Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 275 of 295
Found at i:87577143 original size:25 final size:24
Alignment explanation
Indices: 87577082--87577143 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
87577072 TATAACGCTC
* *
87577082 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATAT
*
87577106 ACTTT-AATATTTTCATATATTATAT
1 A-TTTCAA-ATTTTCATACATTATAT
87577131 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
87577144 TTTTACACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATAT
Found at i:87577515 original size:125 final size:125
Alignment explanation
Indices: 87577293--87577523 Score: 293
Period size: 125 Copynumber: 1.8 Consensus size: 125
87577283 AAAACCTCTC
* ** * *
87577293 AAAATAAGGAAATATTTCGTGTTTGGAAATTCGAGAAATTGTGCCCTGCCGTGCTGGGTTTCGAT
1 AAAATAAGGAAATATTTCGTGTTTGGAAATTCGAGAAATCGTGCCCAACCGTGCTAGGTTTCGAC
** * ** *
87577358 TTTTCGTTCAACCGAATAGCTGAATATCCTTTTGAAATTTCGTCCATGTTTTCTTAAATT
66 TTACCATTCAACCGAATAGCCAAAAATCCTTTTGAAATTTCGTCCATGTTTTCTTAAATT
* * * *
87577418 AAAATGAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCGTGCCCAATCGTGCTAGGTTTCGAC
1 AAAATAAGGAAATATTTCGTGTTTGGAAATTCGAGAAATCGTGCCCAACCGTGCTAGGTTTCGAC
**
87577483 TTACCATTTGACC-AGATAGCCAAAAATCCTTTTGAAATTTC
66 TTACCATTCAACCGA-ATAGCCAAAAATCCTTTTGAAATTTC
87577524 AAATGCATGA
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
124 1 0.01
125 87 0.99
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (125 bp):
AAAATAAGGAAATATTTCGTGTTTGGAAATTCGAGAAATCGTGCCCAACCGTGCTAGGTTTCGAC
TTACCATTCAACCGAATAGCCAAAAATCCTTTTGAAATTTCGTCCATGTTTTCTTAAATT
Found at i:87582895 original size:30 final size:31
Alignment explanation
Indices: 87582850--87582908 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
87582840 AAATTTTAAA
* *
87582850 ATTTTTAAAATTTAAAAAAT-TTAAAAAATT
1 ATTTTCAAAAATTAAAAAATATTAAAAAATT
87582880 ATTTTCAAAAATTAAAAAATATTAAAAAA
1 ATTTTCAAAAATTAAAAAATATTAAAAAA
87582909 GTATAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (31 bp):
ATTTTCAAAAATTAAAAAATATTAAAAAATT
Found at i:87582905 original size:10 final size:10
Alignment explanation
Indices: 87582856--87582932 Score: 56
Period size: 9 Copynumber: 7.8 Consensus size: 10
87582846 TAAAATTTTT
87582856 AAAAT-TTAA
1 AAAATATTAA
87582865 AAAAT-TTAA
1 AAAATATTAA
**
87582874 AAAATTATTTTC
1 AAAA-TA-TTAA
87582886 AAAA-ATTAA
1 AAAATATTAA
87582895 AAAATATTAA
1 AAAATATTAA
87582905 AAAAGTA-TAA
1 AAAA-TATTAA
*
87582915 AAATTA-TAA
1 AAAATATTAA
87582924 AAATATATT
1 AAA-ATATT
87582933 TTTTAAAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
9 27 0.49
10 19 0.35
11 3 0.05
12 6 0.11
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (10 bp):
AAAATATTAA
Found at i:87588459 original size:22 final size:22
Alignment explanation
Indices: 87588425--87588529 Score: 165
Period size: 22 Copynumber: 4.7 Consensus size: 22
87588415 AGCTCTATTA
87588425 AGCTGAAACAGTAAGCTCTGACG
1 AGCTG-AACAGTAAGCTCTGACG
*
87588448 AGCTGAACAGTAAGCTTTGACG
1 AGCTGAACAGTAAGCTCTGACG
*
87588470 AGCTGAATAGTAAGCTCTGACG
1 AGCTGAACAGTAAGCTCTGACG
*
87588492 AGTTGAACAGTAAGCTCTGACG
1 AGCTGAACAGTAAGCTCTGACG
*
87588514 AGCTGAACAATAAGCT
1 AGCTGAACAGTAAGCT
87588530 TATACAAGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
22 70 0.93
23 5 0.07
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
AGCTGAACAGTAAGCTCTGACG
Found at i:87590029 original size:22 final size:22
Alignment explanation
Indices: 87589961--87590030 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 22
87589951 ACATTTGCAA
* *
87589961 ATAAACTGCTAGAATATATGTGG
1 ATAAATTGCCAGAA-ATATGTGG
** *
87589984 ATAAATCACCA-AAAT-TGTAG
1 ATAAATTGCCAGAAATATGTGG
87590004 ATAAATTGCCAGAAATATGTGG
1 ATAAATTGCCAGAAATATGTGG
87590026 ATAAA
1 ATAAA
87590031 CCACCAGATT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
20 13 0.35
21 6 0.16
22 11 0.30
23 7 0.19
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (22 bp):
ATAAATTGCCAGAAATATGTGG
Found at i:87590037 original size:22 final size:22
Alignment explanation
Indices: 87589971--87590038 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
87589961 ATAAACTGCT
87589971 AGAATATATGTGGATAAATCACC
1 AGAA-ATATGTGGATAAATCACC
* **
87589994 A-AAAT-TGTAGATAAATTGCC
1 AGAAATATGTGGATAAATCACC
*
87590014 AGAAATATGTGGATAAACCACC
1 AGAAATATGTGGATAAATCACC
87590036 AGA
1 AGA
87590039 TTGAAAATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
20 13 0.36
21 6 0.17
22 16 0.44
23 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.24
Consensus pattern (22 bp):
AGAAATATGTGGATAAATCACC
Found at i:87595702 original size:28 final size:28
Alignment explanation
Indices: 87595654--87595712 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
87595644 CACTAGGTGT
87595654 CATTCTCAATATCTCCCACACTGAGTGC
1 CATTCTCAATATCTCCCACACTGAGTGC
* **
87595682 CATTCTCAATATTTCGTACACTGAGTGC
1 CATTCTCAATATCTCCCACACTGAGTGC
87595710 CAT
1 CAT
87595713 ATTTGATTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.32
Consensus pattern (28 bp):
CATTCTCAATATCTCCCACACTGAGTGC
Found at i:87602203 original size:41 final size:41
Alignment explanation
Indices: 87602158--87602257 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 41
87602148 GCACAAGGCC
* * *
87602158 TGCTAGACTCAAAGTCTGATTTTATACACCAGCA-ATAAGCT
1 TGCTAGACTCAAAGCCCGATTTAATACACCAGCACAT-AGCT
* *
87602199 TGCTA-A-GCATAAGCCCGATTTAATACACCAGCACATGGCT
1 TGCTAGACTCA-AAGCCCGATTTAATACACCAGCACATAGCT
*
87602239 TGCTAGGCTCAAAGCCCGA
1 TGCTAGACTCAAAGCCCGA
87602258 ATATCACCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
39 2 0.04
40 29 0.60
41 15 0.31
42 2 0.04
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (41 bp):
TGCTAGACTCAAAGCCCGATTTAATACACCAGCACATAGCT
Found at i:87602443 original size:28 final size:28
Alignment explanation
Indices: 87602375--87602453 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
87602365 GAATCATTCG
* **
87602375 ATATTTTGCACACTAAGTTTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
87602403 ATATCTCCCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
87602431 ATATTTCGTACACTGAGTGCCAT
1 ATATTTCGCACACTAAGTGCCAT
87602454 ATTTGATTGC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:87608490 original size:42 final size:42
Alignment explanation
Indices: 87608431--87608514 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
87608421 TGGAAACACA
87608431 ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
1 ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
87608473 ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
1 ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
87608515 GGAAAAACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (42 bp):
ACATACTCGTAGATGATAGTTGTTAGAGGGTTGTGAATGTAT
Found at i:87611704 original size:37 final size:37
Alignment explanation
Indices: 87611663--87611733 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
87611653 AATTAACCTA
87611663 AAAATTATTTAAATTAAAAATCAACTAATTTAACGAT
1 AAAATTATTTAAATTAAAAATCAACTAATTTAACGAT
*
87611700 AAAATTATTTAAATTTAAAATCAACTAATTTAAC
1 AAAATTATTTAAATTAAAAATCAACTAATTTAAC
87611734 AATTGAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.37
Consensus pattern (37 bp):
AAAATTATTTAAATTAAAAATCAACTAATTTAACGAT
Found at i:87611732 original size:21 final size:21
Alignment explanation
Indices: 87611669--87611732 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
87611659 CCTAAAAATT
*
87611669 ATTTAAATTAAAAATCAACTA
1 ATTTAAATTTAAAATCAACTA
***
87611690 ATTTAACGATAAAAT----T-
1 ATTTAAATTTAAAATCAACTA
87611706 ATTTAAATTTAAAATCAACTA
1 ATTTAAATTTAAAATCAACTA
87611727 ATTTAA
1 ATTTAA
87611733 CAATTGAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 10
0.65 0.15 0.21
Matches are distributed among these distances:
16 12 0.39
17 1 0.03
20 1 0.03
21 17 0.55
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (21 bp):
ATTTAAATTTAAAATCAACTA
Found at i:87616845 original size:157 final size:157
Alignment explanation
Indices: 87616559--87616874 Score: 578
Period size: 157 Copynumber: 2.0 Consensus size: 157
87616549 ATACAAGGCC
*
87616559 ATAACCCAAATTTAGATACTCATACAGGATTCTAGTGGTCATTTTTGGCAAACTTGAAGTAATTT
1 ATAACCCAAATTTAGATACTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTAATTT
*
87616624 ATTCCAGCTTATACAAAGAGATTTCAAATGAGATTTCTTTCACAAACCTGATGTTCCATGACTCA
66 ATTCCAGCTTATACAAAGAGATTTCAAATAAGATTTCTTTCACAAACCTGATGTTCCATGACTCA
87616689 AGATCCCTCTCAAAATCCGCAATTGCA
131 AGATCCCTCTCAAAATCCGCAATTGCA
* *
87616716 ATAACCCAAATTTAGATCCTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTATTTT
1 ATAACCCAAATTTAGATACTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTAATTT
*
87616781 ATTCCAGCTTATACAAAGAGATTTCAAATAAGATTTCTTTCACGAACCTGATGTTCCATGACTCA
66 ATTCCAGCTTATACAAAGAGATTTCAAATAAGATTTCTTTCACAAACCTGATGTTCCATGACTCA
*
87616846 AGATCCCTCTCGAAATCCGCAATTGCA
131 AGATCCCTCTCAAAATCCGCAATTGCA
87616873 AT
1 AT
87616875 CAAAAGTTCA
Statistics
Matches: 153, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (157 bp):
ATAACCCAAATTTAGATACTCATACAGGATTCTAGTGGTCATTTTTGGCAAAATTGAAGTAATTT
ATTCCAGCTTATACAAAGAGATTTCAAATAAGATTTCTTTCACAAACCTGATGTTCCATGACTCA
AGATCCCTCTCAAAATCCGCAATTGCA
Found at i:87618664 original size:141 final size:141
Alignment explanation
Indices: 87618450--87618983 Score: 1050
Period size: 141 Copynumber: 3.8 Consensus size: 141
87618440 TAGATTATTT
87618450 TTTGGCAAGAAGATAATCAGGGTGTGGTTGAATATTGTGATTCAGACTATACTGGTGATCTGGAC
1 TTTGGCAAGAAGATAATCAGGGTGTGGTTGAATATTGTGATTCAGACTATACTGGTGATCTGGAC
87618515 AAACTACAATCAACTCCAAGTTAGTTGGAAGTCTACTTTGCATATATGACAATCAAAGAGACTGT
66 AAACTACAATCAACTCCAAGTTAGTTGGAAGTCTACTTTGCATATATGACAATCAAAGAGACTGT
87618580 AAAAGAGGCAA
131 AAAAGAGGCAA
87618591 TTTGGCAAGAAGATAATCAGGGTGTGGTTGAATATTGTGATTCAGACTATACTGGTGATCTGGAC
1 TTTGGCAAGAAGATAATCAGGGTGTGGTTGAATATTGTGATTCAGACTATACTGGTGATCTGGAC
87618656 AAACTACAATCAACTCCAAGTTAGTTGGAAGTCTACTTTGCATATATGACAATCAAAGAGACTGT
