Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 113 of 173
Found at i:35136725 original size:19 final size:20
Alignment explanation
Indices: 35136701--35136744 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
35136691 TAAACTTGTT
*
35136701 AAATTTTTATATTTA-GGTC
1 AAATTTTTATATTTATAGTC
35136720 AAATTTTTATATTTATAGTC
1 AAATTTTTATATTTATAGTC
35136740 AAATT
1 AAATT
35136745 AATAGAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (20 bp):
AAATTTTTATATTTATAGTC
Found at i:35139590 original size:18 final size:19
Alignment explanation
Indices: 35139569--35139609 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
35139559 ATTTTCAAAG
35139569 AAAAT-AAAAT-TATTTTCT
1 AAAATAAAAATATATTTT-T
35139587 AAAATAAAAATATATTTTT
1 AAAATAAAAATATATTTTT
35139606 AAAA
1 AAAA
35139610 AATATGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 10 0.48
20 6 0.29
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATAAAAATATATTTTT
Found at i:35146544 original size:69 final size:69
Alignment explanation
Indices: 35146342--35146734 Score: 418
Period size: 69 Copynumber: 5.7 Consensus size: 69
35146332 AACATTTATA
* * * * *
35146342 TCATCTTAAGGCT-TTCAGGATAAAAACTGTAACCTCTAACACAGTTAGCGAAAGCAAAGCTCCC
1 TCATCTTAAGGCTCGT-AGGATAAAAACTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCC
35146406 AACTG
65 AACTG
* * * *
35146411 TCATATTAAGGCTCGCAGGATAAAAAACTGCAGCCTCCAACACAGTTAGCAAAAGCAAAGCTCCC
1 TCATCTTAAGGCTCGTAGGAT-AAAAACTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCC
35146476 AACTG
65 AACTG
** *
35146481 TCATCTTAAGGCTCGTAGGATAAAAACCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCTCCCA
1 TCATCTTAAGGCTCGTAGGATAAAAACTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCA
*
35146546 ACTA
66 ACTG
* * * * **
35146550 TCATATTAAGGCTCGTAGGATAAAAACTACAGCTTCCAACACAATTAATGAGAGCAAAGCTCCCA
1 TCATCTTAAGGCTCGTAGGATAAAAACTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCA
35146615 ACTG
66 ACTG
* * * * * * *
35146619 TCATAC-TAAGGCTCAG-AGGACAAGATC-GCCGCCTCCAACATAGTTAGCAAGAGCAAATCTCC
1 TCAT-CTTAAGGCTC-GTAGGATAAAAACTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
* *
35146681 TACCTG
64 CAACTG
* * * *
35146687 TCATAC-TAAGGCTTGTAGGATAAATACTGCATCCTCCAACATAGTTAG
1 TCAT-CTTAAGGCTCGTAGGATAAAAACTGCAGCCTCCAACACAGTTAG
35146735 TAAAAGTTGA
Statistics
Matches: 273, Mismatches: 45, Indels: 12
0.83 0.14 0.04
Matches are distributed among these distances:
67 1 0.00
68 50 0.18
69 158 0.58
70 64 0.23
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (69 bp):
TCATCTTAAGGCTCGTAGGATAAAAACTGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCCA
ACTG
Found at i:35146707 original size:137 final size:138
Alignment explanation
Indices: 35146374--35146727 Score: 421
Period size: 137 Copynumber: 2.6 Consensus size: 138
35146364 AAAACTGTAA
* * *
35146374 CCTCTAACACAGTTAGCGAA-AGCAAAGCTCCCAACTGTCATATTAAGGCTCGCAGGATAAAAAA
1 CCTCCAACATAGTTAGC-AAGAGCAAAGCTCCCAACTGTCATATTAAGGCTCGTAGGAT-AAAAA
* * * *
35146438 CTGCAGCCTCCAACACAGTTAGCAAAAGCAAAGCTCCCAACTGTCATCTTAAGGCTCGTAGGATA
64 CTACAGCCTCCAACACAATTAACAAAAGCAAAGCTCCCAACTGTCATCTTAAGGCTCGTAGGACA
35146503 AAAACCACAG
129 AAAACCACAG
* *
35146513 CCTCCAACATAGTTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGCTCGTAGGATAAAAACT
1 CCTCCAACATAGTTAGCAAGAGCAAAGCTCCCAACTGTCATATTAAGGCTCGTAGGATAAAAACT
* ** *
35146578 ACAGCTTCCAACACAATTAATGAGAGCAAAGCTCCCAACTGTCATAC-TAAGGCTCAG-AGGACA
66 ACAGCCTCCAACACAATTAACAAAAGCAAAGCTCCCAACTGTCAT-CTTAAGGCTC-GTAGGACA
* *
35146641 AGATCGC-C-G
129 AAAAC-CACAG
* * * * * *
35146650 CCTCCAACATAGTTAGCAAGAGCAAATCTCCTACCTGTCATACTAAGGCTTGTAGGATAAATACT
1 CCTCCAACATAGTTAGCAAGAGCAAAGCTCCCAACTGTCATATTAAGGCTCGTAGGATAAAAACT
* *
35146715 GCATCCTCCAACA
66 ACAGCCTCCAACA
35146728 TAGTTAGTAA
Statistics
Matches: 185, Mismatches: 26, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
137 68 0.37
138 63 0.34
139 54 0.29
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (138 bp):
CCTCCAACATAGTTAGCAAGAGCAAAGCTCCCAACTGTCATATTAAGGCTCGTAGGATAAAAACT
ACAGCCTCCAACACAATTAACAAAAGCAAAGCTCCCAACTGTCATCTTAAGGCTCGTAGGACAAA
AACCACAG
Found at i:35146879 original size:58 final size:58
Alignment explanation
Indices: 35146759--35146904 Score: 168
Period size: 58 Copynumber: 2.5 Consensus size: 58
35146749 TCCTAATTAT
* * * * *
35146759 GTTATCTTTCAAAATTTTCTTAAGTATAAAATAGCTCGTAGATTCATATCCCCAGCTA
1 GTTATCTTTCAAAATTTTCTTAAGTATAAAACAACTCGTAGATCCACATCCCCAACTA
* * * * * * *
35146817 GTTATCTTCCAAAATTTTCTTAAGTCTGAAACAACTCGTGGATCCACATCCTCAATTG
1 GTTATCTTTCAAAATTTTCTTAAGTATAAAACAACTCGTAGATCCACATCCCCAACTA
*
35146875 GTTATCTTTC-AAATTTTTTTAAGTATAAAA
1 GTTATCTTTCAAAATTTTCTTAAGTATAAAA
35146905 TTACTCGCAG
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
57 17 0.24
58 55 0.76
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (58 bp):
GTTATCTTTCAAAATTTTCTTAAGTATAAAACAACTCGTAGATCCACATCCCCAACTA
Found at i:35150964 original size:104 final size:104
Alignment explanation
Indices: 35150729--35151097 Score: 584
Period size: 101 Copynumber: 3.6 Consensus size: 104
35150719 TTGTATATAA
** *
35150729 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TATTCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATA-TCCACCATATCT
*
35150793 TTGAAATGTGAAAAGGGGGTTGCTATGTGTTGATTCCCCCG
65 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
35150834 AGGGATTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
35150899 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* ***
35150938 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATAT-CATTGTATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
35151002 TGAAA--TGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
35151039 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
35151098 ATAACGGTTA
Statistics
Matches: 246, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
101 82 0.33
102 2 0.01
103 13 0.05
104 81 0.33
105 66 0.27
106 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:35153576 original size:22 final size:22
Alignment explanation
Indices: 35153541--35153582 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
35153531 CCCACTGCCT
* *
35153541 CTAGTATTGGCATTCTCTGTCC
1 CTAGTACTGACATTCTCTGTCC
35153563 CTAGTACTGACATTCTCTGT
1 CTAGTACTGACATTCTCTGT
35153583 GAACTCCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (22 bp):
CTAGTACTGACATTCTCTGTCC
Found at i:35167544 original size:162 final size:162
Alignment explanation
Indices: 35167277--35167598 Score: 572
Period size: 162 Copynumber: 2.0 Consensus size: 162
35167267 AGGCATTTAG
*
35167277 AATCCTGAAAATCAACAAGACCAATCTAGCATCACTCATCTGTCAACTCAACATGACAACTACAT
1 AATCCTGAAAATCAACAAGACCAATCTAACATCACTCATCTGTCAACTCAACATGACAACTACAT
** *
35167342 TCATAATAAAGGATGAGTTATACATTCCACTACATAATGTATAAAGGCAGAGCTAAACAAGCTGA
66 TCATAATAAAGGACAAGTTATACATTCCACTACATAATGTATAAAGGCAAAGCTAAACAAGCTGA
* *
35167407 GCTTTGAAGCGATAAATCAAAAGTTAGCCATT
131 ACTTTGAAGCAATAAATCAAAAGTTAGCCATT
*
35167439 AATCCTGAAAATTAACAAGACCAATCTAACATCACTCATCTGTCAACTCAACATGACAACTACAT
1 AATCCTGAAAATCAACAAGACCAATCTAACATCACTCATCTGTCAACTCAACATGACAACTACAT
*
35167504 TCGTAATAAAGGACAAGTTATACATTCCACTACATAATGTATAAAGGCAAAGCTAAACAAGCTGA
66 TCATAATAAAGGACAAGTTATACATTCCACTACATAATGTATAAAGGCAAAGCTAAACAAGCTGA
35167569 ACTTTGAAGCAATAAATCAAAAGTTAGCCA
131 ACTTTGAAGCAATAAATCAAAAGTTAGCCA
35167599 CTCAAAAAAT
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
162 152 1.00
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (162 bp):
AATCCTGAAAATCAACAAGACCAATCTAACATCACTCATCTGTCAACTCAACATGACAACTACAT
TCATAATAAAGGACAAGTTATACATTCCACTACATAATGTATAAAGGCAAAGCTAAACAAGCTGA
ACTTTGAAGCAATAAATCAAAAGTTAGCCATT
Found at i:35170789 original size:21 final size:21
Alignment explanation
Indices: 35170763--35170802 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35170753 AAAAAAATAA
35170763 TTTATG-AGAAATAGATTTTTT
1 TTTATGTAGAAAT-GATTTTTT
*
35170784 TTTATGTATAAATGATTTT
1 TTTATGTAGAAATGATTTT
35170803 GTGTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTATGTAGAAATGATTTTTT
Found at i:35171512 original size:24 final size:26
Alignment explanation
Indices: 35171479--35171527 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
35171469 AAGTAGGATA
35171479 TAAACAAATAACCAT-ATTTATATTC
1 TAAACAAATAACCATAATTTATATTC
**
35171504 TAAA-AAATATTCATAATTTATATT
1 TAAACAAATAACCATAATTTATATT
35171528 ATGAACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (26 bp):
TAAACAAATAACCATAATTTATATTC
Found at i:35171639 original size:20 final size:20
Alignment explanation
Indices: 35171604--35171646 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
35171594 TTTTTTCTAG
*
35171604 TAAAATATTAAGAATATTACT
1 TAAAATATTAAAAATATTA-T
35171625 TAAAAT-TTAAAAATATTAT
1 TAAAATATTAAAAATATTAT
35171644 TAA
1 TAA
35171647 TGTTAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAATATTAAAAATATTAT
Found at i:35171673 original size:19 final size:19
Alignment explanation
Indices: 35171638--35171674 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35171628 AATTTAAAAA
* *
35171638 TATTATTAATGTTAAATTT
1 TATTATTAAAGTAAAATTT
35171657 TATTATTAAAGTAAAATT
1 TATTATTAAAGTAAAATT
35171675 GTAATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTATTAAAGTAAAATTT
Found at i:35181364 original size:41 final size:38
Alignment explanation
Indices: 35181319--35181454 Score: 123
Period size: 40 Copynumber: 3.5 Consensus size: 38
35181309 CGACTTCGAG
35181319 TCGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAA
1 TCGATGAGACACTGGGTGTCAA-TTA-TACTTCGGATTAA
* * *
35181359 TTCGATGAGGCACTGGGTGCCAATT-TACTTCGGTTTAA
1 -TCGATGAGACACTGGGTGTCAATTATACTTCGGATTAA
* * * **
35181397 CCAATGAGACATTGGGTGTCAAATTATTACTTCAAATT-A
1 TCGATGAGACACTGGGTGTC-AATTA-TACTTCGGATTAA
*
35181436 TCTGATGAGGCACTGGGTG
1 TC-GATGAGACACTGGGTG
35181455 CCAAACTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 15 0.20
38 16 0.21
39 2 0.03
40 23 0.30
41 20 0.26
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (38 bp):
TCGATGAGACACTGGGTGTCAATTATACTTCGGATTAA
Found at i:35184323 original size:30 final size:29
Alignment explanation
Indices: 35184279--35184340 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
35184269 TCCGAGCCTT
35184279 GGGGAAAAAATGTAATTATGTAAAAGTTTA
1 GGGGAAAAAATGTAATTATGTAAAAG-TTA
* * * *
35184309 GGGGCAAAATTGTAATTTTTTAAAAGTTA
1 GGGGAAAAAATGTAATTATGTAAAAGTTA
35184338 GGG
1 GGG
35184341 TTTTCAAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.32
Consensus pattern (29 bp):
GGGGAAAAAATGTAATTATGTAAAAGTTA
Found at i:35184710 original size:438 final size:438
Alignment explanation
Indices: 35183895--35184776 Score: 1764
Period size: 438 Copynumber: 2.0 Consensus size: 438
35183885 GGGAAGCCAT
35183895 AGTTAGGGTTTTCAAGCTTCCAAGCTCCATAGTAAGTGATCCCAAGTCCCGTTTTTAATGGTTTT
1 AGTTAGGGTTTTCAAGCTTCCAAGCTCCATAGTAAGTGATCCCAAGTCCCGTTTTTAATGGTTTT
35183960 TTACGTTTTTGGAGTCCCGGTAGCTTAATTTAGCTTATTCTAGCAATAATTTAACCTAGGGTTTA
66 TTACGTTTTTGGAGTCCCGGTAGCTTAATTTAGCTTATTCTAGCAATAATTTAACCTAGGGTTTA
35184025 TATTTGGAAAAATACCCATAGGTGAAAAGTGTTTATTTTGATGTTTTATGATAGAATATGAAGCT
131 TATTTGGAAAAATACCCATAGGTGAAAAGTGTTTATTTTGATGTTTTATGATAGAATATGAAGCT
35184090 AGAAATTATGTTAAACAACTTTTGCTAAGCGATTTTAAGTGAAAACGAGTAAAACGACATAATCG
196 AGAAATTATGTTAAACAACTTTTGCTAAGCGATTTTAAGTGAAAACGAGTAAAACGACATAATCG
35184155 GTAAAAATACCTAATGTTCATAAGTACATGTTAGAGTGGGAATTTGATGTTGCCATAGAAGGGAA
261 GTAAAAATACCTAATGTTCATAAGTACATGTTAGAGTGGGAATTTGATGTTGCCATAGAAGGGAA
35184220 AAATGTTCAGAATGTTATAAAACATAAGAATAAGAGATGAAGTTTAATTTCCGAGCCTTGGGGAA
326 AAATGTTCAGAATGTTATAAAACATAAGAATAAGAGATGAAGTTTAATTTCCGAGCCTTGGGGAA
35184285 AAAATGTAATTATGTAAAAGTTTAGGGGCAAAATTGTAATTTTTTAAA
391 AAAATGTAATTATGTAAAAGTTTAGGGGCAAAATTGTAATTTTTTAAA
35184333 AGTTAGGGTTTTCAAGCTTCCAAGCTCCATAGTAAGTGATCCCAAGTCCCGTTTTTAATGGTTTT
1 AGTTAGGGTTTTCAAGCTTCCAAGCTCCATAGTAAGTGATCCCAAGTCCCGTTTTTAATGGTTTT
35184398 TTACGTTTTTGGAGTCCCGGTAGCTTAATTTAGCTTATTCTAGCAATAATTTAACCTAGGGTTTA
66 TTACGTTTTTGGAGTCCCGGTAGCTTAATTTAGCTTATTCTAGCAATAATTTAACCTAGGGTTTA
35184463 TATTTGGAAAAATACCCATAGGTGAAAAGTGTTTATTTTGATGTTTTATGATAGAATATGAAGCT
131 TATTTGGAAAAATACCCATAGGTGAAAAGTGTTTATTTTGATGTTTTATGATAGAATATGAAGCT
35184528 AGAAATTATGTTAAACAACTTTTGCTAAGCGATTTTAAGTGAAAACGAGTAAAACGACATAATCG
196 AGAAATTATGTTAAACAACTTTTGCTAAGCGATTTTAAGTGAAAACGAGTAAAACGACATAATCG
35184593 GTAAAAATACCTAATGTTCATAAGTACATGTTAGAGTGGGAATTTGATGTTGCCATAGAAGGGAA
261 GTAAAAATACCTAATGTTCATAAGTACATGTTAGAGTGGGAATTTGATGTTGCCATAGAAGGGAA
