Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 43 of 332
Found at i:13011169 original size:29 final size:28
Alignment explanation
Indices: 13011108--13011316 Score: 136
Period size: 29 Copynumber: 7.3 Consensus size: 28
13011098 AGAAGTGAGC
* * * *
13011108 TTTGTGGTTGTCTTTGTCAAAGGAAGCC
1 TTTGTGGCTATCTTTGTTAAAGGAAGCT
13011136 TTTGTGGCTATCTTTGTTATAAGGAAGCT
1 TTTGTGGCTATCTTTGTTA-AAGGAAGCT
* * * *
13011165 TTTGTGGCGATATCTGTTAAATGAATG-T
1 TTTGTGGCTATCTTTGTTAAAGGAA-GCT
* * *
13011193 CTTTGTGGTTAT-TTCTGTCAAAGAAAGCT
1 -TTTGTGGCTATCTT-TGTTAAAGGAAGCT
* * **
13011222 TTTGTGACTATCTCTGTTAAAGGAATAT
1 TTTGTGGCTATCTTTGTTAAAGGAAGCT
* * *
13011250 CTCTGTGGCTATCTTTATTAAAAGGATGCCT
1 -TTTGTGGCTATCTTTGTT-AAAGGAAG-CT
* * *
13011281 TTT-TGGCTATCTCTATTAAAGGAATGCC
1 TTTGTGGCTATCTTTGTTAAAGGAA-GCT
13011309 TTTGTGGC
1 TTTGTGGC
13011317 GAATGCCTTT
Statistics
Matches: 138, Mismatches: 32, Indels: 21
0.72 0.17 0.11
Matches are distributed among these distances:
28 53 0.38
29 76 0.55
30 8 0.06
31 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.42
Consensus pattern (28 bp):
TTTGTGGCTATCTTTGTTAAAGGAAGCT
Found at i:13011199 original size:58 final size:57
Alignment explanation
Indices: 13011108--13011316 Score: 199
Period size: 57 Copynumber: 3.6 Consensus size: 57
13011098 AGAAGTGAGC
* * * * *
13011108 TTTGTGGTTGTCTTTGTCAAAGGAA-GCCTTTGTGGCTATCTTTGTTATAAGGAAGCT
1 TTTGTGGCTATCTCTGTTAAAGGAATGTCTTTGTGGCTATCTTTGTTA-AAGGAAGCT
* * * * * *
13011165 TTTGTGGCGATATCTGTTAAATGAATGTCTTTGTGGTTAT-TTCTGTCAAAGAAAGCT
1 TTTGTGGCTATCTCTGTTAAAGGAATGTCTTTGTGGCTATCTT-TGTTAAAGGAAGCT
* * * * *
13011222 TTTGTGACTATCTCTGTTAAAGGAATATCTCTGTGGCTATCTTTATTAAAAGGATGCCT
1 TTTGTGGCTATCTCTGTTAAAGGAATGTCTTTGTGGCTATCTTTGTT-AAAGGAAG-CT
* *
13011281 TTT-TGGCTATCTCTATTAAAGGAATGCCTTTGTGGC
1 TTTGTGGCTATCTCTGTTAAAGGAATGTCTTTGTGGC
13011317 GAATGCCTTT
Statistics
Matches: 120, Mismatches: 27, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
57 63 0.52
58 52 0.43
59 5 0.04
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.42
Consensus pattern (57 bp):
TTTGTGGCTATCTCTGTTAAAGGAATGTCTTTGTGGCTATCTTTGTTAAAGGAAGCT
Found at i:13011322 original size:15 final size:15
Alignment explanation
Indices: 13011302--13011331 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13011292 TCTATTAAAG
13011302 GAATGCCTTTGTGGC
1 GAATGCCTTTGTGGC
13011317 GAATGCCTTTGTGGC
1 GAATGCCTTTGTGGC
13011332 TATCTTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.33, T:0.33
Consensus pattern (15 bp):
GAATGCCTTTGTGGC
Found at i:13011365 original size:29 final size:29
Alignment explanation
Indices: 13011319--13011382 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
13011309 TTTGTGGCGA
* * * * *
13011319 ATGCCTTTGTGGCTATCTTAGTTAAATGG
1 ATGCCTTTGAGACCATCTTAGCTAAAAGG
*
13011348 ATGCCTTTGAGACCATCTTTGCTAAAAGG
1 ATGCCTTTGAGACCATCTTAGCTAAAAGG
13011377 ATGCCT
1 ATGCCT
13011383 ACATGGTGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (29 bp):
ATGCCTTTGAGACCATCTTAGCTAAAAGG
Found at i:13015302 original size:18 final size:18
Alignment explanation
Indices: 13015281--13015324 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
13015271 TTATTTAATA
13015281 TTTATTA-ATTATATATTT
1 TTTATTACATTATATA-TT
13015299 TTTATTATCATTATATATT
1 TTTATTA-CATTATATATT
13015318 TTTATTA
1 TTTATTA
13015325 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.29
19 9 0.38
20 8 0.33
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTATTACATTATATATT
Found at i:13015321 original size:19 final size:20
Alignment explanation
Indices: 13015288--13015325 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
13015278 ATATTTATTA
13015288 ATTATATATTTTTTATTATC
1 ATTATATATTTTTTATTATC
13015308 ATTATATA-TTTTTATTAT
1 ATTATATATTTTTTATTAT
13015326 ATTTTTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTATATATTTTTTATTATC
Found at i:13016318 original size:21 final size:21
Alignment explanation
Indices: 13016293--13016333 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13016283 TAAACCCTAC
13016293 TTTAAATTCTAAACTCAAGAG
1 TTTAAATTCTAAACTCAAGAG
* *
13016314 TTTAAATTTTAAATTCAAGA
1 TTTAAATTCTAAACTCAAGA
13016334 AGTATTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (21 bp):
TTTAAATTCTAAACTCAAGAG
Found at i:13016619 original size:7 final size:7
Alignment explanation
Indices: 13016607--13016631 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13016597 AATGTCTTCA
13016607 GGGGGAG
1 GGGGGAG
13016614 GGGGGAG
1 GGGGGAG
13016621 GGGGGAG
1 GGGGGAG
13016628 GGGG
1 GGGG
13016632 CATCTCTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.88, T:0.00
Consensus pattern (7 bp):
GGGGGAG
Found at i:13017660 original size:40 final size:40
Alignment explanation
Indices: 13017600--13017742 Score: 227
Period size: 40 Copynumber: 3.6 Consensus size: 40
13017590 GAAACAATAA
13017600 TTTATATGCA-CAAATTAACAAAAGTTAATAACTCGGTTG
1 TTTATATGCACCAAATTAACAAAAGTTAATAACTCGGTTG
*
13017639 TTTATATGCACCAAATTAACAAAAGTTAATAACTCGATTG
1 TTTATATGCACCAAATTAACAAAAGTTAATAACTCGGTTG
* *
13017679 TTTATATGCACCAAATTAATAAAAGTCAATAACTCGGTTG
1 TTTATATGCACCAAATTAACAAAAGTTAATAACTCGGTTG
*
13017719 TTTATATGCAACAAA-TAAGCAAAA
1 TTTATATGCACCAAATTAA-CAAAA
13017743 AATAATAAAT
Statistics
Matches: 96, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.14
40 83 0.86
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (40 bp):
TTTATATGCACCAAATTAACAAAAGTTAATAACTCGGTTG
Found at i:13028376 original size:66 final size:67
Alignment explanation
Indices: 13028237--13028376 Score: 219
Period size: 66 Copynumber: 2.1 Consensus size: 67
13028227 GAAGGGACTG
*
13028237 TAATAGTTTTAAGCATTATGTAATAAAAAAAGAATAAGAAGATATGATCAGAAATTATTTTAAAA
1 TAATAGTTCTAAGCATTATGTAATAAAAAAAG-A-AAGAAGATATGATCAGAAATTATTTTAAAA
13028302 ATGC
64 ATGC
* *
13028306 TAATAGTTCTAAGCATTATGTAATAAAAAAAG-AAGAAGATATGATTATAAATTATTTTAAAAAT
1 TAATAGTTCTAAGCATTATGTAATAAAAAAAGAAAGAAGATATGATCAGAAATTATTTTAAAAAT
*
13028370 GT
66 GC
13028372 TAATA
1 TAATA
13028377 TTTTTTCTCT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
66 36 0.54
69 31 0.46
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.34
Consensus pattern (67 bp):
TAATAGTTCTAAGCATTATGTAATAAAAAAAGAAAGAAGATATGATCAGAAATTATTTTAAAAAT
GC
Found at i:13033084 original size:14 final size:14
Alignment explanation
Indices: 13033065--13033091 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13033055 ATTAACAGTA
13033065 TTAAAATTTGAAAT
1 TTAAAATTTGAAAT
13033079 TTAAAATTTGAAA
1 TTAAAATTTGAAA
13033092 AGTAAGGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
TTAAAATTTGAAAT
Found at i:13038627 original size:37 final size:37
Alignment explanation
Indices: 13038581--13038660 Score: 160
Period size: 37 Copynumber: 2.2 Consensus size: 37
13038571 CTCTACACAC
13038581 CACCATGTGTAGTTTAAAACACCCACCCATCCCTACA
1 CACCATGTGTAGTTTAAAACACCCACCCATCCCTACA
13038618 CACCATGTGTAGTTTAAAACACCCACCCATCCCTACA
1 CACCATGTGTAGTTTAAAACACCCACCCATCCCTACA
13038655 CACCAT
1 CACCAT
13038661 ATAGTACCGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.33, C:0.39, G:0.07, T:0.21
Consensus pattern (37 bp):
CACCATGTGTAGTTTAAAACACCCACCCATCCCTACA
Found at i:13040854 original size:32 final size:34
Alignment explanation
Indices: 13040816--13040887 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 34
13040806 AACTTTTCTG
*
13040816 AAATATTTTTA-AGAAA-TC-TACCAAACAACAAA
1 AAATATTTTTACACAAATTCAT-CCAAACAACAAA
*
13040848 AAATA-TTTTACACAAATTCATCCAAACACCAAA
1 AAATATTTTTACACAAATTCATCCAAACAACAAA
13040881 AAATATT
1 AAATATT
13040888 AGCTTTTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
31 5 0.15
32 9 0.26
33 18 0.53
34 2 0.06
ACGTcount: A:0.54, C:0.18, G:0.01, T:0.26
Consensus pattern (34 bp):
AAATATTTTTACACAAATTCATCCAAACAACAAA
Found at i:13042953 original size:42 final size:42
Alignment explanation
Indices: 13042860--13043012 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
13042850 TCTCATGAGC
* * * * * *
13042860 TTCTGTTTAACTCATATGAGTTTCAGTTCAACCCTAATAGGT
1 TTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATAGGT
* ** * * *
13042902 TCCCATTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATAGGT
* *
13042944 TTTTGTTCAGCTCTTACGAGCTTCTGTTCAACCCTTATAGGT
1 TTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATAGGT
* *
13042986 TTCTGTTTAGCTCTCATGAGCTTCTGT
1 TTCTGTTCAGCTCTTATGAGCTTCTGT
13043013 CTAGCCTTCG
Statistics
Matches: 87, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (42 bp):
TTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATAGGT
Found at i:13042971 original size:21 final size:21
Alignment explanation
Indices: 13042947--13043028 Score: 55
Period size: 21 Copynumber: 4.0 Consensus size: 21
13042937 TATGGGTTTT
13042947 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
* * * *
13042968 TGTTCAACCCTTA-TAGGTTTC
1 TGTTCAGCTCTTACGA-GCTTC
* * *
13042989 TGTTTAGCTCTCATGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
13043010 TG-TCTAGC-CTT-CGAGCTTC
1 TGTTC-AGCTCTTACGAGCTTC
13043029 CAAAAACGAT
Statistics
Matches: 45, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
19 7 0.16
20 4 0.09
21 33 0.73
22 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (21 bp):
TGTTCAGCTCTTACGAGCTTC
Found at i:13043217 original size:30 final size:30
Alignment explanation
Indices: 13043181--13043239 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
13043171 CTTTTTATTT
13043181 AAAAAAACGAAAATAGAGTCGCCACCAATA
1 AAAAAAACGAAAATAGAGTCGCCACCAATA
13043211 AAAAAAACGAAAATAGAGTCGCCACCAAT
1 AAAAAAACGAAAATAGAGTCGCCACCAAT