66 AAACTACAATCAACTCCAAGTTAGTTGGAAGTCTACTTTGCATATATGACAATCAAAGAGACTGT
87618721 AAAAGAGGCAA
131 AAAAGAGGCAA
87618732 TTTGGCAAGAAGATAATCAGGGTGTGGTTGAATATTGTGATTCAGACTATACTGGTGATCTGGAC
1 TTTGGCAAGAAGATAATCAGGGTGTGGTTGAATATTGTGATTCAGACTATACTGGTGATCTGGAC
*
87618797 AAACTACAATCAACTCCTAGTTAGTTGGAAGTCTACTTTGCATATATGACAATCAAAGAGACTGT
66 AAACTACAATCAACTCCAAGTTAGTTGGAAGTCTACTTTGCATATATGACAATCAAAGAGACTGT
87618862 AAAAGAGGCAA
131 AAAAGAGGCAA
87618873 TTTGGCAAGAAGATAATCAGGGTGTGGTTGAATATTGTGATTCAGACTATACTGGTGATCTGGAC
1 TTTGGCAAGAAGATAATCAGGGTGTGGTTGAATATTGTGATTCAGACTATACTGGTGATCTGGAC
*
87618938 AAACTACAATCAACTCCTAGTTAGTTGGAAGTCTACTTTGCATATA
66 AAACTACAATCAACTCCAAGTTAGTTGGAAGTCTACTTTGCATATA
87618984 AGATTCTTGG
Statistics
Matches: 392, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 392 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (141 bp):
TTTGGCAAGAAGATAATCAGGGTGTGGTTGAATATTGTGATTCAGACTATACTGGTGATCTGGAC
AAACTACAATCAACTCCAAGTTAGTTGGAAGTCTACTTTGCATATATGACAATCAAAGAGACTGT
AAAAGAGGCAA
Found at i:87620886 original size:540 final size:540
Alignment explanation
Indices: 87619868--87620939 Score: 2144
Period size: 540 Copynumber: 2.0 Consensus size: 540
87619858 CTTAATTTTC
87619868 AAATTTTCATTAAATTTTTGGTGTTTTTTTTTATCACTTTTTATTTATCTTTCAATTTTTCATCG
1 AAATTTTCATTAAATTTTTGGTGTTTTTTTTTATCACTTTTTATTTATCTTTCAATTTTTCATCG
87619933 GGTATAATCGTAGGCGTAATTCTGGTGAGGTTGAGTTTTAGGTGGAACTGTTTGTGAAACTTAGT
66 GGTATAATCGTAGGCGTAATTCTGGTGAGGTTGAGTTTTAGGTGGAACTGTTTGTGAAACTTAGT
87619998 GTGATTTTTTAATATAACCTAGTGTAGTTTTCTAGTAAAAAATTTACTCTCCTTTACCTTATTGG
131 GTGATTTTTTAATATAACCTAGTGTAGTTTTCTAGTAAAAAATTTACTCTCCTTTACCTTATTGG
87620063 CACAACAGAAAATTGTGATGCATACAAATATGTAACACATTTCATTTTCAAAGAATGGAAGCAAC
196 CACAACAGAAAATTGTGATGCATACAAATATGTAACACATTTCATTTTCAAAGAATGGAAGCAAC
87620128 ACAACCTAATGTACCTCACTTCCAAAATTAGTGATTCTGTTCATTTGTCAGTCAAAGCTTTTGAA
261 ACAACCTAATGTACCTCACTTCCAAAATTAGTGATTCTGTTCATTTGTCAGTCAAAGCTTTTGAA
87620193 ACTTCAAAATAACTTAGCATTAGAAACACAATTGGTACTTTTAAGGCAACTCTCTCACCATTTTA
326 ACTTCAAAATAACTTAGCATTAGAAACACAATTGGTACTTTTAAGGCAACTCTCTCACCATTTTA
87620258 AAAGACAATATGAAAAAAAATCCATTAGATCAAATGAAATTGACAAAAACAGTAACCAGAGATGC
391 AAAGACAATATGAAAAAAAATCCATTAGATCAAATGAAATTGACAAAAACAGTAACCAGAGATGC
87620323 CTACCTCCTGTCTTGTCAAGCTTTTTTCATTCCTGGCCTTTAAAATGGGTATAAGCAACTCATTT
456 CTACCTCCTGTCTTGTCAAGCTTTTTTCATTCCTGGCCTTTAAAATGGGTATAAGCAACTCATTT
87620388 ACAAGCTCTAAGATCAAATG
521 ACAAGCTCTAAGATCAAATG
87620408 AAATTTTCATTAAATTTTTGGTGTTTTTTTTTATCACTTTTTATTTATCTTTCAATTTTTCATCG
1 AAATTTTCATTAAATTTTTGGTGTTTTTTTTTATCACTTTTTATTTATCTTTCAATTTTTCATCG
87620473 GGTATAATCGTAGGCGTAATTCTGGTGAGGTTGAGTTTTAGGTGGAACTGTTTGTGAAACTTAGT
66 GGTATAATCGTAGGCGTAATTCTGGTGAGGTTGAGTTTTAGGTGGAACTGTTTGTGAAACTTAGT
87620538 GTGATTTTTTAATATAACCTAGTGTAGTTTTCTAGTAAAAAATTTACTCTCCTTTACCTTATTGG
131 GTGATTTTTTAATATAACCTAGTGTAGTTTTCTAGTAAAAAATTTACTCTCCTTTACCTTATTGG
87620603 CACAACAGAAAATTGTGATGCATACAAATATGTAACACATTTCATTTTCAAAGAATGGAAGCAAC
196 CACAACAGAAAATTGTGATGCATACAAATATGTAACACATTTCATTTTCAAAGAATGGAAGCAAC
87620668 ACAACCTAATGTACCTCACTTCCAAAATTAGTGATTCTGTTCATTTGTCAGTCAAAGCTTTTGAA
261 ACAACCTAATGTACCTCACTTCCAAAATTAGTGATTCTGTTCATTTGTCAGTCAAAGCTTTTGAA
87620733 ACTTCAAAATAACTTAGCATTAGAAACACAATTGGTACTTTTAAGGCAACTCTCTCACCATTTTA
326 ACTTCAAAATAACTTAGCATTAGAAACACAATTGGTACTTTTAAGGCAACTCTCTCACCATTTTA
87620798 AAAGACAATATGAAAAAAAATCCATTAGATCAAATGAAATTGACAAAAACAGTAACCAGAGATGC
391 AAAGACAATATGAAAAAAAATCCATTAGATCAAATGAAATTGACAAAAACAGTAACCAGAGATGC
87620863 CTACCTCCTGTCTTGTCAAGCTTTTTTCATTCCTGGCCTTTAAAATGGGTATAAGCAACTCATTT
456 CTACCTCCTGTCTTGTCAAGCTTTTTTCATTCCTGGCCTTTAAAATGGGTATAAGCAACTCATTT
87620928 ACAAGCTCTAAG
521 ACAAGCTCTAAG
87620940 CAGTCTTTTG
Statistics
Matches: 532, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
540 532 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (540 bp):
AAATTTTCATTAAATTTTTGGTGTTTTTTTTTATCACTTTTTATTTATCTTTCAATTTTTCATCG
GGTATAATCGTAGGCGTAATTCTGGTGAGGTTGAGTTTTAGGTGGAACTGTTTGTGAAACTTAGT
GTGATTTTTTAATATAACCTAGTGTAGTTTTCTAGTAAAAAATTTACTCTCCTTTACCTTATTGG
CACAACAGAAAATTGTGATGCATACAAATATGTAACACATTTCATTTTCAAAGAATGGAAGCAAC
ACAACCTAATGTACCTCACTTCCAAAATTAGTGATTCTGTTCATTTGTCAGTCAAAGCTTTTGAA
ACTTCAAAATAACTTAGCATTAGAAACACAATTGGTACTTTTAAGGCAACTCTCTCACCATTTTA
AAAGACAATATGAAAAAAAATCCATTAGATCAAATGAAATTGACAAAAACAGTAACCAGAGATGC
CTACCTCCTGTCTTGTCAAGCTTTTTTCATTCCTGGCCTTTAAAATGGGTATAAGCAACTCATTT
ACAAGCTCTAAGATCAAATG
Found at i:87632709 original size:154 final size:154
Alignment explanation
Indices: 87632408--87632710 Score: 509
Period size: 154 Copynumber: 2.0 Consensus size: 154
87632398 AGATTGCTTC
87632408 AATTCATATACAACTTCTTTTCCTGATATAGATTTTGTTTTATCTATCTGCATGCTGATAGTTCC
1 AATTCATATACAACTTCTTTTCCTGATATAGATTTTGTTTTATCTATCTGCATGCTGATAGTTCC
* *
87632473 CTTTCTTCATTTGACTATAAGTATACGGAATTAGCTTTTGCATATGCCAACTTTTTGCAGGTAAG
66 CTTTCTTCATTTGAATATAAGTATACGGAATTAGCTTTTGCATATGCCAACCTTTTGCAGGTAAG
*
87632538 ATCAAACTAAATAATCTATCATAA
131 ATCAAACCAAATAATCTATCATAA
* * *
87632562 AATTCATATACATCTTCTTTTCCTGATATAGATTTTGTTTTACTTTTTCTGCATGCTGATAGTTC
1 AATTCATATACAACTTCTTTTCCTGATATAGATTTTGTTTTA-TCTATCTGCATGCTGATAGTTC
* *
87632627 CCTTTCTTCATTTGAATATAAGTATACGGAATTAGTTTTTGCATA-GCTAACCTTTTGCAGGTAA
65 CCTTTCTTCATTTGAATATAAGTATACGGAATTAGCTTTTGCATATGCCAACCTTTTGCAGGTAA
*
87632691 GATCAAACCAAATCATCTAT
130 GATCAAACCAAATAATCTAT
87632711 GGTAGATGCT
Statistics
Matches: 139, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
154 76 0.55
155 63 0.45
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (154 bp):
AATTCATATACAACTTCTTTTCCTGATATAGATTTTGTTTTATCTATCTGCATGCTGATAGTTCC
CTTTCTTCATTTGAATATAAGTATACGGAATTAGCTTTTGCATATGCCAACCTTTTGCAGGTAAG
ATCAAACCAAATAATCTATCATAA
Found at i:87633541 original size:7 final size:7
Alignment explanation
Indices: 87633531--87633558 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
87633521 TTTACTTTTT
87633531 AATATTG
1 AATATTG
87633538 AATATTG
1 AATATTG
87633545 AATATTG
1 AATATTG
87633552 AATATTG
1 AATATTG
87633559 GTAACTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (7 bp):
AATATTG
Found at i:87635535 original size:132 final size:132
Alignment explanation
Indices: 87635292--87636088 Score: 1398
Period size: 132 Copynumber: 6.0 Consensus size: 132
87635282 GGTTATCAGC
* *
87635292 TACAAACTTCATTTAGCCCTGCACCTCAGGGAAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * *
87635357 TCACCACATCAGGAAACTTTGGCTGCAGCTGCTGCCTACACGGACTGGCTTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
87635422 TA
131 TA
*
87635424 TACAAACTTCATTTAGCCCTGCAACTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * *
87635489 TCACCACATCAGGAAACTTCAGCTGCAGCTGCTGCCGACACAGACTGGCTTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
87635554 TA
131 TA
87635556 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * *
87635621 TCACCACATCAGGAAACTTCAGCTGCAGCTGCTGCCGACACAGACTGGCTTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
87635686 TA
131 TA
87635688 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * *
87635753 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCAACATGGACAGGCCTGTTGAT-AAGGATC
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAA-GATC
87635817 TTA
130 TTA
*
87635820 TACAAACTTCATTTAGCCCTGCAACTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
*
87635885 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCA
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
87635950 TA
131 TA
87635952 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* **
87636017 GCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACATTGACTGGCCTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
87636082 TA
131 TA
87636084 TACAA
1 TACAA
87636089 GCTTTCTTTA
Statistics
Matches: 639, Mismatches: 24, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
131 2 0.00
132 635 0.99
133 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (132 bp):
TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
TA
Found at i:87639517 original size:73 final size:74
Alignment explanation
Indices: 87639363--87639702 Score: 433
Period size: 73 Copynumber: 4.6 Consensus size: 74
87639353 TTGCTTACTT
* * * *
87639363 TTTTATATCAATAATATAGTTATTTACAATCTACGAAAAAATGGAAAAACTTGTTTGTATTTTAT
1 TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAACTTGTTTGTATTATAT
87639428 TCTATTGTA
66 TCTATTGTA
* *
87639437 TTTTACATCAATAATATATTTATTTACAATCTACAAAAAAATGGAAAAA-TTGTTTGTATTATAC
1 TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAACTTGTTTGTATTATAT
87639501 TCTATTGTA
66 TCTATTGTA
* * * *
87639510 TTTTACATCAATAATATACTTATTTACAATTTACAAAAAAAAATGAAAAAAATTGTTTGTATTGT
1 TTTTACATCAATAATATACTTATTTACAATCTAC--AAAAAAATGGAAAAACTTGTTTGTATTAT
87639575 ATTCTATT-TA
64 ATTCTATTGTA
* * * * * *
87639585 TTTTAAAACAATAAAATACTTATTTACAATTTACGAAAAAAT-GAAAAAGTTGTTTGTATTATAT
1 TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAACTTGTTTGTATTATAT
87639649 TCTATTGTA
66 TCTATTGTA
* **
87639658 TTTTTACAT---TAATATACTTATTTACAATGTACCCAAAAAT-GAAAA
1 -TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAA
87639703 GTTATGAAAA
Statistics
Matches: 238, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
71 32 0.13
72 25 0.11
73 63 0.26
74 52 0.22
75 47 0.20
76 19 0.08
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (74 bp):
TTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGGAAAAACTTGTTTGTATTATAT
TCTATTGTA
Found at i:87639612 original size:148 final size:148
Alignment explanation
Indices: 87639362--87639702 Score: 460
Period size: 148 Copynumber: 2.3 Consensus size: 148
87639352 TTTGCTTACT
* * * * * *
87639362 TTTTTATATCAATAATATAGTTATTTACAATCTACGAAAAAATGGAAAAACTTGTTTGTATTTTA
1 TTTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGAAAAAAATTGTTTGTATTGTA
* * * *
87639427 TTCTATTGTATTTTACATCAATAATATATTTATTTACAATCTACAAAAAAATGGAAAAA-TTGTT
66 TTCTATTGTATTTTAAAACAATAAAATACTTATTTACAATCTACAAAAAAAT-GAAAAAGTTGTT
