Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 60 of 84
Found at i:13473537 original size:14 final size:14
Alignment explanation
Indices: 13473518--13473545 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13473508 AAAAATATTC
13473518 AATTAATATTATAT
1 AATTAATATTATAT
13473532 AATTAATATTATAT
1 AATTAATATTATAT
13473546 CAACATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTAATATTATAT
Found at i:13473610 original size:21 final size:21
Alignment explanation
Indices: 13473552--13473617 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 21
13473542 ATATCAACAT
13473552 TAAAAAAATTTTA-AATATTT-
1 TAAAAAAATTTTAGAA-ATTTC
* *
13473572 TTAAAATATTTT-GAAAATTTC
1 TAAAAAAATTTTAG-AAATTTC
13473593 TAAAAAAATTTTAGAAA-TTC
1 TAAAAAAATTTTAGAAATTTC
13473613 TAAAA
1 TAAAA
13473618 CTTTTTACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 22 0.58
21 15 0.39
22 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (21 bp):
TAAAAAAATTTTAGAAATTTC
Found at i:13473635 original size:41 final size:41
Alignment explanation
Indices: 13473552--13473637 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 41
13473542 ATATCAACAT
* * *
13473552 TAAAAAAATTTTAAATATTTTTAAAATATTTTGAAAATTTC
1 TAAAAAAATTTTAAATATTTCTAAAATATTTTCAAAAATTC
13473593 TAAAAAAATTTTAGAA-A-TTCTAAAACT-TTTTACAAAAATTC
1 TAAAAAAATTTTA-AATATTTCTAAAA-TATTTT-CAAAAATTC
13473634 TAAA
1 TAAA
13473638 TTTAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
40 11 0.28
41 26 0.67
42 2 0.05
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (41 bp):
TAAAAAAATTTTAAATATTTCTAAAATATTTTCAAAAATTC
Found at i:13473653 original size:29 final size:29
Alignment explanation
Indices: 13473621--13473703 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 29
13473611 TCTAAAACTT
*
13473621 TTTACAAAAATTC-TAAATTTAAAAAAAAA
1 TTTA-AAAAATTCAAAAATTTAAAAAAAAA
* *
13473650 TTTAAAACATTCAAAAATTT--TAAAAAA
1 TTTAAAAAATTCAAAAATTTAAAAAAAAA
*
13473677 TTCTAAAAATTTTCTAAAAATTTAAAA
1 TT-TAAAAA-ATTC-AAAAATTTAAAA
13473704 TAAATAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
27 8 0.19
28 12 0.29
29 13 0.31
30 8 0.19
32 1 0.02
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
TTTAAAAAATTCAAAAATTTAAAAAAAAA
Found at i:13473665 original size:18 final size:18
Alignment explanation
Indices: 13473644--13473731 Score: 70
Period size: 18 Copynumber: 4.7 Consensus size: 18
13473634 TAAATTTAAA
*
13473644 AAAAAATTTAAAACATTC
1 AAAAAATTTAAAAAATTC
*
13473662 AAAAATTTTAAAAAATTC
1 AAAAAATTTAAAAAATTC
* * *
13473680 TAAAAATTTTCTAAAAATTT
1 -AAAAAATTT-AAAAAATTC
* *
13473700 AAAATAA-ATAAAAAATTA
1 AAAA-AATTTAAAAAATTC
13473718 AAAAAACTTTAAAA
1 AAAAAA-TTTAAAA
13473732 TTTTCAACAA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.04
18 27 0.48
19 19 0.34
20 8 0.14
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAATTTAAAAAATTC
Found at i:13473713 original size:66 final size:65
Alignment explanation
Indices: 13473596--13473753 Score: 162
Period size: 66 Copynumber: 2.4 Consensus size: 65
13473586 AAATTTCTAA
* * * * *
13473596 AAAAATTTT-AGAAATTCTAAAACTTTTTACAAAAATTCTAAATTTAAAAAAAAATTTAAAACA-
1 AAAAATTTTAAAAAATTCTAAAAATTTTTA-AAAAATTCTAAA-ATAAAAAAAAATTAAAAAAAC
13473659 TT
64 TT
13473661 CAAAAATTTTAAAAAATTCTAAAAATTTTCT-AAAAATT-TAAAATAAATAAAAAATTAAAAAAA
1 -AAAAATTTTAAAAAATTCTAAAAATTTT-TAAAAAATTCTAAAATAAA-AAAAAATTAAAAAAA
13473724 CTT
63 CTT
* *
13473727 TAAAATTTTCAACAAATTCTACAAAAT
1 AAAAATTTT-AAAAAATTCTA-AAAAT
13473754 ACTTAATAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
64 4 0.05
65 25 0.32
66 28 0.35
67 21 0.27
68 1 0.01
ACGTcount: A:0.58, C:0.08, G:0.01, T:0.34
Consensus pattern (65 bp):
AAAAATTTTAAAAAATTCTAAAAATTTTTAAAAAATTCTAAAATAAAAAAAAATTAAAAAAACTT
Found at i:13473928 original size:21 final size:21
Alignment explanation
Indices: 13473878--13473942 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 21
13473868 TTCATTCAAA
*
13473878 AAAATTCC-TAACCCAAATTG
1 AAAATTCCTTAACCCAAATAG
* * *
13473898 ATAATCCCTTAACCGAAATAG
1 AAAATTCCTTAACCCAAATAG
*
13473919 AAAATTCCTT-ACCCAAATAA
1 AAAATTCCTTAACCCAAATAG
13473939 AAAA
1 AAAA
13473943 ATCCCTTACC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
20 18 0.50
21 18 0.50
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAATTCCTTAACCCAAATAG
Found at i:13473943 original size:21 final size:20
Alignment explanation
Indices: 13473876--13473958 Score: 67
Period size: 21 Copynumber: 4.0 Consensus size: 20
13473866 AATTCATTCA
* *
13473876 AAAAAATTCCTAACCCAAAT
1 AAAAAATCCCTTACCCAAAT
** * *
13473896 TGATAATCCCTTAACCGAAAT
1 AAAAAATCCCTT-ACCCAAAT
* *
13473917 AGAAAATTCCTTACCCAAAT
1 AAAAAATCCCTTACCCAAAT
13473937 AAAAAAATCCCTTACCCTAAAT
1 -AAAAAATCCCTTACCC-AAAT
13473959 CGGTCTCATT
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 14 0.29
21 30 0.62
22 4 0.08
ACGTcount: A:0.47, C:0.25, G:0.04, T:0.24
Consensus pattern (20 bp):
AAAAAATCCCTTACCCAAAT
Found at i:13474816 original size:22 final size:21
Alignment explanation
Indices: 13474755--13474802 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
13474745 GTGAACTTAT
13474755 AATTCTTT-AAACATTT-TTAG
1 AATT-TTTAAAACATTTGTTAG
13474775 AATTTTTAAAACATTTGTTAG
1 AATTTTTAAAACATTTGTTAG
13474796 AATTTTT
1 AATTTTT
13474803 TAAGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.12
20 12 0.46
21 11 0.42
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (21 bp):
AATTTTTAAAACATTTGTTAG
Found at i:13474850 original size:27 final size:28
Alignment explanation
Indices: 13474803--13474858 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 28
13474793 TAGAATTTTT
13474803 TAAGAATTTTGTTATAATCTAACAAATTC
1 TAAGAATTTTGTTATAATCTAA-AAATTC
13474832 TAAGAA-TTT-TTATAATCTAAAAATTC
1 TAAGAATTTTGTTATAATCTAAAAATTC
13474858 T
1 T
13474859 TTAAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 7 0.26
27 11 0.41
28 3 0.11
29 6 0.22
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (28 bp):
TAAGAATTTTGTTATAATCTAAAAATTC
Found at i:13474868 original size:27 final size:26
Alignment explanation
Indices: 13474807--13474869 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
13474797 ATTTTTTAAG
13474807 AATTTTGTTATAATCTAACAAATTCTA
1 AATTTT-TTATAATCTAACAAATTCTA
*
13474834 AGAATTTTTATAATCTAA-AAATTCTTTA
1 A-ATTTTTTATAATCTAACAAATTC--TA
13474862 AATTTTTT
1 AATTTTTT
13474870 TTAAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 6 0.19
27 18 0.58
28 7 0.23
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (26 bp):
AATTTTTTATAATCTAACAAATTCTA
Found at i:13474987 original size:18 final size:17
Alignment explanation
Indices: 13474960--13474993 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13474950 ACACATATCA
*
13474960 ATAATTTATTAGATGTTC
1 ATAATATATTA-ATGTTC
13474978 ATAATATATTAATGTT
1 ATAATATATTAATGTT
13474994 TAGAGTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (17 bp):
ATAATATATTAATGTTC
Found at i:13475148 original size:15 final size:16
Alignment explanation
Indices: 13475122--13475151 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13475112 ATGGGATATT
13475122 ATCCCTTTTTAAATTG
1 ATCCCTTTTTAAATTG
13475138 ATCCC-TTTTAAATT
1 ATCCCTTTTTAAATT
13475152 AAAATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.20, G:0.03, T:0.50
Consensus pattern (16 bp):
ATCCCTTTTTAAATTG
Found at i:13475336 original size:162 final size:162
Alignment explanation
Indices: 13475157--13475467 Score: 572
Period size: 163 Copynumber: 1.9 Consensus size: 162
13475147 AAATTAAAAT
13475157 TATTAATTTTATTTATATATA-TTTTGTTTTATAATTTAATTTTATGTATTATAAATGAAGAGGG
1 TATTAATTTTATTTATATATATTTTTGTTTTATAATTTAATTTTATGTATTATAAATGAAGAGGG
13475221 ATTAAAATTATATTACTATTTCTATATTTATTATACAAATCAATCACTGATTATAAATCTTTAAA
66 ATTAAAATTATATTACTATTTCTATATTTATTATACAAATCAATCACTG--TATAAATCTTTAAA
13475286 ATAAAAAAATTT-TAACAAATCCTGAAAATTACA
129 ATAAAAAAATTTGTAACAAATCCTGAAAATTACA
*
13475319 TATTAATTTTATTTATATATATTTTTGTTTTATAATTTAATTTTATGTATTATAAATTAAGAGGG
1 TATTAATTTTATTTATATATATTTTTGTTTTATAATTTAATTTTATGTATTATAAATGAAGAGGG
*
13475384 ATTAAAATTATATTACTATTTCTATATTTATTCTACAAATCAATCACTGTATAAATCTTTAAAAT
66 ATTAAAATTATATTACTATTTCTATATTTATTATACAAATCAATCACTGTATAAATCTTTAAAAT
13475449 AAAAAAATTTGTAACAAAT
131 AAAAAAATTTGTAACAAAT
13475468 ATTTAAAATA
Statistics
Matches: 145, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
161 26 0.18
162 29 0.20
163 90 0.62
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.46
Consensus pattern (162 bp):
TATTAATTTTATTTATATATATTTTTGTTTTATAATTTAATTTTATGTATTATAAATGAAGAGGG
ATTAAAATTATATTACTATTTCTATATTTATTATACAAATCAATCACTGTATAAATCTTTAAAAT
AAAAAAATTTGTAACAAATCCTGAAAATTACA
Found at i:13475373 original size:20 final size:19
Alignment explanation
Indices: 13475339--13475378 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