13043240 CATTTTTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.20, G:0.14, T:0.10
Consensus pattern (30 bp):
AAAAAAACGAAAATAGAGTCGCCACCAATA
Found at i:13046759 original size:141 final size:141
Alignment explanation
Indices: 13046505--13046787 Score: 512
Period size: 141 Copynumber: 2.0 Consensus size: 141
13046495 AGTTAAACTA
*
13046505 ATTTTGTTAAATGATTTTTGACAAAAATGTCAAAAAGGGATTAAATTGTAAAAATATAAAATTAT
1 ATTTTGTTAAATGATTTTTGACAAAAATGTCAAAAAGGGATTAAATTGTAAAAATACAAAATTAT
* *
13046570 GTGGGTAGAAGTGTGAATAAATTGCAAATATGGGCTGCTAGTAATATATAGTAAATTCGGCTAAG
66 GCGGGTAGAAGTGTGAATAAATTGAAAATATGGGCTGCTAGTAATATATAGTAAATTCGGCTAAG
13046635 CATGGGCTGGT
131 CATGGGCTGGT
* * *
13046646 ATTTTGTTAAGTGATTTTTGACAAAAATGTCAAAAAGGGATTAAATTGTGAAAATGCAAAATTAT
1 ATTTTGTTAAATGATTTTTGACAAAAATGTCAAAAAGGGATTAAATTGTAAAAATACAAAATTAT
13046711 GCGGGTAGAAGTGTGAATAAATTGAAAATATGGGCTGCTAGTAATATATAGTAAATTCGGCTAAG
66 GCGGGTAGAAGTGTGAATAAATTGAAAATATGGGCTGCTAGTAATATATAGTAAATTCGGCTAAG
13046776 CATGGGCTGGT
131 CATGGGCTGGT
13046787 A
1 A
13046788 CTAAATTGCA
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 136 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.32
Consensus pattern (141 bp):
ATTTTGTTAAATGATTTTTGACAAAAATGTCAAAAAGGGATTAAATTGTAAAAATACAAAATTAT
GCGGGTAGAAGTGTGAATAAATTGAAAATATGGGCTGCTAGTAATATATAGTAAATTCGGCTAAG
CATGGGCTGGT
Found at i:13047303 original size:23 final size:23
Alignment explanation
Indices: 13047277--13047331 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
13047267 CTGCTCATAT
13047277 GAGCTTACTGTTTCAGCTCGT-TA
1 GAGCTTACTGTTTCAGCT-GTATA
* *
13047300 GAGCTTACCGTTTCAGCTTTATA
1 GAGCTTACTGTTTCAGCTGTATA
13047323 GAGCTTACT
1 GAGCTTACT
13047332 ATCCTTTAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTGTATA
Found at i:13049066 original size:38 final size:37
Alignment explanation
Indices: 13048998--13049073 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
13048988 TTTCTATGTT
*
13048998 TATATATATTATATAATTTATAGCACATAAAAATTAAA
1 TATATATAATATATAATTTATA-CACATAAAAATTAAA
* *
13049036 TATATAATAATATATAATATTATA-ATATAAATATTAAA
1 TATAT-ATAATATATAAT-TTATACACATAAAAATTAAA
13049074 AAATATTAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 17 0.52
39 11 0.33
40 5 0.15
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (37 bp):
TATATATAATATATAATTTATACACATAAAAATTAAA
Found at i:13049211 original size:17 final size:17
Alignment explanation
Indices: 13049185--13049218 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13049175 TAGATTTTAT
*
13049185 TAAATGAATTTATATAA
1 TAAATAAATTTATATAA
13049202 TAAATAAATTTATATAA
1 TAAATAAATTTATATAA
13049219 AATTTTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAATAAATTTATATAA
Found at i:13049234 original size:27 final size:28
Alignment explanation
Indices: 13049191--13049245 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
13049181 TTATTAAATG
13049191 AATTTATATAATAAATAAATTTATATAA
1 AATTTATATAATAAATAAATTTATATAA
*
13049219 AATTT-TATAA-ACAATACATTTATATAA
1 AATTTATATAATA-AATAAATTTATATAA
13049246 TCTTATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 1 0.04
27 19 0.76
28 5 0.20
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (28 bp):
AATTTATATAATAAATAAATTTATATAA
Found at i:13049251 original size:25 final size:26
Alignment explanation
Indices: 13049204--13049253 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
13049194 TTATATAATA
*
13049204 AATAAATTTATATAAAATTTTATAAAC
1 AATAAATTTATAT-AAATCTTATAAAC
*
13049231 AATACATTTATAT-AATCTTATAA
1 AATAAATTTATATAAATCTTATAA
13049254 TATATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
27 12 0.57
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (26 bp):
AATAAATTTATATAAATCTTATAAAC
Found at i:13053695 original size:37 final size:37
Alignment explanation
Indices: 13053645--13053719 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
13053635 GACAGGTGAC
13053645 AGGTGAATATAATTTAATTTGTTATTATTTTAGGAGG
1 AGGTGAATATAATTTAATTTGTTATTATTTTAGGAGG
13053682 AGGTGAATATAATTTAATTTGTTATTATTTTAGGAGG
1 AGGTGAATATAATTTAATTTGTTATTATTTTAGGAGG
13053719 A
1 A
13053720 TGGAGGTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (37 bp):
AGGTGAATATAATTTAATTTGTTATTATTTTAGGAGG
Found at i:13057538 original size:1 final size:1
Alignment explanation
Indices: 13057496--13057520 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
13057486 CTAAAGTTAT
13057496 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
13057521 GGGATGGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13062318 original size:21 final size:21
Alignment explanation
Indices: 13062294--13062334 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13062284 CCGATCAGAC
* *
13062294 TTATCATAATACAGGTCATAA
1 TTATCATAACACAGATCATAA
13062315 TTATCATAACACAGATCATA
1 TTATCATAACACAGATCATA
13062335 CTGAGCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (21 bp):
TTATCATAACACAGATCATAA
Found at i:13064911 original size:19 final size:18
Alignment explanation
Indices: 13064889--13064936 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
13064879 AATAGCACGT
13064889 AAAGTGCATACTGGCACAC
1 AAAGTGCAT-CTGGCACAC
*
13064908 AAAGTGCATCTTGACACAC
1 AAAGTGCATC-TGGCACAC
*
13064927 GAAGTGCATC
1 AAAGTGCATC
13064937 CTGGTGCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 25 0.96
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (18 bp):
AAAGTGCATCTGGCACAC
Found at i:13068343 original size:19 final size:21
Alignment explanation
Indices: 13068303--13068358 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 21
13068293 TAAAAAAAAT
*
13068303 AATT-TTTGGAATTTTT-ATA
1 AATTATTTGTAATTTTTGATA
13068322 AA-TATTT-TAAATTTTTGA-A
1 AATTATTTGT-AATTTTTGATA
13068341 AATTATTTGTAATTTTTG
1 AATTATTTGTAATTTTTG
13068359 TTGAGAGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 14 0.45
21 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (21 bp):
AATTATTTGTAATTTTTGATA
Found at i:13068347 original size:20 final size:20
Alignment explanation
Indices: 13068307--13068358 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
13068297 AAAAATAATT
*
13068307 TTTGGAATTTTT-ATAAATA
1 TTTGTAATTTTTGATAAATA
13068326 TTT-TAAATTTTTGA-AAATTA
1 TTTGT-AATTTTTGATAAA-TA
13068346 TTTGTAATTTTTG
1 TTTGTAATTTTTG
13068359 TTGAGAGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 13 0.46
20 14 0.50
21 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.58
Consensus pattern (20 bp):
TTTGTAATTTTTGATAAATA
Found at i:13070030 original size:2 final size:2
Alignment explanation
Indices: 13070023--13070053 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13070013 AACAACTAAC
*
13070023 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13070054 AGATACAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13071701 original size:27 final size:26
Alignment explanation
Indices: 13071663--13071714 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
13071653 ATGGTAATAA
*
13071663 TGATAATCTAAATTTTAGAAAATTTTT
1 TGATAATATAAATTTTAG-AAATTTTT
13071690 TGATAATATAAATTTTAGAAATTTT
1 TGATAATATAAATTTTAGAAATTTT
13071715 AAGAACAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (26 bp):
TGATAATATAAATTTTAGAAATTTTT
Found at i:13072611 original size:61 final size:63
Alignment explanation
Indices: 13072469--13072611 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 63
13072459 TCAAGCTCTA
*
13072469 CTGGGCC-TAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
* * * * * *
13072531 CTGGGCCATAACCC-CTTACAG-TATCAGAG-TATACTGGGCC-TAGCCCATATTAGTGTCAAT
1 CTGGGCCATAGCCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAAT
* *
13072591 CTGGGTCGTAGCCCTATTACA
1 CTGGGCCATAGCCCTATTACA
13072612 AGTCGAGATA
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
60 29 0.44
61 22 0.33
62 14 0.21
63 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (63 bp):
CTGGGCCATAGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:13072676 original size:19 final size:20
Alignment explanation
Indices: 13072633--13072678 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
13072623 GTTGGGCCTT
*
13072633 GCCCATATTAACATAGTTGG
1 GCCCATATTAACACAGTTGG
* *
13072653 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
13072672 GCCCATA
1 GCCCATA
13072679 ACAAAACAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:13076550 original size:7 final size:7
Alignment explanation
Indices: 13076534--13076734 Score: 53
Period size: 7 Copynumber: 26.9 Consensus size: 7
13076524 TATCATTAGA
*
13076534 GTTTAAG
1 GTTTATG
13076541 GTTTATG
1 GTTTATG
13076548 GTTTATG
1 GTTTATG
13076555 GTTTAGGCTGG
1 GTTTA---T-G
* *
13076566 GTATGTG
1 GTTTATG
*
13076573 GTTTAGG
1 GTTTATG
13076580 GTTTATG
1 GTTTATG
13076587 GTTTATGATG
1 G-TT-T-ATG
* *
13076597 AGTTAATA
1 -GTTTATG
* *
13076605 TTTTAAG
1 GTTTATG
13076612 GTTTATG
1 GTTTATG
*
13076619 GATTATGG
1 GTTTAT-G
13076627 GTTTA-G
1 GTTTATG
*
13076633 GAATTATGG
1 G-TTTAT-G
*
13076642 GTTTAGG
1 GTTTATG
*
13076649 GTTTAAG
1 GTTTATG
* *
13076656 ATTTAAGG
1 GTTT-ATG
13076664 GTTTATG
1 GTTTATG
13076671 GTTTATG
1 GTTTATG
* * *
13076678 AATTAATA
1 -GTTTATG
* *
13076686 TTTTAAG
1 GTTTATG
13076693 GTTTATG
1 GTTTATG
*
13076700 GATTATG
1 GTTTATG
*
13076707 GATTATG
1 GTTTATG
* *
13076714 GATCTAGG
1 G-TTTATG
*
13076722 GATTATG
1 GTTTATG
13076729 GTTTAT
1 GTTTAT
13076735 AGTTCAAGGG
Statistics
Matches: 137, Mismatches: 42, Indels: 30
0.66 0.20 0.14
Matches are distributed among these distances:
6 2 0.01
7 95 0.69
8 26 0.19
9 3 0.02
10 6 0.04
11 5 0.04
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (7 bp):
GTTTATG