87639491 TGTATTATACTCTATTGTA
130 TGTATTATACTCTATTGTA
*
87639510 -TTTTACATCAATAATATACTTATTTACAATTTACAAAAAAAAATGAAAAAAATTGTTTGTATTG
1 TTTTTACATCAATAATATACTTATTTACAATCTAC--AAAAAAATGAAAAAAATTGTTTGTATTG
* *
87639574 TATTCTATT-TATTTTAAAACAATAAAATACTTATTTACAATTTACGAAAAAATGAAAAAGTTGT
64 TATTCTATTGTATTTTAAAACAATAAAATACTTATTTACAATCTACAAAAAAATGAAAAAGTTGT
*
87639638 TTGTATTATATTCTATTGTA
129 TTGTATTATACTCTATTGTA
* **
87639658 TTTTTACAT---TAATATACTTATTTACAATGTACCCAAAAATGAAAA
1 TTTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGAAAA
87639703 GTTATGAAAA
Statistics
Matches: 172, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
144 11 0.06
146 22 0.13
147 37 0.22
148 61 0.35
149 41 0.24
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (148 bp):
TTTTTACATCAATAATATACTTATTTACAATCTACAAAAAAATGAAAAAAATTGTTTGTATTGTA
TTCTATTGTATTTTAAAACAATAAAATACTTATTTACAATCTACAAAAAAATGAAAAAGTTGTTT
GTATTATACTCTATTGTA
Found at i:87639733 original size:4 final size:4
Alignment explanation
Indices: 87639724--87639753 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
87639714 AATGAACAAA
87639724 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TT
87639754 ATTGTATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTGT
Found at i:87640697 original size:15 final size:15
Alignment explanation
Indices: 87640659--87640700 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
87640649 ATATTCATGA
87640659 ATGAAAATAATGTAT
1 ATGAAAATAATGTAT
*
87640674 ATGTTAAATAATG-AT
1 ATG-AAAATAATGTAT
87640689 ATAGAAAATAAT
1 AT-GAAAATAAT
87640701 ATTTACTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (15 bp):
ATGAAAATAATGTAT
Found at i:87643446 original size:12 final size:12
Alignment explanation
Indices: 87643429--87643453 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87643419 GCCGACTACT
87643429 GTTACTGTTACC
1 GTTACTGTTACC
87643441 GTTACTGTTACC
1 GTTACTGTTACC
87643453 G
1 G
87643454 ATTCAACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:87643481 original size:45 final size:45
Alignment explanation
Indices: 87643431--87643539 Score: 182
Period size: 45 Copynumber: 2.4 Consensus size: 45
87643421 CGACTACTGT
*
87643431 TACTGTTACCGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
* * *
87643476 TACTGTTACTGTTACCGTTATCGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
87643521 TACTGTTACTGTTACTGTT
1 TACTGTTACTGTTACTGTT
87643540 CCGGATTTGT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
Found at i:87643536 original size:51 final size:50
Alignment explanation
Indices: 87643416--87643539 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 50
87643406 CAGGCACTTA
* * *
87643416 TGTGCCGACTACTGTTACTGTTACCGTTACTGTTACCGATTCAACACTTTG
1 TGTGTCGA-TACTGTTACTGTTACTGTTACCGTTACCGATTCAACACTTTG
*
87643467 TGTGTCGA-A----TACTGTTACTGTTACCGTTATCGATTCAACACTTTG
1 TGTGTCGATACTGTTACTGTTACTGTTACCGTTACCGATTCAACACTTTG
*
87643512 TGTGTTGAATACTGTTACTGTTACTGTT
1 TGTGTCG-ATACTGTTACTGTTACTGTT
87643540 CCGGATTTGT
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
45 39 0.63
46 1 0.02
47 1 0.02
49 1 0.02
51 20 0.32
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (50 bp):
TGTGTCGATACTGTTACTGTTACTGTTACCGTTACCGATTCAACACTTTG
Found at i:87643742 original size:18 final size:18
Alignment explanation
Indices: 87643721--87643911 Score: 140
Period size: 18 Copynumber: 10.6 Consensus size: 18
87643711 TAACTGATTA
*
87643721 TTACAGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
87643739 TTACTGGATAATTAACTG
1 TTACTGAATAATTGACTG
*
87643757 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * * *
87643775 TTGCTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
87643793 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
87643811 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
87643829 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
87643847 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
* *
87643866 TTATTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
87643883 TTACTGAATAATTGACTA
1 TTACTGAATAATTGACTG
*
87643901 TTACTGGATAA
1 TTACTGAATAA
87643912 CCGATCAATT
Statistics
Matches: 139, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
17 19 0.14
18 103 0.74
19 17 0.12
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:87643797 original size:36 final size:36
Alignment explanation
Indices: 87643709--87643991 Score: 148
Period size: 36 Copynumber: 7.6 Consensus size: 36
87643699 AAAGGTATAA
* *
87643709 AATAACTGATTATTACAGAATAATTGACTGTTACTG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* * * * *
87643745 GATAA-TTAACTGTTACTGGAT-ATTAGACTGTTGCTG
1 AATAACTGAA-TATTACTGAATAATT-GACTGTTACTG
*
87643781 AATAACTGAATATTACTGAATAATTGA-TCATTACTG
1 AATAACTGAATATTACTGAATAATTGACT-GTTACTG
* * *
87643817 AATAACTGATTGTCACTGAATGAA-TGACTGTTACTG
1 AATAACTGAATATTACTGAAT-AATTGACTGTTACTG
* * * *
87643853 AATAACTTAATTGTTATTGAAT-ATCTGA-TTTTACTG
1 AATAACTGAA-TATTACTGAATAAT-TGACTGTTACTG
* * *
87643889 AATAATTGACTATTACTGGATAACCGATCAATTGA-TCGATACTG
1 AATAACTGAATATTACT-G---A---AT-AATTGACT-GTTACTG
** * * * *
87643933 AATAACTGGTTATTATTGAATATTTGATTGTTACCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* *
87643969 AATAACTGACTGTTACTGAATAA
1 AATAACTGAATATTACTGAATAA
87643992 ATAATTGCTC
Statistics
Matches: 185, Mismatches: 41, Indels: 42
0.69 0.15 0.16
Matches are distributed among these distances:
35 12 0.06
36 120 0.65
37 24 0.13
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 20 0.11
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTGACTGTTACTG
Found at i:87643846 original size:72 final size:72
Alignment explanation
Indices: 87643709--87643893 Score: 171
Period size: 72 Copynumber: 2.6 Consensus size: 72
87643699 AAAGGTATAA
* * * * * * * *
87643709 AATAACTGATTATTACAGAATAATTGA-CTGTTACTGGATAATTAACTGTTACTGGATATTAGAC
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAACTAACTGTCACTGAATAATAGAC
*
87643773 TGTTGCTG
65 TGTTACTG
* *
87643781 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAAT-GAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTAACTGTCACTGAAT-AATAGAC
87643845 TGTTACTG
65 TGTTACTG
* * * *
87643853 AATAACTTAATTGTTATTGAAT-ATCTGAT-TTTACTGAATAA
1 AATAACTGAA-TATTACTGAATAAT-TGATCATTACTGAATAA
87643894 TTGACTATTA
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
72 78 0.83
73 16 0.17
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTAACTGTCACTGAATAATAGACT
GTTACTG
Found at i:87656549 original size:25 final size:26
Alignment explanation
Indices: 87656478--87656549 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 26
87656468 AATTTTTCTC
*
87656478 CTAA-ATTTTAT-TTTATTCAATTAT
1 CTAATATTTTATATTTATTAAATTAT
*
87656502 CTAAT-TTTTCA-ATTTATTGAATTAT
1 CTAATATTTT-ATATTTATTAAATTAT
*
87656527 -TAATATTTTATATTAATTAAATT
1 CTAATATTTTATATTTATTAAATT
87656550 TTTGAGGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
24 13 0.32
25 27 0.68
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (26 bp):
CTAATATTTTATATTTATTAAATTAT
Found at i:87663048 original size:103 final size:102
Alignment explanation
Indices: 87662869--87663070 Score: 359
Period size: 103 Copynumber: 2.0 Consensus size: 102
87662859 GTTGTGGACA
*
87662869 GATGAGTAATCCCATTGACCTTGTTATAAAAAGGATTTAGCCTAGATGGGTAATCCCGATATAAT
1 GATGAGTAATCCCATTGACCTTGTTATAAAAAGGATTTAGCCCAGATGGGTAATCCCGATATAAT
*
87662934 ACCCCTCGAGCATACATTGTGATTAGGGATTTAGCTCG
66 ACCCCTCGAGCATACACTGTGATTAGGG-TTTAGCTCG
*
87662972 GATGAGTAATCCCATTGACCTTGTTATAAAAAGGATTTAGCCCGGATGGGTAATCCCGATATAAT
1 GATGAGTAATCCCATTGACCTTGTTATAAAAAGGATTTAGCCCAGATGGGTAATCCCGATATAAT
*
87663037 ACCCCTCGAGCATACGCTGTGATTAGGGTTTAGC
66 ACCCCTCGAGCATACACTGTGATTAGGGTTTAGC
87663071 CTACACTGGT
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
102 6 0.06
103 89 0.94
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (102 bp):
GATGAGTAATCCCATTGACCTTGTTATAAAAAGGATTTAGCCCAGATGGGTAATCCCGATATAAT
ACCCCTCGAGCATACACTGTGATTAGGGTTTAGCTCG
Found at i:87667495 original size:24 final size:24
Alignment explanation
Indices: 87667468--87667583 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
87667458 TTGACATTCC
*
87667468 AATCCGCACACATAGTGCCATATA
1 AATCCGCACACATAGTGCCATACA
*
87667492 AATCTGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
* * * *
87667516 ATTGCACACATATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
*
87667540 AGTCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
*
87667564 AGTCCGCACACATAGTGCCA
1 AATCCGCACACATAGTGCCA
87667584 AAGTCATTTC
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 81 1.00
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:87667505 original size:48 final size:46
Alignment explanation
Indices: 87667426--87667583 Score: 156
Period size: 48 Copynumber: 3.3 Consensus size: 46
87667416 TGTTAGCCCA
* * * * * * *
87667426 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATCCG
1 CACACATAGTGCCATA-TAAATCGCACACATAGTGCCA-TACAATCCG
*
87667474 CACACATAGTGCCATATAAATCTGCACACATAGTGCCATACAAT-TG
1 CACACATAGTGCCATATAAATC-GCACACATAGTGCCATACAATCCG
* *
87667520 CACACATATAGTGCCATACAAGTCCGCACACATAGTGCCATACAAGTCCG
1 CACAC--ATAGTGCCATATAAAT-CGCACACATAGTGCCATACAA-TCCG
87667570 CACACATAGTGCCA
1 CACACATAGTGCCA
87667584 AAGTCATTTC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
46 6 0.06
47 10 0.11
48 69 0.74
49 2 0.02
50 6 0.06
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (46 bp):
CACACATAGTGCCATATAAATCGCACACATAGTGCCATACAATCCG
Found at i:87672490 original size:5 final size:5
Alignment explanation
Indices: 87672480--87672512 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
87672470 CAATTTGTGA
87672480 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
87672513 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:87678240 original size:24 final size:24
Alignment explanation
Indices: 87678208--87678323 Score: 169