13475329 ATTTATATAT
* *
13475339 ATTTTTGTTTTATAATTTA
1 ATTTTTGTATTATAAATTA
13475358 ATTTTATGTATTATAAATTA
1 ATTTT-TGTATTATAAATTA
13475378 A
1 A
13475379 GAGGGATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTTTTGTATTATAAATTA
Found at i:13475467 original size:28 final size:28
Alignment explanation
Indices: 13475436--13475506 Score: 97
Period size: 29 Copynumber: 2.5 Consensus size: 28
13475426 ATCACTGTAT
*
13475436 AAATCTTTAAAATAAAAAAATTTGTAAC
1 AAATCTTTAAAATAAAAAAAATTGTAAC
*
13475464 AAATATTTAAAATAAAAAAAAATTGTAAC
1 AAATCTTTAAAAT-AAAAAAAATTGTAAC
* *
13475493 AAATCCTGAAAATA
1 AAATCTTTAAAATA
13475507 GCAATAATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 13 0.35
29 24 0.65
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (28 bp):
AAATCTTTAAAATAAAAAAAATTGTAAC
Found at i:13478007 original size:3 final size:3
Alignment explanation
Indices: 13478001--13478038 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
13477991 TAATAATAGT
* *
13478001 AAC AAC AAT AAC AAC AAC AAC AAT AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
13478039 TAATAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.26, G:0.00, T:0.05
Consensus pattern (3 bp):
AAC
Found at i:13478010 original size:15 final size:15
Alignment explanation
Indices: 13478001--13478041 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
13477991 TAATAATAGT
13478001 AACAACAATAACAAC
1 AACAACAATAACAAC
13478016 AACAACAATAACAAC
1 AACAACAATAACAAC
13478031 AACAACAATAA
1 AACAACAATAA
13478042 TAATAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.07
Consensus pattern (15 bp):
AACAACAATAACAAC
Found at i:13478012 original size:9 final size:9
Alignment explanation
Indices: 13478000--13478044 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
13477990 ATAATAATAG
13478000 TAACAACAA
1 TAACAACAA
13478009 TAACAAC--
1 TAACAACAA
13478016 -AACAACAA
1 TAACAACAA
13478024 TAACAACAA
1 TAACAACAA
* *
13478033 CAACAATAA
1 TAACAACAA
13478042 TAA
1 TAA
13478045 TAATAAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
6 6 0.20
9 24 0.80
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (9 bp):
TAACAACAA
Found at i:13481718 original size:25 final size:25
Alignment explanation
Indices: 13481684--13481737 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
13481674 TCCCCACAAT
13481684 ATTCATAAGGGTATTTAATTTAGAC
1 ATTCATAAGGGTATTTAATTTAGAC
*
13481709 ATTCATAAGGGTATTTAATTTAGGC
1 ATTCATAAGGGTATTTAATTTAGAC
13481734 ATTC
1 ATTC
13481738 TTATTTAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (25 bp):
ATTCATAAGGGTATTTAATTTAGAC
Found at i:13482637 original size:18 final size:17
Alignment explanation
Indices: 13482616--13482651 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13482606 AAGTAATTTT
13482616 ATAAATAAAATAATAAAA
1 ATAAAT-AAATAATAAAA
*
13482634 ATAAATATATAATAAAA
1 ATAAATAAATAATAAAA
13482651 A
1 A
13482652 AACTTGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
ATAAATAAATAATAAAA
Found at i:13486200 original size:2 final size:2
Alignment explanation
Indices: 13486186--13486230 Score: 74
Period size: 2 Copynumber: 22.5 Consensus size: 2
13486176 ACAGCTTGAC
13486186 AT AT AT -T AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13486228 AT A
1 AT A
13486231 ATAGGTTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 38 0.93
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13487426 original size:2 final size:2
Alignment explanation
Indices: 13487415--13487444 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13487405 ACAAATCTTC
13487415 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13487445 AGTATAGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13487719 original size:11 final size:11
Alignment explanation
Indices: 13487703--13487741 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
13487693 AAACTCGCTT
13487703 ATTTATTGTTC
1 ATTTATTGTTC
*
13487714 ATTTATTATTC
1 ATTTATTGTTC
*
13487725 ATTTGTTGTTC
1 ATTTATTGTTC
13487736 ATTTAT
1 ATTTAT
13487742 AATAACACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.64
Consensus pattern (11 bp):
ATTTATTGTTC
Found at i:13487905 original size:26 final size:27
Alignment explanation
Indices: 13487865--13487916 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
13487855 TTGGTTATAG
* *
13487865 TTTATTTATTGTTCACGAATGTGTTCA
1 TTTATATATTGTTCACGAATATGTTCA
*
13487892 TTTATATA-TGTTCATGAATATGTTC
1 TTTATATATTGTTCACGAATATGTTC
13487917 GTGAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.52
Consensus pattern (27 bp):
TTTATATATTGTTCACGAATATGTTCA
Found at i:13487914 original size:12 final size:12
Alignment explanation
Indices: 13487874--13487930 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
13487864 GTTTATTTAT
* *
13487874 TGTTCACGAATG
1 TGTTCATGAATA
*
13487886 TGTTCATTTATATA
1 TGTTCA-TGA-ATA
13487900 TGTTCATGAATA
1 TGTTCATGAATA
*
13487912 TGTTCGTGAATA
1 TGTTCATGAATA
*
13487924 TTTTCAT
1 TGTTCAT
13487931 TTAATGTTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
12 25 0.69
13 3 0.08
14 8 0.22
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (12 bp):
TGTTCATGAATA
Found at i:13490425 original size:72 final size:74
Alignment explanation
Indices: 13490304--13490478 Score: 221
Period size: 73 Copynumber: 2.4 Consensus size: 74
13490294 ATTTTCATTT
* *
13490304 ATGATTCTAATAGCAAACTTATTATTTTTGGGATTGTCACTATTGATGTTGCATTTGT-TTTGA-
1 ATGATTCTAATAGAAAACTTATTATTTTTGGGATTGTCACTATTAATGTTGCATTT-TATTTGAG
13490367 AAAATTGATC
65 AAAATTGATC
* * * *
13490377 ATGATTCTACTAGAAAACTTA-TATTTTTGGGATTGTTACTATTAATGTTGCATTTTATTTTAGG
1 ATGATTCTAATAGAAAACTTATTATTTTTGGGATTGTCACTATTAATGTTGCATTTTATTTGAGA
13490441 AAATTGATC
66 AAATTGATC
* * ** *
13490450 TTGATTCTATTAGCCAATTTATTATTTTT
1 ATGATTCTAATAGAAAACTTATTATTTTT
13490479 ATTTTTATAT
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
71 1 0.01
72 36 0.41
73 44 0.50
74 7 0.08
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (74 bp):
ATGATTCTAATAGAAAACTTATTATTTTTGGGATTGTCACTATTAATGTTGCATTTTATTTGAGA
AAATTGATC
Found at i:13490662 original size:28 final size:27
Alignment explanation
Indices: 13490616--13490671 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
13490606 AATACATAAT
*
13490616 TTTATTTGAATTTATATTTATTTATTA
1 TTTATTTGAATATATATTTATTTATTA
* *
13490643 TTTATTTGATATATCTATTTGTTTATTA
1 TTTATTTGA-ATATATATTTATTTATTA
13490671 T
1 T
13490672 GAGTTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (27 bp):
TTTATTTGAATATATATTTATTTATTA
Found at i:13492093 original size:15 final size:14
Alignment explanation
Indices: 13492061--13492089 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13492051 ATTTATTATA
13492061 TATTTTTGCATGAC
1 TATTTTTGCATGAC
13492075 TATTTTTGCATGAC
1 TATTTTTGCATGAC
13492089 T
1 T
13492090 TATTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (14 bp):
TATTTTTGCATGAC
Found at i:13497684 original size:43 final size:43
Alignment explanation
Indices: 13497555--13497702 Score: 130
Period size: 43 Copynumber: 3.5 Consensus size: 43
13497545 CAAATATCTC
* * * * *
13497555 TTTTATTTTTCACAAGTTTCAAAGCCTCAACTG-GG--GAGCA
1 TTTTATTTTTCAAAAGTTTCAATGCTTCAGCTGTGGAAGAGTA
* *
13497595 TTTTATTTATCAAAAGTTTCAATGCCTT-AG-T-TGTAAG-GCATCA
1 TTTTATTTTTCAAAAGTTTCAATG-CTTCAGCTGTGGAAGAG--T-A
*
13497638 TTTTATTTGTCAAAAGTTTCAATGCTTCAGCTGTGGAAGAGTA
1 TTTTATTTTTCAAAAGTTTCAATGCTTCAGCTGTGGAAGAGTA
*
13497681 TTTTATTTTTCAAAAGGTTCAA
1 TTTTATTTTTCAAAAGTTTCAA
13497703 AGCATCTATT
Statistics
Matches: 86, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
39 2 0.02
40 23 0.27
41 3 0.03
42 3 0.03
43 47 0.55
44 2 0.02
45 5 0.06
46 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (43 bp):
TTTTATTTTTCAAAAGTTTCAATGCTTCAGCTGTGGAAGAGTA
Found at i:13497948 original size:6 final size:6
Alignment explanation
Indices: 13497937--13497982 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
13497927 AAAAAAATTA
* *
13497937 ATTTTG ATTTTG ATTTTA ATTTTG ATTTTG ATTTTA ATTTT- ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
13497983 TAGTTTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.70
Consensus pattern (6 bp):
ATTTTG
Found at i:13497957 original size:18 final size:18
Alignment explanation
Indices: 13497934--13497982 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
13497924 CCCAAAAAAA
13497934 TTAATTTTGATTTTGATT
1 TTAATTTTGATTTTGATT
13497952 TTAATTTTGATTTTGATT
1 TTAATTTTGATTTTGATT
13497970 TTAATTTT-ATTTT
1 TTAATTTTGATTTT
13497983 TAGTTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 5 0.16
18 26 0.84
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (18 bp):
TTAATTTTGATTTTGATT
Found at i:13497958 original size:12 final size:11
Alignment explanation
Indices: 13497934--13498006 Score: 65
