGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGT
	-	28034156	70	HD829	@NB551050:207:HVWYGBGX9:3:21502:14631:18475:CGTCCTCA
                                                              CGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGT
	-	28034002	70	HD829	@NB551050:207:HVWYGBGX9:2:22102:6524:10394:ATCTACAT
                                                              CGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGT
	-	28034002	70	HD829	@NB551050:207:HVWYGBGX9:2:13307:8316:2570:ATCTACAT
                                                              CGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGCTGT
	-	28034002	70	HD829	@NB551050:207:HVWYGBGX9:1:22106:16579:18612:ATCTACAT
                                                           AGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGC
	+	28034031	0	HD829	@NB551050:207:HVWYGBGX9:2:23307:1615:7696:TGATTTTA
                                                           AGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGC
	+	28034031	0	HD829	@NB551050:207:HVWYGBGX9:2:22101:7039:2873:TGATTTTA
                                                           AGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGC
	+	28034031	0	HD829	@NB551050:207:HVWYGBGX9:2:12105:12815:19614:TGATTTTA
                                                           AGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAGC
	-	28034110	70	HD829	@NB551050:207:HVWYGBGX9:4:23608:26285:17007:TCCTATAT
                                                          GAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAG
	-	28034065	70	HD829	@NB551050:207:HVWYGBGX9:3:22605:19916:9995:TAACGCGC
                                                          GAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAG
	-	28034065	70	HD829	@NB551050:207:HVWYGBGX9:2:13307:13714:13299:TAACGCGC
                                                          GAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCATAAG
	-	28034065	70	HD829	@NB551050:207:HVWYGBGX9:1:11112:9549:17151:TAACGCGC
                                                        AGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCAT
	+	28033943	0	HD829	@NB551050:207:HVWYGBGX9:3:12501:15677:20386:CCCGCCGT
                                                       GAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGCCTCCTGTTTTGCTAATTCCAT
	-	28034026	0	HD829	@NB551050:207:HVWYGBGX9:4:12612:1301:15164:GGAGGGGC
                                                       GAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCAT
	-	28034026	0	HD829	@NB551050:207:HVWYGBGX9:3:22402:20735:3999:GGAGGGGC
                                                       GAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCAT
	-	28034026	0	HD829	@NB551050:207:HVWYGBGX9:1:12301:6984:15578:GGAGGGGC
                                                       GAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCAT
	+	28033943	0	HD829	@NB551050:207:HVWYGBGX9:1:13107:4829:19376:CCCGCCGT
                                                       GAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCA
	-	28034025	70	HD829	@NB551050:207:HVWYGBGX9:4:12611:26687:15177:GGAGGGGC
                                                      TGAGGAGCCGGTCACCTGTTCCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCA
	+	28034026	0	HD829	@NB551050:207:HVWYGBGX9:1:13201:22397:16718:GGACTAGC
                                                      TGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCA
	-	28034034	0	HD829	@NB551050:207:HVWYGBGX9:3:23501:2694:6051:CTTATCAT
                                                      TGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCA
	-	28034034	0	HD829	@NB551050:207:HVWYGBGX9:3:22503:14869:18783:CTTATCAT
                                                      TGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCA
	-	28034034	0	HD829	@NB551050:207:HVWYGBGX9:3:22409:13338:3120:CTTATCAT
                                                      TGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCA
	-	28034034	0	HD829	@NB551050:207:HVWYGBGX9:1:21302:23177:9270:CTTATCAT
                                                      TGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCA
	+	28033956	0	HD829	@NB551050:207:HVWYGBGX9:4:12612:1596:10321:TTTCACTT
                                                      TGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATTCCA
	+	28033956	0	HD829	@NB551050:207:HVWYGBGX9:3:21608:4123:7725:TTTCACTT
                                                   ATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAAT
	+	28033943	70	HD829	@NB551050:207:HVWYGBGX9:3:21605:16607:1667:ATATTGTG