Period size: 24 Copynumber: 4.8 Consensus size: 24
87678198 TTGACATTCC
*
87678208 AATCCGCACACATAGTGCCATATA
1 AATCCGCACACATAGTGCCATACA
**
87678232 AATATGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
* * *
87678256 ATTCTGCACATATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
87678280 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
*
87678304 AGTCCGCACACATAGTGCCA
1 AATCCGCACACATAGTGCCA
87678324 AAGTCATTTC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:87690201 original size:20 final size:21
Alignment explanation
Indices: 87690163--87690201 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
87690153 TAGTTTTCGA
*
87690163 TTTAGTTTTCTCTAGATTTCT
1 TTTAGTTTTCTCTACATTTCT
87690184 TTTAGTTTT-TCTACATTT
1 TTTAGTTTTCTCTACATTT
87690202 TTTCTAGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.13, G:0.08, T:0.64
Consensus pattern (21 bp):
TTTAGTTTTCTCTACATTTCT
Found at i:87693446 original size:26 final size:26
Alignment explanation
Indices: 87693415--87693522 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87693405 TGAAATGCCC
87693415 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
87693441 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
87693467 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
87693493 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
87693519 ATCA
1 ATCA
87693523 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:87714219 original size:25 final size:25
Alignment explanation
Indices: 87714178--87714228 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
87714168 ATCTGTAGAG
87714178 AGAAAATTATCTAGAGAAATTATTTT
1 AGAAAATTATCTAGAGAAATT-TTTT
*
87714204 AGAAAATT-TCTAGAGATATTTTTT
1 AGAAAATTATCTAGAGAAATTTTTT
87714228 A
1 A
87714229 TTTATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.21
25 11 0.46
26 8 0.33
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (25 bp):
AGAAAATTATCTAGAGAAATTTTTT
Found at i:87726127 original size:24 final size:24
Alignment explanation
Indices: 87726094--87726149 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
87726084 ACTTGCAGAA
*
87726094 GCAGCAGCTCTTTGTCGAGCCTCT
1 GCAGCAGCTCTTTCTCGAGCCTCT
*
87726118 GCAGCTGCTCTTTCTCGAGCCTCT
1 GCAGCAGCTCTTTCTCGAGCCTCT
87726142 GCAGCAGC
1 GCAGCAGC
87726150 CCTCTCCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.12, C:0.36, G:0.25, T:0.27
Consensus pattern (24 bp):
GCAGCAGCTCTTTCTCGAGCCTCT
Found at i:87728476 original size:15 final size:15
Alignment explanation
Indices: 87728456--87728485 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
87728446 TAGTTTCAAG
87728456 TTCATTACAACATAC
1 TTCATTACAACATAC
87728471 TTCATTACAACATAC
1 TTCATTACAACATAC
87728486 AGACTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
TTCATTACAACATAC
Found at i:87733655 original size:45 final size:45
Alignment explanation
Indices: 87733560--87733730 Score: 164
Period size: 45 Copynumber: 3.8 Consensus size: 45
87733550 TGACGGAAAC
* * * * **
87733560 GAGTGAGACCATAGTTGAAATACACTATGGCATCATGAT-GAAAAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAG-AAGT
* * *
87733605 AAGTAAAACCATAGCTGAAAGACGCTATGGCGTCATGATAGAAGT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAGAAGT
* * * * *
87733650 GAGTAAGACCATAACCGAAAGACGCTATGGCACCAAGATGGAAGT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAGAAGT
* * * *
87733695 GAGTAAGACCATGGCTAAAAGGCGCAATGGCATCAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCAT
87733731 TGTAAATAGG
Statistics
Matches: 100, Mismatches: 25, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
45 99 0.99
46 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAGAAGT
Found at i:87734937 original size:181 final size:181
Alignment explanation
Indices: 87734633--87734960 Score: 444
Period size: 181 Copynumber: 1.8 Consensus size: 181
87734623 CACAACCATG
* * * *
87734633 TGATTCTTTAATTTTGGTACAGGTTTTTCCTACACGGTCTCAGGTTGTTACACGATCATGTGATC
1 TGATTCTTTAATTTTGGTACAAGTTTTTACTACACGATCTCAGGTTGTTACACGATCATGTGACC
* * * * ** * *
87734698 CTATTTTGAATTGCACACAGTTGGGCACACATTTGGCGACACAGTCGTGTGACCCTATTTTCGAA
66 CTATTTCGAATTGCACACAGTCGAGCACACATCTAACGACACAGCCGTGTGACCCTATTTTCAAA
*
87734763 TTATACATGCTTTGGCACGAGCTGCCACATAGTCATGTGCCTCACATGGTA
131 TTATACACGCTTTGGCACGAGCTGCCACATAGTCATGTGCCTCACATGGTA
* * *
87734814 TGATTCTTTAATTTTGGTGCAAGTTTTTACTACACGATCTCAGGTTGTTACATGA-CTGTGTGAC
1 TGATTCTTTAATTTTGGTACAAGTTTTTACTACACGATCTCAGGTTGTTACACGATC-ATGTGAC
* **
87734878 CCTATTTCGAATTGCACACGGTCGAGCACATGTCTAACGACAC-GACCGTGTGACCCTATTTTCA
65 CCTATTTCGAATTGCACACAGTCGAGCACACATCTAACGACACAG-CCGTGTGACCCTATTTTCA
*
87734942 AATTGTACACGCTTTGGCA
129 AATTATACACGCTTTGGCA
87734961 ACACGACCAT
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
180 2 0.02
181 123 0.98
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (181 bp):
TGATTCTTTAATTTTGGTACAAGTTTTTACTACACGATCTCAGGTTGTTACACGATCATGTGACC
CTATTTCGAATTGCACACAGTCGAGCACACATCTAACGACACAGCCGTGTGACCCTATTTTCAAA
TTATACACGCTTTGGCACGAGCTGCCACATAGTCATGTGCCTCACATGGTA
Found at i:87753240 original size:23 final size:23
Alignment explanation
Indices: 87753213--87753261 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
87753203 CTCTAGTGCT
87753213 AGTGCAGCCTGAATCAGGCAAAG
1 AGTGCAGCCTGAATCAGGCAAAG
87753236 AGTGCAGCCTGAATCAGGCAAAG
1 AGTGCAGCCTGAATCAGGCAAAG
87753259 AGT
1 AGT
87753262 TTGTCATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.31, T:0.14
Consensus pattern (23 bp):
AGTGCAGCCTGAATCAGGCAAAG
Found at i:87757067 original size:40 final size:40
Alignment explanation
Indices: 87757005--87757228 Score: 297
Period size: 40 Copynumber: 5.5 Consensus size: 40
87756995 TATTCGGATG
*
87757005 ATATCCGGGCTAAGTTCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
87757045 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* *
87757088 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
87757128 ATATCCGGGCTAAGTCCTGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
87757168 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
87757208 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
87757229 ATACTTGGGT
Statistics
Matches: 164, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 112 0.68
41 1 0.01
43 38 0.23
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:87757144 original size:83 final size:80
Alignment explanation
Indices: 87757005--87757228 Score: 308
Period size: 83 Copynumber: 2.8 Consensus size: 80
87756995 TATTCGGATG
* *
87757005 ATATCCGGGCTAAGTTCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCTGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCTGAAGGCA
** *
87757070 TTTGTGCGAGTAGTTACT
66 TTCATGC---TAGTGACT
*
87757088 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCTGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCTGAAGGCA
87757153 TTCATGCTAGTGACT
66 TTCATGCTAGTGACT
* * * *
87757168 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCTGAAG
87757229 ATACTTGGGT
Statistics
Matches: 130, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 13 0.10
80 48 0.37
81 2 0.02
83 67 0.52
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCTGAAGGCA
TTCATGCTAGTGACT
Found at i:87761983 original size:50 final size:50
Alignment explanation
Indices: 87761821--87762231 Score: 327
Period size: 50 Copynumber: 8.6 Consensus size: 50
87761811 GTATAATGCT
* *
87761821 ATGCCATGTCCCAGGCATGGTCTTACACTAGCTCATC-C--ATCAAGT--CG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATC-CGTGCCG
* * * *
87761868 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-GA-AT-CGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCG-TGCCG
** *
87761916 ACACCATGTGCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCG
87761966 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCG
* * *
87762016 ATGCCATGTCCCAGACATGGTCTTACACT-G---ACACATCT-CGTAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GCCG
* * * * *
87762062 ATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ATAT-TTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCG-TGCCG
* * * ** *
87762108 ATG-CATGTCCCAGATAT-GTCTTACACTAGCTCT--CGTCTCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCG
* * * *
87762154 ATTCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-AT--GTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GCCG
*
87762202 ATG-CATGTCCTAGACAT-GTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
87762232 ACACAAATAA
Statistics
Matches: 297, Mismatches: 47, Indels: 41
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.03
45 20 0.07
46 67 0.23
47 60 0.20
48 53 0.18
49 3 0.01
50 82 0.28
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCG
Found at i:87762177 original size:94 final size:95
Alignment explanation
Indices: 87761825--87762231 Score: 372
Period size: 94 Copynumber: 4.3 Consensus size: 95
87761815 AATGCTATGC
* ** * *
87761825 CATGTCCCAGGCATGGTCTTACACTAGCTCATCCATCAAGT--CGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTC-T-CATCTCGTGCCAATTCCATGTCCCAGACATGG
* * **
87761888 TCTTACACTGGCTATC-GAATCGAGGCCGACAC
64 TCTTACACTGGCTCTCATAATCGAGGCCGA-TG
* * * *
87761920 CATGTGCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT--CATCT-CGTGCCAATTCCATGTCCCAGACATG
* * *
87761985 GTCTTACACTAGCTCTCACATATCCG-TGCCGATG
63 GTCTTACACTGGCTCTCATA-AT-CGAGGCCGATG
* * *
87762019 CCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCCAA-TGCATGTCCCAGACAT-G
1 -CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGT-GCCAATTCCATGTCCCAGACATGG
* *
87762080 TCTTACACTGGCT-T-ATATTTCGAGGCTGATG
64 TCTTACACTGGCTCTCATA-ATCGAGGCCGATG
* * * *
87762111 CATGTCCCAGATAT-GTCTTACACTAGCTCTCGTCTCAATGCCAATTCCATGTCCCAAACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-GTGCCAATTCCATGTCCCAGACATGGT
*
87762175 CTTACACTGGCTCTCATAAT-GTGGCCGATG
65 CTTACACTGGCTCTCATAATCGAGGCCGATG
*
87762205 CATGTCCTAGACAT-GTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
87762232 ACACAAATAA
