Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 125 of 207
Found at i:38179136 original size:21 final size:23
Alignment explanation
Indices: 38179091--38179137 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
38179081 TCACCTGCAA
* *
38179091 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
38179114 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
38179135 TAA
1 TAA
38179138 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:38184294 original size:21 final size:21
Alignment explanation
Indices: 38184268--38184330 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
38184258 TTGGTATTTG
38184268 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
38184289 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
38184310 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
38184331 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:38188156 original size:10 final size:10
Alignment explanation
Indices: 38188141--38188202 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
38188131 TTTGAACCAT
*
38188141 TACCAATTCG
1 TACCAATTCA
*
38188151 TACCAAATACCA
1 TACC-AAT-TCA
*
38188163 TACCATTTCA
1 TACCAATTCA
38188173 TACCAATTCCA
1 TACCAATT-CA
* *
38188184 TACCATTTCG
1 TACCAATTCA
38188194 TACCAATTC
1 TACCAATTC
38188203 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:38188186 original size:21 final size:21
Alignment explanation
Indices: 38188141--38188203 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
38188131 TTTGAACCAT
* *
38188141 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
38188163 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
38188184 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
38188204 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:38188522 original size:14 final size:13
Alignment explanation
Indices: 38188502--38188552 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
38188492 ATAGGTACGT
38188502 AAAAAAAAGAGTTCG
1 AAAAAAAA-A-TTCG
*
38188517 AAAAAAAAATTTG
1 AAAAAAAAATTCG
38188530 AAAAAAAAAATT--
1 -AAAAAAAAATTCG
38188542 AAAAAAAAATT
1 AAAAAAAAATT
38188553 GCATACGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
11 11 0.32
13 3 0.09
14 12 0.35
15 8 0.24
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.18
Consensus pattern (13 bp):
AAAAAAAAATTCG
Found at i:38188532 original size:13 final size:13
Alignment explanation
Indices: 38188502--38188552 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
38188492 ATAGGTACGT
*
38188502 AAAAAAAAGAGTTCG
1 AAAAAAAA-A-TTTG
38188517 AAAAAAAAATTTG
1 AAAAAAAAATTTG
*
38188530 AAAAAAAAAATT-
1 AAAAAAAAATTTG
38188542 AAAAAAAAATT
1 AAAAAAAAATT
38188553 GCATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.30
13 14 0.42
14 1 0.03
15 8 0.24
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.18
Consensus pattern (13 bp):
AAAAAAAAATTTG
Found at i:38189339 original size:15 final size:15
Alignment explanation
Indices: 38189319--38189352 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38189309 GTTCAACGAA
* *
38189319 GAGGCCAATGCAATC
1 GAGGCCAACGAAATC
38189334 GAGGCCAACGAAATC
1 GAGGCCAACGAAATC
38189349 GAGG
1 GAGG
38189353 GAGGTTCGAT
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:0.35, C:0.24, G:0.32, T:0.09
Consensus pattern (15 bp):
GAGGCCAACGAAATC
Found at i:38195096 original size:20 final size:20
Alignment explanation
Indices: 38195071--38195117 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
38195061 AACGAAGAAT
38195071 GGAGAAATCAGTCAAGCCAC
1 GGAGAAATCAGTCAAGCCAC
38195091 GGAGAAATCAGTCAAGCCAC
1 GGAGAAATCAGTCAAGCCAC
38195111 GGAGAAA
1 GGAGAAA
38195118 CACCGAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.21, G:0.28, T:0.09
Consensus pattern (20 bp):
GGAGAAATCAGTCAAGCCAC
Found at i:38202554 original size:26 final size:26
Alignment explanation
Indices: 38202471--38202693 Score: 250
Period size: 26 Copynumber: 8.5 Consensus size: 26
38202461 TCATGGTTTT
* * *
38202471 CCACAAAGCCTTTCAATTCATTTTACG
1 CCACAAAGGCTTTC-TTTCATATTACG
* * * *
38202498 CCACAAACGTTGTTCTTTCATATTGCA
1 CCACAAAGGCT-TTCTTTCATATTACG
38202525 CCACAAAGGCTTTCATTT-ATATTACG
1 CCACAAAGGCTTTC-TTTCATATTACG
** * *
38202551 CCACAAAGTTTTTCTTTCATACTACA
1 CCACAAAGGCTTTCTTTCATATTACG
* *
38202577 CCACAAAGGCTTTCTTCCATATTACA
1 CCACAAAGGCTTTCTTTCATATTACG
* *
38202603 CCACAAAGGCTTTTTTTCATACTACG
1 CCACAAAGGCTTTCTTTCATATTACG
* *
38202629 ACACAAAGGTTTTCTTTCATATTACG
1 CCACAAAGGCTTTCTTTCATATTACG
*
38202655 CCACAAAGGCTTCCTTTCATATTACG
1 CCACAAAGGCTTTCTTTCATATTACG
38202681 CCACAAAGGCTTT
1 CCACAAAGGCTTT
38202694 TCATTATTTT
Statistics
Matches: 162, Mismatches: 31, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
25 3 0.02
26 128 0.79
27 28 0.17
28 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (26 bp):
CCACAAAGGCTTTCTTTCATATTACG
Found at i:38203103 original size:26 final size:25
Alignment explanation
Indices: 38203052--38203320 Score: 268
Period size: 26 Copynumber: 10.3 Consensus size: 25
38203042 GTTTTCAACG
* *
38203052 AAGGCTTTCAATTCATTTTACTCCACA
1 AAGGCTTTC--TTCATATTACGCCACA
* *
38203079 AAGGCTTTAGTTTATATTACGCCACA
1 AAGGCTTT-CTTCATATTACGCCACA
* *
38203105 AAGGCTTTCTTTCATACTATGCCACA
1 AAGGCTTTC-TTCATATTACGCCACA
*
38203131 AAAGCTTTCTTCCATATTACGCCACA
1 AAGGCTTTCTT-CATATTACGCCACA
* ** *
38203157 AAGGCTTTCTTCCATACTAAACCATA
1 AAGGCTTTCTT-CATATTACGCCACA
* *
38203183 AAGGCTTTTGTTCATACTACGCCACA
1 AAGGC-TTTCTTCATATTACGCCACA
* *
38203209 AATGCTTTCTTCCATATTATGCCACA
1 AAGGCTTTCTT-CATATTACGCCACA
*
38203235 AAGGCTTTCTTCCATACTACGCCACA
1 AAGGCTTTCTT-CATATTACGCCACA
*
38203261 AAGGCTTTCTTTCATATTACGTCACA
1 AAGGCTTTC-TTCATATTACGCCACA
* *
38203287 AAGGTTTTCTTTCATATTACGCTACA
1 AAGGCTTTC-TTCATATTACGCCACA
38203313 AAGGCTTT
1 AAGGCTTT
38203321 TCATTATTTG
Statistics
Matches: 203, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
25 7 0.03
26 181 0.89
27 15 0.07
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.35
Consensus pattern (25 bp):
AAGGCTTTCTTCATATTACGCCACA
Found at i:38203106 original size:575 final size:576
Alignment explanation
Indices: 38202162--38203268 Score: 1607
Period size: 575 Copynumber: 1.9 Consensus size: 576
38202152 AAAGGCTATT
* * * *
38202162 CTTATGTGGGGTTTTCCCATCATCGCATGAGACACGCAAAAAAACCTCTTTAGGTAATAACCTTC
1 CTTATGTGAGGTTTTCCCATCATCACATGAGACACACAAAAAAAACTCTTTAGGTAATAACCTTC
* * * *
38202227 CTTTAAGCTCCTTTAAAGAGTTCCATGGCCATGGACTTTTCCTTTTAGAATTCATGTTTAAATTC
66 CTTTAAGCTCCTTTAAAGAGTGCCACGGCCATGGACTTTTCCTTTCAGAATTCATGTTTAAAGTC
* *
38202292 CCGATAGACCTCTGTTGACAATACACCAAATAAATTGATATAGAATCCGCCACAAAGGATATCTT
131 CCGAAAGACCTCTGTTGACAATACACCAAATAAATTGATATAGAATCCGCCAAAAAGGATATCTT
* * * * *
38202357 TTACAGTACACCATTAAGATTCTTATCATTACACATCAAGAGCATCTCCTTTTAGAGATAGCCAT
196 TTACAATACACCATTAAGATTCTTATCATTACACACCAAGAACATCTCCTTTCAGAGATAGCCAC
* *
38202422 AAAAGCTTTCATCTTGTGATTTACTACAAAGACTTTTTTTCATGGTTTTCCACAAAGCCTTTCAA
261 AAAAGCTTTCATCTTGTGATTTACCACAAAGACTTTTTTTCATGGTTTTCAACAAAGCCTTTCAA
* * *
38202487 TTCATTTTACGCCACAAACGTTGTTCTTTCATATTGCACCACAAAGGCTTTCATTT-ATATTACG
326 TTCATTTTACGCCACAAACGTTGTACTTTCATATTACACCACAAAGGCTTTC-TTTCATACTACG
* * * *
38202551 CCAC-AAAGTTTTTCTTTCATACTACACCACAAAGGCTTTCTTCCATATTACACCACAAAGGCTT
390 CCACAAAAG-CTTTCTTCCATACTACACCACAAAGGCTTTCTTCCATACTAAACCACAAAGGCTT
* * * * *
38202615 TTTTTCATACTACGACACAAAGGTTTTCTTTCATATTACGCCACAAAGGCTTCCTTTCATATTAC
454 TTGTTCATACTACGACACAAAGGCTTTCTTCCATATTACGCCACAAAGGCTTCCTTCCATACTAC
38202680 GCCACAAAGGCTTTTCATTATTTTTCGTGTTTTTCTGATATTGATTTTCCTAAACTCA
519 GCCACAAAGGCTTTTCATTATTTTTCGTGTTTTTCTGATATTGATTTTCCTAAACTCA
* *
38202738 CTTATGTGAGGTTTTCCCATCATCACATGGGACACACAAAAAAAAC-CTTTGGGTAATAACCTTC
1 CTTATGTGAGGTTTTCCCATCATCACATGAGACACACAAAAAAAACTCTTTAGGTAATAACCTTC
* * **
38202802 CTTTAAGTTGCTTTAAAGAGTGCCACGGCCATGGACTTTTCCTTTCAGAATTTGTGTTTAAAGTC
66 CTTTAAGCTCCTTTAAAGAGTGCCACGGCCATGGACTTTTCCTTTCAGAATTCATGTTTAAAGTC
* *
38202867 CCGAAAGACCTCTTTTGACAATGCACCAAA-AAATTTGATATAGAATCCGCCAAAAAGGATATCT
131 CCGAAAGACCTCTGTTGACAATACACCAAATAAA-TTGATATAGAATCCGCCAAAAAGGATATCT
* ** *
38202931 TTTATAATATGCCATTAAGATTCTTATCATTACACGCCAAGAACATCTCCTTTCAGAGACT-GCC
195 TTTACAATACACCATTAAGATTCTTATCATTACACACCAAGAACATCTCCTTTCAGAGA-TAGCC
* * *
38202995 ACAAAAGCTTTCATCTTGTGATTTACCACAAAGGCTTTTTTTTCATGGTTTTCAACGAAGGCTTT
259 ACAAAAGCTTTCATCTTGTGATTTACCACAAAGAC-TTTTTTTCATGGTTTTCAACAAAGCCTTT
* * * *
38203060 CAATTCATTTTACTCCACAAAGGCTT-TAGTTT-ATATTACGCCACAAAGGCTTTCTTTCATACT
323 CAATTCATTTTACGCCACAAACG-TTGTACTTTCATATTACACCACAAAGGCTTTCTTTCATACT
* * * *
38203123 ATGCCACAAAAGCTTTCTTCCATATTACGCCACAAAGGCTTTCTTCCATACTAAACCATAAAGGC
387 ACGCCACAAAAGCTTTCTTCCATACTACACCACAAAGGCTTTCTTCCATACTAAACCACAAAGGC
* * * *
38203188 TTTTGTTCATACTACGCCACAAATGCTTTCTTCCATATTATGCCACAAAGGCTTTCTTCCATACT
452 TTTTGTTCATACTACGACACAAAGGCTTTCTTCCATATTACGCCACAAAGGCTTCCTTCCATACT
38203253 ACGCCACAAAGGCTTT
517 ACGCCACAAAGGCTTT
38203269 CTTTCATATT
Statistics
Matches: 469, Mismatches: 56, Indels: 13
0.87 0.10 0.02
Matches are distributed among these distances:
574 6 0.01
575 364 0.78
576 97 0.21
577 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (576 bp):
CTTATGTGAGGTTTTCCCATCATCACATGAGACACACAAAAAAAACTCTTTAGGTAATAACCTTC
CTTTAAGCTCCTTTAAAGAGTGCCACGGCCATGGACTTTTCCTTTCAGAATTCATGTTTAAAGTC
CCGAAAGACCTCTGTTGACAATACACCAAATAAATTGATATAGAATCCGCCAAAAAGGATATCTT
TTACAATACACCATTAAGATTCTTATCATTACACACCAAGAACATCTCCTTTCAGAGATAGCCAC