Found at i:13076631 original size:15 final size:15
Alignment explanation
Indices: 13076611--13076648 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
13076601 AATATTTTAA
13076611 GGTTTATGG-ATTATG
1 GGTTTA-GGAATTATG
13076626 GGTTTAGGAATTATG
1 GGTTTAGGAATTATG
13076641 GGTTTAGG
1 GGTTTAGG
13076649 GTTTAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (15 bp):
GGTTTAGGAATTATG
Found at i:13076650 original size:22 final size:22
Alignment explanation
Indices: 13076625--13076683 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
13076615 TATGGATTAT
* *
13076625 GGGTTTAGGAATTATGGGTTTA
1 GGGTTTAAGAATTAAGGGTTTA
*
13076647 GGGTTTAAGATTTAAGGGTTTA
1 GGGTTTAAGAATTAAGGGTTTA
* *
13076669 TGGTTTATGAATTAA
1 GGGTTTAAGAATTAA
13076684 TATTTTAAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (22 bp):
GGGTTTAAGAATTAAGGGTTTA
Found at i:13076683 original size:29 final size:29
Alignment explanation
Indices: 13076651--13076734 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 29
13076641 GGTTTAGGGT
13076651 TTAAGATTTAAGGGTTTATGGTTTATGAA
1 TTAAGATTTAAGGGTTTATGGTTTATGAA
* * *
13076680 TTAATATTTTAA-GGTTTATGGATTATGGA
1 TTAAGA-TTTAAGGGTTTATGGTTTATGAA
* * *
13076709 TTATGGATCT-AGGGATTATGGTTTAT
1 TTA-AGATTTAAGGGTTTATGGTTTAT
13076735 AGTTCAAGGG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 1 0.02
29 37 0.84
30 6 0.14
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (29 bp):
TTAAGATTTAAGGGTTTATGGTTTATGAA
Found at i:13076726 original size:15 final size:14
Alignment explanation
Indices: 13076695--13076729 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
13076685 ATTTTAAGGT
*
13076695 TTATGGATTATGGA
1 TTATGGATTAGGGA
13076709 TTATGGATCTAGGGA
1 TTATGGAT-TAGGGA
13076724 TTATGG
1 TTATGG
13076730 TTTATAGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.26, C:0.03, G:0.31, T:0.40
Consensus pattern (14 bp):
TTATGGATTAGGGA
Found at i:13076744 original size:22 final size:22
Alignment explanation
Indices: 13076699--13076744 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
13076689 TAAGGTTTAT
* *
13076699 GGATTATGGATTATGGATCTAG
1 GGATTATGGATTATAGATCAAG
* *
13076721 GGATTATGGTTTATAGTTCAAG
1 GGATTATGGATTATAGATCAAG
13076743 GG
1 GG
13076745 TTGAGGTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.04, G:0.33, T:0.37
Consensus pattern (22 bp):
GGATTATGGATTATAGATCAAG
Found at i:13076821 original size:22 final size:22
Alignment explanation
Indices: 13076796--13076854 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
13076786 TTTAAGGGTT
*
13076796 TATGGTTTAGGGTTTTTGG-GGA
1 TATGGTTTAGGG-GTTTGGTGGA
13076818 TATGGTTTAGGGGTTTGGTGGA
1 TATGGTTTAGGGGTTTGGTGGA
*
13076840 CATGGTTTAGGGGTT
1 TATGGTTTAGGGGTT
13076855 AGAGTTTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 5 0.15
22 29 0.85
ACGTcount: A:0.14, C:0.02, G:0.42, T:0.42
Consensus pattern (22 bp):
TATGGTTTAGGGGTTTGGTGGA
Found at i:13077717 original size:33 final size:33
Alignment explanation
Indices: 13077633--13077721 Score: 124
Period size: 33 Copynumber: 2.7 Consensus size: 33
13077623 TCACCCATTT
* ** *
13077633 TTCCCCAATTTGACATCCAAAAATAATCCCTTC
1 TTCCCCAATTTGAAATCCCTAAATAATCCCTTA
13077666 TTCCCCAATTTGAAATCCCTAAATAATCCCTTA
1 TTCCCCAATTTGAAATCCCTAAATAATCCCTTA
* *
13077699 TTTCCTAATTTGAAATCCCTAAA
1 TTCCCCAATTTGAAATCCCTAAA
13077722 ATTCACCCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (33 bp):
TTCCCCAATTTGAAATCCCTAAATAATCCCTTA
Found at i:13080020 original size:28 final size:28
Alignment explanation
Indices: 13079979--13080033 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
13079969 TAAAGATTTG
*
13079979 ATTATATATTTTATTTTTAATATCAATT
1 ATTATATATTTTATTTTTAATACCAATT
*
13080007 ATTAT-TATTCTTATTTTTCATACCAAT
1 ATTATATATT-TTATTTTTAATACCAAT
13080034 GTAAATTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTATATATTTTATTTTTAATACCAATT
Found at i:13080400 original size:105 final size:103
Alignment explanation
Indices: 13080135--13080423 Score: 436
Period size: 105 Copynumber: 2.7 Consensus size: 103
13080125 ATTTTAAATA
* *
13080135 TTTTATTTTATTTTTAAATTACCTAACTAAATTAAATTGTATTTAACGTTTTATTTTGAATATGT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT-AA-A---
*
13080200 TATTTTATTTTATTTTAATTTAATCACGAAAAATATTGTCTAC
61 TATTTTATTTTATTTAAATTTAATCACGAAAAATATTGTCTAC
*
13080243 TTTTATTTTATTTTTGAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
13080308 TATTTTATTTAAATTTAATCACGAAAAATATTTTGTTTAC
66 TATTTTATTTAAATTTAATCACGAAAAATA--TTGTCTAC
* *
13080348 TTTTATTTTATTGTTAAATTACC-ACATTAAATTAAATTGTATTTAAAATTTTATTTTAAATATT
1 TTTTATTTTATTTTTAAATTACCTA-ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
13080412 TTATTTTATTTA
65 TTATTTTATTTA
13080424 CGAATTATGA
Statistics
Matches: 170, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
103 34 0.20
104 1 0.01
105 78 0.46
106 1 0.01
107 2 0.01
108 54 0.32
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (103 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTTATTTAAATTTAATCACGAAAAATATTGTCTAC
Found at i:13080407 original size:13 final size:14
Alignment explanation
Indices: 13080389--13080419 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
13080379 TTAAATTGTA
13080389 TTTAAA-ATTTTAT
1 TTTAAATATTTTAT
13080402 TTTAAATATTTTAT
1 TTTAAATATTTTAT
13080416 TTTA
1 TTTA
13080420 TTTACGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTAAATATTTTAT
Found at i:13081740 original size:13 final size:14
Alignment explanation
Indices: 13081724--13081752 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13081714 TTATAAACAT
13081724 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
13081737 TTATAATGGTTTAA
1 TTATAATGGTTTAA
13081751 TT
1 TT
13081753 CTTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:13082425 original size:31 final size:31
Alignment explanation
Indices: 13082390--13082455 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
13082380 TGTATTTTTT
*
13082390 ATGCTACATTTGCTATTTTTGGTTGGATTCA
1 ATGCTACATTTGCTATTTTTGGTTGAATTCA
* * *
13082421 ATGCTATATTTGCTGTTTTTGGTTGAATTTA
1 ATGCTACATTTGCTATTTTTGGTTGAATTCA
13082452 ATGC
1 ATGC
13082456 AGGAAGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.50
Consensus pattern (31 bp):
ATGCTACATTTGCTATTTTTGGTTGAATTCA
Found at i:13087960 original size:23 final size:23
Alignment explanation
Indices: 13087902--13087964 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
13087892 CATTGCACTA
*
13087902 ATTATATGAAAT-AAAAATATATT
1 ATTA-ATGAAATAAAAAATACATT
*
13087925 ATTAATTG-TATAAAAAATACATT
1 ATTAA-TGAAATAAAAAATACATT
13087948 ATTAATGAAATAAAAAA
1 ATTAATGAAATAAAAAA
13087965 ATCAACATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 5 0.15
23 29 0.85
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (23 bp):
ATTAATGAAATAAAAAATACATT
Found at i:13096276 original size:13 final size:13
Alignment explanation
Indices: 13096258--13096282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13096248 CCCCCTTGCC
13096258 GCCGTCTGACCCT
1 GCCGTCTGACCCT
13096271 GCCGTCTGACCC
1 GCCGTCTGACCC
13096283 CATTACCCGT
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:0.08, C:0.48, G:0.24, T:0.20
Consensus pattern (13 bp):
GCCGTCTGACCCT
Found at i:13111375 original size:48 final size:47
Alignment explanation
Indices: 13111304--13111578 Score: 316
Period size: 48 Copynumber: 5.7 Consensus size: 47
13111294 GGGTGATATA
*
13111304 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCACGACATG
* * *
13111352 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCA-CGACATG
* * * * *
13111400 TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAAAATG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCACGACATG
* * * * *
13111448 AGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCATTGAGACG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCA-CGACATG
* * * *
13111496 AGAGCTAATGTAAGACCATGTCTGGGACATGACATCGGCCTCGACATG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCACGACATG
* * *
13111544 TGAGCCAGTGTAAGACCATGTTTGGAACATGGCAT
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
13111579 TGGCAATTCA
Statistics
Matches: 190, Mismatches: 33, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
47 6 0.03
48 179 0.94
49 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCACGACATG
Found at i:13111461 original size:96 final size:96
Alignment explanation
Indices: 13111304--13111583 Score: 416
Period size: 96 Copynumber: 2.9 Consensus size: 96
13111294 GGGTGATATA
* *
13111304 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTGTAAGACC
* *
13111369 ATGTCTGGGACATGGCATCGGCATTGATATG
66 ATGTCTGGGACATGGCATCGGCATTGAGACG
* * *
13111400 TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAAAATGAGAGCCAGTGTAAGACC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTGTAAGACC
*
13111465 ATGTCTGGGACATGACATCGGCATTGAGACG
66 ATGTCTGGGACATGGCATCGGCATTGAGACG
* * * * *
13111496 AGAGCTAATGTAAGACCATGTCTGGGACATGACATCGGCCTCGACATGTGAGCCAGTGTAAGACC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTGTAAGACC
* * *
13111561 ATGTTTGGAACATGGCATTGGCA
66 ATGTCTGGGACATGGCATCGGCA
13111584 ATTCACCCTC
Statistics
Matches: 164, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 164 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (96 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTGTAAGACC
ATGTCTGGGACATGGCATCGGCATTGAGACG
Found at i:13111564 original size:144 final size:144
Alignment explanation
Indices: 13111304--13111578 Score: 390
Period size: 144 Copynumber: 1.9 Consensus size: 144
13111294 GGGTGATATA
* * *