Statistics
Matches: 259, Mismatches: 36, Indels: 35
0.78 0.11 0.11
Matches are distributed among these distances:
90 10 0.04
91 16 0.06
92 21 0.08
93 16 0.06
94 61 0.24
95 50 0.19
96 13 0.05
98 37 0.14
99 2 0.01
100 31 0.12
101 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (95 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGTGCCAATTCCATGTCCCAGACATGGTC
TTACACTGGCTCTCATAATCGAGGCCGATG
Found at i:87768433 original size:19 final size:20
Alignment explanation
Indices: 87768406--87768446 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
87768396 GTCCCTTGTA
*
87768406 TTTTGAAAAAAATTC-TAAG
1 TTTTCAAAAAAATTCTTAAG
*
87768425 TTTTCAAAAAATTTCTTAAG
1 TTTTCAAAAAAATTCTTAAG
87768445 TT
1 TT
87768447 ATCAGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (20 bp):
TTTTCAAAAAAATTCTTAAG
Found at i:87770068 original size:6 final size:6
Alignment explanation
Indices: 87770051--87770105 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
87770041 AAAAAATGTC
* *
87770051 AAAATT -AAATT AAAATT AAAATTT AAAA-T ATATACT -AAATT AAAATT
1 AAAATT AAAATT AAAATT AAAA-TT AAAATT A-AAATT AAAATT AAAATT
87770098 AAAATT AA
1 AAAATT AA
87770106 TATATCACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
5 10 0.24
6 24 0.59
7 7 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (6 bp):
AAAATT
Found at i:87774116 original size:2 final size:2
Alignment explanation
Indices: 87774109--87774133 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
87774099 ATTTTTAAAG
87774109 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
87774134 AATGTTGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87778724 original size:25 final size:25
Alignment explanation
Indices: 87778690--87778740 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
87778680 TTTTTGGCTA
87778690 AGGGTCAGTATTTTTGGCTGGTCTG
1 AGGGTCAGTATTTTTGGCTGGTCTG
87778715 AGGGTCAGTATTTTTGGCTGGTCTG
1 AGGGTCAGTATTTTTGGCTGGTCTG
87778740 A
1 A
87778741 TGGGGATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.14, C:0.12, G:0.35, T:0.39
Consensus pattern (25 bp):
AGGGTCAGTATTTTTGGCTGGTCTG
Found at i:87782116 original size:8 final size:8
Alignment explanation
Indices: 87782105--87782141 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
87782095 GGTGGTTAAG
87782105 TGGAGTGT
1 TGGAGTGT
87782113 TGGAGTGT
1 TGGAGTGT
87782121 TGGAGTGT
1 TGGAGTGT
*
87782129 TGGAATGT
1 TGGAGTGT
87782137 TGGAG
1 TGGAG
87782142 GTCCTGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.16, C:0.00, G:0.49, T:0.35
Consensus pattern (8 bp):
TGGAGTGT
Found at i:87786387 original size:35 final size:35
Alignment explanation
Indices: 87786348--87786423 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
87786338 TTTTACACCT
87786348 CATTTCATCACTTTTTCTAG-CCTAAATATAAGAAA
1 CATTTCATCACTTTTTCTAGTCC-AAATATAAGAAA
*
87786383 CATTTCATCACTTTTTCTAGTCCAAATATGAGAAA
1 CATTTCATCACTTTTTCTAGTCCAAATATAAGAAA
87786418 CATTTC
1 CATTTC
87786424 CACTCCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 37 0.95
36 2 0.05
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (35 bp):
CATTTCATCACTTTTTCTAGTCCAAATATAAGAAA
Found at i:87796079 original size:15 final size:15
Alignment explanation
Indices: 87796059--87796088 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87796049 CATTTTTTCT
*
87796059 ATATTAGGATAATTA
1 ATATTAAGATAATTA
87796074 ATATTAAGATAATTA
1 ATATTAAGATAATTA
87796089 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:87796132 original size:10 final size:10
Alignment explanation
Indices: 87796113--87796159 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
87796103 TTTTACGATT
87796113 TTAT-TTTAA
1 TTATCTTTAA
87796122 TTATCTTTAA
1 TTATCTTTAA
87796132 TTATCTTTAA
1 TTATCTTTAA
** *
87796142 TTAAATTTAT
1 TTATCTTTAA
87796152 TTATCTTT
1 TTATCTTT
87796160 TTAGAATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 4 0.12
10 28 0.88
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:87799851 original size:6 final size:6
Alignment explanation
Indices: 87799840--87799896 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
87799830 AGGCAACACA
* * *
87799840 ATTTTT ATTTTT ATTTTT ATTTATT TTTTCTT ATTATT -TTATT ATTTATT
1 ATTTTT ATTTTT ATTTTT ATTT-TT ATTT-TT ATTTTT ATTTTT ATTT-TT
87799890 ATTTTT A
1 ATTTTT A
87799897 GATATTAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 5 0.12
6 23 0.53
7 15 0.35
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:87799868 original size:18 final size:19
Alignment explanation
Indices: 87799840--87799896 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 19
87799830 AGGCAACACA
87799840 ATTTT-TATTTTTATTTTT
1 ATTTTATATTTTTATTTTT
* *
87799858 A-TTTAT-TTTTTCTTATT
1 ATTTTATATTTTTATTTTT
87799875 ATTTTATTATTTATTATTTTT
1 ATTTTA-TATTT-TTATTTTT
87799896 A
1 A
87799897 GATATTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 13 0.43
18 6 0.20
19 1 0.03
20 3 0.10
21 7 0.23
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (19 bp):
ATTTTATATTTTTATTTTT
Found at i:87799902 original size:28 final size:28
Alignment explanation
Indices: 87799848--87799903 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
87799838 CAATTTTTAT
* *
87799848 TTTTATTTTTATTTATTTTTTCTTATTA
1 TTTTATTTTTATTTATTTTTACATATTA
*
87799876 TTTTATTATTTA-TTATTTTTAGATATTA
1 TTTTATT-TTTATTTATTTTTACATATTA
87799904 ATAAAATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (28 bp):
TTTTATTTTTATTTATTTTTACATATTA
Found at i:87801415 original size:15 final size:15
Alignment explanation
Indices: 87801395--87801424 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87801385 CATTTTATCT
*
87801395 ATATTAGGATAATTA
1 ATATTAAGATAATTA
87801410 ATATTAAGATAATTA
1 ATATTAAGATAATTA
87801425 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:87809643 original size:18 final size:18
Alignment explanation
Indices: 87809607--87809750 Score: 211
Period size: 18 Copynumber: 7.9 Consensus size: 18
87809597 AATCATATCT
*
87809607 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
87809626 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
87809644 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
87809661 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
87809679 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
87809697 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
87809714 TCTAAGATTGCATATCACA
1 TCTAAGATTGCA-ATCATA
87809733 TCTAAGATTGCAGATCAT
1 TCTAAGATTGCA-ATCAT
87809751 TGAAGATTAT
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
17 32 0.28
18 50 0.44
19 32 0.28
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:87809665 original size:35 final size:36
Alignment explanation
Indices: 87809607--87809750 Score: 213
Period size: 35 Copynumber: 4.0 Consensus size: 36
87809597 AATCATATCT
87809607 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
87809644 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
*
87809679 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
*
87809714 TCTAAGATTGCATATCACATCTAAGATTGCAGATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
87809751 TGAAGATTAT
Statistics
Matches: 99, Mismatches: 3, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
35 53 0.54
36 31 0.31
37 10 0.10
38 5 0.05
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:87809758 original size:53 final size:54
Alignment explanation
Indices: 87809607--87809750 Score: 254
Period size: 53 Copynumber: 2.7 Consensus size: 54
87809597 AATCATATCT
*
87809607 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
87809661 TCTAAGATTGCA-ATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
*
87809714 TCTAAGATTGCATATCACATCTAAGATTGCAGATCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
87809751 TGAAGATTAT
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
53 53 0.62
54 28 0.33
55 5 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:87809903 original size:21 final size:20
Alignment explanation
Indices: 87809866--87809904 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
87809856 TTGGGCTTCG
**
87809866 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
87809886 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
87809905 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:87825406 original size:18 final size:18
Alignment explanation
Indices: 87825385--87825430 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
87825375 ATACGGATGC
* *
87825385 AGATGCAGATGCAAATAA
1 AGATACAGATACAAATAA
*
87825403 AGATACAGATACAAATAT
1 AGATACAGATACAAATAA
*
87825421 AGTTACAGAT
1 AGATACAGAT
87825431 GTTGATACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (18 bp):
AGATACAGATACAAATAA
Found at i:87829925 original size:19 final size:19
Alignment explanation
Indices: 87829901--87829937 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
87829891 TTTGAAAGAT
87829901 AGAATTTCCTGCTACTCGG
1 AGAATTTCCTGCTACTCGG
87829920 AGAATTTCCTGCTACTCG
1 AGAATTTCCTGCTACTCG
87829938 AAAAAGGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (19 bp):
AGAATTTCCTGCTACTCGG
Found at i:87834362 original size:25 final size:25
Alignment explanation
Indices: 87834300--87834381 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
87834290 TCATTAGGGT
* *
87834300 TACCGATTGATAGCTCATGAGAA-CA
1 TACCGATTTATAGCTCGTGA-AAGCA
* * *
87834325 TGCCAATTGATAGCTCGTGAAAGCA
1 TACCGATTTATAGCTCGTGAAAGCA
* *
87834350 TATCGATTTATAGCTCGTGAGAGCA
1 TACCGATTTATAGCTCGTGAAAGCA
87834375 TACCGAT
1 TACCGAT
87834382 CTTTGGTTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
24 2 0.04
25 45 0.96
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (25 bp):
TACCGATTTATAGCTCGTGAAAGCA
Found at i:87835413 original size:15 final size:15
Alignment explanation
Indices: 87835381--87835409 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
87835371 ATTTTCTATG
87835381 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