Period size: 12 Copynumber: 6.2 Consensus size: 11
13497924 CCCAAAAAAA
13497934 TTAATTTTGATT
1 TTAATTTT-ATT
*
13497946 TTGATTTTAATT
1 TTAATTTT-ATT
*
13497958 TTGATTTTGATT
1 TTAATTTT-ATT
13497970 TTAATTTTATTT
1 TTAATTTTA-TT
*
13497982 TTAGTTTTATT
1 TTAATTTTATT
*
13497993 TTAGTTTTTATT
1 TTA-ATTTTATT
13498005 TT
1 TT
13498007 TGGTCAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
11 6 0.11
12 47 0.89
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (11 bp):
TTAATTTTATT
Found at i:13497983 original size:6 final size:6
Alignment explanation
Indices: 13497937--13498007 Score: 56
Period size: 6 Copynumber: 12.0 Consensus size: 6
13497927 AAAAAAATTA
* * * * * *
13497937 ATTTTG ATTTTG ATTTTA ATTTTG ATTTTG A-TTTT AATTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
*
13497984 AGTTTT A-TTTT AGTTTTT ATTTTT
1 ATTTTT ATTTTT A-TTTTT ATTTTT
13498008 GGTCAAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
5 9 0.16
6 43 0.75
7 5 0.09
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (6 bp):
ATTTTT
Found at i:13497983 original size:18 final size:17
Alignment explanation
Indices: 13497934--13498006 Score: 78
Period size: 18 Copynumber: 4.1 Consensus size: 17
13497924 CCCAAAAAAA
13497934 TTAATTTTGATTTTGATT
1 TTAATTTTGATTTT-ATT
13497952 TTAATTTTGATTTTGATT
1 TTAATTTTGATTTT-ATT
13497970 TTAATTTT-ATTTTTAGTT
1 TTAATTTTGA-TTTTA-TT
*
13497988 TT-ATTTTAGTTTTTATT
1 TTAATTTT-GATTTTATT
13498005 TT
1 TT
13498007 TGGTCAAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
17 11 0.22
18 39 0.78
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (17 bp):
TTAATTTTGATTTTATT
Found at i:13500266 original size:20 final size:21
Alignment explanation
Indices: 13500238--13500277 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
13500228 AACATTCTTT
*
13500238 TTTTATTTACT-TTTTTTTGC
1 TTTTATTTAATCTTTTTTTGC
*
13500258 TTTTCTTTAATCTTTTTTTG
1 TTTTATTTAATCTTTTTTTG
13500278 TTTGCATACG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTTATTTAATCTTTTTTTGC
Found at i:13511741 original size:47 final size:47
Alignment explanation
Indices: 13511665--13511761 Score: 131
Period size: 47 Copynumber: 2.1 Consensus size: 47
13511655 ACTTTCAAAT
* ** * *
13511665 CAAGCATGCAAGATATCCTTGGTCCATTTGATAGTTTTTTGTTGCAC
1 CAAGCATGCAAAATATCCTTAATCCATTTGATAGTTTTTGGTCGCAC
* *
13511712 CAAGCATGCAAAATATCTTTAATCTATTTGATAGTTTTTGGTCGCAC
1 CAAGCATGCAAAATATCCTTAATCCATTTGATAGTTTTTGGTCGCAC
13511759 CAA
1 CAA
13511762 TTATAATAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (47 bp):
CAAGCATGCAAAATATCCTTAATCCATTTGATAGTTTTTGGTCGCAC
Found at i:13515976 original size:17 final size:17
Alignment explanation
Indices: 13515954--13515988 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
13515944 TCAAACTCAT
13515954 CGAGTTTTTAGCTCGAG
1 CGAGTTTTTAGCTCGAG
13515971 CGAGTTTTTAGCTCGAG
1 CGAGTTTTTAGCTCGAG
13515988 C
1 C
13515989 TCGACTCGAG
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:0.17, C:0.20, G:0.29, T:0.34
Consensus pattern (17 bp):
CGAGTTTTTAGCTCGAG
Found at i:13518128 original size:85 final size:85
Alignment explanation
Indices: 13517982--13518152 Score: 288
Period size: 85 Copynumber: 2.0 Consensus size: 85
13517972 GACTCTAATT
* **
13517982 CTACTAATCTCACAAATAATTCTGTTCATTTTTTTTCTTATGCTACGATGCTGGTTGAGCATCAT
1 CTACTAATCTCACAAATAATTCTGTTCATATTTTTTCTTATGCTACGATGCTGGTCAAGCATCAT
*
13518047 CGAATTCAAATGAGCAAGCA
66 CGAATTCAAATGACCAAGCA
* *
13518067 CTACTAATCTCACCAATAATTCTGTTCATATTTTTTCTTATGCTATGATGCTGGTCAAGCATCAT
1 CTACTAATCTCACAAATAATTCTGTTCATATTTTTTCTTATGCTACGATGCTGGTCAAGCATCAT
13518132 CGAATTCAAATGACCAAGCA
66 CGAATTCAAATGACCAAGCA
13518152 C
1 C
13518153 ATTTAAGCAA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.36
Consensus pattern (85 bp):
CTACTAATCTCACAAATAATTCTGTTCATATTTTTTCTTATGCTACGATGCTGGTCAAGCATCAT
CGAATTCAAATGACCAAGCA
Found at i:13523507 original size:2 final size:2
Alignment explanation
Indices: 13523500--13523534 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
13523490 ACTTTAAAGA
*
13523500 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13523535 AACACACACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13524175 original size:41 final size:41
Alignment explanation
Indices: 13524116--13524194 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
13524106 ATGTAAAAGG
* * *
13524116 CATTAAGTCGACAAAAATGTAAGAGACATTAAAAGCTACAT
1 CATTAAATAGACAAAAATGTAAAAGACATTAAAAGCTACAT
* * *
13524157 CATTAAATAGACAGAAATGTAAAAGGCATTTAAAGCTA
1 CATTAAATAGACAAAAATGTAAAAGACATTAAAAGCTA
13524195 AGTAATGAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (41 bp):
CATTAAATAGACAAAAATGTAAAAGACATTAAAAGCTACAT
Found at i:13525639 original size:2 final size:2
Alignment explanation
Indices: 13525634--13525658 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13525624 TGTATGTTAG
13525634 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13525659 CATAAGTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13527014 original size:3 final size:3
Alignment explanation
Indices: 13527008--13527062 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
13526998 CATCAACAAC
13527008 TAT TAT 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 TAT TAT
13527056 TAT TAT T
1 TAT TAT T
13527063 TTGTCATTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13527731 original size:3 final size:3
Alignment explanation
Indices: 13527723--13527759 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
13527713 ATTCAATGTG
*
13527723 ATT ATT ATT ATT ATT ATT ATT ATT -TT TTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13527760 GCTATGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:13531809 original size:20 final size:22
Alignment explanation
Indices: 13531784--13531831 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
13531774 TTTTTAGTTC
13531784 AAATGAATAAC-A-AAAAATGA
1 AAATGAATAACAACAAAAATGA
13531804 AAATGAATAACAACAAAAATGA
1 AAATGAATAACAACAAAAATGA
*
13531826 GAATGA
1 AAATGA
13531832 CTATCCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.44
21 1 0.04
22 13 0.52
ACGTcount: A:0.67, C:0.06, G:0.12, T:0.15
Consensus pattern (22 bp):
AAATGAATAACAACAAAAATGA
Found at i:13534961 original size:47 final size:49
Alignment explanation
Indices: 13534876--13534968 Score: 138
Period size: 48 Copynumber: 1.9 Consensus size: 49
13534866 TAGGTTTTTC
13534876 TTTTTTATTTTATTTTTCATTTACATTTTATTTATTTTATT-TTTTAGA
1 TTTTTTATTTTATTTTTCATTTACATTTTATTTATTTTATTCTTTTAGA
* *
13534924 TTTTCTTA-TTTATTTTTTATTT-CATTTTATTTGTTTTATTCTTTT
1 TTTT-TTATTTTATTTTTCATTTACATTTTATTTATTTTATTCTTTT
13534969 TTAGATTCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
47 17 0.41
48 21 0.51
49 3 0.07
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.75
Consensus pattern (49 bp):
TTTTTTATTTTATTTTTCATTTACATTTTATTTATTTTATTCTTTTAGA
Found at i:13534978 original size:48 final size:45
Alignment explanation
Indices: 13534883--13535000 Score: 121
Period size: 48 Copynumber: 2.4 Consensus size: 45
13534873 TTCTTTTTTA
*
13534883 TTTTATTTTTCATTTACATTTTATTTATTTTATTTTTTAGATTTTCT
1 TTTTATTTTTTATTT-CATTTTATTTATTTTATTTTTTAGA-TTTCT
*
13534930 TATTTATTTTTTATTTCATTTTATTTGTTTTATTCTTTTTTAGA-TTCT
1 T-TTTATTTTTTATTTCATTTTATTTATTTTA---TTTTTTAGATTTCT
13534978 TTTTAATTTCATTTATTATCATT
1 TTTT-ATTT--TTTATT-TCATT
13535001 ACTATTATTC
Statistics
Matches: 61, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
47 19 0.31
48 22 0.36
50 15 0.25
51 5 0.08
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (45 bp):
TTTTATTTTTTATTTCATTTTATTTATTTTATTTTTTAGATTTCT
Found at i:13545743 original size:12 final size:11
Alignment explanation
Indices: 13545719--13545757 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
13545709 TACTTTGCTT
13545719 AAAAAAAATAA
1 AAAAAAAATAA
*
13545730 AAAATAAAACAA
1 AAAA-AAAATAA
13545742 AAAACAAAATAA
1 AAAA-AAAATAA
13545754 AAAA
1 AAAA
13545758 GGGGGAGAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.87, C:0.05, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:13546801 original size:66 final size:66
Alignment explanation
Indices: 13546726--13546849 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 66
13546716 CTCAGCTCAA
* *
13546726 TTCAAATCATTTTATTTTTTTGACT-ATCGGTTCGATCCCAATCATCTATTTTTTATCTTTGTTA
1 TTCAAATCATTTTATTTTTATGACTCA-CAGTTCGATCCCAATCATCTATTTTTTATCTTTGTTA
13546790 GG
65 GG
* * *
13546792 TTCATATCATTTTATTTTTATGACTCACAGTTCGATCCCAATTATTTATTTTTTATCT
1 TTCAAATCATTTTATTTTTATGACTCACAGTTCGATCCCAATCATCTATTTTTTATCT
13546850 CGACTCGATT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
66 51 0.98
67 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (66 bp):
TTCAAATCATTTTATTTTTATGACTCACAGTTCGATCCCAATCATCTATTTTTTATCTTTGTTAG
G
Found at i:13546871 original size:66 final size:66
