Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 39
Found at i:1196503 original size:17 final size:17
Alignment explanation
Indices: 1196481--1196515 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1196471 ATTTCGCATT
1196481 GCGATAGCCATTTCCGC
1 GCGATAGCCATTTCCGC
* *
1196498 GCGATAGTCATTTTCGC
1 GCGATAGCCATTTCCGC
1196515 G
1 G
1196516 TTGCGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.29, G:0.26, T:0.29
Consensus pattern (17 bp):
GCGATAGCCATTTCCGC
Found at i:1198537 original size:19 final size:19
Alignment explanation
Indices: 1198510--1198612 Score: 144
Period size: 19 Copynumber: 5.7 Consensus size: 19
1198500 GCAACGAGAG
1198510 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1198529 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1198548 AATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1198567 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
1198586 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
1198600 AATCGCAATGCGA
1 AATCGCAATGCGA
1198613 TTTTCATTTC
Statistics
Matches: 76, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
14 11 0.14
15 1 0.01
16 2 0.03
17 2 0.03
19 60 0.79
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1198653 original size:19 final size:19
Alignment explanation
Indices: 1198631--1198690 Score: 86
Period size: 19 Copynumber: 3.1 Consensus size: 19
1198621 TCGCATTGCG
1198631 ATTTCTCGTTGCGATAGCC
1 ATTTCTCGTTGCGATAGCC
1198650 ATTT-TGCGTTGCGATAGCC
1 ATTTCT-CGTTGCGATAGCC
*
1198669 ATTTTCGCGTTGCGATAGCC
1 A-TTTCTCGTTGCGATAGCC
1198689 AT
1 AT
1198691 ATGAATGTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 1 0.03
19 19 0.51
20 17 0.46
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (19 bp):
ATTTCTCGTTGCGATAGCC
Found at i:1198680 original size:20 final size:20
Alignment explanation
Indices: 1198632--1198690 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
1198622 CGCATTGCGA
*
1198632 TTTCTCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
1198652 TTT-GCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
1198671 TTTCGCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
1198691 ATGAATGTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
19 18 0.49
20 19 0.51
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:1201906 original size:20 final size:20
Alignment explanation
Indices: 1201820--1201914 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
1201810 GATTCTGTAT
* *
1201820 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * * *
1201840 AATTGCGTTGCGAAAGTCAT
1 TATCGCGTTGCGATAGTCAG
* *
1201860 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
1201881 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
1201901 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
1201915 TTTCCCAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 41 0.67
21 15 0.25
22 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:1201928 original size:41 final size:40
Alignment explanation
Indices: 1201840--1201935 Score: 113
Period size: 41 Copynumber: 2.4 Consensus size: 40
1201830 CGAAAGTCAG
* * * **
1201840 AATT-GCGTTGCGAAAGTCATTATCGCGTTGCGATTTTGT
1 AATTCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCC
*
1201879 ATTATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCC
1 AAT-TCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT-CC
1201921 AATTCGCGTTGCGAT
1 AATTCGCGTTGCGAT
1201936 TTACTTATTC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.04
40 1 0.02
41 42 0.89
42 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (40 bp):
AATTCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCC
Found at i:1202022 original size:21 final size:21
Alignment explanation
Indices: 1201982--1202022 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1201972 ACTGTAGACC
**
1201982 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
1202003 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
1202023 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:1204815 original size:2 final size:2
Alignment explanation
Indices: 1204808--1204840 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1204798 TAACTTGCAT
1204808 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
1204841 TCATAAAAAC
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:1205724 original size:16 final size:16
Alignment explanation
Indices: 1205703--1205738 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1205693 AACTCTCAAT
*
1205703 CATTTTATATCATTGG
1 CATTTTATATCATTGA
1205719 CATTTTATATCATTGA
1 CATTTTATATCATTGA
1205735 CATT
1 CATT
1205739 CATGGTGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (16 bp):
CATTTTATATCATTGA
Found at i:1212459 original size:13 final size:13
Alignment explanation
Indices: 1212441--1212465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1212431 ATAATGGGAA
1212441 AATTTTGAAAAAT
1 AATTTTGAAAAAT
1212454 AATTTTGAAAAA
1 AATTTTGAAAAA
1212466 AATATAGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
AATTTTGAAAAAT
Found at i:1212510 original size:8 final size:8
Alignment explanation
Indices: 1212497--1212526 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1212487 ATGGAAAACA
1212497 ATATATTT
1 ATATATTT
1212505 ATATATTT
1 ATATATTT
*
1212513 ATATATAT
1 ATATATTT
1212521 ATATAT
1 ATATAT
1212527 ATTCAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
ATATATTT
Found at i:1213084 original size:20 final size:19
Alignment explanation
Indices: 1213059--1213132 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 19
1213049 TCGATAAGAA
1213059 TAGTATCGATACTAGGCTAG
1 TAGTATCGATACTA-GCTAG
*
1213079 TAGTATCGATACCTAGCAAGAG
1 TAGTATCGATA-CTAGC--TAG
*
1213101 TAGTAACGATACTATG-TGAG
1 TAGTATCGATACTA-GCT-AG
1213121 TAGTATCGATAC
1 TAGTATCGATAC
1213133 CAAGTGCACA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 26 0.58
21 6 0.13
22 13 0.29
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (19 bp):
TAGTATCGATACTAGCTAG
Found at i:1213086 original size:42 final size:42
Alignment explanation
Indices: 1213040--1213133 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
1213030 GGATGAACAA
* *
1213040 TATCGATACTCGA-TAAGAATAGTATCGATACTAGGCT-AGTAG
1 TATCGATAC-CGAGCAAGAATAGTAACGATACTAGG-TGAGTAG
* * *
1213082 TATCGATACCTAGCAAGAGTAGTAACGATACTATGTGAGTAG
1 TATCGATACCGAGCAAGAATAGTAACGATACTAGGTGAGTAG
1213124 TATCGATACC
1 TATCGATACC
1213134 AAGTGCACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 3 0.07
42 42 0.93
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (42 bp):
TATCGATACCGAGCAAGAATAGTAACGATACTAGGTGAGTAG
Found at i:1213105 original size:22 final size:21
Alignment explanation
Indices: 1213040--1213133 Score: 68
Period size: 20 Copynumber: 4.5 Consensus size: 21
1213030 GGATGAACAA
* * *
1213040 TATCGATACTCGATAAGAATAG
1 TATCGATAC-CTATGAGAGTAG
* **
1213062 TATCGATA-CTAGGCTAGTAG
1 TATCGATACCTATGAGAGTAG
1213082 TATCGATACCTA-GCAAGAGTAG
1 TATCGATACCTATG--AGAGTAG
* *
1213104 TAACGATA-CTATGTGAGTAG
1 TATCGATACCTATGAGAGTAG
1213124 TATCGATACC
1 TATCGATACC
1213134 AAGTGCACAA
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
20 28 0.50
21 7 0.12
22 21 0.38
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (21 bp):
TATCGATACCTATGAGAGTAG
Found at i:1223008 original size:66 final size:65
Alignment explanation
Indices: 1222895--1223073 Score: 286
Period size: 66 Copynumber: 2.7 Consensus size: 65
1222885 TTAAGAAGTG
* *
1222895 ACCAGTTGATTTCCAGAGTGTCAAGATCAAACTACGCCCGTGACCAGAATTTAAGAAGAGATCAT
1 ACCAGTTGATTTCCAGTGTGTCAAGATCAAACTACGCCGGTG-CCAGAATTTAAGAAGAGATCAT
1222960 A
65 A
* *
1222961 ACCGGTTGATTTCCGGTGTGTCAAGATCAAACTACGCCGGTCGCCAGAATTTAAGAAGAGATCAT
1 ACCAGTTGATTTCCAGTGTGTCAAGATCAAACTACGCCGGT-GCCAGAATTTAAGAAGAGATCAT
1223026 A
65 A
*
1223027 ACCAGTTGATTTCCAGTGTGTCAAGATCAAACCACGCCGGTGGCCAG
1 ACCAGTTGATTTCCAGTGTGTCAAGATCAAACTACGCCGGT-GCCAG
1223074 TTTTTGCTGA
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
66 103 0.99
67 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (65 bp):
ACCAGTTGATTTCCAGTGTGTCAAGATCAAACTACGCCGGTGCCAGAATTTAAGAAGAGATCATA
Found at i:1230095 original size:21 final size:21
Alignment explanation
Indices: 1230069--1230112 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1230059 AAGTGGTTGG
1230069 GATTCAGGAATTTGAGCTTGT
1 GATTCAGGAATTTGAGCTTGT
1230090 GATTCAGGAATTTGAGCTTGT
1 GATTCAGGAATTTGAGCTTGT
1230111 GA
1 GA
1230113 GGCAAAGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.09, G:0.30, T:0.36
Consensus pattern (21 bp):
GATTCAGGAATTTGAGCTTGT
Found at i:1231038 original size:30 final size:29
Alignment explanation
Indices: 1230933--1231300 Score: 301
Period size: 30 Copynumber: 12.2 Consensus size: 29
1230923 TATTCTTATA
* *
1230933 ATATTTTAAAATTAAGATAAAAATAAAAT
1 ATATTTTTAAGTTAAGATAAAAATAAAAT
1230962 ATATCTTTTTTAA-TTAAGATAAAAATAAAAT
1 ATA---TTTTTAAGTTAAGATAAAAATAAAAT
* * *
1230993 ATATTTTTAAATTAAAATAAGAATAAAAT
1 ATATTTTTAAGTTAAGATAAAAATAAAAT
* * *
1231022 ATACGTTTTAAGTTAAAATAATAAT-AAAT
1 ATA-TTTTTAAGTTAAGATAAAAATAAAAT
** * * * * *
1231051 AATACTTAATAATTTAAGGTAAGAATAGATT
1 -ATA-TTTTTAAGTTAAGATAAAAATAAAAT
* * * *
1231082 ATATTTAATAATTTAA-ATTAATAATATAAT
1 ATATTT-TTAAGTTAAGA-TAAAAATAAAAT
** *
1231112 ATATGTAATAAGTTAAGATAAAAATTAAAT
1 ATAT-TTTTAAGTTAAGATAAAAATAAAAT
1231142 ATATTTTTAAAAGTTAAGATAAAAATAAAATAT
1 ATATTTTT--AAGTTAAGATAAAAAT-AAA-AT
* *
1231175 ATATTTTTAAGTTAAGATAAGATTAAAAT
1 ATATTTTTAAGTTAAGATAAAAATAAAAT
* *
1231204 ATATTTTTTAGTTAAGATAAAAATAAAAC
1 ATATTTTTAAGTTAAGATAAAAATAAAAT
* * *
1231233 ATATTTTTTTAGTTAAGATAAGAATAATAT
1 ATA-TTTTTAAGTTAAGATAAAAATAAAAT
*
1231263 ATATTTAATAAGTTAAGATAAAAAATAAAAT
1 ATATTT-TTAAGTTAAGAT-AAAAATAAAAT
1231294 ATATTTT
1 ATATTTT
1231301 AAAAAAATAA
Statistics
Matches: 279, Mismatches: 42, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.03
29 63 0.23
30 121 0.43
31 70 0.25
32 8 0.03
33 10 0.04
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (29 bp):
ATATTTTTAAGTTAAGATAAAAATAAAAT
Found at i:1234416 original size:19 final size:19
Alignment explanation
Indices: 1234376--1234422 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
1234366 AATGGTGATA
*
1234376 TTTCATTTTTATCCAGATCG
1 TTTCA-TTTTATCCAGACCG
1234396 TTTCATTTTATCCA-ACCCG
1 TTTCATTTTATCCAGA-CCG
*
1234415 TTTAATTT
1 TTTCATTT
1234423 ATCGACCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 18 0.75
20 5 0.21