13111304 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAACATGAGAGCCAGTGTAAGACC
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGACATCAGCCACAACACGAGAGCCAATGTAAGACC
* * * * * *
13111369 ATGTCTGGGACATGGCATCGGCATTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCA
66 ATGTCTGGGACATGACATCGGCATCGACATGTGAGCCAGTGTAAGACCATGTCTGGAACATGGCA
13111434 TCGGCCACAAAATG
131 TCGGCCACAAAATG
* ** * *
13111448 AGAGCCAGTGTAAGACCATGTCTGGGACATGACATC-GGCATTGAGACGAGAGCTAATGTAAGAC
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGACATCAGCCA-CAACACGAGAGCCAATGTAAGAC
* *
13111512 CATGTCTGGGACATGACATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGC
65 CATGTCTGGGACATGACATCGGCATCGACATGTGAGCCAGTGTAAGACCATGTCTGGAACATGGC
13111577 AT
130 AT
13111579 TGGCAATTCA
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
143 3 0.03
144 111 0.97
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (144 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGACATCAGCCACAACACGAGAGCCAATGTAAGACC
ATGTCTGGGACATGACATCGGCATCGACATGTGAGCCAGTGTAAGACCATGTCTGGAACATGGCA
TCGGCCACAAAATG
Found at i:13121627 original size:61 final size:55
Alignment explanation
Indices: 13121502--13121615 Score: 221
Period size: 55 Copynumber: 2.1 Consensus size: 55
13121492 CAAAAATATA
13121502 ATTA-AAATTAAAATTAAATAGGTACTTTGGACTTTAAAAGAAAACCAAATTAAG
1 ATTATAAATTAAAATTAAATAGGTACTTTGGACTTTAAAAGAAAACCAAATTAAG
13121556 ATTATAAATTAAAATTAAATAGGTACTTTGGACTTTAAAAGAAAACCAAATTAAG
1 ATTATAAATTAAAATTAAATAGGTACTTTGGACTTTAAAAGAAAACCAAATTAAG
13121611 ATTAT
1 ATTAT
13121616 CTCCCCAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 4 0.07
55 55 0.93
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.32
Consensus pattern (55 bp):
ATTATAAATTAAAATTAAATAGGTACTTTGGACTTTAAAAGAAAACCAAATTAAG
Found at i:13122553 original size:15 final size:15
Alignment explanation
Indices: 13122511--13122583 Score: 60
Period size: 15 Copynumber: 5.0 Consensus size: 15
13122501 GTAAGCCACC
*
13122511 TGTATACGAACCCC-
1 TGTATGCGAACCCCT
* * *
13122525 TATAGGCTAACCCCT
1 TGTATGCGAACCCCT
*
13122540 TGTATGTGAACCCC-
1 TGTATGCGAACCCCT
* *
13122554 TATAGGCGAACCCCT
1 TGTATGCGAACCCCT
*
13122569 TGTATGCAAACCCCT
1 TGTATGCGAACCCCT
13122584 ATAGGCAAAC
Statistics
Matches: 43, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
14 21 0.49
15 22 0.51
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (15 bp):
TGTATGCGAACCCCT
Found at i:13122604 original size:13 final size:13
Alignment explanation
Indices: 13122569--13122608 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
13122559 GCGAACCCCT
13122569 TGTATGCAAACCCC
1 TGTATGCAAA-CCC
* *
13122583 TATAGGCAAACCC
1 TGTATGCAAACCC
13122596 TGTATGCAAACCC
1 TGTATGCAAACCC
13122609 ACTATAGGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.20
Consensus pattern (13 bp):
TGTATGCAAACCC
Found at i:13122637 original size:14 final size:14
Alignment explanation
Indices: 13122423--13122637 Score: 91
Period size: 14 Copynumber: 15.0 Consensus size: 14
13122413 AGTAAGTAGT
*
13122423 CTATATGTGAACCCC
1 CTATATGCGAA-CCC
* *
13122438 CTATAGGCGAACCA
1 CTATATGCGAACCC
*
13122452 CTATATGTGAACCC
1 CTATATGCGAACCC
* **
13122466 CTATAAGAAAACCTC
1 CTATATGCGAACC-C
*
13122481 CTGTATAG-GAACCC
1 CTATAT-GCGAACCC
*
13122495 TTATA-G-GTAAGCCAC
1 CTATATGCG-AA-CC-C
* *
13122510 CTGTATACGAACCC
1 CTATATGCGAACCC
* *
13122524 CTATAGGCTAACCC
1 CTATATGCGAACCC
* *
13122538 CTTGTATGTGAACCC
1 C-TATATGCGAACCC
*
13122553 CTATAGGCGAACCC
1 CTATATGCGAACCC
* *
13122567 CTTGTATGCAAACCC
1 C-TATATGCGAACCC
* *
13122582 CTATAGGC-AAACC
1 CTATATGCGAACCC
* *
13122595 CTGTATGCAAACCC
1 CTATATGCGAACCC
13122609 ACTATA-G-GTAGACCC
1 -CTATATGCG-A-ACCC
13122624 CTATATGCGAACCC
1 CTATATGCGAACCC
13122638 ATTTATAAAA
Statistics
Matches: 146, Mismatches: 39, Indels: 31
0.68 0.18 0.14
Matches are distributed among these distances:
12 2 0.01
13 12 0.08
14 72 0.49
15 55 0.38
16 4 0.03
17 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (14 bp):
CTATATGCGAACCC
Found at i:13122638 original size:29 final size:27
Alignment explanation
Indices: 13122426--13122637 Score: 156
Period size: 29 Copynumber: 7.4 Consensus size: 27
13122416 AAGTAGTCTA
* * * *
13122426 TATGTGAACCCCCTATAGGCGAACCACTA
1 TATGCGAA-CCCCTATAGG-TAACCCCTG
* **
13122455 TATGTGAACCCCTATAAGAAAACCTCCTG
1 TATGCGAACCCCTAT-AGGTAACC-CCTG
*
13122484 TATAG-GAACCCTTATAGGTAAGCCACCTG
1 TAT-GCGAACCCCTATAGGTAA-CC-CCTG
*
13122513 TATACGAACCCCTATAGGCTAACCCCTTG
1 TATGCGAACCCCTATAGG-TAACCCC-TG
* *
13122542 TATGTGAACCCCTATAGGCGAACCCCTTG
1 TATGCGAACCCCTATAGG-TAACCCC-TG
* * *
13122571 TATGCAAACCCCTATAGGCAAACCCTG
1 TATGCGAACCCCTATAGGTAACCCCTG
* *
13122598 TATGCAAACCCACTATAGGTAGACCCCTA
1 TATGCGAACCC-CTATAGGTA-ACCCCTG
13122627 TATGCGAACCC
1 TATGCGAACCC
13122638 ATTTATAAAA
Statistics
Matches: 153, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
27 13 0.08
28 30 0.20
29 106 0.69
30 4 0.03
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (27 bp):
TATGCGAACCCCTATAGGTAACCCCTG
Found at i:13126623 original size:26 final size:26
Alignment explanation
Indices: 13126587--13126670 Score: 134
Period size: 26 Copynumber: 3.2 Consensus size: 26
13126577 TATGAAATTC
13126587 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
13126613 TTATCTTGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
13126639 TTATCAT-AGAACATTTACCTAACCTA
1 TTATCATGA-AACATTTACCTAACCCA
13126665 TTATCA
1 TTATCA
13126671 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
25 1 0.02
26 53 0.98
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13135349 original size:16 final size:16
Alignment explanation
Indices: 13135330--13135360 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13135320 CGGGCTTTGT
13135330 GCCTAGCAGGCTTAGC
1 GCCTAGCAGGCTTAGC
13135346 GCCTAGCAGGCTTAG
1 GCCTAGCAGGCTTAG
13135361 TGCCGGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.29, G:0.32, T:0.19
Consensus pattern (16 bp):
GCCTAGCAGGCTTAGC
Found at i:13137762 original size:6 final size:6
Alignment explanation
Indices: 13137743--13137929 Score: 172
Period size: 6 Copynumber: 30.8 Consensus size: 6
13137733 AACCAAAATG
* *
13137743 AGAATC AGAGTC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
13137791 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
13137840 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
13137888 AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
13137930 GTGAATGCAA
Statistics
Matches: 149, Mismatches: 16, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
5 11 0.07
6 125 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:13137844 original size:85 final size:85
Alignment explanation
Indices: 13137743--13137929 Score: 315
Period size: 85 Copynumber: 2.2 Consensus size: 85
13137733 AACCAAAATG
*
13137743 AGAATCAGAGTCAGAATCAGTAA-CAG-AATCAGAATCAGAATCAATATTAGTAACAGAATCAGA
1 AGAATCAGAATCAGAATCAG-AATCAGTAA-CAGAATCAGAATCAATATTAGTAACAGAATCAGA
*
13137806 ATCAGAATCAGAATTAGGTGAC
64 ATCAGAATCAGAATTACGTGAC
*
13137828 AGAATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
13137893 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
13137913 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
13137930 GTGAATGCAA
Statistics
Matches: 97, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
84 2 0.02
85 93 0.96
86 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:13138084 original size:27 final size:26
Alignment explanation
Indices: 13138047--13138112 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
13138037 AGCATGGCTG
*
13138047 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
13138073 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
13138100 CCAGAATCAGATA
1 CCAGAA-CAGATA
13138113 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:13138117 original size:27 final size:27
Alignment explanation
Indices: 13138047--13138120 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
13138037 AGCATGGCTG
* *
13138047 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
13138073 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
13138100 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
13138121 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:13138127 original size:27 final size:27
Alignment explanation
Indices: 13138071--13138128 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
13138061 GTGACAGAGT
* * *
13138071 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
13138098 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
13138125 CACC
1 CACC
13138129 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:13138306 original size:22 final size:22
Alignment explanation
Indices: 13138258--13138316 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
13138248 GTAAATATGT
13138258 TTGGCACAAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * * *
13138280 ATGGCACAAAGCCTTATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
13138302 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
13138317 TAATAACGGG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:13138483 original size:27 final size:26
Alignment explanation
Indices: 13138404--13138486 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
13138394 TCGATCGGTC
* * *
13138404 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
13138430 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
13138457 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
13138484 AAC
1 AAC
13138487 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:13138715 original size:27 final size:27
