Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 287 of 290
Found at i:91697093 original size:5 final size:5
Alignment explanation
Indices: 91697083--91697120 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
91697073 TATATATATA
91697083 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
91697121 CTTAATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:91698473 original size:96 final size:96
Alignment explanation
Indices: 91698320--91698498 Score: 277
Period size: 96 Copynumber: 1.9 Consensus size: 96
91698310 TGTCATTGAT
* * * *
91698320 GGGAACGATGGAACAGATACGGAGCCCAATAAGCTTGGTTCGAGCAAGGGAAAAGCCGAAGCCAA
1 GGGAACGATGGAACAGACAAGGAGCCCAAGAAGCTTGATTCGAGCAAGGGAAAAGCCGAAGCCAA
91698385 GAGGGCAAACAGGAGCAAGCCTGTCATCAAA
66 GAGGGCAAACAGGAGCAAGCCTGTCATCAAA
* * *
91698416 GGGAACGATGGAGCAGACAAGGAGCCTAAGAAGCTTGATTCGAGCAAGGGTAAAGCCGAAGCCAA
1 GGGAACGATGGAACAGACAAGGAGCCCAAGAAGCTTGATTCGAGCAAGGGAAAAGCCGAAGCCAA
* *
91698481 GAGGGCTAAGAGGAGCAA
66 GAGGGCAAACAGGAGCAA
91698499 AAAGAAGCGA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.37, C:0.19, G:0.34, T:0.10
Consensus pattern (96 bp):
GGGAACGATGGAACAGACAAGGAGCCCAAGAAGCTTGATTCGAGCAAGGGAAAAGCCGAAGCCAA
GAGGGCAAACAGGAGCAAGCCTGTCATCAAA
Found at i:91702346 original size:24 final size:23
Alignment explanation
Indices: 91702319--91702444 Score: 101
Period size: 24 Copynumber: 5.3 Consensus size: 23
91702309 TTACTAGATA
*
91702319 TGCGGATTTAAGTGGCACTATGTC
1 TGCGGATTTAA-TGGCACTATGTG
* *
91702343 TGCGTATTTGTATGGCACTATGTG
1 TGCGGATTT-AATGGCACTATGTG
* * *
91702367 AGCGTATTTGTATGGCACTATGTG
1 TGCGGATTT-AATGGCACTATGTG
*
91702391 TGCGTATATGTAA-GGCACTATGTG
1 TGCGGAT-T-TAATGGCACTATGTG
* * *
91702415 TGCAGAATTATTTGGCACTATGTG
1 TGCGGATTTA-ATGGCACTATGTG
91702439 TGCGGA
1 TGCGGA
91702445 GTTGAATCGT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
22 2 0.02
23 1 0.01
24 79 0.92
25 3 0.03
26 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.36
Consensus pattern (23 bp):
TGCGGATTTAATGGCACTATGTG
Found at i:91702408 original size:48 final size:48
Alignment explanation
Indices: 91702331--91702442 Score: 147
Period size: 48 Copynumber: 2.3 Consensus size: 48
91702321 CGGATTTAAG
* * * *
91702331 TGGCACTATGTCTGCGTATTTGTATGGCACTATGTGAGC-GTATT-TGT
1 TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGAGCAGAATTAT-T
*
91702378 ATGGCACTATGTGTGCGTATATGTAAGGCACTATGTGTGCAGAATTATT
1 -TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGAGCAGAATTATT
91702427 TGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
91702443 GAGTTGAATC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
48 51 0.89
49 5 0.09
50 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.37
Consensus pattern (48 bp):
TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGAGCAGAATTATT
Found at i:91704985 original size:51 final size:51
Alignment explanation
Indices: 91704908--91705065 Score: 253
Period size: 51 Copynumber: 3.1 Consensus size: 51
91704898 ACTTCTTATC
* * * *
91704908 AGTGACAAGTGATAAGTGGTAACCTCAGCTACACTCATTTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
*
91704959 AGTGACAAGTGATAAATGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
* *
91705010 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
91705061 AGTGA
1 AGTGA
91705066 TAAATGTGAT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 99 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
Found at i:91707056 original size:29 final size:28
Alignment explanation
Indices: 91707000--91707070 Score: 65
Period size: 29 Copynumber: 2.5 Consensus size: 28
91706990 AAACCCTATT
*
91707000 TCCCCTTTTCTTTCTTCTTTCTTCTTTC
1 TCCCCTTTTCTTTCTTCTTTCATCTTTC
91707028 TCCCCTGTTTCTTCTCTGT-TTTCAT-TTTC
1 TCCCCT-TTTCTT-TCT-TCTTTCATCTTTC
**
91707057 ATTTCCTTTTCTTT
1 -TCCCCTTTTCTTT
91707071 TAACTTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
28 7 0.19
29 16 0.44
30 12 0.33
31 1 0.03
ACGTcount: A:0.03, C:0.31, G:0.03, T:0.63
Consensus pattern (28 bp):
TCCCCTTTTCTTTCTTCTTTCATCTTTC
Found at i:91707107 original size:5 final size:5
Alignment explanation
Indices: 91707097--91707134 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
91707087 TTTATATATA
91707097 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
91707135 CTTAATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:91708487 original size:96 final size:96
Alignment explanation
Indices: 91708334--91708512 Score: 277
Period size: 96 Copynumber: 1.9 Consensus size: 96
91708324 TGTCATTGAT
* * * *
91708334 GGGAACGATGGAACAGATACGGAGCCCAATAAGCTTGGTTCGAGCAAGGGAAAAGCCGAAGCCAA
1 GGGAACGATGGAACAGACAAGGAGCCCAAGAAGCTTGATTCGAGCAAGGGAAAAGCCGAAGCCAA
91708399 GAGGGCAAACAGGAGCAAGCCTGTCATCAAA
66 GAGGGCAAACAGGAGCAAGCCTGTCATCAAA
* * *
91708430 GGGAACGATGGAGCAGACAAGGAGCCTAAGAAGCTTGATTCGAGCAAGGGTAAAGCCGAAGCCAA
1 GGGAACGATGGAACAGACAAGGAGCCCAAGAAGCTTGATTCGAGCAAGGGAAAAGCCGAAGCCAA
* *
91708495 GAGGGCTAAGAGGAGCAA
66 GAGGGCAAACAGGAGCAA
91708513 AAAGAAGCGA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.37, C:0.19, G:0.34, T:0.10
Consensus pattern (96 bp):
GGGAACGATGGAACAGACAAGGAGCCCAAGAAGCTTGATTCGAGCAAGGGAAAAGCCGAAGCCAA
GAGGGCAAACAGGAGCAAGCCTGTCATCAAA
Found at i:91712362 original size:24 final size:23
Alignment explanation
Indices: 91712335--91712460 Score: 101
Period size: 24 Copynumber: 5.3 Consensus size: 23
91712325 TTACTAGATA
*
91712335 TGCGGATTTAAGTGGCACTATGTC
1 TGCGGATTTAA-TGGCACTATGTG
* *
91712359 TGCGTATTTGTATGGCACTATGTG
1 TGCGGATTT-AATGGCACTATGTG
* * *
91712383 AGCGTATTTGTATGGCACTATGTG
1 TGCGGATTT-AATGGCACTATGTG
*
91712407 TGCGTATATGTAA-GGCACTATGTG
1 TGCGGAT-T-TAATGGCACTATGTG
* * *
91712431 TGCAGAATTATTTGGCACTATGTG
1 TGCGGATTTA-ATGGCACTATGTG
91712455 TGCGGA
1 TGCGGA
91712461 GTTGAATCGT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
22 2 0.02
23 1 0.01
24 79 0.92
25 3 0.03
26 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.36
Consensus pattern (23 bp):
TGCGGATTTAATGGCACTATGTG
Found at i:91712424 original size:48 final size:48
Alignment explanation
Indices: 91712347--91712458 Score: 147
Period size: 48 Copynumber: 2.3 Consensus size: 48
91712337 CGGATTTAAG
* * * *
91712347 TGGCACTATGTCTGCGTATTTGTATGGCACTATGTGAGC-GTATT-TGT
1 TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGAGCAGAATTAT-T
*
91712394 ATGGCACTATGTGTGCGTATATGTAAGGCACTATGTGTGCAGAATTATT
1 -TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGAGCAGAATTATT
91712443 TGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
91712459 GAGTTGAATC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
48 51 0.89
49 5 0.09
50 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.37
Consensus pattern (48 bp):
TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGAGCAGAATTATT
Found at i:91715001 original size:51 final size:51
Alignment explanation
Indices: 91714924--91715081 Score: 253
Period size: 51 Copynumber: 3.1 Consensus size: 51
91714914 ACTTCTTATC
* * * *
91714924 AGTGACAAGTGATAAGTGGTAACCTCAGCTACACTCATTTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
*
91714975 AGTGACAAGTGATAAATGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
* *
91715026 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
91715077 AGTGA
1 AGTGA
91715082 TAAATGTGAT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 99 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
Found at i:91717072 original size:29 final size:28
Alignment explanation
Indices: 91717016--91717086 Score: 65
Period size: 29 Copynumber: 2.5 Consensus size: 28
91717006 AAACCCTATT
*
91717016 TCCCCTTTTCTTTCTTCTTTCTTCTTTC
1 TCCCCTTTTCTTTCTTCTTTCATCTTTC
91717044 TCCCCTGTTTCTTCTCTGT-TTTCAT-TTTC
1 TCCCCT-TTTCTT-TCT-TCTTTCATCTTTC
**
91717073 ATTTCCTTTTCTTT
1 -TCCCCTTTTCTTT
91717087 TAACTTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
28 7 0.19
29 16 0.44
30 12 0.33
31 1 0.03
ACGTcount: A:0.03, C:0.31, G:0.03, T:0.63
Consensus pattern (28 bp):
TCCCCTTTTCTTTCTTCTTTCATCTTTC
Found at i:91717125 original size:5 final size:5
Alignment explanation
Indices: 91717115--91717152 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
91717105 TATATATATA
91717115 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
91717153 CTTAATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:91718505 original size:96 final size:96
Alignment explanation
Indices: 91718352--91718530 Score: 277
Period size: 96 Copynumber: 1.9 Consensus size: 96
91718342 TGTCATTGAT
* * * *
91718352 GGGAACGATGGAACAGATACGGAGCCCAATAAGCTTGGTTCGAGCAAGGGAAAAGCCGAAGCCAA
1 GGGAACGATGGAACAGACAAGGAGCCCAAGAAGCTTGATTCGAGCAAGGGAAAAGCCGAAGCCAA
91718417 GAGGGCAAACAGGAGCAAGCCTGTCATCAAA
66 GAGGGCAAACAGGAGCAAGCCTGTCATCAAA
* * *
91718448 GGGAACGATGGAGCAGACAAGGAGCCTAAGAAGCTTGATTCGAGCAAGGGTAAAGCCGAAGCCAA
1 GGGAACGATGGAACAGACAAGGAGCCCAAGAAGCTTGATTCGAGCAAGGGAAAAGCCGAAGCCAA
* *
91718513 GAGGGCTAAGAGGAGCAA
66 GAGGGCAAACAGGAGCAA
91718531 AAAGAAGCGA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.37, C:0.19, G:0.34, T:0.10
Consensus pattern (96 bp):
GGGAACGATGGAACAGACAAGGAGCCCAAGAAGCTTGATTCGAGCAAGGGAAAAGCCGAAGCCAA
GAGGGCAAACAGGAGCAAGCCTGTCATCAAA
Found at i:91722379 original size:24 final size:23
Alignment explanation
Indices: 91722352--91722477 Score: 101
Period size: 24 Copynumber: 5.3 Consensus size: 23
91722342 TTACTAGATA
*
91722352 TGCGGATTTAAGTGGCACTATGTC
1 TGCGGATTTAA-TGGCACTATGTG
* *
91722376 TGCGTATTTGTATGGCACTATGTG
1 TGCGGATTT-AATGGCACTATGTG
* * *
91722400 AGCGTATTTGTATGGCACTATGTG
1 TGCGGATTT-AATGGCACTATGTG
*
91722424 TGCGTATATGTAA-GGCACTATGTG
1 TGCGGAT-T-TAATGGCACTATGTG
* * *
91722448 TGCAGAATTATTTGGCACTATGTG
1 TGCGGATTTA-ATGGCACTATGTG
91722472 TGCGGA
1 TGCGGA
91722478 GTTGAATCGT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
22 2 0.02
23 1 0.01
24 79 0.92
25 3 0.03
26 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.36
Consensus pattern (23 bp):
TGCGGATTTAATGGCACTATGTG
Found at i:91722441 original size:48 final size:48
Alignment explanation
Indices: 91722364--91722475 Score: 147
Period size: 48 Copynumber: 2.3 Consensus size: 48
91722354 CGGATTTAAG
* * * *
91722364 TGGCACTATGTCTGCGTATTTGTATGGCACTATGTGAGC-GTATT-TGT
1 TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGAGCAGAATTAT-T
*
91722411 ATGGCACTATGTGTGCGTATATGTAAGGCACTATGTGTGCAGAATTATT
1 -TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGAGCAGAATTATT
91722460 TGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
91722476 GAGTTGAATC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
48 51 0.89
49 5 0.09
50 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.37
Consensus pattern (48 bp):
TGGCACTATGTGTGCGTATATGTAAGGCACTATGTGAGCAGAATTATT
Found at i:91725019 original size:51 final size:51
Alignment explanation
Indices: 91724942--91725099 Score: 253
Period size: 51 Copynumber: 3.1 Consensus size: 51
91724932 ACTTCTTATC
* * * *
91724942 AGTGACAAGTGATAAGTGGTAACCTCAGCTACACTCATTTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
*
91724993 AGTGACAAGTGATAAATGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
* *
91725044 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
91725095 AGTGA
1 AGTGA
91725100 TAAATGTGAT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 99 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
Found at i:91732004 original size:37 final size:37
Alignment explanation
Indices: 91731941--91732053 Score: 101
Period size: 37 Copynumber: 3.1 Consensus size: 37
91731931 ATTTTAAAAA
*
91731941 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
91731977 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
* *
91732015 AAAGTGATTATCTTAATA--TTAA-ATTAAATTTAATGTT
1 TAA-T-ATTATCTTAATAGTTTAATATTAAA-TTAATATT
91732052 TA
1 TA
91732054 TCTTGTAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
36 12 0.19
37 30 0.48
38 7 0.11
39 12 0.19
40 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:91732035 original size:31 final size:29
Alignment explanation
Indices: 91732000--91732057 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
91731990 AATAGTATTT
*
91732000 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
91732031 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
91732058 GTAGATAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:91732128 original size:18 final size:17
Alignment explanation
Indices: 91732101--91732134 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
91732091 TGTAGATAAG
91732101 ATTTAATATTAAATTTA
1 ATTTAATATTAAATTTA
*
91732118 ATTTAAATATTATATTT
1 ATTT-AATATTAAATTT
91732135 TACACATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTAATATTAAATTTA
Found at i:91756920 original size:20 final size:22
Alignment explanation
Indices: 91756894--91756941 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 22
91756884 AAGTCATCGT
91756894 AATAAAGTGAGAAAAAAATA-G
1 AATAAAGTGAGAAAAAAATATG
*
91756915 -ATAAA--GAGAAAATAATATG
1 AATAAAGTGAGAAAAAAATATG
91756934 AATAAAGT
1 AATAAAGT
91756942 ATCCATTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
18 11 0.50
19 1 0.05
20 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.17, T:0.19
Consensus pattern (22 bp):
AATAAAGTGAGAAAAAAATATG
Found at i:91766364 original size:37 final size:37
Alignment explanation
Indices: 91766314--91766389 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
91766304 AAGAGAGAAT
**
91766314 AAATTAATTAATTAAAAGTAGGATTCATTGTCGTTCC
1 AAATTAATTAATTAAAAGTAGGATTCATCATCGTTCC
91766351 AAATTAATTAATTAAAAGTAGGATTCATCATCGTTCC