87835396 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
87835410 ATTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:87836610 original size:45 final size:44
Alignment explanation
Indices: 87836537--87836669 Score: 112
Period size: 45 Copynumber: 3.0 Consensus size: 44
87836527 ATAGGATCCA
* * * *
87836537 ATATGTGTTTTCGTGTAAAACCACGTCTGCGACGTTGGCATCGAT
1 ATATGTG-ATTCGTGTAAGACCATGTCTGAGACGTTGGCATCGAT
* ** **
87836582 ATATGTGGTTACGTGTAAGACCATGTCTGAGATATCAGCATCG-T
1 ATATGTGATT-CGTGTAAGACCATGTCTGAGACGTTGGCATCGAT
* *
87836626 AT-T-TGATTCGTGTAAGACCCTGTCTGGGACAG-TGGCATCGAT
1 ATATGTGATTCGTGTAAGACCATGTCTGAGAC-GTTGGCATCGAT
87836668 AT
1 AT
87836670 GAGATAGCAT
Statistics
Matches: 70, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
41 25 0.36
42 7 0.10
43 1 0.01
44 5 0.07
45 32 0.46
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
ATATGTGATTCGTGTAAGACCATGTCTGAGACGTTGGCATCGAT
Found at i:87844692 original size:45 final size:41
Alignment explanation
Indices: 87844615--87844725 Score: 114
Period size: 45 Copynumber: 2.6 Consensus size: 41
87844605 GATACGCGTT
* * ** *
87844615 TTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGG
1 TTCGTGTAAGACCATGTCTGGGACATCAGCATCG-TAT-T-TGA
* *
87844659 TTATGTGTAAGACCATGTTTGGGACATCAGCATCGTATTTGA
1 TT-CGTGTAAGACCATGTCTGGGACATCAGCATCGTATTTGA
*
87844701 TTCGTGTAAGACCCTGTCTGGGACA
1 TTCGTGTAAGACCATGTCTGGGACA
87844726 GTGGCATTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 20 0.36
42 4 0.07
43 1 0.02
44 5 0.09
45 26 0.46
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (41 bp):
TTCGTGTAAGACCATGTCTGGGACATCAGCATCGTATTTGA
Found at i:87851608 original size:28 final size:28
Alignment explanation
Indices: 87851568--87851623 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
87851558 GATTTTGAAG
87851568 ATGCATCAAACCTTGTGGTGGTTATTTC
1 ATGCATCAAACCTTGTGGTGGTTATTTC
87851596 ATGCATCAAACCTTGTGGTGGTTATTTC
1 ATGCATCAAACCTTGTGGTGGTTATTTC
87851624 TTTTACTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (28 bp):
ATGCATCAAACCTTGTGGTGGTTATTTC
Found at i:87854126 original size:5 final size:5
Alignment explanation
Indices: 87854070--87854109 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
87854060 AATTTCACAT
87854070 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
87854110 CTAACTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:87854290 original size:13 final size:14
Alignment explanation
Indices: 87854271--87854310 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
87854261 TTTCAAATAA
*
87854271 CATTTTTTATTTTT
1 CATTTTTAATTTTT
87854285 -ATTTTTAATTTTT
1 CATTTTTAATTTTT
*
87854298 CATTTTTCATTTT
1 CATTTTTAATTTT
87854311 CGGAAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (14 bp):
CATTTTTAATTTTT
Found at i:87854330 original size:6 final size:7
Alignment explanation
Indices: 87854271--87854310 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
87854261 TTTCAAATAA
87854271 CATTTTT
1 CATTTTT
*
87854278 TATTTTT
1 CATTTTT
87854285 -ATTTTT
1 CATTTTT
*
87854291 AATTTTT
1 CATTTTT
87854298 CATTTTT
1 CATTTTT
87854305 CATTTT
1 CATTTT
87854311 CGGAAAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (7 bp):
CATTTTT
Found at i:87860182 original size:19 final size:19
Alignment explanation
Indices: 87860146--87860183 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87860136 TTATTATTAA
*
87860146 ATATTTATGAATTTAATAT
1 ATATTTATGAATTAAATAT
87860165 ATATTTATG-ATTAAA-AT
1 ATATTTATGAATTAAATAT
87860182 AT
1 AT
87860184 TAATAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
ATATTTATGAATTAAATAT
Found at i:87860183 original size:15 final size:15
Alignment explanation
Indices: 87860128--87860184 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 15
87860118 TTTTATACTA
* *
87860128 TAAAACATTTATTAT
1 TAAAATATTTATGAT
87860143 T-AAATATTTATGAATT
1 TAAAATATTTATG-A-T
87860159 TAATATATATTTATGAT
1 TAA-A-ATATTTATGAT
87860176 TAAAATATT
1 TAAAATATT
87860185 AATAGATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 9 0.26
15 7 0.20
16 3 0.09
17 5 0.14
18 2 0.06
19 9 0.26
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (15 bp):
TAAAATATTTATGAT
Found at i:87860259 original size:19 final size:18
Alignment explanation
Indices: 87860225--87860271 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
87860215 ATATTACTCA
*
87860225 TAATTTTAAA-TTATTAT
1 TAATTTAAAATTTATTAT
87860242 TAATGTTAAAATTTATTAT
1 TAAT-TTAAAATTTATTAT
87860261 TAATTTAAAAT
1 TAATTTAAAAT
87860272 CATAATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 12 0.44
19 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TAATTTAAAATTTATTAT
Found at i:87860280 original size:19 final size:19
Alignment explanation
Indices: 87860239--87860282 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
87860229 TTTAAATTAT
* *
87860239 TATTAATGTTAAAATTTAT
1 TATTAATGTTAAAATATAA
87860258 TATTAAT-TTAAAATCATAA
1 TATTAATGTTAAAAT-ATAA
87860277 TATTAA
1 TATTAA
87860283 ATTTTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
TATTAATGTTAAAATATAA
Found at i:87860301 original size:32 final size:32
Alignment explanation
Indices: 87860242--87860303 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
87860232 AAATTATTAT
* *
87860242 TAATGTTAAAATTTATTATTAATTTAAAATCA
1 TAATATTAAAATTTATTATAAATTTAAAATCA
*
87860274 TAATATTAAATTTTATTA-AAATATTAAAAT
1 TAATATTAAAATTTATTATAAAT-TTAAAAT
87860304 ATGTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 3 0.12
32 23 0.88
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (32 bp):
TAATATTAAAATTTATTATAAATTTAAAATCA
Found at i:87863459 original size:3 final size:3
Alignment explanation
Indices: 87863453--87863481 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
87863443 ATTAATATTA
87863453 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
87863482 ATTATTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:87863486 original size:3 final size:3
Alignment explanation
Indices: 87863480--87863513 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
87863470 GTTGTTGTTG
* *
87863480 TTA TTA TTG TTA ATA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
87863514 ATTTCTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:87871089 original size:11 final size:11
Alignment explanation
Indices: 87871075--87871115 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
87871065 TATTTTCTCC
87871075 CTATTTTGCTA
1 CTATTTTGCTA
*
87871086 CTATTTTACTA
1 CTATTTTGCTA
* *
87871097 TTATATTGCTA
1 CTATTTTGCTA
87871108 CTATTTTG
1 CTATTTTG
87871116 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:87871188 original size:30 final size:30
Alignment explanation
Indices: 87871152--87871214 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
87871142 ACTTATTTTA
*
87871152 TTGTTAATTTTTTTATTATTGTA-AAGACAT
1 TTGTTAATTTTGTTATTATTGTAGAA-ACAT
*
87871182 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAATTTTGTTATTATTGTAGAAACAT
87871212 TTG
1 TTG
87871215 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTGTAGAAACAT
Found at i:87871318 original size:18 final size:18
Alignment explanation
Indices: 87871297--87871335 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
87871287 GAAATATTTA
*
87871297 TTTGAT-GTTTTTAGTATT
1 TTTGATGGTTTATA-TATT
87871315 TTTGATGGTTTATATATT
1 TTTGATGGTTTATATATT
87871333 TTT
1 TTT
87871336 TAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.67
Consensus pattern (18 bp):
TTTGATGGTTTATATATT
Found at i:87871335 original size:19 final size:18
Alignment explanation
Indices: 87871290--87871336 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
87871280 TTGTTGAGAA
*
87871290 ATATTTATTTGATGTTTTT
1 ATATTT-TTTGATGTTTAT
87871309 AGTA-TTTTTGATGGTTTAT
1 A-TATTTTTTGAT-GTTTAT
87871328 ATATTTTTT
1 ATATTTTTT
87871337 AAAATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 8 0.33
19 14 0.58
20 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (18 bp):
ATATTTTTTGATGTTTAT
Found at i:87873213 original size:66 final size:66
Alignment explanation
Indices: 87873105--87873240 Score: 254
Period size: 66 Copynumber: 2.1 Consensus size: 66
87873095 TACATACAAA
*
87873105 CAGATAATAGAATACAAATAGTTCGACCTTAGCCATATAGGTATCGCATGCATAACAATTAGATA
1 CAGATAATAGAATACAAATAGTTCGACCTTAGCCATACAGGTATCGCATGCATAACAATTAGATA
87873170 T
66 T
*
87873171 CAGATAATAGAATACAAATAGTTCGGCCTTAGCCATACAGGTATCGCATGCATAACAATTAGATA
1 CAGATAATAGAATACAAATAGTTCGACCTTAGCCATACAGGTATCGCATGCATAACAATTAGATA
87873236 T
66 T
87873237 CAGA
1 CAGA
87873241 AAACATGCCC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (66 bp):
CAGATAATAGAATACAAATAGTTCGACCTTAGCCATACAGGTATCGCATGCATAACAATTAGATA
T
Found at i:87878196 original size:17 final size:17
Alignment explanation
Indices: 87878174--87878206 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
87878164 ACAAGGGAGA
87878174 AAAAGAAAGAAAGAAAG
1 AAAAGAAAGAAAGAAAG
*
87878191 AAAAGAAAGGAAGAAA
1 AAAAGAAAGAAAGAAA
87878207 AGAGAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAAGAAAG
Found at i:87878197 original size:13 final size:13
Alignment explanation
Indices: 87878175--87878209 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
87878165 CAAGGGAGAA
87878175 AAAG-AAAGAAAG
1 AAAGAAAAGAAAG
87878187 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
*
87878200 GAAGAAAAGA
1 AAAGAAAAGA
87878210 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGAAAG
Found at i:87879184 original size:51 final size:53
Alignment explanation
Indices: 87879122--87879239 Score: 141
Period size: 51 Copynumber: 2.2 Consensus size: 53
87879112 ATGTGTCGAC
* *
87879122 TACTGTGACTGTTCCGGATTCGTTCCGAAGAGGTAC-TCTGTACC-TGACTGT
1 TACTGTTACTGTTCCAGATTCGTTCCGAAGAGGTACTTCTGTACCGTGACTGT
** * * * *
87879173 TACTGTTACTGTTTTAGATTTGTTCCGATGAGGTACTTTGTGTACCGTTACTGT
1 TACTGTTACTGTTCCAGATTCGTTCCGAAGAGGTAC-TTCTGTACCGTGACTGT
87879227 TACTGTTACTGTT
1 TACTGTTACTGTT