35184658 AAATGTTCAGAATGTTATAAAACATAAGAATAAGAGATGAAGTTTAATTTCCGAGCCTTGGGGAA
326 AAATGTTCAGAATGTTATAAAACATAAGAATAAGAGATGAAGTTTAATTTCCGAGCCTTGGGGAA
35184723 AAAATGTAATTATGTAAAAGTTTAGGGGCAAAATTGTAATTTTTTAAA
391 AAAATGTAATTATGTAAAAGTTTAGGGGCAAAATTGTAATTTTTTAAA
35184771 AGTTAG
1 AGTTAG
35184777 AGTCGAGGGC
Statistics
Matches: 444, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
438 444 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (438 bp):
AGTTAGGGTTTTCAAGCTTCCAAGCTCCATAGTAAGTGATCCCAAGTCCCGTTTTTAATGGTTTT
TTACGTTTTTGGAGTCCCGGTAGCTTAATTTAGCTTATTCTAGCAATAATTTAACCTAGGGTTTA
TATTTGGAAAAATACCCATAGGTGAAAAGTGTTTATTTTGATGTTTTATGATAGAATATGAAGCT
AGAAATTATGTTAAACAACTTTTGCTAAGCGATTTTAAGTGAAAACGAGTAAAACGACATAATCG
GTAAAAATACCTAATGTTCATAAGTACATGTTAGAGTGGGAATTTGATGTTGCCATAGAAGGGAA
AAATGTTCAGAATGTTATAAAACATAAGAATAAGAGATGAAGTTTAATTTCCGAGCCTTGGGGAA
AAAATGTAATTATGTAAAAGTTTAGGGGCAAAATTGTAATTTTTTAAA
Found at i:35184776 original size:29 final size:30
Alignment explanation
Indices: 35184717--35184774 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
35184707 TCCGAGCCTT
35184717 GGGGAAAAAATGTAATTATGTAAAAGTTTA
1 GGGGAAAAAATGTAATTATGTAAAAGTTTA
* * * *
35184747 GGGGCAAAATTGTAATTTTTTAAAAGTT
1 GGGGAAAAAATGTAATTATGTAAAAGTT
35184775 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.34
Consensus pattern (30 bp):
GGGGAAAAAATGTAATTATGTAAAAGTTTA
Found at i:35185005 original size:13 final size:13
Alignment explanation
Indices: 35184987--35185017 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
35184977 TTCCAGCAAC
35184987 TATGAATTTATTT
1 TATGAATTTATTT
35185000 TATGAATTTATTT
1 TATGAATTTATTT
*
35185013 GATGA
1 TATGA
35185018 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:35185187 original size:50 final size:50
Alignment explanation
Indices: 35185112--35185354 Score: 396
Period size: 50 Copynumber: 4.8 Consensus size: 50
35185102 ATTTGGGTAA
35185112 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
35185162 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
35185212 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
35185262 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
35185312 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35185355 TGTTATTATC
Statistics
Matches: 179, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
50 145 0.81
51 34 0.19
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:35195612 original size:40 final size:41
Alignment explanation
Indices: 35195559--35195639 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 41
35195549 ATAACAAATA
*
35195559 AATCTCACAAAATTGTATATAGCATATAATACTAATAATTT
1 AATCTCACAAAATTGTATATAGCATATAATAATAATAATTT
* *
35195600 AATCT-ACGAAATTGTATATAGCATATAATAATAATTATTT
1 AATCTCACAAAATTGTATATAGCATATAATAATAATAATTT
35195640 TTTAAGACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 32 0.86
41 5 0.14
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (41 bp):
AATCTCACAAAATTGTATATAGCATATAATAATAATAATTT
Found at i:35197313 original size:47 final size:46
Alignment explanation
Indices: 35197197--35197319 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 46
35197187 ATATATATAA
* *
35197197 ATATATTTGTTATGCATGAAAATGAATTAATCTATAGCTGAATGTAT
1 ATATATTTGTTATGCATG-AAATGAATTAAACTATAGCCGAATGTAT
* * * * *
35197244 ATGTAATTGTTATACAGAGAAATGAATTAAACTATGGCCGAATGTAT
1 ATATATTTGTTATGCA-TGAAATGAATTAAACTATAGCCGAATGTAT
*
35197291 ATATATTTGTTATGCATTGAAATAAATTA
1 ATATATTTGTTATGCA-TGAAATGAATTA
35197320 TTTGAAATTA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
47 61 0.98
48 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (46 bp):
ATATATTTGTTATGCATGAAATGAATTAAACTATAGCCGAATGTAT
Found at i:35197425 original size:47 final size:47
Alignment explanation
Indices: 35197353--35197559 Score: 238
Period size: 47 Copynumber: 4.4 Consensus size: 47
35197343 CAAATGTATA
* * ** *
35197353 TATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATG
1 TATATATAATTGTTATGCAGAGAAATGAATTAAACTATAGCTGAATG
* * * *
35197400 TATATGTAATTGTTATGCAGAGAAATAAATTAAACTATGGCCGAA--
1 TATATATAATTGTTATGCAGAGAAATGAATTAAACTATAGCTGAATG
* * ** *
35197445 TATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATG
1 TATATATAATTGTTATGCAGAGAAATGAATTAAACTATAGCTGAATG
* *
35197492 TATATGTAATTGTTATGCAGAGAAATGAATTAAACTATGGCTGAATG
1 TATATATAATTGTTATGCAGAGAAATGAATTAAACTATAGCTGAATG
35197539 TATATATATATTTGTTATGCA
1 TATATATA-A-TTGTTATGCA
35197560 TTGAAATAAA
Statistics
Matches: 130, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
45 36 0.28
47 83 0.64
48 1 0.01
49 10 0.08
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (47 bp):
TATATATAATTGTTATGCAGAGAAATGAATTAAACTATAGCTGAATG
Found at i:35197441 original size:159 final size:157
Alignment explanation
Indices: 35197190--35197476 Score: 486
Period size: 159 Copynumber: 1.8 Consensus size: 157
35197180 CGTATGTATA
*
35197190 TATATAAATATATTTGTTATGCATGAAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTT
1 TATATAAATATATTTGTTATACATGAAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTT
* *
35197255 ATACAGAGAAATGAATTAAACTATGGCCGAATGTATATATATTTGTTATGCATTGAAATAAATTA
66 ATACAGAGAAATAAATTAAACTATGGCCGAA--TATATATATTTGTTATACATTGAAATAAATTA
35197320 TTTGAAATTACATAGGTTATGGCCAAATG
129 TTTGAAATTACATAGGTTATGGCCAAATG
*
35197349 TATATATATATATTTGTTATACATTG-AAATGAATTAATCTATAGCTGAATGTATATGTAATTGT
1 TATATAAATATATTTGTTATACA-TGAAAATGAATTAATCTATAGCTGAATGTATATGTAATTGT
* *
35197413 TATGCAGAGAAATAAATTAAACTATGGCCGAATATATATATTTGTTATACATTGAAATGAATTA
65 TATACAGAGAAATAAATTAAACTATGGCCGAATATATATATTTGTTATACATTGAAATAAATTA
35197477 ATCTATAGCT
Statistics
Matches: 121, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
157 30 0.25
159 89 0.74
160 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.39
Consensus pattern (157 bp):
TATATAAATATATTTGTTATACATGAAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTT
ATACAGAGAAATAAATTAAACTATGGCCGAATATATATATTTGTTATACATTGAAATAAATTATT
TGAAATTACATAGGTTATGGCCAAATG
Found at i:35197486 original size:92 final size:94
Alignment explanation
Indices: 35197350--35197572 Score: 378
Period size: 92 Copynumber: 2.4 Consensus size: 94
35197340 GGCCAAATGT
35197350 ATATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTA
1 ATATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTA
35197415 TGCAGAGAAATAAATTAAACTATGGCCG-
66 TGCAGAGAAATAAATTAAACTATGGCCGA
35197443 A-ATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTA
1 ATATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTA
* *
35197507 TGCAGAGAAATGAATTAAACTATGGCTGA
66 TGCAGAGAAATAAATTAAACTATGGCCGA
* *
35197536 ATGTATATATATATTTGTTATGCATTGAAATAAATTA
1 A--TATATATATATTTGTTATACATTGAAATGAATTA
35197573 TTTGAAGTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
92 89 0.73
93 2 0.02
96 31 0.25
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (94 bp):
ATATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTA
TGCAGAGAAATAAATTAAACTATGGCCGA
Found at i:35197870 original size:41 final size:41
Alignment explanation
Indices: 35197676--35197873 Score: 261
Period size: 41 Copynumber: 4.8 Consensus size: 41
35197666 TTTTTTAAGT
* *
35197676 TCGGGCTTTATGCCTAGCAGGCTCTGTGCTGATGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* * *
35197717 TTGGGCTTTATGCCTAACAGGCTCTGTGCCAGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* * **
35197758 TTGGGCTTTATGCCTAGCAGGCTCTGTACTAGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* *
35197799 TCAGGATTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
* * * *
35197840 TCGGGCTTTGTGTCTAGCAGGCTTTATGCCGGTG
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTG
35197874 TTTTATATAA
Statistics
Matches: 137, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.32
Consensus pattern (41 bp):
TCGGGCTTTATGCCTAGCAGGCTCTGTGCCGGTGAAATGTA
Found at i:35198969 original size:4 final size:4
Alignment explanation
Indices: 35198960--35198984 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
35198950 ATTTAAATAT
35198960 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
35198985 CTTACTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:35203127 original size:12 final size:13
Alignment explanation
Indices: 35203101--35203131 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
35203091 AATTAAATTA
35203101 AATTAATTATCTC
1 AATTAATTATCTC
35203114 AATTAATT-TCTC
1 AATTAATTATCTC
35203126 AATTAA
1 AATTAA
35203132 ATAATTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (13 bp):
AATTAATTATCTC
Found at i:35211638 original size:45 final size:45
Alignment explanation
Indices: 35211580--35211745 Score: 162
Period size: 45 Copynumber: 3.7 Consensus size: 45
35211570 CGAAATGATA
* * * **
35211580 AAGACCATAGTTGAAAGATACTATGGCACTAAAT-TGAATATGTGT
1 AAGACCATAGTTGAAAGATACTATGACACTAAATCT-AACACGAAT
* * *
35211625 AAGGCCATAGTTGAAAGATATTATGACATTAAATCTAACACGAAT
1 AAGACCATAGTTGAAAGATACTATGACACTAAATCTAACACGAAT
*
35211670 AAGACCATAGTTGAAAGATACTATGACA-TCACATC-AGTA-ACG-AT
1 AAGACCATAGTTGAAAGATACTATGACACT-AAATCTA--ACACGAAT
*
35211714 CAAAACCATAGTTGAAAGATACTATGACACTA
1 -AAGACCATAGTTGAAAGATACTATGACACTA
35211746 CTTCGGGAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
44 4 0.04
45 96 0.93
46 3 0.03
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.25
Consensus pattern (45 bp):
AAGACCATAGTTGAAAGATACTATGACACTAAATCTAACACGAAT
Found at i:35212979 original size:18 final size:19
Alignment explanation
Indices: 35212946--35212989 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
35212936 CCCCTGTTTC
* *
35212946 TAAAATTTTTTGATTTTTT
1 TAAAATTTTCTGATTTATT
35212965 TAAAATTTTCT-ATTTATT
1 TAAAATTTTCTGATTTATT
*
35212983 TCAAATT
1 TAAAATT
35212990 AGTCCTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
TAAAATTTTCTGATTTATT
Found at i:35229948 original size:16 final size:16
Alignment explanation
Indices: 35229929--35229963 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
35229919 AATAATGAGT
35229929 AAAT-AAAATAACAATG
1 AAATAAAAATAA-AATG
35229945 AAATAAAAATAAAATG
1 AAATAAAAATAAAATG
35229961 AAA
1 AAA
35229964 ACAAGTAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (16 bp):
AAATAAAAATAAAATG
Found at i:35240788 original size:36 final size:36
Alignment explanation
Indices: 35240748--35240826 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
35240738 GCCAACATAC
35240748 GGCCCAAAATTGCGCCCAAAACCACGCACAAAAGAT
1 GGCCCAAAATTGCGCCCAAAACCACGCACAAAAGAT
* * * * * *
35240784 GGCCCAAAATTGTGCCCATAATCACGCCCAACAGCT
1 GGCCCAAAATTGCGCCCAAAACCACGCACAAAAGAT
35240820 GGCCCAA
1 GGCCCAA
35240827 GACCACCGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.35, G:0.18, T:0.11
Consensus pattern (36 bp):
GGCCCAAAATTGCGCCCAAAACCACGCACAAAAGAT
Found at i:35245897 original size:17 final size:17
Alignment explanation
Indices: 35245877--35245937 Score: 86
Period size: 17 Copynumber: 3.6 Consensus size: 17
35245867 GCATAAGAAC
35245877 AGTTCATTCAATATAAT
1 AGTTCATTCAATATAAT
* *
35245894 AGTTCATACAATATAAC
1 AGTTCATTCAATATAAT
*
35245911 ATTTCATTCAATATAAT
1 AGTTCATTCAATATAAT
*
35245928 AATTCATTCA
1 AGTTCATTCA
35245938 TACCACATCG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AGTTCATTCAATATAAT
Found at i:35247044 original size:31 final size:30
Alignment explanation
Indices: 35246918--35247062 Score: 94
Period size: 31 Copynumber: 4.5 Consensus size: 30
35246908 TCCACGCATG
*
35246918 TATATATTATATATATAACAAGACCATTTTACACA
1 TATATA-T-TATATATAACAAGACCA---TAAACA
* * * *
35246953 TATTTATTATATAAAACATGACCTTCAAACGCA
1 TATATATTATATATAACAAGACCAT-AAA--CA
*** *
35246986 TATATATTATATATTTTATGACCCATAAACA
1 TATATATTATATATAACAAGA-CCATAAACA
*
35247017 TATATATTATATATAACAAGACGCATAAATA
1 TATATATTATATATAACAAGAC-CATAAACA
35247048 TAT-TATTTATATATA
1 TATATA-TTATATATA
35247063 TATCTATTTA
Statistics
Matches: 88, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
30 4 0.05
31 40 0.45
33 35 0.40
34 4 0.05
35 5 0.06
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (30 bp):
TATATATTATATATAACAAGACCATAAACA
Found at i:35249382 original size:13 final size:13
Alignment explanation
Indices: 35249364--35249402 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
35249354 CATATCACAT
*
35249364 TCTATCTTTTTTA
1 TCTATCTTCTTTA
35249377 TCTATCTTCTTTA
1 TCTATCTTCTTTA
*
35249390 T-TTTCTTCTTTA
1 TCTATCTTCTTTA
35249402 T
1 T
35249403 TATTCTAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (13 bp):
TCTATCTTCTTTA