AAAAGCTTTCATCTTGTGATTTACCACAAAGACTTTTTTTCATGGTTTTCAACAAAGCCTTTCAA
TTCATTTTACGCCACAAACGTTGTACTTTCATATTACACCACAAAGGCTTTCTTTCATACTACGC
CACAAAAGCTTTCTTCCATACTACACCACAAAGGCTTTCTTCCATACTAAACCACAAAGGCTTTT
GTTCATACTACGACACAAAGGCTTTCTTCCATATTACGCCACAAAGGCTTCCTTCCATACTACGC
CACAAAGGCTTTTCATTATTTTTCGTGTTTTTCTGATATTGATTTTCCTAAACTCA
Found at i:38203164 original size:78 final size:78
Alignment explanation
Indices: 38203069--38203320 Score: 328
Period size: 78 Copynumber: 3.2 Consensus size: 78
38203059 TCAATTCATT
* * * * *
38203069 TTACTCCACAAAGGCTTTAGTT-TATATTACGCCACAAAGGCTTTCTTTCATACTATGCCACAAA
1 TTACGCCACAAAGGCTTT-CTTCCATACTACGCCACAAAGGCTTTCTTTCATACTACGCCACAAA
38203133 AGCTTTCTTCCATA
65 AGCTTTCTTCCATA
** *
38203147 TTACGCCACAAAGGCTTTCTTCCATACTAAACCATAAAGGCTTT-TGTTCATACTACGCCACAAA
1 TTACGCCACAAAGGCTTTCTTCCATACTACGCCACAAAGGCTTTCT-TTCATACTACGCCACAAA
*
38203211 TGCTTTCTTCCATA
65 AGCTTTCTTCCATA
* * * *
38203225 TTATGCCACAAAGGCTTTCTTCCATACTACGCCACAAAGGCTTTCTTTCATATTACGTCACAAAG
1 TTACGCCACAAAGGCTTTCTTCCATACTACGCCACAAAGGCTTTCTTTCATACTACGCCACAAAA
* *
38203290 GTTTTCTTTCATA
66 GCTTTCTTCCATA
*
38203303 TTACGCTACAAAGGCTTT
1 TTACGCCACAAAGGCTTT
38203321 TCATTATTTG
Statistics
Matches: 151, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
77 3 0.02
78 147 0.97
79 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (78 bp):
TTACGCCACAAAGGCTTTCTTCCATACTACGCCACAAAGGCTTTCTTTCATACTACGCCACAAAA
GCTTTCTTCCATA
Found at i:38209715 original size:21 final size:21
Alignment explanation
Indices: 38209686--38209725 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
38209676 AAATTAAGTA
38209686 TTTTCATTAAGATTTAGTTATG
1 TTTTCATTAAG-TTTAGTTATG
*
38209708 TTTT-ATTAAGTTTTGTTA
1 TTTTCATTAAGTTTAGTTA
38209726 AATCCAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.60
Consensus pattern (21 bp):
TTTTCATTAAGTTTAGTTATG
Found at i:38212432 original size:26 final size:26
Alignment explanation
Indices: 38212382--38212437 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
38212372 ATATATGGTC
*
38212382 ACACGAGCTGTGAAATGAGTATGCTT
1 ACACGAGCTGTGAAATGAGCATGCTT
* *
38212408 ACACGAGCTGTGAAATGGGCCTGCTT
1 ACACGAGCTGTGAAATGAGCATGCTT
38212434 ACAC
1 ACAC
38212438 AAGCAGTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (26 bp):
ACACGAGCTGTGAAATGAGCATGCTT
Found at i:38219878 original size:43 final size:43
Alignment explanation
Indices: 38219817--38220012 Score: 268
Period size: 43 Copynumber: 4.6 Consensus size: 43
38219807 GCGTCGCTAA
* *
38219817 CTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGACCAAGAC
* * *
38219860 CTTTAGCGGCGTTTTTCCCACAAATGCAGCTAAAGACCAAGGC
1 CTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGACCAAGAC
*
38219903 CTTTAGCGGCACTTTTCCCGA-AAATGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCC-ACAAATGCCGCTAAAGACCAAGAC
* * *
38219946 CTTTAGCGACGCTTTTCCCAAAAATGCCGCTAAAGATCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGACCAAGAC
* * *
38219989 CTTTAACGACACTTTTCCCACAAA
1 CTTTAGCGGCGCTTTTCCCACAAA
38220013 CGCCACTGAA
Statistics
Matches: 136, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
42 1 0.01
43 134 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGACCAAGAC
Found at i:38220252 original size:35 final size:35
Alignment explanation
Indices: 38220216--38220283 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
38220206 CTATGAAAAT
38220216 TTTAACTTTA-AAACTAAATATAA-AAATTAATAAA
1 TTTAACTTTAGAAACTAAA-ATAATAAATTAATAAA
* **
38220250 TTTAATTTTAGAATTTAAAATAATAAATTAATAA
1 TTTAACTTTAGAAACTAAAATAATAAATTAATAA
38220284 CACAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (35 bp):
TTTAACTTTAGAAACTAAAATAATAAATTAATAAA
Found at i:38221556 original size:68 final size:68
Alignment explanation
Indices: 38221447--38221686 Score: 462
Period size: 68 Copynumber: 3.5 Consensus size: 68
38221437 CAAGTGATTA
38221447 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAAAGTTAAAAAGGATAAGCTATTAAAAGTTA
1 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAAAGTTAAAAAGGATAAGCTATTAAAAGTTA
38221512 AAT
66 AAT
38221515 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAAAGTTAAAAAGGATAAGCTATTAAAAGTTA
1 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAAAGTTAAAAAGGATAAGCTATTAAAAGTTA
38221580 AAT
66 AAT
*
38221583 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAAAGTTAAAAAGGATAAGCTCTTAAAAGTTA
1 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAAAGTTAAAAAGGATAAGCTATTAAAAGTTA
38221648 AAT
66 AAT
*
38221651 AAAAGTTGCACATTACCCACATCCAAGCCAATTAAA
1 AAAAGTTGCACATTACCCACATCCAAGCCGATTAAA
38221687 TTATGCTTAA
Statistics
Matches: 170, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 170 1.00
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.23
Consensus pattern (68 bp):
AAAAGTTGCACATTACCCACATCCAAGCCGATTAAAAGTTAAAAAGGATAAGCTATTAAAAGTTA
AAT
Found at i:38223434 original size:148 final size:146
Alignment explanation
Indices: 38223200--38223487 Score: 346
Period size: 148 Copynumber: 2.0 Consensus size: 146
38223190 GGGAATTTTA
* * * * * *
38223200 TAAAATGGCGCTATTTTTTTAAAAAGTAATTTTTTTGTGGCGTTTTTTATAAAAATGTCGTTATT
1 TAAAAGGGCGCTATTTTTTTAAAAAGAAATTTTTTTGTAGCGTTTTTTATAAAAACGCCGCTATT
* * * * *
38223265 GGTTATTTATTGTGGCGTTTTTATAAAAAACGCCGTAAAAAATTATTTTATTTAGAATAAAACGA
66 GCTTATTTATTGCGGCATTTTTATAAAAAACGCCGCAAAAAATTATTTCATTTAGAATAAAACGA
*
38223330 CATTGTTTTGTTATGT
131 CACTGTTTTGTTATGT
*
38223346 TAAAAGGGTGCTATTTTTTTAAAATA-AAATTATTTTTTGTAGCGTTTTTTATAAAAACGCCGCT
1 TAAAAGGGCGCTATTTTTTTAAAA-AGAAA-T-TTTTTTGTAGCGTTTTTTATAAAAACGCCGCT
* ** * * *
38223410 ATTGCTTACTTT-TTGCGGTATTTTTATGGAAAATGCCGCAAAAATTTATTTCATTTGGAATAAA
63 ATTGCTTA-TTTATTGCGGCATTTTTATAAAAAACGCCGCAAAAAATTATTTCATTTAGAATAAA
*
38223474 ATGACACTGTTTTG
127 ACGACACTGTTTTG
38223488 CTATTCTAAA
Statistics
Matches: 118, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
146 24 0.20
147 2 0.02
148 89 0.75
149 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (146 bp):
TAAAAGGGCGCTATTTTTTTAAAAAGAAATTTTTTTGTAGCGTTTTTTATAAAAACGCCGCTATT
GCTTATTTATTGCGGCATTTTTATAAAAAACGCCGCAAAAAATTATTTCATTTAGAATAAAACGA
CACTGTTTTGTTATGT
Found at i:38224057 original size:21 final size:22
Alignment explanation
Indices: 38224019--38224061 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
38224009 ACCCCGAATC
*
38224019 TTTAAACTCTAAATCACTAACT
1 TTTAAACTCTAAACCACTAACT
*
38224041 TTTAACCTCT-AACCACTAACT
1 TTTAAACTCTAAACCACTAACT
38224062 CATAAACCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.37, C:0.28, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAACTCTAAACCACTAACT
Found at i:38224288 original size:7 final size:7
Alignment explanation
Indices: 38224272--38224301 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
38224262 TAACTGATCT
*
38224272 TAACCTC
1 TAACCCC
38224279 TAACCCC
1 TAACCCC
38224286 TAACCCC
1 TAACCCC
38224293 TAACCCC
1 TAACCCC
38224300 TA
1 TA
38224302 GCCCATAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.30, C:0.50, G:0.00, T:0.20
Consensus pattern (7 bp):
TAACCCC
Found at i:38225628 original size:41 final size:41
Alignment explanation
Indices: 38225563--38225798 Score: 348
Period size: 41 Copynumber: 5.8 Consensus size: 41
38225553 TTTTATTATT
38225563 ATTAGCGGCGC-TTTTCAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
38225603 ATTAGTGGCGCTTTTTCAAAAACGCCGCTAAAGGCTAGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
* * * *
38225644 ATTAGCGGCGCTTCTCCAAAAACGCCACTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
* * * * *
38225685 ATTAGCGGCGCTTCTCCAAAAATGTCGCTAAAGGCCGGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
38225726 ATTAGCGGCGCTTTTTCATAAACGCCGCTAAAGGCCGGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
38225767 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
38225799 TGCCCCCAAA
Statistics
Matches: 177, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 10 0.06
41 167 0.94
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:38225961 original size:40 final size:38
Alignment explanation
Indices: 38225838--38225970 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 38
38225828 GGGCTTAGGC
*
38225838 TTTT-GCGGCGCTTTTCAAAAAACGCCGCTAATGCTTAT
1 TTTTAGCGGCG-TTTTCAAAAAACGCCGCTAATGCTGAT
* *
38225876 TTTTAGCGGCGTTTTGCAAAAATCGCCGCTAATGCTCGAC
1 TTTTAGCGGCGTTTT-CAAAAAACGCCGCTAATGCT-GAT
* * *
38225916 CTTTAGCGGCGATTTT-ATAAAACCGCTGCTAATGCCTGAT
1 TTTTAGCGGCG-TTTTCA-AAAAACGCCGCTAATG-CTGAT
* *
38225956 TTTTAGTGCCGTTTT
1 TTTTAGCGGCGTTTT
38225971 TTGTCCAAAC
Statistics
Matches: 79, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
38 8 0.10
39 30 0.38
40 35 0.44
41 6 0.08
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (38 bp):
TTTTAGCGGCGTTTTCAAAAAACGCCGCTAATGCTGAT
Found at i:38228486 original size:30 final size:30
Alignment explanation
Indices: 38228452--38228513 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
38228442 TTCTCAGCGG
*
38228452 ACACTTCTGACATATTAAATTAACTAACAC
1 ACACTTCCGACATATTAAATTAACTAACAC
38228482 ACACTTCCGACATATTAAATTAACTAACAC
1 ACACTTCCGACATATTAAATTAACTAACAC
38228512 AC
1 AC
38228514 TCTAACCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.26, G:0.03, T:0.27
Consensus pattern (30 bp):
ACACTTCCGACATATTAAATTAACTAACAC
Found at i:38235415 original size:5 final size:5
Alignment explanation
Indices: 38235405--38235436 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
38235395 GAGTCTGTAA
38235405 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