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.51
Consensus pattern (19 bp):
TTTCATTTTATCCAGACCG
Found at i:1236054 original size:42 final size:41
Alignment explanation
Indices: 1235963--1236054 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 41
1235953 ATAGTTTAGC
*
1235963 GGCGTTTTTTTACAAACGCCGTAATAAGGTTCATCTATAAT
1 GGCGTTTTTTTACAAACGCCGCAATAAGGTTCATCTATAAT
** *
1236004 GGTATTTTTTTGACAAACGCCGCAAT-AGGATTCA-CTTATAGT
1 GGCGTTTTTTT-ACAAACGCCGCAATAAGG-TTCATC-TATAAT
1236046 GGCGTTTTT
1 GGCGTTTTT
1236055 CATTAAACGC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
41 13 0.31
42 29 0.69
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (41 bp):
GGCGTTTTTTTACAAACGCCGCAATAAGGTTCATCTATAAT
Found at i:1236599 original size:24 final size:24
Alignment explanation
Indices: 1236572--1236626 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
1236562 CAACTAGAAT
1236572 CGCGTCGCTAAAGACACCCGCAAG
1 CGCGTCGCTAAAGACACCCGCAAG
1236596 CGCGTCGCTAAAGACACCCGCAAG
1 CGCGTCGCTAAAGACACCCGCAAG
1236620 CGCGTCG
1 CGCGTCG
1236627 TCGGAGTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.25, C:0.38, G:0.27, T:0.09
Consensus pattern (24 bp):
CGCGTCGCTAAAGACACCCGCAAG
Found at i:1240519 original size:43 final size:43
Alignment explanation
Indices: 1240301--1240727 Score: 494
Period size: 42 Copynumber: 10.0 Consensus size: 43
1240291 TAATTAGCAG
* *
1240301 GTTTGTATCTAAAAACGCCGCTATAGAT-TTGACCTTTTGCGGC
1 GTTTGT-TCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
* * *
1240344 GTTTGTTCC-AAAACGCCGTTATAGATCTCGATCTTTTGCGTC
1 GTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
* * * *
1240386 GTTTGTTCCAAAAATGCTGCTATAGATCT-GACCTTTTGTGGG
1 GTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
* * *
1240428 GTTTGTTCAAAAAATGCCGCTATAGATCT-GACC---TACGGC
1 GTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
*
1240467 GTTTGTTCCAAAAACGCCGCTATAGATGTCGACCTTTTGCGGC
1 GTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
* ** *
1240510 GTTTGTTCCAAAAAAATGTTGCTATA-ATCTCGACCTATTGCGGC
1 GTTTGTTCC--AAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
* *
1240554 GTTTGTTCCAAAAACACCGTTATAGATCTCGACCTTTTGCGGC
1 GTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
* *
1240597 GTTTGTTCCAAAAAAAACGCCGCTATAGATCTCGACCTATTGTGGC
1 GTTTGTTCC---AAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
* * * *
1240643 GTTTGTTTCAAAAATGCCGCTATAGATCTTGACCTTTTGCGAC
1 GTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
* *
1240686 GTTTGTTCC-AAAACGCCGCTATAGATCTTGACCTATTGCGGC
1 GTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
1240728 TTTTTTTGTT
Statistics
Matches: 326, Mismatches: 46, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
39 29 0.09
40 4 0.01
41 16 0.05
42 103 0.32
43 99 0.30
44 25 0.08
45 12 0.04
46 38 0.12
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (43 bp):
GTTTGTTCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
Found at i:1240743 original size:89 final size:85
Alignment explanation
Indices: 1240301--1240727 Score: 508
Period size: 89 Copynumber: 5.0 Consensus size: 85
1240291 TAATTAGCAG
* *
1240301 GTTTGTATCTAAAAACGCCGCTATAGAT-TTGACCTTTTGCGGCGTTTGTTCCAAAACGCCGTTA
1 GTTTGT-TCCAAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAACGCCGCTA
* * *
1240365 TAGATCTCGATCTTTTGCGTC
65 TAGATCTCGACCTATTGCGGC
* * * * * *
1240386 GTTTGTTCCAAAAATGCTGCTATAGATC-TGACCTTTTGTGGGGTTTGTTCAAAAAATGCCGCTA
1 GTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTC-CAAAACGCCGCTA
1240450 TAGATCT-GACCTA---CGGC
65 TAGATCTCGACCTATTGCGGC
* * * **
1240467 GTTTGTTCCAAAAACGCCGCTATAGATGTCGACCTTTTGCGGCGTTTGTTCCAAAAAAATGTTGC
1 GTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTCC---AAAACGCCGC
1240532 TATA-ATCTCGACCTATTGCGGC
63 TATAGATCTCGACCTATTGCGGC
* * *
1240554 GTTTGTTCCAAAAACACCGTTATAGATCTCGACCTTTTGCGGCGTTTGTTCCAAAAAAAACGCCG
1 GTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTCC----AAAACGCCG
*
1240619 CTATAGATCTCGACCTATTGTGGC
62 CTATAGATCTCGACCTATTGCGGC
* * *
1240643 GTTTGTTTCAAAAATGCCGCTATAGATCTTGACCTTTTGCGACGTTTGTTCCAAAACGCCGCTAT
1 GTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAACGCCGCTAT
*
1240708 AGATCTTGACCTATTGCGGC
66 AGATCTCGACCTATTGCGGC
1240728 TTTTTTTGTT
Statistics
Matches: 295, Mismatches: 35, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
81 28 0.09
82 19 0.06
83 4 0.01
84 60 0.20
85 54 0.18
87 53 0.18
88 14 0.05
89 63 0.21
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (85 bp):
GTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTTTTGCGGCGTTTGTTCCAAAACGCCGCTAT
AGATCTCGACCTATTGCGGC
Found at i:1243807 original size:3 final size:3
Alignment explanation
Indices: 1243785--1243874 Score: 83
Period size: 3 Copynumber: 30.0 Consensus size: 3
1243775 TGTCTCGTTT
* * * * * *
1243785 TTA TTA TTT TTA TTA ATA TTA TTA ATA TT- TTA CTA CTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
1243832 TTA TTA TTA ATA TTA ATA TTA ATA TTA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
1243875 AATAAATATA
Statistics
Matches: 69, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
2 2 0.03
3 64 0.93
4 3 0.04
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:1243868 original size:28 final size:28
Alignment explanation
Indices: 1243832--1243888 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
1243822 ATTATTAGTA
*
1243832 TTATTATTAATATTAATATTAATAT-TAT
1 TTATTATTAATATTAA-ATAAATATATAT
*
1243860 TTATTATTATTATTAAATAAATATATAT
1 TTATTATTAATATTAAATAAATATATAT
1243888 T
1 T
1243889 ACAAATTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TTATTATTAATATTAAATAAATATATAT
Found at i:1245083 original size:21 final size:21
Alignment explanation
Indices: 1245046--1245085 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1245036 GAATTAGAAT
*
1245046 TTTTAATCTTTATATTTTATA
1 TTTTAATCTATATATTTTATA
1245067 TTTTAATCCTATA-ATTTTA
1 TTTTAAT-CTATATATTTTA
1245086 GTTTTCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAATCTATATATTTTATA
Found at i:1245356 original size:27 final size:25
Alignment explanation
Indices: 1245299--1245345 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1245289 CCTATTCTGG
1245299 TATTT-TAAAAATAAATAAATATCT
1 TATTTATAAAAATAAATAAATATCT
* *
1245323 TATTTATAAAAATATATATATAT
1 TATTTATAAAAATAAATAAATAT
1245346 ATTTACTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TATTTATAAAAATAAATAAATATCT
Found at i:1245446 original size:161 final size:158
Alignment explanation
Indices: 1245233--1245676 Score: 499
Period size: 157 Copynumber: 2.8 Consensus size: 158
1245223 AATTAAATAA
* * * * *
1245233 TAATGTTTATTTATTTTTAAATATTAGGAAAAAGCGGTCTTAAAATAACTAGACGTCCTATTCTG
1 TAATGTTTATTTATTTTT-AATATAAAGAAAAAGCAGTCTT-AAATAACTAGATGTCATATTCTG
1245298 GTATTTTAAAAATAAATAAATATCTTATTTATAAAAATATATATATATATTTACTTTATTTTTAT
64 GTATTTTAAAAATAAATAAATATCTTATTTATAAAAATATATATATATATTTACTTTATTTTTAT
* *
1245363 TATTTTTAATAAAAATCATTATATTCTTCT
129 TATTTTTAAGAAAAATCATTATATTCTTAT
* *
1245393 TAATATTTATTTATTTTTAATATCAAAGAAAAGGGCAGTCTTAATATAACTAGATGTCATATTCT
1 TAATGTTTATTTATTTTTAATAT-AAAGAAAA-AGCAGTCTTAA-ATAACTAGATGTCATATTCT
* *
1245458 GGTATTTTAAAAATAAATAAATATACTT-CTTAT---AA-ATGTATATATATTTAC-TTAGTTTT
63 GGTATTTTAAAAATAAATAAATAT-CTTATTTATAAAAATATATATATATATTTACTTTA-TTTT
* *
1245517 TATTATTTTTAAGGAAAATTATTATATTCTTAT
126 TATTATTTTTAAGAAAAATCATTATATTCTTAT
* * * *
1245550 TAATGTTTATTTATTTATTAATATTAAAGAAAATGCAGTCTTAAAGCAACTAGATATCATTTTCT
1 TAATGTTTATTTATTT-TTAATA-TAAAGAAAAAGCAGTCTTAAA-TAACTAGATGTCATATTCT
* * * * * * * *
1245615 GATATTTT-TAAATAAATAAATGTCATATTTACAAAACCCTAAATATATATATATA-TTTATTT
63 GGTATTTTAAAAATAAATAAATATCTTATTTATAAAA--ATATATATATATATTTACTTTATTT
1245677 AATATTTTTT
Statistics
Matches: 240, Mismatches: 28, Indels: 31
0.80 0.09 0.10
Matches are distributed among these distances:
155 2 0.01
156 20 0.08
157 96 0.40
158 16 0.07
159 7 0.03
160 25 0.10
161 56 0.23
162 18 0.08
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (158 bp):
TAATGTTTATTTATTTTTAATATAAAGAAAAAGCAGTCTTAAATAACTAGATGTCATATTCTGGT
ATTTTAAAAATAAATAAATATCTTATTTATAAAAATATATATATATATTTACTTTATTTTTATTA
TTTTTAAGAAAAATCATTATATTCTTAT
Found at i:1254832 original size:22 final size:22
Alignment explanation
Indices: 1254783--1254882 Score: 128
Period size: 22 Copynumber: 4.5 Consensus size: 22
1254773 ATCTACATTC
* *
1254783 TTCAAAGATGATAGATTATTTTT
1 TTCAAAGATGATAGATT-CTCTT
1254806 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
**
1254828 TTCAAAGATGATAGATTCTCAC
1 TTCAAAGATGATAGATTCTCTT
* *
1254850 TTCAAAGATGATATATTATCTT
1 TTCAAAGATGATAGATTCTCTT
*
1254872 TTCAAATATGA
1 TTCAAAGATGA
1254883 AAGTTTTATT
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
22 51 0.75
23 17 0.25
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1255584 original size:45 final size:45
Alignment explanation
Indices: 1255519--1255642 Score: 203
Period size: 45 Copynumber: 2.8 Consensus size: 45
1255509 CTATTTCCCA
1255519 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
* *
1255564 CATCTGTAAGACCTAAAGTGCATGATGTTTTTAAAACCTTCGGGT
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
** *
1255609 CATCCATAAGACCTACAGTGCAGGATGTTTTCAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAA
1255643 TAAAAGCCTT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (45 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:1255718 original size:45 final size:45
Alignment explanation
Indices: 1255664--1255912 Score: 372
Period size: 45 Copynumber: 5.5 Consensus size: 45
1255654 GAGAGCTTTT
*
1255664 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
1255709 TGATGTTTTCAAAGCCTTCGGGTCATCTCTAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
1255754 TGACGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGTA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
1255799 TGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
1255844 TGATGTTTTCAAAACCTTCAGGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1255889 TGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC--AAAGCCTTCGGG
1255913 ATCTTTTTGA
Statistics
Matches: 182, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 172 0.95
47 10 0.05
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1255970 original size:76 final size:76
Alignment explanation
Indices: 1255844--1256043 Score: 269
Period size: 76 Copynumber: 2.7 Consensus size: 76
1255834 CTACAGTGCA
* * * *