Found at i:35249398 original size:12 final size:13
Alignment explanation
Indices: 35249368--35249408 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
35249358 TCACATTCTA
*
35249368 TCTTTTTTATCTA-
1 TCTTCTTTAT-TAT
35249381 TCTTCTTTATT-T
1 TCTTCTTTATTAT
35249393 TCTTCTTTATTAT
1 TCTTCTTTATTAT
35249406 TCT
1 TCT
35249409 AGTCTTTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (13 bp):
TCTTCTTTATTAT
Found at i:35249735 original size:7 final size:8
Alignment explanation
Indices: 35249722--35249746 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
35249712 AGAAAATACG
35249722 AAAAAAAT
1 AAAAAAAT
35249730 AAAAAAAT
1 AAAAAAAT
35249738 AAAAAAAT
1 AAAAAAAT
35249746 A
1 A
35249747 TTTTGTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:35252452 original size:68 final size:69
Alignment explanation
Indices: 35252272--35252483 Score: 198
Period size: 68 Copynumber: 3.1 Consensus size: 69
35252262 GCTCTAGCAC
* * *** *
35252272 AGCTAGCGGACCTACGCTCTCAACTGATGTCATAAAGGTATATTGATTTAAGATCACAACCTCCA
1 AGCTAGCGGACCTACGCTCTCAACTAATGTCATAAAGGTTTGCAGAGTTAAGATCACAACCTCCA
35252337 AAGT
66 AAGT
* * * * * * * *
35252341 AGCTAACGGACCTACTCTCTCAACTAATATTAT-AAGAGCTTGCAGAGTTAAGTTCGC-AGCTCC
1 AGCTAGCGGACCTACGCTCTCAACTAATGTCATAAAG-GTTTGCAGAGTTAAGATCACAACCTCC
35252404 AACAG-
65 AA-AGT
* * * * *
35252409 AGCTAGTGGACCTACGCTCCCAACTAATGTCATAAAGGTTTGCA-ATTTAAGATCCCAACCTTCA
1 AGCTAGCGGACCTACGCTCTCAACTAATGTCATAAAGGTTTGCAGAGTTAAGATCACAACCTCCA
35252473 AAGT
66 AAGT
*
35252477 AACTAGC
1 AGCTAGC
35252484 AAACCTAAAT
Statistics
Matches: 110, Mismatches: 28, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
67 11 0.10
68 54 0.49
69 45 0.41
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (69 bp):
AGCTAGCGGACCTACGCTCTCAACTAATGTCATAAAGGTTTGCAGAGTTAAGATCACAACCTCCA
AAGT
Found at i:35252528 original size:136 final size:136
Alignment explanation
Indices: 35252272--35252541 Score: 316
Period size: 136 Copynumber: 2.0 Consensus size: 136
35252262 GCTCTAGCAC
* *
35252272 AGCTAGCGGACCTACGCTCTCAACTGATGTCATAAAGGTATATTGATTTAAGATCACAACCTCCA
1 AGCTAGCGGACCTACGCTCCCAACTAATGTCATAAAGG-ATATTGATTTAAGATCACAACCTCCA
* ** * * * * *
35252337 AAGTAGCTAACGGACCTACTCTCTCAACTAATATTATAAGAGCTTGCAGAGTTAAGTTCGCAGCT
65 AAGTAACTAACAAACCTAATCTCTCAACTAACATTATAAGAGCTTGCAGAATTAAGCTCGCAGAT
35252402 CCAACAG
130 CCAACAG
* * *
35252409 AGCTAGTGGACCTACGCTCCCAACTAATGTCATAAAGG-T-TTGCAATTTAAGATCCCAACCTTC
1 AGCTAGCGGACCTACGCTCCCAACTAATGTCATAAAGGATATTG--ATTTAAGATCACAACCTCC
* *
35252472 AAAGTAACTAGCAAACCTAAAT-TC-CAAACTGACATTATAAGAGCTCT-CAGAATTAAGCTCGC
64 AAAGTAACTAACAAACCT-AATCTCTC-AACTAACATTATAAGAGCT-TGCAGAATTAAGCTCGC
35252534 AGATCCAA
126 AGATCCAA
35252542 TACAACTAGC
Statistics
Matches: 113, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
134 3 0.03
135 2 0.02
136 70 0.62
137 38 0.34
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (136 bp):
AGCTAGCGGACCTACGCTCCCAACTAATGTCATAAAGGATATTGATTTAAGATCACAACCTCCAA
AGTAACTAACAAACCTAATCTCTCAACTAACATTATAAGAGCTTGCAGAATTAAGCTCGCAGATC
CAACAG
Found at i:35260493 original size:51 final size:52
Alignment explanation
Indices: 35260397--35260504 Score: 123
Period size: 51 Copynumber: 2.1 Consensus size: 52
35260387 TATATATTTG
* * *
35260397 AATTTTTTAGAATTAGGATCAAATTGAGATTATTTGTAAATTTTGAGGATTA
1 AATTTTTTAGAATTAGGATCAAATTGAGATAATATGTAAATTTTGAGGACTA
* * *
35260449 AATTTTTTA-AATTATGA-CTAAATTGATATAATATGTCAAA-TTTGAGGGCTA
1 AATTTTTTAGAATTAGGATC-AAATTGAGATAATATGT-AAATTTTGAGGACTA
35260500 AATTT
1 AATTT
35260505 GTTATTCTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
50 1 0.02
51 35 0.73
52 12 0.25
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.44
Consensus pattern (52 bp):
AATTTTTTAGAATTAGGATCAAATTGAGATAATATGTAAATTTTGAGGACTA
Found at i:35270724 original size:13 final size:13
Alignment explanation
Indices: 35270708--35270737 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
35270698 CCCCTATGAC
35270708 ACTTAGATATGGT
1 ACTTAGATATGGT
35270721 ACTTAGATATGGT
1 ACTTAGATATGGT
35270734 ACTT
1 ACTT
35270738 CAAGACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (13 bp):
ACTTAGATATGGT
Found at i:35280385 original size:125 final size:124
Alignment explanation
Indices: 35280163--35280539 Score: 610
Period size: 125 Copynumber: 3.0 Consensus size: 124
35280153 TTAGGGTTTT
* *
35280163 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGA
1 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* *
35280228 AGAATGTTGTTTGATAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
66 AG-ATGCTGTTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
*
35280288 TAGGTCCTGGAAGAAATAATTTGGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
*
35280353 AGTATGCTGTTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 AG-ATGCTGTTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
*
35280413 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
* * * * * *
35280478 AAGATGCTATTTGAGAATAATTTGTGAAAGCGCACCCTCGTGGATGCACTTTTACTACAG
66 -AGATGCTGTTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
35280538 TA
1 TA
35280540 ACATGTTTGG
Statistics
Matches: 235, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
125 233 0.99
126 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (124 bp):
TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
AGATGCTGTTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAG
Found at i:35283784 original size:22 final size:22
Alignment explanation
Indices: 35283753--35285466 Score: 1125
Period size: 23 Copynumber: 76.5 Consensus size: 22
35283743 CTAGTTTAAA
* *
35283753 GTTTTAAAGTTAAGGGTTAAGG
1 GTTTTTAAGTTAAGGGTTTAGG
**
35283775 GTTTTTAAGTTAAGGG-TTAAT
1 GTTTTTAAGTTAAGGGTTTAGG
35283796 GTTTTTAAGTTAAGGG-TTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
* *
35283817 GTTTTTCAGTTAAGGGTTTAAG
1 GTTTTTAAGTTAAGGGTTTAGG
* **
35283839 G-TTTTAAATTAA-ATTAGTTAGG
1 GTTTTTAAGTTAAGGGT--TTAGG
*
35283861 GTTTTTAAGTTTAAGGGTTTATG
1 GTTTTTAAG-TTAAGGGTTTAGG
**
35283884 GTTTTTAA-TTAAATTAGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
35283907 GTTTTTAAGTTAAAGGG-TTAGG
1 GTTTTTAAGTT-AAGGGTTTAGG
* * *
35283929 GTTTTTAAATTTAAGGATTTAAG
1 GTTTTT-AAGTTAAGGGTTTAGG
**
35283952 GTTTTTAA-TTAAATTAGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
*
35283975 GTTTTTAAGTTAAGGGCTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
*
35283997 GTTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
*
35284020 GTTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
* *
35284043 GTTTTTAATTTAAGGG-TTATG
1 GTTTTTAAGTTAAGGGTTTAGG
**
35284064 GTTTTTAAGTTAAGCATTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
* *
35284086 G-TTTTAAGTTAAGAGTTTATGA
1 GTTTTTAAGTTAAGGGTTTA-GG
* **
35284108 TTTTTTAA-TTAAATTAGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
35284131 G-TTTTAAGTTAAGGGTTAGGGTTTAGG
1 GTTTTTAAGTT-A-----AGGGTTTAGG
* * * * * * *
35284158 GTTTTTTAATTTAAGGGTTTAGT
1 GTTTTTAAGTTAAGGGTTTA-GG
* **
35284181 ATTTTTAA-TTAAATTAGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
35284204 GTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
* ** *
35284226 GTTTTTAA-TGAAATTAGTTTATG
1 GTTTTTAAGT-TAA-GGGTTTAGG
35284249 GTTTTTAAGTTAAGGGTTAGGGTTTAGG
1 GTTTTTAAGTT-A-----AGGGTTTAGG
** * * * **
35284277 GTTTTTATTTTTAAGGGTTTAG
1 GTTTTTAAGTTAAGGGTTTAGG
* **
35284299 GGTTTTTAA-TTAAATTAGTTTAGG
1 GTTTTT-AAGTT-AA-GGGTTTAGG
* *
35284323 ATTTTTAAGTTAAGGGTTTATG
1 GTTTTTAAGTTAAGGGTTTAGG
*
35284345 GTTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
* *
35284368 GTTTTTAATTTATGGG-TTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
*
35284389 GTTTTTAAGTTAAGGG-TTAAG
1 GTTTTTAAGTTAAGGGTTTAGG
35284410 GTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
* * *
35284432 ATTTTTAATTTTAAGGGGTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
* **
35284455 GTTTTTAATTTAATTAGTTTAGG
1 GTTTTTAAGTTAA-GGGTTTAGG
* *
35284478 GTTTTGAAGTTAAGGGTTTAGT
1 GTTTTTAAGTTAAGGGTTTAGG
*
35284500 GTTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
* *
35284523 CTTTTTAATTTAAGGG-TTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
*
35284544 G-TTTTAAGTTAATGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
*
35284565 GTTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
*
35284588 GTTTTTAATTTAAGGG-TTA-G
1 GTTTTTAAGTTAAGGGTTTAGG
*
35284608 GTTTTTAAGTTAAGGGTTTAAG
1 GTTTTTAAGTTAAGGGTTTAGG
**
35284630 GTTTTTAA-TTAAATTAGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
35284653 GTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
** *
35284675 GTTTTTAA-TTAAATTAGTTTAGA
1 GTTTTTAAGTT-AA-GGGTTTAGG
35284698 GTTTTTAAGTTAAGGG-TTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
*
35284719 GTTTTTAAGTTTAAGAGTTT---
1 GTTTTTAAG-TTAAGGGTTTAGG
* * *
35284739 -TTAATTAAATT-A--GTTTAGC
1 GTT-TTTAAGTTAAGGGTTTAGG
35284758 GTTTTTAAGTTAAGGG-TTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
* *
35284779 G--TTT-AG----GGTTTAAGG
1 GTTTTTAAGTTAAGGGTTTAGG
* * *
35284794 TTTTTTAATTTAAAGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
**
35284816 GTTTTTAA-TTGAATTAGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
35284839 GTTTAATTTTTAAGTTAAGGGTTTAGG
1 G-----TTTTTAAGTTAAGGGTTTAGG
**
35284866 GTTTTTAA-TTAAATTTGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
*
35284889 GTTTTTAAGTTAAGGG-TTAGA
1 GTTTTTAAGTTAAGGGTTTAGG
*
35284910 GTTTTTAAGTTTAAGGATTTAGG
1 GTTTTTAAG-TTAAGGGTTTAGG
* **
35284933 G-TTTTAAATTAAATTAGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
35284956 G-TTTTAAGTTAAGGGTTAGGGTTTAGG
1 GTTTTTAAGTT-A-----AGGGTTTAGG
** * * * **
35284983 GTTTTTATTTTTAAGGGTTTAG
1 GTTTTTAAGTTAAGGGTTTAGG
* **
35285005 GGTTTTTAA-TTAAATTAGTTTAGG
1 GTTTTT-AAGTT-AA-GGGTTTAGG
*
35285029 GTTTTTAATTAAGTTAAGGGTTTAAG
1 G--TTT--TTAAGTTAAGGGTTTAGG
*
35285055 GTTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
* *
35285078 GTTTTTAATTTTAAGGGTTTATG
1 GTTTTTAA-GTTAAGGGTTTAGG
**
35285101 GTTTTTAA-TTAAATTAGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
*
35285124 GTTTTTAAATTAAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
* *
35285146 GTTTTTAATTTTAAGGTTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
**
35285169 GTTTTTAA-TTAAATTAGTTTAGG
1 GTTTTTAAGTT-AA-GGGTTTAGG
* *
35285192 GCTTTTAAGTTAAGGGCTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
*
35285214 GTTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
* *
35285237 GTTTTTAATTTAAGGG-TTAGA
1 GTTTTTAAGTTAAGGGTTTAGG
* * *
35285258 GTTTTTAAGCTAATGGTTTATG
1 GTTTTTAAGTTAAGGGTTTAGG
*
35285280 GTTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
*
35285303 GTTTTTAATTTAAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
***
35285325 GTTTTTAA-TTAAATTATCTTAGG
1 GTTTTTAAGTT-AAGGGT-TTAGG
35285348 GTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
*
35285370 GTTTTTAATTTAAGGG-TTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
* *
35285391 GTTTTTAATTTAAGGG-TTAAG
1 GTTTTTAAGTTAAGGGTTTAGG
35285412 GTTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTTAGG
*
35285434 GTTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
35285457 GTTTTTAAGT
1 GTTTTTAAGT
35285467 AATAACTCAA
Statistics
Matches: 1341, Mismatches: 228, Indels: 246
0.74 0.13 0.14
Matches are distributed among these distances:
14 2 0.00
15 4 0.00
16 4 0.00
17 3 0.00
18 4 0.00
19 13 0.01
20 36 0.03
21 243 0.18
22 391 0.29
23 502 0.37
24 54 0.04
25 1 0.00
26 9 0.01
27 28 0.02
28 44 0.03
29 3 0.00
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.49
Consensus pattern (22 bp):
GTTTTTAAGTTAAGGGTTTAGG
Found at i:35283887 original size:45 final size:45
Alignment explanation
Indices: 35283754--35285464 Score: 1193
Period size: 45 Copynumber: 38.1 Consensus size: 45
35283744 TAGTTTAAAG
* **
35283754 TTTTAAAGTTAAGGGTTAAGGGTTTTTAAG-TTAAGGG-TTAATGT
1 TTTTAAA-TTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* * *
35283798 TTTTAAGTTAAGGG-TTAGGGTTTTTCAG-TTAAGGGTTTAAGG-
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
** *
35283840 TTTTAAATTAA-ATTAGTTAGGGTTTTTAAGTTTAAGGGTTTATGGT
1 TTTTAAATTAAGGGT--TTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
** *
35283886 TTTT-AATTAAATTAGTTTAGGGTTTTTAAGTTAAAGGG-TTAGGGT
1 TTTTAAATT-AA-GGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* * * **
35283931 TTTTAAATTTAAGGATTTAAGGTTTTTAA-TTAAATTAGTTTAGGGT
1 TTTTAAA-TTAAGGGTTTAGGGTTTTTAAGTTTAA-GGGTTTAGGGT
* * *