38235437 ATATGGACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:38236905 original size:20 final size:19
Alignment explanation
Indices: 38236848--38236908 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
38236838 TTGTACGAGA
*
38236848 TTGCACTTCGATGCCTCTGT
1 TTGCACTTCG-TGCCTTTGT
38236868 TTGCACTTCAGTGCCTTTGT
1 TTGCACTTC-GTGCCTTTGT
*
38236888 TTGCACTTCGTTGTCTTTGT
1 TTGCACTTCG-TGCCTTTGT
38236908 T
1 T
38236909 AGCATCCCGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.03
20 35 0.95
21 1 0.03
ACGTcount: A:0.08, C:0.25, G:0.20, T:0.48
Consensus pattern (19 bp):
TTGCACTTCGTGCCTTTGT
Found at i:38243711 original size:16 final size:16
Alignment explanation
Indices: 38243687--38243722 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
38243677 GAAATATTTA
*
38243687 TTTTAATTTTTTATAT
1 TTTTAATTTATTATAT
*
38243703 TTTTGATTTATTATAT
1 TTTTAATTTATTATAT
38243719 TTTT
1 TTTT
38243723 TAAAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTTAATTTATTATAT
Found at i:38244273 original size:16 final size:17
Alignment explanation
Indices: 38244254--38244286 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38244244 GAAAAAAAGT
*
38244254 AAATTAATTAAA-ATAA
1 AAATTAAATAAACATAA
38244270 AAATTAAATAAACATAA
1 AAATTAAATAAACATAA
38244287 TTATTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATTAAATAAACATAA
Found at i:38255892 original size:15 final size:15
Alignment explanation
Indices: 38255855--38255893 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
38255845 GAACAAGCTC
38255855 AATTAGAAAAATTTTA
1 AATTA-AAAAATTTTA
*
38255871 AAATAAAAAATTTTA
1 AATTAAAAAATTTTA
*
38255886 CATTAAAA
1 AATTAAAA
38255894 CTATTATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
AATTAAAAAATTTTA
Found at i:38258315 original size:16 final size:16
Alignment explanation
Indices: 38258294--38258324 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38258284 ATTGTGTTGA
*
38258294 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
38258310 GAAAATTAATTAATT
1 GAAAATTAATTAATT
38258325 TAAACTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:38267825 original size:19 final size:19
Alignment explanation
Indices: 38267792--38267831 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
38267782 AAAATATCAT
*
38267792 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTACTTG
38267811 ATTAA-TTTAATTTTACTTG
1 ATTAATTTTAA-TTTACTTG
38267830 AT
1 AT
38267832 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTACTTG
Found at i:38275958 original size:26 final size:26
Alignment explanation
Indices: 38275912--38275987 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
38275902 ATGAATTTTC
* **
38275912 TCAAAATTTTACTAGAAGTAAAATCG
1 TCAAAATTTTACTGGGGGTAAAATCG
* * *
38275938 TTAAAATTTTATTGGGGGTAAAGTCG
1 TCAAAATTTTACTGGGGGTAAAATCG
*
38275964 TCAAACTTTTACTGGGGGTAAAAT
1 TCAAAATTTTACTGGGGGTAAAAT
38275988 TGAGATAAGA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACTGGGGGTAAAATCG
Found at i:38278583 original size:20 final size:19
Alignment explanation
Indices: 38278558--38278632 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 19
38278548 GAAATGTAAT
38278558 CAAAGACACCAATGTGCAAA
1 CAAAGACACCAA-GTGCAAA
* *
38278578 CAAAGACACTGAAGTGCATA
1 CAAAGACAC-CAAGTGCAAA
** *
38278598 CAGCGGCACCAAAGTGCAAA
1 CAAAGACACC-AAGTGCAAA
*
38278618 CAAAGGCACCGAAGT
1 CAAAGACACC-AAGT
38278633 ACATAACTAG
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.44, C:0.25, G:0.21, T:0.09
Consensus pattern (19 bp):
CAAAGACACCAAGTGCAAA
Found at i:38280927 original size:2 final size:2
Alignment explanation
Indices: 38280922--38280946 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38280912 GTTAATGCTT
38280922 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
38280947 TAATTTCTTT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:38280993 original size:26 final size:27
Alignment explanation
Indices: 38280946--38280999 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
38280936 TCTCTCTCTC
**
38280946 TTAATTTCTTTTTTTATGTTTTCCTTT
1 TTAATTTCTTTTTCCATGTTTTCCTTT
* *
38280973 TTAATTT-TTTTTCCATTTTTTTCTTT
1 TTAATTTCTTTTTCCATGTTTTCCTTT
38280999 T
1 T
38281000 ATTCCTTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (27 bp):
TTAATTTCTTTTTCCATGTTTTCCTTT
Found at i:38283375 original size:22 final size:24
Alignment explanation
Indices: 38283350--38283406 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
38283340 AATTAAATTT
**
38283350 TTAATGTA-TTTTTATAAT-ATAA
1 TTAATGTAGTTTAAATAATAATAA
38283372 TTAAT-TAGTTTAAATAATAAATAA
1 TTAATGTAGTTTAAATAAT-AATAA
38283396 TTAATGTAGTT
1 TTAATGTAGTT
38283407 AATAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 2 0.07
22 13 0.45
24 9 0.31
25 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (24 bp):
TTAATGTAGTTTAAATAATAATAA
Found at i:38283408 original size:24 final size:24
Alignment explanation
Indices: 38283363--38283412 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
38283353 ATGTATTTTT
38283363 ATAATATAATTAATTAGTTTAAATA
1 ATAATATAATTAATTAGTTT-AATA
38283388 ATAA-ATAATTAATGTAG-TTAATA
1 ATAATATAATTAAT-TAGTTTAATA
38283411 AT
1 AT
38283413 TTTTATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.25
24 11 0.46
25 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (24 bp):
ATAATATAATTAATTAGTTTAATA
Found at i:38283653 original size:18 final size:18
Alignment explanation
Indices: 38283630--38283666 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
38283620 GAATGAATGT
38283630 TCATAACCCCTAAATTCA
1 TCATAACCCCTAAATTCA
38283648 TCATAACCCCTAAATTCA
1 TCATAACCCCTAAATTCA
38283666 T
1 T
38283667 TATCTTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.30
Consensus pattern (18 bp):
TCATAACCCCTAAATTCA
Found at i:38291269 original size:46 final size:45
Alignment explanation
Indices: 38291187--38291394 Score: 209
Period size: 46 Copynumber: 4.5 Consensus size: 45
38291177 AGTTTTTGCC
* * * * **
38291187 CAGGTTCTCAGCTCTTGCATATATTGCGGACTGGAGAATACATATT
1 CAGGTTCCCAACTCCTGCATATGTTGCAAACTGGAGAATACA-ATT
* * ** *
38291233 CAAGTTCCCAATTCCTATATATGTTGCAGACTGGAGAATACAGATT
1 CAGGTTCCCAACTCCTGCATATGTTGCAAACTGGAGAATACA-ATT
*
38291279 CAGGTTCCCAACTCCTGCATATGTTGCAAACTGGAAAATACAAGTT
1 CAGGTTCCCAACTCCTGCATATGTTGCAAACTGGAGAATACAA-TT
* * *
38291325 TAGGTTCCCAACTCTTGCATATGTTGCAAACTAGAGAATACAATTT
1 CAGGTTCCCAACTCCTGCATATGTTGCAAACTGGAGAATACAA-TT
* * * *
38291371 TAGGTTCCTAGCTCCTGCAGATGT
1 CAGGTTCCCAACTCCTGCATATGT
38291395 GGAAACGCAG
Statistics
Matches: 136, Mismatches: 25, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
45 1 0.01
46 135 0.99
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (45 bp):
CAGGTTCCCAACTCCTGCATATGTTGCAAACTGGAGAATACAATT
Found at i:38295515 original size:26 final size:28
Alignment explanation
Indices: 38295442--38295554 Score: 99
Period size: 28 Copynumber: 4.1 Consensus size: 28
38295432 AAGACATTCA
* * *
38295442 TTTAACAAAGATAGCCATAAAGGCATCC
1 TTTAATAAAGATAGCCACAAAGGCTTCC
*
38295470 TTTTAACAGAA-ATCA-CCACAAAGGCTTCC
1 -TTTAATA-AAGAT-AGCCACAAAGGCTTCC
* **
38295499 TTTCA-AAA-ATAGCCACAAAGGCTTTT
1 TTTAATAAAGATAGCCACAAAGGCTTCC
*
38295525 TTTAATAAAGATAGTCACAAAGGCTTCC
1 TTTAATAAAGATAGCCACAAAGGCTTCC
38295553 TT
1 TT
38295555 ATAGAAACTG
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
25 1 0.01
26 20 0.29
27 4 0.06
28 21 0.30
29 21 0.30
30 3 0.04
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.27
Consensus pattern (28 bp):
TTTAATAAAGATAGCCACAAAGGCTTCC
Found at i:38297188 original size:20 final size:20
Alignment explanation
Indices: 38297142--38297202 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
38297132 GTATGATAAC
38297142 TTTAAATAATATAACTAATCA
1 TTTAAATAATATAACTAAT-A
38297163 TTTAAATAATA-ATACT-ATA
1 TTTAAATAATATA-ACTAATA
*
38297182 TTTTAAATTATACTAA-TAATA
1 -TTTAAATAATA-TAACTAATA
38297203 AACTTAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
19 1 0.03
20 14 0.41
21 18 0.53
22 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTAAATAATATAACTAATA
Found at i:38298543 original size:44 final size:44
Alignment explanation
Indices: 38298480--38298852 Score: 164
Period size: 44 Copynumber: 8.5 Consensus size: 44
38298470 GATTCACTCT
** *
38298480 ACTGCAACTTCAGAAAGATAAGATCCATTACTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCCATTACTTTAATCTGCTCC
* * * * ** * *
38298524 ACTACAATTTCAGGGAGATAGGAT-TATCGGCTTCAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATCCAT-TACTTTAATCTGCTCC
* * * *
38298568 ATTGCAACCTCAGGGAGATAAGATTTGCCA-T-CTCTGATCTG-TCCC
1 ACTGCAACTTCAGGGAGATAAGA--T-CCATTACTTTAATCTGCT-CC
* * *
38298613 ACTGCAACTTCAAGGG-GATAAGA-CCTGCTTAC-TCAGTCTGCTCC
1 ACTGCAACTTC-AGGGAGATAAGATCC--ATTACTTTAATCTGCTCC
* * ** *
38298657 ACTACAACCTCAGGGAGATAAGA--CATGATAC--T-ATCCACTCT
1 ACTGCAACTTCAGGGAGATAAGATCCAT--TACTTTAATCTGCTCC
* * *
38298698 ACTGTAACTTCAGAGAGATAAGATCCATTACTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCCATTACTTTAATCTGCTCC
* * * * * *
38298742 ACTACAATTTCA-GGAGATAGGAT-TATCAGCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCCATTA-CTTTAATCTGCTCC
* *** * *
38298785 ACTGCAACCTCAGGGAGATAAGATTTGTCATCTTCAATCTG-TCCC
1 ACTGCAACTTCAGGGAGATAAGATCCATTA-CTTTAATCTGCT-CC
* *
38298830 ATTGCAACTTCAGGGGGATAAGA
1 ACTGCAACTTCAGGGAGATAAGA
38298853 CCTGTGATTT
Statistics
Matches: 244, Mismatches: 61, Indels: 47
0.69 0.17 0.13
Matches are distributed among these distances:
41 30 0.12
42 3 0.01
43 44 0.18
44 99 0.41
45 62 0.25
46 5 0.02
48 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATCCATTACTTTAATCTGCTCC
Found at i:38298784 original size:43 final size:45
Alignment explanation
Indices: 38298732--38298852 Score: 113
Period size: 45 Copynumber: 2.7 Consensus size: 45
38298722 CCATTACTTT
* ** *
38298732 AATCCGCTCCACTACAATTTCA-GGAGATAGGA-TTATCAGCTTC
1 AATCTGCTCCACTACAACCTCAGGGAGATAAGATTTATCAGCTTC
* * *
38298775 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTCATCTTC
1 AATCTGCTCCACTACAACCTCAGGGAGATAAGATTTATCAGCTTC
* * * *
38298820 AATCTG-TCCCATTGCAACTTCAGGGGGATAAGA
1 AATCTGCT-CCACTACAACCTCAGGGAGATAAGA
38298853 CCTGTGATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 18 0.28
44 10 0.15
45 37 0.57
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (45 bp):
AATCTGCTCCACTACAACCTCAGGGAGATAAGATTTATCAGCTTC
Found at i:38298938 original size:217 final size:216
Alignment explanation
Indices: 38298406--38298878 Score: 608
Period size: 218 Copynumber: 2.2 Consensus size: 216
38298396 TGGGTACTTT
* * ** * * * * * * * *
38298406 AGGGGAATAAGACCTGCTTACTCAGTCTGCTCCGCTGCAACCTCAGGAAGATAAGACCTAATGCG
1 AGGGG-ATAAGACCTGATTACCCAACCTACTCCACTACAACCTCAGGGAGATAAGACATGATACT
* *
38298471 ATTCACTCTACTGCAACTTCAGAAAGATAAGATCCATTACTTTAATCCGCTCCACTACAATTTCA
65 ATCCACTCTACTGTAACTT-AG-AAGATAAGATCCATTACTTTAATCCGCTCCACTACAATTTCA
* *
38298536 GGGAGATAGGATTATCGGCTTCAATCTACTCCATTGCAACCTCAGGGAGATAAGATTTGCCATCT
128 GGGAGATAGGATTATCAGCTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCT
*
38298601 CTGATCTGTCCCACTGCAACTTCA
193 CTAATCTGTCCCACTGCAACTTCA
* * ** *
38298625 AGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTACAACCTCAGGGAGATAAGACATGATACTA
1 AGGGGATAAGACCTGATTACCCAACCTACTCCACTACAACCTCAGGGAGATAAGACATGATACTA
38298690 TCCACTCTACTGTAACTTCAGAGAGATAAGATCCATTACTTTAATCCGCTCCACTACAATTTCA-
66 TCCACTCTACTGTAACTT-AGA-AGATAAGATCCATTACTTTAATCCGCTCCACTACAATTTCAG
* *
38298754 GGAGATAGGATTATCAGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTCATCT-
129 GGAGATAGGATTATCAGCTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTC
*
38298818 TCAATCTGTCCCATTGCAACTTCA
194 T-AATCTGTCCCACTGCAACTTCA
* * *
38298842 GGGGGATAAGACCTGTGATTTCCCAACCTATTCCACT
1 AGGGGATAAGACC--TGATTACCCAACCTACTCCACT
38298879 GCTGACCAGG
Statistics
Matches: 227, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
216 1 0.00
217 93 0.41
218 113 0.50
219 20 0.09
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (216 bp):
AGGGGATAAGACCTGATTACCCAACCTACTCCACTACAACCTCAGGGAGATAAGACATGATACTA
TCCACTCTACTGTAACTTAGAAGATAAGATCCATTACTTTAATCCGCTCCACTACAATTTCAGGG
AGATAGGATTATCAGCTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTCTA
ATCTGTCCCACTGCAACTTCA
Found at i:38300894 original size:30 final size:30
Alignment explanation
Indices: 38300832--38300905 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
38300822 ACTTAAGCCA
*
38300832 AGCTCAAACGAGCTAAAGTAAGCTAGATTG
1 AGCTCAAACGAGCTAAAGTAAGCTACATTG
*
38300862 AGCTCAAACGAGCTAAATTAAGCT-CATGTG
1 AGCTCAAACGAGCTAAAGTAAGCTACAT-TG
38300892 AGCT-AAATCGAGCT
1 AGCTCAAA-CGAGCT
38300906 GGGAAAAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 5 0.12
30 35 0.88
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (30 bp):
AGCTCAAACGAGCTAAAGTAAGCTACATTG
Found at i:38302002 original size:6 final size:6
Alignment explanation
Indices: 38301988--38302067 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
38301978 CTTCTCTCCT
* * * ** **
38301988 TTTTTA TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTTTCTC TTTCTTC
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA -TTTT-GA TTT-TGA
38302039 TTTTG- TTTCTGA TTTTGA TTTTGA TTTTG
1 TTTTGA TTT-TGA TTTTGA TTTTGA TTTTG
38302068 CTTGATTTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
5 3 0.05
6 43 0.69
7 15 0.24
8 1 0.02
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.69
Consensus pattern (6 bp):
TTTTGA
Found at i:38305889 original size:62 final size:63
Alignment explanation
Indices: 38305763--38305892 Score: 156
Period size: 62 Copynumber: 2.1 Consensus size: 63
38305753 CTTTAACCTA
* * * * * *
38305763 ATAATTTTAGATATTTCAATTGTATTACACAAATTGTTTCACTCACGTTGTTTGTATATTTTG
1 ATAATTTTACACATTTCAATTGTATTACACAAATTGTTTCACTCACATTATTTGCATATATTG
* * *
38305826 ATAATTTTACACATTTCAATT-TATTATACAAATTGTTTC-TTCCATATTATTTGCATATATTG
1 ATAATTTTACACATTTCAATTGTATTACACAAATTGTTTCACT-CACATTATTTGCATATATTG
38305888 ATAAT
1 ATAAT
38305893 GTCATTGATT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
61 1 0.02
62 37 0.65
63 19 0.33
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.49
Consensus pattern (63 bp):
ATAATTTTACACATTTCAATTGTATTACACAAATTGTTTCACTCACATTATTTGCATATATTG
Found at i:38307045 original size:15 final size:15
Alignment explanation
Indices: 38307017--38307076 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
38307007 ATATTATATG
*
38307017 AAAAATTAAATAAAAT
1 AAAAA-TAATTAAAAT
38307033 AAAAATAATT-AAAT
1 AAAAATAATTAAAAT
* *
38307047 TAAAATAAATTAAAAA
1 AAAAAT-AATTAAAAT
*
38307063 AACAAATAACTAAA
1 AA-AAATAATTAAA
38307077 TATATTATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 9 0.25
15 8 0.22
16 15 0.42
17 4 0.11
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAATAATTAAAAT
Found at i:38310111 original size:19 final size:21
Alignment explanation
Indices: 38310073--38310112 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
38310063 AGGTTGATTC
*
38310073 TTTATGTAATTTTTTATATTT
1 TTTATGTAATTTTATATATTT
38310094 TTTAT-TAA-TTTATATATTT
1 TTTATGTAATTTTATATATTT
38310113 AATTTCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 3 0.17
21 5 0.28
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (21 bp):
TTTATGTAATTTTATATATTT
Found at i:38310168 original size:18 final size:19
Alignment explanation
Indices: 38310145--38310182 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
38310135 TTTGATATTT
* *
38310145 TATAAA-TTATTAGAAACA
1 TATAAACTTACTAAAAACA
38310163 TATAAACTTACTAAAAACA
1 TATAAACTTACTAAAAACA
38310182 T
1 T
38310183 CTAGAATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.32
Consensus pattern (19 bp):
TATAAACTTACTAAAAACA
Found at i:38321404 original size:28 final size:29
Alignment explanation
Indices: 38321373--38321432 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
38321363 TTGCAATGAA
* * *
38321373 TTAGGACATATTA-AAACTCACAATTAAT
1 TTAGAACAAATTAGAAACACACAATTAAT
**
38321401 TTAGAACAAATTAGAAACACTTAATTAAT
1 TTAGAACAAATTAGAAACACACAATTAAT
38321430 TTA
1 TTA
38321433 TGTCCAGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (29 bp):
TTAGAACAAATTAGAAACACACAATTAAT
Found at i:38327569 original size:28 final size:29
Alignment explanation
Indices: 38327500--38327569 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 29
38327490 CCACCAGAAT
* *
38327500 AAGGAAAGTCCGCCAAGGACCTTCTTAAG
1 AAGGAAAGTCCACCAAGGACCATCTTAAG
* *
38327529 AAGG-GAGTTCACCAAGGACCATCTT-AG
1 AAGGAAAGTCCACCAAGGACCATCTTAAG
**
38327556 GTGGAAAGTCCACC
1 AAGGAAAGTCCACC
38327570 GGGAATTTAC
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 4 0.12
28 24 0.75
29 4 0.12
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (29 bp):
AAGGAAAGTCCACCAAGGACCATCTTAAG
Found at i:38329958 original size:43 final size:43
Alignment explanation
Indices: 38329910--38329999 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
38329900 TCAAAAGTCC
38329910 ATGGTTAGCCAGGGCATGATCTAGTGGTGAACAAGTAAGCTTT
1 ATGGTTAGCCAGGGCATGATCTAGTGGTGAACAAGTAAGCTTT
*
38329953 ATGGTTAGCCATGGCATGATCTAGTGGTGAACAAGTAAGCTTT
1 ATGGTTAGCCAGGGCATGATCTAGTGGTGAACAAGTAAGCTTT
38329996 ATGG
1 ATGG
38330000 CATAAAAGGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (43 bp):
ATGGTTAGCCAGGGCATGATCTAGTGGTGAACAAGTAAGCTTT
Found at i:38332998 original size:15 final size:15
Alignment explanation
Indices: 38332974--38333005 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38332964 TATGCATGCA
*
38332974 AAATATAAAAGACAT
1 AAATACAAAAGACAT
38332989 AAATACAAAAGACAT
1 AAATACAAAAGACAT
38333004 AA
1 AA
38333006 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:38334904 original size:27 final size:26
Alignment explanation
Indices: 38334870--38334984 Score: 104
Period size: 27 Copynumber: 4.3 Consensus size: 26
38334860 TGAAAAGGTT
* **
38334870 GTAAAATTATCGAAATACCTTCGAAGG
1 GTAAAATTATCAAAATACCCCCGAA-G
* * *
38334897 GTAAAATTACCGAAATACCCTCGATAG
1 GTAAAATTATCAAAATACCCCCGA-AG
* *
38334924 ATAAAACTATCAAAATACCCCCGAAGG
1 GTAAAATTATCAAAATACCCCCGAA-G
* *
38334951 GAAAAATTATCAAAATACCTCCGTAAG
1 GTAAAATTATCAAAATACCCCCG-AAG
38334978 GTAAAAT
1 GTAAAAT
38334985 GACTGTTATA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 69 0.95
28 3 0.04
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (26 bp):
GTAAAATTATCAAAATACCCCCGAAG
Found at i:38337958 original size:22 final size:22
Alignment explanation
Indices: 38337930--38337972 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
38337920 TATGGGGAAT
* *
38337930 GGGAAATTAAAGGGAATCAACA
1 GGGAAATTAAAGAGAAACAACA
38337952 GGGAAATTAAAGAGAAACAAC
1 GGGAAATTAAAGAGAAACAAC
38337973 GCTACAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.26, T:0.12
Consensus pattern (22 bp):
GGGAAATTAAAGAGAAACAACA
Found at i:38349642 original size:23 final size:23
Alignment explanation
Indices: 38349575--38349681 Score: 125
Period size: 23 Copynumber: 4.9 Consensus size: 23