1 AAATTAATTAATTAAAAGTAGGATTCATCATCGTTCC
91766388 AA
1 AA
91766390 GAAAATAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (37 bp):
AAATTAATTAATTAAAAGTAGGATTCATCATCGTTCC
Found at i:91768833 original size:12 final size:12
Alignment explanation
Indices: 91768816--91768853 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
91768806 TGGGTTAATA
*
91768816 TTTGATTTTTTC
1 TTTGATTTATTC
91768828 TTTGATTTATTC
1 TTTGATTTATTC
91768840 TTTG-TTGTATTC
1 TTTGATT-TATTC
91768852 TT
1 TT
91768854 AGTTAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 2 0.08
12 22 0.92
ACGTcount: A:0.11, C:0.08, G:0.11, T:0.71
Consensus pattern (12 bp):
TTTGATTTATTC
Found at i:91775699 original size:9 final size:9
Alignment explanation
Indices: 91775687--91775723 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
91775677 CAATAAATAA
91775687 TTTAAAAAT
1 TTTAAAAAT
91775696 TTTAAAAAT
1 TTTAAAAAT
91775705 TTAATAAAAAT
1 TT--TAAAAAT
91775716 TTTAAAAA
1 TTTAAAAA
91775724 AATTAGAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 17 0.65
11 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:91777507 original size:16 final size:17
Alignment explanation
Indices: 91777484--91777522 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
91777474 ATATATAATA
*
91777484 ATAAAATTGAAAATTAT
1 ATAAAATTAAAAATTAT
91777501 A-AAAATTAAAAATTAT
1 ATAAAATTAAAAATTAT
91777517 ATAAAA
1 ATAAAA
91777523 GTAGATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
ATAAAATTAAAAATTAT
Found at i:91780912 original size:51 final size:51
Alignment explanation
Indices: 91780854--91780957 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
91780844 AAGATGAATG
91780854 TTTCTCTTTCCTTCAACAATTTCAACTATTTATACATGTATTAATCTTTGA
1 TTTCTCTTTCCTTCAACAATTTCAACTATTTATACATGTATTAATCTTTGA
* *
91780905 TTTCTCTTTCCTTCCACTATTTCAACTATTTATACATGTATTAATCTTTGA
1 TTTCTCTTTCCTTCAACAATTTCAACTATTTATACATGTATTAATCTTTGA
91780956 TT
1 TT
91780958 AACCTTATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.25, C:0.20, G:0.04, T:0.51
Consensus pattern (51 bp):
TTTCTCTTTCCTTCAACAATTTCAACTATTTATACATGTATTAATCTTTGA
Found at i:91781558 original size:14 final size:14
Alignment explanation
Indices: 91781500--91781558 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
91781490 CTTATCTATT
*
91781500 TTATTATTATGATA
1 TTATTATTATAATA
*
91781514 TGATTATTAATAATA
1 TTATTATT-ATAATA
* *
91781529 TTATTATTACATTA
1 TTATTATTATAATA
* *
91781543 TTGTTATTATAGTA
1 TTATTATTATAATA
91781557 TT
1 TT
91781559 CTTTTATTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
14 24 0.67
15 12 0.33
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (14 bp):
TTATTATTATAATA
Found at i:91782605 original size:21 final size:21
Alignment explanation
Indices: 91782552--91782605 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
91782542 ACTACTGATT
* * *
91782552 TTAATCTTATTGCTACGATCA
1 TTAATCTTACTGCTACAATAA
91782573 TTAAT-TTCACTGCTACAATAA
1 TTAATCTT-ACTGCTACAATAA
*
91782594 TTGATCTTACTG
1 TTAATCTTACTG
91782606 ATATCGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (21 bp):
TTAATCTTACTGCTACAATAA
Found at i:91786880 original size:13 final size:13
Alignment explanation
Indices: 91786864--91786903 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
91786854 TTCATAAAAA
91786864 TTTTATAATTTATT
1 TTTTATAATTT-TT
*
91786878 TTTTATAAATTTT
1 TTTTATAATTTTT
*
91786891 GTTTATAATTTTT
1 TTTTATAATTTTT
91786904 ATGTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (13 bp):
TTTTATAATTTTT
Found at i:91786910 original size:20 final size:21
Alignment explanation
Indices: 91786887--91786925 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
91786877 TTTTTATAAA
91786887 TTTTGTTTA-TAATTTTTATG
1 TTTTGTTTACTAATTTTTATG
*
91786907 TTTTTTTTACTAATTTTTA
1 TTTTGTTTACTAATTTTTA
91786926 AAATTTAAAA
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:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTGTTTACTAATTTTTATG
Found at i:91789713 original size:31 final size:31
Alignment explanation
Indices: 91789650--91789719 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
91789640 AACTTGTGGA
*
91789650 TTTAGTCTCTATACTTTTTAAATTGATCAAT
1 TTTAGTCTCTATACTTTTTAAATTGATAAAT
*
91789681 TTTAGTCTCTATACTTTTTAAATT-TTAAAAT
1 TTTAGTCTCTATACTTTTTAAATTGAT-AAAT
91789712 TTTAGTCT
1 TTTAGTCT
91789720 TAACCAAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.29, C:0.11, G:0.06, T:0.54
Consensus pattern (31 bp):
TTTAGTCTCTATACTTTTTAAATTGATAAAT
Found at i:91796361 original size:60 final size:60
Alignment explanation
Indices: 91796282--91796395 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
91796272 ATCTTACATG
*
91796282 ATAAAATACTCATTTAGTAAGGCCTACACCAAG-TTTGATCAAGTGGCATCTTATTATACA
1 ATAAAATACTCATTTAGTAAGGCCTACACCAAGCTTT-ATCAAGTGACATCTTATTATACA
* * * * *
91796342 ATAAGATACTTATTTAGTAAGGTCTATACCACGCTTTATCAAGTGACATCTTAT
1 ATAAAATACTCATTTAGTAAGGCCTACACCAAGCTTTATCAAGTGACATCTTAT
91796396 CACATCTCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 44 0.94
61 3 0.06
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (60 bp):
ATAAAATACTCATTTAGTAAGGCCTACACCAAGCTTTATCAAGTGACATCTTATTATACA
Found at i:91802455 original size:17 final size:17
Alignment explanation
Indices: 91802417--91802455 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
91802407 ATTTTCATTT
*
91802417 TTTTTGAATTTTTCTAA
1 TTTTTGAATGTTTCTAA
*
91802434 CTTTTGAATGTTTCTAA
1 TTTTTGAATGTTTCTAA
91802451 TTTTT
1 TTTTT
91802456 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.64
Consensus pattern (17 bp):
TTTTTGAATGTTTCTAA
Found at i:91804161 original size:27 final size:27
Alignment explanation
Indices: 91804131--91804185 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
91804121 ACATAAAGAA
91804131 AGAACAACCATGTTTAAAACTAGGTCT
1 AGAACAACCATGTTTAAAACTAGGTCT
91804158 AGAACAACCATGTTTAAAACTAGGTCT
1 AGAACAACCATGTTTAAAACTAGGTCT
91804185 A
1 A
91804186 AATATCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (27 bp):
AGAACAACCATGTTTAAAACTAGGTCT
Found at i:91809280 original size:16 final size:15
Alignment explanation
Indices: 91809230--91809281 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
91809220 AAAATTTTCA
91809230 ATAAATA-AA-AAAT
1 ATAAATATAATAAAT
* *
91809243 ATAAATTTATTAAAT
1 ATAAATATAATAAAT
*
91809258 ATTAATATAATATAAT
1 ATAAATATAATA-AAT
91809274 ATAAATAT
1 ATAAATAT
91809282 TTAAAAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 6 0.20
14 1 0.03
15 13 0.43
16 10 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAATATAATAAAT
Found at i:91811243 original size:27 final size:26
Alignment explanation
Indices: 91811210--91811264 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 26
91811200 GAATTTTGTC
