Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008103.1 Hibiscus syriacus cultivar Beakdansim tig00110633_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1996589
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 11
Found at i:1441890 original size:18 final size:19
Alignment explanation
Indices: 1441867--1441909 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
1441857 TAGTAATCCT
*
1441867 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGATAATCTTAC
1441885 ATTCCCACTGATAATCTTAC
1 ATT-CCACTGATAATCTTAC
1441905 ATTCC
1 ATTCC
1441910 TTGAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 4 0.18
20 15 0.68
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.37
Consensus pattern (19 bp):
ATTCCACTGATAATCTTAC
Found at i:1445423 original size:26 final size:25
Alignment explanation
Indices: 1445367--1445424 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
1445357 TTAGTCACTT
* *
1445367 TTTATTCGAATTATTCACTGTTTTT
1 TTTATTCGAATTAGTCACTGTTTTG
1445392 TATTATTCGAAATTAGTCACT-TTTTGG
1 T-TTATTCG-AATTAGTCACTGTTTT-G
1445419 TTTATT
1 TTTATT
1445425 TCTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.04
26 16 0.57
27 11 0.39
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.57
Consensus pattern (25 bp):
TTTATTCGAATTAGTCACTGTTTTG
Found at i:1447806 original size:20 final size:20
Alignment explanation
Indices: 1447756--1447814 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
1447746 ATTCCCCTGT
1447756 GGGGGAATCGGTTCCCTTCAA
1 GGGGGAATCGGTTCCC-TCAA
* *
1447777 AGGGGAATCGGTTCCCTCAG
1 GGGGGAATCGGTTCCCTCAA
* *
1447797 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
1447815 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.17, C:0.25, G:0.36, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:1454392 original size:10 final size:9
Alignment explanation
Indices: 1454377--1454401 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1454367 TACTTTAAAT
1454377 AAAAAAAAG
1 AAAAAAAAG
1454386 AAAAAAAAG
1 AAAAAAAAG
1454395 AAAAAAA
1 AAAAAAA
1454402 GATTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:1454833 original size:28 final size:26
Alignment explanation
Indices: 1454793--1454847 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 26
1454783 ATTTAGTCAC
*
1454793 TTTTTTATTCGAAATTATTCACTGTTT
1 TTTTTTATTCGAAATTAGTCACT-TTT
1454820 TTTTATTATTCGAAATTAGTCACTTTT
1 TTTT-TTATTCGAAATTAGTCACTTTT
1454847 T
1 T
1454848 GGTTTATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.58
Consensus pattern (26 bp):
TTTTTTATTCGAAATTAGTCACTTTT
Found at i:1454846 original size:25 final size:24
Alignment explanation
Indices: 1454785--1454847 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 24
1454775 CTTTTTTAAT
1454785 TTAGTCAC--TTTTTTATTCGAAA
1 TTAGTCACTTTTTTTTATTCGAAA
*
1454807 TTATTCACTGTTTTTTTATTATTCGAAA
1 TTAGTCAC---TTTTTT-TTATTCGAAA
1454835 TTAGTCACTTTTT
1 TTAGTCACTTTTT
1454848 GGTTTATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
22 7 0.21
25 5 0.15
27 4 0.12
28 17 0.52
ACGTcount: A:0.24, C:0.13, G:0.08, T:0.56
Consensus pattern (24 bp):
TTAGTCACTTTTTTTTATTCGAAA
Found at i:1460089 original size:2 final size:2
Alignment explanation
Indices: 1460078--1460107 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1460068 TGAAGGCGAT
1460078 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1460108 GCAATAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1462493 original size:38 final size:38
Alignment explanation
Indices: 1462315--1462729 Score: 300
Period size: 38 Copynumber: 10.5 Consensus size: 38
1462305 GAAGCTTCAA
* *
1462315 CTTGACTCCCTCGTGAAGAGAAGTTAATCTTTCAATGTTATT
1 CTTGACTCCCTCGTAAAGAGAAGTCAATC-TT---TGTTATT
* *
1462357 CTTGACTTCCTCG-AGAAGAGAAGTCAATCTTTATTATT
1 CTTGACTCCCTCGTA-AAGAGAAGTCAATCTTTGTTATT
** * * * *
1462395 CTTGACTTTCTCAT-GAGAGGAGTCAATAATTCAATGTTATT
1 CTTGACTCCCTCGTAAAGAGAAGTCAAT-CTT---TGTTATT
* * * *
1462436 ATTGAC-CTCCTAGTGAAGAGAAGTCAATCTTTTTTATT
1 CTTGACTC-CCTCGTAAAGAGAAGTCAATCTTTGTTATT
* * *
1462474 CTTGA-TCCCCCCATAAAGAGGAGTCAATATTTCTTTGTTATT
1 CTTGACT-CCCTCGTAAAGAGAAGTC-A-A--TCTTTGTTATT
* *
1462516 CTTGACTTCCTCATAAAGAGAAGGT-AATCTTTGTTATT
1 CTTGACTCCCTCGTAAAGAGAA-GTCAATCTTTGTTATT
* * *
1462554 CCTGACTCCCTCGTGAAGAGCAGTCAATCTTTGTTATT
1 CTTGACTCCCTCGTAAAGAGAAGTCAATCTTTGTTATT
* * * *
1462592 CTTGATTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATC
1 CTTGACTCCCTCGTAAAGAGAAGTCAATC-TT---TGTTATT
* *
1462634 CTTGACTTCCTCGTAAAGAGAAGTCAATCTATGTTATT
1 CTTGACTCCCTCGTAAAGAGAAGTCAATCTTTGTTATT
* * * * *
1462672 ATTTACTTCCTCGTATAGAGAAGTCAATCTTTTTTATT
1 CTTGACTCCCTCGTAAAGAGAAGTCAATCTTTGTTATT
* *
1462710 CTTGACTTCCTCGTGAAGAG
1 CTTGACTCCCTCGTAAAGAG
1462730 GACTCTGTCG
Statistics
Matches: 299, Mismatches: 53, Indels: 46
0.75 0.13 0.12
Matches are distributed among these distances:
37 13 0.04
38 163 0.55
39 4 0.01
40 2 0.01
41 20 0.07
42 94 0.31
43 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (38 bp):
CTTGACTCCCTCGTAAAGAGAAGTCAATCTTTGTTATT
Found at i:1462535 original size:80 final size:76
Alignment explanation
Indices: 1462349--1462731 Score: 303
Period size: 80 Copynumber: 4.9 Consensus size: 76
1462339 TAATCTTTCA
* ** *
1462349 ATGTTATTCTTGACTTCCTCGA-GAAGAGAAGTCAATCTTTATTATTCTTGACTTTCTCAT-GAG
1 ATGTTATTCTTGACTTCCTC-ATGAAGAGAAGTCAATCTTTTTTATTCTTGACTCCCTCATAAAG
*
1462412 AGGAGTCAATAATTCA
65 AGGAGTC---AA-TCT
* * *
1462428 ATGTTATTATTGACCTCCT-AGTGAAGAGAAGTCAATCTTTTTTATTCTTGA-TCCCCCCATAAA
1 ATGTTATTCTTGACTTCCTCA-TGAAGAGAAGTCAATCTTTTTTATTCTTGACT-CCCTCATAAA
1462491 GAGGAGTCAATATTTCT
64 GAGGAGTC-A-A--TCT
* * * * * *
1462508 TTGTTATTCTTGACTTCCTCATAAAGAGAAGGT-AATCTTTGTTATTCCTGACTCCCTCGTGAAG
1 ATGTTATTCTTGACTTCCTCATGAAGAGAA-GTCAATCTTTTTTATTCTTGACTCCCTCATAAAG
*
1462572 AGCAGTCAATCT
65 AGGAGTCAATCT
* * * * * *
1462584 TTGTTATTCTTGA-TTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATCCTTGACTTCCTCGT
1 ATGTTATTCTTGACTT-CCTCATGAAGAGAAGTCAATCTTT---T-TTATTCTTGACTCCCTCAT
*
1462648 AAAGAGAAGTCAATCT
61 AAAGAGGAGTCAATCT
* * * * * *
1462664 ATGTTATTATTTACTTCCTCGT-ATAGAGAAGTCAATCTTTTTTATTCTTGACTTCCTCGTGAAG
1 ATGTTATTCTTGACTTCCTCATGA-AGAGAAGTCAATCTTTTTTATTCTTGACTCCCTCATAAAG
1462728 AGGA
65 AGGA
1462732 CTCTGTCGAC
Statistics
Matches: 252, Mismatches: 35, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
75 4 0.02
76 58 0.23
77 2 0.01
78 3 0.01
79 52 0.21
80 127 0.50
81 6 0.02
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (76 bp):
ATGTTATTCTTGACTTCCTCATGAAGAGAAGTCAATCTTTTTTATTCTTGACTCCCTCATAAAGA
GGAGTCAATCT
Found at i:1462722 original size:118 final size:116
Alignment explanation
Indices: 1462316--1462731 Score: 421
Period size: 118 Copynumber: 3.5 Consensus size: 116
1462306 AAGCTTCAAC
* * * *
1462316 TTGACTCCCTCGTGAAGAGAAGTTAATCTTTCAATGTTATTCTTGACTTCCTCGAGAAGAGAAGT
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTT---T-TTATTCTTGA-TTCCTCGTGAAGAGGAGT
* * * *
1462381 CAATCTTT-A--TTATTCTTGACTTTCTCAT-GAGAGGAGTCAATAATTCAATGTTATTA
61 CAATCTTTCATGTTATTCTTGACTTCCTCATAAAGAGAAGTC---AA-TCTATGTTATTA
* * * * * *
1462437 TTGACCTCCTAGTGAAGAGAAGTCAATCTTTTTTATTCTTGATCCCCCCATAAAGAGGAGTCAAT
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTTTTTATTCTTGAT-TCCTCGTGAAGAGGAGTCAAT
* * * *
1462502 ATTTCTTTGTTATTCTTGACTTCCTCATAAAGAGAAGGT-AATCTTTGTTATTC
65 CTTTC-ATGTTATTCTTGACTTCCTCATAAAGAGAA-GTCAATCTATGTTATTA
* * * *
1462555 CTGACTCCCTCGTGAAGAGCAGTCAATCTTTGTTATTCTTGATTCCCTCGTGAAGAGGAGTCAAT
1 TTGACTTCCTCGTGAAGAGAAGTCAATCTTTTTTATTCTTGATT-CCTCGTGAAGAGGAGTCAAT
* *
1462620 CTTTCAATGTTATCCTTGACTTCCTCGTAAAGAGAAGTCAATCTATGTTATTA
65 CTTTC-ATGTTATTCTTGACTTCCTCATAAAGAGAAGTCAATCTATGTTATTA
*
1462673 TTTACTTCCTCGT-ATAGAGAAGTCAATCTTTTTTATTCTTGACTTCCTCGTGAAGAGGA
1 TTGACTTCCTCGTGA-AGAGAAGTCAATCTTTTTTATTCTTGA-TTCCTCGTGAAGAGGA
1462732 CTCTGTCGAC
Statistics
Matches: 244, Mismatches: 40, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
116 1 0.00
117 31 0.13
118 156 0.64
119 4 0.02
121 45 0.18
122 5 0.02
123 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (116 bp):
TTGACTTCCTCGTGAAGAGAAGTCAATCTTTTTTATTCTTGATTCCTCGTGAAGAGGAGTCAATC
TTTCATGTTATTCTTGACTTCCTCATAAAGAGAAGTCAATCTATGTTATTA
Found at i:1463955 original size:2 final size:2
Alignment explanation
Indices: 1463948--1464008 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
1463938 TCATTGCTGC
1463948 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1463990 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
1464009 GGATAAATAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1475561 original size:36 final size:35
Alignment explanation
Indices: 1475515--1475604 Score: 135
Period size: 36 Copynumber: 2.5 Consensus size: 35
1475505 TTCTCAAGTT
* *
1475515 AATCAAGCCTTCACAAAATAGTAGTGAAGCAATGCA
1 AATC-AGCCTTCACAAAAGAGTAGCGAAGCAATGCA
1475551 AATCGAGCCTTCACAAAAGAGTAGCGAAGCAATGCA
1 AATC-AGCCTTCACAAAAGAGTAGCGAAGCAATGCA
1475587 AATTCAGCCTTCACAAAA
1 AA-TCAGCCTTCACAAAA
1475605 AAAAGAGTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
36 48 0.96
37 2 0.04
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (35 bp):
AATCAGCCTTCACAAAAGAGTAGCGAAGCAATGCA
Found at i:1475838 original size:11 final size:11
Alignment explanation
Indices: 1475793--1475840 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
1475783 TTGGTTTTAA
1475793 TATAATTATA-
1 TATAATTATAT
*
1475803 TATCATTATAT
1 TATAATTATAT
**
1475814 TATAATTACGT
1 TATAATTATAT
*
1475825 TATTATTATAT
1 TATAATTATAT
1475836 TATAA
1 TATAA
1475841 CTAATAACTA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (11 bp):
TATAATTATAT
Found at i:1479499 original size:38 final size:38
Alignment explanation
Indices: 1479454--1481096 Score: 1575
Period size: 38 Copynumber: 41.8 Consensus size: 38
1479444 ATTTATTCCA
* * *
1479454 GACTCCCTCGTGAACAGAAGTCAATCTTTTTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* *
1479492 GA-TTCCCTCGTGAAAAGGAGTCAATCTTTCTTTGTTATTCTT
1 GACTT-CCTCGTGAAGAGAAGTCAA----TCTTTGTTATTCTT
* *
1479534 GACTTCCTCGTGAAGAGAAATCAATCTTTGTTATTTTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * *
1479572 GAGTTCCTCGTGAAGAGAAGTCAATATTTCTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* *
1479610 GACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTT
* *
1479652 GACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATTTTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* *
1479690 TACTTCCTCGTAAAGAGAAGTCAATCTTTGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
*
1479728 GACTCCCTCGTGAAGATG-AGTCAATCTTTCAATGTTATTCTT
1 GACTTCCTCGTGAAGA-GAAGTCAATC-TT---TGTTATTCTT
* * *
1479770 AACTTCCTCGTGAAGAGAAGTTAATATTTGTTATTC-T
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * * * *
1479807 GACTCCCTTGTGAAGAGGAGTCAATCTTTCAATATTATTATT
1 GACTTCCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTT
* *
1479849 GACTTCCTCATGAAAAGAAGTCAATCTTTGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * * *
1479887 GACTCCCTCATGAAGAGGATTCAATCCTTCAATGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAAT-CTT---TGTTATTCTT
1479929 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * * *
1479967 GACTCCCTCATGAAGATG-AGTCAATATTTCAATGTTATTATT
1 GACTTCCTCGTGAAGA-GAAGTCAAT-CTT---TGTTATTCTT
1480009 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
*
1480047 GACTTCCTCGTGAAGAGAATTCAATCTTTGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* *
1480085 GACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTT
* * * *
1480127 GATTTCTTCATGAAGAGAAGCCAATCTTTGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* *
1480165 GACTCCCTCGTGAAAAGAAGTCAATCTTTGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* *
1480203 GACTCCCTCGTGAAGAGGAGTCAATCTTTCATTGTCT-TTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATC--T--TTGT-TATTCTT
* * * *
1480245 GACTCCCTCATGAAGAGGAGTCAATGTTTCAATGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAAT-CTT---TGTTATTCTT
* *
1480287 GACTTCCTCATGAAGAGAAGTCGATCTTTGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * *
1480325 GACTTCCTTGTGAAGAGAAGTCAATATTTGTTATTTTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * * *
1480363 GACTCCCTTGTGAAGAGGAGTCAATCTTTCAATATTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTT
* * * *
1480405 AACTTCCTCATGAAGAGAATTCAATCTTTGTTATTTTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * * * *
1480443 GACTTCTTCATGAAGAGAATTCAATCTTTTTTATTCCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * * *
1480481 GACTCCCTCGCT-AAGAGGAGTCAATCTTTCAATATTATTCCT
1 GACTTCCTCG-TGAAGAGAAGTCAATC-TT---TGTTATTCTT
* *
1480523 GACTTCCTCGTGAAGAGAAATCAATCTTTTTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* *
1480561 GACTTCCTCATGAAGAGAAATCAATCTTT-TTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * * *
1480598 AACTTTCTCGTGAAGTGAAGTCAATCTTTGTTATTCAT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * *
1480636 GACTTCCTCGTGATGAGAATTCAATCTTTGTTATTCCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * *
1480674 GACTCCCTCGTGAAGAGAAGTCAACCTTTGTTATTATT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* *
1480712 GA-TTCCCTCGTGAAGAGGAGTTAATCTTTCTTTGTTATTCTT
1 GACTT-CCTCGTGAAGAGAAGTCAA----TCTTTGTTATTCTT
*
1480754 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
*
1480792 GACTCCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * *
1480830 GA-TTCCCTCGTGAAGAGGAGTTAATCTTTCTTTGTATTCTT
1 GACTT-CCTCGTGAAGAGAAGTCAATC-TT-TGT-TATTCTT
* * *
1480871 GACTTACTCTTGAAGAGAAGTCAATCTTTGTTATTCCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * * *
1480909 GACTCCCTCATGAGGAGAAATCAATCTTTGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* *
1480947 GA-TTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATCCTT
1 GACTT-CCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTT
* * * * *
1480989 -ACTTCCTCATGAATAAAAATCAATCTATT-ATATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCT-TTGTTATTCTT
* *
1481026 GACTTCCTCGTGAAGATG-AGTCAATCTTTCAATTTTATTCTC
1 GACTTCCTCGTGAAGA-GAAGTCAATC-TT---TGTTATTCTT
* *
1481068 GACTTCCTTGTGAAGAAAAGTCAATCTTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTT
1481097 CAGTATTTTC
Statistics
Matches: 1335, Mismatches: 188, Indels: 164
0.79 0.11 0.10
Matches are distributed among these distances:
37 63 0.05
38 758 0.57
39 26 0.02
40 6 0.00
41 77 0.06
42 400 0.30
43 5 0.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (38 bp):
GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
Found at i:1479581 original size:80 final size:78
Alignment explanation
Indices: 1479454--1481094 Score: 1485
Period size: 80 Copynumber: 20.8 Consensus size: 78
1479444 ATTTATTCCA
* * * * *
1479454 GACTCCCTCGTGAACAGAAGTCAATCTTTTTTATTCTTGA-TTCCCTCGTGAAAAGGAGTCAATC
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT-CCTCGTGAAGAGAAGTCAATC
1479518 TTTCTTTGTTATTCTT
65 --TCTTTGTTATTCTT
* * *
1479534 GACTTCCTCGTGAAGAGAAATCAATCTTTGTTATTTTTGAGTTCCTCGTGAAGAGAAGTCAA--T
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT
* *
1479597 ATTTCTTATTCTT
66 CTTTGTTATTCTT
* * *
1479610 GACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTTTCTCGTGAAGAGAAGTCA
1 GACTTCCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCA
*
1479675 A--TCTTTGTTATTTTT
62 ATCTCTTTGTTATTCTT
* * *
1479690 TACTTCCTCGTAAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGATG-AGTCAATC
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGA-GAAGTCAATC
1479754 T-TTCAATGTTATTCTT
65 TCTT---TGTTATTCTT
* * * * * *
1479770 AACTTCCTCGTGAAGAGAAGTTAATATTTGTTATTC-TGACTCCCTTGTGAAGAGGAGTCAATCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT
* *
1479834 -TTCAATATTATTATT
66 CTT---TGTTATTCTT
* * * * * *
1479849 GACTTCCTCATGAAAAGAAGTCAATCTTTGTTATTCTTGACTCCCTCATGAAGAGGATTCAATC-
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT
1479913 CTTCAATGTTATTCTT
66 CTT---TGTTATTCTT
* * *
1479929 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCATGAAGATG-AGTCAATA
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGA-GAAGTCAATC
*
1479993 T-TTCAATGTTATTATT
65 TCTT---TGTTATTCTT
*
1480009 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAATTCAA--T
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT
1480072 CTTTGTTATTCTT
66 CTTTGTTATTCTT
* * * * * *
1480085 GACTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGATTTCTTCATGAAGAGAAGCCA
1 GACTTCCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCA
1480150 A--TCTTTGTTATTCTT
62 ATCTCTTTGTTATTCTT
* * * *
1480165 GACTCCCTCGTGAAAAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATC-
*
1480230 TTCATTGTCT-TTCTT
65 -TCTTTGT-TATTCTT
* * * * * *
1480245 GACTCCCTCATGAAGAGGAGTCAATGTTTCAATGTTATTCTTGACTTCCTCATGAAGAGAAGTCG
1 GACTTCCTCGTGAAGAGAAGTCAAT-CTT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCA
1480310 A--TCTTTGTTATTCTT
62 ATCTCTTTGTTATTCTT
* * * * * *
1480325 GACTTCCTTGTGAAGAGAAGTCAATATTTGTTATTTTTGACTCCCTTGTGAAGAGGAGTCAATCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT
*
1480390 -TTCAATATTATTCTT
66 CTT---TGTTATTCTT
* * * * * * *
1480405 AACTTCCTCATGAAGAGAATTCAATCTTTGTTATTTTTGACTTCTTCATGAAGAGAATTCAATCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT
*
1480470 -TTT-TTATTCCT
66 CTTTGTTATTCTT
* * * * *
1480481 GACTCCCTCGCT-AAGAGGAGTCAATCTTTCAATATTATTCCTGACTTCCTCGTGAAGAGAAATC
1 GACTTCCTCG-TGAAGAGAAGTCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTC
1480545 AATCT-TTT-TTATTCTT
61 AATCTCTTTGTTATTCTT
* * * * *
1480561 GACTTCCTCATGAAGAGAAATCAATCTTT-TTATTCTTAACTTTCTCGTGAAGTGAAGTCAA--T
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT
*
1480623 CTTTGTTATTCAT
66 CTTTGTTATTCTT
* * * *
1480636 GACTTCCTCGTGATGAGAATTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGAAGTCAA-C-
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT
*
1480699 CTTTGTTATTATT
66 CTTTGTTATTCTT
* *
1480712 GA-TTCCCTCGTGAAGAGGAGTTAATCTTTCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTC
1 GACTT-CCTCGTGAAGAGAAGTCAA----TCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTC
*
1480776 AA--TCTTTGTTATTCCT
61 AATCTCTTTGTTATTCTT
* * *
1480792 GACTCCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGA-TTCCCTCGTGAAGAGGAGTTAATC
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTT-CCTCGTGAAGAGAAGTCAATC
1480856 TTTCTTTG-TATTCTT
65 --TCTTTGTTATTCTT
* * * * * * *
1480871 GACTTACTCTTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCATGAGGAGAAATCAA--T
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT
1480934 CTTTGTTATTCTT
66 CTTTGTTATTCTT
* * * * * *
1480947 GA-TTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATCCTT-ACTTCCTCATGAATAAAAATC
1 GACTT-CCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTC
* *
1481010 AATCT-ATT-ATATTCTT
61 AATCTCTTTGTTATTCTT
* * * *
1481026 GACTTCCTCGTGAAGATG-AGTCAATCTTTCAATTTTATTCTCGACTTCCTTGTGAAGAAAAGTC
1 GACTTCCTCGTGAAGA-GAAGTCAATC-TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTC
1481090 AATCT
61 AATCT
1481095 TTCAGTATTT
Statistics
Matches: 1316, Mismatches: 174, Indels: 142
0.81 0.11 0.09
Matches are distributed among these distances:
73 1 0.00
74 3 0.00
75 72 0.05
76 296 0.22
77 15 0.01
78 4 0.00
79 198 0.15
80 689 0.52
81 8 0.01
84 30 0.02
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (78 bp):
GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT
CTTTGTTATTCTT
Found at i:1479654 original size:118 final size:115
Alignment explanation
Indices: 1479454--1481096 Score: 1632
Period size: 118 Copynumber: 13.9 Consensus size: 115
1479444 ATTTATTCCA
* * * * * *
1479454 GACTCCCTCGTGAACAGAAGTCAATCTTTTTTATTCTTGATTCCCTCGTGAAAAGGAGTCAATCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATC-
* *
1479519 TTCTTTGTTATTCTTGACTTCCTCGTGAAGAGAAATCAATCTTTGTTATTTTT
65 -T-TTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * * *
1479572 GAGTTCCTCGTGAAGAGAAGTCAATATTTCTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCT
* *
1479637 TTCAATGTTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATTTTT
66 TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* *
1479690 TACTTCCTCGTAAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGATG-AGTCAATC
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGA-GAAGTCAATC
* * *
1479754 TTTCAATGTTATTCTTAACTTCCTCGTGAAGAGAAGTTAATATTTGTTATTC-T
65 TTT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * * * * * * *
1479807 GACTCCCTTGTGAAGAGGAGTCAATCTTTCAATATTATTATTGACTTCCTCATGAAAAGAAGTCA
1 GACTTCCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTTGACTCCCTCGTGAAGAGAAGTCA
* * * *
1479872 ATC-TTTGTTATTCTTGACTCCCTCATGAAGAGGATTCAATCCTTCAATGTTATTCTT
62 ATCTTTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAAT-CTT---TGTTATTCTT
* *
1479929 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCATGAAGATG-AGTCAATA
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGA-GAAGTCAATC
*
1479993 TTTCAATGTTATTATTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
65 TTT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* *
1480047 GACTTCCTCGTGAAGAGAATTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCT
* * * *
1480112 TTCAATGTTATTCTTGATTTCTTCATGAAGAGAAGCCAATCTTTGTTATTCTT
66 TT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * *
1480165 GACTCCCTCGTGAAAAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGGAGTCAATCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATC-
* * * *
1480230 TTCATTGTCT-TTCTTGACTCCCTCATGAAGAGGAGTCAATGTTTCAATGTTATTCTT
65 TT--TTGT-TATTCTTGACTTCCTCGTGAAGAGAAGTCAAT-CTT---TGTTATTCTT
* * * * *
1480287 GACTTCCTCATGAAGAGAAGTCGATCTTTGTTATTCTTGACTTCCTTGTGAAGAGAAGTCAAT-A
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCT
* * * * *
1480351 TTTGTTATTTTTGACTCCCTTGTGAAGAGGAGTCAATCTTTCAATATTATTCTT
66 TTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTT
* * * * * * * *
1480405 AACTTCCTCATGAAGAGAATTCAATCTTTGTTATTTTTGACTTCTTCATGAAGAGAATTCAATCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCT
* * * * *
1480470 TTT-TTATTCCTGACTCCCTCGCT-AAGAGGAGTCAATCTTTCAATATTATTCCT
66 TTTGTTATTCTTGACTTCCTCG-TGAAGAGAAGTCAATC-TT---TGTTATTCTT
* * * * *
1480523 GACTTCCTCGTGAAGAGAAATCAATCTTTTTTATTCTTGACTTCCTCATGAAGAGAAATCAATC-
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCT
* * * *
1480587 TTT-TTATTCTTAACTTTCTCGTGAAGTGAAGTCAATCTTTGTTATTCAT
66 TTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * * *
1480636 GACTTCCTCGTGATGAGAATTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGAAGTCAA-CC
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCT
* * *
1480700 TTTGTTATTATTGA-TTCCCTCGTGAAGAGGAGTTAATCTTTCTTTGTTATTCTT
66 TTTGTTATTCTTGACTT-CCTCGTGAAGAGAAGTCAA----TCTTTGTTATTCTT
*
1480754 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGAAGTCAATC-
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCT
* * *
1480818 TTTGTTATTCTTGA-TTCCCTCGTGAAGAGGAGTTAATCTTTCTTTGTATTCTT
66 TTTGTTATTCTTGACTT-CCTCGTGAAGAGAAGTCAATC-TT-TGT-TATTCTT
* * * * * *
1480871 GACTTACTCTTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCATGAGGAGAAATCAATC-
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCT
* *
1480935 TTTGTTATTCTTGA-TTCCCTCGTGAAGAGGAGTCAATCTTTCAATGTTATCCTT
66 TTTGTTATTCTTGACTT-CCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTT
* * * * * *
1480989 -ACTTCCTCATGAATAAAAATCAATCTATT-ATATTCTTGACTTCCTCGTGAAGATG-AGTCAAT
1 GACTTCCTCGTGAAGAGAAGTCAATCT-TTGTTATTCTTGACTCCCTCGTGAAGA-GAAGTCAAT
* * * *
1481051 CTTTCAATTTTATTCTCGACTTCCTTGTGAAGAAAAGTCAATCTTT
64 CTTT---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTT
1481097 CAGTATTTTC
Statistics
Matches: 1322, Mismatches: 150, Indels: 107
0.84 0.09 0.07
Matches are distributed among these distances:
112 1 0.00
113 68 0.05
114 25 0.02
115 4 0.00
116 6 0.00
117 236 0.18
118 767 0.58
119 16 0.01
120 6 0.00
121 71 0.05
122 122 0.09
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (115 bp):
GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGAGAAGTCAATCT
TTTGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
Found at i:1481135 original size:45 final size:45
Alignment explanation
Indices: 1481020--1481399 Score: 208
Period size: 45 Copynumber: 8.8 Consensus size: 45
1481010 AATCTATTAT
*
1481020 ATTCTTGACTTCCTCGTGAAGATGAGTCAATCTTTCA--ATTTT-
1 ATTCTTGACTTTCTCGTGAAGATGAGTCAATCTTTCAGTATTTTC
* * * **
1481062 ATTCTCGACTTCCTTGTGAAGAAAAGTCAATCTTTCAGTATTTTC
1 ATTCTTGACTTTCTCGTGAAGATGAGTCAATCTTTCAGTATTTTC
* * * * *
1481107 ATTCTTGACTTTCTCATGACGATGAGTCAATTTTTTAGT-GTTTC
1 ATTCTTGACTTTCTCGTGAAGATGAGTCAATCTTTCAGTATTTTC
* * * * *
1481151 CTTCATAGACTTTCTCGCGAAGA-GAAGTTAATCTTTCAGTATTGTC
1 ATTC-TTGACTTTCTCGTGAAGATG-AGTCAATCTTTCAGTATTTTC
* *
1481197 ATTCCTT-ACTTTCTCGTG-AG--GAGT-AATCATT--G--TCTTC
1 ATT-CTTGACTTTCTCGTGAAGATGAGTCAATCTTTCAGTATTTTC
** * * *
1481234 ---CTTGACTTTCTCACGAAGA-GAAGTTAATCTTT-AGTGTTGTC
1 ATTCTTGACTTTCTCGTGAAGATG-AGTCAATCTTTCAGTATTTTC
* * * * * *
1481275 -TTCCTTGACTTTCTCGCGAAGAGGAGTCGATCTTTTAGTGTTGTC
1 ATT-CTTGACTTTCTCGTGAAGATGAGTCAATCTTTCAGTATTTTC
* * * * * *
1481320 CTACTTGACTTTCTCGTGAAGATAAGTCAACCTTTTAGTAGTGTT-
1 ATTCTTGACTTTCTCGTGAAGATGAGTCAATCTTTCAGTA-TTTTC
* * * *
1481365 ATTCTTGACTTTCTTGGGAAGAGGAGTCAACCTTT
1 ATTCTTGACTTTCTCGTGAAGATGAGTCAATCTTT
1481400 TAGTGATGTC
Statistics
Matches: 263, Mismatches: 53, Indels: 41
0.74 0.15 0.11
Matches are distributed among these distances:
33 3 0.01
34 9 0.03
35 2 0.01
36 1 0.00
37 6 0.02
38 6 0.02
39 2 0.01
41 9 0.03
42 36 0.14
43 1 0.00
44 42 0.16
45 136 0.52
46 9 0.03
47 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
ATTCTTGACTTTCTCGTGAAGATGAGTCAATCTTTCAGTATTTTC
Found at i:1481400 original size:45 final size:45