87879240 ATTATTACGG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 30 0.54
53 7 0.12
54 19 0.34
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (53 bp):
TACTGTTACTGTTCCAGATTCGTTCCGAAGAGGTACTTCTGTACCGTGACTGT
Found at i:87879236 original size:54 final size:51
Alignment explanation
Indices: 87879138--87879239 Score: 141
Period size: 54 Copynumber: 1.9 Consensus size: 51
87879128 GACTGTTCCG
87879138 GATTCGTTCCGAAGAGGTACTCTGTACCTGACTGTTACTGTTACTGTTTTA
1 GATTCGTTCCGAAGAGGTACTCTGTACCTGACTGTTACTGTTACTGTTTTA
* * * *
87879189 GATTTGTTCCGATGAGGTACTTTGTGTACCGTTACTGTTACTGTTACTGTT
1 GATTCGTTCCGAAGAGGTAC--TCTGTACC-TGACTGTTACTGTTACTGTT
87879240 ATTATTACGG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 18 0.41
53 7 0.16
54 19 0.43
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.42
Consensus pattern (51 bp):
GATTCGTTCCGAAGAGGTACTCTGTACCTGACTGTTACTGTTACTGTTTTA
Found at i:87885721 original size:38 final size:39
Alignment explanation
Indices: 87885665--87885814 Score: 205
Period size: 38 Copynumber: 3.8 Consensus size: 39
87885655 TTGATGTGTG
87885665 TCCGGGCTTAAAGTCCCGCAGGCTTCGTGCTGGTATTATA
1 TCCGGG-TTAAAGTCCCGCAGGCTTCGTGCTGGTATTATA
87885705 TCCGGGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATA
1 TCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTATA
* * *
87885743 TCCGGGTTAAA-TCTCACAGGCTTAGTGCTGGTATTATA
1 TCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTATA
* * * *
87885781 TTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TCCG-GGTTAAAGTCCCGCAGGCTTCGTGCTGGT
87885815 GACTGGATTC
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
38 65 0.66
39 11 0.11
40 23 0.23
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.33
Consensus pattern (39 bp):
TCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTATA
Found at i:87885854 original size:81 final size:76
Alignment explanation
Indices: 87885693--87885855 Score: 166
Period size: 81 Copynumber: 2.1 Consensus size: 76
87885683 CAGGCTTCGT
* * * *
87885693 GCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCTC
1 GCTGGTATTATATCCGGCTTAAATCCCGCAGGCTTCGTGCTGGTACTAGATCCGGGTTAAACCTC
**
87885758 ACAGGCTTAGT
66 ACAGGCTTAAC
* * * * *
87885769 GCTGGTATTATATTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTGACTGGATTCGGGTTTTAA
1 GCTGGTATTATATCCG-GCTTAAA-TCCCGCAGGCTTCGTGCTGGT-ACTAGATCCGGG--TTAA
87885834 ACCT-AGCAGGCTTAAC
61 ACCTCA-CAGGCTTAAC
87885850 GCTGGT
1 GCTGGT
87885856 GATTCAAGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
76 15 0.21
77 6 0.09
78 19 0.27
79 8 0.11
80 1 0.01
81 21 0.30
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (76 bp):
GCTGGTATTATATCCGGCTTAAATCCCGCAGGCTTCGTGCTGGTACTAGATCCGGGTTAAACCTC
ACAGGCTTAAC
Found at i:87890837 original size:11 final size:11
Alignment explanation
Indices: 87890823--87890847 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
87890813 TTCATTTTCC
87890823 TTTAATATTAG
1 TTTAATATTAG
87890834 TTTAATATTAG
1 TTTAATATTAG
87890845 TTT
1 TTT
87890848 TTACAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTAATATTAG
Found at i:87897503 original size:25 final size:25
Alignment explanation
Indices: 87897434--87897529 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 25
87897424 ATACACCACA
* * *
87897434 GCTCTCACGAGATTCCCGTTATTTA
1 GCTCTCACGAGCTTCCCGATATTTG
* * *
87897459 GCTCTTATGAGCATCCCGATATTTG
1 GCTCTCACGAGCTTCCCGATATTTG
* *
87897484 GCTCTCACGAGTTTCTCGATATTTG
1 GCTCTCACGAGCTTCCCGATATTTG
** *
87897509 GCTCTCTTGAGCTTCTCGATA
1 GCTCTCACGAGCTTCCCGATA
87897530 AATGACTCGC
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.38
Consensus pattern (25 bp):
GCTCTCACGAGCTTCCCGATATTTG
Found at i:87897562 original size:25 final size:25
Alignment explanation
Indices: 87897534--87897581 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
87897524 TCGATAAATG
*
87897534 ACTCGCAAGAGCTTCCCGTTATACA
1 ACTCACAAGAGCTTCCCGTTATACA
* *
87897559 ACTCACATGAGTTTCCCGTTATA
1 ACTCACAAGAGCTTCCCGTTATA
87897582 TGGCTCGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (25 bp):
ACTCACAAGAGCTTCCCGTTATACA
Found at i:87898028 original size:42 final size:42
Alignment explanation
Indices: 87897981--87898064 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
87897971 AAATGGTAAG
87897981 TTAAATTCCATGTTAAACGAACTTACTAAACTTAAATGCTTA
1 TTAAATTCCATGTTAAACGAACTTACTAAACTTAAATGCTTA
* * *
87898023 TTAAATTCCATGTTATATGAACTTACTAAGCTTAAATGCTTA
1 TTAAATTCCATGTTAAACGAACTTACTAAACTTAAATGCTTA
87898065 CATTGTTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (42 bp):
TTAAATTCCATGTTAAACGAACTTACTAAACTTAAATGCTTA
Found at i:87903133 original size:20 final size:19
Alignment explanation
Indices: 87903108--87903293 Score: 100
Period size: 20 Copynumber: 9.7 Consensus size: 19
87903098 TTTTTCCATA
87903108 AAAAATTATTAAAAAATCAT
1 AAAAATTA-TAAAAAATCAT
* *
87903128 AAAAATTTTATAAAAATCAA
1 AAAAATTATA-AAAAATCAT
*
87903148 AAAAATATAAAAAAAAT-AT
1 AAAAAT-TATAAAAAATCAT
* * * *
87903167 TAAAATTAATATAAACTTAT
1 AAAAATT-ATAAAAAATCAT
*
87903187 TAAAATTAT-AAAAATACAT
1 AAAAATTATAAAAAAT-CAT
* *
87903206 AAAAACTTAT-AAATATTAT
1 AAAAA-TTATAAAAAATCAT
*
87903225 AAAAA-TA-GAAAAATC-T
1 AAAAATTATAAAAAATCAT
* *
87903241 AATAAATCAT-AAAAATTAT
1 AA-AAATTATAAAAAATCAT
87903260 AAAAATTAATAAAAAAAT-AT
1 AAAAATT-AT-AAAAAATCAT
**
87903280 TTAAATTATAAAAA
1 AAAAATTATAAAAA
87903294 TAGAATTAAA
Statistics
Matches: 130, Mismatches: 22, Indels: 30
0.71 0.12 0.16
Matches are distributed among these distances:
16 3 0.02
17 10 0.08
18 21 0.16
19 36 0.28
20 52 0.40
21 8 0.06
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.30
Consensus pattern (19 bp):
AAAAATTATAAAAAATCAT
Found at i:87903191 original size:29 final size:29
Alignment explanation
Indices: 87903159--87903231 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
87903149 AAAATATAAA
* *
87903159 AAAAATATTAAAATTA-ATATAAACTTATT
1 AAAAATA-TAAAAATACATAAAAACTTATT
*
87903188 AAAATTATAAAAATACATAAAAACTTA-T
1 AAAAATATAAAAATACATAAAAACTTATT
*
87903216 AAATATTATAAAAATA
1 AAA-AATATAAAAATA
87903232 GAAAAATCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 11 0.28
29 28 0.72
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (29 bp):
AAAAATATAAAAATACATAAAAACTTATT
Found at i:87903217 original size:10 final size:9
Alignment explanation
Indices: 87903108--87903381 Score: 120
Period size: 9 Copynumber: 28.6 Consensus size: 9
87903098 TTTTTCCATA
87903108 AAAAATTATT
1 AAAAATTA-T
*
87903118 AAAAAATCAT
1 -AAAAATTAT
87903128 AAAAATTTTAT
1 AAAAA--TTAT
* *
87903139 AAAAATCAA
1 AAAAATTAT
*
87903148 AAAAATATAA
1 AAAAAT-TAT
*
87903158 AAAAAATAT
1 AAAAATTAT
*
87903167 TAAAATTAAT
1 AAAAATT-AT
*
87903177 ATAAACTTAT
1 A-AAAATTAT
*
87903187 TAAAATTAT
1 AAAAATTAT
*
87903196 AAAAATACAT
1 AAAAAT-TAT
87903206 AAAAACTTAT
1 AAAAA-TTAT
*
87903216 AAATATTAT
1 AAAAATTAT
*
87903225 AAAAA-TAG
1 AAAAATTAT
87903233 AAAAATCTA-
1 AAAAAT-TAT
* *
87903242 ATAAATCAT
1 AAAAATTAT
87903251 AAAAATTAT
1 AAAAATTAT
87903260 AAAAATTAAT
1 AAAAATT-AT
*
87903270 AAAAAAATAT
1 -AAAAATTAT
**
87903280 TTAAATTAT
1 AAAAATTAT
*
87903289 AAAAATAGAAT
1 AAAAAT--TAT
* *
87903300 TAAAATTCTT
1 AAAAATT-AT
*
87903310 AAAAAATAAT
1 -AAAAATTAT
* *
87903320 AAAATTTGT
1 AAAAATTAT
*
87903329 AAAATTTAT
1 AAAAATTAT
*
87903338 AAAAAAATAT
1 -AAAAATTAT
*
87903348 TAAAATTGAT
1 AAAAATT-AT
*
87903358 AAAACTTAT
1 AAAAATTAT
*
87903367 AAAAAGTACT
1 AAAAATTA-T
87903377 AAAAA
1 AAAAA
87903382 AATCATAAAA
Statistics
Matches: 196, Mismatches: 48, Indels: 39
0.69 0.17 0.14
Matches are distributed among these distances:
8 8 0.04
9 96 0.49
10 53 0.27
11 39 0.20
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:87903252 original size:26 final size:26
Alignment explanation
Indices: 87903223--87903272 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
87903213 TATAAATATT
87903223 ATAAAAA-TAGAAAAATCTAATAAATC
1 ATAAAAATTAGAAAAAT-TAATAAATC
*
87903249 ATAAAAATTATAAAAATTAATAAA
1 ATAAAAATTAGAAAAATTAATAAA
87903273 AAAATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (26 bp):
ATAAAAATTAGAAAAATTAATAAATC
Found at i:87903305 original size:20 final size:20
Alignment explanation
Indices: 87903251--87903325 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
87903241 AATAAATCAT
* *
87903251 AAAAATTATAAAAATTAATA
1 AAAAAATATTAAAATTAATA
*
87903271 AAAAAATATTTAAATT-ATA
1 AAAAAATATTAAAATTAATA
* *
87903290 AAAATAGA-ATTAAAATT-CTT
1 AAAA-A-ATATTAAAATTAATA
*
87903310 AAAAAATAATAAAATT
1 AAAAAATATTAAAATT
87903326 TGTAAAATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.02
19 16 0.36
20 27 0.60
21 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (20 bp):
AAAAAATATTAAAATTAATA
Found at i:87903352 original size:29 final size:29
Alignment explanation
Indices: 87903310--87903371 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
87903300 TAAAATTCTT
*
87903310 AAAAAATAATAAAATTTG-TAAAATTTATA
1 AAAAAATAATAAAA-TTGATAAAACTTATA
*
87903339 AAAAAATATTAAAATTGATAAAACTTATA
1 AAAAAATAATAAAATTGATAAAACTTATA
87903368 AAAA
1 AAAA
87903372 GTACTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 3 0.10
29 27 0.90
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAAAATAATAAAATTGATAAAACTTATA
Found at i:87903381 original size:29 final size:27
Alignment explanation
Indices: 87903309--87903381 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 27
87903299 TTAAAATTCT
* *
87903309 TAAAAAATAATAAAATTTGTAAAATTTA
1 TAAAAAAT-ATAAAAATTGTAAAACTTA
*
87903337 TAAAAAAATATTAAAATTGATAAAACTTA
1 T-AAAAAATATAAAAATTG-TAAAACTTA
*
87903366 TAAAAAGTACTAAAAA
1 TAAAAAATA-TAAAAA
87903382 AATCATAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (27 bp):
TAAAAAATATAAAAATTGTAAAACTTA
Found at i:87903382 original size:68 final size:67
Alignment explanation
Indices: 87903215--87903391 Score: 166
Period size: 68 Copynumber: 2.6 Consensus size: 67
87903205 TAAAAACTTA
* * * *