Alignment explanation
Indices: 13546725--13546876 Score: 164
Period size: 66 Copynumber: 2.3 Consensus size: 66
13546715 TCTCAGCTCA
* * * * *
13546725 ATTCAAATCATTTTATTTTTTTGACTATCGGTTCGATCCCAATCATCTATTTTTTATCTTTGTTA
1 ATTCAGATCATTTTATTTTTATGACTATCAGTTCGATCCCAATCATCTATTTTTTATCTTCGCTA
13546790 G
66 G
* * * *
13546791 GTTCATATCATTTTATTTTTATGACTCA-CAGTTCGATCCCAATTATTTATTTTTTATC-TCGAC
1 ATTCAGATCATTTTATTTTTATGACT-ATCAGTTCGATCCCAATCATCTATTTTTTATCTTCG-C
*
13546854 TCG
64 TAG
**
13546857 ATTCAGATTGTTTTATTTTT
1 ATTCAGATCATTTTATTTTT
13546877 TTTATTTATA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
65 2 0.03
66 68 0.96
67 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.52
Consensus pattern (66 bp):
ATTCAGATCATTTTATTTTTATGACTATCAGTTCGATCCCAATCATCTATTTTTTATCTTCGCTA
G
Found at i:13546908 original size:66 final size:66
Alignment explanation
Indices: 13546838--13546980 Score: 162
Period size: 66 Copynumber: 2.2 Consensus size: 66
13546828 CCCAATTATT
* * ** * *
13546838 TATTTTTTATCTCGACTCGATTCAGATTGTTTTATTTTTTTTATTTATAATTCGATCTCGATCAC
1 TATTTTTGATCTCGACTCGATCCAGATCATTGTATTTTTTTTATTCATAATTCGATCTCGATCAC
13546903 C
66 C
* * * ** * *
13546904 TATTTTTGATCTTGGCTCTATCCAGATCATTGTATTTTTTTTATTCATGGTTCGATCTTGGTCAC
1 TATTTTTGATCTCGACTCGATCCAGATCATTGTATTTTTTTTATTCATAATTCGATCTCGATCAC
13546969 C
66 C
13546970 TA-TTTTGATCT
1 TATTTTTGATCT
13546981 TAGCTTAATC
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
65 9 0.14
66 55 0.86
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (66 bp):
TATTTTTGATCTCGACTCGATCCAGATCATTGTATTTTTTTTATTCATAATTCGATCTCGATCAC
C
Found at i:13547008 original size:66 final size:66
Alignment explanation
Indices: 13546867--13547260 Score: 198
Period size: 65 Copynumber: 6.2 Consensus size: 66
13546857 ATTCAGATTG
* *
13546867 TTTTATTTTTTTTATTTATAATTCGATCTCGATCACCTATTTTTGATCTTGGCTCTATCCAGATC
1 TTTTATTTTTTTTATTCATAATTCGATCTCGATCACCTATTTTTGATCTTAGCTCTATCCAGATC
13546932 A
66 A
* ** * * *
13546933 TTGTATTTTTTTTATTCATGGTTCGATCTTGGTCACCTA-TTTTGATCTTAGCT-TAATCTAGAT
1 TTTTATTTTTTTTATTCATAATTCGATCTCGATCACCTATTTTTGATCTTAGCTCT-ATCCAGAT
13546996 CA
65 CA
* * * * * * * *
13546998 TTTTA-TTTTTTAACTCATGATTCAATC-CCAGTCATCT-GTTTT-ATCTTAGTTC-AGTCCAGA
1 TTTTATTTTTTTTATTCATAATTCGATCTCGA-TCACCTATTTTTGATCTTAGCTCTA-TCCAGA
*
13547058 TTA
64 TCA
* * *** * * * * *
13547061 TTTTATATTTTTTACTCACGGTTTGATC-CTGATCATCTATTTTTTATCTCAGCT-TAGTTCAGA
1 TTTTATTTTTTTTATTCATAATTCGATCTC-GATCACCTATTTTTGATCTTAGCTCTA-TCCAGA
13547124 T-A
64 TCA
* * * * ** * *
13547126 ----A---TTTTGATTCACAGTTCGATCTCGATCACCTA-TTTTGATCTCAGCTCGGTTCAAATC
1 TTTTATTTTTTTTATTCATAATTCGATCTCGATCACCTATTTTTGATCTTAGCTCTATCCAGATC
13547183 A
66 A
* * * * * * ** *
13547184 TTTTATTTTTTTGACTCACAATTCGATC-CTGGTCACCTA-TTTTGATCTCAGTTCGGTCTAGAT
1 TTTTATTTTTTTTATTCATAATTCGATCTC-GATCACCTATTTTTGATCTTAGCTCTATCCAGAT
13547247 CA
65 CA
13547249 TTTTATTTTTTT
1 TTTTATTTTTTT
13547261 GACTCGTGGT
Statistics
Matches: 260, Mismatches: 47, Indels: 43
0.74 0.13 0.12
Matches are distributed among these distances:
57 19 0.07
58 25 0.10
59 1 0.00
61 1 0.00
62 2 0.01
63 20 0.08
64 52 0.20
65 92 0.35
66 48 0.18
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (66 bp):
TTTTATTTTTTTTATTCATAATTCGATCTCGATCACCTATTTTTGATCTTAGCTCTATCCAGATC
A
Found at i:13547231 original size:65 final size:65
Alignment explanation
Indices: 13547127--13547265 Score: 201
Period size: 65 Copynumber: 2.1 Consensus size: 65
13547117 GTTCAGATAA
* *
13547127 TTTTGATTCACAGTTCGATCTCGATCACCTATTTTGATCTCAGCTCGGT-TCAAATCATTTTATT
1 TTTTGACTCACAATTCGATCTCGATCACCTATTTTGATCTCAGCTCGGTCT-AAATCATTTTATT
13547191 T
65 T
* * *
13547192 TTTTGACTCACAATTCGATC-CTGGTCACCTATTTTGATCTCAGTTCGGTCTAGATCATTTTATT
1 TTTTGACTCACAATTCGATCTC-GATCACCTATTTTGATCTCAGCTCGGTCTAAATCATTTTATT
13547256 T
65 T
13547257 TTTTGACTC
1 TTTTGACTC
13547266 GTGGTTCAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
64 1 0.01
65 65 0.97
66 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (65 bp):
TTTTGACTCACAATTCGATCTCGATCACCTATTTTGATCTCAGCTCGGTCTAAATCATTTTATTT
Found at i:13548465 original size:48 final size:48
Alignment explanation
Indices: 13548408--13548515 Score: 114
Period size: 48 Copynumber: 2.2 Consensus size: 48
13548398 TGATCACATG
* *
13548408 TTTTTTTTTTTCT-TTTTTCAT-TTTACTTTCCATTTACATTTTTATTTA
1 TTTTATTTTTTCTAATTTTCATATTTACTTTCCATTT-CA-TTTTATTTA
* * *
13548456 TTTTA-TTTTTCTAGATTTTCTTATTTATTTTCTATTTCATTTTATTTA
1 TTTTATTTTTTCTA-ATTTTCATATTTACTTTCCATTTCATTTTATTTA
13548504 TTTTATTCTTTT
1 TTTTATT-TTTT
13548516 TTAGATTCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
47 7 0.14
48 18 0.36
49 9 0.18
50 16 0.32
ACGTcount: A:0.16, C:0.10, G:0.01, T:0.73
Consensus pattern (48 bp):
TTTTATTTTTTCTAATTTTCATATTTACTTTCCATTTCATTTTATTTA
Found at i:13548516 original size:9 final size:9
Alignment explanation
Indices: 13548447--13548510 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 9
13548437 CCATTTACAT
13548447 TTTTATTTA
1 TTTTATTTA
13548456 TTTTATTT-
1 TTTTATTTA
*
13548464 TTCTAGATTT-
1 TT-T-TATTTA
*
13548474 TCTTATTTA
1 TTTTATTTA
13548483 TTTTCTATTTCA
1 -TTT-TATTT-A
13548495 TTTTATTTA
1 TTTTATTTA
13548504 TTTTATT
1 TTTTATT
13548511 CTTTTTTAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
8 6 0.13
9 18 0.40
10 12 0.27
11 8 0.18
12 1 0.02
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTTATTTA
Found at i:13548525 original size:48 final size:47
Alignment explanation
Indices: 13548423--13548539 Score: 123
Period size: 48 Copynumber: 2.4 Consensus size: 47
13548413 TTTTTTCTTT
* *
13548423 TTTCATTTTACTTTCCATTTACATTTTTATTTATTTTATTTTTCTAGA
1 TTTCTTTTTAATTT-CATTTACATTTTTATTTATTTTATTTTTCTAGA
* *
13548471 TTTTCTTATTTATTTTCTATTT-CA-TTTTATTTATTTTATTCTTTTTTAGA
1 -TTTCTT-TTTAATTTC-ATTTACATTTTTATTTATTTTA-T-TTTTCTAGA
13548521 -TTCTTTTTAATTTCATTTA
1 TTTCTTTTTAATTTCATTTA
13548540 TTATCATTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
46 4 0.07
47 8 0.14
48 19 0.32
49 9 0.15
50 19 0.32
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (47 bp):
TTTCTTTTTAATTTCATTTACATTTTTATTTATTTTATTTTTCTAGA
Found at i:13550229 original size:3 final size:3
Alignment explanation
Indices: 13550221--13550260 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
13550211 ATATAAAAAC
13550221 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13550261 GCATATTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13550429 original size:156 final size:156
Alignment explanation
Indices: 13550260--13550560 Score: 530
Period size: 156 Copynumber: 1.9 Consensus size: 156
13550250 TTATTATTAT
*
13550260 TGCATATTGTAAATGTAGTTAATAAAGTACCAAACTACATTTAAATTCCCTAAATAAAAATTATC
1 TGCATATTGTAAATGTAGTTAATAAAGTACCAAACTACATTTAAATTCCCTAAATAAAAATTATA
* * *
13550325 AATCAAAAGCTAAAAGCACCAAAATCCCAAAAGAAATGATAGAGATCTAGGTGTTTTCATCATCA
66 AATAAAAAGCTAAAAGCACCAAAATCCCAAAAGAAATGATAGAGATATAGGTGTTTTCACCATCA
13550390 CAAAATTATGGAAAATTATTATTCCA
131 CAAAATTATGGAAAATTATTATTCCA
* *
13550416 TGCATATTGTAAATGTTGTTAATGAAGTACCAAACTACATTTAAATTCCCTAAATAAAAATTATA
1 TGCATATTGTAAATGTAGTTAATAAAGTACCAAACTACATTTAAATTCCCTAAATAAAAATTATA
* *
13550481 AATAAAAATCTAAAAGCACCAAAATCCCAAAAGAAATGATAGAGATATGGGTGTTTTCACCATCA
66 AATAAAAAGCTAAAAGCACCAAAATCCCAAAAGAAATGATAGAGATATAGGTGTTTTCACCATCA
13550546 CAAAATTATGGAAAA
131 CAAAATTATGGAAAA
13550561 ATTTTAAACT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
156 137 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (156 bp):
TGCATATTGTAAATGTAGTTAATAAAGTACCAAACTACATTTAAATTCCCTAAATAAAAATTATA
AATAAAAAGCTAAAAGCACCAAAATCCCAAAAGAAATGATAGAGATATAGGTGTTTTCACCATCA
CAAAATTATGGAAAATTATTATTCCA
Found at i:13550835 original size:24 final size:21
Alignment explanation
Indices: 13550790--13550831 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
13550780 TCAATCTTTT
*
13550790 ATTATTTTAAATATATTTATA
1 ATTATTTTAAACATATTTATA
13550811 ATTATTTTAATACATAATTTA
1 ATTATTTTAA-ACAT-ATTTA
13550832 ATAAGGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 3 0.17
23 5 0.28
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTATTTTAAACATATTTATA
Found at i:13551044 original size:61 final size:60
Alignment explanation
Indices: 13550897--13551044 Score: 172
Period size: 61 Copynumber: 2.4 Consensus size: 60
13550887 AATCATAAAA
* * ** * *
13550897 GTATTTTCGTAATTATGATAAAAAGGTGTTAAAGTAATTTTAATCAATTATAATATAAGG
1 GTATTTTCATAATTATGATAAAAAAGCATTAAAGTAATTTTAACCAATTATAATAGAAGG
* * * *
13550957 GTATTTTTATAATTATAATAGTAAAAGCATTATAA-TAATTTTAACCAATTATAGTAAGAAGG
1 GTATTTTCATAATTATGATA-AAAAAGCATTA-AAGTAATTTTAACCAATTATAAT-AGAAGG
13551019 GTATTTTCATAATTATGATAAAAAAG
1 GTATTTTCATAATTATGATAAAAAAG
13551045 ATATCATAGT
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
60 17 0.24