1255844 TGATGTTTTCAAAACCTTCAGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTT
*
1255909 CGGGATCTTTT
66 CGGGAGCTTTT
* *
1255920 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTT
*
1255985 TGGGAGCTTTT
66 CGGGAGCTTTT
* * * * *
1255996 TGAT-ATTT-AAAGCCTCCGGGTCATCTGTAAGACCTACAGCGCAAGATG
1 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATG
1256044 ATAAGACCTT
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
74 34 0.31
75 3 0.03
76 73 0.66
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (76 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:1256084 original size:116 final size:116
Alignment explanation
Indices: 1255933--1256209 Score: 466
Period size: 116 Copynumber: 2.4 Consensus size: 116
1255923 TGTTTTCAAA
* *
1255933 ACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTT-GGGAGCTTTTT
1 ACCTTAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAA-CCTTTCGGGAGCTTTTT
*
1255997 GATATTTAAAGCCTCCGGGTCATCTGTAAGACCTACAGCGCAAGATGATAAG
65 GATATTTAAAGCCTCCGGGTAATCTGTAAGACCTACAGCGCAAGATGATAAG
* *
1256049 ACCTTAGGGCCATCCATAAGACCTACAGTGTAGGATGTTTTCAAAAATCTTTCGGGAGCTTTTTG
1 ACCTTAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAACCTTTCGGGAGCTTTTTG
*
1256114 ATATTTAAAGCCTCCGGGTAATCTGTAAGACCTACAGTGCAAGATGATAAG
66 ATATTTAAAGCCTCCGGGTAATCTGTAAGACCTACAGCGCAAGATGATAAG
* *
1256165 ACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTGCAAA
1 ACCTTAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAA
1256210 TGAGATTTTA
Statistics
Matches: 151, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
115 4 0.03
116 147 0.97
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (116 bp):
ACCTTAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAACCTTTCGGGAGCTTTTTG
ATATTTAAAGCCTCCGGGTAATCTGTAAGACCTACAGCGCAAGATGATAAG
Found at i:1256167 original size:22 final size:21
Alignment explanation
Indices: 1256139--1256197 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
1256129 GGGTAATCTG
1256139 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGC-AGATGA
* * *
1256161 TAAGACCT-CAGGGC-CATCCA
1 TAAGACCTACAGTGCAGAT-GA
1256181 TAAGACCTACAGTGCAG
1 TAAGACCTACAGTGCAG
1256198 GATGTTTGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.07
20 9 0.31
21 10 0.34
22 8 0.28
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
TAAGACCTACAGTGCAGATGA
Found at i:1256490 original size:3 final size:3
Alignment explanation
Indices: 1256468--1256580 Score: 77
Period size: 3 Copynumber: 38.0 Consensus size: 3
1256458 TATCTCGTTT
* * * * *
1256468 TTA TTA TTT TTA TTA ATA TTA TTA ATA TT- TTA TTA CTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * *
1256515 TTA TTA TTA ATA CTA TTA ATA ATA ATA ATA ATA ATA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1256563 TTA TTTA TTA TTA -TA TTA
1 TTA -TTA TTA TTA TTA TTA
1256581 AATAAATATA
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
2 4 0.04
3 85 0.92
4 3 0.03
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:1257804 original size:21 final size:21
Alignment explanation
Indices: 1257767--1257806 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1257757 GAATTAGAAT
*
1257767 TTTTAATCTTTATATTTTATA
1 TTTTAATCTATATATTTTATA
1257788 TTTTAATCCTATA-ATTTTA
1 TTTTAAT-CTATATATTTTA
1257807 GTTTTCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAATCTATATATTTTATA
Found at i:1258320 original size:157 final size:157
Alignment explanation
Indices: 1257954--1258354 Score: 488
Period size: 157 Copynumber: 2.5 Consensus size: 157
1257944 AATTAAATAA
* * * * *
1257954 TAATGTTTATTTATTTTTAAATATT-AAGAAAA-ACGGTCTTAAAATAGCTAGACGTCCTATTCT
1 TAATATTTATTTATTTTT-AATATTAAAGAAAATGCAGTCTT-AAATAACTAGATGTCCTATTCT
*** * *
1258017 GGTATTTTAAAAAATAAATAAATATCTTACTTATAAATATATATATACATTTACTTTGTTTTTAT
64 AACATTTTAAAAAATAAATAAATATCCTACTTATAAATATATATATA-ATTTACTTAGTTTTTAT
*
1258082 TATTTTTAAGAAAAATCATTATATTCTTAT
128 TATTTTTAAGAAAAATCAGTATATTCTTAT
* *
1258112 TAATATTTATTTATTTTTAATATCAAAGAAAATGGCAGTCTTAATATAACTACATGTCCTATTCT
1 TAATATTTATTTATTTTTAATATTAAAGAAAAT-GCAGTCTTAA-ATAACTAGATGTCCTATTCT
* *
1258177 AACATTTT-AAAAATAAATAAATATCCTGCTTATAAATGTATATAT-ATTTACTTAGTTTTTATT
64 AACATTTTAAAAAATAAATAAATATCCTACTTATAAATATATATATAATTTACTTAGTTTTTATT
* * *
1258240 ATTTTTTAGGAAAATTAGTATATTCTTAT
129 ATTTTTAAGAAAAATCAGTATATTCTTAT
* * *
1258269 TAATATTTATTTATTTATTAATATTAAAGAAAATGCAGTCTTAAAGCAACTAGATGTCATTTTCT
1 TAATATTTATTTATTT-TTAATATTAAAGAAAATGCAGTCTTAAA-TAACTAGATGTCCTATTCT
1258334 GATA-ATTTTAAATAAATAAAT
64 -A-ACATTTTAAA-AAATAAAT
1258355 GTCATATTTA
Statistics
Matches: 210, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
156 1 0.00
157 88 0.42
158 46 0.22
159 39 0.19
160 36 0.17
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (157 bp):
TAATATTTATTTATTTTTAATATTAAAGAAAATGCAGTCTTAAATAACTAGATGTCCTATTCTAA
CATTTTAAAAAATAAATAAATATCCTACTTATAAATATATATATAATTTACTTAGTTTTTATTAT
TTTTAAGAAAAATCAGTATATTCTTAT
Found at i:1258383 original size:2 final size:2
Alignment explanation
Indices: 1258376--1258407 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1258366 AAAACCCTAA
1258376 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
1258408 TTCCTTAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1265394 original size:83 final size:86
Alignment explanation
Indices: 1265226--1265478 Score: 298
Period size: 84 Copynumber: 3.0 Consensus size: 86
1265216 GTGGGGCATT
* * * * * * *
1265226 GCTGATTCGAAGAGTCGTGAATCAAGCAA-AGGAAATGTTGAAAACATCCTGCCCGAAGGTCTTA
1 GCTGATTCAAAGTGTTGTGAATCGAGCAATAGAAAATGCTAAAAACATCCTGCCCGAAGGTCTTA
*
1265290 TGGATGGCTCGAAGGACTTAA
66 TGGATGGCCCGAAGGACTTAA
* * * * *
1265311 GTTGATTCAAAGTG-TGTGAATTGAGTAA-AGAAAATGCTAAAAACATCCTGCTCGAA-CTCTTA
1 GCTGATTCAAAGTGTTGTGAATCGAGCAATAGAAAATGCTAAAAACATCCTGCCCGAAGGTCTTA
*
1265373 TGGATTGCCCGAAGGACTTAA
66 TGGATGGCCCGAAGGACTTAA
* * * * * *
1265394 GCTGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTGAAAACATCCTTCCCGAAGGTCTTG
1 GCTGATTCAAAGTGTTGTGAATCGAGCAATAGAAAATGCTAAAAACATCCTGCCCGAAGGTCTTA
1265459 TGGATGGCCCGAAGGACTTA
66 TGGATGGCCCGAAGGACTTA
1265479 CTCATTAAGA
Statistics
Matches: 139, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
83 36 0.26
84 46 0.33
85 34 0.24
86 23 0.17
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (86 bp):
GCTGATTCAAAGTGTTGTGAATCGAGCAATAGAAAATGCTAAAAACATCCTGCCCGAAGGTCTTA
TGGATGGCCCGAAGGACTTAA
Found at i:1265610 original size:53 final size:53
Alignment explanation
Indices: 1265522--1266123 Score: 486
Period size: 53 Copynumber: 11.2 Consensus size: 53
1265512 TTCTTAATTG
* * ** *
1265522 TCAAGGAACCCCTAAAAATTAGGCTTAGCTCCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAATTCATTTGAAAACA
* * * ** *
1265575 TCGAGAAACCCCTGAAAATCAAGCTTAGCTTCTTTCAAATTCATTTGGAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAATTCATTTGAAAACA
* *
1265628 TCAAGAAACCCCTAAAAATTAGGTTTAATTTCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAATTCATTTGAAAACA
* * * * *
1265681 TCAAGAAACACCTAAAAATTAGGCTTAATTTCTTTGAAATTTCTTTTAAAAATCA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAA-TTCATTTGAAAA-CA
*** * * * * * * *
1265736 TCAAGAAACTTATGAAATTCAGACTTAGTTTCTTTAAAACTCATATGAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAATTCATTTGAAAACA
* **
1265789 TCAAGAAACCCCTAAAAAAT-AGGCTGAGCTTCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCT-AAAAATCAGGCTTAATTTCTTTCAAATTCATTTGAAAACA
* * * *
1265842 TCAAGAAACTCCTGAAAATCAGGCTTAATTTCTTTCAAATTTATTTGAAAAAA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAATTCATTTGAAAACA
* * * *
1265895 TCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAAAAATCA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAA-TTCATTTGAAAA-CA
** * * * * * * *
1265950 TCAAGAAACTTCTGAAAATCAGACTTAGTCTCTTTGAAAGCTCATTTAAAAAACA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAA-TTCATTT-GAAAACA
* * ** * * * * * * * *
1266005 TAAATAAACTTCTAAAAATCAGACTTAGTCTCTTTGAAAGCTCGTTTAAAAATAA
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAA-TTCATTTGAAAA-CA
** * * * * * *
1266060 TCAAGAAACTTCTAAAAACCAGACTTAGTTTCTTTAAAAACTCATTTGAAAATCG
1 TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTT-CAAATTCATTTGAAAA-CA
1266115 TCAAGAAAC
1 TCAAGAAAC
1266124 TTATGAAAAT
Statistics
Matches: 458, Mismatches: 82, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
52 5 0.01
53 241 0.53
54 36 0.08
55 168 0.37
56 8 0.02
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (53 bp):
TCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAAATTCATTTGAAAACA
Found at i:1265768 original size:55 final size:55
Alignment explanation
Indices: 1265693--1266144 Score: 346
Period size: 55 Copynumber: 8.3 Consensus size: 55
1265683 AAGAAACACC
* * * ** *
1265693 TAAAAATTAGGCTTAATTTCTTTGAAATTTCTTTTAAAAATCATCAAGAAACTTA
1 TAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCATCAAGAAACTTA
* * * * * *
1265748 TGAAATTCAGACTTAGTTTCTTT-AAAACTCATATGAAAA-CATCAAGAAACCCCTA
1 TAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCATCAAGAAA--CTTA
* * * * * * **
1265803 -AAAAAT-AGGCTGAGCTTCTTTCAAA-TTCATTTGAAAA-CATCAAGAAACTCC
1 TAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCATCAAGAAACTTA
* * * * * * ***
1265854 TGAAAATCAGGCTTAATTTCTTTCAAA-TTTATTTGAAAAA--ATCAAGAAACCCC
1 TAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTT-AAAAATCATCAAGAAACTTA
* * * * * *
1265907 TAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAAAAATCATCAAGAAACTTC
1 TAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCATCAAGAAACTTA
* * * * * *
1265962 TGAAAATCAGACTTAGTCTCTTTGAAAGCTCATTTAAAAAACATAAATAAACTTC
1 TAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCATCAAGAAACTTA
* * * *
1266017 TAAAAATCAGACTTAGTCTCTTTGAAAGCTCGTTTAAAAATAATCAAGAAACTTC
1 TAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCATCAAGAAACTTA
* * * * *
1266072 TAAAAACCAGACTTAGTTTCTTTAAAAACTCATTTGAAAATCGTCAAGAAACTTA
1 TAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCATCAAGAAACTTA
* *
1266127 TGAAAATCAGACGTAGTT
1 TAAAAATCAGACTTAGTT
1266145 CCTAAAAAAC
Statistics
Matches: 325, Mismatches: 63, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
51 1 0.00
52 5 0.02
53 105 0.32
54 27 0.08
55 187 0.58
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (55 bp):
TAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCATCAAGAAACTTA
Found at i:1265941 original size:214 final size:214
Alignment explanation
Indices: 1265536--1265994 Score: 679