91811210 AAATTTAAATACTAAATTGAACAAAAA
1 AAATTTAAATACTAAATT-AACAAAAA
*
91811237 AAATTTAAATACTAAATTAAGAAAAA
1 AAATTTAAATACTAAATTAACAAAAA
91811263 AA
1 AA
91811265 TGTGGAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.25
Consensus pattern (26 bp):
AAATTTAAATACTAAATTAACAAAAA
Found at i:91811273 original size:26 final size:27
Alignment explanation
Indices: 91811210--91811279 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
91811200 GAATTTTGTC
*
91811210 AAATTTAAATACTAAATTGAACAAAAA
1 AAATTGAAATACTAAATTGAACAAAAA
* *
91811237 AAATTTAAATACTAAATT-AA-GAAAA
1 AAATTGAAATACTAAATTGAACAAAAA
*
91811262 AAATGTGGAATACTAAAT
1 AAAT-TGAAATACTAAAT
91811280 ATTATATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 8 0.21
26 13 0.33
27 18 0.46
ACGTcount: A:0.60, C:0.06, G:0.07, T:0.27
Consensus pattern (27 bp):
AAATTGAAATACTAAATTGAACAAAAA
Found at i:91813532 original size:2 final size:2
Alignment explanation
Indices: 91813525--91813555 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
91813515 AATGGTCCTC
91813525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
91813556 CATGTGTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91817409 original size:10 final size:10
Alignment explanation
Indices: 91817396--91817448 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
91817386 ATTTCATGCT
*
91817396 ATTTTTTTAA
1 ATTTTTATAA
91817406 ATTTTTATAA
1 ATTTTTATAA
*
91817416 ATTTTTATAC
1 ATTTTTATAA
*
91817426 CTTTTT-T-A
1 ATTTTTATAA
*
91817434 ATATTTATAA
1 ATTTTTATAA
91817444 ATTTT
1 ATTTT
91817449 AATTTACTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
8 4 0.12
9 2 0.06
10 28 0.82
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTTATAA
Found at i:91817448 original size:18 final size:20
Alignment explanation
Indices: 91817403--91817448 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
91817393 GCTATTTTTT
*
91817403 TAAATTTTTATAAATTTTTA
1 TAAATTTTTATAAATATTTA
**
91817423 TACCTTTTT-T-AATATTTA
1 TAAATTTTTATAAATATTTA
91817441 TAAATTTT
1 TAAATTTT
91817449 AATTTACTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
18 13 0.62
19 1 0.05
20 7 0.33
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
TAAATTTTTATAAATATTTA
Found at i:91824062 original size:146 final size:146
Alignment explanation
Indices: 91823798--91824096 Score: 499
Period size: 146 Copynumber: 2.0 Consensus size: 146
91823788 TACAAGTAGC
* *
91823798 ATTTCCCTAATTGAAATGCACTTCCTAAATCCGAACCATCTCAACTAAATAAAATGCCTATAAAA
1 ATTTCCCTAATTGAAATGCACTTCCCAAATCCGAACCATCTCAACTAAATAAAATGCATATAAAA
* * *
91823863 TCTACCAATCATCGAATCAAGCATAAAAATTACCCACATTGCATCTACTAAAACCGAACGAATTT
66 TCTAACAATCATCAAATCAAGCATAAAAATTACCCACATTGCATCTACTAAAACCGAACAAATTT
*
91823928 AAGCTTAAAAATTCAA
131 AAGCTTAAAAACTCAA
*
91823944 ATTTCCCTAATTGAAATGCACTTCCCAACTCCGAACCATCTCAACTAAATAAAATGCATATAAAA
1 ATTTCCCTAATTGAAATGCACTTCCCAAATCCGAACCATCTCAACTAAATAAAATGCATATAAAA
* * **
91824009 TCTAACGATCATCAAATCAAGCATAAAAGTTACTTACATTGCATCTACTAAAACCGAACAAATTT
66 TCTAACAATCATCAAATCAAGCATAAAAATTACCCACATTGCATCTACTAAAACCGAACAAATTT
91824074 AAGCTTAAAAACTCAA
131 AAGCTTAAAAACTCAA
91824090 ATTTCCC
1 ATTTCCC
91824097 AGATCAAATT
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
146 142 1.00
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (146 bp):
ATTTCCCTAATTGAAATGCACTTCCCAAATCCGAACCATCTCAACTAAATAAAATGCATATAAAA
TCTAACAATCATCAAATCAAGCATAAAAATTACCCACATTGCATCTACTAAAACCGAACAAATTT
AAGCTTAAAAACTCAA
Found at i:91831006 original size:177 final size:175
Alignment explanation
Indices: 91830588--91831087 Score: 729
Period size: 177 Copynumber: 2.8 Consensus size: 175
91830578 AGTATAGCAA
* * * ** *
91830588 ATATAGATATGTGTGTGTGTTGAAAATATCTGACATACACAAAACCAACCCAGTCTAGAGTACAT
1 ATATA-ATCTGTGTGTGTGTTGAAAATATCTAACACACACAAAACCAGGCCAATCTAGAGTACAT
* *
91830653 CGAACTATAAAAAAAGCCCCAATTAGTATAACTACTAATCTCATTTAAGTTCACCTTCTTTTCTC
65 CCAACTATAAAAAAAGCCCCAATTAGTATAACTACTAATCTCATTTAAGTTCATCTTCTTTTCTC
* *
91830718 CGCTTTAGGGGCAAAGCATGCAGCAGATTATATATATATGTATATGT
130 CACTTTAGGGGCAAAGCATGCAGCA-ATAATATATATATGTATATGT
*
91830765 ATATAATC--TGTGTGTGTTGAAAATATCTAACACACGCAAAACCAGGCCAATCTAGA-TAACAT
1 ATATAATCTGTGTGTGTGTTGAAAATATCTAACACACACAAAACCAGGCCAATCTAGAGT-ACAT
* * *
91830827 CCAACTATAACAAAAGCCTCAATTAATATAACTACTAATCTCATTTAAGTTCATCTTCTTTTTCT
65 CCAACTATAAAAAAAGCCCCAATTAGTATAACTACTAATCTCATTTAAGTTCATCTTC-TTTTCT
91830892 CCACTTTAGGGGCAAAGCATGCAGC-ATAATATATATATGTATGTATGT
129 CCACTTTAGGGGCAAAGCATGCAGCAATAATATATATATGTA--TATGT
* * *
91830940 ATATTATCTGTGTGTGTGTTGAAAATATGTAACACACACAAAATCAGGCCAATCTAGAGTACATC
1 ATATAATCTGTGTGTGTGTTGAAAATATCTAACACACACAAAACCAGGCCAATCTAGAGTACATC
* * *
91831005 CAACCATAAAAAAAGCCCCAATTAGTGTAACTACTAATCTCATTTGAGTTCATCTTCTTTTCTCC
66 CAACTATAAAAAAAGCCCCAATTAGTATAACTACTAATCTCATTTAAGTTCATCTTCTTTTCTCC
*
91831070 ACTTTAGGGGCCAAGCAT
131 ACTTTAGGGGCAAAGCAT
91831088 ACCTAATAGT
Statistics
Matches: 291, Mismatches: 25, Indels: 15
0.88 0.08 0.05
Matches are distributed among these distances:
173 16 0.05
174 99 0.34
175 42 0.14
176 27 0.09
177 106 0.36
178 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (175 bp):
ATATAATCTGTGTGTGTGTTGAAAATATCTAACACACACAAAACCAGGCCAATCTAGAGTACATC
CAACTATAAAAAAAGCCCCAATTAGTATAACTACTAATCTCATTTAAGTTCATCTTCTTTTCTCC
ACTTTAGGGGCAAAGCATGCAGCAATAATATATATATGTATATGT
Found at i:91831522 original size:6 final size:6
Alignment explanation
Indices: 91831513--91831539 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
91831503 GGAAAAAAAA
91831513 AATTAG AATTAG AATTAG AATTAG AAT
1 AATTAG AATTAG AATTAG AATTAG AAT
91831540 GAATCCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (6 bp):
AATTAG
Found at i:91831731 original size:15 final size:15
Alignment explanation
Indices: 91831711--91831739 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
91831701 AAGGTAAATA
91831711 ATTGTCTAATTAATT
1 ATTGTCTAATTAATT
91831726 ATTGTCTAATTAAT
1 ATTGTCTAATTAAT
91831740 CATTTAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (15 bp):
ATTGTCTAATTAATT
Found at i:91833239 original size:15 final size:16
Alignment explanation
Indices: 91833201--91833240 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
91833191 CCATCAATTC
*
91833201 TTAATTTATAGTTAAT
1 TTAATTAATAGTTAAT
91833217 TTAA-TAATAGTTAA-
1 TTAATTAATAGTTAAT
91833231 TTAATTAATA
1 TTAATTAATA
91833241 AATTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 14 0.64
16 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
TTAATTAATAGTTAAT
Found at i:91833251 original size:19 final size:19
Alignment explanation
Indices: 91833229--91833281 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
91833219 AATAATAGTT
* *
91833229 AATTAATTAATAAATTAAA
1 AATTAATAAAAAAATTAAA
*
91833248 AATTCATAAAAAAATTAAAA