61 30 0.42
62 25 0.35
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.39
Consensus pattern (60 bp):
GTATTTTCATAATTATGATAAAAAAGCATTAAAGTAATTTTAACCAATTATAATAGAAGG
Found at i:13552347 original size:24 final size:23
Alignment explanation
Indices: 13552299--13552347 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
13552289 TAGAAGTAAG
* *
13552299 AAAATATTTTTTTAATTATTCTA
1 AAAATATTTTTGTAAATATTCTA
13552322 AAAATTATTTTTCGTAAATATT-TA
1 AAAA-TATTTTT-GTAAATATTCTA
13552346 AA
1 AA
13552348 GTATTTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 4 0.18
24 11 0.50
25 7 0.32
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
AAAATATTTTTGTAAATATTCTA
Found at i:13552611 original size:16 final size:14
Alignment explanation
Indices: 13552576--13552617 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
13552566 AACTTTGATA
13552576 TATTAAT-TTAAAT
1 TATTAATATTAAAT
13552589 TATTAATATTATAAT
1 TATTAATATTA-AAT
13552604 TAATTAATA-TAAAT
1 T-ATTAATATTAAAT
13552618 GACAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 6 0.23
16 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTAATATTAAAT
Found at i:13558493 original size:21 final size:21
Alignment explanation
Indices: 13558469--13558512 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
13558459 ATGTGAATGT
*
13558469 TTCATCTCCCCTTCAATTGTG
1 TTCATCTCCCCTTAAATTGTG
*
13558490 TTCATCTTCCCTTAAATTGTG
1 TTCATCTCCCCTTAAATTGTG
13558511 TT
1 TT
13558513 TACACTGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.27, G:0.09, T:0.48
Consensus pattern (21 bp):
TTCATCTCCCCTTAAATTGTG
Found at i:13571361 original size:1 final size:1
Alignment explanation
Indices: 13571355--13571380 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
13571345 CGTAAACAGC
13571355 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
13571381 GTGGAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13572029 original size:20 final size:20
Alignment explanation
Indices: 13571995--13572033 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13571985 TATTAAAAAA
13571995 TTTTTTTAAAGAAAATTACG
1 TTTTTTTAAAGAAAATTACG
13572015 TTTTTATTAAA-AAAATTAC
1 TTTTT-TTAAAGAAAATTAC
13572034 AGTAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTTTTTAAAGAAAATTACG
Found at i:13574952 original size:18 final size:19
Alignment explanation
Indices: 13574929--13574966 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
13574919 TCTTTTGAAG
*
13574929 CTTTTGCTTT-TGGTTTAC
1 CTTTTGCTTTATGGTCTAC
13574947 CTTTTGCTTTATGGTCTAC
1 CTTTTGCTTTATGGTCTAC
13574966 C
1 C
13574967 ATTGTCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.08, C:0.21, G:0.16, T:0.55
Consensus pattern (19 bp):
CTTTTGCTTTATGGTCTAC
Found at i:13576727 original size:6 final size:6
Alignment explanation
Indices: 13576718--13576743 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13576708 TATTTATTGT
13576718 ATTTTA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA AT
13576744 ATAACAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:13578617 original size:13 final size:13
Alignment explanation
Indices: 13578599--13578623 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13578589 TTTCCGTAAT
13578599 TTTTTATTTTTTA
1 TTTTTATTTTTTA
13578612 TTTTTATTTTTT
1 TTTTTATTTTTT
13578624 GAGATGTGGA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:13586143 original size:2 final size:2
Alignment explanation
Indices: 13586138--13586187 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
13586128 CTCTCTCTCT
*
13586138 CA CA CA CA CA CA CA CA CA CA CA CA CT CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13586180 CA CA CA CA
1 CA CA CA CA
13586188 TGCAAGACCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.50, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:13587597 original size:93 final size:89
Alignment explanation
Indices: 13587435--13587618 Score: 226
Period size: 93 Copynumber: 2.0 Consensus size: 89
13587425 TGGACGCATA
* * * *
13587435 AATTGGTCATTTTTTTCTCATAAATGAGTTTGTTTTATTTTTGTAAAATTTAATCATAGCTTTTT
1 AATTGGTCATTTTATTCTCATAAATGAGTTTGTTTTATTTTTGTAAAATTTAATAATAGATTTTA
* *
13587500 AAAAGCAAAAGGCAAAAAAAAAAT
66 AAAAGAAAAAAGCAAAAAAAAAAT
* *
13587524 AATTGGTCA-TTTATTCTCATAAATGAGGTTTTATTTTTTTTTTTTTGTAAAATTTAATAATAGA
1 AATTGGTCATTTTATTCTCATAAATGA-G---T-TTGTTTTATTTTTGTAAAATTTAATAATAGA
* *
13587588 TTTTAAAAAGAAAAAAGTAAATAAAAAAT
61 TTTTAAAAAGAAAAAAGCAAAAAAAAAAT
13587617 AA
1 AA
13587619 AGAATAAAAC
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
88 16 0.20
89 10 0.12
92 1 0.01
93 53 0.66
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (89 bp):
AATTGGTCATTTTATTCTCATAAATGAGTTTGTTTTATTTTTGTAAAATTTAATAATAGATTTTA
AAAAGAAAAAAGCAAAAAAAAAAT
Found at i:13587926 original size:107 final size:109
Alignment explanation
Indices: 13587805--13588000 Score: 240
Period size: 109 Copynumber: 1.8 Consensus size: 109
13587795 TAATGACTAG
* * *
13587805 ACACGTGATATACTTTTTGATATTAACTGGA-TT-A-GATAAAAAAA-TA-AAATATTTAAAAAT
1 ACACGAGATATAC-TTTTGATATCAAATGGATTTCACGATAAAAAAATTACAAATATTTAAAAAT
* *
13587865 ATTTATTAAATATATAAAAGAGAAAAATAATAGAAAAAAAAAAGTAA
65 ATTAATTAAA-A-AAAAAAGAGAAAAATAATAGAAAAAAAAAAGTAA
* ** * *
13587912 ACACGAGATGTACTTTTGATATCAAATGGATTTCACTCTAAAAAAATTACAATTTTTTAAAAATA
1 ACACGAGATATACTTTTGATATCAAATGGATTTCACGATAAAAAAATTACAAATATTTAAAAATA
13587977 TTAATTAAAAAAAAAAGAGAAAAA
66 TTAATTAAAAAAAAAAGAGAAAAA
13588001 GAAAGCAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
106 15 0.20
107 13 0.18
108 1 0.01
109 21 0.28
110 3 0.04
111 21 0.28
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (109 bp):
ACACGAGATATACTTTTGATATCAAATGGATTTCACGATAAAAAAATTACAAATATTTAAAAATA
TTAATTAAAAAAAAAAGAGAAAAATAATAGAAAAAAAAAAGTAA
Found at i:13588730 original size:16 final size:15
Alignment explanation
Indices: 13588709--13588744 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
13588699 AAAAATATCG
*
13588709 AAAAAAAGAAAAAGAA
1 AAAAAAACAAAAA-AA
13588725 AAAAAAACAAAAAAA
1 AAAAAAACAAAAAAA
13588740 AAAAA
1 AAAAA
13588745 TGGAGCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.92, C:0.03, G:0.06, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAA
Found at i:13590243 original size:20 final size:19
Alignment explanation
Indices: 13590206--13590248 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13590196 TATTTATATT
* *
13590206 TTTACTTTTCTTTATATGC
1 TTTAATTTTCTTTATATGA
*
13590225 TTTAATTTTTTTTATTATGA
1 TTTAATTTTCTTTA-TATGA
13590245 TTTA
1 TTTA
13590249 TCTTTAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTAATTTTCTTTATATGA
Found at i:13591516 original size:96 final size:94
Alignment explanation
Indices: 13591408--13591581 Score: 242
Period size: 96 Copynumber: 1.8 Consensus size: 94
13591398 AAAAATAAAA
* * *
13591408 TTTTAATCCTACCAAACAATTAGAGGATTTAAATCTCTGAA-TCAAGTATTACCAAACTATTGAA
1 TTTTAATCCTACCAAACAATTAAAAGATTTAAATCTC--AAGTCAAATATTA-CAAACTATTGAA
*
13591472 GGATTTAATGAATTTTCTTGAAAAAATATATT
63 AGATTTAATGAATTTTCTTGAAAAAATATATT
* * *
13591504 TTTTAATCCTACCAAACTATTAAAAGATTTAAATCTCAAGTTAAATCTTACAAACTATTGAAAGA
1 TTTTAATCCTACCAAACAATTAAAAGATTTAAATCTCAAGTCAAATATTACAAACTATTGAAAGA
*
13591569 TTTAATGAGTTTT
66 TTTAATGAATTTT
13591582 TTTTACAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
94 28 0.41
95 7 0.10
96 34 0.49
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (94 bp):
TTTTAATCCTACCAAACAATTAAAAGATTTAAATCTCAAGTCAAATATTACAAACTATTGAAAGA
TTTAATGAATTTTCTTGAAAAAATATATT
Found at i:13603385 original size:46 final size:46
Alignment explanation
Indices: 13603298--13603388 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
13603288 CATCCTTACA
* * **
13603298 TTTAAAGTTGTGTGCCTTTGTCTTGAAAAAGCCTTTGATTTTTTTT
1 TTTAAAGTTGTGTGCCTTTATATTGAAAAAGCCTTAAATTTTTTTT
* *
13603344 TTTAAAGTTGTGTGCCTTTATATTGAAAGAGTCTTAAATTTTTTT
1 TTTAAAGTTGTGTGCCTTTATATTGAAAAAGCCTTAAATTTTTTT
13603389 AAAAAGTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.52
Consensus pattern (46 bp):
TTTAAAGTTGTGTGCCTTTATATTGAAAAAGCCTTAAATTTTTTTT
Found at i:13605475 original size:18 final size:21
Alignment explanation
Indices: 13605448--13605489 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13605438 ATAATTAAAT
13605448 TATGTGTT-AAG-TT-GATAA
1 TATGTGTTAAAGTTTGGATAA
*
13605466 TATGTTTTAAAGTTTGGATAA
1 TATGTGTTAAAGTTTGGATAA
13605487 TAT
1 TAT
13605490 AAAATTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 7 0.35
19 3 0.15
20 2 0.10
21 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (21 bp):
TATGTGTTAAAGTTTGGATAA
Found at i:13606626 original size:2 final size:2
Alignment explanation
Indices: 13606619--13606656 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
13606609 TACTATATTC
* *