Alignment explanation
Indices: 1481234--1481500 Score: 182
Period size: 45 Copynumber: 5.7 Consensus size: 45
1481224 CATTGTCTTC
* * * * * *
1481234 CTTGACTTTCTCACGAAGAGAAGTTAATC-TTTAGTGTTGTCTTC
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGTTGTCATA
* * *
1481278 CTTGACTTTCTCGCGAAGAGGAGTCGATCTTTTAGTGTTGTCCTA
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGTTGTCATA
* ** * *
1481323 CTTGACTTTCTCGTGAAGATAAGTCAACCTTTTAGTAG-TGTTATT
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGT-GTTGTCATA
* * *
1481368 CTTGACTTTCTTGGGAAGAGGAGTCAACCTTTTAGTGATGTCATTCTCAA
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGTTGTCA---T--A
** * *
1481418 CTTGACTTTCTCATGGAGAGGAGTCAA-CTTTTCAGTAGTATCCTTTC-TGAA
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTT-AGT-G--T--TGTCAT--A
*
1481469 CTTGACTTTCTCGCGAAGAAGAGTCAACCTTT
1 CTTGACTTTCTCGCGAAGAGGAGTCAACCTTT
1481501 CAGTAGTATT
Statistics
Matches: 177, Mismatches: 31, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
44 26 0.15
45 84 0.47
46 1 0.01
48 1 0.01
49 5 0.03
50 26 0.15
51 27 0.15
52 4 0.02
55 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (45 bp):
CTTGACTTTCTCGCGAAGAGGAGTCAACCTTTTAGTGTTGTCATA
Found at i:1481478 original size:51 final size:51
Alignment explanation
Indices: 1481368--1481531 Score: 145
Period size: 51 Copynumber: 3.2 Consensus size: 51
1481358 TAGTGTTATT
*** * * * *
1481368 CTTGACTTTCTTGGGAAGAGGAGTCAACCTTTTAGT-G-ATGTCATTCTCAA
1 CTTGACTTTCTCACGAAGAAGAGTCAACCTTTCAGTAGTAT-CCTTTCTCAA
* * * * *
1481418 CTTGACTTTCTCATGGAGAGGAGTCAACTTTTCAGTAGTATCCTTTCTGAA
1 CTTGACTTTCTCACGAAGAAGAGTCAACCTTTCAGTAGTATCCTTTCTCAA
* *
1481469 CTTGACTTTCTCGCGAAGAAGAGTCAACCTTTCAGTAGTAT-TTTTCCTCAA
1 CTTGACTTTCTCACGAAGAAGAGTCAACCTTTCAGTAGTATCCTTT-CTCAA
* *
1481520 CTGGACTATCTC
1 CTTGACTTTCTC
1481532 GTATAGAGGA
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
50 33 0.35
51 58 0.62
52 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (51 bp):
CTTGACTTTCTCACGAAGAAGAGTCAACCTTTCAGTAGTATCCTTTCTCAA
Found at i:1482232 original size:134 final size:133
Alignment explanation
Indices: 1482055--1482425 Score: 545
Period size: 133 Copynumber: 2.8 Consensus size: 133
1482045 AATGTTTGAT
*
1482055 TTTCAGATTTGGTCTT-CTGAAGAGTAGTGAAGCAAATCAATTCTGATTCAATCTTCCCTGAAGA
1 TTTCAGATTTGGTCTTCCTGAAGAGTAGTGAAGCAAATCGATTCTGATTCAATCTTCCCTGAAGA
* *
1482119 GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCCTTAAAGAGTAGTGGAATAGATTCTT
66 GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCT-CCTTAAAGAGTAGTGGAACAGATTATT
1482184 CTTC
130 CTTC
* *
1482188 TTTCAGATTTGGTCTTCCTGAAGAGTAGTGAAGCAAATCGATTCTGATTCAATTTTCCCTGAAAA
1 TTTCAGATTTGGTCTTCCTGAAGAGTAGTGAAGCAAATCGATTCTGATTCAATCTTCCCTGAAGA
*
1482253 GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTG-TCTCCTATAAAGAGTAGTGGAGCAGATTATT
66 GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCT-TAAAGAGTAGTGGAACAGATTATT
1482317 CTTC
130 CTTC
* * * * *
1482321 TTTCAAATTTGGTCTTCCAGAAGAGCAGTGAAGCAAATCGATTCCGATTCCATCTTCCCTGAAGA
1 TTTCAGATTTGGTCTTCCTGAAGAGTAGTGAAGCAAATCGATTCTGATTCAATCTTCCCTGAAGA
* * *
1482386 ACAGTGGAA-TGAATCAACG-TTTCTCGA-TCTGATCTACCTT
66 GCAGT-GAAGTGGATCAAAGTTTTCTCGAGTCTGATCT-CCTT
1482426 GCAGAAACAG
Statistics
Matches: 217, Mismatches: 16, Indels: 11
0.89 0.07 0.05
Matches are distributed among these distances:
131 4 0.02
132 15 0.07
133 117 0.54
134 81 0.37
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (133 bp):
TTTCAGATTTGGTCTTCCTGAAGAGTAGTGAAGCAAATCGATTCTGATTCAATCTTCCCTGAAGA
GCAGTGAAGTGGATCAAAGTTTTCTCGAGTCTGATCTCCTTAAAGAGTAGTGGAACAGATTATTC
TTC
Found at i:1482523 original size:6 final size:6
Alignment explanation
Indices: 1482512--1482584 Score: 92
Period size: 6 Copynumber: 12.2 Consensus size: 6
1482502 ATGACCCATT
* *
1482512 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATCA TTAATA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * *
1482560 TTATCA GTATTA TTAATA TTTTTA T
1 TTATTA TTATTA TTATTA TTATTA T
1482585 GTTATTTCTT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (6 bp):
TTATTA
Found at i:1482526 original size:9 final size:9
Alignment explanation
Indices: 1482512--1482584 Score: 92
Period size: 9 Copynumber: 8.1 Consensus size: 9
1482502 ATGACCCATT
1482512 TTATTATTA
1 TTATTATTA
1482521 TTATTATTA
1 TTATTATTA
1482530 TTATTATTA
1 TTATTATTA
1482539 TTATTATTA
1 TTATTATTA
*
1482548 TTATCATTA
1 TTATTATTA
* *
1482557 ATATTATCA
1 TTATTATTA
*
1482566 GTATTATTA
1 TTATTATTA
* *
1482575 ATATTTTTA
1 TTATTATTA
1482584 T
1 T
1482585 GTTATTTCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
TTATTATTA
Found at i:1488297 original size:16 final size:17
Alignment explanation
Indices: 1488276--1488313 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1488266 TAAAACGTTA
1488276 TTTAAAATATT-ATTTT
1 TTTAAAATATTAATTTT
*
1488292 TTTAAAATGTTAATTTT
1 TTTAAAATATTAATTTT
*
1488309 GTTAA
1 TTTAA
1488314 TTATTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTAAAATATTAATTTT
Found at i:1489676 original size:3 final size:3
Alignment explanation
Indices: 1489668--1489700 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1489658 AGACAATATG
1489668 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1489701 CCTTCAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1489825 original size:21 final size:21
Alignment explanation
Indices: 1489795--1489845 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1489785 ATTACTTGTT
* *
1489795 CTTTACCCTTTATCATCATTC
1 CTTTATCCTTTATCATCATTA
1489816 CTTTATCCTTTATCATCATTA
1 CTTTATCCTTTATCATCATTA
*
1489837 TTTTATCCT
1 CTTTATCCT
1489846 CTTTATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.53
Consensus pattern (21 bp):
CTTTATCCTTTATCATCATTA
Found at i:1491045 original size:30 final size:29
Alignment explanation
Indices: 1490989--1491073 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 29
1490979 TTTTAGATTA
**
1490989 TGATCAAAATATAAATTTTGAAAGTTTAG
1 TGATCAAAATATAAATTTAAAAAGTTTAG
*
1491018 TGATCAAAGTATAAATCTTAAAAAGTTTAAG
1 TGATCAAAATATAAAT-TTAAAAAGTTT-AG
*
1491049 -GA-CAAAATAATAATTTTAAAAAGTT
1 TGATCAAAAT-ATAAATTTAAAAAGTT
1491074 ACAAATTGGC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
29 30 0.62
30 16 0.33
31 2 0.04
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (29 bp):
TGATCAAAATATAAATTTAAAAAGTTTAG
Found at i:1492727 original size:26 final size:25
Alignment explanation
Indices: 1492691--1492746 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
1492681 AGGGCACTAA
* *
1492691 GTGTATATGGTGGGCACGACCTTAT
1 GTGTATATGGTGAGCACAACCTTAT
1492716 GTGTATTATGGTGAGCACAACCTTAT
1 GTGTA-TATGGTGAGCACAACCTTAT
1492742 GTGTA
1 GTGTA
1492747 AGCACTACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (25 bp):
GTGTATATGGTGAGCACAACCTTAT
Found at i:1493019 original size:26 final size:26
Alignment explanation
Indices: 1492983--1493032 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
1492973 TTAGCGTGTG
1492983 ATGATTTTCACGCGTAGGTAAAAACC
1 ATGATTTTCACGCGTAGGTAAAAACC
1493009 ATGATTTTCACGCGTAGGTAAAAA
1 ATGATTTTCACGCGTAGGTAAAAA
1493033 TCAGTAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (26 bp):
ATGATTTTCACGCGTAGGTAAAAACC
Found at i:1498369 original size:29 final size:29
Alignment explanation
Indices: 1498336--1498395 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
1498326 TGTTCATAAC
1498336 TATTGAACCATGAACTTTAACATAGGAAA
1 TATTGAACCATGAACTTTAACATAGGAAA
1498365 TATTGAACCATGAACTTTAACATAGGAAA
1 TATTGAACCATGAACTTTAACATAGGAAA
1498394 TA
1 TA
1498396 GACTTATAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (29 bp):
TATTGAACCATGAACTTTAACATAGGAAA
Found at i:1501028 original size:20 final size:20
Alignment explanation
Indices: 1501003--1501040 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1500993 GTCTAAGAGC
1501003 TCATTTAAGACCATATAGAT
1 TCATTTAAGACCATATAGAT
* *
1501023 TCATTTAGGAGCATATAG
1 TCATTTAAGACCATATAG
1501041 TTGCATGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (20 bp):
TCATTTAAGACCATATAGAT
Found at i:1502537 original size:23 final size:23
Alignment explanation
Indices: 1502500--1502544 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1502490 CAACACAATT
* *
1502500 CAATTTTCCAAGACATTTCCATC
1 CAATTTGCCAAGACATCTCCATC
*
1502523 CAATTTGCCACGACATCTCCAT
1 CAATTTGCCAAGACATCTCCAT
1502545 TCGCTACCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.33, G:0.07, T:0.31
Consensus pattern (23 bp):
CAATTTGCCAAGACATCTCCATC
Found at i:1511404 original size:20 final size:20
Alignment explanation
Indices: 1511379--1511441 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
1511369 TCTAAGAGCT
*
1511379 CATTTAGGACCATATAGATG
1 CATTTAGGAGCATATAGATG
1511399 CATTTAGGAGCATATAGATG
1 CATTTAGGAGCATATAGATG
*
1511419 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
1511439 CAT
1 CAT
1511442 GTGGTGGAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:1515192 original size:16 final size:16
Alignment explanation
Indices: 1515156--1515189 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1515146 CACGTGAGGA
1515156 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
1515172 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
1515189 T
1 T
1515190 ATTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:1525375 original size:17 final size:16
Alignment explanation
Indices: 1525344--1525377 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1525334 CACGTGAGGA
1525344 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
1525360 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
1525377 T
1 T
1525378 ACTATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:1542408 original size:131 final size:130
Alignment explanation
Indices: 1542235--1542602 Score: 468
Period size: 131 Copynumber: 2.8 Consensus size: 130
1542225 ATAATTTTAA
** * * **
1542235 GAGAGAAAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCATGCCTTAAAATA
1 GAGAGAAAATGATAATATAAAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCA
* * *
1542300 GTCATTTATTACTCCGATTGAAATGAAGAGATATCACTATTCCGTATTAAAATTCAATATCGATT
66 GTCATTTATTACTCC-ATTGAAATGAAGAGATATCACTATTCCATATTAAAAATCAATATCAATT
1542365 C
130 C
* * *
1542366 GAGTGAAAATGATAATATAAAATAATTTCCAATCGAGAATAAATGATCTCTCATACCTTAAAGCA
1 GAGAGAAAATGATAATATAAAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCA
** * * * *
1542431 GTCATTTATTGTTTCAGTCGAAATGAAGAGATATCACTATTCCATCTTAAAAATCAATATTAATT
66 GTCATTTATTACTCCA-TTGAAATGAAGAGATATCACTATTCCATATTAAAAATCAATATCAATT
1542496 C
130 C
* ** **
1542497 GAGAG-AAATAATAATATTGAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAGTGCA
1 GAGAGAAAATGATAATATAAAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCA
* * *
1542561 GTCATTTATTACTCCAACTGAAATGAAAAGATATTACTATTC
66 GTCATTTATTACTCC-ATTGAAATGAAGAGATATCACTATTC
1542603 TCAATATCGC
Statistics
Matches: 202, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
130 86 0.43
131 116 0.57
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (130 bp):
GAGAGAAAATGATAATATAAAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCA
GTCATTTATTACTCCATTGAAATGAAGAGATATCACTATTCCATATTAAAAATCAATATCAATTC
Found at i:1545946 original size:22 final size:22
Alignment explanation
Indices: 1545918--1546018 Score: 120
Period size: 22 Copynumber: 4.8 Consensus size: 22
1545908 GAGGGTTTAT
1545918 AGTGGTCCTTCGGGACATATCC
1 AGTGGTCCTTCGGGACATATCC
** **
1545940 AGTGGTCCTTCGAAATGTATCC
1 AGTGGTCCTTCGGGACATATCC
1545962 AGTGGTCCTTCGGGACATATCC
1 AGTGGTCCTTCGGGACATATCC
* *
1545984 AGTGGTCCTTAGGGACGTA---
1 AGTGGTCCTTCGGGACATATCC
1546003 A-TGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
1546019 AATATTCACT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
18 13 0.19
19 1 0.01
22 53 0.79
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.28
Consensus pattern (22 bp):
AGTGGTCCTTCGGGACATATCC
Found at i:1547517 original size:133 final size:133
Alignment explanation
Indices: 1547080--1547937 Score: 869
Period size: 133 Copynumber: 6.4 Consensus size: 133
1547070 TTCAGGGTTG
* * * * *
1547080 ATCAGAT-TAAGAAATGTTTA-TTCATTTCACTGTTCTTCAGGGAAGATTAAATCGATGTAGACT
1 ATCAGATCT-AGAAATGTTGACTT-ATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACT
* * * * * *
1547143 TGTTCCATTGTTGCTCAAGGAAGATCAAATCTTGAAAACAAGGGATATGTTCTAC-TT-CTTTTT
64 TGTTCCACTGTTCCTCAGGGAATATCAAATCTGGAAAA-AAGGGATATGTT-T-CGTTGCTTCTT
*
1547206 GAGAGAAA
126 GAGGGAAA
* * ** * * * * *
1547214 ATCAGATATGGGGACGTTGA-TTCATTCCACTATTTTTCAGGGACA-ATTAAATCGAGGCATACT
1 ATCAGATCTAGAAATGTTGACTT-ATTCCACTGTTCTTCAGGGA-AGATTGAATCGAGGCAGACT
* * * * *
1547277 TGTTCAACTATTACTCAGGGAATATCAAATCT-TAAAAGAGAGGGATATGTTCCGCTT-CTTCTT
64 TGTTCCACTGTTCCTCAGGGAATATCAAATCTGGAAAA-A-AGGGATATGTTTCG-TTGCTTCTT
1547340 GAGGGAAA
126 GAGGGAAA