1 AATTAATAAAAAAATT-AAA
*
91833268 AATTCATAAAAAAA
1 AATTAATAAAAAAA
91833282 ACCAATTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
AATTAATAAAAAAATTAAA
Found at i:91833270 original size:20 final size:19
Alignment explanation
Indices: 91833240--91833281 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
91833230 ATTAATTAAT
91833240 AAATTAAAAATTCATAAAA
1 AAATTAAAAATTCATAAAA
91833259 AAATTAAAAAATTCATAAAA
1 AAATT-AAAAATTCATAAAA
91833279 AAA
1 AAA
91833282 ACCAATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATTAAAAATTCATAAAA
Found at i:91834254 original size:21 final size:20
Alignment explanation
Indices: 91834213--91834255 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
91834203 ATTTTAAACA
* * *
91834213 TAAATAATATAAAATATATC
1 TAAAGAATATAAAAAAAATC
91834233 TAAAGAATACTAAAAAAAATC
1 TAAAGAATA-TAAAAAAAATC
91834254 TA
1 TA
91834256 TATCTAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (20 bp):
TAAAGAATATAAAAAAAATC
Found at i:91834505 original size:13 final size:12
Alignment explanation
Indices: 91834463--91834507 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
91834453 GATTATTTAT
91834463 ATATTTATAT-A
1 ATATTTATATAA
91834474 A-ATTTATA-AA
1 ATATTTATATAA
91834484 ATATATTATATAA
1 ATAT-TTATATAA
91834497 ATAGTTTATAT
1 ATA-TTTATAT
91834508 TATTATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 9 0.31
11 3 0.10
12 5 0.17
13 11 0.38
14 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
ATATTTATATAA
Found at i:91842994 original size:31 final size:31
Alignment explanation
Indices: 91842959--91843021 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
91842949 GAAACCTACC
*
91842959 AATTCATTGACTTAAATAAAAACTTTTGAAT
1 AATTCAGTGACTTAAATAAAAACTTTTGAAT
**
91842990 AATTCAGTGACTTAAATAAAATTTTTTGAAT
1 AATTCAGTGACTTAAATAAAAACTTTTGAAT
91843021 A
1 A
91843022 GCTTAATGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (31 bp):
AATTCAGTGACTTAAATAAAAACTTTTGAAT
Found at i:91846519 original size:55 final size:54
Alignment explanation
Indices: 91846430--91846560 Score: 199
Period size: 55 Copynumber: 2.4 Consensus size: 54
91846420 ATTTTTTTCA
* * * *
91846430 AAGCAAGGTTTTGGGTTCAAGTATTTGTGCGATGGTGAGGAGTTTGGTACCTTT
1 AAGCAAGGTTTCGGGTTCAAGTAATTGTGAGATGGTGAGGAGTTTGATACCTTT
* *
91846484 AAGGCAAGGTTCCGGGTTTAAGTAATTGTGAGATGGTGAGGAGTTTGATACCTTT
1 AA-GCAAGGTTTCGGGTTCAAGTAATTGTGAGATGGTGAGGAGTTTGATACCTTT
91846539 AAGCAAGGTTTCGGGTTCAAGT
1 AAGCAAGGTTTCGGGTTCAAGT
91846561 GTTCTATTGA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 20 0.29
55 48 0.71
ACGTcount: A:0.24, C:0.10, G:0.33, T:0.34
Consensus pattern (54 bp):
AAGCAAGGTTTCGGGTTCAAGTAATTGTGAGATGGTGAGGAGTTTGATACCTTT
Found at i:91848871 original size:8 final size:8
Alignment explanation
Indices: 91848858--91848886 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
91848848 GTACAAATTG
91848858 TAATTGCA
1 TAATTGCA
91848866 TAATTGCA
1 TAATTGCA
91848874 TAATTGCA
1 TAATTGCA
91848882 TAATT
1 TAATT
91848887 ACATCATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (8 bp):
TAATTGCA
Found at i:91850012 original size:12 final size:13
Alignment explanation
Indices: 91849984--91850019 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
91849974 AAAGTGAAAA
*
91849984 TTTTTCTTAGTGT
1 TTTTTCTTAATGT
91849997 TTTTTCTTAATGT
1 TTTTTCTTAATGT
*
91850010 TTTTTTTTAA
1 TTTTTCTTAA
91850020 ACAAACGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (13 bp):
TTTTTCTTAATGT
Found at i:91858294 original size:13 final size:13
Alignment explanation
Indices: 91858278--91858305 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
91858268 TTTATTTGAA
91858278 AATTTTAAAAAAT
1 AATTTTAAAAAAT
91858291 AATTTTAAAAAAT
1 AATTTTAAAAAAT
91858304 AA
1 AA
91858306 AAATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTTTAAAAAAT
Found at i:91858572 original size:21 final size:18
Alignment explanation
Indices: 91858527--91858562 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
91858517 TAATTTTAAA
91858527 AATTTTAAAAATAAAAAT
1 AATTTTAAAAATAAAAAT
91858545 ACATTTTAAAAATAAAAA
1 A-ATTTTAAAAATAAAAA
91858563 AAATAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AATTTTAAAAATAAAAAT
Found at i:91873277 original size:6 final size:6
Alignment explanation
Indices: 91873268--91873312 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
91873258 AATTGAATCT
* *
91873268 GAACCC GAACCC GAACCC GAACCC AAACCC GAACCT GAACCC GAA
1 GAACCC GAACCC GAACCC GAACCC GAACCC GAACCC GAACCC GAA
91873313 TCGAGTCATC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.38, C:0.44, G:0.16, T:0.02
Consensus pattern (6 bp):
GAACCC
Found at i:91876618 original size:4 final size:4
Alignment explanation
Indices: 91876609--91876637 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
91876599 ATGGTATGTC
91876609 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
91876638 TAAATATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:91882181 original size:18 final size:18
Alignment explanation
Indices: 91882158--91882194 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
91882148 ACTATTGAAG
91882158 TAAAGTTTGATAGTAGTT
1 TAAAGTTTGATAGTAGTT
91882176 TAAAGTTTGATAGTAGTT
1 TAAAGTTTGATAGTAGTT
91882194 T
1 T
91882195 CGAGCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (18 bp):
TAAAGTTTGATAGTAGTT
Found at i:91883848 original size:6 final size:6
Alignment explanation
Indices: 91883837--91883866 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
91883827 ATCTACTTTG
91883837 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
91883867 TTTATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:91887700 original size:21 final size:22
Alignment explanation
Indices: 91887657--91887700 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
91887647 ATATATGTAT
* * *
91887657 ATATATATAATATAATATTAAA
1 ATATATATAATACAACATAAAA
91887679 ATATA-ATAATACAACATAAAA
1 ATATATATAATACAACATAAAA
91887700 A
1 A
91887701 AATACATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
ATATATATAATACAACATAAAA
Found at i:91887898 original size:3 final size:3
Alignment explanation
Indices: 91887892--91887921 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
91887882 AAGCATAAAC
*
91887892 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
91887922 CATTGGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:91888054 original size:3 final size:3
Alignment explanation
Indices: 91888023--91888117 Score: 111
Period size: 3 Copynumber: 31.3 Consensus size: 3
91888013 ATACACGTAC
* *
91888023 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
91888070 ATA ATA ATA ATA ATA GTA ATA CTA ATA ATA CTA ATA AT- ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91888117 A
1 A
91888118 CAAGGATATT