13606619 TA TA TA TA TA TA TA TA TA TA TA TA TG T- TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13606657 GCGGCGAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (2 bp):
TA
Found at i:13614146 original size:4 final size:4
Alignment explanation
Indices: 13614137--13614163 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
13614127 ATTATGGATA
13614137 TCCT TCCT TCCT TCCT TCCT TCCT TCC
1 TCCT TCCT TCCT TCCT TCCT TCCT TCC
13614164 ATTGTCCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (4 bp):
TCCT
Found at i:13614433 original size:31 final size:30
Alignment explanation
Indices: 13614382--13614439 Score: 73
Period size: 32 Copynumber: 1.9 Consensus size: 30
13614372 CACCCTAACC
*
13614382 TTTTTTTTTTTGAATAA-TTTTAAATACAT
1 TTTTTTTTTTTAAATAATTTTTAAATACAT
*
13614411 TTTTTATTTTTTAAAATTATTTTTAAATA
1 TTTTT-TTTTTT-AAATAATTTTTAAATA
13614440 AAATTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.21
30 6 0.25
31 4 0.17
32 9 0.38
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (30 bp):
TTTTTTTTTTTAAATAATTTTTAAATACAT
Found at i:13614517 original size:34 final size:34
Alignment explanation
Indices: 13614473--13614547 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 34
13614463 ACCCCTTTAA
* *
13614473 TTTT-AAAGTTTTT-AATTTA-ACATATTAAAACAT
1 TTTTAAAAGTTTTTAAATTTACAAAT-TTAAAA-AC
13614506 TTTTAAAAGTTTTTAAATTTACAAATTTAAAAAC
1 TTTTAAAAGTTTTTAAATTTACAAATTTAAAAAC
13614540 TTTTAAAA
1 TTTTAAAA
13614548 ACTTATGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
33 4 0.11
34 18 0.49
35 12 0.32
36 3 0.08
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (34 bp):
TTTTAAAAGTTTTTAAATTTACAAATTTAAAAAC
Found at i:13615303 original size:2 final size:2
Alignment explanation
Indices: 13615296--13615325 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13615286 TCATCTTTTG
*
13615296 CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13615326 TTTATTCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:13615911 original size:69 final size:68
Alignment explanation
Indices: 13615773--13615949 Score: 194
Period size: 69 Copynumber: 2.5 Consensus size: 68
13615763 TGTCAGGGAC
* * * * * **
13615773 AATGCGTAATAAATTATTTTTATAATTTGAATTTATGATCTAAATAGAAAATAGGAGCATAGAGA
1 AATGAGTAAAAAATTACTTTTATATTTTAAATTTGGGATCTAAATAGAAAATA-GAGCATAGAGA
13615838 AATT
65 AATT
* **
13615842 AATGAGTAAAAAATTACTTTTATATTTTAAATTTGGGATCTAAATAGAAAGTA-AGTGTAGAGAA
1 AATGAGTAAAAAATTACTTTTATATTTTAAATTTGGGATCTAAATAGAAAATAGAGCATAGAG-A
13615906 TAATT
65 -AATT
*
13615911 AATGGGTTTAAAAAAATTACTTTTATATTTTAAATTTGG
1 AATGAG--T-AAAAAATTACTTTTATATTTTAAATTTGG
13615950 CATACTCATC
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
67 7 0.08
68 1 0.01
69 54 0.59
71 1 0.01
72 29 0.32
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (68 bp):
AATGAGTAAAAAATTACTTTTATATTTTAAATTTGGGATCTAAATAGAAAATAGAGCATAGAGAA
ATT
Found at i:13618578 original size:25 final size:24
Alignment explanation
Indices: 13618525--13618579 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
13618515 AATATCCATA
13618525 TATAAAATATTAATTTTATCTTTT
1 TATAAAATATTAATTTTATCTTTT
* *
13618549 AATAAATTA-TAATTTTATTTCTTTT
1 TATAAAATATTAATTTTA--TCTTTT
13618574 TATAAA
1 TATAAA
13618580 CTTTAAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 8 0.31
24 7 0.27
25 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (24 bp):
TATAAAATATTAATTTTATCTTTT
Found at i:13621209 original size:60 final size:59
Alignment explanation
Indices: 13621145--13621322 Score: 234
Period size: 60 Copynumber: 3.0 Consensus size: 59
13621135 AAAAAATAAA
13621145 TTTAAGGAAAAGTTGAAAGTATTAATTTTCTTTGAAAATAAAAGTTTTAAAAAATATTTT
1 TTTAAGGAAAAGTTGAAAGTATTAATTTTCTTTGAAAATAAAA-TTTTAAAAAATATTTT
* * *
13621205 TTTAAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAGATAAAATTTTCAAAAGATA-TTT
1 TTTAAGGAAAAGTTGAAAGTATTAATTTTCTTTGAAAATAAAATTTT-AAAAAATATTTT
* * * * * *
13621264 TTTGATGAACAGTTGAAAGTATCAATTTT-TTTTAAAATAAAAATTTCAAAAAATATTTT
1 TTTAAGGAAAAGTTGAAAGTATTAATTTTCTTTGAAAAT-AAAATTTTAAAAAATATTTT
13621323 GACAAAAAGT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
58 13 0.13
59 42 0.41
60 48 0.47
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (59 bp):
TTTAAGGAAAAGTTGAAAGTATTAATTTTCTTTGAAAATAAAATTTTAAAAAATATTTT
Found at i:13621233 original size:28 final size:28
Alignment explanation
Indices: 13621145--13621233 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 28
13621135 AAAAAATAAA
13621145 TTTAAGGAAAAGTTGAAAGTATTAATTTT
1 TTTAAGGAAAAGTTGAAAGTATTAA-TTT
** * * * *
13621174 CTTTGAAAATAAAAGTTTTAAA-AAATATTTT
1 -TTT--AAGGAAAAG-TTGAAAGTATTAATTT
13621205 TTTAAGGAAAAGTTGAAAGTATTAATTT
1 TTTAAGGAAAAGTTGAAAGTATTAATTT
13621233 T
1 T
13621234 CCTTGAAGAT
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
27 5 0.12
28 14 0.33
30 6 0.14
31 3 0.07
32 10 0.23
33 5 0.12
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.42
Consensus pattern (28 bp):
TTTAAGGAAAAGTTGAAAGTATTAATTT
Found at i:13621307 original size:59 final size:59
Alignment explanation
Indices: 13621151--13621348 Score: 233
Period size: 59 Copynumber: 3.4 Consensus size: 59
13621141 TAAATTTAAG
* * * * *
13621151 GAAAAGTTGAAAGTATTAATTTTCTTTGAAAATAAAAGTTTTAAAAAATATTTTTTTAAG
1 GAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAATTTTCAAAAATA-TTTTTTGAC
* * * *
13621211 GAAAAGTTGAAAGTATTAATTTTCCTTGAAGAT-AAAATTTTCAAAAGATATTTTTTGAT
1 GAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAATTTTCAAAA-ATATTTTTTGAC
* * *
13621270 GAACAGTTGAAAGTATCAATTTT-TTTTAAAATAAAAA-TTTCAAAAA-ATATTTTGAC
1 GAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAATTTTCAAAAATATTTTTTGAC
*
13621326 AAAAAGTTGAAAGTATCAATTTT
1 GAAAAGTTGAAAGTATCAATTTT
13621349 TCTTGAATAA
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
56 29 0.24
57 1 0.01
58 14 0.12
59 43 0.36
60 34 0.28
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (59 bp):
GAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAATTTTCAAAAATATTTTTTGAC
Found at i:13626752 original size:17 final size:17
Alignment explanation
Indices: 13626732--13626904 Score: 91
Period size: 17 Copynumber: 10.2 Consensus size: 17
13626722 AAAATCTTGT
*
13626732 GAATCTCCAATTTTTAC
1 GAATCTCCAATTTTTGC
**
13626749 GAATCTAAAATTTTTGC
1 GAATCTCCAATTTTTGC
*
13626766 GAATCTCCAACTTTTGC
1 GAATCTCCAATTTTTGC
* * * *
13626783 AAATCTTCAATTCTTGT
1 GAATCTCCAATTTTTGC
*
13626800 GAATC-CAAATCTTTT--
1 GAATCTCCAAT-TTTTGC
** **
13626815 GAATCTTTTAATTTTTAT
1 GAATC-TCCAATTTTTGC
** ** *
13626833 GAATCTGAAATCCTTAC
1 GAATCTCCAATTTTTGC
13626850 GAATCTCCAATTTTTGC
1 GAATCTCCAATTTTTGC
* * *
13626867 GAATCTTCAATTATTGT
1 GAATCTCCAATTTTTGC
** *
13626884 GAATCTTTAATTCTTGC
1 GAATCTCCAATTTTTGC
13626901 GAAT
1 GAAT
13626905 ATAAAATTCT
Statistics
Matches: 118, Mismatches: 33, Indels: 10
0.73 0.20 0.06
Matches are distributed among these distances:
15 5 0.04
16 7 0.06
17 101 0.86
18 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (17 bp):
GAATCTCCAATTTTTGC
Found at i:13626804 original size:34 final size:34
Alignment explanation
Indices: 13626721--13626804 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 34
13626711 TTATGAACCA
* * *
13626721 AAAAATCTTGTGAATCTCCAATTTTTACGAATCT
1 AAAATTCTTGTGAATCTCCAACTTTTACAAATCT
* * *
13626755 AAAATTTTTGCGAATCTCCAACTTTTGCAAATCT
1 AAAATTCTTGTGAATCTCCAACTTTTACAAATCT
**
13626789 TCAATTCTTGTGAATC
1 AAAATTCTTGTGAATC
13626805 CAAATCTTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (34 bp):
AAAATTCTTGTGAATCTCCAACTTTTACAAATCT
Found at i:13626853 original size:84 final size:83
Alignment explanation
Indices: 13626723--13626888 Score: 224
Period size: 84 Copynumber: 2.0 Consensus size: 83
13626713 ATGAACCAAA
** *
13626723 AAATCTTGTGAATCTCCAATTTTTACGAATCTAAAATTTTTGCGAATCTCCAACTTTTGCAAATC
1 AAATCTTGTGAATCTCCAATTTTTACGAATCTAAAATCCTTACGAATCTCCAACTTTTGCAAATC
*
13626788 TTCAATTCTTGTGAATCC
66 TTCAATTATTGTGAATCC
* ** * * * *
13626806 AAATCTTTTGAATCTTTTAATTTTTATGAATCTGAAATCCTTACGAATCTCCAATTTTTGCGAAT
1 AAATCTTGTGAATC-TCCAATTTTTACGAATCTAAAATCCTTACGAATCTCCAACTTTTGCAAAT
13626871 CTTCAATTATTGTGAATC
65 CTTCAATTATTGTGAATC
13626889 TTTAATTCTT
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
83 13 0.18
84 58 0.82
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (83 bp):
AAATCTTGTGAATCTCCAATTTTTACGAATCTAAAATCCTTACGAATCTCCAACTTTTGCAAATC
TTCAATTATTGTGAATCC
Found at i:13626957 original size:15 final size:15
Alignment explanation
Indices: 13626934--13626967 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13626924 TTAAACCTTA
*
13626934 CAAATCTTTGAATTG
1 CAAACCTTTGAATTG
*
13626949 CAAACCTTTGAATTT
1 CAAACCTTTGAATTG
13626964 CAAA
1 CAAA
13626968 ATTGTGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (15 bp):
CAAACCTTTGAATTG
Found at i:13628601 original size:90 final size:88