35283977 TTTTAAGTTAAGGGCTTAGGGTTTTTAATTTTAAGGGTTTAGGGT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* *
35284022 TTTTAATTTTAAGGGTTTAGGGTTTTTAA-TTTAAGGG-TTATGGT
1 TTTTAA-ATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* ** * * *
35284066 TTTTAAGTTAAGCATTTAGGG-TTTTAAG-TTAAGAGTTTATGAT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* ** *
35284109 TTTTTAATTAAATTAGTTTAGGG-TTTTAAGTTAAGGGTTAGGGTTTAGGGTT
1 TTTTAAATT-AA-GGGTTTAGGGTTTTTAAGTT-----TAAGGGTTTAGGG-T
* ** * **
35284161 TTTTAATTTAAGGGTTTAGTATTTTTAA-TTAAATTAGTTTAGGGT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAA-GGGTTTAGGGT
* ** ** *
35284206 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TGAAATTAGTTTATGGT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAA-GGGTTTAGGGT
* **
35284251 TTTTAAGTTAAGGGTTAGGGTTTAGGGTTTTTATTTTTAAGGGTTTAGGGT
1 TTTTAAATT-A-----AGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
** * *
35284302 TTTT-AATTAAATTAGTTTAGGATTTTTAAG-TTAAGGGTTTATGGT
1 TTTTAAATT-AA-GGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* *
35284347 TTTTAATTTTAAGGGTTTAGGGTTTTTAA-TTTATGGG-TTAGGGT
1 TTTTAA-ATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* * *
35284391 TTTTAAGTTAAGGG-TTAAGGTTTTTAAG-TTAAGGGTTTAGGAT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* * **
35284434 TTTTAATTTTAAGGGGTTAGGGTTTTTAA-TTTAATTAGTTTAGGGT
1 TTTTAA-ATTAAGGGTTTAGGGTTTTTAAGTTTAA-GGGTTTAGGGT
* * * * *
35284480 TTTGAAGTTAAGGGTTTAGTGTTTTTAATTTTAAGGGTTTAGGCT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* *
35284525 TTTTAATTTAAGGG-TTAGGG-TTTTAAG-TTAATGGTTTAGGGT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
*
35284567 TTTTAATTTTAAGGGTTTAGGGTTTTTAA-TTTAAGGG-TTA-GGT
1 TTTTAA-ATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* * * **
35284610 TTTTAAGTTAAGGGTTTAAGGTTTTTAA-TTAAATTAGTTTAGGGT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAA-GGGTTTAGGGT
* * ** *
35284655 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGAGT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAA-GGGTTTAGGGT
* *
35284700 TTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTTAAGAGTTT----T
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* *
35284740 TAATTAAATT-A--GTTTAGCGTTTTTAAG-TTAAGGG-TTAGGG-
1 T-TTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* *
35284780 ---T---TT-AGGGTTTAAGGTTTTTTAA-TTTAAAGGTTTAGGGT
1 TTTTAAATTAAGGGTTT-AGGGTTTTTAAGTTTAAGGGTTTAGGGT
**
35284818 TTTT-AATTGAATTAGTTTAGGGTTTAATTTTTAAG-TTAAGGGTTTAGGGT
1 TTTTAAATT-AA-GGGTTTAGGG-----TTTTTAAGTTTAAGGGTTTAGGGT
** *
35284868 TTTT-AATTAAATTTGTTTAGGGTTTTTAAG-TTAAGGG-TTAGAGT
1 TTTTAAATT-AA-GGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* * * * **
35284912 TTTTAAGTTTAAGGATTTAGGG-TTTTAAATTAAATTAGTTTAGGG-
1 TTTTAA-ATTAAGGGTTTAGGGTTTTTAAGTTTAA-GGGTTTAGGGT
* **
35284957 TTTTAAGTTAAGGGTTAGGGTTTAGGGTTTTTATTTTTAAGGGTTTAGGGT
1 TTTTAAATT-A-----AGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
** * *
35285008 TTTT-AATTAAATTAGTTTAGGGTTTTTAATTAAGTTAAGGGTTTAAGGT
1 TTTTAAATT-AA-GGGTTTAGGGTTTTTAAGT---TTAAGGGTTTAGGGT
* * *
35285057 TTTTAATTTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTATGGT
1 TTTTAA-ATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
** *
35285103 TTTT-AATTAAATTAGTTTAGGGTTTTTAA-ATTAAGGGTTTAGGGT
1 TTTTAAATT-AA-GGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* * * ** *
35285148 TTTTAATTTTAAGGTTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGC
1 TTTTAA-ATTAAGGGTTTAGGGTTTTTAAGTTTAA-GGGTTTAGGGT
* * *
35285194 TTTTAAGTTAAGGGCTTAGGGTTTTTAATTTTAAGGGTTTAGGGT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* * * * *
35285239 TTTTAATTTAAGGG-TTAGAGTTTTTAAG-CTAATGGTTTATGGT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
*
35285282 TTTTAATTTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGT
1 TTTTAA-ATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
***
35285327 TTTT-AATTAAATTATCTTAGGGTTTTTAAG-TTAAGGGTTTAGGGT
1 TTTTAAATT-AAGGGT-TTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* *
35285372 TTTTAATTTAAGGG-TTAGGGTTTTTAA-TTTAAGGG-TTAAGGT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
* *
35285414 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGGGT
1 TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
35285459 TTTTAA
1 TTTTAA
35285465 GTAATAACTC
Statistics
Matches: 1362, Mismatches: 189, Indels: 231
0.76 0.11 0.13
Matches are distributed among these distances:
33 3 0.00
35 4 0.00
36 16 0.01
37 8 0.01
38 7 0.01
39 13 0.01
40 3 0.00
41 7 0.01
42 121 0.09
43 141 0.10
44 148 0.11
45 500 0.37
46 196 0.14
47 6 0.00
48 2 0.00
49 35 0.03
50 80 0.06
51 61 0.04
52 11 0.01
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.49
Consensus pattern (45 bp):
TTTTAAATTAAGGGTTTAGGGTTTTTAAGTTTAAGGGTTTAGGGT
Found at i:35284178 original size:74 final size:73
Alignment explanation
Indices: 35284080--35284229 Score: 225
Period size: 74 Copynumber: 2.0 Consensus size: 73
35284070 AAGTTAAGCA
35284080 TTTAGGGTTTTAAGTTAAGAGTTTA-TGATTTTTTAATTAAATTAGTTTAGGG-TTTTAAGTTAA
1 TTTAGGGTTTTAAGTTAAGAGTTTAGT-A-TTTTTAATTAAATTAGTTTAGGGTTTTTAAGTTAA
35284143 GGG-TTAGGG
64 GGGTTTAGGG
* *
35284152 TTTAGGGTTTTTTAATTTAAGGGTTTAGTATTTTTAATTAAATTAGTTTAGGGTTTTTAAGTTAA
1 TTTAGGG--TTTTAAGTTAAGAGTTTAGTATTTTTAATTAAATTAGTTTAGGGTTTTTAAGTTAA
35284217 GGGTTTAGGG
64 GGGTTTAGGG
35284227 TTT
1 TTT
35284230 TTAATGAAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
72 7 0.10
73 23 0.32
74 31 0.44
75 10 0.14
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (73 bp):
TTTAGGGTTTTAAGTTAAGAGTTTAGTATTTTTAATTAAATTAGTTTAGGGTTTTTAAGTTAAGG
GTTTAGGG
Found at i:35284512 original size:74 final size:71
Alignment explanation
Indices: 35283796--35285456 Score: 624
Period size: 68 Copynumber: 24.3 Consensus size: 71
35283786 AAGGGTTAAT
* * * *
35283796 GTTTTTAAGTTAAGGG-TTAGG---GTTTTTCA-GTTAAGGGTTTAAGGTTTTAAATTAAATTAG
1 GTTTTTAAGTTAAGGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTAAATTAG
35283856 -TTAGG
66 TTTAGG
* *
35283861 GTTTTTAAGTTTAAGGGTTTATGGTTT-TTAATTAA-ATT-A--GTTTAGGGTTTTTAAGTTAAA
1 GTTTTTAAG-TTAAGGGTTTA-GGTTTGTT-TTTAATTTTAAGGGTTTAGGGTTTTTAA-TTAAA
* *
35283921 --GGGTTAGG
62 TTAGTTTAGG
* * * *
35283929 GTTTTTAAATTTAAGGATTTAAGGTTT-TTAATTAA-ATT-A--GTTTAGGGTTTTTAAGTT-AA
1 GTTTTT-AAGTTAAGGGTTT-AGGTTTGTT-TTTAATTTTAAGGGTTTAGGGTTTTTAA-TTAAA
** *
35283988 -GGGCTTAGG
62 TTAGTTTAGG
* * *
35283997 GTTTTTAATTTTAAGGGTTTAGG---GTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTTAA--G
1 GTTTTTAA-GTTAAGGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTAAATTA
* *
35284057 GGTTATG
65 GTTTAGG
** * * **
35284064 GTTTTTAAGTTAAGCATTTAGG---G-TTTTAA-GTTAAGAGTTTATGATTTTTTAATTAAATTA
1 GTTTTTAAGTTAAGGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTA-GGGTTTTTAATTAAATTA
35284124 GTTTAGG
65 GTTTAGG
**
35284131 G-TTTTAAGTTAAGGG-TTAGGGTTTAGGGTTTTTTAA-TTTAAGGGTTTAGTATTTTTAATTAA
1 GTTTTTAAGTTAAGGGTTTA-GGTTT---G-TTTTTAATTTTAAGGGTTTAGGGTTTTTAATTAA
35284193 ATTAGTTTAGG
61 ATTAGTTTAGG
** ** * *
35284204 GTTTTTAAGTTAAGGGTTTAGG---GTTTTTAA-TGAAATTAGTTTATGGTTTTTAAGTTAAGGG
1 GTTTTTAAGTTAAGGGTTTAGGTTTGTTTTTAATTTTAA-GGGTTTAGGGTTTTTAA-TTAA--A
35284265 TTAGGGTTTAGG
62 TTA--GTTTAGG
** * ** *
35284277 GTTTTTATTTTTAAGGGTTTAGG---GTTTTTAA-TTAAATTAGTTTAGGATTTTTAAGTT-AA-
1 GTTTTTA-AGTTAAGGGTTTAGGTTTGTTTTTAATTTTAA-GGGTTTAGGGTTTTTAA-TTAAAT
** *
35284336 GGGTTTATG
63 TAGTTTAGG
* *
35284345 GTTTTTAATTTTAAGGGTTTAGG---GTTTTTAA-TTTATGGG-TTAGGGTTTTTAAGTT-AA--
1 GTTTTTAA-GTTAAGGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAA-TTAAATT
* * *
35284402 GGGTTAAG
64 AGTTTAGG
* * *
35284410 GTTTTTAAGTTAAGGGTTTAGG---ATTTTTAATTTTAAGGGGTTAGGGTTTTTAATTTAATTAG
1 GTTTTTAAGTTAAGGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTAAATTAG
35284472 TTTAGG
66 TTTAGG
* * * *
35284478 GTTTTGAAGTTAAGGGTTTA-G--TGTTTTTAATTTTAAGGGTTTAGGCTTTTTAATTTAA--GG
1 GTTTTTAAGTTAAGGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTAAATTAG
*
35284538 GTTAGG
66 TTTAGG
* * *
35284544 G-TTTTAAGTTAATGGTTTAGG---GTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTTAA--GG
1 GTTTTTAAGTTAAGGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTAAATTAG
*
35284603 GTTA-G
66 TTTAGG
* *
35284608 GTTTTTAAGTTAAGGGTTTAAGGTTT-TTAATTAA-ATT-A--GTTTAGGGTTTTTAAGTT-AA-
1 GTTTTTAAGTTAAGGGTTT-AGGTTTGTT-TTTAATTTTAAGGGTTTAGGGTTTTTAA-TTAAAT
**
35284666 GGGTTTAGG
63 TAGTTTAGG
* * *
35284675 GTTTTTAA-TTAA---ATTA-GTTTAGAGTTTTTAA-GTTAAGGG-TTAGGGTTTTTAAGT---T
1 GTTTTTAAGTTAAGGGTTTAGGTTT---GTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTAAAT
*
35284730 TA----AGA
63 TAGTTTAGG
** * ** *
35284735 GTTTTTAA-TTAAATTAGTTTAGCGTTT-TTAAGTTAAGGGTT-AGGGTTTAGGGTTTAAGGTTT
1 GTTTTTAAGTT-AA-GGGTTTAG-GTTTGTT--TTTAA-TTTTAAGGGTTTAGGGTTT----TTA
* *
35284797 TTTAATTTAAAGGTTTAGG
56 ATTAAATT--A-GTTTAGG
** * *
35284816 GTTTTTAA-TTGAATTAGTTTAGGGTTTAATTTTTAA-GTTAAGGGTTTAGGGTTTTTAATTAAA
1 GTTTTTAAGTT-AA-GGGTTTA-GGTTT-GTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTAAA
*
35284879 TTTGTTTAGG
62 TTAGTTTAGG
* * * *
35284889 GTTTTTAAGTTAAGGG-TTA-G--AGTTTTTAAGTTTAAGGATTTAGGGTTTTAAATTAAATTAG
1 GTTTTTAAGTTAAGGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTAAATTAG
35284950 TTTAGG
66 TTTAGG
*
35284956 G-TTTTAAGTTAAGGG-TTAGGGTTTAGGGTTTTTATTTTTAAGGGTTTAGGGTTTTTAATTAAA
1 GTTTTTAAGTTAAGGGTTTA-GGTTT---GTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTAAA
35285019 TTAGTTTAGG
62 TTAGTTTAGG
* *
35285029 GTTTTTAA-TTAA--GTTAAGGGTTTAAGGTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTTTA
1 GTTTTTAAGTTAAGGGTTTA-GGTTT---GTTTTTAATTTTAAGGGTTTAGGGTTTTTAA-TTAA
** *
35285091 A-GGGTTTATG
61 ATTAGTTTAGG
** *
35285101 GTTTTTAA-TTAAATTAGTTTAGG---GTTTTTAA-ATTAAGGGTTTAGGGTTTTTAATT---TT
1 GTTTTTAAGTT-AA-GGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTAAATT
35285158 AAGGTTTTAGG
64 -A-G-TTTAGG
** * * * *
35285169 GTTTTTAA-TTAAATTAGTTTAGG---GCTTTTAA-GTTAAGGGCTTAGGGTTTTTAATTTTAA-
1 GTTTTTAAGTT-AA-GGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAA-TTAAAT
**
35285228 GGGTTTAGG
63 TAGTTTAGG
* * ** * * * **
35285237 GTTTTTAATTTAAGGG-TTA-G--AGTTTTTAA-GCTAATGGTTTATGGTTTTTAATTTTAA-GG
1 GTTTTTAAGTTAAGGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAA-TTAAATTA
35285296 GTTTAGG
65 GTTTAGG
* * *** *
35285303 GTTTTTAATTTAAGGGTTTAGG---GTTTTTAA-TTAAATTATCTTAGGGTTTTTAAGTT-AA-G
1 GTTTTTAAGTTAAGGGTTTAGGTTTGTTTTTAATTTTAAGGGT-TTAGGGTTTTTAA-TTAAATT
*
35285362 GGTTTAGG
64 AGTTTAGG
* * **
35285370 GTTTTTAATTTAAGGG-TTAGG---GTTTTTAA-TTTAAGGG-TTAAGGTTTTTAAGTT-AA-GG
1 GTTTTTAAGTTAAGGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAA-TTAAATTA
35285427 GTTTAGG
65 GTTTAGG
*
35285434 GTTTTTAATTTTAAGGGTTTAGG
1 GTTTTTAA-GTTAAGGGTTTAGG
35285457 GTTTTTAAGT
Statistics
Matches: 1327, Mismatches: 143, Indels: 251
0.77 0.08 0.15
Matches are distributed among these distances:
60 12 0.01
61 6 0.00
62 1 0.00
63 4 0.00
64 76 0.06
65 167 0.13
66 210 0.16
67 152 0.11
68 330 0.25
69 30 0.02
70 3 0.00
71 15 0.01
72 58 0.04
73 109 0.08
74 86 0.06
75 5 0.00
76 13 0.01
79 3 0.00
80 14 0.01
81 30 0.02
82 1 0.00
83 2 0.00
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.49
Consensus pattern (71 bp):
GTTTTTAAGTTAAGGGTTTAGGTTTGTTTTTAATTTTAAGGGTTTAGGGTTTTTAATTAAATTAG
TTTAGG
Found at i:35284862 original size:191 final size:186
Alignment explanation
Indices: 35284609--35285108 Score: 640
Period size: 191 Copynumber: 2.7 Consensus size: 186
35284599 AAGGGTTAGG
* *
35284609 TTTTTAAGTTAAGGGTTTAAGGTTTTTAATTAAATTAGTTTAGGG---TTTTTAAGTTAAGGGTT
1 TTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTTTTTAAGTTAAGGGTT
*
35284671 TAGGGTTTTTAATTAAATTAGTTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTTAA-G-
66 TAGGGTTTTTAATTAAATTAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTTAAGGT
* *
35284734 A-GTTTTTAATTAAATTAGTTTAGCGTTTTTAAGTTAAGGGTTAGGGTTTAGGGTTTAAGGT
131 AGGTTTTAAATTAAATTAGTTTAG-GGTTTTAAGTTAAGGGTTAGGGTTTAGGG-TT----T
* *
35284795 TTTTTAATTTAAAGGTTTAGGGTTTTTAATTGAATTAGTTTAGGGTTTAATTTTTAAGTTAAGGG
1 TTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTTT--TTTTTAAGTTAAGGG
* *
35284860 TTTAGGGTTTTTAATTAAATTTGTTTAGGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTTAAG
64 TTTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTTAAG
35284925 GATTTAGGGTTTTAAATTAAATTAGTTTAGGGTTTTAAGTTAAGGGTTAGGGTTTAGGGTTT
129 G---TA-GGTTTTAAATTAAATTAGTTTAGGGTTTTAAGTTAAGGGTTAGGGTTTAGGGTTT