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
2 2 0.03
3 69 0.90
4 6 0.08
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:91888721 original size:19 final size:21
Alignment explanation
Indices: 91888696--91888737 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
91888686 AGAGGTAAGT
* *
91888696 TTTTTTTCT-TTTTTTTTATA
1 TTTTTTACTATTTTTTATATA
91888716 TTTTTTACTATTTTTTATATA
1 TTTTTTACTATTTTTTATATA
91888737 T
1 T
91888738 ATGTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTTACTATTTTTTATATA
Found at i:91890006 original size:55 final size:56
Alignment explanation
Indices: 91889923--91890052 Score: 194
Period size: 55 Copynumber: 2.4 Consensus size: 56
91889913 TAAAAGCAGA
* * *
91889923 TTTTGAAAAACA-GAAATTAAAGGGCTCAACTCACCTTTCGCGATATGAGTTGA-T
1 TTTTGAAAAACATGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
91889977 TTTTGAAAAACATGAATTTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 TTTTGAAAAACATGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
91890034 TTTTGAAAAAC-TGAAATTA
1 TTTTGAAAAACATGAAATTA
91890053 CCTCAGCGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
54 12 0.18
55 37 0.54
56 7 0.10
57 12 0.18
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (56 bp):
TTTTGAAAAACATGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
Found at i:91890336 original size:89 final size:88
Alignment explanation
Indices: 91890045--91890448 Score: 420
Period size: 89 Copynumber: 4.7 Consensus size: 88
91890035 TTTGAAAAAC
* *
91890045 TGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTT-AA
1 TGAAATTACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
* * * **
91890109 AACTTGATTTGAAAATTAGATTT
66 AACATGAATTGAAAAATAGAAAT
* ** **
91890132 TGAAA--A--ACAGAAAT-T-AAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
1 TGAAATTACCTCAG-CGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-
*
91890189 AAAACA-GAAACTG-AAAATAGAAAT
64 AAAACATG-AATTGAAAAATAGAAAT
* * * * *
91890213 TGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAA
1 TGAAATTACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
91890278 AACATGAATTGAGAAAATAGAAAT
66 AACATGAATTGA-AAAATAGAAAT
* * *
91890302 TGCAATTACCTCAACGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-CTTTTTG-A
1 TGAAATTACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
** * *
91890365 AAGGTAGAATTTTGAAAAACAAAAAT
66 AACAT-GAA--TTGAAAAATAGAAAT
*
91890391 TGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 TGAAATTACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
91890449 CTGAGAACAG
Statistics
Matches: 260, Mismatches: 38, Indels: 35
0.78 0.11 0.11
Matches are distributed among these distances:
80 5 0.02
81 14 0.05
82 39 0.15
83 5 0.02
84 2 0.01
85 4 0.02
86 31 0.12
87 19 0.07
88 16 0.06
89 120 0.46
90 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (88 bp):
TGAAATTACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
AACATGAATTGAAAAATAGAAAT
Found at i:91892202 original size:15 final size:15
Alignment explanation
Indices: 91892178--91892211 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
91892168 GACCTCTCCA
*
91892178 TTTTCTTTTCTTTCT
1 TTTTCCTTTCTTTCT
91892193 TTTTCCTTTCTTTCT
1 TTTTCCTTTCTTTCT
91892208 TTTT
1 TTTT
91892212 TTTTTTGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCCTTTCTTTCT
Found at i:91898641 original size:21 final size:22
Alignment explanation
Indices: 91898598--91898641 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
91898588 AGATATATGT
* * *
91898598 ATATATATAATATAATATTAAA
1 ATATATATAATACAACATAAAA
91898620 ATATA-ATAATACAACATAAAA
1 ATATATATAATACAACATAAAA
91898641 A
1 A
91898642 AAATACATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
ATATATATAATACAACATAAAA
Found at i:91898835 original size:3 final size:3
Alignment explanation
Indices: 91898827--91898862 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
91898817 AAGCATAAAC
91898827 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
91898863 CAACGTTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:91898998 original size:3 final size:3
Alignment explanation
Indices: 91898967--91899055 Score: 117
Period size: 3 Copynumber: 29.3 Consensus size: 3
91898957 ATACACGTAC
* *
91898967 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
91899014 ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
91899056 CAAGGATATT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.03
3 67 0.89
4 6 0.08
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:91899653 original size:11 final size:11
Alignment explanation
Indices: 91899639--91899671 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
91899629 TTTTTTCTTT
91899639 TTTTTTATATA
1 TTTTTTATATA
91899650 TTTTTTAT-TA
1 TTTTTTATATA
91899660 TTTTTTATATA
1 TTTTTTATATA
91899671 T
1 T
91899672 ATGTATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:91899655 original size:21 final size:21
Alignment explanation
Indices: 91899629--91899671 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
91899619 CACCGTAAGT
* *
91899629 TTTTTTCTTTTTTTTTATATA
1 TTTTTTATTATTTTTTATATA
91899650 TTTTTTATTATTTTTTATATA
1 TTTTTTATTATTTTTTATATA
91899671 T
1 T
91899672 ATGTATATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTTATTATTTTTTATATA
Found at i:91912912 original size:21 final size:20
Alignment explanation
Indices: 91912888--91912933 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
91912878 TTGAATTTGG
91912888 TTAATT-GATCGGTAAATCGAA
1 TTAATTCGATCGG-AAATCG-A
*
91912909 TTAATTCGATCGGAAGTCGA
1 TTAATTCGATCGGAAATCGA
91912929 TTAAT
1 TTAAT
91912934 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 11 0.48
22 6 0.26
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (20 bp):
TTAATTCGATCGGAAATCGA
Found at i:91913173 original size:148 final size:140
Alignment explanation
Indices: 91912999--91913283 Score: 408
Period size: 148 Copynumber: 2.0 Consensus size: 140
91912989 GAATTAACTG
* * *
91912999 AACTTAATAAATAATATTATGATATATAAGTATTCGATCGGGTTTGGTCGGTTCAATTAATTTTT
1 AACTTAATAAATAATATTATAATATATAAGTATTCGATCGGGGTTGGTCAGTTCAATTAATTTTT
* * *
91913064 TAGAAGTGTAAATTAATCGGTCGGTTAATTCGGTTAATTTTTTATATGTTTTATACTTGTTTTAA
66 TAAAAGTATAAATTAATCGATCGGTTAATTC-------TTTTTATATGTTTTATACTTGTTTTAA
91913129 TTAAAAATAAAAAAACAT
124 -TAAAAATAAAAAAACAT
* * *
91913147 AACTTAATAAATAATATTATAATATATAAGTATTCGGTTGGGGTTGGTCAGTTCAGTTAATTTTT
1 AACTTAATAAATAATATTATAATATATAAGTATTCGATCGGGGTTGGTCAGTTCAATTAATTTTT
*
91913212 TAAAAGTATAAATTAATCGATCGGTTAATTCTTTTTATATGTTTTATACTTGTTTTAATCAAAAT
66 TAAAAGTATAAATTAATCGATCGGTTAATTCTTTTTATATGTTTTATACTTGTTTTAATAAAAAT
91913277 AAAAAAA
131 AAAAAAA
91913284 ATATATAAAT
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
140 13 0.10