Alignment explanation
Indices: 13138685--13138872 Score: 205
Period size: 27 Copynumber: 7.0 Consensus size: 27
13138675 GGGGCAAAAT
* * *
13138685 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13138712 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
13138739 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
13138766 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
13138793 GGTAATTCTATCCTATAAGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
13138820 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*** * *
13138847 AAAAATTTTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
13138873 TAGTAATTTC
Statistics
Matches: 137, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 137 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:13138829 original size:81 final size:81
Alignment explanation
Indices: 13138687--13138880 Score: 244
Period size: 81 Copynumber: 2.4 Consensus size: 81
13138677 GGCAAAATGG
* * * * * * * *
13138687 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTTTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGAGTATTTCAGTAATTCTACCC
*
13138752 TACAAGGGTATTTCGA
66 TACAAGGGTATTTCAA
* * *
13138768 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGAGTATTTCAGTAATTCTACCC
1 TAATTTTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGAGTATTTCAGTAATTCTACCC
* *
13138833 TATAGGGGTATTTCAA
66 TACAAGGGTATTTCAA
* *
13138849 AAATTTTACCCTACAGGGGTATTTTAGTAATT
1 TAATTTTACCCTACAGGGGTATTTTGGTAATT
13138881 TCACAATCAA
Statistics
Matches: 96, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 96 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (81 bp):
TAATTTTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAAGAGTATTTCAGTAATTCTACCC
TACAAGGGTATTTCAA
Found at i:13138915 original size:27 final size:27
Alignment explanation
Indices: 13138885--13139240 Score: 423
Period size: 27 Copynumber: 13.2 Consensus size: 27
13138875 GTAATTTCAC
* * *
13138885 AATCAAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
13138912 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
13138939 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
13138966 AATCAAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
13138993 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
13139020 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
13139047 AA-CTGAGGGTAAAATGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
13139074 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
13139101 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
13139128 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
13139155 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
13139182 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
13139209 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
13139236 AATCG
1 AATCG
13139241 GGAGTACTTT
Statistics
Matches: 287, Mismatches: 36, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
26 3 0.01
27 281 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:13155752 original size:5 final size:5
Alignment explanation
Indices: 13155742--13155773 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
13155732 ACTTCTGTGA
13155742 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
13155774 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:13155767 original size:9 final size:9
Alignment explanation
Indices: 13155743--13155773 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
13155733 CTTCTGTGAA
13155743 AAATAAAAT
1 AAATAAAAT
13155752 AAAATAAAAT
1 -AAATAAAAT
13155762 AAATAAAAT
1 AAATAAAAT
13155771 AAA
1 AAA
13155774 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:13164620 original size:5 final size:5
Alignment explanation
Indices: 13164610--13164641 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
13164600 CAATTTGTGA
13164610 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
13164642 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:13164635 original size:9 final size:9
Alignment explanation
Indices: 13164611--13164641 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
13164601 AATTTGTGAA
13164611 AAATAAAAT
1 AAATAAAAT
13164620 AAAATAAAAT
1 -AAATAAAAT
13164630 AAATAAAAT
1 AAATAAAAT
13164639 AAA
1 AAA
13164642 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:13165704 original size:388 final size:389
Alignment explanation
Indices: 13164987--13165773 Score: 1479
Period size: 388 Copynumber: 2.0 Consensus size: 389
13164977 TATTTTTTAA
13164987 TTTTTGATAATTTGTTTATAATGCATGGACTTCCATGCCTATTGACTTGGTTACTGTACAATAGC
1 TTTTTGATAATTTGTTTATAATGCATGGACTTCCATGCCTATTGACTTGGTTACTGTACAATAGC
*
13165052 ATGACTTACATGCTCATCACTCTGTTTTTATATATGCATGCCATGACACATTGCATGGGACTTGG
66 ATGACTTACATGCTCATCACTCTGTTTTTATATATGCATGCCAAGACACATTGCATGGGACTTGG
* *
13165117 TATGTTGTGAAAGAAGAAAGTTTTTGATAGTTTAATGGTTTGCATTATCTAGTGGTTTATCCACG
131 TATGTTGTGAAAGAAGAAAGTTTTTGAAAGCTTAATGGTTTGCATTATCTAGTGGTTTATCCACG
13165182 ATTCTATTATGGTAGCTTGGCTGCAGTATAACGGCTTGATCACATTTATCTGATCTGGCAGTTTT
196 ATTCTATTATGGTAGCTTGGCTGCAGTATAACGGCTTGATCACATTTATCTGATCTGGCAGTTTT
*
13165247 AACTACAAATATTTTGGTGGCATTGTCCACAATTATTTTTTGCTGTCCACAATTATCTGTTGGTG
261 AACTACAAATATTCTGGTGGCATTGTCCACAATTATTTTTTGCTGTCCACAATTATCTGTTGGTG
13165312 TGATTTGGCTGGATAAGTTCTAGGGAAAA-TCTATTTTGGTATGTAGCAGAGTTAGGTAGAATAT
326 TGATTTGGCTGGATAAGTTCTA-GGAAAACTCTATTTTGGTATGTAGCAGAGTTAGGTAGAATAT
*
13165376 TTTTTGATAATTTGTTTATAATGCATGGACTTCCATGCCTATTGACTTGGTTACTGTA-GATAGC
1 TTTTTGATAATTTGTTTATAATGCATGGACTTCCATGCCTATTGACTTGGTTACTGTACAATAGC
* *
13165440 ATGACTTATATGTTCATCACTCTGTTTTTATATATGCATGCCAAGACACATTGCATGGGACTTGG
66 ATGACTTACATGCTCATCACTCTGTTTTTATATATGCATGCCAAGACACATTGCATGGGACTTGG
13165505 TATGTTGTGAAAGAAGAAAGTTTTTGAAAGCTTAATGGTTTGCATTATCTAGTGGTTTATCCACG
131 TATGTTGTGAAAGAAGAAAGTTTTTGAAAGCTTAATGGTTTGCATTATCTAGTGGTTTATCCACG
13165570 ATTCTATTATGGTAGCTTGGCTGCAGTATAACGGCTTGATCACATTTATCTGATCTGGCAGTTTT
196 ATTCTATTATGGTAGCTTGGCTGCAGTATAACGGCTTGATCACATTTATCTGATCTGGCAGTTTT
13165635 AACTACAAATATTCTGGTGGCATTGTCCACAATTATTTTTTGCTGTCCACAATTATCTGTTGGTG
261 AACTACAAATATTCTGGTGGCATTGTCCACAATTATTTTTTGCTGTCCACAATTATCTGTTGGTG
*
13165700 TGATTTGGCTGGATAAGTTCTAGGAAAACTCTATTTTGGTATGTAGCAGAGTTAGGTAGAATGT
326 TGATTTGGCTGGATAAGTTCTAGGAAAACTCTATTTTGGTATGTAGCAGAGTTAGGTAGAATAT
13165764 TTTTTGATAA
1 TTTTTGATAA
13165774 ATCTACATTC
Statistics
Matches: 389, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
387 6 0.02
388 325 0.84
389 58 0.15
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (389 bp):
TTTTTGATAATTTGTTTATAATGCATGGACTTCCATGCCTATTGACTTGGTTACTGTACAATAGC
ATGACTTACATGCTCATCACTCTGTTTTTATATATGCATGCCAAGACACATTGCATGGGACTTGG
TATGTTGTGAAAGAAGAAAGTTTTTGAAAGCTTAATGGTTTGCATTATCTAGTGGTTTATCCACG
ATTCTATTATGGTAGCTTGGCTGCAGTATAACGGCTTGATCACATTTATCTGATCTGGCAGTTTT
AACTACAAATATTCTGGTGGCATTGTCCACAATTATTTTTTGCTGTCCACAATTATCTGTTGGTG
TGATTTGGCTGGATAAGTTCTAGGAAAACTCTATTTTGGTATGTAGCAGAGTTAGGTAGAATAT
Found at i:13165882 original size:30 final size:30
Alignment explanation
Indices: 13165848--13165906 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
13165838 TGTTTAGTGC
*
13165848 TACTCTACTCTACTCTGTTATGTTCTGCTT
1 TACTCTACTCTACTCTGTTACGTTCTGCTT
** * *
13165878 TACTCTTTTCTATTCTGTTACGTTTTGCT
1 TACTCTACTCTACTCTGTTACGTTCTGCT
13165907 CTATCCTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.10, T:0.54
Consensus pattern (30 bp):
TACTCTACTCTACTCTGTTACGTTCTGCTT
Found at i:13167270 original size:46 final size:46
Alignment explanation
Indices: 13167177--13167270 Score: 109
Period size: 46 Copynumber: 2.0 Consensus size: 46
13167167 TTATAAATTA
* * * **
13167177 TTTAGGGTTTACAAGATAATGAATTTAGGGGTTATGGATATTTATT
1 TTTAGGGGTTACAAGATAATGAATTTAGGGGTTATGAACATCCATT
* *
13167223 TTTAGGGGTTACAATATGATGAAATTT-GGGGTTATGAACATCCATT
1 TTTAGGGGTTACAAGATAATG-AATTTAGGGGTTATGAACATCCATT
13167269 TT
1 TT
13167271 ATCAAATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 35 0.88
47 5 0.12
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.41
Consensus pattern (46 bp):
TTTAGGGGTTACAAGATAATGAATTTAGGGGTTATGAACATCCATT
Found at i:13168595 original size:25 final size:25
Alignment explanation
Indices: 13168558--13168610 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
13168548 AATTAAATGA
** *
13168558 AATATATTTTTTAA-AAACAATGAAT
1 AATATATAATTTAATAAAAAAT-AAT
13168583 AATATATAATTTAATAAAAAATAAT
1 AATATATAATTTAATAAAAAATAAT
13168608 AAT
1 AAT
13168611 TTGATATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
AATATATAATTTAATAAAAAATAAT
Found at i:13168990 original size:17 final size:18
Alignment explanation
Indices: 13168960--13169100 Score: 180
Period size: 17 Copynumber: 7.8 Consensus size: 18
13168950 TCATATCTTT
* *
13168960 TAAGATTGTATATCATTTC
1 TAAGATTG-CTATCATATC
13168979 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
* *
13168996 TAATATTGCAATCATATC
1 TAAGATTGCTATCATATC
13169014 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
13169031 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
13169049 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
13169066 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
13169085 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
13169101 TGAAGATTAT
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
17 47 0.43
18 31 0.28
19 31 0.28
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:13168994 original size:22 final size:19
Alignment explanation
Indices: 13168949--13168996 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
13168939 AGATTACAAA