* *
35284987 TTATT--TTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTTAATTAAGTTAAGGGT
1 TTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTT-TTTAAGTTAAGGGT
* * ** * *
35285050 TTAAGGTTTTTAATTTTAA-GGGTTTAGGGTTTTTAATTTTAAGGGTTTATGGTTTTTAA
65 TTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAA-GTTAAGGG-TTAGGGTTTTTAA
35285109 TTAAATTAGT
Statistics
Matches: 278, Mismatches: 20, Indels: 27
0.86 0.06 0.08
Matches are distributed among these distances:
186 41 0.15
188 2 0.01
189 40 0.14
190 50 0.18
191 87 0.31
192 6 0.02
196 3 0.01
197 28 0.10
198 21 0.08
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (186 bp):
TTTTTAATTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTTTTTAAGTTAAGGGTT
TAGGGTTTTTAATTAAATTAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTTAAGGT
AGGTTTTAAATTAAATTAGTTTAGGGTTTTAAGTTAAGGGTTAGGGTTTAGGGTTT
Found at i:35286634 original size:7 final size:7
Alignment explanation
Indices: 35286624--35286649 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35286614 TTATATACAT
35286624 AATACTA
1 AATACTA
35286631 AATACTA
1 AATACTA
35286638 AATACTA
1 AATACTA
35286645 AATAC
1 AATAC
35286650 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:35286856 original size:20 final size:20
Alignment explanation
Indices: 35286819--35286856 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35286809 TTTATTTTTA
*
35286819 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
35286839 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
35286857 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:35287857 original size:11 final size:11
Alignment explanation
Indices: 35287843--35287908 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 11
35287833 TTAAATATGG
35287843 ATTTGAGAGAA
1 ATTTGAGAGAA
*
35287854 ATTTG-GAAGGA
1 ATTTGAG-AGAA
*
35287865 ATTTGATAGCAA
1 ATTTGAGAG-AA
35287877 A-TTGAGAGGAA
1 ATTTGAGA-GAA
35287888 A-TTGAGAGGAA
1 ATTTGAGA-GAA
35287899 ATTTGAGAGA
1 ATTTGAGAGA
35287909 GGATTAGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
10 1 0.02
11 36 0.78
12 9 0.20
ACGTcount: A:0.42, C:0.02, G:0.30, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:35287868 original size:22 final size:23
Alignment explanation
Indices: 35287843--35287911 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
35287833 TTAAATATGG
35287843 ATTTGAGAGAAATTTGGA-AGGA
1 ATTTGAGAGAAATTTGGAGAGGA
*
35287865 ATTTGATAGCAAA-TT-GAGAGGA
1 ATTTGAGAG-AAATTTGGAGAGGA
*
35287887 AATTGAGAGGAAATTTGAGAGAGGA
1 ATTTGAGA-GAAATTTG-GAGAGGA
35287912 TTAGTTTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.05
22 23 0.61
23 6 0.16
25 7 0.18
ACGTcount: A:0.42, C:0.01, G:0.32, T:0.25
Consensus pattern (23 bp):
ATTTGAGAGAAATTTGGAGAGGA
Found at i:35287911 original size:14 final size:11
Alignment explanation
Indices: 35287861--35287907 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
35287851 GAAATTTGGA
* *
35287861 AGGAATTTGAT
1 AGGAAATTGAG
*
35287872 AGCAAATTGAG
1 AGGAAATTGAG
35287883 AGGAAATTGAG
1 AGGAAATTGAG
35287894 AGGAAATTTGAG
1 AGGAAA-TTGAG
35287906 AG
1 AG
35287908 AGGATTAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 24 0.77
12 7 0.23
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.23
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:35288606 original size:50 final size:50
Alignment explanation
Indices: 35288538--35288640 Score: 179
Period size: 50 Copynumber: 2.1 Consensus size: 50
35288528 CAATTTATTA
* * *
35288538 TTTATTATTTATATCAAATTTTTTATAAATGTATTTGTTATATAATTTGT
1 TTTATTATTTATATCAAATTTTTAATAAATGTATTTGTTACATAAATTGT
35288588 TTTATTATTTATATCAAATTTTTAATAAATGTATTTGTTACATAAATTGT
1 TTTATTATTTATATCAAATTTTTAATAAATGTATTTGTTACATAAATTGT
35288638 TTT
1 TTT
35288641 TCGCCCACAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (50 bp):
TTTATTATTTATATCAAATTTTTAATAAATGTATTTGTTACATAAATTGT
Found at i:35288992 original size:26 final size:28
Alignment explanation
Indices: 35288944--35288995 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
35288934 TGATTTAAAT
35288944 TAAATAAATTATTAAAAATTTATAAAAA
1 TAAATAAATTATTAAAAATTTATAAAAA
35288972 TAAA-AAA-TATTAATAAA-TTATAAA
1 TAAATAAATTATTAA-AAATTTATAAA
35288996 GCTCAAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 13 0.57
27 6 0.26
28 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
TAAATAAATTATTAAAAATTTATAAAAA
Found at i:35292951 original size:3 final size:3
Alignment explanation
Indices: 35292943--35292975 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
35292933 CAAGAACAAA
35292943 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
35292976 GAAAAGACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:35293565 original size:15 final size:16
Alignment explanation
Indices: 35293547--35293578 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
35293537 AATGTAAACA
35293547 AATTTGAAAAT-AATG
1 AATTTGAAAATGAATG
35293562 AATTTGAAAATGAATG
1 AATTTGAAAATGAATG
35293578 A
1 A
35293579 TAAGGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (16 bp):
AATTTGAAAATGAATG
Found at i:35293868 original size:22 final size:22
Alignment explanation
Indices: 35293833--35293899 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
35293823 AAAGGATATC
* *
35293833 TACAAATTAAATCTT-TAAGAT
1 TACAAATCACATCTTCTAAGAT
*
35293854 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCACATCTTCTAAGAT
* *
35293877 TGCATATCACATCTTCTAAGAT
1 TACAAATCACATCTTCTAAGAT
35293899 T
1 T
35293900 GCATATCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 3 0.08
22 28 0.72
23 8 0.21
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.37
Consensus pattern (22 bp):
TACAAATCACATCTTCTAAGAT
Found at i:35293900 original size:22 final size:22
Alignment explanation
Indices: 35293843--35293907 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
35293833 TACAAATTAA
* * *
35293843 ATCTT-TAAGATTACAAAATCAT
1 ATCTTCTAAGATTGC-ATATCAC
35293865 ATCTTCTAAGATTGCATATCAC
1 ATCTTCTAAGATTGCATATCAC
35293887 ATCTTCTAAGATTGCATATCA
1 ATCTTCTAAGATTGCATATCA
35293908 TAACTAAGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
22 31 0.79
23 8 0.21
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (22 bp):
ATCTTCTAAGATTGCATATCAC
Found at i:35295960 original size:12 final size:11
Alignment explanation
Indices: 35295943--35295976 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
35295933 CACAAACAAA
35295943 TCCTCTCATATT
1 TCCTCTCA-ATT
35295955 TCCTCTCAA-T
1 TCCTCTCAATT
35295965 TCCTCTCAATT
1 TCCTCTCAATT
35295976 T
1 T
35295977 TCTTCCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 3 0.14
12 8 0.38
ACGTcount: A:0.18, C:0.35, G:0.00, T:0.47
Consensus pattern (11 bp):
TCCTCTCAATT
Found at i:35295992 original size:22 final size:22
Alignment explanation
Indices: 35295962--35296017 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
35295952 ATTTCCTCTC
*
35295962 AATTCCTCTCAATTTTCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
35295985 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
35296007 AATTCTCTCAA
1 AATTCTCTCAA
35296018 ATCCATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:35297206 original size:7 final size:7
Alignment explanation
Indices: 35297196--35297220 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35297186 ATTCAATTGA
35297196 TATTTAG
1 TATTTAG
35297203 TATTTAG
1 TATTTAG
35297210 TATTTAG
1 TATTTAG
35297217 TATT
1 TATT
35297221 ATGTATATAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:35297893 original size:18 final size:18
Alignment explanation
Indices: 35297867--35297901 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35297857 AGGTGTATTT
*
35297867 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
35297885 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
35297902 TCCTTTTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:35298450 original size:30 final size:25
Alignment explanation
Indices: 35298378--35298515 Score: 146
Period size: 25 Copynumber: 5.7 Consensus size: 25
35298368 TATTTTGATA
35298378 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
35298403 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
**
35298428 TTATTTGATGTAATAAAATA-AAAA
1 TTATTTGATGTAATAAAATAGAAGT
** ** *
35298452 AAATTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
35298472 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
35298498 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
35298516 ACCCTAACCT
Statistics
Matches: 91, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
20 2 0.02
21 9 0.10
22 1 0.01
23 1 0.01
24 11 0.12
25 66 0.73
26 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.14, T:0.41
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:35298492 original size:45 final size:44
Alignment explanation
Indices: 35298312--35298492 Score: 159
Period size: 44 Copynumber: 4.0 Consensus size: 44
35298302 TTATTTGTAC
* * *
35298312 AAATATTTTGA-TTATTTTGATATTATTTTATGTAAAAAAATAGA
1 AAATA-TTTGAGTTATTTTGATATTATTTGATGTAATAAAATAAA
* *
35298356 AATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAA
1 AAATATTTGAGTTATTTTGATATTATTTGATGTAATAAAATA-AA
*** ** *
35298401 GTTTATTTGATGTAATAAAATAGA-AGTTTATTTGATGTAATAAAATAAA
1 AAATATTTGA-GT--T-ATTTTGATA--TTATTTGATGTAATAAAATAAA
*
35298450 AAAAATTTCGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 AAATATTT-GAGTTATTTTGATATTATTTGATGTAATAAAATA
35298493 GAAGTTTATT
Statistics
Matches: 109, Mismatches: 18, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
43 5 0.05
44 32 0.29
45 28 0.26
46 6 0.06
47 2 0.02
48 2 0.02
49 12 0.11
50 22 0.20
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.45
Consensus pattern (44 bp):
AAATATTTGAGTTATTTTGATATTATTTGATGTAATAAAATAAA
Found at i:35298505 original size:35 final size:35
Alignment explanation
Indices: 35298403--35298506 Score: 88
Period size: 35 Copynumber: 3.0 Consensus size: 35
35298393 AAATAGAAGT
*
35298403 TTATTTGATGTAATAAAATAGAAGTTTATTTGATG
1 TTATTTGATGTAATAAAATAGAAGTTTATTTGATA
* *** * * *
35298438 TAATAAAAT-AAAAAAAATTTCG-AG-TTATTTTGATA
1 TTATTTGATGTAATAAAA--TAGAAGTTTA-TTTGATA
35298473 TTATTTGATGTAATAAAATAGAAGTTTATTTGAT
1 TTATTTGATGTAATAAAATAGAAGTTTATTTGAT
35298507 GTAATAAAAA
Statistics
Matches: 48, Mismatches: 15, Indels: 12
0.64 0.20 0.16
Matches are distributed among these distances:
34 11 0.23
35 26 0.54
36 11 0.23
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.43
Consensus pattern (35 bp):
TTATTTGATGTAATAAAATAGAAGTTTATTTGATA
Found at i:35298571 original size:29 final size:29
Alignment explanation
Indices: 35298531--35298931 Score: 408
Period size: 29 Copynumber: 14.4 Consensus size: 29
35298521 AACCTAATTT
* *
35298531 AACCCTAAACCCTAACTTAAATTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
*
35298561 AACTCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
35298590 AACCCTAACCCTAACCCTAATCTAAATTAATTACA
1 AACCCTAACCCTAA-CCTAA--T---TTAATTAAA
35298625 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
35298654 AACCCTAACCCCTAACCTAAATTAATTACA
1 AACCCTAA-CCCTAACCTAATTTAATTAAA
35298684 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
35298713 AGCCCTAAACCCT----T-A---ACTTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
*
35298735 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
35298764 AA--CT----CTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
35298787 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
35298816 AACCCTAAACCCT----T-A---ACTTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
*
35298838 AACCCTAACCTTAACCTAATTTAATT--A
1 AACCCTAACCCTAACCTAATTTAATTAAA
35298865 AA----AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
35298890 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
35298919 AACCCTAAACCCT
1 AACCCT-AACCCT
35298932 TAACTTAAAA
Statistics
Matches: 313, Mismatches: 20, Indels: 76
0.77 0.05 0.19
Matches are distributed among these distances:
21 10 0.03
22 23 0.07
23 39 0.12
25 9 0.03
26 4 0.01
27 5 0.02
29 139 0.44
30 55 0.18
32 2 0.01
34 5 0.02
35 22 0.07
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:35298594 original size:23 final size:23
Alignment explanation
Indices: 35298511--35298599 Score: 70
Period size: 23 Copynumber: 3.6 Consensus size: 23
35298501 TTTGATGTAA
*
35298511 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAATTTAAT
*** * *
35298534 CCTAAACCCTAACTTAAATTAAT
1 TAAAAACCCTAACCTAATTTAAT