141 27 0.21
148 87 0.69
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (140 bp):
AACTTAATAAATAATATTATAATATATAAGTATTCGATCGGGGTTGGTCAGTTCAATTAATTTTT
TAAAAGTATAAATTAATCGATCGGTTAATTCTTTTTATATGTTTTATACTTGTTTTAATAAAAAT
AAAAAAACAT
Found at i:91913810 original size:18 final size:17
Alignment explanation
Indices: 91913782--91913822 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
91913772 CGTTCTTTAA
*
91913782 AATTGTTATTTAATTTTTT
1 AATT-TTATTTAA-TATTT
91913801 AATTTTATTTAATATTT
1 AATTTTATTTAATATTT
91913818 AATTT
1 AATTT
91913823 AATGTCACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 8 0.38
19 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
AATTTTATTTAATATTT
Found at i:91914071 original size:21 final size:21
Alignment explanation
Indices: 91914021--91914071 Score: 50
Period size: 21 Copynumber: 2.3 Consensus size: 21
91914011 CTCAATTTTT
91914021 ATAATTTTTTTAATATCTCTTTA
1 ATAATTTTTTTAATA--TCTTTA
* *
91914044 TTTATTTTTTATAATA-CTTTA
1 ATAATTTTTT-TAATATCTTTA
91914065 ATAATTT
1 ATAATTT
91914072 GTATTCTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
21 10 0.43
23 8 0.35
24 5 0.22
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (21 bp):
ATAATTTTTTTAATATCTTTA
Found at i:91914127 original size:19 final size:19
Alignment explanation
Indices: 91914103--91914144 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
91914093 TTGCAATTTC
*
91914103 TTTTTTACAA-TATTTATAA
1 TTTTTTACAACT-TTTAAAA
91914122 TTTTTTACAACTTTTAAAA
1 TTTTTTACAACTTTTAAAA
91914141 TTTT
1 TTTT
91914145 AAAATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTTACAACTTTTAAAA
Found at i:91916554 original size:16 final size:16
Alignment explanation
Indices: 91916529--91916560 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
91916519 ATTCATTTAA
*
91916529 AAATTTAATTTTTTTT
1 AAATTAAATTTTTTTT
91916545 AAATTAAATTTTTTTT
1 AAATTAAATTTTTTTT
91916561 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
AAATTAAATTTTTTTT
Found at i:91916567 original size:13 final size:13
Alignment explanation
Indices: 91916548--91916583 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
91916538 TTTTTTTAAA
91916548 TTAAATTTTTTTT
1 TTAAATTTTTTTT
*
91916561 TTTAATTTTTTTT
1 TTAAATTTTTTTT
*
91916574 ATAAATTTTT
1 TTAAATTTTT
91916584 AAAAACCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTAAATTTTTTTT
Found at i:91916569 original size:12 final size:13
Alignment explanation
Indices: 91916535--91916583 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
91916525 TTAAAAATTT
91916535 AATTTTTTTTAAATTA
1 AATTTTTTTT--A-TA
* *
91916551 AATTTTTTTTTTT
1 AATTTTTTTTATA
91916564 AATTTTTTTTATA
1 AATTTTTTTTATA
91916577 AATTTTT
1 AATTTTT
91916584 AAAAACCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 19 0.66
16 10 0.34
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
AATTTTTTTTATA
Found at i:91916628 original size:19 final size:18
Alignment explanation
Indices: 91916603--91916652 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
91916593 ATTAAAATTT
*
91916603 ATAAAAATATTAAATAAAA
1 ATAAAAATA-TAAAAAAAA
* *
91916622 GTAAAAACATAAAAAAAA
1 ATAAAAATATAAAAAAAA
91916640 ATAAAAATA-AAAA
1 ATAAAAATATAAAA
91916653 CCATTTTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 4 0.15
18 15 0.58
19 7 0.27
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (18 bp):
ATAAAAATATAAAAAAAA
Found at i:91919057 original size:2 final size:2
Alignment explanation
Indices: 91919052--91919081 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
91919042 GAGAGTAGCA
*
91919052 AG AG AG AG AG AG AG AG AG AG AC AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
91919082 TGATAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:91924685 original size:14 final size:14
Alignment explanation
Indices: 91924666--91924692 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91924656 ATATTTTAAA
91924666 TTATTTAAATATTC
1 TTATTTAAATATTC
91924680 TTATTTAAATATT
1 TTATTTAAATATT
91924693 TGATTTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTAAATATTC
Found at i:91924700 original size:13 final size:14
Alignment explanation
Indices: 91924668--91924700 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
91924658 ATTTTAAATT
*
91924668 ATTTAAATATTCTT
1 ATTTAAATATTCTG
91924682 ATTTAAATATT-TG
1 ATTTAAATATTCTG
91924695 ATTTAA
1 ATTTAA
91924701 TTGAGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (14 bp):
ATTTAAATATTCTG
Found at i:91931811 original size:4 final size:4
Alignment explanation
Indices: 91931804--91931829 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
91931794 ATTGATTTGC
91931804 ATCT ATCT ATCT ATCT ATCT ATCT AT
1 ATCT ATCT ATCT ATCT ATCT ATCT AT
91931830 ATATATATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (4 bp):
ATCT
Found at i:91934422 original size:8 final size:8
Alignment explanation
Indices: 91934409--91934433 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
91934399 AAAAATTAAT
91934409 ATTTGAAA
1 ATTTGAAA
91934417 ATTTGAAA
1 ATTTGAAA
91934425 ATTTGAAA
1 ATTTGAAA
91934433 A
1 A
91934434 AGAAAAAAAA
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:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (8 bp):
ATTTGAAA
Found at i:91935295 original size:22 final size:25
Alignment explanation
Indices: 91935250--91935299 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
91935240 ACCACGTCAG
*
91935250 TTTTTTAATAGTAGAAATAGATAAA
1 TTTTTTAATAGTAGAAATAAATAAA
91935275 TTTTTTAATAG-A-AAA-AAATAAA
1 TTTTTTAATAGTAGAAATAAATAAA
91935297 TTT
1 TTT
91935300 ACTCTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 9 0.38
23 3 0.12
24 1 0.04
25 11 0.46
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (25 bp):
TTTTTTAATAGTAGAAATAAATAAA
Found at i:91937327 original size:2 final size:2
Alignment explanation
Indices: 91937320--91937348 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
91937310 GATTTCCCTC
91937320 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
91937349 TTTTGGTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:91942074 original size:39 final size:39
Alignment explanation
Indices: 91942015--91942121 Score: 169
Period size: 39 Copynumber: 2.7 Consensus size: 39
91942005 ATCGTGATCT
** *
91942015 GAAGCCCGAAATCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
91942054 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* *
91942093 GAAGCCTGGAGGCTAACTGAAGCACATAA
1 GAAGCCCGAAGGCTAACTGAAGCACATAA
91942122 TAGCTGAACT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:91942097 original size:21 final size:21
Alignment explanation
Indices: 91942033--91942097 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
91942023 AAATCTAGCT