* ** *
1547348 ATCAGATCTGGAAATGTTGA-TTCATTATACTGTTCTTCAGGGAAGATTGAATTGAGGCAGACTT
1 ATCAGATCTAGAAATGTTGACTT-ATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTT
*** * *
1547412 GTTCTGTTGTTCCTCAGGGAATATCAAATCTGGAAAAAAGGGAAATATTTCGTTGCTTCTTGAGG
65 GTTCCACTGTTCCTCAGGGAATATCAAATCTGGAAAAAAGGGATATGTTTCGTTGCTTCTTGAGG
1547477 GAAA
130 GAAA
* * * *
1547481 ATCAGATTTGGAAATGTTGACTTATTCCACTATTCTTCAAGGAAGATTGAATCGAGGCAGACTTG
1 ATCAGATCTAGAAATGTTGACTTATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTG
** * * * * *
1547546 TTCCACTGTTCCTCATAGAAGATCAAATCTGGAAAAAAGTGGGATCTGTTCCGCTGCTTCTTAAG
66 TTCCACTGTTCCTCAGGGAATATCAAATCTGGAAAAAA--GGGATATGTTTCGTTGCTTCTTGAG
1547611 GGAAA
129 GGAAA
** * *
1547616 ATCAGATCTAGAAATGTTGACTCGTTCCACTATTCTTCAGGGAAGATTGAATCGAGGCAAACTTG
1 ATCAGATCTAGAAATGTTGACTTATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTG
* * *
1547681 TTCCACTGTTCCTCAGGGAATATCAAATTTGGAGAAAAA-GGATAAG-TTCCTCTGCTTCTTG-G
66 TTCCACTGTTCCTCAGGGAATATCAAATCTGGA-AAAAAGGGATATGTTTCGT-TGCTTCTTGAG
*
1547743 GAAAAA
129 G-GAAA
* * * * *
1547749 ATCAAATCTAGAAATTTTGACTCATTCCACTGTTCTTTAGGGAAGATTGAATCGAGGCATACTTG
1 ATCAGATCTAGAAATGTTGACTTATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTG
* ** * * *
1547814 TTCCACTGTTCCTCAGGGAA-AGTCAAATCTGAAAAAAAAAGATATGTTTTGCTACTTCTTGAGG
66 TTCCACTGTTCCTCAGGGAATA-TCAAATCTGGAAAAAAGGGATATGTTTCGTTGCTTCTTGAGG
1547878 GAAA
130 GAAA
* *
1547882 ATCAGATCTAGAAATGTTGACTCATTCCACTGTTCTTCAGGGAATATTGAATCGAG
1 ATCAGATCTAGAAATGTTGACTTATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
1547938 TTTGATTCGT
Statistics
Matches: 610, Mismatches: 96, Indels: 37
0.82 0.13 0.05
Matches are distributed among these distances:
132 13 0.02
133 291 0.48
134 183 0.30
135 118 0.19
136 5 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (133 bp):
ATCAGATCTAGAAATGTTGACTTATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTG
TTCCACTGTTCCTCAGGGAATATCAAATCTGGAAAAAAGGGATATGTTTCGTTGCTTCTTGAGGG
AAA
Found at i:1547598 original size:268 final size:265
Alignment explanation
Indices: 1547080--1547937 Score: 985
Period size: 268 Copynumber: 3.2 Consensus size: 265
1547070 TTCAGGGTTG
* * * * * *
1547080 ATCAGAT-TAAGAAATGTTTATTCATTTCACTGTTCTTCAGGGAAGATTAAATCGATGTAGACTT
1 ATCAGATCT-AGAAATGTTGACTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTT
* * * * * *
1547144 GTTCCATTGTTGCTCAAGGAAGATCAAATCTTGAAAACAAGGGATATGTTCTACTT-CTTTTTGA
65 GTTCCATTGTTCCTCAGGGAATATCAAATCTGGAAAA-AAGGGATATATT-T-CTTGCTTCTTGA
* ** * * *
1547208 GAGAAAATCAGATATGGGGACGTTGA-TTCATTCCACTATTTTTCAGGGACA-ATTAAATCGAGG
127 GGGAAAATCAGATATGGAAATGTTGACTT-ATTCCACTATTCTTCAGGGA-AGATTGAATCGAGG
* * * * * *
1547271 CATACTTGTTCAACTATTACTCAGGGAATATCAAATCTTAAAAGAGAGGGATATGTTCCGCTTCT
190 CATACTTGTTCCACTGTTCCTCAGGGAA-ATCAAATCTGAAAAAAGAGGGATATGTTCCGCTACT
1547336 TCTTGAGGGAAA
254 TCTTGAGGGAAA
* * ** *
1547348 ATCAGATCTGGAAATGTTGATTCATTATACTGTTCTTCAGGGAAGATTGAATTGAGGCAGACTTG
1 ATCAGATCTAGAAATGTTGACTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTG
** *
1547413 TTCTGTTGTTCCTCAGGGAATATCAAATCTGGAAAAAAGGGAAATATTTCGTTGCTTCTTGAGGG
66 TTCCATTGTTCCTCAGGGAATATCAAATCTGGAAAAAAGGGATATATTTC-TTGCTTCTTGAGGG
* * *
1547478 AAAATCAGATTTGGAAATGTTGACTTATTCCACTATTCTTCAAGGAAGATTGAATCGAGGCAGAC
130 AAAATCAGATATGGAAATGTTGACTTATTCCACTATTCTTCAGGGAAGATTGAATCGAGGCATAC
** * * *
1547543 TTGTTCCACTGTTCCTCATAGAAGATCAAATCTGGAAAAAAGTGGGATCTGTTCCGCTGCTTCTT
195 TTGTTCCACTGTTCCTCAGGGAA-ATCAAATCT-GAAAAAAGAGGGATATGTTCCGCTACTTCTT
*
1547608 AAGGGAAA
258 GAGGGAAA
* * *
1547616 ATCAGATCTAGAAATGTTGACTCGTTCCACTATTCTTCAGGGAAGATTGAATCGAGGCAAACTTG
1 ATCAGATCTAGAAATGTTGACTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTG
* * *
1547681 TTCCACTGTTCCTCAGGGAATATCAAATTTGGAGAAAAA-GGATA-AGTTCCTCTGCTTCTTG-G
66 TTCCATTGTTCCTCAGGGAATATCAAATCTGGA-AAAAAGGGATATA-TTTCT-TGCTTCTTGAG
* * * * * * * *
1547743 GAAAAAATCAAATCTAGAAATTTTGACTCATTCCACTGTTCTTTAGGGAAGATTGAATCGAGGCA
128 G-GAAAATCAGATATGGAAATGTTGACTTATTCCACTATTCTTCAGGGAAGATTGAATCGAGGCA
** **
1547808 TACTTGTTCCACTGTTCCTCAGGGAAAGTCAAATCTGAAAAAA-AAAGATATGTTTTGCTACTTC
192 TACTTGTTCCACTGTTCCTCAGGGAAA-TCAAATCTGAAAAAAGAGGGATATGTTCCGCTACTTC
1547872 TTGAGGGAAA
256 TTGAGGGAAA
*
1547882 ATCAGATCTAGAAATGTTGACTCATTCCACTGTTCTTCAGGGAATATTGAATCGAG
1 ATCAGATCTAGAAATGTTGACTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
1547938 TTTGATTCGT
Statistics
Matches: 504, Mismatches: 75, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
265 1 0.00
266 80 0.16
267 110 0.22
268 307 0.61
269 6 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (265 bp):
ATCAGATCTAGAAATGTTGACTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTG
TTCCATTGTTCCTCAGGGAATATCAAATCTGGAAAAAAGGGATATATTTCTTGCTTCTTGAGGGA
AAATCAGATATGGAAATGTTGACTTATTCCACTATTCTTCAGGGAAGATTGAATCGAGGCATACT
TGTTCCACTGTTCCTCAGGGAAATCAAATCTGAAAAAAGAGGGATATGTTCCGCTACTTCTTGAG
GGAAA
Found at i:1547826 original size:401 final size:401
Alignment explanation
Indices: 1547080--1547937 Score: 1025
Period size: 401 Copynumber: 2.1 Consensus size: 401
1547070 TTCAGGGTTG
* * * * * *
1547080 ATCAGATTAAGAAATGTTTA-TTCATTTCACTGTTCTTCAGGGAAGATTAAATCGATGTAGACTT
1 ATCAGATTTAGAAATGTTGACTT-ATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTT
* * * * * * *
1547144 GTTCCATTGTTGCTCAAGGAAGATCAAATCTTGAAAACAAGGGATATGTTCTACTTCTTTTTGAG
65 GTTCCACTGTTCCTCAAGGAAGATCAAATCTGGAAAACAAGGGATATGTTCCACTGCTTCTTAAG
* ** * * *
1547209 AGAAAATCAGATATGGGGACGTTGATTCATTCCACTATTTTTCAGGGACAATTAAATCGAGGCAT
130 AGAAAATCAGATATAGAAACGTTGACTCATTCCACTATTCTTCAGGGACAATTAAATCGAGGCAA
* *
1547274 ACTTGTTCAACTATTACTCAGGGAATATCAAATCTTAAAAGAGAGGGATATGTTCCGCTTCTTCT
195 ACTTGTTCAACTATTACTCAGGGAATATCAAATCTTAAAAGAGAGGGATAAGTTCCGCTGCTTCT
* * * * * *
1547339 TGAGGGAAAATCAGATCTGGAAATGTTGATTCATTATACTGTTCTTCAGGGAAGATTGAATTGAG
260 TGAGGAAAAATCAAATCTAGAAATGTTGACTCATTACACTGTTCTTCAGGGAAGATTGAATCGAG
*** * ** * *
1547404 GCAGACTTGTTCTGTTGTTCCTCAGGGAATA-TCAAATCTGGAAAAAAGGGAAATATTTCGTTGC
325 GCAGACTTGTTCCACTGTTCCTCAGGGAA-AGTCAAATCTGAAAAAAAAAGAAATATTTCGCTAC
1547468 TTCTTGAGGGAAA
389 TTCTTGAGGGAAA
* * *
1547481 ATCAGATTTGGAAATGTTGACTTATTCCACTATTCTTCAAGGAAGATTGAATCGAGGCAGACTTG
1 ATCAGATTTAGAAATGTTGACTTATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTG
* *
1547546 TTCCACTGTTCCTCATA-GAAGATCAAATCTGGAAAA-AAGTGGGATCTGTTCCGCTGCTTCTTA
66 TTCCACTGTTCCTCA-AGGAAGATCAAATCTGGAAAACAA--GGGATATGTTCCACTGCTTCTTA
* * * * *
1547609 AGGGAAAATCAGATCTAGAAATGTTGACTCGTTCCACTATTCTTCAGGGA-AGATTGAATCGAGG
128 AGAGAAAATCAGATATAGAAACGTTGACTCATTCCACTATTCTTCAGGGACA-ATTAAATCGAGG
* * * *
1547673 CAAACTTGTTCCACTGTTCCTCAGGGAATATCAAAT-TTGGAGAAA-A-A-GGATAAGTTCCTCT
192 CAAACTTGTTCAACTATTACTCAGGGAATATCAAATCTT--A-AAAGAGAGGGATAAGTTCCGCT
* * *
1547734 GCTTCTTG-GGAAAAAATCAAATCTAGAAATTTTGACTCATTCCACTGTTCTTTAGGGAAGATTG
254 GCTTCTTGAGG-AAAAATCAAATCTAGAAATGTTGACTCATTACACTGTTCTTCAGGGAAGATTG
* * *
1547798 AATCGAGGCATACTTGTTCCACTGTTCCTCAGGGAAAGTCAAATCTGAAAAAAAAAGATATGTTT
318 AATCGAGGCAGACTTGTTCCACTGTTCCTCAGGGAAAGTCAAATCTGAAAAAAAAAGAAATATTT
*
1547863 TGCTACTTCTTGAGGGAAA
383 CGCTACTTCTTGAGGGAAA
* * *
1547882 ATCAGATCTAGAAATGTTGACTCATTCCACTGTTCTTCAGGGAATATTGAATCGAG
1 ATCAGATTTAGAAATGTTGACTTATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
1547938 TTTGATTCGT
Statistics
Matches: 385, Mismatches: 62, Indels: 20
0.82 0.13 0.04
Matches are distributed among these distances:
400 5 0.01
401 270 0.70
402 105 0.27
403 2 0.01
404 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (401 bp):
ATCAGATTTAGAAATGTTGACTTATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTG
TTCCACTGTTCCTCAAGGAAGATCAAATCTGGAAAACAAGGGATATGTTCCACTGCTTCTTAAGA
GAAAATCAGATATAGAAACGTTGACTCATTCCACTATTCTTCAGGGACAATTAAATCGAGGCAAA
CTTGTTCAACTATTACTCAGGGAATATCAAATCTTAAAAGAGAGGGATAAGTTCCGCTGCTTCTT
GAGGAAAAATCAAATCTAGAAATGTTGACTCATTACACTGTTCTTCAGGGAAGATTGAATCGAGG
CAGACTTGTTCCACTGTTCCTCAGGGAAAGTCAAATCTGAAAAAAAAAGAAATATTTCGCTACTT
CTTGAGGGAAA
Found at i:1554820 original size:131 final size:131
Alignment explanation
Indices: 1554574--1554940 Score: 436
Period size: 131 Copynumber: 2.8 Consensus size: 131
1554564 ACAATTTTAA
* *
1554574 AAGAGAAAATGATAATATCTAATTATTTCC-AATCGAGAATAAATGACCTTTCATGCCTTAAAAC
1 AAGAGAAAATGATAATATCTAATTATTTCCAAAT-GAGAATAAATGACCTCTCATGCCTTAAAGC
* * * ** * * *
1554638 AGTCATTTGTTACTCCGATTGAAATGAAGAGATATCACTATTTCGTATTAAAATTCAATATCGAT
65 AGTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATCCCATATTAAAAATCAATATCAAT
1554703 TC
130 TC
* * * * *
1554705 GAGTGAAAATGATAATATCTAATGATTTCCAAATGAGAATAAATGACATCTCATACCTTAAAGCA
1 AAGAGAAAATGATAATATCTAATTATTTCCAAATGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * *
1554770 GTCATTTATTGCTCCAATCGAAATGAAGAGATATCACTATCCCATCTTAAAAATCAATATTAATT
66 GTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATCCCATATTAAAAATCAATATCAATT
1554835 C
131 C
* * *
1554836 AAGAGAGAATGATAATAT-TGAATTATTTCCAATTGAGAATAAAAT-ACCTCTCATGCCTTAGAG
1 AAGAGAAAATGATAATATCT-AATTATTTCCAAATGAGAAT-AAATGACCTCTCATGCCTTAAAG
* * * * *
1554899 CAATCCTTAATTACTCCAA-CTGAAATGAAAAGATATTACTAT
64 CAGTCATTTATTACTCCAATC-GAAATGAAGAGATATCACTAT
1554941 TCTTAATATC
Statistics
Matches: 200, Mismatches: 32, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
130 2 0.01
131 191 0.95
132 7 0.04
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (131 bp):
AAGAGAAAATGATAATATCTAATTATTTCCAAATGAGAATAAATGACCTCTCATGCCTTAAAGCA
GTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATCCCATATTAAAAATCAATATCAATT
C
Found at i:1556319 original size:110 final size:110
Alignment explanation
Indices: 1556126--1556352 Score: 411
Period size: 110 Copynumber: 2.1 Consensus size: 110
1556116 ACTATAAAAG
*
1556126 TCGACCCATTCACTAGTCGTTTGGCTGCATCCAGTCACCGCCGTCAGGGACGTCGCGCCTCCACC
1 TCGACCCATTCACTAGTCGTTTGGCTGCATCCAGTCACCGCCGTCAGGGACGCCGCGCCTCCACC
1556191 GTCGTCGGTGGCTTTTAGATACCAAATTTTACCCGAAGAT-TCGCC
66 GTCGTCGGTGGCTTTTAGATACCAAATTTTACCCGAAGATCT-GCC
*
1556236 TCGACCCATTCGCTAGTCGTTTGGCTGCATCCAGTCACCGCCGTCAGGGACGCCGCGCCTCCACC
1 TCGACCCATTCACTAGTCGTTTGGCTGCATCCAGTCACCGCCGTCAGGGACGCCGCGCCTCCACC
*
1556301 GTCGTCGGTGGCTTTTAGATACCAAATTTTACCTGAAGATCTGCC
66 GTCGTCGGTGGCTTTTAGATACCAAATTTTACCCGAAGATCTGCC
1556346 TCGACCC
1 TCGACCC
1556353 TCTCGTTTTA
Statistics
Matches: 113, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
110 112 0.99
111 1 0.01
ACGTcount: A:0.18, C:0.34, G:0.23, T:0.25
Consensus pattern (110 bp):
TCGACCCATTCACTAGTCGTTTGGCTGCATCCAGTCACCGCCGTCAGGGACGCCGCGCCTCCACC
GTCGTCGGTGGCTTTTAGATACCAAATTTTACCCGAAGATCTGCC
Found at i:1557196 original size:3 final size:3
Alignment explanation
Indices: 1557190--1557214 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1557180 TATGATGATG
1557190 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
1557215 CATAACGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1558911 original size:13 final size:12
Alignment explanation
Indices: 1558881--1558931 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
1558871 TTAATTATTG
1558881 TTAATGTTTTAT-
1 TTAAT-TTTTATA
1558893 TT-ATTTTTAGTA
1 TTAATTTTTA-TA
*
1558905 TTAATTTTTATT
1 TTAATTTTTATA
*
1558917 TTAATTTCTATA
1 TTAATTTTTATA
1558929 TTA
1 TTA
1558932 TTTATTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 5 0.15
11 3 0.09
12 18 0.55
13 7 0.21
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (12 bp):
TTAATTTTTATA
Found at i:1558930 original size:24 final size:24
Alignment explanation
Indices: 1558881--1558931 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
1558871 TTAATTATTG
*
1558881 TTAATGTTTTATTTATTTTTAGTA
1 TTAATGTTTTATTTATTTCTAGTA
1558905 TTAAT-TTTTATTTTAATTTCTA-TA
1 TTAATGTTTTA-TTT-ATTTCTAGTA
1558929 TTA
1 TTA
1558932 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 13 0.54
25 6 0.25
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (24 bp):
TTAATGTTTTATTTATTTCTAGTA
Found at i:1561023 original size:24 final size:23
Alignment explanation
Indices: 1560968--1561023 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
1560958 TGTTTATTAA
1560968 TATTTTTATTATTTAATTGTTTG
1 TATTTTTATTATTTAATTGTTTG
* * *
1560991 AATTTTTTATTATTTAGTTGTTTT
1 TA-TTTTTATTATTTAATTGTTTG
1561015 TATTATTTA
1 TATT-TTTA
1561024 ATTTCTTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (23 bp):
TATTTTTATTATTTAATTGTTTG
Found at i:1565042 original size:15 final size:15
Alignment explanation
Indices: 1565024--1565055 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1565014 GATTTCATCT
1565024 TCCCGAATTTCTCCA
1 TCCCGAATTTCTCCA
1565039 TCCCGAATTTCTCCA
1 TCCCGAATTTCTCCA
1565054 TC
1 TC
1565056 ATAGTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.41, G:0.06, T:0.34
Consensus pattern (15 bp):
TCCCGAATTTCTCCA
Found at i:1568425 original size:18 final size:18
Alignment explanation