38349565 CCTAATCAGT
38349575 ATACGACACAT-AAGTGCCTGAA
1 ATACGACACATGAAGTGCCTGAA
*
38349597 AT--GACACATGATGTGCCTG--
1 ATACGACACATGAAGTGCCTGAA
* *
38349616 ATACGACACACGAGGTGCCTGAA
1 ATACGACACATGAAGTGCCTGAA
* *
38349639 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATGAAGTGCCTGAA
*
38349662 ATACGACACATAAAGTGCCT
1 ATACGACACATGAAGTGCCT
38349682 TTATGGTGAA
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
19 2 0.03
20 7 0.10
21 23 0.32
22 2 0.03
23 39 0.53
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (23 bp):
ATACGACACATGAAGTGCCTGAA
Found at i:38351915 original size:33 final size:33
Alignment explanation
Indices: 38351876--38351973 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
38351866 AAGAAAAATT
* *
38351876 CAGGAAAAAGAATCTTGAAGAAATTGAATCTGA
1 CAGGAAAAAAAAACTTGAAGAAATTGAATCTGA
* * * *
38351909 CGGGAAAAAAAAACTAGGAGAAATTGAAAT-GGA
1 CAGGAAAAAAAAACTTGAAGAAATTG-AATCTGA
* *
38351942 CATGAAAATAAAACCTTGAAGAAATTGAATCT
1 CAGGAAAA-AAAAACTTGAAGAAATTGAATCT
38351974 TACTTGGAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
33 32 0.64
34 18 0.36
ACGTcount: A:0.51, C:0.09, G:0.20, T:0.19
Consensus pattern (33 bp):
CAGGAAAAAAAAACTTGAAGAAATTGAATCTGA
Found at i:38352459 original size:21 final size:21
Alignment explanation
Indices: 38352418--38352459 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
38352408 ATAGATAATG
*
38352418 AAAAAATATATAAATTATTTT
1 AAAAAATATATAAAATATTTT
*
38352439 AAAAATTATAGTAAAAT-TTTT
1 AAAAAATATA-TAAAATATTTT
38352460 CTCTTGACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAAAATATATAAAATATTTT
Found at i:38354175 original size:2 final size:2
Alignment explanation
Indices: 38354168--38354192 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38354158 GTCATTGCTT
38354168 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
38354193 GTTTTTTATT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:38356745 original size:16 final size:16
Alignment explanation
Indices: 38356724--38356792 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
38356714 TTTGGTTCGC
38356724 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
38356740 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
38356756 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
38356773 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
38356789 TGTA
1 TGTA
38356793 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:38356770 original size:33 final size:32
Alignment explanation
Indices: 38356724--38356792 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
38356714 TTTGGTTCGC
38356724 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
38356756 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
38356789 TGTA
1 TGTA
38356793 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:38356857 original size:44 final size:45
Alignment explanation
Indices: 38356773--38356863 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
38356763 GGATTAGAGG
* * *
38356773 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
38356818 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
38356862 TG
1 TG
38356864 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:38357041 original size:15 final size:15
Alignment explanation
Indices: 38357008--38357058 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
38356998 TTAATCATAT
38357008 TTAAATATAATTATAA
1 TTAAATAT-ATTATAA
*
38357024 TTAAATATATTTTAA
1 TTAAATATATTATAA
38357039 TTAAA-ATA-TATAA
1 TTAAATATATTATAA
*
38357052 TTTAATA
1 TTAAATA
38357059 AAATTCTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 8 0.26
14 4 0.13
15 11 0.35
16 8 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATATATTATAA
Found at i:38357049 original size:18 final size:17
Alignment explanation
Indices: 38357012--38357062 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 17
38357002 TCATATTTAA
*
38357012 ATATAATTATAATTAAAT
1 ATATAATT-TAATAAAAT
38357030 ATAT--TTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38357046 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38357063 TCTTAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 3 0.10
16 11 0.38
17 6 0.21
18 9 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38357293 original size:14 final size:15
Alignment explanation
Indices: 38357244--38357295 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
38357234 ATAAAATATA
38357244 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
38357259 TATTAAATATATTAT
1 AATTAAATATATTAT
38357274 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
38357287 AATTTAATA
1 AATTAAATA
38357296 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:38357404 original size:16 final size:17
Alignment explanation
Indices: 38357379--38357419 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
38357369 AAATAATTAA
38357379 AATT-AAATATAT-TTT
1 AATTAAAATATATATTT
38357394 AATTAAAATATATGATTT
1 AATTAAAATATAT-ATTT
38357412 AA-TAAAAT
1 AATTAAAAT
38357420 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 6 0.26
18 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AATTAAAATATATATTT
Found at i:38357431 original size:120 final size:120
Alignment explanation
Indices: 38357014--38357420 Score: 678
Period size: 120 Copynumber: 3.4 Consensus size: 120
38357004 ATATTTAAAT
*
38357014 ATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
38357079 TCTTATATGAATTTACTCAAATCATAATATATAATACTATAAAATATAAATTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATAATACTATAAAATATAAATTAAC
38357134 ATAA-T-T-ATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
*
38357196 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATAATACTATAAAATATAAATTAAC
* *
38357251 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
* * * *
38357316 TTTTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTTAA-
66 TCTTATATGAATTTACTCAAATCATAATATATAATACTATAAAATATAA-ATTAAC
* * *
38357371 ATAATTAAAATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
38357421 TAAAATAATT
Statistics
Matches: 272, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
117 113 0.42
118 2 0.01
119 2 0.01
120 151 0.56
121 4 0.01
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
ATAATTATAATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
TCTTATATGAATTTACTCAAATCATAATATATAATACTATAAAATATAAATTAAC
Found at i:38364045 original size:12 final size:12
Alignment explanation
Indices: 38364020--38364058 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
38364010 ACTCGCTTCT
* *
38364020 TTACTTACTCAC
1 TTACTTGCTTAC
*
38364032 TTACTTGTTTAC
1 TTACTTGCTTAC
38364044 TTACTTGCTTAC
1 TTACTTGCTTAC
38364056 TTA
1 TTA
38364059 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:38364374 original size:50 final size:50
Alignment explanation
Indices: 38364307--38364497 Score: 177
Period size: 50 Copynumber: 3.8 Consensus size: 50
38364297 TTTTCTGTAC
* * **
38364307 TGCCAATGCCATATCCCATATATGGTCTTACATAGGAGTTCCCATATCGG
1 TGCCAATGCCATGTCCCAAATATGGTCTTACATAGGACCTCCCATATCGG
* *** * *
38364357 TGCCCATGCCATGTCCCAAATATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAATATGGTCTTACATAGGACCTCCCATATCGG
* * * ** *
38364407 TGCCTACGCCATGTCCCAAACATGGTCTTACAT-GAGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAAATATGGTCTTACATAG-GACCTCCCATATCGG
* * * * *
38364457 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGACCTC
1 TGCCAATGCCATGTCCCAAATATGGTCTTACATAGGACCTC
38364498 ATTCCCTTAA
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 1 0.01
50 118 0.98
51 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAATATGGTCTTACATAGGACCTCCCATATCGG
Found at i:38366496 original size:22 final size:22
Alignment explanation
Indices: 38366471--38366513 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
38366461 TAACAATTTA
*
38366471 GGTTAAACTTTAGGGCTCAATG
1 GGTTAAACTTTAAGGCTCAATG
*
38366493 GGTTCAACTTTAAGGCTCAAT
1 GGTTAAACTTTAAGGCTCAAT
38366514 TATCCATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (22 bp):
GGTTAAACTTTAAGGCTCAATG
Found at i:38372354 original size:12 final size:12
Alignment explanation
Indices: 38372333--38372362 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
38372323 TAAGTGAGTT
*
38372333 ACACGACCTAGC
1 ACACGGCCTAGC
38372345 ACACGGCCTAGC
1 ACACGGCCTAGC
38372357 ACACGG
1 ACACGG
38372363 GCGTGTGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:38375059 original size:37 final size:37
Alignment explanation
Indices: 38375018--38375093 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
38375008 AACATAAAAG
*
38375018 AAATTAAACAAATGAAAGGTAAGAAATAAAATAAGGA
1 AAATTAAACAAATGAAAAGTAAGAAATAAAATAAGGA
* *
38375055 AAATTAAATAAATGAAAAGTAAGAAATCAAATAAGGA
1 AAATTAAACAAATGAAAAGTAAGAAATAAAATAAGGA
38375092 AA
1 AA
38375094 TATGTATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.66, C:0.03, G:0.14, T:0.17
Consensus pattern (37 bp):
AAATTAAACAAATGAAAAGTAAGAAATAAAATAAGGA
Found at i:38377436 original size:25 final size:25
Alignment explanation
Indices: 38377397--38377491 Score: 111
Period size: 25 Copynumber: 3.8 Consensus size: 25
38377387 TCCTTTACAT
* *
38377397 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATTG
*
38377422 GTATGCTCACTCGAGCTGT-AGATTG
1 GTATGCTCACACGAGCTGTGA-ATTG
* * * *
38377447 GTATGTTCTCACGAGCTATAAATTG
1 GTATGCTCACACGAGCTGTGAATTG
38377472 GTATGCTCACACGAGCTGTG
1 GTATGCTCACACGAGCTGTG
38377492 GGTCGGAACG