Period size: 214 Copynumber: 2.1 Consensus size: 214
1265526 GGAACCCCTA
* * * * * * *
1265536 AAAATTAGGCTTAG-CTCCTTTCAAATTCATTTGAAAACATCGAGAAACCCCTGAAAATCAAGCT
1 AAAATCAGACTTAGTCT-CTTTAAAACTCATATGAAAACATCAAGAAACCCCTAAAAATCAAGCT
* * * *
1265600 TAGCTTCTTTCAAATTCATTTGGAAACATCAAGAAACCCCTAAAAATTAGGTTTAATTTCTTTCA
65 GAGCTTCTTTCAAATTCATTTGAAAACATCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCA
* *
1265665 AATTCATTTGAAAACATCAAGAAACACCTAAAAATTAGGCTTAATTTCTTTGAAATTTCTTTTAA
130 AATTCATTTGAAAAAATCAAGAAACACCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAA
1265730 AAATCATCAAGAAACTTATG
195 AAATCATCAAGAAACTTATG
* * *
1265750 AAATTCAGACTTAGTTTCTTTAAAACTCATATGAAAACATCAAGAAACCCCTAAAAAAT-AGGCT
1 AAAATCAGACTTAGTCTCTTTAAAACTCATATGAAAACATCAAGAAACCCCT-AAAAATCAAGCT
* *
1265814 GAGCTTCTTTCAAATTCATTTGAAAACATCAAGAAACTCCTGAAAATCAGGCTTAATTTCTTTCA
65 GAGCTTCTTTCAAATTCATTTGAAAACATCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCA
* *
1265879 AATTTATTTGAAAAAATCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAA
130 AATTCATTTGAAAAAATCAAGAAACACCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAA
*
1265944 AAATCATCAAGAAACTTCTG
195 AAATCATCAAGAAACTTATG
*
1265964 AAAATCAGACTTAGTCTCTTTGAAAGCTCAT
1 AAAATCAGACTTAGTCTCTTT-AAAACTCAT
1265995 TTAAAAAACA
Statistics
Matches: 218, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
214 204 0.94
215 14 0.06
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (214 bp):
AAAATCAGACTTAGTCTCTTTAAAACTCATATGAAAACATCAAGAAACCCCTAAAAATCAAGCTG
AGCTTCTTTCAAATTCATTTGAAAACATCAAGAAACCCCTAAAAATCAGGCTTAATTTCTTTCAA
ATTCATTTGAAAAAATCAAGAAACACCTAAAAATTAGGCTTAATTTCTTTGAAAGTTCTTTTAAA
AATCATCAAGAAACTTATG
Found at i:1268140 original size:17 final size:16
Alignment explanation
Indices: 1268135--1268246 Score: 106
Period size: 17 Copynumber: 6.9 Consensus size: 16
1268125 TTGTTCTTTC
*
1268135 TTTT-TTTCTCTTTTT
1 TTTTCTTTCTTTTTTT
*
1268150 TTCTCTTT-TTTTTCTT
1 TTTTCTTTCTTTTT-TT
1268166 TTTTCTTTCTTTTTTT
1 TTTTCTTTCTTTTTTT
1268182 CTTATT-TTT-TTTTCTTT
1 -TT-TTCTTTCTTTT-TTT
*
1268199 TTCTCTTTCTTTTTTCT
1 TTTTCTTTCTTTTTT-T
*
1268216 CTTTCTTTCTTTTTGTT
1 TTTTCTTTCTTTTT-TT
1268233 TTTTCTTTCTTTTT
1 TTTTCTTTCTTTTT
1268247 GTGTGTTTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.10
16 25 0.31
17 44 0.55
18 3 0.04
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.82
Consensus pattern (16 bp):
TTTTCTTTCTTTTTTT
Found at i:1268148 original size:10 final size:10
Alignment explanation
Indices: 1268133--1268245 Score: 102
Period size: 10 Copynumber: 10.9 Consensus size: 10
1268123 TTTTGTTCTT
1268133 TCTTTTTTTC
1 TCTTTTTTTC
1268143 TCTTTTTTTC
1 TCTTTTTTTC
1268153 TCTTTTTTT-
1 TCTTTTTTTC
*
1268162 TCTTTTTTCTT
1 TCTTTTTT-TC
1268173 TCTTTTTTTC
1 TCTTTTTTTC
* *
1268183 TTATTTTTTTT
1 -TCTTTTTTTC
*
1268194 TCTTTTTCTC
1 TCTTTTTTTC
*
1268204 TTTCTTTTTTC
1 TCT-TTTTTTC
*
1268215 TCTTTCTTTC
1 TCTTTTTTTC
* *
1268225 TTTTTGTTTTT
1 TCTTT-TTTTC
1268236 TCTTTCTTTT
1 TCTTT-TTTT
1268246 TGTGTGTTTT
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
9 8 0.10
10 40 0.48
11 35 0.42
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.81
Consensus pattern (10 bp):
TCTTTTTTTC
Found at i:1268159 original size:33 final size:32
Alignment explanation
Indices: 1268122--1268246 Score: 109
Period size: 32 Copynumber: 3.9 Consensus size: 32
1268112 GATCGATTTT
1268122 TTTTTGTTCTTTCTTTTTTTCTCTTTTTTTCTC
1 TTTTT-TTCTTTCTTTTTTTCTCTTTTTTTCTC
*
1268155 --TTTTT-TTTCTTTTTTCTTTCTTTTTTTCT-
1 TTTTTTTCTTTCTTTTTT-TCTCTTTTTTTCTC
* *
1268184 TATTTTTT-TTTCTTTTTCTCTTTCTTTTTTCTC
1 T-TTTTTTCTTTCTTTTTTTCTCT-TTTTTTCTC
* *
1268217 TTTCTTTCTTTTTGTTTTTTCT-TTCTTTTT
1 TTTTTTTCTTTCT-TTTTTTCTCTT-TTTTT
1268247 GTGTGTTTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
29 10 0.13
30 14 0.18
31 6 0.08
32 28 0.37
33 11 0.14
34 7 0.09
ACGTcount: A:0.01, C:0.16, G:0.02, T:0.82
Consensus pattern (32 bp):
TTTTTTTCTTTCTTTTTTTCTCTTTTTTTCTC
Found at i:1268161 original size:21 final size:19
Alignment explanation
Indices: 1268118--1268246 Score: 106
Period size: 20 Copynumber: 6.7 Consensus size: 19
1268108 GTTTGATCGA
* *
1268118 TTTTTTT-TTGTTCTTTCT
1 TTTTTTTCTTTTTTTTTCT
*
1268136 TTTTTTCTCTTTTTTTCTCT
1 TTTTTT-TCTTTTTTTTTCT
1268156 TTTTTTTCTTTTTTCTTTC-
1 TTTTTTTCTTTTTT-TTTCT
1268175 TTTTTTTCTTATTTTTTT-T
1 TTTTTTTCTT-TTTTTTTCT
1268194 TCTTTTTCTCTTTCTTTTTTCT
1 T-TTTTT-TCTTT-TTTTTTCT
* *
1268216 CTTTCTTTC-TTTTTGTT-T
1 -TTTTTTTCTTTTTTTTTCT
*
1268234 TTTCTTTCTTTTT
1 TTTTTTTCTTTTT
1268247 GTGTGTTTTT
Statistics
Matches: 94, Mismatches: 6, Indels: 22
0.77 0.05 0.18
Matches are distributed among these distances:
17 8 0.09
18 11 0.12
19 28 0.30
20 29 0.31
21 12 0.13
22 5 0.05
23 1 0.01
ACGTcount: A:0.01, C:0.16, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTTTTCTTTTTTTTTCT
Found at i:1268173 original size:40 final size:40
Alignment explanation
Indices: 1268118--1268246 Score: 138
Period size: 40 Copynumber: 3.1 Consensus size: 40
1268108 GTTTGATCGA
* * *
1268118 TTTTTT-TTTGTTCTTTCTTTTTTTCTCTTTTTTTCTCTT
1 TTTTTTCTTTTTTCTTTCTTTTTTTCTATTTTTTTTTCTT
1268157 TTTTTTCTTTTTTCTTTCTTTTTTTCTTATTTTTTTTTCTTT
1 TTTTTTCTTTTTTCTTTCTTTTTTTC-TATTTTTTTTTC-TT
* *
1268199 TTCTCTTTCTTTTTTC--TCTTTCTTTCTTTTTGTTTTTTCTT
1 TT-T-TTTCTTTTTTCTTTCTTTTTTTCTATTT-TTTTTTCTT
1268240 TCTTTTT
1 T-TTTTT
1268247 GTGTGTTTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
39 6 0.08
40 21 0.27
41 18 0.23
42 21 0.27
43 1 0.01
44 11 0.14
ACGTcount: A:0.01, C:0.16, G:0.02, T:0.82
Consensus pattern (40 bp):
TTTTTTCTTTTTTCTTTCTTTTTTTCTATTTTTTTTTCTT
Found at i:1268202 original size:67 final size:68
Alignment explanation
Indices: 1268117--1268246 Score: 169
Period size: 67 Copynumber: 1.9 Consensus size: 68
1268107 TGTTTGATCG
* * *
1268117 ATTTTTTTTTGTTCTTTCT-TTT-TTTCTCTT-TTTTTCTCTTTTTTTTCTTTTTTCTTTCTTTT
1 ATTTTTTTTTCTTCTTTCTCTTTCTTT-T-TTCTCTTTCT-TTCTTTTTCTTTTTTCTTTCTTTT
1268179 TTTCTT
63 TTTCTT
*
1268185 ATTTTTTTTTCTT-TTTCTCTTTCTTTTTTCTCTTTCTTTCTTTTTGTTTTTTCTTTCTTTTT
1 ATTTTTTTTTCTTCTTTCTCTTTCTTTTTTCTCTTTCTTTCTTTTTCTTTTTTCTTTCTTTTT
1268247 GTGTGTTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
67 30 0.55
68 22 0.40
69 3 0.05
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.82
Consensus pattern (68 bp):
ATTTTTTTTTCTTCTTTCTCTTTCTTTTTTCTCTTTCTTTCTTTTTCTTTTTTCTTTCTTTTTTT
CTT
Found at i:1268256 original size:1 final size:1
Alignment explanation
Indices: 1268118--1268246 Score: 51
Period size: 1 Copynumber: 129.0 Consensus size: 1
1268108 GTTTGATCGA
* * * * * * * * * * *
1268118 TTTTTTTTTGTTCTTTCTTTTTTTCTCTTTTTTTCTCTTTTTTTTCTTTTTTCTTTCTTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * * *
1268183 TTATTTTTTTTTCTTTTTCTCTTTCTTTTTTCTCTTTCTTTCTTTTTGTTTTTTCTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1268247 GTGTGTTTTT
Statistics
Matches: 82, Mismatches: 46, Indels: 0
0.64 0.36 0.00
Matches are distributed among these distances:
1 82 1.00
ACGTcount: A:0.01, C:0.16, G:0.02, T:0.82
Consensus pattern (1 bp):
T
Found at i:1270538 original size:167 final size:166
Alignment explanation
Indices: 1270262--1270570 Score: 546
Period size: 167 Copynumber: 1.9 Consensus size: 166
1270252 AAGCAGATAA
* * *
1270262 AAAATTATAAGGCTTTTAAAACAACAACGTCACACGAAGGGGTAGATATTTTTTGGATTTGTTTT
1 AAAATTAGAAGGCTTTTAAAACAAAAACGTCACACGAAGGGGTAGATATTTTTTGGATTCGTTTT
1270327 AGCTTGATTCTAGTGTGGTTGTTTGTCAAAGGTTTGAGAATTTCTCCTCACACACGACACTTGCA
66 AGCTTGATTCTAGTGTGGTTGTTTGTCAAAGGTTTGAGAATTTCTCCTCACACACGACACTTGCA
1270392 TTGCATAAACATAGTGTTAATACCCGAGTTATTTATC
131 TTGCAT-AACATAGTGTTAATACCCGAGTTATTTATC
* *
1270429 AAAATTAGAAGGCTTTTAAAATAAAAACGTCACACGAAGGGGTATATATTTTTTGGATTCGTTTT
1 AAAATTAGAAGGCTTTTAAAACAAAAACGTCACACGAAGGGGTAGATATTTTTTGGATTCGTTTT
*
1270494 AGCTTGATTCTAGTGTGGTTGTTTGTCAAAGGTTTGAGAATTTCTCCTCACATACGACACTTGCA
66 AGCTTGATTCTAGTGTGGTTGTTTGTCAAAGGTTTGAGAATTTCTCCTCACACACGACACTTGCA
*
1270559 TTGTATAACATA
131 TTGCATAACATA
1270571 AGCTCTATAC
Statistics
Matches: 135, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
166 6 0.04
167 129 0.96
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (166 bp):
AAAATTAGAAGGCTTTTAAAACAAAAACGTCACACGAAGGGGTAGATATTTTTTGGATTCGTTTT
AGCTTGATTCTAGTGTGGTTGTTTGTCAAAGGTTTGAGAATTTCTCCTCACACACGACACTTGCA
TTGCATAACATAGTGTTAATACCCGAGTTATTTATC
Found at i:1273135 original size:23 final size:23
Alignment explanation
Indices: 1273104--1273155 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
1273094 GATATTTGTA
*
1273104 TTTTTTTATG-TTTTAATCACTG
1 TTTTTTTATGATTTGAATCACTG
*
1273126 TTTTATTTATGATTTGATTCACTG
1 TTTT-TTTATGATTTGAATCACTG
1273150 TTTTTT
1 TTTTTT
1273156 ATATTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 4 0.15
23 8 0.31
24 14 0.54
ACGTcount: A:0.17, C:0.08, G:0.10, T:0.65
Consensus pattern (23 bp):
TTTTTTTATGATTTGAATCACTG
Found at i:1273338 original size:20 final size:22
Alignment explanation
Indices: 1273315--1273355 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1273305 TTTCATTTAA
1273315 TTGCC-TTTAATTTA-TTTGAT
1 TTGCCTTTTAATTTAGTTTGAT
1273335 TTGCCTTTTAATTTAGTTTGA
1 TTGCCTTTTAATTTAGTTTGA
1273356 GCCGATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.59
Consensus pattern (22 bp):
TTGCCTTTTAATTTAGTTTGAT
Found at i:1279959 original size:75 final size:75
Alignment explanation
Indices: 1279821--1280012 Score: 217
Period size: 75 Copynumber: 2.6 Consensus size: 75
1279811 TTTATGTTCA
* * * * * * *
1279821 TCTATACTTAATATTATGATTTCAGTCTTAAGATTTGACACTTTAATATTATAGTTTGATTATGG
1 TCTAAACTTAATATTGTGGTTTGAGTCTTGAGATTTGACATTTTAATATTATAGTTTGATTATGA
1279886 ATTTTATTAT
66 ATTTTATTAT
* * * * *
1279896 TCTAGAGTTAATATTGTGGTTTGAATCTTGAGATTTGACATTTTAATATTGTTA-TTTGTTTATG
1 TCTAAACTTAATATTGTGGTTTGAGTCTTGAGATTTGACATTTTAATATT-ATAGTTTGATTATG
*
1279960 AATTTTATTGT
65 AATTTTATTAT
* * *
1279971 TCTAAACTTAATATTGTAGTTTGAGCCTTGATATTTGA-ATTT
1 TCTAAACTTAATATTGTGGTTTGAGTCTTGAGATTTGACATTT
1280013 ATTTATATTT
Statistics
Matches: 98, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
74 4 0.04
75 92 0.94
76 2 0.02
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (75 bp):
TCTAAACTTAATATTGTGGTTTGAGTCTTGAGATTTGACATTTTAATATTATAGTTTGATTATGA
ATTTTATTAT
Found at i:1281352 original size:23 final size:23
Alignment explanation
Indices: 1281325--1281376 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
1281315 CTTGTACTAA
* *
1281325 TACCTCTATAGTGCATCTTCCAT