Indices: 1568405--1568440 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
1568395 CTGTATATTT
1568405 AAAATTATTATATATTTTA
1 AAAATT-TTATATATTTTA
1568424 AAAATTTTATATATTTT
1 AAAATTTTATATATTTT
1568441 TATTGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAAATTTTATATATTTTA
Found at i:1576653 original size:2 final size:2
Alignment explanation
Indices: 1576646--1576678 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1576636 ATAAAACATG
1576646 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1576679 GTTTAGATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1577525 original size:15 final size:15
Alignment explanation
Indices: 1577505--1577533 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1577495 GTTATATGAG
1577505 CTATGTGATAAGAAA
1 CTATGTGATAAGAAA
1577520 CTATGTGATAAGAA
1 CTATGTGATAAGAA
1577534 GCTACGAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (15 bp):
CTATGTGATAAGAAA
Found at i:1583584 original size:14 final size:14
Alignment explanation
Indices: 1583555--1583594 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
1583545 AAAATGAGGA
*
1583555 GCAATGCAATGATAG
1 GCAAGGCAA-GATAG
*
1583570 GCAAGGTAAGATAG
1 GCAAGGCAAGATAG
1583584 GCAAGGCAAGA
1 GCAAGGCAAGA
1583595 CAGGTCAGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.42, C:0.12, G:0.33, T:0.12
Consensus pattern (14 bp):
GCAAGGCAAGATAG
Found at i:1586868 original size:18 final size:17
Alignment explanation
Indices: 1586841--1586882 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
1586831 CACCTCCACC
1586841 GAAAATTTGAATTCTAT
1 GAAAATTTGAATTCTAT
1586858 GAAATATTTGAATTCTAT
1 GAAA-ATTTGAATTCTAT
*
1586876 CAAAATT
1 GAAAATT
1586883 ATCAATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (17 bp):
GAAAATTTGAATTCTAT
Found at i:1590458 original size:13 final size:13
Alignment explanation
Indices: 1590440--1590495 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
1590430 AAAACTCAAA
1590440 AAAT-AATAAGAAT
1 AAATAAATAA-AAT
1590453 AAATAAATAAAAT
1 AAATAAATAAAAT
1590466 AAATGAAATAATAA-
1 AAAT-AAATAA-AAT
1590480 AAATATAA-AAAAT
1 AAATA-AATAAAAT
1590493 AAA
1 AAA
1590496 ATAATGATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.05
13 17 0.45
14 17 0.45
15 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:1590476 original size:18 final size:18
Alignment explanation
Indices: 1590453--1590508 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 18
1590443 TAATAAGAAT
1590453 AAATAAATAAAATAAATG
1 AAATAAATAAAATAAATG
*
1590471 AAAT-AATAAAA-ATAT-
1 AAATAAATAAAATAAATG
1590486 AAA-AAATAAAAT-AATG
1 AAATAAATAAAATAAATG
*
1590502 ATATAAA
1 AAATAAA
1590509 ATATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
15 12 0.39
16 5 0.16
17 10 0.32
18 4 0.13
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAATAAATAAAATAAATG
Found at i:1590478 original size:31 final size:31
Alignment explanation
Indices: 1590440--1590507 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
1590430 AAAACTCAAA
* *
1590440 AAATAATAAGAATA-AATAAATAAAATAAATG
1 AAATAATAAAAATATAAAAAATAAAAT-AATG
1590471 AAATAATAAAAATATAAAAAATAAAATAATG
1 AAATAATAAAAATATAAAAAATAAAATAATG
*
1590502 ATATAA
1 AAATAA
1590508 AATATATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 22 0.67
32 11 0.33
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (31 bp):
AAATAATAAAAATATAAAAAATAAAATAATG
Found at i:1590509 original size:27 final size:32
Alignment explanation
Indices: 1590451--1590515 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
1590441 AATAATAAGA
1590451 ATAAATAAATAAAATAAATGAAATAATAAAAAT
1 ATAAATAAATAAAATAAATG-AATAATAAAAAT
1590484 ATAAA-AAATAAAAT-AATG-AT-ATAAAATAT
1 ATAAATAAATAAAATAAATGAATAATAAAA-AT
1590513 ATA
1 ATA
1590516 TATATGCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
28 6 0.19
29 7 0.23
31 4 0.13
32 9 0.29
33 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (32 bp):
ATAAATAAATAAAATAAATGAATAATAAAAAT
Found at i:1593259 original size:22 final size:21
Alignment explanation
Indices: 1593226--1593272 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
1593216 TTTCTTTTTA
*
1593226 TTTTTCTCTTTCTTTTTTCTC
1 TTTTTCTCTTTCCTTTTTCTC
* *
1593247 TTTTTCCTTTTTCCTTTTTGTC
1 TTTTT-CTCTTTCCTTTTTCTC
1593269 TTTT
1 TTTT
1593273 CTTTCTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTCTCTTTCCTTTTTCTC
Found at i:1593272 original size:15 final size:15
Alignment explanation
Indices: 1593226--1593265 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
1593216 TTTCTTTTTA
*
1593226 TTTTTCTC--TTTCT
1 TTTTTCTCTTTTTCC
1593239 TTTTTCTCTTTTTCC
1 TTTTTCTCTTTTTCC
1593254 TTTTTC-CTTTTT
1 TTTTTCTCTTTTT
1593266 GTCTTTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 6 0.25
15 10 0.42
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTCTCTTTTTCC
Found at i:1595485 original size:188 final size:190
Alignment explanation
Indices: 1595147--1595515 Score: 656
Period size: 188 Copynumber: 1.9 Consensus size: 190
1595137 TGTACTTTAG
1595147 TGGATCTAACTTGGAGATCAACCAAGTGGTGTGATACAGCATGTATTGTCTGAGTCTTCGTATAG
1 TGGATCTAACTTGGAGATCAACCAAGTGGTGTGATACAGCATGTATTGTCTGAGTCTTCGTATAG
* *
1595212 CCCAGACTAAAGCAAAGAAAACCTTTTAGATGGGAGATATCTGACCTCGTAATCGTGAACGTCTT
66 CCCAGACTAAAGCAAAGAAAACCTTTTAGATAGGAGATATCTAACCTCGTAATCGTGAACGTCTT
1595277 GCTCAAGTAATAACGATGGTCTTTTCATTC-TCCAGA-TCATAATGTTGAGATGGTCTTA
131 GCTCAAGTAATAACGATGGTCTTTTCATTCTTCCAGATTCATAATGTTGAGATGGTCTTA
1595335 TGGATCTAACTTGGAGATCAACCAAGTGGTGTGATACAGCATGTATTGTCTGAGTCTTCGTATAG
1 TGGATCTAACTTGGAGATCAACCAAGTGGTGTGATACAGCATGTATTGTCTGAGTCTTCGTATAG
1595400 CCCAGACTAAAGCAAAGAAAACCTTTTAGATAGGAGGATATCTAACCTCGTAATCGGTGAACGTC
66 CCCAGACTAAAGCAAAGAAAACCTTTTAGATAGGA-GATATCTAACCTCGTAATC-GTGAACGTC
*
1595465 TTGCTCAAGTAAT-A-GATGGTCTTTTCATTCTTTCCAGATTCATCATGTTGA
129 TTGCTCAAGTAATAACGATGGTCTTTTCATTC-TTCCAGATTCATAATGTTGA
1595516 CCCATGACAC
Statistics
Matches: 173, Mismatches: 3, Indels: 7
0.95 0.02 0.04
Matches are distributed among these distances:
188 115 0.66
189 19 0.11
190 28 0.16
191 11 0.06
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (190 bp):
TGGATCTAACTTGGAGATCAACCAAGTGGTGTGATACAGCATGTATTGTCTGAGTCTTCGTATAG
CCCAGACTAAAGCAAAGAAAACCTTTTAGATAGGAGATATCTAACCTCGTAATCGTGAACGTCTT
GCTCAAGTAATAACGATGGTCTTTTCATTCTTCCAGATTCATAATGTTGAGATGGTCTTA
Found at i:1601217 original size:8 final size:8
Alignment explanation
Indices: 1601204--1601236 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
1601194 TTTAATTTCA
1601204 AAAATTTT
1 AAAATTTT
1601212 AAAATTTT
1 AAAATTTT
1601220 GAAAATTTT
1 -AAAATTTT
1601229 AAAATTTT
1 AAAATTTT
1601237 GTAAAATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (8 bp):
AAAATTTT
Found at i:1601217 original size:17 final size:17
Alignment explanation
Indices: 1601197--1601235 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
1601187 CATTTTTTTT
1601197 AATTTCAAAAATTTTAA
1 AATTTCAAAAATTTTAA
**
1601214 AATTTTGAAAATTTTAA
1 AATTTCAAAAATTTTAA
1601231 AATTT
1 AATTT
1601236 TGTAAAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
AATTTCAAAAATTTTAA
Found at i:1601236 original size:17 final size:18
Alignment explanation
Indices: 1601204--1601244 Score: 75
Period size: 17 Copynumber: 2.3 Consensus size: 18
1601194 TTTAATTTCA
1601204 AAAATTTTAAAATTTTG-
1 AAAATTTTAAAATTTTGT
1601221 AAAATTTTAAAATTTTGT
1 AAAATTTTAAAATTTTGT
1601239 AAAATT
1 AAAATT
1601245 CTTGTGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (18 bp):
AAAATTTTAAAATTTTGT
Found at i:1601308 original size:20 final size:20
Alignment explanation
Indices: 1601283--1601322 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1601273 ATCTAGTTTC
1601283 TAATCATTAAACAATCAATG
1 TAATCATTAAACAATCAATG
1601303 TAATCATTAAACAATCAATG
1 TAATCATTAAACAATCAATG
1601323 CCCGATCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.30
Consensus pattern (20 bp):
TAATCATTAAACAATCAATG
Found at i:1601691 original size:20 final size:20
Alignment explanation
Indices: 1601613--1601693 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
1601603 CAGAACCCCA
* *
1601613 GGGGGTATCGATTCCC-CGT
1 GGGGGGATCGATTCCCTCAT
* *
1601632 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGG-ATCGATT-CCC-TCAT
* *
1601655 GGGGGAATCGGTTCCCTCAT
1 GGGGGGATCGATTCCCTCAT
1601675 GGGGGGATCGATTCCCTCA
1 GGGGGGATCGATTCCCTCA
1601694 CAAAAATGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
19 5 0.10
20 26 0.52
21 6 0.12
22 7 0.14
23 6 0.12
ACGTcount: A:0.15, C:0.26, G:0.36, T:0.23
Consensus pattern (20 bp):
GGGGGGATCGATTCCCTCAT
Found at i:1606051 original size:14 final size:13
Alignment explanation
Indices: 1606032--1606086 Score: 71
Period size: 14 Copynumber: 4.3 Consensus size: 13
1606022 CGTTCGTGAA
1606032 CGTTCGGTTATGTT
1 CGTTC-GTTATGTT
1606046 CGTTCGTTATGTT
1 CGTTCGTTATGTT
1606059 CG-T--TTATGTT
1 CGTTCGTTATGTT
1606069 CGTTCGGTTATGTT
1 CGTTC-GTTATGTT
1606083 CGTT
1 CGTT
1606087 TATGTTCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
12 1 0.03
13 10 0.27
14 16 0.43
ACGTcount: A:0.07, C:0.15, G:0.25, T:0.53
Consensus pattern (13 bp):
CGTTCGTTATGTT
Found at i:1606106 original size:24 final size:23
Alignment explanation
Indices: 1606033--1606093 Score: 104
Period size: 24 Copynumber: 2.6 Consensus size: 23
1606023 GTTCGTGAAC
*
1606033 GTTCGGTTATGTTCGTTCGTTAT
1 GTTCGTTTATGTTCGTTCGTTAT
1606056 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTC-GTTAT
1606080 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
1606094 ATTCATTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 17 0.47
24 19 0.53
ACGTcount: A:0.08, C:0.13, G:0.25, T:0.54
Consensus pattern (23 bp):
GTTCGTTTATGTTCGTTCGTTAT
Found at i:1607114 original size:10 final size:10
Alignment explanation
Indices: 1607099--1607198 Score: 76
Period size: 10 Copynumber: 10.7 Consensus size: 10
1607089 GGGTCTCTAA
1607099 CGTTTATGTT
1 CGTTTATGTT
1607109 CGTTTATGTT
1 CGTTTATGTT
1607119 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* *
1607130 ATGTTCAT-TT
1 -CGTTTATGTT
1607140 CGTTTATGTT
1 CGTTTATGTT
1607150 CG----TGTT
1 CGTTTATGTT
*
1607156 CGTTTGTGTT
1 CGTTTATGTT
1607166 CGTTTATGTT
1 CGTTTATGTT
1607176 C----ATGTT
1 CGTTTATGTT
1607182 CGTTTATGTT
1 CGTTTATGTT
1607192 CGTTTAT
1 CGTTTAT
1607199 TTATTAATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 24
0.72 0.05 0.24
Matches are distributed among these distances:
6 12 0.16
9 5 0.07
10 47 0.64
11 5 0.07
12 4 0.05
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.58
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:1607130 original size:16 final size:16
Alignment explanation
Indices: 1607105--1607194 Score: 104
Period size: 16 Copynumber: 6.1 Consensus size: 16
1607095 CTAACGTTTA
1607105 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
* *
1607121 TGTTCATTTATGTTCA
1 TGTTCGTTTATGTTCG
1607137 T-TTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1607152 TGTTCG----T-TT-G
1 TGTTCGTTTATGTTCG
*
1607162 TGTTCGTTTATGTTCA
1 TGTTCGTTTATGTTCG
1607178 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1607194 T
1 T
1607195 TTATTTATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
10 7 0.11
11 2 0.03
12 1 0.02
14 1 0.02
15 15 0.25
16 35 0.57
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1607145 original size:31 final size:31
Alignment explanation
Indices: 1607107--1607184 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
1607097 AACGTTTATG
1607107 TTCGTTTATGTTCGTGTTCATTTATGTTCAT
1 TTCGTTTATGTTCGTGTTCATTTATGTTCAT
* * *
1607138 TTCGTTTATGTTCGTGTTCGTTTGTGTTCGT
1 TTCGTTTATGTTCGTGTTCATTTATGTTCAT
* *
1607169 TTATGTTCATGTTCGT
1 TT-CGTTTATGTTCGT
1607185 TTATGTTCGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 30 0.73
32 11 0.27
ACGTcount: A:0.09, C:0.13, G:0.21, T:0.58
Consensus pattern (31 bp):
TTCGTTTATGTTCGTGTTCATTTATGTTCAT
Found at i:1607168 original size:26 final size:26
Alignment explanation
Indices: 1607099--1607198 Score: 128
Period size: 26 Copynumber: 3.7 Consensus size: 26
1607089 GGGTCTCTAA
1607099 CGTTTATGTTCGTTTATGTTCGTGTT
1 CGTTTATGTTCGTTTATGTTCGTGTT
*
1607125 CATTTATGTTCATTTCGTTTATGTTCGTGTT
1 CGTTTATG-----TTCGTTTATGTTCGTGTT
* *
1607156 CGTTTGTGTTCGTTTATGTTCATGTT
1 CGTTTATGTTCGTTTATGTTCGTGTT
1607182 CGTTTATGTTCGTTTAT
1 CGTTTATGTTCGTTTAT
1607199 TTATTAATGA
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
26 40 0.62
31 24 0.38
ACGTcount: A:0.10, C:0.12, G:0.20, T:0.58
Consensus pattern (26 bp):
CGTTTATGTTCGTTTATGTTCGTGTT
Found at i:1607288 original size:16 final size:15
Alignment explanation
Indices: 1607261--1607292 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
1607251 AAAAAAATTT
1607261 TGTTCGTTATGTTCG
1 TGTTCGTTATGTTCG
1607276 TGTTCGTTTATGTTCG
1 TGTTCG-TTATGTTCG
1607292 T
1 T
1607293 TTATTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (15 bp):