13168949 ATCATATCTTTTAAGATTG
1 ATCATATCTTTTAAGATTG
13168968 -T-ATATCATTTCTAAGATTG
1 ATCATATC-TTT-TAAGATTG
13168987 TATCATATCT
1 -ATCATATCT
13168997 AATATTGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 5 0.21
18 4 0.17
19 8 0.33
21 2 0.08
22 5 0.21
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.48
Consensus pattern (19 bp):
ATCATATCTTTTAAGATTG
Found at i:13169016 original size:35 final size:35
Alignment explanation
Indices: 13168960--13169092 Score: 212
Period size: 35 Copynumber: 3.7 Consensus size: 35
13168950 TCATATCTTT
* *
13168960 TAAGATTGTATATCATTTCTAAGATTGTATCATATC
1 TAAGATTGCA-ATCATATCTAAGATTGTATCATATC
*
13168996 TAATATTGCAATCATATCTAAGATTGTATCATATC
1 TAAGATTGCAATCATATCTAAGATTGTATCATATC
13169031 TAAGATTGCAATCATATCTAAGATTGTATCATATC
1 TAAGATTGCAATCATATCTAAGATTGTATCATATC
*
13169066 TAAGATTGCATATCACATCTAAGATTG
1 TAAGATTGCA-ATCATATCTAAGATTG
13169093 CATATCATTG
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 68 0.75
36 23 0.25
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (35 bp):
TAAGATTGCAATCATATCTAAGATTGTATCATATC
Found at i:13169970 original size:207 final size:207
Alignment explanation
Indices: 13169503--13170163 Score: 1042
Period size: 207 Copynumber: 3.2 Consensus size: 207
13169493 AAATCTGCTT
* * * *
13169503 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
13169568 GCGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAAGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* ** ** * * *
13169633 GGATC-TGCTTCAGTCTAATTATCT-AAAGGTTAGATCCGCTATATGTCTGTCCTCCGTCGAATA
131 GGATCTTGCTTCAGTATAAACATCTGAAA-GCAAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
*
13169696 TGGAGATGCCAAA
195 TGGAGACGCCAAA
13169709 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
13169774 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
13169839 GGATCTTGTTTCAGTATAAACATCTGAAAGCAAGATCTACTATGTGTCTGCCCTCCATCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAAGCAAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
13169904 GGAGACGCCAAA
196 GGAGACGCCAAA
*
13169916 CTTCGATTTGTTCTCTGCCAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* *
13169981 GTGAAAGCCAAAGCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
13170046 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGCCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAAGCAAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
13170111 GGAGACGCCAAA
196 GGAGACGCCAAA
*
13170123 CTTCGATTTGTTCTCTGA-TA-ACAGAGATGCCAAATCATCTT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTT
13170164 GGATCTACTT
Statistics
Matches: 422, Mismatches: 31, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
205 21 0.05
206 128 0.30
207 270 0.64
208 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAAGCAAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:13170365 original size:87 final size:82
Alignment explanation
Indices: 13170212--13170497 Score: 360
Period size: 87 Copynumber: 3.4 Consensus size: 82
13170202 CTATACTTTA
* *
13170212 ACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCTTAAGG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGT-TTCGATCTGCTCCACTACTGCTTAGGG
*
13170276 AGATAAGATCCGTAATTTT
64 AGATAAGATCTGTAATTTT
* * * * * *
13170295 GACCTATTACCCTACTGCTTAGGCGATTAGGGTGAGTCATCATTGATCTG-TTCAGCTACTGCTT
1 -ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGT--T--TCGATCTGCTCCA-CTACTGCTT
13170359 AGGGAGATAAGATCTGTAATTTT
60 AGGGAGATAAGATCTGTAATTTT
*
13170382 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTTTCGATCTGCTCCACTACTGCTTAGGGA
1 A-CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTTTCGATCTGCTCCACTACTGCTTAGGGA
* *
13170447 GATAAGATCTGCAAATTTA
65 GATAAGATCTG-TAATTTT
13170466 ACCTGTTACCCTACTGCTTAGGGGATTAAGGC
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGC
13170498 ACTGAATTTT
Statistics
Matches: 174, Mismatches: 20, Indels: 17
0.82 0.09 0.08
Matches are distributed among these distances:
83 63 0.36
84 38 0.22
85 2 0.01
86 4 0.02
87 67 0.39
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (82 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTTTCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTGTAATTTT
Found at i:13170399 original size:43 final size:42
Alignment explanation
Indices: 13170350--13170488 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 42
13170340 ATCTGTTCAG
*
13170350 CTACTGCTTAGGGAGATAAGATCTGTAATTTTAGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTG-AAATTTAGCCTGTTACC
* * * * * * *
13170393 CTACTGCTTAGGGGGTTAAG-GC-G-AGTTTCGATCTGCT-CC
1 CTACTGCTTAGGGAGATAAGATCTGAAATTTAG-CCTGTTACC
*
13170432 ACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTG-AAATTTAGCCTGTTACC
13170476 CTACTGCTTAGGG
1 CTACTGCTTAGGG
13170489 GATTAAGGCA
Statistics
Matches: 74, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
39 7 0.09
40 22 0.30
41 2 0.03
42 2 0.03
43 35 0.47
44 6 0.08
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (42 bp):
CTACTGCTTAGGGAGATAAGATCTGAAATTTAGCCTGTTACC
Found at i:13170471 original size:83 final size:84
Alignment explanation
Indices: 13170208--13170497 Score: 388
Period size: 83 Copynumber: 3.4 Consensus size: 84
13170198 TCTGCTATAC
*
13170208 TTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGCA-TCTTCGATCTGCTCCACTACTGCTT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTT
* *
13170272 AAGGAGATAAGATCCGTAAT
65 AGGGAGATAAGATCTGTAAT
* * * * * * *
13170292 TTTGACCTATTACCCTACTGCTTAGGCGATTAGGGTGAGTCATCATTGATCTG-TTCAGCTACTG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCA-CTACTG
13170356 CTTAGGGAGATAAGATCTGTAAT
62 CTTAGGGAGATAAGATCTGTAAT
* *
13170379 TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGT-TTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
* *
13170443 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGTAAT
13170462 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
13170498 ACTGAATTTT
Statistics
Matches: 177, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
83 69 0.39
84 36 0.20
85 2 0.01
86 3 0.02
87 67 0.38
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGTAAT
Found at i:13172530 original size:13 final size:13
Alignment explanation
Indices: 13172499--13172529 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
13172489 CTTTTTTCTC
13172499 TTTTTTCTTTTTA
1 TTTTTTCTTTTTA
13172512 TTTTTTC-TTTTA
1 TTTTTTCTTTTTA
13172524 TTTTTT
1 TTTTTT
13172530 TGCCTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTTCTTTTTA
Found at i:13177925 original size:25 final size:25
Alignment explanation
Indices: 13177888--13177940 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
13177878 AATTAAATGA
** *
13177888 AATATATTTTTTAA-AAACAATGAAT
1 AATATATAATTTAATAAAAAAT-AAT
13177913 AATATATAATTTAATAAAAAATAAT
1 AATATATAATTTAATAAAAAATAAT
13177938 AAT
1 AAT
13177941 TTGATATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
AATATATAATTTAATAAAAAATAAT
Found at i:13178323 original size:18 final size:19
Alignment explanation
Indices: 13178289--13178395 Score: 168
Period size: 18 Copynumber: 5.8 Consensus size: 19
13178279 TCATATCTTT
*
13178289 TAAGATTGTATATCATATC
1 TAAGATTGCATATCATATC
13178308 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
13178326 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
13178343 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
*
13178361 TAAGATTGCATATCACATC
1 TAAGATTGCATATCATATC
13178380 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
13178396 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
17 16 0.20
18 34 0.42
19 31 0.38
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:13178344 original size:35 final size:36
Alignment explanation
Indices: 13178289--13178395 Score: 171
Period size: 35 Copynumber: 2.9 Consensus size: 36
13178279 TCATATCTTT
13178289 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCAATCATATC
13178326 TAAGATTG-TATCATATCTAAGATTGCAATCATATC
1 TAAGATTGATATCATATCTAAGATTGCAATCATATC
*
13178361 TAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
13178396 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
35 35 0.53
37 26 0.39
38 5 0.08
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (36 bp):
TAAGATTGATATCATATCTAAGATTGCAATCATATC
Found at i:13178402 original size:54 final size:54
Alignment explanation
Indices: 13178280--13178403 Score: 164
Period size: 54 Copynumber: 2.3 Consensus size: 54
13178270 ATTACAAAAT
* * *
13178280 CATATCTTTTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTG
1 CATATCATTTAAGATTGCATATCATATCTAAGATTGCAATCACATCTAAGATTG
13178334 --TATCATATCTAAGATTGCA-ATCATATCTAAGATTGCATATCACATCTAAGATTG
1 CATATCAT-T-TAAGATTGCATATCATATCTAAGATTGCA-ATCACATCTAAGATTG
*
13178388 CATATCATTGAAGATT
1 CATATCATTTAAGATT
13178404 ATATTTCCAT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
52 5 0.08
53 19 0.31
54 30 0.49
55 1 0.02
56 6 0.10
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (54 bp):
CATATCATTTAAGATTGCATATCATATCTAAGATTGCAATCACATCTAAGATTG
Found at i:13182080 original size:28 final size:28
Alignment explanation
Indices: 13182048--13182104 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
13182038 TGAAAAAGAA
13182048 AGAAGAATAGAAGATGAAATGATGATTC
1 AGAAGAATAGAAGATGAAATGATGATTC
13182076 AGAAGAATAGAAGATGAAATGATGATTC
1 AGAAGAATAGAAGATGAAATGATGATTC
13182104 A
1 A
13182105 ACTTTCACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.04, G:0.25, T:0.21
Consensus pattern (28 bp):
AGAAGAATAGAAGATGAAATGATGATTC
Found at i:13182741 original size:22 final size:24
Alignment explanation