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.02
25 55 0.96
26 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGAATTG
Found at i:38380201 original size:12 final size:11
Alignment explanation
Indices: 38380176--38380213 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
38380166 GAACAAGATG
38380176 AATTTTA-ATT
1 AATTTTATATT
38380186 AATTTTATAGTT
1 AATTTTATA-TT
38380198 AATTTT-TATT
1 AATTTTATATT
38380208 AATTTT
1 AATTTT
38380214 GACTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:38381615 original size:46 final size:46
Alignment explanation
Indices: 38381548--38381642 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
38381538 CCAGAGAAGG
38381548 ACCAAAGAGATAAACTTTGAGAATATGAATCAAGGAAACGGAGCAA
1 ACCAAAGAGATAAACTTTGAGAATATGAATCAAGGAAACGGAGCAA
*
38381594 ACCAAAGAGATAAACTTTGAGAATATGAATCAAGGACACGGAGCAA
1 ACCAAAGAGATAAACTTTGAGAATATGAATCAAGGAAACGGAGCAA
38381640 ACC
1 ACC
38381643 TTGCTCAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.48, C:0.16, G:0.21, T:0.15
Consensus pattern (46 bp):
ACCAAAGAGATAAACTTTGAGAATATGAATCAAGGAAACGGAGCAA
Found at i:38388153 original size:26 final size:26
Alignment explanation
Indices: 38388116--38388412 Score: 398
Period size: 26 Copynumber: 11.5 Consensus size: 26
38388106 CACGGTGTTG
38388116 ACCAAAATACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
*
38388142 ACCAAAAGACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
* *
38388168 ACCGAAATACCCTCAATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
38388194 ACCAAAATACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
**
38388220 AAAAAAATACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
*** *
38388246 ATTGAAATACCCTCGATAGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
*
38388272 ACCAAAATACCCTCGATAGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
*
38388298 ACTAAAATACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
**
38388324 ACTGAAATACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
***
38388350 ATTGAAATACCCTCGATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
***
38388376 ATTGAAATACCCT-GATGGGTAAATT
1 ACCAAAATACCCTCGATGGGTAAATT
**
38388401 ACTGAAATACCC
1 ACCAAAATACCC
38388413 CTAGATGGAA
Statistics
Matches: 251, Mismatches: 20, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
25 23 0.09
26 228 0.91
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (26 bp):
ACCAAAATACCCTCGATGGGTAAATT
Found at i:38388245 original size:78 final size:78
Alignment explanation
Indices: 38388116--38388412 Score: 461
Period size: 78 Copynumber: 3.8 Consensus size: 78
38388106 CACGGTGTTG
* * *
38388116 ACCAAAATACCCTCGATGGGTAAATTACCAAAAGACCCTCGATGGGTAAATTACCGAAATACCCT
1 ACCAAAATACCCTCGATGGGTAAATTACTAAAATACCCTCGATGGGTAAATTACTGAAATACCCT
*
38388181 CAATGGGTAAATT
66 CGATGGGTAAATT
** *
38388194 ACCAAAATACCCTCGATGGGTAAATTAAAAAAATACCCTCGATGGGTAAATTATTGAAATACCCT
1 ACCAAAATACCCTCGATGGGTAAATTACTAAAATACCCTCGATGGGTAAATTACTGAAATACCCT
*
38388259 CGATAGGTAAATT
66 CGATGGGTAAATT
*
38388272 ACCAAAATACCCTCGATAGGTAAATTACTAAAATACCCTCGATGGGTAAATTACTGAAATACCCT
1 ACCAAAATACCCTCGATGGGTAAATTACTAAAATACCCTCGATGGGTAAATTACTGAAATACCCT
38388337 CGATGGGTAAATT
66 CGATGGGTAAATT
*** * *
38388350 ATTGAAATACCCTCGATGGGTAAATTATTGAAATACCCT-GATGGGTAAATTACTGAAATACCC
1 ACCAAAATACCCTCGATGGGTAAATTACTAAAATACCCTCGATGGGTAAATTACTGAAATACCC
38388413 CTAGATGGAA
Statistics
Matches: 201, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
77 24 0.12
78 177 0.88
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (78 bp):
ACCAAAATACCCTCGATGGGTAAATTACTAAAATACCCTCGATGGGTAAATTACTGAAATACCCT
CGATGGGTAAATT
Found at i:38388634 original size:27 final size:27
Alignment explanation
Indices: 38388596--38388660 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
38388586 ATGGAGGAAG
* *
38388596 TACTGTTTCTGGTGGCTCTGCCACA-A
1 TACTGTTACTGGTGGCTATGCCACATA
38388622 TTACTGTTACTGGTGGCTATGCCACATA
1 -TACTGTTACTGGTGGCTATGCCACATA
38388650 TACTG-TACTGG
1 TACTGTTACTGG
38388661 CAGCTCGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 6 0.17
27 28 0.80
28 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTATGCCACATA
Found at i:38388882 original size:28 final size:28
Alignment explanation
Indices: 38388805--38388883 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
38388795 CATATTTGCA
* * *
38388805 CCATACTGATATTGTAACGTGCTTAGGC
1 CCATACTGATATTGTAAAGGGCTAAGGC
* * * **
38388833 CCATATTGTTATTATATTGGGCTAAGGC
1 CCATACTGATATTGTAAAGGGCTAAGGC
*
38388861 CCATACTGATATTGGAAAGGGCT
1 CCATACTGATATTGTAAAGGGCT
38388884 CGGACCCAGT
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (28 bp):
CCATACTGATATTGTAAAGGGCTAAGGC
Found at i:38389874 original size:1 final size:1
Alignment explanation
Indices: 38389864--38389980 Score: 54
Period size: 1 Copynumber: 117.0 Consensus size: 1
38389854 TGACCTCTCC
* * * * * * * * * ** *
38389864 TTTTTATTTTTCTTTTTCTTTTTCTTCTCTTTTTTTTTTCTTTTTTTCTATTTTGATTTTTTTTA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** * ** *
38389929 TTTTTTGATTTTTTGATTTTTTTTTATTTTTTTGATTTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
38389981 CTAGTCTGAA
Statistics
Matches: 80, Mismatches: 36, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 80 1.00
ACGTcount: A:0.08, C:0.06, G:0.03, T:0.83
Consensus pattern (1 bp):
T
Found at i:38389879 original size:6 final size:6
Alignment explanation
Indices: 38389863--38389908 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
38389853 TTGACCTCTC
* *
38389863 CTTTTT ATTTTT CTTTTT CTTTTT C-TTCT CTTTTT -TTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
38389909 TTCTATTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 9 0.26
6 25 0.74
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:38389880 original size:12 final size:11
Alignment explanation
Indices: 38389864--38389980 Score: 60
Period size: 11 Copynumber: 10.2 Consensus size: 11
38389854 TGACCTCTCC
*
38389864 TTTTTATTTTT
1 TTTTTCTTTTT
38389875 CTTTTTCTTTTT
1 -TTTTTCTTTTT
* *
38389887 CTTCTCTTTTT
1 TTTTTCTTTTT
38389898 TTTTTCTTTTT
1 TTTTTCTTTTT
38389909 TTCTATT-TTGATTT
1 TT-T-TTCTT--TTT
*
38389923 TTTTTATTTTT
1 TTTTTCTTTTT
*
38389934 TGATTTT-TTGATT
1 T--TTTTCTT-TTT
*
38389947 TTTTT-TTATT
1 TTTTTCTTTTT
**
38389957 TTTTTGATTTT
1 TTTTTCTTTTT
*
38389968 TTTTTATTTTT
1 TTTTTCTTTTT
38389979 TT
1 TT
38389981 CTAGTCTGAA
Statistics
Matches: 86, Mismatches: 10, Indels: 19
0.75 0.09 0.17
Matches are distributed among these distances:
10 8 0.09
11 44 0.51
12 17 0.20
13 12 0.14
14 5 0.06
ACGTcount: A:0.08, C:0.06, G:0.03, T:0.83
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:38389896 original size:22 final size:21
Alignment explanation
Indices: 38389871--38389917 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
38389861 TCCTTTTTAT
*
38389871 TTTTCTTTTTCTTTTTCTTCTC
1 TTTTCTTTTTCTTTTT-TTCTA
*
38389893 TTTTTTTTTTCTTTTTTTCTA
1 TTTTCTTTTTCTTTTTTTCTA
38389914 TTTT
1 TTTT
38389918 GATTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTCTTTTTCTTTTTTTCTA
Found at i:38389935 original size:17 final size:17
Alignment explanation
Indices: 38389904--38389969 Score: 71
Period size: 17 Copynumber: 3.8 Consensus size: 17
38389894 TTTTTTTTTC
* *
38389904 TTTTTTTCTATTTTGAT
1 TTTTTTTATTTTTTGAT
38389921 TTTTTTTATTTTTTGAT
1 TTTTTTTATTTTTTGAT
*
38389938 TTTTTGATT-TTTTTTTAT
1 TTTTT--TTATTTTTTGAT
*
38389956 TTTTTTGATTTTTT
1 TTTTTTTATTTTTT
38389970 TTTATTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
16 1 0.02
17 26 0.62
18 13 0.31
19 2 0.05
ACGTcount: A:0.11, C:0.02, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTTTTATTTTTTGAT
Found at i:38389979 original size:18 final size:18
Alignment explanation
Indices: 38389929--38389979 Score: 84
Period size: 19 Copynumber: 2.8 Consensus size: 18
38389919 ATTTTTTTTA
*
38389929 TTTTTTGATTTTTTGATT
1 TTTTTTTATTTTTTGATT
38389947 TTTTTTTATTTTTTTGATT
1 TTTTTTTA-TTTTTTGATT
38389966 TTTTTTTATTTTTT
1 TTTTTTTATTTTTT
38389980 TCTAGTCTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 13 0.42
19 18 0.58
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (18 bp):
TTTTTTTATTTTTTGATT
Found at i:38389979 original size:19 final size:19
Alignment explanation
Indices: 38389937--38389980 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
38389927 TATTTTTTGA
38389937 TTTTTTGATTTTTTTTTAT
1 TTTTTTGATTTTTTTTTAT
38389956 TTTTTTGATTTTTTTTTAT
1 TTTTTTGATTTTTTTTTAT
38389975 TTTTTT
1 TTTTTT
38389981 CTAGTCTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.05, T:0.86
Consensus pattern (19 bp):
TTTTTTGATTTTTTTTTAT
Found at i:38389980 original size:27 final size:26
Alignment explanation
Indices: 38389894--38389969 Score: 100
Period size: 25 Copynumber: 2.9 Consensus size: 26
38389884 TTTCTTCTCT
* ** *
38389894 TTTTTTTTTCTTTTTTTCTATTTTGA
1 TTTTTTTTTATTTTTTGATTTTTTGA
38389920 -TTTTTTTTATTTTTTGATTTTTTGA
1 TTTTTTTTTATTTTTTGATTTTTTGA
38389945 TTTTTTTTTATTTTTTTGATTTTTT
1 TTTTTTTTTA-TTTTTTGATTTTTT
38389970 TTTATTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 21 0.48
26 9 0.20
27 14 0.32
ACGTcount: A:0.09, C:0.03, G:0.05, T:0.83
Consensus pattern (26 bp):
TTTTTTTTTATTTTTTGATTTTTTGA
Found at i:38390717 original size:17 final size:18
Alignment explanation
Indices: 38390685--38390721 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
38390675 TCTGCACAGT
38390685 ATGATTATGAATGAAAGA
1 ATGATTATGAATGAAAGA
*
38390703 ATGATT-TGGATGAAAGA