1 TACCTATAAAGTGCATCTTCCAT
*
1281348 TACCTATAAAGTGCATTTTCC-T
1 TACCTATAAAGTGCATCTTCCAT
*
1281370 TATCTAT
1 TACCTAT
1281377 TGGATTTTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (23 bp):
TACCTATAAAGTGCATCTTCCAT
Found at i:1281858 original size:2 final size:2
Alignment explanation
Indices: 1281851--1281902 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
1281841 AATCAAATGG
1281851 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
1281893 AT AT AT AT AT
1 AT AT AT AT AT
1281903 TGTCCACTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1283096 original size:23 final size:21
Alignment explanation
Indices: 1283050--1283105 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
1283040 GGACCGGCTG
1283050 AAAACCGG--AAAAAATCAAA
1 AAAACCGGAAAAAAAATCAAA
*
1283069 AAAACCCGGAAAAAATAATTAAA
1 AAAA-CCGGAAAAAA-AATCAAA
1283092 AAAACCGGAAAAAA
1 AAAACCGGAAAAAA
1283106 CCGCCAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
22 14 0.44
23 10 0.31
ACGTcount: A:0.68, C:0.14, G:0.11, T:0.07
Consensus pattern (21 bp):
AAAACCGGAAAAAAAATCAAA
Found at i:1293071 original size:11 final size:12
Alignment explanation
Indices: 1293041--1293086 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
1293031 TTGGTGCTGG
1293041 AAACAAGATAAA
1 AAACAAGATAAA
* *
1293053 AAATAAGAT-TA
1 AAACAAGATAAA
1293064 AAACAAGATAAA
1 AAACAAGATAAA
*
1293076 GAA-AAGATAAA
1 AAACAAGATAAA
1293087 GGAATTGCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 17 0.61
12 11 0.39
ACGTcount: A:0.72, C:0.04, G:0.11, T:0.13
Consensus pattern (12 bp):
AAACAAGATAAA
Found at i:1293071 original size:23 final size:22
Alignment explanation
Indices: 1293041--1293083 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
1293031 TTGGTGCTGG
1293041 AAACAAGATAAAAAATAAGATTA
1 AAACAAGATAAAAAA-AAGATTA
*
1293064 AAACAAGATAAAGAAAAGAT
1 AAACAAGATAAAAAAAAGAT
1293084 AAAGGAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AAACAAGATAAAAAAAAGATTA
Found at i:1296625 original size:19 final size:20
Alignment explanation
Indices: 1296603--1296653 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
1296593 ATTTGTTTTA
*
1296603 TTTATTATTATTAATT-TGT
1 TTTATTATTATTAATTATAT
*
1296622 TTTATTGTTATT-ATTATAT
1 TTTATTATTATTAATTATAT
*
1296641 TATATTATTATTA
1 TTTATTATTATTA
1296654 TGAAATAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 23 0.88
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTATTATTATTAATTATAT
Found at i:1296632 original size:22 final size:22
Alignment explanation
Indices: 1296576--1296654 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
1296566 AGTTTTTTTA
* * *
1296576 GTTTTTTTTTTATT-TTCATTT
1 GTTTTATTATTATTATTAATTT
1296597 GTTTTATTTATTATTATTAATTT
1 GTTTTA-TTATTATTATTAATTT
*
1296620 GTTTTATTGTTATTATT-ATATT
1 GTTTTATTATTATTATTAAT-TT
* *
1296642 ATATTATTATTAT
1 GTTTTATTATTAT
1296655 GAAATAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 7 0.15
22 29 0.60
23 12 0.25
ACGTcount: A:0.23, C:0.01, G:0.05, T:0.71
Consensus pattern (22 bp):
GTTTTATTATTATTATTAATTT
Found at i:1298460 original size:2 final size:2
Alignment explanation
Indices: 1298453--1298502 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1298443 AGTCATGTAA
1298453 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
1298495 AT AT AT AT
1 AT AT AT AT
1298503 TTGTTTAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1298666 original size:16 final size:15
Alignment explanation
Indices: 1298644--1298690 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1298634 ATATTTTAAA
1298644 TAAATAAATATATTT
1 TAAATAAATATATTT
*
1298659 TAAA-ATAATATGATTA
1 TAAATA-AATAT-ATTT
*
1298675 TAATTAAATATATTT
1 TAAATAAATATATTT
1298690 T
1 T
1298691 GAATTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 1 0.04
15 13 0.50
16 11 0.42
17 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
TAAATAAATATATTT
Found at i:1305794 original size:83 final size:83
Alignment explanation
Indices: 1305654--1305924 Score: 481
Period size: 83 Copynumber: 3.3 Consensus size: 83
1305644 AAACATTAAC
* * * *
1305654 TGGAAGATGAATTTGCCAATAGCATTTTCTAGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGC
1 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1305719 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
1305737 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGA
1 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-
1305801 CAGAACCAATCATTGAATT
65 CAGAACCAATCATTGAATT
1305820 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1305885 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
*
1305903 TGGAAGATGAATTTGCTCATAG
1 TGGAAGATGAATTTGCTAATAG
1305925 TAGAAATAAG
Statistics
Matches: 181, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
82 4 0.02
83 173 0.96
84 4 0.02
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.37
Consensus pattern (83 bp):
TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
AGAACCAATCATTGAATT
Found at i:1308449 original size:22 final size:22
Alignment explanation
Indices: 1308387--1308460 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 22
1308377 TACACTCTTT
*
1308387 AAAGATGATAGATTCTCTCTTC
1 AAAGATGATAGATTCTCTTTTC
*
1308409 AAAGATGATAGATTCTCTTTTT
1 AAAGATGATAGATTCTCTTTTC
*
1308431 AAAGATGATAAATTCTCTTTTC
1 AAAGATGATAGATTCTCTTTTC
*
1308453 AAATATGA
1 AAAGATGA
1308461 AAGCTTTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (22 bp):
AAAGATGATAGATTCTCTTTTC
Found at i:1309066 original size:112 final size:112
Alignment explanation
Indices: 1308898--1309532 Score: 938
Period size: 112 Copynumber: 5.6 Consensus size: 112
1308888 ATTTCCGGAA
*
1308898 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAATAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAAGTTCATAATGAGAAGAACTTGTT
1308963 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGTTAGGTC
65 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGTTAGGTC
* *
1309011 GAGTTCATAATGAGAAGAACTCATTTGAAGAAAGTGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
1309076 AACTTTTCGCTCGAATTCATCACTCGATGGATCAAC-TTGTTAGAG-A
66 AACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGTTAG-GTC
*
1309122 GAGTTCATAATGAGAAGAACTCATATGAAGACGAA-AGAAGAAGTTCATAATGAGAAGAACTTGT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGA--AAGAGAAGAAGTTCATAATGAGAAGAACTTGT
* * **
1309186 TCAAATTTTCGCTTAAATTCATCATTCGATGGATCAGCATTGCCAGGTC
64 TCAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGTTAGGTC
1309235 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AGAAGAAGTTCATAATGAGAAGAACTTGTT
* *
1309300 CAATTTTTAGCTTGAATTCATCATTCGATGGATCAGCATTGTTAGGTC
65 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGTTAGGTC
* * * *
1309348 GAGTTCATAATGAGAAGAACTCATTTGAAGAAAGTGAAGAAGTTCATAATGAGAAGAACTCGCTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * * *
1309413 AACTTTTCGCTCGAATTCATCACTCGATAGATCAAC-TTGTTAAAG-A
66 AACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGTT-AGGTC
*
1309459 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAA-AGAGAAGAAGTTCATAATGAGAAGAACTTGTT
1309524 CAATCTTTT
65 CAA-CTTTT
1309533 GCATAATTCT
Statistics
Matches: 472, Mismatches: 40, Indels: 20
0.89 0.08 0.04
Matches are distributed among these distances:
111 75 0.16
112 216 0.46
113 181 0.38
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (112 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTCGCTTGAATTCATCATTCGATGGATCAGCATTGTTAGGTC
Found at i:1309513 original size:337 final size:336
Alignment explanation
Indices: 1308864--1309526 Score: 1182
Period size: 337 Copynumber: 2.0 Consensus size: 336
1308854 GCAAAGATTC
*
1308864 AAATCCATCATTCAATGGATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AAATCCATCATTCAATGGATCAACATTGCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
1308929 AAGAATAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGG
66 AAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTAGCTTGAATTCATCATTCGATGG
1308994 ATCAGCATTGTTAGGTCGAGTTCATAATGAGAAGAACTCATTTGAAGAAAGTGAAGAAGTTCATA
131 ATCAGCATTGTTAGGTCGAGTTCATAATGAGAAGAACTCATTTGAAGAAAGTGAAGAAGTTCATA
* * * *
1309059 ATGAGAAGAACTTGTTCAACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTGTTAGAGAGA
196 ATGAGAAGAACTCGCTCAACTTTTCGCTCGAATTCATCACTCGATAGATCAACTTGTTAAAGAGA
*
1309124 GTTCATAATGAGAAGAACTCATATGAAGACGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
261 GTTCATAATGAGAAGAACTCATATGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1309189 AATTTTCGCTT
326 AATTTTCGCTT
* * * **
1309200 AAATTCATCATTCGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTCAATGGATCAACATTGCC-GGAAGAGTTCATAATGAGAAGAACTCATCTGAAG
*
1309265 AAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATTTTTAGCTTGAATTCATCATTCGATG
65 AAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTAGCTTGAATTCATCATTCGATG
1309330 GATCAGCATTGTTAGGTCGAGTTCATAATGAGAAGAACTCATTTGAAGAAAGTGAAGAAGTTCAT
130 GATCAGCATTGTTAGGTCGAGTTCATAATGAGAAGAACTCATTTGAAGAAAGTGAAGAAGTTCAT
1309395 AATGAGAAGAACTCGCTCAACTTTTCGCTCGAATTCATCACTCGATAGATCAACTTGTTAAAGAG
195 AATGAGAAGAACTCGCTCAACTTTTCGCTCGAATTCATCACTCGATAGATCAACTTGTTAAAGAG
*
1309460 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
260 AGTTCATAATGAGAAGAACTCATATGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1309525 AA
325 AA
1309527 TCTTTTGCAT
Statistics
Matches: 311, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
336 26 0.08
337 285 0.92
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (336 bp):
AAATCCATCATTCAATGGATCAACATTGCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGA
AAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTAGCTTGAATTCATCATTCGATGG
ATCAGCATTGTTAGGTCGAGTTCATAATGAGAAGAACTCATTTGAAGAAAGTGAAGAAGTTCATA
ATGAGAAGAACTCGCTCAACTTTTCGCTCGAATTCATCACTCGATAGATCAACTTGTTAAAGAGA
GTTCATAATGAGAAGAACTCATATGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
AATTTTCGCTT
Found at i:1309900 original size:24 final size:23
Alignment explanation
Indices: 1309856--1309899 Score: 74
Period size: 21 Copynumber: 2.0 Consensus size: 23
1309846 TTTTTTTTTC
1309856 ATTTGTTTTATTTATTATTATTA
1 ATTTGTTTTATTTATTATTATTA
1309879 ATTTG-TTT-TTTATTATTATTA
1 ATTTGTTTTATTTATTATTATTA
1309900 TATTATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.62
22 3 0.14
23 5 0.24
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (23 bp):
ATTTGTTTTATTTATTATTATTA
Found at i:1311718 original size:2 final size:2