87903215 TAAATATTATAAAAATAG-A-AAAAT-CT-AATAAATCATAAAAATTATAAAAATTAATAAAAAA
1 TAAA-ATTATAAAAATAGAATAAAATACTAAAAAAATAATAAAATTTGT-AAAATTAATAAAAAA
87903276 ATAT
64 ATAT
* * * *
87903280 TTAAATTATAAAAATAGAATTAAAATTCTTAAAAAATAATAAAATTTGTAAAATTTATAAAAAAA
1 TAAAATTATAAAAATAGAA-TAAAATACTAAAAAAATAATAAAATTTGTAAAATTAATAAAAAAA
87903345 TAT
65 TAT
* * * *
87903348 TAAAATTGATAAAACTTATAA-AAAGTACTAAAAAAATCATAAAA
1 TAAAATT-ATAAAA-ATAGAATAAAATACTAAAAAAATAATAAAA
87903392 ACTTGAACAA
Statistics
Matches: 92, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
64 13 0.14
65 4 0.04
67 5 0.05
68 45 0.49
69 21 0.23
70 4 0.04
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (67 bp):
TAAAATTATAAAAATAGAATAAAATACTAAAAAAATAATAAAATTTGTAAAATTAATAAAAAAAT
AT
Found at i:87903920 original size:9 final size:9
Alignment explanation
Indices: 87903906--87903946 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
87903896 TATTAATTTC
87903906 ATATTTTTA
1 ATATTTTTA
87903915 ATA--TTTA
1 ATATTTTTA
87903922 ATATTTTT-
1 ATATTTTTA
87903930 ATATTTTTA
1 ATATTTTTA
87903939 ATATTTTT
1 ATATTTTT
87903947 TTCTAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.24
8 8 0.28
9 14 0.48
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATATTTTTA
Found at i:87903935 original size:8 final size:8
Alignment explanation
Indices: 87903872--87903946 Score: 53
Period size: 8 Copynumber: 8.8 Consensus size: 8
87903862 AATTTATCGG
87903872 ATTTTTAT
1 ATTTTTAT
*
87903880 AATATTTAT
1 -ATTTTTAT
**
87903889 AAGTTTAT
1 ATTTTTAT
87903897 ATTAATTTCAT
1 ATT--TTT-AT
87903908 ATTTTTA-
1 ATTTTTAT
*
87903915 ATATTTAAT
1 AT-TTTTAT
87903924 ATTTTTAT
1 ATTTTTAT
87903932 ATTTTTAAT
1 ATTTTT-AT
87903941 ATTTTT
1 ATTTTT
87903947 TTCTAATTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
7 2 0.04
8 23 0.43
9 20 0.38
10 3 0.06
11 5 0.09
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (8 bp):
ATTTTTAT
Found at i:87903938 original size:17 final size:17
Alignment explanation
Indices: 87903892--87903946 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
87903882 TATTTATAAG
*
87903892 TTTATATTAATTTCATATT
1 TTTATATT--TTTAATATT
*
87903911 TTTA-ATATTTAATATT
1 TTTATATTTTTAATATT
87903927 TTTATATTTTTAATATT
1 TTTATATTTTTAATATT
87903944 TTT
1 TTT
87903947 TTCTAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 12 0.38
17 14 0.44
18 2 0.06
19 4 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTTTTAATATT
Found at i:87903947 original size:34 final size:34
Alignment explanation
Indices: 87903872--87903947 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 34
87903862 AATTTATCGG
*
87903872 ATTTTTATAATATTTATAAGTTTATATTAATTTCAT
1 ATTTTT-TAATATTTATAAGTTTATATT-ATTTAAT
**
87903908 A-TTTTTAATATTTAATATTTTTATATT-TTTAAT
1 ATTTTTTAATATTT-ATAAGTTTATATTATTTAAT
87903941 ATTTTTT
1 ATTTTTT
87903948 TCTAATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
33 6 0.17
34 13 0.37
35 15 0.43
36 1 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (34 bp):
ATTTTTTAATATTTATAAGTTTATATTATTTAAT
Found at i:87904998 original size:65 final size:65
Alignment explanation
Indices: 87904892--87905013 Score: 199
Period size: 65 Copynumber: 1.9 Consensus size: 65
87904882 TTTTAATGCG
* * *
87904892 TTTACAATATGGTTTCTTTAATTACATGGCTTTTTTTTGTTTGGTTGCGAAGAAAATTCGACACA
1 TTTACAATATGGTTTCTTTAATTACATGGCTCTTTTCTGTTTGGTTGCCAAGAAAATTCGACACA
* *
87904957 TTTACAGTATGGTTTCTTTGATTACATGGCTCTTTTCTGTTTGGTTGCCAAGAAAAT
1 TTTACAATATGGTTTCTTTAATTACATGGCTCTTTTCTGTTTGGTTGCCAAGAAAAT
87905014 AAGGGAAAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 52 1.00
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (65 bp):
TTTACAATATGGTTTCTTTAATTACATGGCTCTTTTCTGTTTGGTTGCCAAGAAAATTCGACACA
Found at i:87909687 original size:22 final size:22
Alignment explanation
Indices: 87909659--87909713 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
87909649 TAAGAAATCC
* **
87909659 TAAAAAATATATTTTTTAATTT
1 TAAAAAATATAATTTGAAATTT
87909681 TAAAAAATA-AATTTGAAATTT
1 TAAAAAATATAATTTGAAATTT
*
87909702 AAAAAAATATAA
1 TAAAAAATATAA
87909714 AAATATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAAAAATATAATTTGAAATTT
Found at i:87909845 original size:5 final size:5
Alignment explanation
Indices: 87909837--87909864 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
87909827 TAATTGATTG
87909837 AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA
87909865 AAACTTGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:87912017 original size:17 final size:18
Alignment explanation
Indices: 87911990--87912025 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
87911980 TACCAATCAT
*
87911990 AGCAGTTAAAATAATAAA
1 AGCAGTTAAAACAATAAA
87912008 AGCA-TTAAAACAATAAA
1 AGCAGTTAAAACAATAAA
87912025 A
1 A
87912026 ACCAGAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.19
Consensus pattern (18 bp):
AGCAGTTAAAACAATAAA
Found at i:87921989 original size:82 final size:82
Alignment explanation
Indices: 87921897--87922087 Score: 319
Period size: 82 Copynumber: 2.3 Consensus size: 82
87921887 CGTAGCCAAG
*
87921897 GGTATGAGTGATTTTATTTTGTTTGTTTCAGCTCTGCTGTTAAGATGCTGGAGTTGGTGTGGATT
1 GGTATGAGTGATTTTATTTTGTTTGTTTCAGCTCTGCTGTTAAGATGCTAGAGTTGGTGTGGATT
87921962 TTAAACCCTTAGAAAGT
66 TTAAACCCTTAGAAAGT
*
87921979 GGTATGAGTGATTTTATTTTGTTTGTTTCAGCTCTGCTGTTAAGATGGTAGAGTTGGTGTGGATT
1 GGTATGAGTGATTTTATTTTGTTTGTTTCAGCTCTGCTGTTAAGATGCTAGAGTTGGTGTGGATT
87922044 TTAAACCCTTAGAAAGT
66 TTAAACCCTTAGAAAGT
* *
87922061 GGTTAGTTATGGGATTTTATTTTGTTT
1 GG-TA-TGA-GTGATTTTATTTTGTTT
87922088 TATCCTATTT
Statistics
Matches: 102, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
82 82 0.80
83 2 0.02
84 2 0.02
85 16 0.16
ACGTcount: A:0.20, C:0.08, G:0.27, T:0.45
Consensus pattern (82 bp):
GGTATGAGTGATTTTATTTTGTTTGTTTCAGCTCTGCTGTTAAGATGCTAGAGTTGGTGTGGATT
TTAAACCCTTAGAAAGT
Found at i:87924680 original size:11 final size:12
Alignment explanation
Indices: 87924659--87924695 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
87924649 GCTTAAGCCA
87924659 TTATCTTTCTCTT
1 TTAT-TTTCTCTT
87924672 TT-TTTTCTCTT
1 TTATTTTCTCTT
87924683 TTATTTT-TCTT
1 TTATTTTCTCTT
87924694 TT
1 TT
87924696 GGTGGTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 16 0.70
12 5 0.22
13 2 0.09
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATTTTCTCTT
Found at i:87925489 original size:17 final size:18
Alignment explanation
Indices: 87925467--87925503 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
87925457 GATATGATAC
*
87925467 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
87925484 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
87925502 TA
1 TA
87925504 GGGAAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:87925820 original size:19 final size:19
Alignment explanation
Indices: 87925792--87925864 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
87925782 AATCATATCT
*
87925792 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
87925811 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
87925828 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
87925847 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
87925865 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
17 16 0.33
19 33 0.67
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:87925843 original size:14 final size:17
Alignment explanation
Indices: 87925804--87925856 Score: 79
Period size: 17 Copynumber: 3.0 Consensus size: 17
87925794 TAAAATTGCA
87925804 TATCATATCTAAGATTG
1 TATCATATCTAAGATTG
*
87925821 TATCATATCTAAGATTACA
1 TATCATATCTAAGATT--G
87925840 TATCATATCTAAGATTG
1 TATCATATCTAAGATTG
87925857 CATATCATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 16 0.50
19 16 0.50
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (17 bp):
TATCATATCTAAGATTG
Found at i:87925871 original size:36 final size:36
Alignment explanation
Indices: 87925802--87925873 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
87925792 TCTAAAATTG
*
87925802 CATATCATATCTAAGATTGTATCATATCTAAGATTA
1 CATATCATATCTAAGATTGTATCATATCGAAGATTA
87925838 CATATCATATCTAAGATTGCATATCAT-T-GAAGATTA
1 CATATCATATCTAAGATTG--TATCATATCGAAGATTA
87925874 TATTTCTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 26 0.79
37 1 0.03
38 6 0.18
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (36 bp):
CATATCATATCTAAGATTGTATCATATCGAAGATTA
Found at i:87925872 original size:17 final size:19
Alignment explanation
Indices: 87925802--87925873 Score: 71
Period size: 19 Copynumber: 4.0 Consensus size: 19
87925792 TCTAAAATTG
*
87925802 CATATCATATCTAAGATT-
1 CATATCATATCGAAGATTA
* *
87925820 -GTATCATATCTAAGATTA
1 CATATCATATCGAAGATTA
* *
87925838 CATATCATATCTAAGATTG
1 CATATCATATCGAAGATTA
87925857 CATATCAT-T-GAAGATTA
1 CATATCATATCGAAGATTA
87925874 TATTTCTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
17 22 0.47
18 1 0.02
19 24 0.51
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
CATATCATATCGAAGATTA
Found at i:87928054 original size:11 final size:12
Alignment explanation
Indices: 87928040--87928068 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
87928030 TCTAAATTAC
87928040 ATTTCTTTC-AA
1 ATTTCTTTCTAA
87928051 ATTTCTTTCTAA
1 ATTTCTTTCTAA
87928063 ATTTCT
1 ATTTCT
87928069 CAAAAAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTCTTTCTAA
Found at i:87930599 original size:13 final size:13
Alignment explanation
Indices: 87930581--87930644 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
87930571 AATTTGGTAA
87930581 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
87930594 TGCTTTTGGAAAG
1 TGCTTTTGAAAAG
*
87930607 TGC-TATGAAAAAG
1 TGCTTTTG-AAAAG
*
87930620 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
87930633 TACTTTTGAAAA
1 TGCTTTTGAAAA
87930645 TTTAGTTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 3 0.07
13 36 0.86
14 3 0.07
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Done.