TGTTCGTTATGTTCG
Found at i:1614514 original size:22 final size:22
Alignment explanation
Indices: 1614486--1614529 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1614476 AAAATAAAAT
* *
1614486 AATAAAACAAAGATGAAATGAA
1 AATAAAAAAAACATGAAATGAA
*
1614508 AATAAAAAAAACATGGAATGAA
1 AATAAAAAAAACATGAAATGAA
1614530 CTAAAATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.68, C:0.05, G:0.14, T:0.14
Consensus pattern (22 bp):
AATAAAAAAAACATGAAATGAA
Found at i:1614674 original size:2 final size:2
Alignment explanation
Indices: 1614667--1614696 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1614657 AGGAAAAATA
1614667 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1614697 TTGCATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1614820 original size:16 final size:16
Alignment explanation
Indices: 1614774--1614820 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1614764 TAATAAGAAT
1614774 AAATAAATGAAATAATA
1 AAAT-AATGAAATAATA
*
1614791 AAA-ATATAAAATAATA
1 AAATA-ATGAAATAATA
*
1614807 AAATAATGATATAA
1 AAATAATGAAATAA
1614821 ATATATATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.04
16 20 0.80
17 4 0.16
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (16 bp):
AAATAATGAAATAATA
Found at i:1624230 original size:36 final size:36
Alignment explanation
Indices: 1624186--1624424 Score: 333
Period size: 36 Copynumber: 6.5 Consensus size: 36
1624176 CGAAAATATA
1624186 TATATAATATATAGTTTTTAAAACATTTTGAAAACT
1 TATATAATATATAGTTTTTAAAACATTTTGAAAACT
* *
1624222 TATTTAATATATAGTTTTT-AAACATTTTTTAAAACT
1 TATATAATATATAGTTTTTAAAACA-TTTTGAAAACT
1624258 TATATAATATATAGTTTTTAAAACATTTTGAAAA-T
1 TATATAATATATAGTTTTTAAAACATTTTGAAAACT
*
1624293 ATATATAATATATAGTTTTTTAAAACATTTTGAAAATATAT
1 -TATATAATATATAG-TTTTTAAAACATTTTG-AAA-A-CT
1624334 ATATATAATATATAGTTTTT-AAACATTTTGAAAAACT
1 -TATATAATATATAGTTTTTAAAACATTTTG-AAAACT
*
1624371 TATATAATATATAGTTTTTAAAA-ATTTTGAAAACA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAACT
*
1624406 TATATAATATATAATTTTT
1 TATATAATATATAGTTTTT
1624425 TATGTAGGTT
Statistics
Matches: 187, Mismatches: 7, Indels: 19
0.88 0.03 0.09
Matches are distributed among these distances:
35 29 0.16
36 93 0.50
37 25 0.13
38 4 0.02
39 15 0.08
40 5 0.03
41 16 0.09
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAACT
Found at i:1624293 original size:27 final size:25
Alignment explanation
Indices: 1624247--1624297 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1624237 TTTTAAACAT
*
1624247 TTTTTAAAACTTATATAATATATAG
1 TTTTTAAAACTTATAAAATATATAG
*
1624272 TTTTTAAAACATTTTGAAAATATATA
1 TTTTTAAAAC-TTAT-AAAATATATA
1624298 TAATATATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (25 bp):
TTTTTAAAACTTATAAAATATATAG
Found at i:1624426 original size:149 final size:151
Alignment explanation
Indices: 1624156--1624424 Score: 424
Period size: 149 Copynumber: 1.8 Consensus size: 151
1624146 TTTTTTTTGT
1624156 GTTTTTTAAAAATCAGTTTTCGAAAATATATATATAATATATAGTTTTTAAAACATTTTGAAAAC
1 GTTTTTTAAAAATCAGTTTTCGAAAATATATATATAATATATAGTTTTTAAAACATTTTGAAAAC
* * * *
1624221 TTATTTAATATATAGTTTTTAAACATTTTTTAAAACTTATATAATATATAGTTTTTAAAACATTT
66 TTATATAATATATAGTTTTTAAACAATTTTGAAAACATATATAATATATAGTTTTTAAAACATTT
1624286 TGAAAATATATATAATATATA
131 TGAAAATATATATAATATATA
1624307 GTTTTTT-AAAA-CA-TTTT-GAAAATATATATATATAATATATAGTTTTT-AAACATTTTGAAA
1 GTTTTTTAAAAATCAGTTTTCG-AAA-ATATATATATAATATATAGTTTTTAAAACATTTTG-AA
*
1624367 AACTTATATAATATATAGTTTTTAAA-AATTTTGAAAACATATATAATATATAATTTTT
63 AACTTATATAATATATAGTTTTTAAACAATTTTGAAAACATATATAATATATAGTTTTT
1624425 TATGTAGGTT
Statistics
Matches: 110, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
147 1 0.01
148 45 0.41
149 53 0.48
150 4 0.04
151 7 0.06
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.46
Consensus pattern (151 bp):
GTTTTTTAAAAATCAGTTTTCGAAAATATATATATAATATATAGTTTTTAAAACATTTTGAAAAC
TTATATAATATATAGTTTTTAAACAATTTTGAAAACATATATAATATATAGTTTTTAAAACATTT
TGAAAATATATATAATATATA
Found at i:1624458 original size:113 final size:113
Alignment explanation
Indices: 1624185--1624426 Score: 388
Period size: 113 Copynumber: 2.2 Consensus size: 113
1624175 TCGAAAATAT
* *
1624185 ATATATAATATAT-AGTTTTTAAAACATTTTGAAAA-CT-TAT-T-TAATATATAGTTTTTAAAC
1 ATATATAATATATAATTTTTTAAAACATTTTGAAAATATATATATATAATATATAGTTTTTAAAC
** *
1624245 ATTTTTTAAAACTTATATAATATATAGTTTTTAAAACATTTTGAAAAT
66 ATTTTGAAAAACTTATATAATATATAGTTTTTAAAACATTTTGAAAAC
*
1624293 ATATATAATATATAGTTTTTTAAAACATTTTGAAAATATATATATATAATATATAGTTTTTAAAC
1 ATATATAATATATAATTTTTTAAAACATTTTGAAAATATATATATATAATATATAGTTTTTAAAC
1624358 ATTTTGAAAAACTTATATAATATATAGTTTTTAAAA-ATTTTGAAAAC
66 ATTTTGAAAAACTTATATAATATATAGTTTTTAAAACATTTTGAAAAC
1624405 ATATATAATATATAATTTTTTA
1 ATATATAATATATAATTTTTTA
1624427 TGTAGGTTTT
Statistics
Matches: 122, Mismatches: 7, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
108 13 0.11
109 20 0.16
110 1 0.01
111 3 0.02
112 32 0.26
113 53 0.43
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (113 bp):
ATATATAATATATAATTTTTTAAAACATTTTGAAAATATATATATATAATATATAGTTTTTAAAC
ATTTTGAAAAACTTATATAATATATAGTTTTTAAAACATTTTGAAAAC
Found at i:1624491 original size:7 final size:7
Alignment explanation
Indices: 1624479--1624530 Score: 59
Period size: 7 Copynumber: 6.9 Consensus size: 7
1624469 ATATATTTCC
1624479 TTTTTTA
1 TTTTTTA
1624486 TTTTTTTA
1 -TTTTTTA
1624494 TTTTTTA
1 TTTTTTA
*
1624501 TTTTCTATT
1 TTTT-T-TA
1624510 TTTATTTA
1 TTT-TTTA
1624518 TTTTTTA
1 TTTTTTA
1624525 TTTTTT
1 TTTTTT
1624531 CTGTTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
7 21 0.54
8 12 0.31
9 5 0.13
10 1 0.03
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:1624517 original size:17 final size:17
Alignment explanation
Indices: 1624497--1624529 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1624487 TTTTTTATTT
1624497 TTTATTTTCTATTTTTA
1 TTTATTTTCTATTTTTA
*
1624514 TTTATTTTTTATTTTT
1 TTTATTTTCTATTTTT
1624530 TCTGTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTATTTTCTATTTTTA
Found at i:1626474 original size:14 final size:16
Alignment explanation
Indices: 1626455--1626500 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
1626445 TTTGTAAATA
1626455 ATAATATTA-ATA-AT
1 ATAATATTATATATAT
1626469 ATAATATTATTATATAT
1 ATAATATTA-TATATAT
*
1626486 ATAATAGTATATATA
1 ATAATATTATATATA
1626501 AAATTGTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 9 0.32
16 9 0.32
17 10 0.36
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
ATAATATTATATATAT
Found at i:1627224 original size:119 final size:119
Alignment explanation
Indices: 1627013--1627633 Score: 735
Period size: 119 Copynumber: 5.0 Consensus size: 119
1627003 CTCGAAAGAC
* *
1627013 TTACAGATGACCCGAAGGATTTAAAAATTACCCGGAGGCTTTAATTTTCTAGAACATTAAATGAG
1 TTACAGATGACCCGAAGGTTTTAAAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGAG
* * * * *
1627078 AAACTTTGAAAATCGCTTTTTCATTTTCATGTGAAAACATCATACCCTGAGGTT
66 AAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCT
* * *
1627132 TTACAGATGACCCGAAGGATTTAAAAATTACCTGGAGGCTTTAATTTTCTAGAACATTAAATGAG
1 TTACAGATGACCCGAAGGTTTTAAAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGAG
1627197 AAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCT
66 AAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCT
* ** **
1627251 TTACAGATGACCC-AGAGGTTTTAAAAATTACCCGGAGGATTTACAAATGACCCGAAGGCTTTAA
1 TTACAGATGACCCGA-AGGTTTTAAAAATTACCCGGAGGATTT--AATTTTCTAGAA--C----A
*
1627315 TTTTCTAGAACATTAAATGAGAAGCTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTA
57 ---T-T--AA------ATGAGAAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTA
1627380 CCCTGAGGCT
110 CCCTGAGGCT
* * * * * *
1627390 TTACAAATGACCCCG-AGGTTTTTACAAATTATCCGAAGGATTTAATTTTTTAGAACATTAAAAG
1 TTACAGATGA-CCCGAAGG-TTTTAAAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATG
* *
1627454 AGAAACTTTGAAAATCGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTT
64 AGAAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCT
* * *
1627510 TTATAGATGACCC-AGAGGTTTTACAAATCACCCGGAGGATTTAATTTTCTAGAACATTAAATGA
1 TTACAGATGACCCGA-AGGTTTTAAAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGA
* * *
1627574 GAAACTTTAAAAATTACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGAT
65 GAAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCT
1627629 TTACA
1 TTACA
1627634 AATTTGTGGA
Statistics
Matches: 435, Mismatches: 41, Indels: 52
0.82 0.08 0.10
Matches are distributed among these distances:
118 1 0.00
119 249 0.57
120 66 0.15
121 7 0.02
123 1 0.00
126 2 0.00
127 1 0.00
128 1 0.00
129 1 0.00
130 1 0.00
131 1 0.00
132 1 0.00
133 2 0.00
136 1 0.00
138 6 0.01
139 70 0.16
140 24 0.06
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (119 bp):
TTACAGATGACCCGAAGGTTTTAAAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGAG
AAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCT
Found at i:1627268 original size:20 final size:19
Alignment explanation
Indices: 1627240--1627313 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
1627230 AAAACATCCT
*
1627240 ACCCTGAGGCTTTACAGATG
1 ACCC-GAGGCTTTACAAATG
* * *
1627260 ACCCAGAGGTTTTAAAAATT
1 ACCC-GAGGCTTTACAAATG
*
1627280 ACCCGGAGGATTTACAAATG
1 ACCC-GAGGCTTTACAAATG
1627300 ACCCGAAGGCTTTA
1 ACCCG-AGGCTTTA
1627314 ATTTTCTAGA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 1 0.02
20 42 0.98
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (19 bp):
ACCCGAGGCTTTACAAATG
Found at i:1627314 original size:40 final size:40
Alignment explanation
Indices: 1627239--1627314 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
1627229 GAAAACATCC
* * * *
1627239 TACCCTGAGGCTTTACAGATGACCCAGAGGTTTTAAAAAT
1 TACCCGGAGGATTTACAAATGACCCAGAGGCTTTAAAAAT
1627279 TACCCGGAGGATTTACAAATGACCC-GAAGGCTTTAA
1 TACCCGGAGGATTTACAAATGACCCAG-AGGCTTTAA
1627315 TTTTCTAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.03
40 30 0.97
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (40 bp):
TACCCGGAGGATTTACAAATGACCCAGAGGCTTTAAAAAT
Found at i:1627376 original size:139 final size:139
Alignment explanation
Indices: 1627121--1627434 Score: 502
Period size: 139 Copynumber: 2.3 Consensus size: 139
1627111 AAAACATCAT
* * * * * *
1627121 ACCCTGAGGTTTTACAGATGACCCGAAGGATTTAAAAATTACCTGGAGGCTTTAATTTTCTAGAA
1 ACCCAGAGGTTTTACAAATTACCCGAAGGATTTAAAAATGACCCGAAGGCTTTAATTTTCTAGAA
1627186 CATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCT
66 CATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCT
*
1627251 TTACAGATG
131 TTACAAATG
* * *
1627260 ACCCAGAGGTTTTAAAAATTACCCGGAGGATTTACAAATGACCCGAAGGCTTTAATTTTCTAGAA
1 ACCCAGAGGTTTTACAAATTACCCGAAGGATTTAAAAATGACCCGAAGGCTTTAATTTTCTAGAA
*
1627325 CATTAAATGAGAAGCTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCT
66 CATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCT
1627390 TTACAAATG
131 TTACAAATG
* *
1627399 ACCCCGAGGTTTTTACAAATTATCCGAAGGATTTAA
1 ACCCAGAGG-TTTTACAAATTACCCGAAGGATTTAA
1627435 TTTTTTAGAA
Statistics
Matches: 158, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
139 136 0.86
140 22 0.14
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (139 bp):
ACCCAGAGGTTTTACAAATTACCCGAAGGATTTAAAAATGACCCGAAGGCTTTAATTTTCTAGAA
CATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCT
TTACAAATG
Found at i:1627407 original size:20 final size:21
Alignment explanation
Indices: 1627379--1627418 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1627369 AAAACATCCT
*
1627379 ACCCTGAGG-CTTTACAAATG
1 ACCCCGAGGTCTTTACAAATG
*
1627399 ACCCCGAGGTTTTTACAAAT
1 ACCCCGAGGTCTTTACAAAT
1627419 TATCCGAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (21 bp):
ACCCCGAGGTCTTTACAAATG
Found at i:1627525 original size:259 final size:258
Alignment explanation
Indices: 1627022--1627553 Score: 825
Period size: 259 Copynumber: 2.1 Consensus size: 258
1627012 CTTACAGATG
* * *
1627022 ACCCGAAGGATTTAAAAATTACCCGGAGGCTTTAATTTTCTAGAACATTAAATGAGAAACTTTGA
1 ACCCGGAGGATTTAAAAATGACCCGAAGGCTTTAATTTTCTAGAACATTAAATGAGAAACTTTGA
* * * *
1627087 AAATCGCTTTTTCATTTTCATGTGAAAACATCATACCCTGAGGTTTTACAGATGACCCGAAGGAT
66 AAATCGCTTTCTCATTTTCATGCGAAAACATCATACCCTGAGGCTTTACAAATGACCCGAAGGAT
* * * *
1627152 TTAAAAATTACCTGGAGGCTTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATTGCTTTC
131 TTAAAAATTACCTGAAGGATTTAATTTTCTAGAACATTAAAAGAGAAACTTTGAAAATCGCTTTC
*
1627217 TCATTTTCATGCGAAAACATCCTACCCTGAGGCTTTACAGATGACCCAGAGGTTTTAAAAATT
196 TCATTTTCATGCGAAAACATCCTACCCTGAGGCTTTACAGATGACCCAGAGGTTTTAAAAATC
* *
1627280 ACCCGGAGGATTTACAAATGACCCGAAGGCTTTAATTTTCTAGAACATTAAATGAGAAGCTTTGA
1 ACCCGGAGGATTTAAAAATGACCCGAAGGCTTTAATTTTCTAGAACATTAAATGAGAAACTTTGA
* *
1627345 AAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCTTTACAAATGACCCCG-AGGT
66 AAATCGCTTTCTCATTTTCATGCGAAAACATCATACCCTGAGGCTTTACAAATGA-CCCGAAGG-
* * *
1627409 TTTTACAAATTATCC-GAAGGATTTAATTTTTTAGAACATTAAAAGAGAAACTTTGAAAATCGCT
129 ATTTAAAAATTA-CCTGAAGGATTTAATTTTCTAGAACATTAAAAGAGAAACTTTGAAAATCGCT
* * *
1627473 TTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATAGATGACCCAGAGGTTTTACAAAT
193 TTCTCATTTTCATGCGAAAACATCCTACCCTGAGGCTTTACAGATGACCCAGAGGTTTTAAAAAT
1627538 C
258 C
1627539 ACCCGGAGGATTTAA
1 ACCCGGAGGATTTAA
1627554 TTTTCTAGAA
Statistics
Matches: 248, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
258 112 0.45
259 134 0.54
260 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (258 bp):
ACCCGGAGGATTTAAAAATGACCCGAAGGCTTTAATTTTCTAGAACATTAAATGAGAAACTTTGA
AAATCGCTTTCTCATTTTCATGCGAAAACATCATACCCTGAGGCTTTACAAATGACCCGAAGGAT
TTAAAAATTACCTGAAGGATTTAATTTTCTAGAACATTAAAAGAGAAACTTTGAAAATCGCTTTC
TCATTTTCATGCGAAAACATCCTACCCTGAGGCTTTACAGATGACCCAGAGGTTTTAAAAATC
Found at i:1627542 original size:20 final size:20
Alignment explanation
Indices: 1627499--1627552 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
1627489 AAAACATCCT
* * * *
1627499 ACCCTGAGGTTTTATAGATG
1 ACCCAGAGGTTTTACAAATC
1627519 ACCCAGAGGTTTTACAAATC
1 ACCCAGAGGTTTTACAAATC
* *
1627539 ACCCGGAGGATTTA
1 ACCCAGAGGTTTTA
1627553 ATTTTCTAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (20 bp):
ACCCAGAGGTTTTACAAATC
Found at i:1628251 original size:20 final size:21
Alignment explanation
Indices: 1628211--1628254 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1628201 AAAGCTTTCG
1628211 TCTTTGAAAAGTGAATATATCA
1 TCTTTGAAAAG-GAATATATCA
*
1628233 TCTTTGAAAA-GAATCTATCA
1 TCTTTGAAAAGGAATATATCA
1628253 TC
1 TC
1628255 CTTGCAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (21 bp):
TCTTTGAAAAGGAATATATCA
Found at i:1628432 original size:57 final size:56
Alignment explanation
Indices: 1628345--1628455 Score: 168
Period size: 57 Copynumber: 2.0 Consensus size: 56
1628335 TTGAAACACA
* * *
1628345 TCATAAGAATGATTTATCCTAATTTCTTTCATGTCTCCACATCTAATCAGATCTCT
1 TCATAAGAAGGATTTATCCTAATTTATTTCATGCCTCCACATCTAATCAGATCTCT
**
1628401 TCATAAGAAGGATTTTATCCTAATTTATTTCATGCCTTTACATCTAATCAGATCT
1 TCATAAGAAGGA-TTTATCCTAATTTATTTCATGCCTCCACATCTAATCAGATCT
1628456 TGAACAAGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 11 0.22
57 38 0.78
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (56 bp):
TCATAAGAAGGATTTATCCTAATTTATTTCATGCCTCCACATCTAATCAGATCTCT
Found at i:1635948 original size:14 final size:16
Alignment explanation
Indices: 1635929--1635974 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
1635919 TTTGTAAATA
1635929 ATAATATTA-ATA-AT
1 ATAATATTATATATAT
1635943 ATAATATTATTATATAT
1 ATAATATTA-TATATAT
*
1635960 ATAATATCATATATA
1 ATAATATTATATATA
1635975 AAATCTTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 9 0.32
16 9 0.32
17 10 0.36
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATATTATATATAT
Found at i:1637200 original size:20 final size:19
Alignment explanation
Indices: 1637161--1637217 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
1637151 TTATTTTCCC
1637161 CTTATTTGATTTTTTATTTA
1 CTTATTT-ATTTTTTATTTA
*
1637181 CTTATTTATTTTTCTTTTTA
1 CTTATTTATTTTT-TATTTA
* * *
1637201 TTTAATTAATTTTTATT
1 CTTATTTATTTTTTATT
1637218 CAATATTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 9 0.29
20 22 0.71
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (19 bp):
CTTATTTATTTTTTATTTA
Found at i:1638328 original size:59 final size:59
Alignment explanation
Indices: 1638241--1638370 Score: 136
Period size: 59 Copynumber: 2.2 Consensus size: 59
1638231 ATTTTAGGGT
* *
1638241 AAAGTATACATATGATCTCTAGACTATAAAACGTT-ATTTTATTGAGTCAATCGATTATTA
1 AAAGT-TACAAATGATCACTAGACTATAAAACGTTGA-TTTATTGAGTCAATCGATTATTA
* * ** * ** *
1638301 AAAGTTACAAATGATCACTTGATTATAAAGTGTTGATTTGTTGAGTCCCTCGATTTTTA
1 AAAGTTACAAATGATCACTAGACTATAAAACGTTGATTTATTGAGTCAATCGATTATTA
*
1638360 AAAATTACAAA
1 AAAGTTACAAA
1638371 ATGGTCTCTC
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 52 0.90
60 6 0.10
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (59 bp):
AAAGTTACAAATGATCACTAGACTATAAAACGTTGATTTATTGAGTCAATCGATTATTA
Found at i:1639453 original size:37 final size:37
Alignment explanation
Indices: 1639377--1639453 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
1639367 TTTTTATATT
*
1639377 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
1639414 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
1639451 TTT
1 TTT
1639454 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:1639967 original size:31 final size:31
Alignment explanation
Indices: 1639932--1639999 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
1639922 TCATATGATC
*
1639932 ATAAAATAAATATTATATTTATTAAA-TACTT
1 ATAAAATAAATATTAAATTTATTAAACTA-TT
** *
1639963 ATAAAATATTTTTTAAATTTATTAAACTATT
1 ATAAAATAAATATTAAATTTATTAAACTATT
1639994 ATAAAA
1 ATAAAA
1640000 CATGTCATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
ATAAAATAAATATTAAATTTATTAAACTATT
Found at i:1640030 original size:20 final size:21
Alignment explanation
Indices: 1640007--1640046 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1639997 AAACATGTCA
1640007 TAAAATCATTAAACT-TTATT
1 TAAAATCATTAAACTATTATT
* *
1640027 TAAATTTATTAAACTATTAT
1 TAAAATCATTAAACTATTAT
1640047 AAAACATGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAAATCATTAAACTATTATT
Found at i:1640032 original size:51 final size:51
Alignment explanation
Indices: 1639974--1640084 Score: 222
Period size: 51 Copynumber: 2.2 Consensus size: 51
1639964 TAAAATATTT
1639974 TTTAAATTTATTAAACTATTATAAAACATGTCATAAAATCATTAAACTTTA
1 TTTAAATTTATTAAACTATTATAAAACATGTCATAAAATCATTAAACTTTA
1640025 TTTAAATTTATTAAACTATTATAAAACATGTCATAAAATCATTAAACTTTA
1 TTTAAATTTATTAAACTATTATAAAACATGTCATAAAATCATTAAACTTTA
1640076 TTTAAATTT
1 TTTAAATTT
1640085 TCACATTGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (51 bp):
TTTAAATTTATTAAACTATTATAAAACATGTCATAAAATCATTAAACTTTA
Found at i:1644163 original size:13 final size:13
Alignment explanation
Indices: 1644145--1644174 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1644135 TAATATTAAA
1644145 ATTATAAAAATAT
1 ATTATAAAAATAT
*
1644158 ATTATAAAATTAT
1 ATTATAAAAATAT
1644171 ATTA
1 ATTA
1644175 AAGTTTGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATTATAAAAATAT
Found at i:1644740 original size:165 final size:170
Alignment explanation
Indices: 1644456--1644789 Score: 534
Period size: 165 Copynumber: 2.0 Consensus size: 170
1644446 ATCTAGTTTT
1644456 AGTATATTCCCAAATTGTTTTATGGTTCATATTCAAACAAATTCTTCCACCCATCCATCCATGCA
1 AGTATATTCCCAAATTGTTTTATGGTTCATATTCAAACAAATTCTTCCACCCATCCAT-CA-GCA
* *
1644521 TGCCTGCCTACATACATACATAAGAAATTTCAATATAGCATTTCAAGTTTATGGTCAAACACAAC
64 TGCATGCCTACATACATACATAAGAAATTTCAATATAGCAATTCAAGTTTATGGTCAAACACAAC
*
1644586 AGCA-TAGACAGACCCAATCTAACAC-TTGCACCCAAGTCCA
129 AGCACAAGACAGACCCAATCTAACACTTTGCACCCAAGTCCA
* *
1644626 AGTATATTCCCAAATTGTTTTATGGTTCATATTCAAACAATTTCTTCCA-GCATCCAT-A-CATG
1 AGTATATTCCCAAATTGTTTTATGGTTCATATTCAAACAAATTCTTCCACCCATCCATCAGCATG
* * *
1644688 CATGCCTACATACATACATAAGAAATTTCGATATATCAATTCAAGTTTATGGTCAAACACAGCAG
66 CATGCCTACATACATACATAAGAAATTTCAATATAGCAATTCAAGTTTATGGTCAAACACAACAG
*
1644753 CACAAGACAGACCCGATCTAACACTTTGCACCCAAGT
131 CACAAGACAGACCCAATCTAACACTTTGCACCCAAGT
1644790 AAACACGAGA
Statistics
Matches: 153, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
165 66 0.43
166 19 0.12
167 13 0.08
169 7 0.05
170 48 0.31
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (170 bp):
AGTATATTCCCAAATTGTTTTATGGTTCATATTCAAACAAATTCTTCCACCCATCCATCAGCATG
CATGCCTACATACATACATAAGAAATTTCAATATAGCAATTCAAGTTTATGGTCAAACACAACAG
CACAAGACAGACCCAATCTAACACTTTGCACCCAAGTCCA
Found at i:1645424 original size:31 final size:31
Alignment explanation
Indices: 1645386--1645446 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
1645376 TATTGGGATG
1645386 TTACAAAAT-GATCCTTATA-CTTATCAAATTA
1 TTACAAAATAG-TCCTT-TACCTTATCAAATTA
1645417 TTACAAAATAGTCCTTTACCTTATCAAATT
1 TTACAAAATAGTCCTTTACCTTATCAAATT
1645447 TTATTGTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 2 0.07
31 25 0.89
32 1 0.04
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (31 bp):
TTACAAAATAGTCCTTTACCTTATCAAATTA
Found at i:1646311 original size:2 final size:2
Alignment explanation
Indices: 1646304--1646347 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1646294 ATTAGGGTTC
1646304 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1646346 AT
1 AT
1646348 GGAAGAGAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1653925 original size:31 final size:34
Alignment explanation
Indices: 1653890--1653967 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 34
1653880 AAATATATAA
* *
1653890 AAAAAGAAAGAAAAAATAG-AAA-A-AGGAAAAG
1 AAAAAGAAAGAAAAAAGAGAAAAGATAGAAAAAG
* *
1653921 AAAAAAAAAAAAAAAAGAGAAAAGATAGAAAAAG
1 AAAAAGAAAGAAAAAAGAGAAAAGATAGAAAAAG
1653955 AAAAAGGAAAGAA
1 AAAAA-GAAAGAA
1653968 GATAAGAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
31 16 0.43
32 3 0.08
33 1 0.03
34 12 0.32
35 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (34 bp):
AAAAAGAAAGAAAAAAGAGAAAAGATAGAAAAAG
Found at i:1653966 original size:45 final size:47
Alignment explanation
Indices: 1653888--1654014 Score: 133
Period size: 45 Copynumber: 2.8 Consensus size: 47
1653878 AAAAATATAT
1653888 AAAAAA-AG-AAAGA-A-AAAATAGAAAAAGGAAAAGAAAAAAAAAA
1 AAAAAAGAGAAAAGATAGAAAATAGAAAAAGGAAAAGAAAAAAAAAA
* * *
1653931 AAAAAAGAGAAAAGATAGAAAA-AGAAAAAGG-AAAGAAGATAAGAA
1 AAAAAAGAGAAAAGATAGAAAATAGAAAAAGGAAAAGAAAAAAAAAA
* * *
1653976 AGATAAGAGAAAATATAGAATAATA-AGAAAAGGAAAAGA
1 AAAAAAGAGAAAAGATAGAA-AATAGA-AAAAGGAAAAGA
1654015 GGAAAACGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 33 0.47
46 13 0.19
47 11 0.16
48 5 0.07
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (47 bp):
AAAAAAGAGAAAAGATAGAAAATAGAAAAAGGAAAAGAAAAAAAAAA
Found at i:1653969 original size:24 final size:24
Alignment explanation
Indices: 1653902--1653976 Score: 68
Period size: 24 Copynumber: 3.1 Consensus size: 24
1653892 AAAGAAAGAA
1653902 AAAATAGAAAAAGGAAAAGAA-A-A-
1 AAAA-AGAAAAAGG-AAAGAAGATAG
* *
1653925 AAAAAAAAAAAAGAGAA-AAGATAG
1 AAAAAGAAAAAGGA-AAGAAGATAG
1653949 AAAAAGAAAAAGGAAAGAAGATAAG
1 AAAAAGAAAAAGGAAAGAAGAT-AG
1653974 AAA
1 AAA
1653977 GATAAGAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 3 0.07
22 10 0.24
23 7 0.17
24 17 0.40
25 5 0.12
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (24 bp):
AAAAAGAAAAAGGAAAGAAGATAG
Found at i:1653974 original size:29 final size:28
Alignment explanation
Indices: 1653890--1653988 Score: 83
Period size: 30 Copynumber: 3.4 Consensus size: 28
1653880 AAATATATAA
1653890 AAAAAGAAAGAAAAAATAGA-AAAAGGAAAAG
1 AAAAAGAAA-AAAAAA-AGAGAAAA-G-AAAG
* *
1653921 AAAAAAAAAAAAAAAAGAGAAAAGATAG
1 AAAAAGAAAAAAAAAAGAGAAAAGAAAG
** *
1653949 AAAAAGAAAAAGGAAAGAAGATAAGAAAG
1 AAAAAGAAAAAAAAAAG-AGAAAAGAAAG
*
1653978 ATAAGAGAAAA
1 A-AAAAGAAAA
1653989 TATAGAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
28 17 0.30
29 14 0.25
30 18 0.32
31 8 0.14
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (28 bp):
AAAAAGAAAAAAAAAAGAGAAAAGAAAG
Found at i:1653978 original size:40 final size:38
Alignment explanation
Indices: 1653888--1653978 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 38
1653878 AAAAATATAT
*
1653888 AAAAAAAGAAAGAAAAAATAGAAAAAGGAAAAGAAAAA
1 AAAAAAAGAAAGAAAAAATAGAAAAAGAAAAAGAAAAA
* * *
1653926 AAAAAAAAAAAGAGAAAAGATAGAAAAAGAAAAAGGAAAG
1 AAAAAAAGAAAGA-AAAA-ATAGAAAAAGAAAAAGAAAAA
* *
1653966 AAGATAAGAAAGA
1 AAAAAAAGAAAGA
1653979 TAAGAGAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 12 0.27
39 4 0.09
40 28 0.64
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (38 bp):
AAAAAAAGAAAGAAAAAATAGAAAAAGAAAAAGAAAAA
Found at i:1656459 original size:15 final size:15
Alignment explanation
Indices: 1656439--1656471 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1656429 CATGGATTTG
*
1656439 CATCATTTCATCATA
1 CATCATTTCAACATA
1656454 CATCATTTCAACATA
1 CATCATTTCAACATA
1656469 CAT
1 CAT
1656472 AATTCTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (15 bp):
CATCATTTCAACATA
Found at i:1660021 original size:134 final size:134
Alignment explanation
Indices: 1659745--1660317 Score: 710
Period size: 134 Copynumber: 4.3 Consensus size: 134
1659735 AGATCGAGAA
* * *
1659745 ATGTTGATTCATTCCACTGTTCTTTAGGGAAGATTGAATCGAGGTAGACTTGTTACACTGTTAC-
1 ATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACT
* * * * * *
1659809 C-TGTAATATCAAATCTTGAAAGACATGGATATGTTCCGCTTATTCTTGAGGGAAAATCAGATAT
66 CAGGGAATATCAAATATTGAAAGAGAGGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATAT
1659873 GGGG
131 GGGG
* * * *
1659877 AT-ATGTATTCATTCTACTGTTCTTTAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTTAC
1 ATGTTG-ATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTAC
* * * *
1659941 TCAGGGAATATCAAATATTGAAAGAGAGAGATATGTTTCTCTTCTTCTTGAGGGAAAATCAGATC
65 TCAGGGAATATCAAATATTGAAAGAGAGGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATA
1660006 TGGGG
130 TGGGG
* ** * * * *
1660011 ACGTTGATTCATTCCACCATTATTCAGGGAAGATTGAATCGAAGCAGAATTGTTCCATTGTTACT
1 ATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACT
* * * * *
1660076 CAAGAAATATTAAATCTTGAAAGAGAGGGATATGTAT--GCTTCTTCTTGAGGGAAAATCAGATC
66 CAGGGAATATCAAATATTGAAAGAGAGGGATATGT-TCCGCTTCTTCTTGAGGGAAAATCAGATA
1660139 TGGGG
130 TGGGG
* * * * *
1660144 ATGTTGATTCATTCCATTGTTAC-TCAGGGAAGATTGAATCGTGGCAGACTTGTTCCGCTATTAT
1 ATGTTGATTCATTCCACTGTT-CTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTAC
* * * *
1660208 TCTGGGAATATCAAATA-TGAAAAGATAGGGATATGTTCCACTTCTTCTTGAGGGAAAATCAAAT
65 TCAGGGAATATCAAATATTG-AAAGAGAGGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGAT
1660272 ATGGGG
129 ATGGGG
*
1660278 ATGTTGATTCATTCCACTGTTCTCCAGGGAAGATTGAATC
1 ATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATC
1660318 AAGTTCGATT
Statistics
Matches: 377, Mismatches: 54, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
131 2 0.01
132 60 0.16
133 110 0.29
134 202 0.54
135 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (134 bp):
ATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACT
CAGGGAATATCAAATATTGAAAGAGAGGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATAT
GGGG
Found at i:1660217 original size:267 final size:265
Alignment explanation
Indices: 1659747--1660317 Score: 745
Period size: 267 Copynumber: 2.1 Consensus size: 265
1659737 ATCGAGAAAT
* * * * *
1659747 GTTGATTCATTCCACTGTTCTTTAGGGAAGATTGAATCGAGGTAGACTTGTTACACTGTTACCTG
1 GTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAAGCAGAATTGTTACACTGTTACCAG
* *
1659812 TAATATCAAATCTTGAAAGACATGGATATGTTCCGCTTATTCTTGAGGGAAAATCAGATATGGGG
66 AAATATCAAATCTTGAAAGACAGGGATATGTT-CGCTTATTCTTGAGGGAAAATCAGATATGGGG
* * *
1659877 ATATGTATTCATTCTACTGTTCTTTAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTGTTACT
130 ATATGTATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTATTACT
* * * *
1659942 CAGGGAATATCAAATATTG-AAAGAGAGAGATATGTTTCTCTTCTTCTTGAGGGAAAATCAGATC
195 CAGGGAATATCAAATA-TGAAAAGAGAGAGATATGTTCCACTTCTTCTTGAGGGAAAATCAAATA
1660006 TGGGGAC
259 TGGGGAC
** * * *
1660013 GTTGATTCATTCCACCATTATTCAGGGAAGATTGAATCGAAGCAGAATTGTTCCATTGTTACTCA
1 GTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAAGCAGAATTGTTACACTGTTAC-C-
* * * *
1660078 AGAAATATTAAATCTTGAAAGAGAGGGATATGTAT-GCTTCTTCTTGAGGGAAAATCAGATCTGG
64 AGAAATATCAAATCTTGAAAGACAGGGATATGT-TCGCTTATTCTTGAGGGAAAATCAGATATGG
* * * * *
1660142 GGATGT-TGATTCATTCCATTGTTAC-TCAGGGAAGATTGAATCGTGGCAGACTTGTTCCGCTAT
128 GGATATGT-ATTCATTCCACTGTT-CTTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTAT
* * * *
1660205 TATTCTGGGAATATCAAATATGAAAAGATAGGGATATGTTCCACTTCTTCTTGAGGGAAAATCAA
191 TACTCAGGGAATATCAAATATGAAAAGAGAGAGATATGTTCCACTTCTTCTTGAGGGAAAATCAA
*
1660270 ATATGGGGAT
256 ATATGGGGAC
*
1660280 GTTGATTCATTCCACTGTTCTCCAGGGAAGATTGAATC
1 GTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATC
1660318 AAGTTCGATT
Statistics
Matches: 262, Mismatches: 37, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
266 56 0.21
267 176 0.67
268 29 0.11
269 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (265 bp):
GTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAAGCAGAATTGTTACACTGTTACCAG
AAATATCAAATCTTGAAAGACAGGGATATGTTCGCTTATTCTTGAGGGAAAATCAGATATGGGGA
TATGTATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGAAGACTTGTTCCACTATTACTC
AGGGAATATCAAATATGAAAAGAGAGAGATATGTTCCACTTCTTCTTGAGGGAAAATCAAATATG
GGGAC
Found at i:1662023 original size:23 final size:23
Alignment explanation
Indices: 1661996--1662064 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 23
1661986 TGATTTATTT
1661996 TCTTTATCTTTCTTTCTTTTTCC
1 TCTTTATCTTTCTTTCTTTTTCC
* * *
1662019 TCTTTTTCTTT-TCTTCTTATTCT
1 TCTTTATCTTTCT-TTCTTTTTCC
* *
1662042 TCTATATTTTCTCTTTTCTTTTT
1 TCTTTATCTT-TC-TTTCTTTTT
1662065 ATATCTTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
22 1 0.03
23 25 0.71
24 1 0.03
25 7 0.20
26 1 0.03
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (23 bp):
TCTTTATCTTTCTTTCTTTTTCC
Found at i:1662057 original size:28 final size:29
Alignment explanation
Indices: 1662021--1662082 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
1662011 CTTTTTCCTC
1662021 TTTTTCTTTTCTTCTTAT-TC-TTCTATA
1 TTTTTCTTTTCTTCTTATATCTTTCTATA
* *
1662048 TTTTCTCTTTTCTTTTTATATCTTTTTATA
1 TTTT-TCTTTTCTTCTTATATCTTTCTATA
1662078 TTTTT
1 TTTTT
1662083 TATGAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.13
28 13 0.43
29 3 0.10
30 10 0.33
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (29 bp):
TTTTTCTTTTCTTCTTATATCTTTCTATA
Found at i:1668929 original size:3 final size:3
Alignment explanation
Indices: 1668921--1668962 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
1668911 GCCTGTAAGA
* *
1668921 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAA AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1668963 CCGAGCGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1669431 original size:132 final size:133
Alignment explanation
Indices: 1669017--1669587 Score: 699
Period size: 133 Copynumber: 4.3 Consensus size: 133
1669007 GAAAATCGAT
* * * *
1669017 CTCGATTCAATCTTCCCTGAAAAATAGTAGAATGAATCAACATCCCCAGATCTGATTTTCCCTTA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
* * * *
1669082 AGAAGAAGCGGAACAAATCCTCTATTTTC-AGATTTGATAGTCCCTGAGTAACAGCGGAACAAGT
66 AGAAGAAGCAGAACATATCCTCTA-TTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
1669146 CTGC
130 CTGC
* * * * *
1669150 CTCGATTCAATCTTTCCTG-AGTAACAGTGGAATGAATCAACGTCCTCATATATGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTC
* * *
1669214 AAGAAGAAGCAG-ACATATCACTCTCTTTCAAGATTTAATATT-CTTGGAGTAACAGTGGAACAA
65 AAGAAGAAGCAGAACATATC-CTCTATTTCAAGATTTGATATTCCCT-GAGTAACAGTGGAACAA
*
1669277 GTATGC
128 GTCTGC
*
1669283 CTCGATTCAATCTTCCCT-AAGTAACAGTGGAATGAATCAACATCCTCAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTC
*
1669347 AAGAAG-AGC-GAACATATCCCTCTATTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAG
65 AAGAAGAAGCAGAACATAT-CCTCTATTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
*
1669410 TCTTC
129 TCTGC
* * * * *
1669415 CTCGATTCAATATTCCCTAAAGAACAGTGGAATCAATCAACATCCCCATATCTAATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
* * * * * * *
1669480 AAAAGATGCAAAACATATCCTCTCTTTCAAGATTTGATATTACCTGGGTAACA-TGGAATAAGTC
66 AGAAGAAGCAGAACATATCCTCTATTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
*
1669544 TAC
131 TGC
* * * *
1669547 CTCAATTCAATATTCCTTGAAGAACAGTGAAATGAATCAAC
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAC
1669588 GTTTCTCAGT
Statistics
Matches: 381, Mismatches: 46, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
131 1 0.00
132 170 0.45
133 203 0.53
134 7 0.02
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (133 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
AGAAGAAGCAGAACATATCCTCTATTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
TGC
Found at i:1669505 original size:265 final size:265
Alignment explanation
Indices: 1669017--1669587 Score: 760
Period size: 265 Copynumber: 2.2 Consensus size: 265
1669007 GAAAATCGAT
* * * *
1669017 CTCGATTCAATCTTCCCTGAAAAATAGTAGAATGAATCAACATCCCCAGATCTGATTTTCCCTTA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
1669082 AGAAGAAGCGGAACAAATCCTCTATTTTCAGATTTGATAGTCCCTGAGTAACAGCGGAACAAGTC
66 AGAAGAAGCGGAACAAATCCTCTATTTTCAGATTTGATAGTCCCTGAGTAACAGCGGAACAAGTC
* * * * * * *
1669147 TGCCTCGATTCAATCTTTCCTGAGTAACAGTGGAATGAATCAACGTCCTCATATATGATTTTCCC
131 TGCCTCGATTCAATATTCCCTAAGTAACAGTGGAATCAATCAACATCCCCATATATAATTTTCCC
* * *
1669212 TCAAGAAGAAGCAGACATATCACTCTCTTTCAAGATTTAATATT-CTTGGAGTAACAGTGGAACA
196 TCAAAAAGAAGCAAACATATCACTCTCTTTCAAGATTTAATATTACCTGG-GTAACA-TGGAACA
*
1669276 AGTATGC
259 AGTATAC
*
1669283 CTCGATTCAATCTTCCCT-AAGTAACAGTGGAATGAATCAACATCCTCAGATCTGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTC
* * * *
1669347 AAGAAG-AGC-GAACATATCCCTCTA-TTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAA
65 AAGAAGAAGCGGAACAAAT-CCTCTATTTTC-AGATTTGATAGTCCCTGAGTAACAGCGGAACAA
* *
1669409 GTCTTCCTCGATTCAATATTCCCTAAAG-AACAGTGGAATCAATCAACATCCCCATATCTAATTT
128 GTCTGCCTCGATTCAATATTCCCT-AAGTAACAGTGGAATCAATCAACATCCCCATATATAATTT
* *
1669473 TCCCTCAAAAAGATGCAAAACATATC-CTCTCTTTCAAGATTTGATATTACCTGGGTAACATGGA
192 TCCCTCAAAAAGAAGC-AAACATATCACTCTCTTTCAAGATTTAATATTACCTGGGTAACATGGA
* *
1669537 ATAAGTCTAC
256 ACAAGTATAC
* * * *
1669547 CTCAATTCAATATTCCTTGAAGAACAGTGAAATGAATCAAC
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAC
1669588 GTTTCTCAGT
Statistics
Matches: 268, Mismatches: 30, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
264 55 0.21
265 137 0.51
266 76 0.28
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (265 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCCCCAGATCTGATTTTCCCTCA
AGAAGAAGCGGAACAAATCCTCTATTTTCAGATTTGATAGTCCCTGAGTAACAGCGGAACAAGTC
TGCCTCGATTCAATATTCCCTAAGTAACAGTGGAATCAATCAACATCCCCATATATAATTTTCCC
TCAAAAAGAAGCAAACATATCACTCTCTTTCAAGATTTAATATTACCTGGGTAACATGGAACAAG
TATAC
Found at i:1669754 original size:3 final size:3
Alignment explanation
Indices: 1669746--1669783 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
1669736 TTGTCCAGAC
*
1669746 TAT TAT TAT TAT TAT TAT TAT TA- TAT AAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1669784 TCTTACAGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1672297 original size:26 final size:21
Alignment explanation
Indices: 1672243--1672293 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
1672233 TTTAATTTTC
1672243 TAAAAATAATTTCATATACTA
1 TAAAAATAATTTCATATACTA
1672264 TAAAAATAATTTCATATACTA
1 TAAAAATAATTTCATATACTA
1672285 TAAAAATAA
1 TAAAAATAA
1672294 AATATTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAAATAATTTCATATACTA
Found at i:1674631 original size:38 final size:38
Alignment explanation
Indices: 1674580--1674675 Score: 174
Period size: 38 Copynumber: 2.5 Consensus size: 38
1674570 GTATAAACTA
*
1674580 TGTCCCGAAGGACCTATCATCCCAAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCAAAGGATGTAATCTG
*
1674618 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCAAAGGATGTAATCTG
1674656 TGTCCCGAAGGACCTATCAT
1 TGTCCCGAAGGACCTATCAT
1674676 ATGTCTCGTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCAAAGGATGTAATCTG
Found at i:1674642 original size:17 final size:17
Alignment explanation
Indices: 1674582--1674646 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
1674572 ATAAACTATG
1674582 TCCCGAAGGACCTATCA
1 TCCCGAAGGACCTATCA
* ** *
1674599 TCCCAAAGGATGTCATCTGTG
1 TCCCGAAGGACCT-ATC---A
1674620 TCCCGAAGGACCTATCA
1 TCCCGAAGGACCTATCA
1674637 TCCCGAAGGA
1 TCCCGAAGGA
1674647 TGTAATCTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
17 20 0.56
18 3 0.08
20 3 0.08
21 10 0.28
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.20
Consensus pattern (17 bp):
TCCCGAAGGACCTATCA
Found at i:1674680 original size:21 final size:20
Alignment explanation
Indices: 1674577--1674680 Score: 76
Period size: 21 Copynumber: 5.3 Consensus size: 20
1674567 CTCGTATAAA
1674577 CTATGTCCCGAAGGACCTAT
1 CTATGTCCCGAAGGACCTAT
* **
1674597 C-A--TCCCAAAGGATGTCAT
1 CTATGTCCCGAAGGACCT-AT
*
1674615 CTGTGTCCCGAAGGACCTAT
1 CTATGTCCCGAAGGACCTAT
**
1674635 C-A--TCCCGAAGGATGTAAT
1 CTATGTCCCGAAGGACCT-AT
*
1674653 CTGTGTCCCGAAGGACCTAT
1 CTATGTCCCGAAGGACCTAT
1674673 CATATGTC
1 C-TATGTC
1674681 TCGTATGACA
Statistics
Matches: 61, Mismatches: 14, Indels: 17
0.66 0.15 0.18
Matches are distributed among these distances:
17 21 0.34
18 6 0.10
19 1 0.02
20 7 0.11
21 26 0.43
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (20 bp):
CTATGTCCCGAAGGACCTAT
Found at i:1684940 original size:2 final size:2
Alignment explanation
Indices: 1684933--1684975 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1684923 TTCATAAAGA
1684933 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1684975 A
1 A
1684976 GACACTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1691068 original size:3 final size:3
Alignment explanation
Indices: 1691062--1691139 Score: 70
Period size: 3 Copynumber: 26.3 Consensus size: 3
1691052 ATTTGTTGTC
* * *
1691062 ATT ATT ATT ATT GTT ATT ATT ATT -TT ATTT ATT ACT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
* * * *
1691107 ATT -TT ATA ATA ATA ATA ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1691140 ATAAAAAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
2 4 0.06
3 59 0.89
4 3 0.05
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Done.