Alignment explanation
Indices: 1311711--1311755 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1311701 CTTAGTCATG
1311711 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1311753 TA T
1 TA T
1311756 TTGTTTAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1311920 original size:16 final size:15
Alignment explanation
Indices: 1311898--1311944 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1311888 ATATTTTAAA
1311898 TAAATAAATATATTT
1 TAAATAAATATATTT
*
1311913 TAAA-ATAATATGATTA
1 TAAATA-AATAT-ATTT
*
1311929 TAATTAAATATATTT
1 TAAATAAATATATTT
1311944 T
1 T
1311945 GAATTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 1 0.04
15 13 0.50
16 11 0.42
17 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
TAAATAAATATATTT
Found at i:1313109 original size:18 final size:18
Alignment explanation
Indices: 1313086--1313128 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
1313076 TCGTTTGCAA
1313086 TTTTTTTGAAATTTTGGC
1 TTTTTTTGAAATTTTGGC
* ***
1313104 TTTTTTGGTTTTTTTGGC
1 TTTTTTTGAAATTTTGGC
1313122 TTTTTTT
1 TTTTTTT
1313129 TGTTTTTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.05, G:0.16, T:0.72
Consensus pattern (18 bp):
TTTTTTTGAAATTTTGGC
Found at i:1313134 original size:18 final size:18
Alignment explanation
Indices: 1313097--1313137 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
1313087 TTTTTTGAAA
1313097 TTTTGGCTTTTTTGGTTT
1 TTTTGGCTTTTTTGGTTT
*
1313115 TTTTGGCTTTTTTTTGTTT
1 TTTTGGC-TTTTTTGGTTT
1313134 TTTT
1 TTTT
1313138 TTTTGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.00, C:0.05, G:0.17, T:0.78
Consensus pattern (18 bp):
TTTTGGCTTTTTTGGTTT
Found at i:1313138 original size:9 final size:9
Alignment explanation
Indices: 1313097--1313137 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
1313087 TTTTTTGAAA
*
1313097 TTTTGGCTT
1 TTTTGGTTT
1313106 TTTTGGTTT
1 TTTTGGTTT
1313115 TTTTGGCTTT
1 TTTTGG-TTT
*
1313125 TTTTTGTTT
1 TTTTGGTTT
1313134 TTTT
1 TTTT
1313138 TTTTGAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.00, C:0.05, G:0.17, T:0.78
Consensus pattern (9 bp):
TTTTGGTTT
Found at i:1313503 original size:23 final size:23
Alignment explanation
Indices: 1313470--1313513 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1313460 TTGGTGTTGG
* *
1313470 AAACAATATAAAAAATAAGATTA
1 AAACAAGATAAAAAAAAAGATTA
1313493 AAACAAGATAAAAAAAAAGAT
1 AAACAAGATAAAAAAAAAGAT
1313514 AAAGGAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.16
Consensus pattern (23 bp):
AAACAAGATAAAAAAAAAGATTA
Found at i:1313507 original size:12 final size:12
Alignment explanation
Indices: 1313470--1313516 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
1313460 TTGGTGTTGG
*
1313470 AAACAATATAAA
1 AAACAAGATAAA
* *
1313482 AAATAAGAT-TA
1 AAACAAGATAAA
1313493 AAACAAGATAAA
1 AAACAAGATAAA
*
1313505 AAAAAAGATAAA
1 AAACAAGATAAA
1313517 GGAATTGCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.15
Consensus pattern (12 bp):
AAACAAGATAAA
Found at i:1315913 original size:20 final size:20
Alignment explanation
Indices: 1315884--1315957 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
1315874 GCAGCCTTCG
* *
1315884 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCATGA
*
1315904 TGCATCGATGCACAGCCTTGA
1 TGCATCGATGCACAG-CATGA
* *
1315925 TGCATCGATGCATAGAATGA
1 TGCATCGATGCACAGCATGA
*
1315945 TGCATCAATGCAC
1 TGCATCGATGCAC
1315958 TAATTGCATT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 28 0.62
21 17 0.38
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.22
Consensus pattern (20 bp):
TGCATCGATGCACAGCATGA
Found at i:1315928 original size:21 final size:21
Alignment explanation
Indices: 1315875--1315936 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
1315865 CTAGCCGTTG
*
1315875 CAGCCTTCG-TGCATGGATGCA
1 CAGCCTT-GATGCATCGATGCA
**
1315896 CAG-CAGGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
1315916 CAGCCTTGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
1315937 TAGAATGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.03
20 15 0.44
21 18 0.53
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.21
Consensus pattern (21 bp):
CAGCCTTGATGCATCGATGCA
Found at i:1315935 original size:41 final size:41
Alignment explanation
Indices: 1315875--1315957 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
1315865 CTAGCCGTTG
* * *
1315875 CAGCCTTCGTGCATGGATGCACAGCAGGATGCATCGATGCA
1 CAGCCTTCGTGCATCGATGCACAGAAGGATGCATCAATGCA
* *
1315916 CAGCCTT-GATGCATCGATGCATAGAATGATGCATCAATGCA
1 CAGCCTTCG-TGCATCGATGCACAGAAGGATGCATCAATGCA
1315957 C
1 C
1315958 TAATTGCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
40 1 0.03
41 35 0.97
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (41 bp):
CAGCCTTCGTGCATCGATGCACAGAAGGATGCATCAATGCA
Found at i:1316025 original size:22 final size:23
Alignment explanation
Indices: 1315992--1316034 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1315982 ATGGATGCAC
1315992 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
1316015 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
1316035 GCAGGGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:1316047 original size:21 final size:20
Alignment explanation
Indices: 1315978--1316076 Score: 128
Period size: 21 Copynumber: 4.8 Consensus size: 20
1315968 CGGTGTTTGA
*
1315978 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCAGG
*
1315998 GTGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
1316020 GTGCATGGATGCACTGCAGG
1 GTGCATGGATGCACTGCAGG
1316040 GATGCATGGATGCACTGCAGGG
1 G-TGCATGGATGCACTGCA-GG
1316062 GTGCATGGATGCACT
1 GTGCATGGATGCACT
1316077 TTGACACCCT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
19 4 0.06
20 15 0.21
21 31 0.44
22 17 0.24
23 4 0.06
ACGTcount: A:0.21, C:0.20, G:0.36, T:0.22
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Found at i:1316203 original size:30 final size:30
Alignment explanation
Indices: 1316156--1316214 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
1316146 AAACTTTGAA
1316156 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
*
1316185 TAAATTTAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAACCATTTT
1316215 TCCTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.37
30 11 0.41
31 6 0.22
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:1317532 original size:19 final size:20
Alignment explanation
Indices: 1317489--1317536 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1317479 TCTAAATCCT
*
1317489 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
1317509 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
1317528 TTTTCAAAA
1 TTTTCAAAA
1317537 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:1318698 original size:20 final size:22
Alignment explanation
Indices: 1318673--1318712 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1318663 TGTTGTATAT
1318673 AGCCG-TTGGGGAT-GTTTTGG
1 AGCCGTTTGGGGATGGTTTTGG
1318693 AGCCGTTTGGGGATGGTTTT
1 AGCCGTTTGGGGATGGTTTT
1318713 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 8 0.44
22 5 0.28
ACGTcount: A:0.10, C:0.10, G:0.42, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGGTTTTGG
Found at i:1319067 original size:29 final size:29
Alignment explanation
Indices: 1319046--1319103 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
1319036 AAACTTTGAA
1319046 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
1319075 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
1319104 TTCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:1319093 original size:30 final size:30
Alignment explanation
Indices: 1319046--1319104 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
1319036 AAACTTTGAA
1319046 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
1319075 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAACCATTTT
1319105 TCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:1323193 original size:22 final size:22
Alignment explanation
Indices: 1323165--1323208 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1323155 ACTGTCGTTA
1323165 GATTTTTAATA-GATTATTGACT
1 GATTTTT-ATAGGATTATTGACT
1323187 GATTTTTATAGGATTATTGACT
1 GATTTTTATAGGATTATTGACT
1323209 TTATACGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.50
Consensus pattern (22 bp):
GATTTTTATAGGATTATTGACT
Found at i:1327343 original size:13 final size:13
Alignment explanation
Indices: 1327310--1327345 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1327300 ATAATAATAA
*
1327310 TTCAAAAATACTT
1 TTCAAAATTACTT
*
1327323 CTCAAAATTACTT
1 TTCAAAATTACTT
1327336 TTCAAAATTA
1 TTCAAAATTA
1327346 TATTTTCACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (13 bp):
TTCAAAATTACTT
Found at i:1327724 original size:22 final size:22
Alignment explanation
Indices: 1327696--1327740 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1327686 GTGTATCACA
1327696 TCATTGCTTTGAACACATGTCT
1 TCATTGCTTTGAACACATGTCT
1327718 TCATTGCTTTGAACACATGTCT
1 TCATTGCTTTGAACACATGTCT
1327740 T
1 T
1327741 GTTACTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (22 bp):
TCATTGCTTTGAACACATGTCT
Found at i:1327852 original size:24 final size:24
Alignment explanation
Indices: 1327825--1327881 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
1327815 ATAAAACTTT
1327825 AAATATTCTAAAAAATACGAGCTA
1 AAATATTCTAAAAAATACGAGCTA
1327849 AAATATTCTAAAAAATACGAGCTA
1 AAATATTCTAAAAAATACGAGCTA
1327873 AAATATTCT
1 AAATATTCT
1327882 TCAATTAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (24 bp):
AAATATTCTAAAAAATACGAGCTA
Found at i:1337030 original size:29 final size:29
Alignment explanation
Indices: 1336998--1337053 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
1336988 TTTGATGTGT
*
1336998 TTCAGGGAGAGTCTTTGGTTGTTCATAAC
1 TTCAGGGAGAGTCTTAGGTTGTTCATAAC
*
1337027 TTCAGGGAGATTCTTAGGTTGTTCATA
1 TTCAGGGAGAGTCTTAGGTTGTTCATA
1337054 TTCTTAGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.39
Consensus pattern (29 bp):
TTCAGGGAGAGTCTTAGGTTGTTCATAAC
Found at i:1337058 original size:17 final size:17
Alignment explanation
Indices: 1337036--1337070 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1337026 CTTCAGGGAG
1337036 ATTCTTAGGTTGTTCAT
1 ATTCTTAGGTTGTTCAT
1337053 ATTCTTAGGTTGTTCAT
1 ATTCTTAGGTTGTTCAT
1337070 A
1 A
1337071 GAGTGATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.51
Consensus pattern (17 bp):
ATTCTTAGGTTGTTCAT