1 ATGATTATGAATGAAAGA
38390720 AT
1 AT
38390722 AAACGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (18 bp):
ATGATTATGAATGAAAGA
Found at i:38393633 original size:16 final size:16
Alignment explanation
Indices: 38393612--38393642 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38393602 TTTGGTTCGC
38393612 TGTAATGGAAGAGAGG
1 TGTAATGGAAGAGAGG
*
38393628 TGTAATGGAATAGAG
1 TGTAATGGAAGAGAG
38393643 CTATAATAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.23
Consensus pattern (16 bp):
TGTAATGGAAGAGAGG
Found at i:38393919 original size:17 final size:18
Alignment explanation
Indices: 38393876--38393911 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
38393866 CATAATTATT
38393876 ATATATAATTTAATAAAA
1 ATATATAATTTAATAAAA
38393894 ATATATAATTTAATAAAA
1 ATATATAATTTAATAAAA
38393912 TTTTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATATAATTTAATAAAA
Found at i:38393955 original size:53 final size:55
Alignment explanation
Indices: 38393830--38393964 Score: 129
Period size: 55 Copynumber: 2.5 Consensus size: 55
38393820 AATAAGATTA
** *
38393830 TTAATAAAAATA-ATAA-ATATTTTAATCATATTTTAACATAATTATTATATATAAT
1 TTAATAAAAATACATAATATATAATAA-AAT-TTTTAACATAATTATTATATATAAT
* * *
38393885 TTAATAAAAATATATAAT-T-TAATAAAATTTTTAATATAATTATTCTTATATGAAT
1 TTAATAAAAATACATAATATATAATAAAATTTTTAACATAATTATT-ATATAT-AAT
*
38393940 TTACT-AAAAT-CATAATATATAATAA
1 TTAATAAAAATACATAATATATAATAA
38393965 TATAAAAATA
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
53 20 0.30
54 13 0.19
55 29 0.43
56 5 0.07
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (55 bp):
TTAATAAAAATACATAATATATAATAAAATTTTTAACATAATTATTATATATAAT
Found at i:38394221 original size:22 final size:22
Alignment explanation
Indices: 38394193--38394257 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
38394183 TAAAATATTT
38394193 TTTATATGTCATTAATAATTAA
1 TTTATATGTCATTAATAATTAA
38394215 TTTATATGTCATTAATAATTAA
1 TTTATATGTCATTAATAATTAA
38394237 TTTATATGTCATTAATAATTA
1 TTTATATGTCATTAATAATTA
38394258 TTTTTTATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (22 bp):
TTTATATGTCATTAATAATTAA
Found at i:38394489 original size:26 final size:26
Alignment explanation
Indices: 38394460--38394542 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
38394450 AATCAAACAA
38394460 TTTAAGTAATATAAAATAAAATATTG
1 TTTAAGTAATATAAAATAAAATATTG
* * ** * *
38394486 TTTAATTATAATTTTTAATCAAATA--A
1 TTTAA--GTAATATAAAATAAAATATTG
* *
38394512 TTTAAGTAATATAATATAAAACATTG
1 TTTAAGTAATATAAAATAAAATATTG
38394538 TTTAA
1 TTTAA
38394543 TTATGATTTT
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
24 11 0.28
26 15 0.38
28 13 0.33
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.43
Consensus pattern (26 bp):
TTTAAGTAATATAAAATAAAATATTG
Found at i:38394501 original size:52 final size:52
Alignment explanation
Indices: 38394388--38394579 Score: 295
Period size: 52 Copynumber: 3.8 Consensus size: 52
38394378 TTTTGTAGTG
*
38394388 TTAATTATAATTTTTAATCAAACAA--T-A-TAA-ATAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATTTAAGTAATATAAAATAAAACATTGT
* *
38394435 TTAATTCTAATTTTTAATCAAACAATTTAAGTAATATAAAATAAAATATTGT
1 TTAATTATAATTTTTAATCAAACAATTTAAGTAATATAAAATAAAACATTGT
* *
38394487 TTAATTATAATTTTTAATCAAATAATTTAAGTAATATAATATAAAACATTGT
1 TTAATTATAATTTTTAATCAAACAATTTAAGTAATATAAAATAAAACATTGT
*
38394539 TTAATTATGATTTTTAATCAAACAATTTAAGTAATATAAAA
1 TTAATTATAATTTTTAATCAAACAATTTAAGTAATATAAAA
38394580 CATTGTTTGA
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
47 24 0.18
49 1 0.01
50 1 0.01
51 3 0.02
52 101 0.78
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (52 bp):
TTAATTATAATTTTTAATCAAACAATTTAAGTAATATAAAATAAAACATTGT
Found at i:38406841 original size:89 final size:89
Alignment explanation
Indices: 38406678--38407112 Score: 512
Period size: 89 Copynumber: 4.9 Consensus size: 89
38406668 AATAGATTAA
* * *
38406678 AGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAATACACCAACCTCATCT
1 AGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACCT
* * * *
38406743 CCTTGAGTTTGCAGTGGAGTAGAC
66 CCCTAAGTTTGCAGCGGAGCAGAC
* * * * * * * ** *
38406767 AGAAGATAACATATCTTGCCTTCCTATGTCGGTAGCGAAGCAGATCGAAGGCACCAGCCTGACCT
1 AGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACCT
*
38406832 CCCTAAGTTTGCAGCGAAGCAGAC
66 CCCTAAGTTTGCAGCGGAGCAGAC
* * * *
38406856 TA-AAGATAGGACATCTTGTCTTCCTATACTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACC
1 -AGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACC
* *
38406920 TCTCTAAGTTTACAGCGGAGCAGAC
65 TCCCTAAGTTTGCAGCGGAGCAGAC
* * *
38406945 TGAATATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACCAGCCTCGCCT
1 AGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACCT
* * *
38407010 TCCTGAGTTTGCAACGGAGCAGAC
66 CCCTAAGTTTGCAGCGGAGCAGAC
* * * * * *
38407034 TGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGTGAAGCAGATTGAAAACACCAGTCTTACCT
1 AGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACCT
**
38407099 TTCTAAGTTTGCAG
66 CCCTAAGTTTGCAG
38407113 TAGAGTAGGT
Statistics
Matches: 291, Mismatches: 53, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
89 290 1.00
90 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (89 bp):
AGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACACCAGCCTCACCT
CCCTAAGTTTGCAGCGGAGCAGAC
Found at i:38407031 original size:44 final size:44
Alignment explanation
Indices: 38406887--38407032 Score: 118
Period size: 44 Copynumber: 3.3 Consensus size: 44
38406877 TCCTATACTG
* * *
38406887 GCAGCGAAGCAGATCGAAAACACCAGCCTCACC-TCTCTAAGTTT
1 GCAGCGGAGCAGATCGAAAACACCAGCCTCGCCTTC-CTGAGTTT
* * * * * * * *
38406931 ACAGCGGAGCAGA-CTGAATATAGCAGATCTTGTCTTCCTGTA-TTG
1 GCAGCGGAGCAGATC-GAAAACACCAG-CCTCGCCTTCCTG-AGTTT
*
38406976 GCAGCGAAGCAGATCGAAAACACCAGCCTCGCCTTCCTGAGTTT
1 GCAGCGGAGCAGATCGAAAACACCAGCCTCGCCTTCCTGAGTTT
*
38407020 GCAACGGAGCAGA
1 GCAGCGGAGCAGA
38407033 CTGAAGATAA
Statistics
Matches: 74, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
43 2 0.03
44 42 0.57
45 26 0.35
46 4 0.05
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.20
Consensus pattern (44 bp):
GCAGCGGAGCAGATCGAAAACACCAGCCTCGCCTTCCTGAGTTT
Found at i:38407058 original size:45 final size:46
Alignment explanation
Indices: 38406926--38407084 Score: 130
Period size: 45 Copynumber: 3.5 Consensus size: 46
38406916 CACCTCTCTA
* * *
38406926 AGTTTACAGCGGAGCAGACTGAATATAGCAGATCTTGTCTTCCTGT
1 AGTTTGCAGCGGAGCAGACTGAAAATAACAGATCTTGTCTTCCTGT
* * * * * * *
38406972 A-TTGGCAGCGAAGCAGA-TCGAAAACACCAG-CCTCGCCTTCCTG-
1 AGTTTGCAGCGGAGCAGACT-GAAAATAACAGATCTTGTCTTCCTGT
* *
38407015 AGTTTGCAACGGAGCAGACTGAAGATAACAGATCTTGTCTTCCTGT
1 AGTTTGCAGCGGAGCAGACTGAAAATAACAGATCTTGTCTTCCTGT
* * * *
38407061 A-TTGGCAGTGAAGCAGATTGAAAA
1 AGTTTGCAGCGGAGCAGACTGAAAA
38407085 CACCAGTCTT
Statistics
Matches: 84, Mismatches: 24, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
43 1 0.01
44 32 0.38
45 49 0.58
46 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (46 bp):
AGTTTGCAGCGGAGCAGACTGAAAATAACAGATCTTGTCTTCCTGT
Found at i:38412148 original size:21 final size:21
Alignment explanation
Indices: 38412124--38412171 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
38412114 CGACTGTGGC
* *
38412124 GGAGGACTAGCAGCTGGGGGT
1 GGAGGACTAACAGCTGAGGGT
*
38412145 GGAGGACTAACAGGTGAGGGT
1 GGAGGACTAACAGCTGAGGGT
38412166 GGAGGA
1 GGAGGA
38412172 GACAAGGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.10, G:0.52, T:0.12
Consensus pattern (21 bp):
GGAGGACTAACAGCTGAGGGT
Found at i:38413582 original size:9 final size:9
Alignment explanation
Indices: 38413565--38413603 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
38413555 ATTAGTCTTG
38413565 ATTTTAAAA
1 ATTTTAAAA
*
38413574 ATTTAAAAA
1 ATTTTAAAA
38413583 ATTATTAAAA
1 ATT-TTAAAA
38413593 ATTTTATAAA
1 ATTTTA-AAA
38413603 A
1 A
38413604 AATATATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:38413620 original size:21 final size:20
Alignment explanation
Indices: 38413568--38413628 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 20
38413558 AGTCTTGATT
38413568 TTAAAAATT-TAAAAAATTA
1 TTAAAAATTATAAAAAATTA
38413587 TTAAAAATTTTATAAAAAA-TA
1 TTAAAAA--TTATAAAAAATTA
38413608 TATACAAAATTATAAATAAAT
1 T-TA-AAAATTATAAA-AAAT
38413629 GAATATCTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
19 7 0.20
21 12 0.34
22 12 0.34
23 4 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TTAAAAATTATAAAAAATTA
Found at i:38413628 original size:11 final size:10
Alignment explanation
Indices: 38413570--38413628 Score: 57
Period size: 11 Copynumber: 5.6 Consensus size: 10
38413560 TCTTGATTTT
38413570 AAAAATT-TA
1 AAAAATTATA
38413579 AAAAATTATTA
1 AAAAATTA-TA
*
38413590 AAAATTTTATA
1 AAAA-ATTATA
38413601 AAAAATATATA
1 AAAAAT-TATA
*
38413612 CAAAATTATA
1 AAAAATTATA
38413622 AATAAAT
1 AA-AAAT
38413629 GAATATCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 7 0.17
10 6 0.15
11 25 0.61
12 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAAATTATA
Found at i:38414093 original size:16 final size:16
Alignment explanation
Indices: 38414069--38414134 Score: 87
Period size: 16 Copynumber: 4.1 Consensus size: 16
38414059 ACGTTTGGTT
38414069 AGCTGTAATGGAATAG
1 AGCTGTAATGGAATAG
* *
38414085 AGCTATAATGAAATAG
1 AGCTGTAATGGAATAG
* *
38414101 AGATGTAATGTAATAG
1 AGCTGTAATGGAATAG
*
38414117 AACTGTAATGGAATAG
1 AGCTGTAATGGAATAG
38414133 AG