Indices: 13182700--13182745 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
13182690 AACACAACTT
13182700 TTTTATGTCAACTTTTTTTAGCTA
1 TTTTATGTCAACTTTTTTTAGCTA
13182724 TTTTATGTC-AC-TTTTTTAGCTA
1 TTTTATGTCAACTTTTTTTAGCTA
13182746 ATAATAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.50
23 2 0.09
24 9 0.41
ACGTcount: A:0.20, C:0.13, G:0.09, T:0.59
Consensus pattern (24 bp):
TTTTATGTCAACTTTTTTTAGCTA
Found at i:13185597 original size:3 final size:3
Alignment explanation
Indices: 13185589--13185643 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
13185579 ATTAATTAAG
*
13185589 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TAA TTGA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
13185633 TTA -TA TTA TTA
1 TTA TTA TTA TTA
13185644 CATTATGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 4 0.09
3 41 0.89
4 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:13185943 original size:23 final size:23
Alignment explanation
Indices: 13185917--13185960 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
13185907 TTATTATTAT
*
13185917 TAAATTAATAAAGTAAA-TAAACA
1 TAAAATAATAAAG-AAACTAAACA
13185940 TAAAATAATAAAGAAACTAAA
1 TAAAATAATAAAGAAACTAAA
13185961 AGATTAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (23 bp):
TAAAATAATAAAGAAACTAAACA
Found at i:13186401 original size:17 final size:18
Alignment explanation
Indices: 13186379--13186414 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13186369 TAAATGAGTT
13186379 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
13186396 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
13186414 A
1 A
13186415 TAGAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:13188271 original size:20 final size:20
Alignment explanation
Indices: 13188246--13188284 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
13188236 CTGGTAGCAC
13188246 TGTCCACAATTATCTATTGT
1 TGTCCACAATTATCTATTGT
13188266 TGTCCACAATTATCTATTG
1 TGTCCACAATTATCTATTG
13188285 GTGTGATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.44
Consensus pattern (20 bp):
TGTCCACAATTATCTATTGT
Found at i:13188447 original size:30 final size:30
Alignment explanation
Indices: 13188411--13188491 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
13188401 TAAACATACA
*
13188411 TGCTCTGCTCTGTTATGTTC-AGTGTTACTC
1 TGCTCTGCTCTGTTATGTTCTACT-TTACTC
*
13188441 TGCTCTGCTCTATTATGTTCTACTTTACTC
1 TGCTCTGCTCTGTTATGTTCTACTTTACTC
* **
13188471 TGTTCTATTCTGTTATGTTCT
1 TGCTCTGCTCTGTTATGTTCT
13188492 GCTCTGTCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
30 42 0.95
31 2 0.05
ACGTcount: A:0.11, C:0.22, G:0.15, T:0.52
Consensus pattern (30 bp):
TGCTCTGCTCTGTTATGTTCTACTTTACTC
Found at i:13188464 original size:25 final size:25
Alignment explanation
Indices: 13188436--13188484 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13188426 TGTTCAGTGT
*
13188436 TACTCTGCTCTGCTCTATTATGTTC
1 TACTCTACTCTGCTCTATTATGTTC
* * *
13188461 TACTTTACTCTGTTCTATTCTGTT
1 TACTCTACTCTGCTCTATTATGTT
13188485 ATGTTCTGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.12, C:0.24, G:0.10, T:0.53
Consensus pattern (25 bp):
TACTCTACTCTGCTCTATTATGTTC
Found at i:13190296 original size:25 final size:22
Alignment explanation
Indices: 13190268--13190314 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
13190258 AACACAACTT
13190268 TTTTATATCAAAATTTTTTTAGCTA
1 TTTTATATC--AA-TTTTTTAGCTA
*
13190293 TTTTATGTCAATTTTTTAGCTA
1 TTTTATATCAATTTTTTAGCTA
13190315 ATAATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 2 0.10
25 8 0.38
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (22 bp):
TTTTATATCAATTTTTTAGCTA
Found at i:13192952 original size:21 final size:20
Alignment explanation
Indices: 13192928--13192979 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 20
13192918 TTTAATTTGA
*
13192928 TTAATTTTAATTTTATATTTT
1 TTAATTTAAATTTT-TATTTT
13192949 TTAAATTTAAATTTTTATTTT
1 TT-AATTTAAATTTTTATTTT
13192970 TT-ATTTAAAT
1 TTAATTTAAAT
13192980 GGTAACAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 8 0.28
21 10 0.34
22 11 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTAATTTAAATTTTTATTTT
Found at i:13193621 original size:44 final size:44
Alignment explanation
Indices: 13193529--13193624 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
13193519 AGGCATTGAA
* * *
13193529 CTTTTT-TTAACCATATGTTTAGTTATTTGTTTAGCATTTACTT
1 CTTTTTATTAACCATATGCTTAGCTATTTGTTTAGCATTTAATT
* **
13193572 CTTTTTATTAACTATATGCTTAGCTATTTGTTTTTCAATTTAATT
1 CTTTTTATTAACCATATGCTTAGCTATTTGTTTAGC-ATTTAATT
13193617 -TTTTTATT
1 CTTTTTATT
13193625 TTGTTTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 6 0.13
44 32 0.71
45 7 0.16
ACGTcount: A:0.22, C:0.10, G:0.07, T:0.60
Consensus pattern (44 bp):
CTTTTTATTAACCATATGCTTAGCTATTTGTTTAGCATTTAATT
Found at i:13193845 original size:63 final size:63
Alignment explanation
Indices: 13193733--13193853 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 63
13193723 TAGCGTTAGA
* * * * *
13193733 TACCATAATAAATCACATATTGATAATTCATGTACTACATTGGATATTTTATGAAAGTATAGG
1 TACCATAATAAATCACAAATGGATAATTCAGGTACCACATTGGACATTTTATGAAAGTATAGG
*
13193796 TACCATAATAAAAT-ACAAATGGATAGTTCAGGTACCACATTGGACATTTTATGAAAGT
1 TACCATAAT-AAATCACAAATGGATAATTCAGGTACCACATTGGACATTTTATGAAAGT
13193854 GCAGATACCA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
63 47 0.92
64 4 0.08
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (63 bp):
TACCATAATAAATCACAAATGGATAATTCAGGTACCACATTGGACATTTTATGAAAGTATAGG
Found at i:13194610 original size:30 final size:30
Alignment explanation
Indices: 13194576--13194638 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
13194566 ACTTATTTTA
*
13194576 TTGTTAATTTTATTATTAATTTAGAGGTAT
1 TTGTTAATTTTATTATTAATTTAGAGGCAT
* *
13194606 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTAATTTAGAGGCAT
13194636 TTG
1 TTG
13194639 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTAATTTAGAGGCAT
Found at i:13198035 original size:15 final size:15
Alignment explanation
Indices: 13198015--13198049 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
13198005 ACAACTTTTG
13198015 TGAAAGGATTTTTCA
1 TGAAAGGATTTTTCA
13198030 TGAAAGGATTTTTCA
1 TGAAAGGATTTTTCA
13198045 TGAAA
1 TGAAA
13198050 TCACCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (15 bp):
TGAAAGGATTTTTCA
Found at i:13199817 original size:40 final size:38
Alignment explanation
Indices: 13199697--13199828 Score: 132
Period size: 35 Copynumber: 3.6 Consensus size: 38
13199687 TCCTCATTGA
* *
13199697 AATACCATACCTACATTTTACAACTCGGTATGG--GA-
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
* * ** *
13199732 AATGCCATACCTACGTTTCTTAACTCAGTATGGATTTAAT
1 AATACCATACCTACATTTCACAACTCAGTATGGA--TGAT
*
13199772 AATACCATAACTACATTTCACAACTCAGTATGGATG--
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
13199808 -ATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13199829 CTTTACCATG
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
35 47 0.60
38 1 0.01
39 1 0.01
40 29 0.37
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (38 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATGAT
Found at i:13207270 original size:35 final size:35
Alignment explanation
Indices: 13207146--13207277 Score: 122
Period size: 35 Copynumber: 3.6 Consensus size: 35
13207136 TCCTCATTGA
* *
13207146 AATACCATACCTACATTTTACAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* * ** *
13207181 AATGCCATACCTACGTTTCTTAACTCAATATGGATTTAAT
1 AATACCATACCTACATTTCACAACTCAGTATGG-----AT
*
13207221 AATACCATAACTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
13207256 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
13207278 CTTTACCATG
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
34 2 0.03
35 46 0.61
39 1 0.01
40 27 0.36
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:13209734 original size:30 final size:30
Alignment explanation
Indices: 13209698--13209795 Score: 151
Period size: 30 Copynumber: 3.3 Consensus size: 30
13209688 CACGAGCTGA
**
13209698 GACACGGCCGTGTGTCTCAGCCGTGTGAAG
1 GACACGGCATTGTGTCTCAGCCGTGTGAAG
* *
13209728 GACACGGCATTGTGTCTCAACTGTGTGAAG
1 GACACGGCATTGTGTCTCAGCCGTGTGAAG
*
13209758 GACACAGCATTGTGTCTCAGCCGTGTGAAG
1 GACACGGCATTGTGTCTCAGCCGTGTGAAG
13209788 GACACGGC
1 GACACGGC
13209796 CTAGCACACG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.21, C:0.24, G:0.33, T:0.21
Consensus pattern (30 bp):
GACACGGCATTGTGTCTCAGCCGTGTGAAG
Found at i:13215823 original size:15 final size:15
Alignment explanation
Indices: 13215803--13215852 Score: 100
Period size: 15 Copynumber: 3.3 Consensus size: 15
13215793 ACAACTTTTG
13215803 TGAAAGGATTTTTCA
1 TGAAAGGATTTTTCA
13215818 TGAAAGGATTTTTCA
1 TGAAAGGATTTTTCA
13215833 TGAAAGGATTTTTCA
1 TGAAAGGATTTTTCA
13215848 TGAAA
1 TGAAA
13215853 TCACCTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (15 bp):
TGAAAGGATTTTTCA
Found at i:13216298 original size:35 final size:36
Alignment explanation
Indices: 13216252--13216326 Score: 134
Period size: 35 Copynumber: 2.1 Consensus size: 36
13216242 TTATGTGTGT
*
13216252 TTGAATTATTATAGCATGAATTTCTTGATTGTAG-A
1 TTGAATTATTATAGCATGAATTGCTTGATTGTAGAA
13216287 TTGAATTATTATAGCATGAATTGCTTGATTGTAGAA
1 TTGAATTATTATAGCATGAATTGCTTGATTGTAGAA
13216323 TTGA
1 TTGA
13216327 GAATGTTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (36 bp):
TTGAATTATTATAGCATGAATTGCTTGATTGTAGAA
Found at i:13220322 original size:81 final size:79
Alignment explanation
Indices: 13220184--13220404 Score: 257
Period size: 81 Copynumber: 2.7 Consensus size: 79