35298557 TAAAAACTCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
35298586 TAAAAACCCTAACC
1 TAAAAACCCTAACC
35298600 CTAACCCTAA
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
23 27 0.55
25 1 0.02
27 3 0.06
29 18 0.37
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:35298633 original size:64 final size:63
Alignment explanation
Indices: 35298530--35298725 Score: 285
Period size: 64 Copynumber: 3.1 Consensus size: 63
35298520 TAACCTAATT
* *
35298530 TAACCCTAAACCCTAACTTAAATTAATTAAAAACTCTAACCCTAACCTAATTTAATTAAAAACCC
1 TAACCCT-AACCCTAAC-TAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
35298595 TAACCCTAACCCTAATCTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
1 TAACCCTAACCCTAA-CTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
*
35298659 TAA--C---CCCTAACCTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAGCCC
1 TAACCCTAACCCTAA-CTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
35298718 TAAACCCT
1 T-AACCCT
35298726 TAACTTAAAA
Statistics
Matches: 122, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
59 54 0.44
60 2 0.02
62 2 0.02
64 56 0.46
65 8 0.07
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.27
Consensus pattern (63 bp):
TAACCCTAACCCTAACTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
Found at i:35298743 original size:51 final size:50
Alignment explanation
Indices: 35298675--35298960 Score: 396
Period size: 51 Copynumber: 5.6 Consensus size: 50
35298665 CTAACCTAAA
* *
35298675 TTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAGCCCTAAACCC
1 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
* * *
35298725 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACTCT-AACCTAAT
1 TTAA-TTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACC---C
35298778 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
* *
35298828 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCT-AACCTAAT
1 TTAA-TTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACC---C
35298881 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
* *
35298931 TTAACTTAAAAACCCTAACCTTAACGTAAT
1 TTAA-TTAAAAACCCTAACCCTAACCTAAT
35298961 GTTAGATTTA
Statistics
Matches: 211, Mismatches: 14, Indels: 21
0.86 0.06 0.09
Matches are distributed among these distances:
50 20 0.09
51 98 0.46
52 77 0.36
53 16 0.08
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (50 bp):
TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
Found at i:35298744 original size:21 final size:21
Alignment explanation
Indices: 35298704--35298749 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
35298694 CTAACCTAAT
*
35298704 TTAA-TTAAAAGCCCTAAACCC
1 TTAACTTAAAAACCCTAAA-CC
35298725 TTAACTTAAAAACCCT-AACC
1 TTAACTTAAAAACCCTAAACC
35298745 TTAAC
1 TTAAC
35298750 CTAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 6 0.26
22 10 0.43
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.26
Consensus pattern (21 bp):
TTAACTTAAAAACCCTAAACC
Found at i:35298782 original size:74 final size:75
Alignment explanation
Indices: 35298645--35298954 Score: 211
Period size: 74 Copynumber: 4.1 Consensus size: 75
35298635 CTAACCTAAT
35298645 TTAATTAAAAACCCTAACCCCTAACCTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATT
1 TTAATTAAAAACCCTAACCCCTAACCTAAATTAATTA-AAA--C-AACCCTAACCTAATTTAATT
*
35298710 AAAAGCCCTAAACCC
62 AAAAACCCT-AACCC
* * *
35298725 TTAACTTAAAAACCCTAA-CCTTAACCTAATTTAATT-AAA-AACTCTAACCTAATTTAATTAAA
1 TTAA-TTAAAAACCCTAACCCCTAACCTAAATTAATTAAAACAACCCTAACCTAATTTAATTAAA
35298787 AACCCTAACCCTAACC
65 AACCCTAA--C---CC
* * * *
35298803 TAATTTAATTAAAAACCCTAAACCCT----TAACTTAA--AAACCCTAACCTTAACCTAATTTAA
1 ----TTAATTAAAAACCCTAACCCCTAACCTAAATTAATTAAA-AC-AACCCTAACCTAATTTAA
*
35298862 TTAAAAACCCTAACCTAAT
60 TTAAAAACCCTAACC---C
* *
35298881 TTAATTAAAAACCCTAA-CCCTAACCTAATTTAATT-AAA-AACCCTAAACC---CTTAACTTAA
1 TTAATTAAAAACCCTAACCCCTAACCTAAATTAATTAAAACAACCCT-AACCTAATTTAA-TTAA
35298940 AAACCCTAA-CC
64 AAACCCTAACCC
35298951 TTAA
1 TTAA
35298955 CGTAATGTTA
Statistics
Matches: 189, Mismatches: 15, Indels: 62
0.71 0.06 0.23
Matches are distributed among these distances:
70 4 0.02
73 11 0.06
74 57 0.30
75 7 0.04
76 4 0.02
77 9 0.05
78 15 0.08
80 49 0.26
81 26 0.14
82 7 0.04
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (75 bp):
TTAATTAAAAACCCTAACCCCTAACCTAAATTAATTAAAACAACCCTAACCTAATTTAATTAAAA
ACCCTAACCC
Found at i:35298794 original size:18 final size:20
Alignment explanation
Indices: 35298748--35298790 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
35298738 CCTAACCTTA
35298748 ACCTAATTTAATTAAAAACTC
1 ACCTAATTTAATTAAAAAC-C
35298769 TAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
35298791 CTAACCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.33
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:35298839 original size:22 final size:20
Alignment explanation
Indices: 35298807--35298852 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
35298797 CTAACCTAAT
35298807 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
35298828 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
35298848 TTAAC
1 TTAAC
35298853 CTAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:35298897 original size:18 final size:20
Alignment explanation
Indices: 35298851--35298893 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
35298841 CCTAACCTTA
35298851 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
35298872 TAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
35298894 CTAACCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:35298942 original size:22 final size:20
Alignment explanation
Indices: 35298910--35298955 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
35298900 CTAACCTAAT
35298910 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
35298931 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
35298951 TTAAC
1 TTAAC
35298956 GTAATGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:35299161 original size:116 final size:116
Alignment explanation
Indices: 35298957--35299174 Score: 391
Period size: 116 Copynumber: 1.9 Consensus size: 116
35298947 AACCTTAACG
*
35298957 TAATGTTAGATTTAGAAAAATGTTTTGACTGGTATTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTAGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
*
35299022 ATTTTACTAACTATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
* * *
35299073 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTAGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
35299138 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
35299175 CAATTTATCA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 97 1.00
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (116 bp):
TAATGTTAGATTTAGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:35299191 original size:17 final size:18
Alignment explanation
Indices: 35299150--35299191 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
35299140 TTTACTAACC
* *
35299150 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
35299168 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
35299185 ATTAATA
1 ATTAATA
35299192 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:35302343 original size:125 final size:125
Alignment explanation
Indices: 35302184--35302562 Score: 580
Period size: 125 Copynumber: 3.0 Consensus size: 125
35302174 CCCAAACATG
*
35302184 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
35302249 TAAAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGAC
* * *
35302309 CTACTGTAGCAAAAGCGCG-CTGACGAGGCCGCGATTTCACAAATTCTTCTTAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * *
35302373 CTAGAAGAGATTTTATACTATTTGCTCAGAAACATCAAAAAAATAATTATTTCTTCCGTGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-AATTATTTCTTCCATGAC
*
35302435 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
** *** *
35302500 TAGAAGCGATTTTATACTATTTTATCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGAC
35302560 CTA
1 CTA
35302563 AAAACCCTTA
Statistics
Matches: 228, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
124 1 0.00
125 116 0.51
126 110 0.48
127 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTCCATGAC
Found at i:35315029 original size:45 final size:45
Alignment explanation
Indices: 35314965--35315189 Score: 285
Period size: 45 Copynumber: 5.0 Consensus size: 45
35314955 TACTACGTGT
35314965 ACTGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
1 ACTGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*
35315010 ACTGAGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
1 ACTGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * * * * *
35315055 ACCGGGTACCATTAATTATAAAGGTGGTTGCTATGTGTTGACTCC
1 ACTGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* ** *
35315100 ACTG-GAAATCATTGAAAATAAAGGTGGTTGCTATATGCTGATTCC
1 ACTGAG-TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * * *
35315145 ACCGAATATAATTGATTATAAGGGTGG-TGCTATGTGCTGA-TCC
1 ACTGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
35315188 AC
1 AC
35315190 CGTGTAATGG
Statistics
Matches: 155, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
43 5 0.03
44 13 0.08
45 137 0.88
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (45 bp):
ACTGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:35320044 original size:19 final size:19
Alignment explanation
Indices: 35320016--35320057 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
35320006 TGAGAGCTAA
*
35320016 GAGAGTTGAGAGAGAGGAT
1 GAGAGATGAGAGAGAGGAT
* *
35320035 GAGAGATGAGAGGGATGAT
1 GAGAGATGAGAGAGAGGAT
35320054 GAGA
1 GAGA
35320058 TGAGGGATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.48, T:0.14
Consensus pattern (19 bp):
GAGAGATGAGAGAGAGGAT
Found at i:35320057 original size:17 final size:16
Alignment explanation
Indices: 35320022--35320067 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
35320012 CTAAGAGAGT
35320022 TGAGA-GAGAGGATGA
1 TGAGATGAGAGGATGA
35320037 -GAGATGAGAGGGATGA
1 TGAGATGAGA-GGATGA
35320053 TGAGATGAG-GGATGA
1 TGAGATGAGAGGATGA
35320068 AGTGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.14
15 10 0.36
16 6 0.21
17 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.48, T:0.15
Consensus pattern (16 bp):
TGAGATGAGAGGATGA
Found at i:35323366 original size:18 final size:18
Alignment explanation
Indices: 35323343--35323378 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
35323333 CCCCAAAGTG
35323343 AAGTGGTTTTGGTAAATC
1 AAGTGGTTTTGGTAAATC
35323361 AAGTGGTTTTGGTAAATC
1 AAGTGGTTTTGGTAAATC
35323379 GTTAAGTATC
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:0.28, C:0.06, G:0.28, T:0.39
Consensus pattern (18 bp):
AAGTGGTTTTGGTAAATC
Found at i:35325109 original size:29 final size:29
Alignment explanation
Indices: 35325076--35325141 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
35325066 ACCTTGTGAG
35325076 ACTTATGATGTGTATAGGCAATTAAATGA
1 ACTTATGATGTGTATAGGCAATTAAATGA
35325105 ACTTATGATGTGTATAGGCAATTAAATGA
1 ACTTATGATGTGTATAGGCAATTAAATGA
35325134 ACTTATGA
1 ACTTATGA
35325142 CCTTGATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.35
Consensus pattern (29 bp):
ACTTATGATGTGTATAGGCAATTAAATGA
Found at i:35330151 original size:21 final size:21
Alignment explanation
Indices: 35330118--35330172 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
35330108 TAAGGTCGTA
* **
35330118 TACCTCAGTCACACGGTTGTG
1 TACCTCAGCCACACGGCCGTG
*
35330139 TACCTTAGCCACACGGCCGTG
1 TACCTCAGCCACACGGCCGTG
*
35330160 TATCTCAGCCACA
1 TACCTCAGCCACA
35330173 TGGTCTTGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.24
Consensus pattern (21 bp):
TACCTCAGCCACACGGCCGTG
Found at i:35340279 original size:25 final size:25
Alignment explanation
Indices: 35340251--35340310 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
35340241 CGATATACGA
* *
35340251 TAAGCTCCTCCGAGCTGAATAACGG
1 TAAGCTCATACGAGCTGAATAACGG
* *
35340276 TAAGCTCATACGAGCTGAGTATCGG
1 TAAGCTCATACGAGCTGAATAACGG
35340301 TAAGCTCATA
1 TAAGCTCATA
35340311 AAAGCTGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAATAACGG
Found at i:35340316 original size:25 final size:25
Alignment explanation
Indices: 35340263--35340327 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
35340253 AGCTCCTCCG
* * **
35340263 AGCTGAATAACGGTAAGCTCATACG
1 AGCTGAGTATCGGTAAGCTCATAAA
35340288 AGCTGAGTATCGGTAAGCTCATAAA
1 AGCTGAGTATCGGTAAGCTCATAAA
*
35340313 AGCTG-GAATCGGTAA