Found at i:1350667 original size:32 final size:32
Alignment explanation
Indices: 1350606--1350667 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
1350596 AGTAAACATC
* * * *
1350606 TCAATTCATACGTCTATAGCCAAGGAAGCACG
1 TCAATTCATACGTCTAAAACAAAGCAAGCACG
1350638 TCAATTCATACGTCTAAAACAAAGCAAGCA
1 TCAATTCATACGTCTAAAACAAAGCAAGCA
1350668 GTTCAAGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (32 bp):
TCAATTCATACGTCTAAAACAAAGCAAGCACG
Found at i:1351653 original size:2 final size:2
Alignment explanation
Indices: 1351646--1351671 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1351636 TACCATCATA
1351646 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
1351672 TAAAAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1375850 original size:20 final size:20
Alignment explanation
Indices: 1375811--1375851 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1375801 ATTCCACCAC
*
1375811 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
* *
1375831 ATGCATCTATATGATTCTAA
1 ATGCAACTATATGATCCTAA
1375851 A
1 A
1375852 CGGGATCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:1380949 original size:3 final size:3
Alignment explanation
Indices: 1380941--1381002 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
1380931 ACCGTTAAAC
* * *
1380941 ATT ATT ATT ATT ATT ATT ATT A-T ATT AGT ATT TTT ATAA ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
1380986 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
1381003 AAAACCGGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.92
4 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1381264 original size:21 final size:22
Alignment explanation
Indices: 1381211--1381265 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
1381201 CATAATTATT
* *
1381211 TAAAAAAATTAAATAAAAATAC
1 TAAAAACATTTAATAAAAATAC
1381233 TAAAAACATTTAATAAAAA-AC
1 TAAAAACATTTAATAAAAATAC
1381254 TAAAAACATTTA
1 TAAAAACATTTA
1381266 TGTTGAACCG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAAAACATTTAATAAAAATAC
Found at i:1385325 original size:20 final size:21
Alignment explanation
Indices: 1385295--1385336 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1385285 AATAGGATAG
1385295 AAAAAAGTATAATTAAAATAT
1 AAAAAAGTATAATTAAAATAT
* *
1385316 AAAAAA-TATATTTAATATAT
1 AAAAAAGTATAATTAAAATAT
1385336 A
1 A
1385337 GATAAATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAAAGTATAATTAAAATAT
Found at i:1387786 original size:21 final size:21
Alignment explanation
Indices: 1387748--1387816 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
1387738 GCCATCTCCG
1387748 CAGGGTTACATT-CTAGCCCT
1 CAGGGTTACATTCCTAGCCCT
*
1387768 CAGGGTTACATTCCTAGCCCGC
1 CAGGGTTACATTCCTAGCCC-T
*
1387790 CA-GGTTACATGCCTAGCCCT
1 CAGGGTTACATTCCTAGCCCT
*
1387810 TAGGGTT
1 CAGGGTT
1387817 TTATGACACC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 13 0.31
21 27 0.64
22 2 0.05
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (21 bp):
CAGGGTTACATTCCTAGCCCT
Found at i:1388373 original size:34 final size:34
Alignment explanation
Indices: 1388334--1388406 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
1388324 TTAAATGTTT
**
1388334 TTAAAATACAAATTATAGTATTTGAAATTTAAAA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
*
1388368 TTAAAATACAAATTATAGTATTCAAAATTTAACA
1 TTAAAATACAAATTATAGTATTCAAAATTTAAAA
1388402 TTAAA
1 TTAAA
1388407 TTCAACTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.37
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCAAAATTTAAAA
Found at i:1388644 original size:23 final size:22
Alignment explanation
Indices: 1388615--1388780 Score: 93
Period size: 23 Copynumber: 7.8 Consensus size: 22
1388605 TTATCACTTT
*
1388615 ACATTTATTCAATTTATCCATA
1 ACATTTATCCAATTTATCCATA
*
1388637 ACATTTTATCCAATTTATTCA-A
1 ACA-TTTATCCAATTTATCCATA
* *
1388659 ACA---A-CCAACTAAT-CACTA
1 ACATTTATCCAATTTATCCA-TA
*
1388677 CACATTTATTCAATTTATCCATA
1 -ACATTTATCCAATTTATCCATA
* *
1388700 ACATTTTATCTAATTTATTCA-A
1 ACA-TTTATCCAATTTATCCATA
* * * *
1388722 ACA---A-CCAACTGATCACTTC
1 ACATTTATCCAATTTATC-CATA
*
1388741 ACATTTATTCAATTTATCCATA
1 ACATTTATCCAATTTATCCATA
1388763 ACATTTTATCCAATTTAT
1 ACA-TTTATCCAATTTAT
1388781 TCAAACTTCA
Statistics
Matches: 105, Mismatches: 22, Indels: 33
0.66 0.14 0.21
Matches are distributed among these distances:
16 2 0.02
17 13 0.12
18 4 0.04
19 6 0.06
22 21 0.20
23 57 0.54
24 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.01, T:0.40
Consensus pattern (22 bp):
ACATTTATCCAATTTATCCATA
Found at i:1388695 original size:63 final size:63
Alignment explanation
Indices: 1388596--1388786 Score: 337
Period size: 63 Copynumber: 3.0 Consensus size: 63
1388586 TTTCAATGTC
* *
1388596 ACAACCAACTTATCACTTTACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
1 ACAACCAACTAATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
* *
1388659 ACAACCAACTAATCACTACACATTTATTCAATTTATCCATAACATTTTATCTAATTTATTCAA
1 ACAACCAACTAATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
*
1388722 ACAACCAACTGATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
1 ACAACCAACTAATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
1388785 AC
1 AC
1388787 TTCACATAAC
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 121 1.00
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.39
Consensus pattern (63 bp):
ACAACCAACTAATCACTTCACATTTATTCAATTTATCCATAACATTTTATCCAATTTATTCAA
Found at i:1389153 original size:127 final size:124
Alignment explanation
Indices: 1388916--1389491 Score: 653
Period size: 127 Copynumber: 4.6 Consensus size: 124
1388906 CCATCCATCT
*
1388916 ATAGTTCCCCGGGGGATATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
1388981 GGAAGGCACGCCCCCGGGAA-CGTACTTTCAAGTCCCCT-AAGAAATAATAGTTACTGACATGA
66 -GAAGGCA-GCCCCCGGGAAGCG-A-TTTCAAGTCCCCTCAA-AAATAATAGGTACTGACATGA
* ***
1389043 ATAGCTCCCCGGGGGACATGAGTGACATAATAACCCAATGATAACATATTCTCTGACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1389108 GTAAGGCTAGCCCCCGGGAATGCGATTTCAAGTCCCCTCAAAAATAATAGGTACTGACATGA
66 G-AAGGC-AGCCCCCGGGAA-GCGATTTCAAGTCCCCTCAAAAATAATAGGTACTGACATGA
* * * * *
1389170 ATAGTTCCCTGAGGGACATGAGTAACATAATAGGGCAATGATAATATATTCTCTAACAAAATAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
1389235 AGAAGGC-GCCCCCCCGGGAACGCGCTTTCAAGTCCCCTCATAATTAATAGGTACTGACATGA
66 -GAAGGCAG--CCCCCGGGAA-GCGATTTCAAGTCCCCTCAAAAATAATAGGTACTGACATGA
* *
1389297 ATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAACAAT
1 ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * * *
1389362 CGAAGGC-GCCCCCCTGAGAACGCGCTTTC-A--CCACT------T--TGGGTACTGACATGA
66 -GAAGGCAG-CCCCC-GGGAA-GCGATTTCAAGTCCCCTCAAAAATAATAGGTACTGACATGA
* ** * *
1389413 ATAGTGCCCCTAAGGGACATGAGTGACATAATAGGGTAATGATAACATATTCACTGACAAAATAA
1 ATAGTTCCCC-GGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAA
1389478 TGGAAGGC-GCCCCC
65 T-GAAGGCAGCCCCC
1389492 CTAAGAACGC
Statistics
Matches: 403, Mismatches: 36, Indels: 31
0.86 0.08 0.07
Matches are distributed among these distances:
116 28 0.07
117 58 0.14
118 1 0.00
124 4 0.01
125 1 0.00
126 8 0.02
127 296 0.73
128 5 0.01
129 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (124 bp):
ATAGTTCCCCGGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GAAGGCAGCCCCCGGGAAGCGATTTCAAGTCCCCTCAAAAATAATAGGTACTGACATGA
Found at i:1389489 original size:117 final size:116
Alignment explanation
Indices: 1389284--1389503 Score: 368
Period size: 117 Copynumber: 1.9 Consensus size: 116
1389274 ATAATTAATA
* * *
1389284 GGTACTGACATGAATAGTTCCCCAGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT
1 GGTACTGACATGAATAGTGCCCCAAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCA
*
1389349 CTGACAAAACAATCGAAGGCGCCCCCCTGAGAACGCGCTTTCACCACTTTG
66 CTGACAAAACAATCGAAGGCGCCCCCCTAAGAACGCGCTTTCACCACTTTG
*
1389400 GGTACTGACATGAATAGTGCCCCTAAGGGACATGAGTGACATAATAGGGTAATGATAACATATTC
1 GGTACTGACATGAATAGTGCCCC-AAGGGACATGAGTGACATAATAGGGCAATGATAACATATTC
* *
1389465 ACTGACAAAATAATGGAAGGCGCCCCCCTAAGAACGCGC
65 ACTGACAAAACAATCGAAGGCGCCCCCCTAAGAACGCGC
1389504 CCCCAAGAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
116 22 0.23
117 74 0.77
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (116 bp):
GGTACTGACATGAATAGTGCCCCAAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCA
CTGACAAAACAATCGAAGGCGCCCCCCTAAGAACGCGCTTTCACCACTTTG
Found at i:1389549 original size:117 final size:115
Alignment explanation
Indices: 1389291--1389536 Score: 289
Period size: 117 Copynumber: 2.1 Consensus size: 115
1389281 ATAGGTACTG
* * * *
1389291 ACATGAATAGTTCCCC-AGGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACA
1 ACATGAATAGTACCCCTAAGAGACATGAGTGACATAATAGGGCAATGATAACATATTCACTGACA
* ** * * *
1389355 AAACAATCGAAGGCGCCCCCCTGAGAACGCGCTTTCACCACTTTGGGTACTG
66 AAACAATCGAAGGCGCCCCCCTAAGAACGCGC--TCACCACAATGCGCACTC
* * *
1389407 ACATGAATAGTGCCCCTAAGGGACATGAGTGACATAATAGGGTAATGATAACATATTCACTGACA
1 ACATGAATAGTACCCCTAAGAGACATGAGTGACATAATAGGGCAATGATAACATATTCACTGACA
* * * * *
1389472 AAATAATGGAAGGCGCCCCCCTAAGAACGCGC-CCCCAAGAATGCGCATTC
66 AAACAATCGAAGGCGCCCCCCTAAGAACGCGCTCACC-ACAATGCGCACTC
1389522 ACATGAATAGTACCC
1 ACATGAATAGTACCC
1389537 TGGTTATAGA
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
114 3 0.03
115 20 0.18
116 15 0.13
117 74 0.66
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.20
Consensus pattern (115 bp):
ACATGAATAGTACCCCTAAGAGACATGAGTGACATAATAGGGCAATGATAACATATTCACTGACA
AAACAATCGAAGGCGCCCCCCTAAGAACGCGCTCACCACAATGCGCACTC
Found at i:1393940 original size:24 final size:24
Alignment explanation
Indices: 1393912--1393957 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1393902 GGGATTCGGT
*
1393912 GGAAAATAAA-AAAATCAAGCAAAA
1 GGAAAA-AAAGAAAAGCAAGCAAAA
1393936 GGAAAAAAAGAAAAGCAAGCAA
1 GGAAAAAAAGAAAAGCAAGCAA
1393958 GAAGACAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.70, C:0.09, G:0.17, T:0.04
Consensus pattern (24 bp):
GGAAAAAAAGAAAAGCAAGCAAAA
Found at i:1394840 original size:25 final size:26
Alignment explanation
Indices: 1394799--1394867 Score: 61
Period size: 25 Copynumber: 2.7 Consensus size: 26
1394789 CCTAATTTTT
* *
1394799 ATATTTTTATTTA-TTTTAGAAATTA
1 ATATTTTTCTTAATTTTTAGAAATTA
** **
1394824 ATA-TTTTCTTAATTTTTTTATTTTA
1 ATATTTTTCTTAATTTTTAGAAATTA
*
1394849 ATATTTTTCTTATTTTTTA
1 ATATTTTTCTTAATTTTTA
1394868 TTTATTTCTC
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
24 7 0.21
25 14 0.41
26 13 0.38