13220174 TTAGTTTACC
* * *
13220184 AAATTACCAAAATACCCTTGATTAGTAAAATTACCAAAATACCCTCGA-TTAGTAAAATTACCAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTA-CAAAATACCCCCGATTTA-CAAAATTACCAA
** *
13220248 AATACCATTGGTTTGTA
64 AATACC-CCGATTTGTA
* * *
13220265 AAATTACCAAAATACCCCTGATTTGTTAAATTATCGAAATACCCCCGATTTACAAAATTACCAAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTA-CAAAATACCCCCGATTTACAAAATTACCAAA
13220330 ATACCCCGATTTGTA
65 ATACCCCGATTTGTA
* * * *
13220345 AAATTACTAAAATA-CCTTCGACTTGTAAAATTACCAAAGTACCCCCAATTTACAAAATTA
1 AAATTACCAAAATACCCTT-GATTTGTAAAATTA-CAAAATACCCCCGATTTACAAAATTA
13220405 TCGTTTTACC
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
79 3 0.03
80 55 0.46
81 59 0.49
82 3 0.03
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (79 bp):
AAATTACCAAAATACCCTTGATTTGTAAAATTACAAAATACCCCCGATTTACAAAATTACCAAAA
TACCCCGATTTGTA
Found at i:13220401 original size:27 final size:27
Alignment explanation
Indices: 13220184--13220404 Score: 228
Period size: 27 Copynumber: 8.2 Consensus size: 27
13220174 TTAGTTTACC
** *
13220184 AAATTACCAAAATACCCTTGATTAGTA
1 AAATTACCAAAATACCCCCGATTTGTA
* *
13220211 AAATTACCAAAATACCCTCGATTAGTA
1 AAATTACCAAAATACCCCCGATTTGTA
*** *
13220238 AAATTACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCCCGATTTGTA
* *
13220265 AAATTACCAAAATACCCCTGATTTGTT
1 AAATTACCAAAATACCCCCGATTTGTA
* * **
13220292 AAATTATCGAAATACCCCCGATTTACA
1 AAATTACCAAAATACCCCCGATTTGTA
13220319 AAATTACCAAAATA-CCCCGATTTGTA
1 AAATTACCAAAATACCCCCGATTTGTA
* ** *
13220345 AAATTACTAAAATACCTTCGACTTGTA
1 AAATTACCAAAATACCCCCGATTTGTA
* * **
13220372 AAATTACCAAAGTACCCCCAATTTACA
1 AAATTACCAAAATACCCCCGATTTGTA
13220399 AAATTA
1 AAATTA
13220405 TCGTTTTACC
Statistics
Matches: 162, Mismatches: 31, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 23 0.14
27 139 0.86
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCCGATTTGTA
Found at i:13220403 original size:107 final size:108
Alignment explanation
Indices: 13220210--13220431 Score: 286
Period size: 107 Copynumber: 2.1 Consensus size: 108
13220200 CTTGATTAGT
**
13220210 AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCATTGGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCATTGACTTGTAAAATTACCAA
** ***
13220275 AATACCCCTGATTTGTTAAATTATCGAAATACCCCCGATTTAC
66 AATACCCCCAATTTACAAAATTATCGAAATACCCCCGATTTAC
* *
13220318 AAAATTACCAAAATACCC-CGATTTGTAAAATTACTAAAATACC-TTCGACTTGTAAAATTACCA
1 AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCATT-GACTTGTAAAATTACCA
* *** * *
13220381 AAGTACCCCCAATTTACAAAATTATCGTTTTACCCTCGATTTAT
65 AAATACCCCCAATTTACAAAATTATCGAAATACCCCCGATTTAC
13220425 AAAATTA
1 AAAATTA
13220432 TCGAAACAAC
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
106 2 0.02
107 78 0.80
108 18 0.18
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (108 bp):
AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCATTGACTTGTAAAATTACCAA
AATACCCCCAATTTACAAAATTATCGAAATACCCCCGATTTAC
Found at i:13220415 original size:80 final size:81
Alignment explanation
Indices: 13220184--13220431 Score: 238
Period size: 81 Copynumber: 3.1 Consensus size: 81
13220174 TTAGTTTACC
* * * *
13220184 AAATTACCAAAATACCCTTGA-TTAGTAAAATTA-CCAAAATACCCTCGA-TTAGTAAAATTACC
1 AAATTACCAAAATACCCCTGACTT-GTAAAATTATCC-AAATACCCCCAATTTA-CAAAATTACC
* * *
13220246 AAAATACCATTGGTTTGTA
63 AAAATACCCTCGATTTGTA
* * * *
13220265 AAATTACCAAAATACCCCTGATTTGTTAAATTATCGAAATACCCCCGATTTACAAAATTACCAAA
1 AAATTACCAAAATACCCCTGACTTGTAAAATTATCCAAATACCCCCAATTTACAAAATTACCAAA
13220330 ATACCC-CGATTTGTA
66 ATACCCTCGATTTGTA
* * * *
13220345 AAATTACTAAAATA-CCTTCGACTTGTAAAATTA-CCAAAGTACCCCCAATTTACAAAATTATCG
1 AAATTACCAAAATACCCCT-GACTTGTAAAATTATCCAAA-TACCCCCAATTTACAAAATTACCA
*** *
13220408 TTTTACCCTCGATTTATA
64 AAATACCCTCGATTTGTA
13220426 AAATTA
1 AAATTA
13220432 TCGAAACAAC
Statistics
Matches: 141, Mismatches: 20, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
79 7 0.05
80 58 0.41
81 70 0.50
82 6 0.04
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGACTTGTAAAATTATCCAAATACCCCCAATTTACAAAATTACCAAA
ATACCCTCGATTTGTA
Found at i:13220457 original size:27 final size:27
Alignment explanation
Indices: 13220427--13220658 Score: 284
Period size: 27 Copynumber: 8.6 Consensus size: 27
13220417 CGATTTATAA
* * * *
13220427 AATTATCGAAACAACCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13220454 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13220481 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
13220508 AATTACCAAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
13220535 AATTACTAAAATACCACTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
13220562 AATTATCGAAATACCCCTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
13220589 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
13220616 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
13220643 AATTACTGAGATACCC
1 AATTACCGAAATACCC
13220659 TCGTGGAGTA
Statistics
Matches: 174, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:13221037 original size:22 final size:22
Alignment explanation
Indices: 13221004--13221062 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
13220994 CCCGTTATCG
13221004 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
13221026 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
13221048 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
13221063 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:13221257 original size:27 final size:26
Alignment explanation
Indices: 13221227--13221327 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 26
13221217 TAAGTGGCTT
*
13221227 TGCCACATTATCTGATTCTGGTGTCTA
1 TGCCACAATATCTG-TTCTGGTGTCTA
* * *
13221254 TGCCACAAATATATGTTCTGGTGGCTC
1 TGCCAC-AATATCTGTTCTGGTGTCTA
*
13221281 TGCCAAAATATCTGTATCTGGTGACTCTA
1 TGCCACAATATCTGT-TCTGGTG--TCTA
13221310 T--CACAATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
13221328 CAGCCATGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
26 13 0.21
27 39 0.64
28 6 0.10
29 3 0.05
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.37
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGTCTA
Found at i:13221279 original size:54 final size:52
Alignment explanation
Indices: 13221220--13221327 Score: 121
Period size: 54 Copynumber: 2.0 Consensus size: 52
13221210 ATTCTGTTAA
* * *
13221220 GTGGCTTTGCCACATTATCTG-ATTCTGGTG-TCTATGCCACAAATATATGTTCTG
1 GTGGCTCTGCCAAAATATCTGTA-TCTGGTGATCTAT--CAC-AATATATGTTCTG
*
13221274 GTGGCTCTGCCAAAATATCTGTATCTGGTGACTCTATCACAATATCTGTTCTG
1 GTGGCTCTGCCAAAATATCTGTATCTGGTGA-TCTATCACAATATATGTTCTG
13221327 G
1 G
13221328 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
53 13 0.28
54 28 0.60
55 1 0.02
56 5 0.11
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (52 bp):
GTGGCTCTGCCAAAATATCTGTATCTGGTGATCTATCACAATATATGTTCTG
Found at i:13221476 original size:6 final size:6
Alignment explanation
Indices: 13221445--13221526 Score: 71
Period size: 6 Copynumber: 13.3 Consensus size: 6
13221435 TTGCATTCAC
* *
13221445 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
13221494 -TCACCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
13221527 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
5 4 0.06
6 49 0.79
7 7 0.11
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:13221524 original size:31 final size:31
Alignment explanation
Indices: 13221445--13221517 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
13221435 TTGCATTCAC
* *
13221445 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
13221476 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
13221507 ATTCTGATTCT
1 ATTCTGATTCT
13221518 AGTTCTGATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:13222236 original size:17 final size:17
Alignment explanation
Indices: 13222216--13222254 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
13222206 ATATTTATTT
**
13222216 AATAATAATATGTGTTA
1 AATAATAATATAAGTTA
13222233 AATAATAATATAAGTTA
1 AATAATAATATAAGTTA
13222250 AATAA
1 AATAA
13222255 AACATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (17 bp):
AATAATAATATAAGTTA
Found at i:13237586 original size:27 final size:27
Alignment explanation
Indices: 13237551--13237606 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
13237541 CTTCATCAGA
13237551 AAAATCCGAAAGAATCGAATTCAAATG
1 AAAATCCGAAAGAATCGAATTCAAATG
13237578 AAAATCCGAAAGAATCGAATTCAAATG
1 AAAATCCGAAAGAATCGAATTCAAATG
13237605 AA
1 AA
13237607 CTCCAATTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (27 bp):
AAAATCCGAAAGAATCGAATTCAAATG
Found at i:13238228 original size:15 final size:16
Alignment explanation
Indices: 13238197--13238240 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
13238187 CTTGATTCTT
*
13238197 AAAATTTTAAAATTAA
1 AAAAATTTAAAATTAA
13238213 AAAAATTTAAAA-TAA
1 AAAAATTTAAAATTAA
*
13238228 AAATTATTTAAAA
1 AAA-AATTTAAAA
13238241 GTTCATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATTTAAAATTAA
Found at i:13239845 original size:30 final size:30
Alignment explanation
Indices: 13239805--13239886 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
13239795 AATAAGTTAC
* *
13239805 TCACATAAGCTGACAATATATCAGAATTGT
1 TCACACAAGCTGACATTATATCAGAATTGT
* *
13239835 TCATACAAGCTGACATTATAAT-AGAGTTGT
1 TCACACAAGCTGACATTAT-ATCAGAATTGT
13239865 TCACACAAGCTGACATTATATC
1 TCACACAAGCTGACATTATATC
13239887 GAGGTTACCC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 2 0.04
30 41 0.91
31 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (30 bp):
TCACACAAGCTGACATTATATCAGAATTGT
Done.