1 AGCTGAGTATCGGTAA
35340328 CCCTAATGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
24 9 0.26
25 26 0.74
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (25 bp):
AGCTGAGTATCGGTAAGCTCATAAA
Found at i:35340441 original size:13 final size:13
Alignment explanation
Indices: 35340423--35340447 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35340413 TATTTTAATA
35340423 TTATTTTGTGTGT
1 TTATTTTGTGTGT
35340436 TTATTTTGTGTG
1 TTATTTTGTGTG
35340448 CATTTGATTG
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:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:35342058 original size:41 final size:40
Alignment explanation
Indices: 35342013--35342363 Score: 483
Period size: 41 Copynumber: 8.6 Consensus size: 40
35342003 CGGACGTTAC
35342013 GTCTAGCAGGCTTAATGCCGGTGAAGTA-ATTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTG-A-TACATTCAGACTTTAA
35342054 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGATACA-TTCAGACTTTAA
*
35342095 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGATACA-TTCAGACTTTAA
**
35342136 GTCTAGCAGGCTTAATGCCGGTGATATTTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGATACATTCAGACTTTAA
35342176 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGATACA-TTCAGACTTTAA
* *
35342217 GTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGATACA-TTCAGACTTTAA
* *
35342258 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
1 GTCTAGCAGGCTTAATGCCGGTGATACA-TTCAGACTTTAA
* *
35342299 GTCTAGCAGGC-TAAGTGCCGGTG-TACTGAATCAGGCTTTAA
1 GTCTAGCAGGCTTAA-TGCCGGTGATAC--ATTCAGACTTTAA
* **
35342340 GCCTAGCAGGCAAAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGA
35342364 ATCTGTTTAA
Statistics
Matches: 286, Mismatches: 16, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
39 2 0.01
40 46 0.16
41 235 0.82
42 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (40 bp):
GTCTAGCAGGCTTAATGCCGGTGATACATTCAGACTTTAA
Found at i:35342283 original size:163 final size:163
Alignment explanation
Indices: 35342013--35342363 Score: 530
Period size: 163 Copynumber: 2.1 Consensus size: 163
35342003 CGGACGTTAC
*
35342013 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTG-AGTAATTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGA
* *
35342078 TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGC
65 TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAAGTCTAGC
**
35342143 AGGCTTAA-TGCCGGTGATA-T-TTTCAGACTTTAA
130 AGGC-TAAGTGCCGGTG-TACTGAATCAGACTTTAA
35342176 GTCTAGCAGGCTTAATGCCGGTGA-TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGAGTA-A-TTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTG
* *
35342240 ATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAG
64 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAAGTCTAG
*
35342305 CAGGCTAAGTGCCGGTGTACTGAATCAGGCTTTAA
129 CAGGCTAAGTGCCGGTGTACTGAATCAGACTTTAA
* **
35342340 GCCTAGCAGGCAAAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGA
35342364 ATCTGTTTAA
Statistics
Matches: 172, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
161 2 0.01
162 7 0.04
163 132 0.77
164 31 0.18
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (163 bp):
GTCTAGCAGGCTTAATGCCGGTGAGTAATTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGAT
ACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAAGTCTAGCA
GGCTAAGTGCCGGTGTACTGAATCAGACTTTAA
Found at i:35348238 original size:13 final size:13
Alignment explanation
Indices: 35348220--35348244 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35348210 TATTTTAATA
35348220 TTATTTTGTGTGT
1 TTATTTTGTGTGT
35348233 TTATTTTGTGTG
1 TTATTTTGTGTG
35348245 CATTTGATTG
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:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:35349858 original size:41 final size:40
Alignment explanation
Indices: 35349813--35350166 Score: 457
Period size: 41 Copynumber: 8.7 Consensus size: 40
35349803 CGGACGTTAC
35349813 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGAA-TAATTCAGACTTTAA
35349854 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAA
*
35349895 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGA-ATAATTCAGACTTTAA
*
35349936 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGA-ATAATTCAGACTTTAA
35349977 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAA
* *
35350018 GTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGA-ATAATTCAGACTTTAA
* *
35350059 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTATAT
1 GTCTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAA
* *
35350100 GTCTAGCAGGC-TAAGTGCCGGTGTACTGAA-TCAGGCTTTAA
1 GTCTAGCAGGCTTAA-TGCCGGTG-AAT-AATTCAGACTTTAA
* **
35350141 GCCTAGCAGGCAAAATGCCGGTGAAT
1 GTCTAGCAGGCTTAATGCCGGTGAAT
35350167 CTGTTTAAAT
Statistics
Matches: 283, Mismatches: 15, Indels: 31
0.86 0.05 0.09
Matches are distributed among these distances:
39 8 0.03
40 7 0.02
41 257 0.91
42 2 0.01
43 8 0.03
44 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (40 bp):
GTCTAGCAGGCTTAATGCCGGTGAATAATTCAGACTTTAA
Found at i:35349913 original size:82 final size:83
Alignment explanation
Indices: 35349813--35350166 Score: 517
Period size: 82 Copynumber: 4.3 Consensus size: 83
35349803 CGGACGTTAC
35349813 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAA-TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGT
35349876 GATACATTTCAGACTTTAA
65 GATACATTTCAGACTTTAA
*
35349895 GTCTAGCAGGCTTAATGCCGGTG-ATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
35349959 ATATATTTCAGACTTTAA
66 ATACATTTCAGACTTTAA
*
35349977 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
35350041 ATATATTTCAGACTTTAA
66 ATACATTTCAGACTTTAA
* *
35350059 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGT
* *
35350122 G-TAC-TGAATCAGGCTTTAA
65 GATACAT--TTCAGACTTTAA
* **
35350141 GCCTAGCAGGCAAAATGCCGGTGAAT
1 GTCTAGCAGGCTTAATGCCGGTGAAT
35350167 CTGTTTAAAT
Statistics
Matches: 254, Mismatches: 12, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
80 3 0.01
81 7 0.03
82 242 0.95
83 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (83 bp):
GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
ATACATTTCAGACTTTAA
Found at i:35350032 original size:123 final size:123
Alignment explanation
Indices: 35349813--35350122 Score: 543
Period size: 123 Copynumber: 2.5 Consensus size: 123
35349803 CGGACGTTAC
*
35349813 GTCTAGCAGGCTTAATGCCGGTGA-AGTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGATA-TATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
35349877 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
65 ATACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
35349936 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
35350001 TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
66 TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
* * *
35350059 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTG
35350123 TACTGAATCA
Statistics
Matches: 180, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
122 3 0.02
123 176 0.98
124 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
Found at i:35350139 original size:123 final size:122
Alignment explanation
Indices: 35349813--35350164 Score: 541
Period size: 123 Copynumber: 2.9 Consensus size: 122
35349803 CGGACGTTAC
35349813 GTCTAGCAGGCTTAATGCCGGTGAAGTAA-TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTG-A-TAATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
35349877 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
64 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
35349936 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGATA-ATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
*
35350001 TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
65 TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
* *
35350059 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGATA-ATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTG
* * * **
35350123 -TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
64 ATACAT--TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
35350165 ATCTGTTTAA
Statistics
Matches: 214, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
121 3 0.01
122 8 0.04
123 203 0.95
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (122 bp):
GTCTAGCAGGCTTAATGCCGGTGATAATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGAT
ACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
Found at i:35353672 original size:18 final size:18
Alignment explanation
Indices: 35353651--35353694 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
35353641 ATTAATTTTT
35353651 TATAAAAAATTCAAAAAA
1 TATAAAAAATTCAAAAAA
* * *
35353669 TATAAAAATTTCGAAAAG
1 TATAAAAAATTCAAAAAA
35353687 T-TAAAAAA
1 TATAAAAAA
35353695 ATTATTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (18 bp):
TATAAAAAATTCAAAAAA
Found at i:35355995 original size:23 final size:22
Alignment explanation
Indices: 35355935--35355997 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
35355925 TACATTTAAA
**
35355935 AGGTTCGCACAACACATAGAAG
1 AGGTTCGCACAATGCATAGAAG
* * *
35355957 AGGTTCCCACATTGCATGGAAG
1 AGGTTCGCACAATGCATAGAAG
*
35355979 AAGTTTCGCACAATGCATA
1 -AGGTTCGCACAATGCATA
35355998 TATTAAATAC
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 17 0.55
23 14 0.45
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (22 bp):
AGGTTCGCACAATGCATAGAAG
Found at i:35358214 original size:18 final size:18
Alignment explanation
Indices: 35358172--35358207 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35358162 TAATTTTTTT
*
35358172 ATATTTTATTTATATATA
1 ATATTTTATTTAAATATA
35358190 ATATTTTATGTTAAATAT
1 ATATTTTAT-TTAAATAT
35358208 TTATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
ATATTTTATTTAAATATA
Found at i:35358567 original size:110 final size:108
Alignment explanation
Indices: 35358371--35358569 Score: 242
Period size: 109 Copynumber: 1.8 Consensus size: 108
35358361 TTTTCTTTAT
* * * * * *
35358371 ATATAATTTTTTATGTTATATGTTTATTTTTTTCACGTACATTGTGAGTATCGTAAATTTTAATA
1 ATATAATTTTATATGTTAAATATTTATTTTTTCCACCTACATTGTGAGTATCGTAAATTCTAATA
*
35358436 TAAAAAATTAATTAATCATTTCAAATATTATTGATTTTAATAA
66 TAAAAAATTAAATAATCATTTCAAATATTATTGATTTTAATAA
*
35358479 ATATAACTTTTATATG-TAAATATTTATATTTTTCCACCTACATTGT-ACGTAT-GATAGATTCT
1 ATATAA-TTTTATATGTTAAATATTTAT-TTTTTCCACCTACATTGTGA-GTATCG-TAAATTCT
* *
35358541 AATATTAAAAAATTAAATGATTATTTCAA
62 AATA-TAAAAAATTAAATAATCATTTCAA
35358570 TTATAATTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
108 17 0.22
109 38 0.50
110 21 0.28
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.47
Consensus pattern (108 bp):
ATATAATTTTATATGTTAAATATTTATTTTTTCCACCTACATTGTGAGTATCGTAAATTCTAATA
TAAAAAATTAAATAATCATTTCAAATATTATTGATTTTAATAA
Found at i:35358867 original size:14 final size:13
Alignment explanation
Indices: 35358842--35358875 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
35358832 TATTTGATTC
35358842 ATAAAAATTATAT
1 ATAAAAATTATAT
35358855 ATAAAAATATATAT
1 ATAAAAAT-TATAT
35358869 ATAAAAA
1 ATAAAAA
35358876 ATTAGTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAAAAATTATAT
Found at i:35358954 original size:19 final size:20
Alignment explanation
Indices: 35358918--35358959 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
35358908 AACATAATGA
35358918 TATATATATAAAAAATTTAT
1 TATATATATAAAAAATTTAT
* *
35358938 TATATA-ATAACATATTTAT
1 TATATATATAAAAAATTTAT
35358957 TAT
1 TAT
35358960 TTTGTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TATATATATAAAAAATTTAT
Found at i:35369270 original size:31 final size:31
Alignment explanation
Indices: 35369235--35369296 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
35369225 AGAAAAATTA
35369235 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
35369266 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
35369297 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:35374852 original size:20 final size:20
Alignment explanation
Indices: 35374829--35374897 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
35374819 TTTTTTGCGG
35374829 TTTTTTTTGCGCTTTTTGCT
1 TTTTTTTTGCGCTTTTTGCT
*** *
35374849 TTTTCTTTT-TTTTTTTTGCG
1 TTTT-TTTTGCGCTTTTTGCT
*
35374869 ATTTTTTTGCGCTTTTTGCT
1 TTTTTTTTGCGCTTTTTGCT
35374889 TCTTTTTTT
1 T-TTTTTTT
35374898 TAAAGAATAA
Statistics
Matches: 36, Mismatches: 10, Indels: 5
0.71 0.20 0.10
Matches are distributed among these distances:
19 4 0.11