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (26 bp):
ATATTTTTCTTAATTTTTAGAAATTA
Found at i:1394979 original size:29 final size:29
Alignment explanation
Indices: 1394898--1394986 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 29
1394888 TGTTTTCATA
* * *
1394898 TTATTATTATTTTTATCTT-AAA-TTTTT
1 TTATTTTTAATTTAATCTTCAAATTTTTT
*
1394925 TTATTTTTAATTTAATCTTCTAATTTTTT
1 TTATTTTTAATTTAATCTTCAAATTTTTT
*
1394954 TTCTTTTT-ATTTAA-CATTCAATATTTTATT
1 TTATTTTTAATTTAATC-TTCAA-ATTTT-TT
1394984 TTA
1 TTA
1394987 CCATCTAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
27 17 0.34
28 12 0.24
29 17 0.34
30 4 0.08
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (29 bp):
TTATTTTTAATTTAATCTTCAAATTTTTT
Found at i:1394980 original size:28 final size:30
Alignment explanation
Indices: 1394919--1394980 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
1394909 TTTATCTTAA
1394919 ATTTTTTTATTTTTAATTTAATCTTCTAAT
1 ATTTTTTTATTTTTAATTTAATCTTCTAAT
*
1394949 -TTTTTTTCTTTTT-ATTTAA-CATTC-AAT
1 ATTTTTTTATTTTTAATTTAATC-TTCTAAT
1394976 ATTTT
1 ATTTT
1394981 ATTTTACCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
27 4 0.14
28 13 0.45
29 12 0.41
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (30 bp):
ATTTTTTTATTTTTAATTTAATCTTCTAAT
Found at i:1394986 original size:20 final size:19
Alignment explanation
Indices: 1394958--1395000 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
1394948 TTTTTTTTCT
1394958 TTTTATTTAACAT-TCAATA
1 TTTTATTTAACATCT-AATA
*
1394977 TTTTATTTTACCATCTAATA
1 TTTTA-TTTAACATCTAATA
1394997 TTTT
1 TTTT
1395001 GTATATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 15 0.71
21 1 0.05
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTATTTAACATCTAATA
Found at i:1395246 original size:16 final size:17
Alignment explanation
Indices: 1395211--1395248 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1395201 AGACTAATTT
*
1395211 TTTTGTCTTAAAAATGA
1 TTTTGTCTTAAAAATAA
*
1395228 TTTT-TCTTAAAATTAA
1 TTTTGTCTTAAAAATAA
1395244 TTTTG
1 TTTTG
1395249 AAGACTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (17 bp):
TTTTGTCTTAAAAATAA
Found at i:1397822 original size:2 final size:2
Alignment explanation
Indices: 1397815--1397841 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1397805 TTGTTTCATT
1397815 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 T
1397842 CCCTTGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1399192 original size:32 final size:32
Alignment explanation
Indices: 1399156--1399244 Score: 124
Period size: 32 Copynumber: 2.8 Consensus size: 32
1399146 AGGAACAATG
*
1399156 GGGGCATCTTTGAAGATTCAACATCAAATGTT
1 GGGGCATCTTTGAAGATTCAACATCAAATATT
* * *
1399188 GGGGCATTTTTGGAGATTCAACATCGAATATT
1 GGGGCATCTTTGAAGATTCAACATCAAATATT
**
1399220 GGGGCATCTTTGTGGATTCAACATC
1 GGGGCATCTTTGAAGATTCAACATC
1399245 CTGATGCGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (32 bp):
GGGGCATCTTTGAAGATTCAACATCAAATATT
Found at i:1399681 original size:55 final size:55
Alignment explanation
Indices: 1399615--1399817 Score: 158
Period size: 55 Copynumber: 3.5 Consensus size: 55
1399605 AGCTATCCAC
1399615 GATTTCAACTTCACGATGAAGGATATCGTGCCCACAAGCAACAATGCAACCCTTG
1 GATTTCAACTTCACGATGAAGGATATCGTGCCCACAAGCAACAATGCAACCCTTG
* * * * * *
1399670 GATTTCAACTTCAGGATGAAGGATATCCAATTCAAAGCTCAACTTCA-CAACGAA-GGAGCCATC
1 GATTTCAACTTCACGATGAAGGATAT-C--GT----GC-CCAC--AAGCAAC-AATGCAACC--C
***
1399733 CAC
53 TTG
* * *
1399736 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATACAACCATTG
1 GATTTCAACTTCACGATGAAGGATATCGTGCCCACAAGCAACAATGCAACCCTTG
*
1399791 GATTTCAACTTCACGATGAAAGATATC
1 GATTTCAACTTCACGATGAAGGATATC
1399818 CAATTCAAAG
Statistics
Matches: 110, Mismatches: 23, Indels: 30
0.67 0.14 0.18
Matches are distributed among these distances:
55 50 0.45
56 4 0.04
57 7 0.06
58 4 0.04
59 2 0.02
62 2 0.02
63 4 0.04
64 8 0.07
65 4 0.04
66 25 0.23
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (55 bp):
GATTTCAACTTCACGATGAAGGATATCGTGCCCACAAGCAACAATGCAACCCTTG
Found at i:1399691 original size:121 final size:121
Alignment explanation
Indices: 1399545--1399888 Score: 571
Period size: 121 Copynumber: 2.8 Consensus size: 121
1399535 CTTACACAAG
* * *
1399545 CTTGGATTTCAACTTGACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCTA
1 CTTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCA
* *
1399610 TCCACGATTTCAACTTCACGATGAAGGATATCGTGCCCACAAGCAACAATGCAACC
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATACAACC
* *
1399666 CTTGGATTTCAACTTCAGGATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCA
1 CTTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCA
1399731 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATACAACC
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATACAACC
* * * *
1399787 ATTGGATTTCAACTTCACGATGAAAGATATCCAATTCAAAGCTCAACTTCACAACGAATTAACCA
1 CTTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCA
* *
1399852 TCCACGATTTCAACTTCACGACAAAGGATATCATGCC
66 TCCACGATTTCAACTTCACGACGAAGGATATCGTGCC
1399889 TAATGGGTCG
Statistics
Matches: 208, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 208 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (121 bp):
CTTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCA
TCCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAACAATACAACC
Found at i:1400098 original size:85 final size:85
Alignment explanation
Indices: 1399943--1400153 Score: 235
Period size: 85 Copynumber: 2.5 Consensus size: 85
1399933 CCCAGCCCAG
* * * * ** *
1399943 TACATCATAACTCATGGCGAGAAGGGTTATCTGTCAACCAAGACCTTTGAGTTTGATTACACTCA
1 TACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCCTCAAGTTCGATTACACTCA
* *
1400008 GCTCAAAGGGATATCAAATT
66 GCTCAAAGGCAGATCAAATT
* * *
1400028 TACAGCATAACTCAAGGCGAGAAGGGTTATTTGTCATCAAAGACCCTCAAGTTCGATTACATTCA
1 TACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCCTCAAGTTCGATTACACTCA
* *
1400093 TCTCAAAGGCAGGTCAAATT
66 GCTCAAAGGCAGATCAAATT
* * ** *
1400113 CACAGCATAACTTC-AGTCGAGAAAAGTTATCTGTAAACAAA
1 TACAGCATAAC-TCAAGGCGAGAAGGGTTATCTGTCAACAAA
1400154 AGTTATCGGG
Statistics
Matches: 104, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
85 102 0.98
86 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (85 bp):
TACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCCTCAAGTTCGATTACACTCA
GCTCAAAGGCAGATCAAATT
Found at i:1401128 original size:133 final size:131
Alignment explanation
Indices: 1400850--1401130 Score: 296
Period size: 133 Copynumber: 2.1 Consensus size: 131
1400840 CACAAAAATT
* *
1400850 TGTCATCCACCGACCAGATATCCTCATCACGCAGGAGCCGTGTCAACTTTAGATAACTAGCCGTC
1 TGTCATCCACCGACCAGATATCCTCATCACGCAGGAGCCATGTCAACCTTAGATAACTAGCCGTC
* ** * * * *
1400915 CTTATCATGTAGTAACCATGTTATCATCCCTAACGATGACATGTCATCCTCATCACACAAGAACT
66 CTCATCACATAGGAACCATGTTATCATCCCTAACAATGACATATCATCCTCATCACACAAGAACC
1400980 G
131 G
* * * * * **
1400981 TGTTATCCACCGACCAGATCTCCTCATCTCATGTAGGATCCATGTCAACCTTAGATAA-TCAGTT
1 TGTCATCCACCGACCAGATATCCTCA--TCACGCAGGAGCCATGTCAACCTTAGATAACT-AGCC
* * ** * ** *
1401045 GTCCTCATCACATAGGAACCGTGTTATCATCCCTAATAATGGTATATTATCCTCATCACGTAGGA
63 GTCCTCATCACATAGGAACCATGTTATCATCCCTAACAATGACATATCATCCTCATCACACAAGA
1401110 ACCG
128 ACCG
1401114 TGTCATCC-CTCGACCAG
1 TGTCATCCAC-CGACCAG
1401131 CCGTTCTCAT
Statistics
Matches: 121, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
131 24 0.20
132 2 0.02
133 95 0.79
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (131 bp):
TGTCATCCACCGACCAGATATCCTCATCACGCAGGAGCCATGTCAACCTTAGATAACTAGCCGTC
CTCATCACATAGGAACCATGTTATCATCCCTAACAATGACATATCATCCTCATCACACAAGAACC
G
Found at i:1401375 original size:3 final size:3
Alignment explanation
Indices: 1401367--1401415 Score: 80
Period size: 3 Copynumber: 15.7 Consensus size: 3
1401357 ATATATTATG
1401367 TTA TTA TTA TTA TTTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
1401414 TT
1 TT
1401416 TGTTTTTACT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1402506 original size:16 final size:16
Alignment explanation
Indices: 1402462--1402507 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1402452 TAAAAATTAT
*
1402462 TATTTTTATTATTTCC
1 TATTTTTATTATTTCA
1402478 TAATTTTTA-TATTT-A
1 T-ATTTTTATTATTTCA
1402493 TATTTTTATTTATTT
1 TATTTTTA-TTATTT
1402508 TAGAAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.27
15 1 0.04
16 11 0.42
17 7 0.27
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTTATTATTTCA
Found at i:1402544 original size:23 final size:24
Alignment explanation
Indices: 1402456--1402561 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
1402446 TTAGAATAAA
* *
1402456 AATTATTATTTT--TATTATTTCCT
1 AATTTTTATTTTAATATT-TTTCTT
*
1402479 AATTTTTATATTT-ATATTTTTATT
1 AATTTTTAT-TTTAATATTTTTCTT
* * **
1402503 TATTTTAGAAATTAATA-TTTTCTT
1 AATTTT-TATTTTAATATTTTTCTT
1402527 AATTTTTATTTTAATATTTTTCTT
1 AATTTTTATTTTAATATTTTTCTT
1402551 AATTTTTATTT
1 AATTTTTATTT
1402562 ATTTCTCTTC
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
23 15 0.23
24 43 0.65
25 8 0.12
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (24 bp):
AATTTTTATTTTAATATTTTTCTT
Found at i:1402552 original size:12 final size:11
Alignment explanation
Indices: 1402514--1402557 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
1402504 ATTTTAGAAA
*
1402514 TTAATATTTTC
1 TTAATTTTTTC
*
1402525 TTAATTTTTATT
1 TTAATTTTT-TC
1402537 TTAATATTTTTC
1 TTAAT-TTTTTC
1402549 TTAATTTTT
1 TTAATTTTT
1402558 ATTTATTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 12 0.43
12 12 0.43
13 4 0.14
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (11 bp):
TTAATTTTTTC
Found at i:1402595 original size:3 final size:3
Alignment explanation
Indices: 1402587--1402628 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1402577 TTTGTTTTCA
1402587 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1402629 CTTAAATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1407040 original size:36 final size:36
Alignment explanation
Indices: 1407000--1407068 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
1406990 AAAGGAGGAG
1407000 CTTTTAACATTTTCCAAAATATGTCTCTTTTTTCCC
1 CTTTTAACATTTTCCAAAATATGTCTCTTTTTTCCC
1407036 CTTTTAACATTTTCCAAAATATGTCTCTTTTTT
1 CTTTTAACATTTTCCAAAATATGTCTCTTTTTT
1407069 ATTAAAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.03, T:0.52
Consensus pattern (36 bp):
CTTTTAACATTTTCCAAAATATGTCTCTTTTTTCCC
Done.