Alignment explanation
Indices: 13628507--13628680 Score: 233
Period size: 90 Copynumber: 2.0 Consensus size: 88
13628497 AACGTTTTTA
* **
13628507 AGGAAAAATTAAAAGTATTAATTTTTCTTGAAAATAAAAATTTCAAAAAAATATTTTTTTGGAAA
1 AGGAAAAATTAAAAGTATCAATTTTTCTTGAAAATAAAAATTTC-AAAAAATATTTTTAAGG-AA
13628572 AAATTGAAAA-TATCAATTTTCTTTG
64 AAATT-AAAAGTATCAATTTTCTTTG
* * * ** *
13628597 AGGAAAAGTTGAAAGTATCAATTTTTTTTTTAAATAAAAATTTCAAAAAATGTTTTTAAGGAAAA
1 AGGAAAAATTAAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAATATTTTTAAGGAAAA
13628662 ATTAAAAGTATCAATTTTC
66 ATTAAAAGTATCAATTTTC
13628681 ATTAAATAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
87 4 0.05
88 18 0.24
89 14 0.19
90 38 0.51
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.39
Consensus pattern (88 bp):
AGGAAAAATTAAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAATATTTTTAAGGAAAA
ATTAAAAGTATCAATTTTCTTTG
Found at i:13633033 original size:12 final size:12
Alignment explanation
Indices: 13633016--13633043 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13633006 TAAAATCTGC
13633016 AAATTAGAATAA
1 AAATTAGAATAA
13633028 AAATTAGAATAA
1 AAATTAGAATAA
13633040 AAAT
1 AAAT
13633044 CATAATTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (12 bp):
AAATTAGAATAA
Found at i:13634550 original size:22 final size:22
Alignment explanation
Indices: 13634525--13634568 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13634515 TGTATATTTA
13634525 TATTTATATCTTTAGAATTAAG
1 TATTTATATCTTTAGAATTAAG
*
13634547 TATTTGTATCTTTAGAATTAAG
1 TATTTATATCTTTAGAATTAAG
13634569 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (22 bp):
TATTTATATCTTTAGAATTAAG
Found at i:13638534 original size:22 final size:22
Alignment explanation
Indices: 13638508--13638551 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13638498 TGTATATTTA
*
13638508 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
*
13638530 TATTTGTATCCCTATAATTAAG
1 TATTTGTATCCCTAGAATTAAG
13638552 GACAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:13641787 original size:20 final size:19
Alignment explanation
Indices: 13641762--13641801 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
13641752 ATATAATAAG
*
13641762 AAAAAAATATTTGGTTGAAA
1 AAAAAAAGATTTGGTT-AAA
13641782 AAAAAAAGATTTGGTTAAA
1 AAAAAAAGATTTGGTTAAA
13641801 A
1 A
13641802 TTTTTATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (19 bp):
AAAAAAAGATTTGGTTAAA
Found at i:13642523 original size:130 final size:128
Alignment explanation
Indices: 13642301--13642552 Score: 360
Period size: 130 Copynumber: 2.0 Consensus size: 128
13642291 TTAACGTCCT
*
13642301 TACTTAAGTTTGCTGACTAATACAAACATCCAATACGATATTGAAACGTGTCAAAATAGTCTAAT
1 TACTTAAGTTTGCTGACTAATACAAACATCCAATACGATATTGAAACGTGTCAAAATAATCTAAT
* *
13642366 CAGTGTCATATCATCATTACCATGTTAGCATAAAAAGAAAAACTCAAAAAAATTTTAACACCGA
66 CAGTGTCATATCATCACTACCACGTTAGCATAAAAA-AAAAACTCAAAAAAATTTTAACACCGA
* * * ** * * * *
13642430 TACTTAAGTTTGCTGATGTGATACAAGCATCCAATGTGATGTTGATATGTGTCAAAATAATCTAG
1 TACTTAAGTTTGCTGA-CTAATACAAACATCCAATACGATATTGAAACGTGTCAAAATAATCTAA
* *
13642495 TTAGTGTCATATCATCACTACCACGTTAGCATAAAAAAAAAACTTAAAAAAATTTTAA
65 TCAGTGTCATATCATCACTACCACGTTAGCATAAAAAAAAAACTCAAAAAAATTTTAA
13642553 ACAATTCCAA
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
129 36 0.33
130 72 0.67
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (128 bp):
TACTTAAGTTTGCTGACTAATACAAACATCCAATACGATATTGAAACGTGTCAAAATAATCTAAT
CAGTGTCATATCATCACTACCACGTTAGCATAAAAAAAAAACTCAAAAAAATTTTAACACCGA
Found at i:13642584 original size:10 final size:10
Alignment explanation
Indices: 13642542--13642648 Score: 64
Period size: 10 Copynumber: 10.7 Consensus size: 10
13642532 AAAAACTTAA
13642542 AAAAATT-TT
1 AAAAATTCTT
*
13642551 AAACAATTC-C
1 AAA-AATTCTT
*
13642561 AAAAGATT-TA
1 AAAA-ATTCTT
13642571 AAAAATTCTT
1 AAAAATTCTT
13642581 AAAAATT-TGT
1 AAAAATTCT-T
13642591 AATAAATTC-T
1 AA-AAATTCTT
* *
13642601 AAAAATACTC
1 AAAAATTCTT
*
13642611 AAAAACTACTT
1 AAAAA-TTCTT
13642622 AAAAATTC-T
1 AAAAATTCTT
*
13642631 ATAAAATTTTT
1 A-AAAATTCTT
13642642 AAAAATT
1 AAAAATT
13642649 AAAAAAAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
9 15 0.19
10 47 0.60
11 16 0.21
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAAATTCTT
Found at i:13642712 original size:29 final size:28
Alignment explanation
Indices: 13642679--13642734 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
13642669 AAAATACTTG
*
13642679 TTTTTTT-CAAATTCCAAAAATATTTAAA
1 TTTTTTTAAAAATTCCAAAAAT-TTTAAA
*
13642707 TTTTTTTAAAAATTCTAAAAATTTTAAA
1 TTTTTTTAAAAATTCCAAAAATTTTAAA
13642735 AAGTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTTTTTAAAAATTCCAAAAATTTTAAA
Found at i:13642727 original size:9 final size:9
Alignment explanation
Indices: 13642710--13642873 Score: 98
Period size: 9 Copynumber: 17.1 Consensus size: 9
13642700 ATTTAAATTT
13642710 TTTTAAAAA
1 TTTTAAAAA
*
13642719 TTCTAAAAA
1 TTTTAAAAA
13642728 TTTTAAAAA
1 TTTTAAAAA
*
13642737 GTTTT-TAAA
1 -TTTTAAAAA
*
13642746 TTTTTAAAA
1 TTTTAAAAA
13642755 TTATTATAAAA
1 TT-TTA-AAAA
13642766 TTTTAAAAA
1 TTTTAAAAA
* *
13642775 TTTTATAGAG
1 TTTTA-AAAA
13642785 TTTATAAAAA
1 TTT-TAAAAA
13642795 TTTT-AAAA
1 TTTTAAAAA
13642803 TTTCATAAAAAA
1 TTT--T-AAAAA
**
13642815 TTCAAAACAA
1 TTTTAAA-AA
*
13642825 TTCTAAAAAA
1 TT-TTAAAAA
*
13642835 TTCTAAAACA
1 TTTTAAAA-A
* *
13642845 TTTTTAAAT
1 TTTTAAAAA
13642854 TTTATAAAAA
1 TTT-TAAAAA
*
13642864 ATTTAAAAA
1 TTTTAAAAA
13642873 T
1 T
13642874 ATGAACTATG
Statistics
Matches: 120, Mismatches: 21, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
8 11 0.09
9 50 0.42
10 41 0.34
11 12 0.10
12 6 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:13642731 original size:19 final size:19
Alignment explanation
Indices: 13642709--13642852 Score: 73
Period size: 20 Copynumber: 7.4 Consensus size: 19
13642699 TATTTAAATT
13642709 TTTTTAAAAATTCTAAAAA
1 TTTTTAAAAATTCTAAAAA
**
13642728 -TTTTAAAAAGTT-TTTAAA
1 TTTTTAAAAA-TTCTAAAAA
*
13642746 TTTTT-AAAATTATTATAAAA
1 TTTTTAAAAATT-CTA-AAAA
* * *
13642766 -TTTTAAAAATTTTATAGAG
1 TTTTTAAAAATTCTA-AAAA
* *
13642785 TTTATAAAAATT-TTAAAA
1 TTTTTAAAAATTCTAAAAA
* *
13642803 TTTCATAAAAAATTCAAAACAA
1 TTT--TTAAAAATTCTAAA-AA
* *
13642825 TTCTAAAAAATTCTAAAACA
1 TTTTTAAAAATTCTAAAA-A
13642845 TTTTTAAA
1 TTTTTAAA
13642853 TTTTATAAAA
Statistics
Matches: 95, Mismatches: 18, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
17 2 0.02
18 22 0.23
19 19 0.20
20 46 0.48
21 2 0.02
22 4 0.04
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (19 bp):
TTTTTAAAAATTCTAAAAA
Found at i:13642916 original size:24 final size:26
Alignment explanation
Indices: 13642860--13642922 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
13642850 AAATTTTATA
13642860 AAAAATTTAAAAATATGAACTATGTTT
1 AAAAA-TTAAAAATATGAACTATGTTT
*
13642887 ATAAATTAAAAATTATG-A-TAT-TTT
1 AAAAATTAAAAA-TATGAACTATGTTT
13642911 AAAAATTAAAAA
1 AAAAATTAAAAA
13642923 AACTATTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 14 0.42
25 3 0.09
26 8 0.24
27 8 0.24
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (26 bp):
AAAAATTAAAAATATGAACTATGTTT
Found at i:13642970 original size:25 final size:24
Alignment explanation
Indices: 13642929--13642976 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
13642919 AAAAAACTAT
13642929 TAAAAATTTAACCCAAAATCTAAAAA
1 TAAAAATTTAA-CCAAAAT-TAAAAA
13642955 TAAAAATTTTAA-CAAAATTAAA
1 TAAAAA-TTTAACCAAAATTAAA
13642977 TTTCCTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.19
25 6 0.29
26 6 0.29
27 5 0.24
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.27
Consensus pattern (24 bp):
TAAAAATTTAACCAAAATTAAAAA
Found at i:13643109 original size:9 final size:9
Alignment explanation
Indices: 13643091--13643123 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
13643081 ATCTAATCTT
13643091 TTTTTCAAAA
1 TTTTT-AAAA
13643101 TTTTTAAAA
1 TTTTTAAAA
13643110 TTTTTAAAA
1 TTTTTAAAA
13643119 TTTTT
1 TTTTT
13643124 TCAAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:13643114 original size:10 final size:10
Alignment explanation
Indices: 13643091--13643129 Score: 55
Period size: 9 Copynumber: 4.0 Consensus size: 10
13643081 ATCTAATCTT
13643091 TTTTTCAAAA
1 TTTTTCAAAA
13643101 TTTTT-AAAA
1 TTTTTCAAAA
13643110 TTTTT-AAAA
1 TTTTTCAAAA
13643119 TTTTTTCAAAA
1 -TTTTTCAAAA
13643130 ATTAAGTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 13 0.48
10 10 0.37
11 4 0.15
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTTCAAAA
Found at i:13643221 original size:20 final size:20
Alignment explanation
Indices: 13643207--13643261 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
13643197 CAATTTTAAT
*
13643207 AAAAATTAGAAAATTTCAAG