20 21 0.58
21 11 0.31
ACGTcount: A:0.01, C:0.13, G:0.12, T:0.74
Consensus pattern (20 bp):
TTTTTTTTGCGCTTTTTGCT
Found at i:35374874 original size:40 final size:40
Alignment explanation
Indices: 35374816--35374898 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
35374806 GGTAGACAAC
* *
35374816 TTTTTTTTTGCGGTTTTTTTTGCGCTTTTTGCTTTTTCTTT
1 TTTTTTTTTGCGGATTTTTTTGCGCTTTTTGCTTCTT-TTT
35374857 TTTTTTTTTGC-GATTTTTTTGCGCTTTTTGCTTCTTTTT
1 TTTTTTTTTGCGGATTTTTTTGCGCTTTTTGCTTCTTTTT
35374896 TTT
1 TTT
35374899 AAAGAATAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
39 6 0.15
40 23 0.57
41 11 0.28
ACGTcount: A:0.01, C:0.12, G:0.13, T:0.73
Consensus pattern (40 bp):
TTTTTTTTTGCGGATTTTTTTGCGCTTTTTGCTTCTTTTT
Found at i:35375448 original size:31 final size:31
Alignment explanation
Indices: 35375410--35375502 Score: 177
Period size: 31 Copynumber: 3.0 Consensus size: 31
35375400 AGGCAAATTA
35375410 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
35375441 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
*
35375472 CAAGAGTAATTGAGTCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
35375503 AAAATTATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:35380562 original size:79 final size:77
Alignment explanation
Indices: 35380377--35380681 Score: 416
Period size: 79 Copynumber: 3.9 Consensus size: 77
35380367 TGTTGAACGA
*
35380377 CGGGAATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAATAAA-AAAAT-TTGAATAA
1 CGGG-ATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAATAAACAAAATATGGAATAA
*
35380440 AATCGTTAAACGG
65 AATCGTTAAATGG
* ** *
35380453 CTGGAATCAATCCCGAAATGGATTTTATTTTACTCGTTTTTGGAAATAAAGCAAAATATAGAATA
1 C-GGGATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAATAAA-CAAAATATGGAATA
35380518 AAATCGTTAAATGG
64 AAATCGTTAAATGG
** * *
35380532 CAGGGATCAATCTTGAAACAGATATTATTTTACTCGTTTTTGGAAATAAAACAAAATATGGAAAA
1 C-GGGATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAAT-AAACAAAATATGGAATA
35380597 AAATCGTTAAATGG
64 AAATCGTTAAATGG
*
35380611 CGGGAATCAATCCCGAAACGGATTTTATTTTACTCGTTTTTGGAAATAAAATCAAAATAATGGAA
1 CGGG-ATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAAT-AAA-CAAAAT-ATGGAA
35380676 TAAAAT
62 TAAAAT
35380682 TCATTGAACA
Statistics
Matches: 202, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
76 44 0.22
77 2 0.01
78 8 0.04
79 128 0.63
80 9 0.04
81 11 0.05
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (77 bp):
CGGGATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAATAAACAAAATATGGAATAAA
ATCGTTAAATGG
Found at i:35380650 original size:158 final size:157
Alignment explanation
Indices: 35380382--35380681 Score: 469
Period size: 158 Copynumber: 1.9 Consensus size: 157
35380372 AACGACGGGA
* * *
35380382 ATCAATCCCGAAACAGATTTTATTTTACTCGTTTTTGGAAATAAAAAAATTTGAATAAAATCGTT
1 ATCAATCCCGAAACAGATATTATTTTACTCGTTTTTGGAAATAAAAAAATTGGAAAAAAATCGTT
* *
35380447 AAACGGCTGGAATCAATCCCGAAATGGATTTTATTTTACTCGTTTTTGGAAAT-AAAGCAAAAT-
66 AAACGGCGGGAATCAATCCCGAAACGGATTTTATTTTACTCGTTTTTGGAAATAAAAGCAAAATA
35380510 ATAGAATAAAATCGTTAAATGGCAGGG
131 ATAGAATAAAATCGTTAAATGGCAGGG
**
35380537 ATCAATCTTGAAACAGATATTATTTTACTCGTTTTTGGAAATAAAACAAAATATGGAAAAAAATC
1 ATCAATCCCGAAACAGATATTATTTTACTCGTTTTTGGAAAT-AAA-AAAAT-TGGAAAAAAATC
* *
35380602 GTTAAATGGCGGGAATCAATCCCGAAACGGATTTTATTTTACTCGTTTTTGGAAATAAAATCAAA
63 GTTAAACGGCGGGAATCAATCCCGAAACGGATTTTATTTTACTCGTTTTTGGAAATAAAAGCAAA
*
35380667 ATAATGGAATAAAAT
128 ATAATAGAATAAAAT
35380682 TCATTGAACA
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
155 39 0.30
156 3 0.02
157 5 0.04
158 63 0.48
159 9 0.07
160 11 0.08
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (157 bp):
ATCAATCCCGAAACAGATATTATTTTACTCGTTTTTGGAAATAAAAAAATTGGAAAAAAATCGTT
AAACGGCGGGAATCAATCCCGAAACGGATTTTATTTTACTCGTTTTTGGAAATAAAAGCAAAATA
ATAGAATAAAATCGTTAAATGGCAGGG
Found at i:35383022 original size:44 final size:43
Alignment explanation
Indices: 35382949--35383032 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
35382939 AAAGCTCGTA
* * *
35382949 CAATGCCAACGTCCTAGACAGGGTCTTACACGAAAGTCTCAAAT
1 CAATGCCAACGTCCCAGACAGGGTATTACACCAAA-TCTCAAAT
**
35382993 CAATGCCAACGTCCCAGACTTGGTATTACACCAAATCTCA
1 CAATGCCAACGTCCCAGACAGGGTATTACACCAAATCTCA
35383033 TATTGAAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 5 0.14
44 30 0.86
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.21
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACAGGGTATTACACCAAATCTCAAAT
Found at i:35388971 original size:45 final size:45
Alignment explanation
Indices: 35388907--35388995 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
35388897 TTTTGGACTC
35388907 CCTTCACTGGATGCCACACGCTTGCCATTGTATTTCTCATTGCTG
1 CCTTCACTGGATGCCACACGCTTGCCATTGTATTTCTCATTGCTG
*
35388952 CCTTCACTGGATGCCACACGTTTGCCATTGTATTTCTCATTGCT
1 CCTTCACTGGATGCCACACGCTTGCCATTGTATTTCTCATTGCT
35388996 TGAAAATGGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.16, C:0.30, G:0.17, T:0.37
Consensus pattern (45 bp):
CCTTCACTGGATGCCACACGCTTGCCATTGTATTTCTCATTGCTG
Found at i:35393083 original size:50 final size:50
Alignment explanation
Indices: 35393008--35393106 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
35392998 TTTTTATGGA
35393008 AGATGTGCTTCTTAGCCGCTTGATTGGAATTGTTATGTATTGTGTTACTT
1 AGATGTGCTTCTTAGCCGCTTGATTGGAATTGTTATGTATTGTGTTACTT
*
35393058 AGATGTGCTTCTTAGCTGCTTGATTGGAATTGTTATGTATTGTGTTACT
1 AGATGTGCTTCTTAGCCGCTTGATTGGAATTGTTATGTATTGTGTTACT
35393107 ACCAGCTCTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.46
Consensus pattern (50 bp):
AGATGTGCTTCTTAGCCGCTTGATTGGAATTGTTATGTATTGTGTTACTT
Found at i:35400039 original size:14 final size:15
Alignment explanation
Indices: 35400011--35400047 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
35400001 GTTACTTTAC
*
35400011 TTAATTTCA-TTAGT
1 TTAATTTAACTTAGT
35400025 TT-ATTTAACTTAGT
1 TTAATTTAACTTAGT
35400039 TTAATTTAA
1 TTAATTTAA
35400048 TTTCTACAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (15 bp):
TTAATTTAACTTAGT
Found at i:35403542 original size:17 final size:19
Alignment explanation
Indices: 35403502--35403539 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
35403492 CACAGAAAGG
35403502 AATTGAAGTGGATAGAAAA
1 AATTGAAGTGGATAGAAAA
35403521 AATTGAAGT-GATAGAAAA
1 AATTGAAGTGGATAGAAAA
35403539 A
1 A
35403540 TTGCCATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (19 bp):
AATTGAAGTGGATAGAAAA
Found at i:35408222 original size:15 final size:15
Alignment explanation
Indices: 35408204--35408243 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
35408194 TCAAAGTTTT
35408204 TTGACTCAATTCGCC
1 TTGACTCAATTCGCC
35408219 TTGACTCAATTCGCC
1 TTGACTCAATTCGCC
35408234 TTGACTCAAT
1 TTGACTCAAT
35408244 CGAATACTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.35
Consensus pattern (15 bp):
TTGACTCAATTCGCC
Found at i:35413811 original size:45 final size:45
Alignment explanation
Indices: 35413725--35413848 Score: 133
Period size: 45 Copynumber: 2.8 Consensus size: 45
35413715 ATGTGATGCC
* * *
35413725 ATAGCGTCTTTCAGCCATGGTCTTACTCATTTCT-ATCATGATACT
1 ATAGCATCTTTCAGCTATGGTCATACTCATTT-TAATCATGATACT
* * **
35413770 ATATCATCTTTCAGCTATGGTCATACTCATTTTAATGATGATGTT
1 ATAGCATCTTTCAGCTATGGTCATACTCATTTTAATCATGATACT
* * * *
35413815 ATAGCGTCATTCAGCTATGGCCATACTCAATTTA
1 ATAGCATCTTTCAGCTATGGTCATACTCATTTTA
35413849 GGTGTGTAGC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 1 0.02
45 65 0.98
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (45 bp):
ATAGCATCTTTCAGCTATGGTCATACTCATTTTAATCATGATACT
Found at i:35416745 original size:17 final size:18
Alignment explanation
Indices: 35416723--35416761 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
35416713 CACACCTCTA
35416723 TTATTG-CATGCCAAGCT
1 TTATTGACATGCCAAGCT
35416740 TTATTGTCACATGCCAAGCT
1 TTATTG--ACATGCCAAGCT
35416760 TT
1 TT
35416762 CTTCATCCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
20 13 0.68
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTGACATGCCAAGCT
Found at i:35419586 original size:25 final size:26
Alignment explanation
Indices: 35419550--35419601 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
35419540 CAAGACGTAC
* *
35419550 GATATAGTAAAAGTTTTTAAAA-ATA
1 GATATAGTAAAAATTTTGAAAACATA
35419575 GATATA-TAAAAAATTTTGAAAACATA
1 GATATAGT-AAAAATTTTGAAAACATA
35419601 G
1 G
35419602 CAAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 18 0.78
26 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.33
Consensus pattern (26 bp):
GATATAGTAAAAATTTTGAAAACATA
Found at i:35420235 original size:3 final size:3
Alignment explanation
Indices: 35420227--35420259 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
35420217 CAATTCTTAC
35420227 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
35420260 AAACAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:35425621 original size:41 final size:41
Alignment explanation
Indices: 35425559--35425668 Score: 157
Period size: 41 Copynumber: 2.7 Consensus size: 41
35425549 TTTAAACAGA
* * * *
35425559 TTCAACGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCG
1 TTCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATTCAG
*
35425600 TTCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAG
1 TTCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATTCAG
* *
35425641 ATCACCGGCACGTAGCCTGCTAGACTTA
1 TTCACCGGCACGTAGCCTGCTAGGCTTA
35425669 AAGTCTGAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (41 bp):
TTCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATTCAG
Found at i:35427815 original size:11 final size:11
Alignment explanation
Indices: 35427793--35427844 Score: 77
Period size: 11 Copynumber: 4.6 Consensus size: 11
35427783 AACTAATCCT
35427793 CTCTCAAATTTC
1 CTCTC-AATTTC
35427805 CTCTCAATTTC
1 CTCTCAATTTC
*
35427816 CTCTAAATTTC
1 CTCTCAATTTC
*
35427827 CTCTCAATTTG
1 CTCTCAATTTC
35427838 CTCTCAA
1 CTCTCAA
35427845 ATTCTTTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
11 32 0.86
12 5 0.14
ACGTcount: A:0.23, C:0.33, G:0.02, T:0.42
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:35427825 original size:22 final size:23
Alignment explanation
Indices: 35427793--35427847 Score: 94
Period size: 22 Copynumber: 2.4 Consensus size: 23
35427783 AACTAATCCT
35427793 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
35427816 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
35427838 CTCTCAAATT
1 CTCTCAAATT
35427848 CTTTCCAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 21 0.70
23 9 0.30
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.44
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:35427842 original size:33 final size:33
Alignment explanation
Indices: 35427792--35427866 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
35427782 AAACTAATCC
* *
35427792 TCTCTCAAATTTCCTCTCAATTTC-CTCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCTCTCCAAATT
* *
35427825 TCCTCTCAATTTGCTCTCAAATTCTTTCCAAATT
1 T-CTCTCAATTTCCTCTCAAATTCTCTCCAAATT
35427859 TCTCTCAA
1 TCTCTCAA
35427867 ATCCATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 23 0.64
34 13 0.36
ACGTcount: A:0.24, C:0.31, G:0.01, T:0.44
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCTCTCCAAATT
Found at i:35427867 original size:11 final size:11
Alignment explanation
Indices: 35427792--35427868 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
35427782 AAACTAATCC
35427792 TCTCTCAAATT
1 TCTCTCAAATT
35427803 TCCTCTC-AATT
1 T-CTCTCAAATT
35427814 TC-CTCTAAATT
1 TCTCTC-AAATT
35427825 TCCTCTC-AATT
1 T-CTCTCAAATT
35427836 TGCTCTCAAA-T
1 T-CTCTCAAATT
*
35427847 TCTTTCCAAATT
1 TCTCT-CAAATT
35427859 TCTCTCAAAT
1 TCTCTCAAAT
35427869 CCATATTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
9 3 0.05
10 4 0.07
11 32 0.58
12 13 0.24
13 3 0.05
ACGTcount: A:0.25, C:0.30, G:0.01, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:35427886 original size:51 final size:51
Alignment explanation
Indices: 35427828--35427927 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
35427818 CTAAATTTCC
35427828 TCTCAATTTGCTCTCAAATT-CT-TTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCTT--AAATTTCTCTCAAATCCATATTTAA
* * *
35427879 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCATATTT
35427928 TTAAATAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 40 0.91
52 2 0.05
53 2 0.05
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCATATTTAA
Done.