1 AG
38414135 GCGTAATAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.26
Consensus pattern (16 bp):
AGCTGTAATGGAATAG
Found at i:38414141 original size:32 final size:32
Alignment explanation
Indices: 38414073--38414147 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
38414063 TTGGTTAGCT
* * *
38414073 GTAATGGAATAGAGCTATAATGAAATAGAGAT
1 GTAATGTAATAGAACTATAATGAAATAGAGAC
* * *
38414105 GTAATGTAATAGAACTGTAATGGAATAGAGGC
1 GTAATGTAATAGAACTATAATGAAATAGAGAC
38414137 GTAATAGTAAT
1 GTAAT-GTAAT
38414148 TCAATTGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 31 0.86
33 5 0.14
ACGTcount: A:0.44, C:0.04, G:0.25, T:0.27
Consensus pattern (32 bp):
GTAATGTAATAGAACTATAATGAAATAGAGAC
Found at i:38414398 original size:18 final size:18
Alignment explanation
Indices: 38414375--38414410 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
38414365 AATTATTATT
38414375 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
38414393 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
38414411 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAATTTAATAAAA
Found at i:38424358 original size:20 final size:20
Alignment explanation
Indices: 38424325--38424368 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
38424315 GTATTTAACC
*
38424325 ATTT-AATTTTTTTATTTAT
1 ATTTAAATTTATTTATTTAT
38424344 ATTTAAATTTATTTATTTAT
1 ATTTAAATTTATTTATTTAT
38424364 -TTTAA
1 ATTTAA
38424369 TTTCACACGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTAAATTTATTTATTTAT
Found at i:38424371 original size:24 final size:25
Alignment explanation
Indices: 38424316--38424365 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
38424306 AAATAAGAAG
*
38424316 TATTTAACCATTTAATTTTTTTATTTA
1 TATTTAA--ATTTAATTTATTTATTTA
38424343 TATTTAAATTT-ATTTATTTATTT
1 TATTTAAATTTAATTTATTTATTT
38424366 TAATTTCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
27 7 0.32
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (25 bp):
TATTTAAATTTAATTTATTTATTTA
Found at i:38425166 original size:32 final size:31
Alignment explanation
Indices: 38425086--38425169 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
38425076 TCATTAAGCC
*
38425086 TTTAAAAGTTTTAATTAAACCTACCAAAATT
1 TTTAAAAATTTTAATTAAACCTACCAAAATT
* * *
38425117 TTTAAATATTCTCATTAAATCCT-CCAAAATTT
1 TTTAAAAATTTTAATTAAA-CCTACCAAAA-TT
38425149 TTTAAAAATTTTAATTAAACC
1 TTTAAAAATTTTAATTAAACC
38425170 CTAAACTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 23 0.52
32 21 0.48
ACGTcount: A:0.43, C:0.14, G:0.01, T:0.42
Consensus pattern (31 bp):
TTTAAAAATTTTAATTAAACCTACCAAAATT
Found at i:38432328 original size:21 final size:21
Alignment explanation
Indices: 38432302--38432361 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
38432292 TTCTCTAACC
38432302 ATGGTCAAAATTATTTTGAAA
1 ATGGTCAAAATTATTTTGAAA
** *
38432323 ATGGTCAAAATTATAATGGAA
1 ATGGTCAAAATTATTTTGAAA
* *
38432344 GTGGTCAGAATTATTTTG
1 ATGGTCAAAATTATTTTG
38432362 CTGGTCAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (21 bp):
ATGGTCAAAATTATTTTGAAA
Found at i:38436946 original size:43 final size:43
Alignment explanation
Indices: 38436898--38436998 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
38436888 GCGGTTTTAA
* *
38436898 ATGTTCTTTAGCGGCACTTTTACTAATAA-CGCTGCTAAAGGTC
1 ATGTTCTTTAGCGGCACTTTTACTAA-AAGCGCCGCTAAAAGTC
* *** *
38436941 ATGTTCTTTAACGGTGTTTTTAGTAAAAGCGCCGCTAAAAGTC
1 ATGTTCTTTAGCGGCACTTTTACTAAAAGCGCCGCTAAAAGTC
38436984 ATGTTCTTTAGCGGC
1 ATGTTCTTTAGCGGC
38436999 GTTTGTGGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
42 2 0.04
43 46 0.96
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (43 bp):
ATGTTCTTTAGCGGCACTTTTACTAAAAGCGCCGCTAAAAGTC
Found at i:38437012 original size:43 final size:43
Alignment explanation
Indices: 38436931--38437013 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
38436921 TAATAACGCT
* * * *
38436931 GCTAAAGGTCATGTTCTTTAACGGTGTTTTTAGTAAAAGCGCC
1 GCTAAAAGTCATGTTCTTTAACGGCGTTTGTAGAAAAAGCGCC
* *
38436974 GCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGAAAAAGC
1 GCTAAAAGTCATGTTCTTTAACGGCGTTTGTAGAAAAAGC
38437014 ACCACTAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
GCTAAAAGTCATGTTCTTTAACGGCGTTTGTAGAAAAAGCGCC
Found at i:38441694 original size:25 final size:25
Alignment explanation
Indices: 38441661--38441709 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
38441651 AAGGGAATGA
* *
38441661 AGAATAATGAAAGGGAAATGAAGAG
1 AGAAAAATGAAAGAGAAATGAAGAG
* *
38441686 AGAAAAATGAGAGAGAAGTGAAGA
1 AGAAAAATGAAAGAGAAATGAAGA
38441710 AATGAATGGG
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:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (25 bp):
AGAAAAATGAAAGAGAAATGAAGAG
Found at i:38442988 original size:11 final size:10
Alignment explanation
Indices: 38442970--38443003 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
38442960 TTGAGACAAT
38442970 TTAAAAATAA
1 TTAAAAATAA
38442980 TTAAGAAATAA
1 TTAA-AAATAA
38442991 TTTAAAAATAA
1 -TTAAAAATAA
38443002 TT
1 TT
38443004 GCAAGGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 6 0.27
11 12 0.55
12 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (10 bp):
TTAAAAATAA
Found at i:38444121 original size:52 final size:52
Alignment explanation
Indices: 38444059--38444161 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
38444049 GGTTCAGTTA
*
38444059 CTGGTTACATTGGTTCTACCTTATCAGGGACTTCAGTTGACTGCATTGGTTC
1 CTGGTTACATTGGTTCTACCTTATCAGGGACTTCAGTTGACTACATTGGTTC
*
38444111 CTGGTTACATTGGTTCTGCCTTATCAGGGACTTCAGTTGACTACATTGGTT
1 CTGGTTACATTGGTTCTACCTTATCAGGGACTTCAGTTGACTACATTGGTT
38444162 TGATCTTTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.39
Consensus pattern (52 bp):
CTGGTTACATTGGTTCTACCTTATCAGGGACTTCAGTTGACTACATTGGTTC
Found at i:38445135 original size:25 final size:24
Alignment explanation
Indices: 38445081--38445136 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
38445071 TTAATTAGTA
* *
38445081 TAAAATATTAATAATTCAATAATT
1 TAAAATATTAATAATTAAATAAAT
38445105 TGAAAA-ATTAAATAATTAAATAAAAT
1 T-AAAATATT-AATAATTAAAT-AAAT
38445131 TAAAAT
1 TAAAAT
38445137 TTTAGGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAATATTAATAATTAAATAAAT
Found at i:38445860 original size:16 final size:17
Alignment explanation
Indices: 38445841--38445882 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
38445831 TATTTTGTAC
38445841 TTAAATTATTAA-AATT
1 TTAAATTATTAATAATT
38445857 TTAAATT-TTAATTAATT
1 TTAAATTATTAA-TAATT
38445874 TTATAATTA
1 TTA-AATTA
38445883 ATTTAGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.18
16 7 0.32
17 7 0.32
18 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAAATTATTAATAATT
Found at i:38453311 original size:29 final size:31
Alignment explanation
Indices: 38453251--38453308 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 31
38453241 AAATTTGTTG
*
38453251 TTAGTTTATGTATATTAATAAAATTTGAAAT
1 TTAGTTTATGTATATTAATAAAATTTAAAAT
*
38453282 TTAGTTT-T-TATATTTA-AAAATTTAAAA
1 TTAGTTTATGTATATTAATAAAATTTAAAA
38453309 ATTAAGTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 7 0.28
30 1 0.04
31 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (31 bp):
TTAGTTTATGTATATTAATAAAATTTAAAAT
Found at i:38466016 original size:37 final size:37
Alignment explanation
Indices: 38465915--38466026 Score: 93
Period size: 37 Copynumber: 3.1 Consensus size: 37
38465905 AGTACTCAAG
* ** * *
38465915 TAATCCACCCG-AAACACGCCAAACACT-CATAAGAGT
1 TAATCCAACCGAAAACACGCCAAATGCTCCA-AAAAGC
* * *
38465951 TAATCCAACCGAAAACTCGCTAAGTGCTCCAAAAAGC
1 TAATCCAACCGAAAACACGCCAAATGCTCCAAAAAGC
* * * *
38465988 TAATCCAACTGATAACACGCCAAATGCTCCGAAGAGC
1 TAATCCAACCGAAAACACGCCAAATGCTCCAAAAAGC
38466025 TA
1 TA
38466027 TACATCCGCC
Statistics
Matches: 59, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
36 10 0.17
37 47 0.80
38 2 0.03
ACGTcount: A:0.40, C:0.30, G:0.13, T:0.16
Consensus pattern (37 bp):
TAATCCAACCGAAAACACGCCAAATGCTCCAAAAAGC
Found at i:38469068 original size:35 final size:35
Alignment explanation
Indices: 38469022--38469092 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
38469012 ATTTATGTCG
38469022 TCCTATTTTTAGGATTGCATGCAAATCCACTCAAT
1 TCCTATTTTTAGGATTGCATGCAAATCCACTCAAT
38469057 TCCTATTTTTAGGATTGCATGCAAATCCACTCAAT
1 TCCTATTTTTAGGATTGCATGCAAATCCACTCAAT
38469092 T
1 T
38469093 ACGCAAGATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (35 bp):
TCCTATTTTTAGGATTGCATGCAAATCCACTCAAT
Found at i:38470115 original size:46 final size:46
Alignment explanation
Indices: 38470048--38470141 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
38470038 CAAAATGTGT
* *
38470048 TTTTTTTAATGGCGCCTATCTGAGAGGCGCCAATAAATATTTTATA
1 TTTTTTTAATGGCGCCTATCTGACAAGCGCCAATAAATATTTTATA
* * *
38470094 TTTTTTTAATGGCGCCTATCTGACAAGTGCTAATCAATATTTTATA
1 TTTTTTTAATGGCGCCTATCTGACAAGCGCCAATAAATATTTTATA
38470140 TT
1 TT
38470142 AAAATTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (46 bp):
TTTTTTTAATGGCGCCTATCTGACAAGCGCCAATAAATATTTTATA
Found at i:38471131 original size:60 final size:60
Alignment explanation
Indices: 38471047--38471165 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
38471037 ATACTAAACT
* * *
38471047 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
* *
38471107 AAACCCAAAAATTTATAACATAATCCTAAATTACTAGCAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
38471166 TAAAAAGCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Done.