                                                   ATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATT
	-	28034035	0	HD829	@NB551050:207:HVWYGBGX9:1:21206:13209:3018:TTCACTGG
                                                   ATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAATT
	-	28034035	0	HD829	@NB551050:207:HVWYGBGX9:1:13212:22293:7979:TTCACTGG
                                                  TATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAAT
	+	28033943	70	HD829	@NB551050:207:HVWYGBGX9:4:23406:14507:15113:ATATTGTG
                                                  TATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAAT
	+	28033943	70	HD829	@NB551050:207:HVWYGBGX9:1:21312:7569:1792:ATATTGTG
                                                  TATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAAT
	-	28034055	0	HD829	@NB551050:207:HVWYGBGX9:4:23503:25434:14228:GGAACAGG
                                                  TATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAAT
	-	28034055	0	HD829	@NB551050:207:HVWYGBGX9:4:12402:23801:5936:GGAACAGG
                                                  TATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAAT
	-	28034055	0	HD829	@NB551050:207:HVWYGBGX9:1:22307:18490:2250:GGAACAGG
                                                  TATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAAT
	-	28034055	0	HD829	@NB551050:207:HVWYGBGX9:1:11204:5301:16962:GGAACAGG
                                                  TATCTGAGGAGCCGGTCACCTGGACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAAT
	+	28033943	0	HD829	@NB551050:207:HVWYGBGX9:3:23502:18790:3055:ATATTGTG
                                                  TATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAAT
	-	28034011	0	HD829	@NB551050:207:HVWYGBGX9:4:11507:17931:9721:GCTTCTTT
                                                  TATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAAT
	-	28034011	0	HD829	@NB551050:207:HVWYGBGX9:3:11510:21491:13038:GCTTCTTT
                                                  TATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAAT
	-	28034011	0	HD829	@NB551050:207:HVWYGBGX9:2:11107:10820:17669:GCTTCTTT
                                                 TTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCAGACTGTGGATTGAGACTCCTGTTTTGCTAA
	-	28034151	0	HD829	@NB551050:207:HVWYGBGX9:4:22402:20785:10022:TCCTACTA
                                                 TTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAA
	-	28034149	0	HD829	@NB551050:207:HVWYGBGX9:4:23412:21271:19233:TCCTACTA
                                                 TTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAA
	-	28034148	0	HD829	@NB551050:207:HVWYGBGX9:3:13603:10611:8918:TCCTACTA
                                                 TTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAA
	-	28034148	0	HD829	@NB551050:207:HVWYGBGX9:2:23209:17506:13728:TCCTACTA
                                                 TTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTGCTAA
	-	28034148	0	HD829	@NB551050:207:HVWYGBGX9:1:23111:5615:15916:TCCTACTA
                                             CTCATTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTG
	+	28034050	70	HD829	@NB551050:207:HVWYGBGX9:4:23510:7714:16346:AGTAGTTT
                                             CTCATTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTG
	+	28034050	70	HD829	@NB551050:207:HVWYGBGX9:4:21411:18012:10549:AGTAGTTT
                                             CTCATTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTG
	+	28034037	70	HD829	@NB551050:207:HVWYGBGX9:3:23403:17619:11920:CCGACAAG
                                             CTCATTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTTTG
	+	28034050	70	HD829	@NB551050:207:HVWYGBGX9:2:21305:11394:16134:AGTAGTTT
                                           TACTCATTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCTGTTT
	-	28034149	0	HD829	@NB551050:207:HVWYGBGX9:1:11305:22985:12447:AACGAATT
                                       GAAGTACTCATTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGACTCCT
	+	28033917	70	HD829	@NB551050:207:HVWYGBGX9:4:13610:11781:2495:GCCGAAAT
                                   CGTAGAAGTACTCATTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGAC
	+	28033748	70	HD829	@NB551050:207:HVWYGBGX9:2:22306:19889:11897:CGCGATCG
                                   CGTAGAAGTACTCATTATCTGAGGAGCCGGTCACCTGTACCATCTGTAGTGCTTGAATCCGACTGTGGATTGAGAC
	-	28034123	0	HD829	@NB551050:207:HVWYGBGX9:1:23110:25361:3815:ACTTTTCC
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