1 AAAAATTAAAAAATTTCAAG
*
13643227 AAAATTTAAAAAA-TTCAA-
1 AAAAATTAAAAAATTTCAAG
13643245 AAAATATATAAAAAATT
1 AAAA-AT-TAAAAAATT
13643262 AAAATTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.14
19 6 0.21
20 18 0.62
21 1 0.03
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAAATTAAAAAATTTCAAG
Found at i:13643230 original size:19 final size:17
Alignment explanation
Indices: 13643207--13643249 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
13643197 CAATTTTAAT
*
13643207 AAAAATTAGAAAATTTCA
1 AAAAATTA-AAAAATTCA
13643225 AGAAAATTTAAAAAATTCA
1 A-AAAA-TTAAAAAATTCA
13643244 AAAAAT
1 AAAAAT
13643250 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.05
18 5 0.23
19 13 0.59
20 3 0.14
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (17 bp):
AAAAATTAAAAAATTCA
Found at i:13643509 original size:10 final size:10
Alignment explanation
Indices: 13643411--13643513 Score: 59
Period size: 10 Copynumber: 9.8 Consensus size: 10
13643401 TTTTAGAAAA
*
13643411 TTTAAAATTT
1 TTTAGAATTT
13643421 TTT-GTAATTT
1 TTTAG-AATTT
13643431 TTTAGATATTT
1 TTTAGA-ATTT
*
13643442 TTTAATTTCAATTT
1 TTT-A---GAATTT
*
13643456 TTTTGAATTT
1 TTTAGAATTT
* *
13643466 TCTAAAATTT
1 TTTAGAATTT
13643476 TTATA-AATTAT
1 TT-TAGAATT-T
*
13643487 TTTAG-AGTT
1 TTTAGAATTT
13643496 TTTAGAATTT
1 TTTAGAATTT
13643506 TTTAGAAT
1 TTTAGAAT
13643514 GCTTTTAGTT
Statistics
Matches: 72, Mismatches: 10, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
9 6 0.08
10 44 0.61
11 13 0.18
12 1 0.01
14 7 0.10
15 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (10 bp):
TTTAGAATTT
Found at i:13643544 original size:11 final size:11
Alignment explanation
Indices: 13643528--13643556 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
13643518 TTAGTTTTAT
13643528 AATTTTTAAAA
1 AATTTTTAAAA
13643539 AA-TTTTAAAA
1 AATTTTTAAAA
13643549 AATTTTTA
1 AATTTTTA
13643557 GATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AATTTTTAAAA
Found at i:13644459 original size:22 final size:22
Alignment explanation
Indices: 13644422--13644496 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
13644412 ACTAATTTGG
13644422 GATATGTATTATAGTACTTATAA
1 GATATGTA-TATAGTACTTATAA
* *
13644445 GATATGTATATAGTACTTTTAG
1 GATATGTATATAGTACTTATAA
* *
13644467 GATATGTACATTGTACTTAT-A
1 GATATGTATATAGTACTTATAA
13644488 GAATATGTA
1 G-ATATGTA
13644497 CATATATATC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 1 0.02
22 36 0.80
23 8 0.18
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (22 bp):
GATATGTATATAGTACTTATAA
Found at i:13644853 original size:75 final size:75
Alignment explanation
Indices: 13644758--13644900 Score: 196
Period size: 75 Copynumber: 1.9 Consensus size: 75
13644748 ATAATACTCA
*** *
13644758 TTTGATATGTACATCTTGCTTTTGAAATATATACATAGTAGTTATAGTATATGTACATCTAGATA
1 TTTGATATGTACAAAGTGCTTTTGAAATATATACATAGTAGTTATAATATATGTACATCTAGATA
13644823 TATAGTGCTC
66 TATAGTGCTC
** * * * *
13644833 TTTGATATGTACAAAGTGCTTTTGGGATATTTATATATTAGTTATAATATATGTATATCTAGATA
1 TTTGATATGTACAAAGTGCTTTTGAAATATATACATAGTAGTTATAATATATGTACATCTAGATA
13644898 TAT
66 TAT
13644901 CTATATCTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 58 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.45
Consensus pattern (75 bp):
TTTGATATGTACAAAGTGCTTTTGAAATATATACATAGTAGTTATAATATATGTACATCTAGATA
TATAGTGCTC
Found at i:13649871 original size:10 final size:10
Alignment explanation
Indices: 13649856--13649890 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
13649846 ACTTTTAAGG
13649856 TTGAAATCAT
1 TTGAAATCAT
13649866 TTGAAATC--
1 TTGAAATCAT
13649874 TTGAAATCAT
1 TTGAAATCAT
13649884 TTGAAAT
1 TTGAAAT
13649891 TAGGACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.35
10 15 0.65
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (10 bp):
TTGAAATCAT
Found at i:13649879 original size:18 final size:18
Alignment explanation
Indices: 13649856--13649890 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
13649846 ACTTTTAAGG
13649856 TTGAAATCATTTGAAATC
1 TTGAAATCATTTGAAATC
13649874 TTGAAATCATTTGAAAT
1 TTGAAATCATTTGAAAT
13649891 TAGGACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (18 bp):
TTGAAATCATTTGAAATC
Found at i:13657347 original size:20 final size:20
Alignment explanation
Indices: 13657308--13657362 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
13657298 TAATCAAATC
* *
13657308 CAAGTCAAAGTTGATCAAAC-
1 CAAGTC-AACTTGGTCAAACT
13657328 CTAAGTCAACTTGGTCAAACT
1 C-AAGTCAACTTGGTCAAACT
*
13657349 CAAGTGAACTTGGT
1 CAAGTCAACTTGGT
13657363 TAGACCTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 24 0.80
21 6 0.20
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (20 bp):
CAAGTCAACTTGGTCAAACT
Found at i:13657435 original size:17 final size:19
Alignment explanation
Indices: 13657413--13657447 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13657403 TTCAACAACT
13657413 TTAAATC-T-GATCAAAAA
1 TTAAATCTTAGATCAAAAA
13657430 TTAAATCTTAGATCAAAA
1 TTAAATCTTAGATCAAAA
13657448 TACCCTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (19 bp):
TTAAATCTTAGATCAAAAA
Found at i:13663726 original size:20 final size:20
Alignment explanation
Indices: 13663684--13663739 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
13663674 AAATCTTTTC
**
13663684 TTCATTTACTTTGCACGCACT
1 TTCATTTACTTT-CAAACACT
13663705 TTCATTTACTTTCAAACACT
1 TTCATTTACTTTCAAACACT
*
13663725 TTTATTTACTTTCAA
1 TTCATTTACTTTCAA
13663740 TGTTATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.25, C:0.23, G:0.04, T:0.48
Consensus pattern (20 bp):
TTCATTTACTTTCAAACACT
Found at i:13669044 original size:20 final size:21
Alignment explanation
Indices: 13669000--13669051 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
13668990 TCAAAGTTTT
13669000 TCTTCATTTACTTTGCACACAC
1 TCTT-ATTTACTTTGCACACAC
13669022 TCTTATTTACTTT-CA-AGCAC
1 TCTTATTTACTTTGCACA-CAC
13669042 TCTTATTTAC
1 TCTTATTTAC
13669052 CTTTAAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.03
20 15 0.52
21 9 0.31
22 4 0.14
ACGTcount: A:0.23, C:0.27, G:0.04, T:0.46
Consensus pattern (21 bp):
TCTTATTTACTTTGCACACAC
Found at i:13670695 original size:133 final size:133
Alignment explanation
Indices: 13670449--13670715 Score: 367
Period size: 133 Copynumber: 2.0 Consensus size: 133
13670439 CGAAAGGTGC
* * * *
13670449 TTTGATGGGTCTTAATGAAGAAATAAGTTCCTTTAAAATATATTAACATAGTTTTAACAAATGTG
1 TTTGATGGGCCTTAATGAAGAAATAAGTTCCTTTAAAATACATTAACATAGTTGTAACAAATGTA
* * * * *
13670514 AGGACGTCTGAAGGCTTAACTGATAGCTTTCCCATTACCTTAAGATTGCATCAAGGCTCAGCACT
66 AGGACATCTGAAGGCTTAACTGATAACTTTCCAATTACCTCAAGATTGCATCAAGGCTAAGCACT
13670579 AAG
131 AAG
*
13670582 TTTGATGGGCCTTAATGAAG-AATGAAGTTTCTTTAAAATACATTAACATAGTTGTAACAAATGT
1 TTTGATGGGCCTTAATGAAGAAAT-AAGTTCCTTTAAAATACATTAACATAGTTGTAACAAATGT
* * * *
13670646 AAGGACATCTGAGGGCTTGATTGATAACTTTTCAATTACCTCATA-ATTGCATCAAGGCTAAGCA
65 AAGGACATCTGAAGGCTTAACTGATAACTTTCCAATTACCTCA-AGATTGCATCAAGGCTAAGCA
*
13670710 TTAAG
129 CTAAG
13670715 T
1 T
13670716 CCATTTCTTT
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
132 3 0.03
133 113 0.97
134 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (133 bp):
TTTGATGGGCCTTAATGAAGAAATAAGTTCCTTTAAAATACATTAACATAGTTGTAACAAATGTA
AGGACATCTGAAGGCTTAACTGATAACTTTCCAATTACCTCAAGATTGCATCAAGGCTAAGCACT
AAG
Found at i:13679439 original size:14 final size:15
Alignment explanation
Indices: 13679413--13679442 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
13679403 TATGTATTGC
13679413 TTTAAATTTCTATTT
1 TTTAAATTTCTATTT
13679428 TTTAAA-TTCTATTT
1 TTTAAATTTCTATTT
13679442 T
1 T
13679443 GATTATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTAAATTTCTATTT
Found at i:13679598 original size:21 final size:21
Alignment explanation
Indices: 13679573--13679615 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13679563 TTTTCTAAGT
*
13679573 GTTTGTATGTATACATTCTAG
1 GTTTGTATATATACATTCTAG
* *
13679594 GTTTGTATATATGCCTTCTAG
1 GTTTGTATATATACATTCTAG
13679615 G
1 G
13679616 ATGTAGCTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.47
Consensus pattern (21 bp):
GTTTGTATATATACATTCTAG
Found at i:13687481 original size:6 final size:6
Alignment explanation
Indices: 13687459--13687560 Score: 96
Period size: 6 Copynumber: 17.0 Consensus size: 6
13687449 CTTTGATTAG
* * * * *
13687459 ATTAAA AATATA ATTAAA ATTAAA ATCAAG ATAAAA ATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
* * * * * *
13687507 ATCAAA ATTAAA ACTAAA ATCAAA ATCAAA ATTAAA TTTAAA TTTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
*
13687555 TTTAAA
1 ATTAAA
13687561 TCTTGAATTT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 80 1.00
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.30
Consensus pattern (6 bp):
ATTAAA
Done.