91942033 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
91942054 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
91942072 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
91942093 GAAGC
1 GAAGC
91942098 CTGGAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:91950124 original size:36 final size:36
Alignment explanation
Indices: 91950076--91950154 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
91950066 TATAATACCA
* * *
91950076 GACATAATCATATACGTCAATCATAATCTCAAGCTT
1 GACATAAGCATATACATAAATCATAATCTCAAGCTT
91950112 GACATAAGCATATACATAAATCATAATCTCAAGCTT
1 GACATAAGCATATACATAAATCATAATCTCAAGCTT
*
91950148 AACATAA
1 GACATAA
91950155 CTCATTTGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (36 bp):
GACATAAGCATATACATAAATCATAATCTCAAGCTT
Found at i:91950503 original size:34 final size:34
Alignment explanation
Indices: 91950464--91950607 Score: 148
Period size: 34 Copynumber: 4.3 Consensus size: 34
91950454 AGTTCAACCA
** * *
91950464 AACACACCAGGCGCTCACACGAGTCAA-CCTTTCC
1 AACACACCAGATGCTCACATGAGTCAATCC-CTCC
*
91950498 AACACACCAGATGCTCACATGAGTTAATCCCTCC
1 AACACACCAGATGCTCACATGAGTCAATCCCTCC
*
91950532 AACACACCAGATGCTCACATGAGTTAATCCCTCC
1 AACACACCAGATGCTCACATGAGTCAATCCCTCC
* * * * * **
91950566 AACATATCA-ATGCTCATAAGAGTTAATCCAACC
1 AACACACCAGATGCTCACATGAGTCAATCCCTCC
91950599 AACACACCA
1 AACACACCA
91950608 ATGTTCATAA
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
33 27 0.28
34 67 0.70
35 2 0.02
ACGTcount: A:0.35, C:0.35, G:0.11, T:0.19
Consensus pattern (34 bp):
AACACACCAGATGCTCACATGAGTCAATCCCTCC
Found at i:91950589 original size:33 final size:33
Alignment explanation
Indices: 91950495--91950638 Score: 162
Period size: 33 Copynumber: 4.3 Consensus size: 33
91950485 AGTCAACCTT
*
91950495 TCCAACACACCAGATGCTCACATGAGTTAATCCC
1 TCCAACACACCA-ATGCTCACAAGAGTTAATCCC
*
91950529 TCCAACACACCAGATGCTCACATGAGTTAATCCC
1 TCCAACACACCA-ATGCTCACAAGAGTTAATCCC
* * * *
91950563 TCCAACATATCAATGCTCATAAGAGTTAATCCA
1 TCCAACACACCAATGCTCACAAGAGTTAATCCC
* * * * *
91950596 ACCAACACACCAATGTTCATAAGAGCTAATCCA
1 TCCAACACACCAATGCTCACAAGAGTTAATCCC
*
91950629 ACCAACACAC
1 TCCAACACAC
91950639 TAAACAGAGT
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 56 0.56
34 44 0.44
ACGTcount: A:0.38, C:0.33, G:0.10, T:0.20
Consensus pattern (33 bp):
TCCAACACACCAATGCTCACAAGAGTTAATCCC
Found at i:91950603 original size:67 final size:68
Alignment explanation
Indices: 91950458--91950607 Score: 169
Period size: 68 Copynumber: 2.2 Consensus size: 68
91950448 ATTGTCAGTT
* * *
91950458 CAACCAAACACACCAGGCGCTCACACGAGTCAACCTTTCCAACACACCAGATGCTCACATGAGTT
1 CAACC-AACACACCAGACGCTCACACGAGTCAACCTCTCCAACACACCAGATGCTCACAAGAGTT
91950523 AATC
65 AATC
** * * * * * *
91950527 CCTCCAACACACCAGATGCTCACATGAGTTAATCC-CTCCAACATATCA-ATGCTCATAAGAGTT
1 CAACCAACACACCAGACGCTCACACGAGTCAA-CCTCTCCAACACACCAGATGCTCACAAGAGTT
91950590 AATC
65 AATC
91950594 CAACCAACACACCA
1 CAACCAACACACCA
91950608 ATGTTCATAA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
67 29 0.43
68 33 0.49
69 5 0.07
ACGTcount: A:0.36, C:0.35, G:0.11, T:0.18
Consensus pattern (68 bp):
CAACCAACACACCAGACGCTCACACGAGTCAACCTCTCCAACACACCAGATGCTCACAAGAGTTA
ATC
Found at i:91952610 original size:13 final size:13
Alignment explanation
Indices: 91952592--91952622 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
91952582 CACTACTTTA
91952592 GTTTCCAATTCAT
1 GTTTCCAATTCAT
91952605 GTTTCCAATTCAT
1 GTTTCCAATTCAT
*
91952618 ATTTC
1 GTTTC
91952623 ACTCCATTCT
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:0.23, C:0.23, G:0.06, T:0.48
Consensus pattern (13 bp):
GTTTCCAATTCAT
Found at i:91953562 original size:3 final size:3
Alignment explanation
Indices: 91953554--91953601 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
91953544 CTCATTTCAT
91953554 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
91953602 ACACTTATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:91963163 original size:33 final size:33
Alignment explanation
Indices: 91963121--91963188 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
91963111 AATTGCTTAC
91963121 CTCACCTTTTGTTCAAGATCCTGTTGTCTTTCT
1 CTCACCTTTTGTTCAAGATCCTGTTGTCTTTCT
91963154 CTCACCTTTTGTTCAAGATCCTGTTGTCTTTCT
1 CTCACCTTTTGTTCAAGATCCTGTTGTCTTTCT
91963187 CT
1 CT
91963189 TTGTATCCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.12, C:0.28, G:0.12, T:0.49
Consensus pattern (33 bp):
CTCACCTTTTGTTCAAGATCCTGTTGTCTTTCT
Found at i:91965857 original size:3 final size:3
Alignment explanation
Indices: 91965849--91965877 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
91965839 AATTCTTGTT
91965849 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
91965878 TTGAAGATAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:91966699 original size:15 final size:15
Alignment explanation
Indices: 91966679--91966715 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
91966669 TTATTAATTA
91966679 AAATAATAAT-TTTAT
1 AAATAA-AATATTTAT
91966694 AAATAAAATATTTAT
1 AAATAAAATATTTAT
91966709 -AATAAAA
1 AAATAAAA
91966716 AATACCTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATAAAATATTTAT
Found at i:91966702 original size:20 final size:21
Alignment explanation
Indices: 91966665--91966703 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
91966655 CTCTAACATG
*
91966665 AATTTTATTAATTAAAATAAT
1 AATTTTATTAAATAAAATAAT
91966686 AATTTTA-TAAATAAAATA
1 AATTTTATTAAATAAAATA
91966704 TTTATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTTTATTAAATAAAATAAT
Found at i:91975687 original size:13 final size:13
Alignment explanation
Indices: 91975669--91975693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91975659 AAATATTAAG
91975669 TGTTTAACCAAAT
1 TGTTTAACCAAAT
91975682 TGTTTAACCAAA
1 TGTTTAACCAAA
91975694 ACGTAAATTT
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TGTTTAACCAAAT
Found at i:91984757 original size:21 final size:21
Alignment explanation
Indices: 91984733--91984772 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
91984723 ATGTTCGAAA
*
91984733 TTTAGTCTCTTTATTTTTATT
1 TTTAGTCTATTTATTTTTATT
91984754 TTTAGTCTATTTATTTTTA
1 TTTAGTCTATTTATTTTTA
91984773 AGATTTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTAGTCTATTTATTTTTATT
Found at i:91988551 original size:12 final size:12
Alignment explanation
Indices: 91988534--91988562 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
91988524 AAGAATTCGT
91988534 AAAAAAATAAAA
1 AAAAAAATAAAA
91988546 AAAAAAATAAAA
1 AAAAAAATAAAA
91988558 AAAAA
1 AAAAA
91988563 CTATTCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:92000721 original size:13 final size:14
Alignment explanation
Indices: 92000695--92000735 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
92000685 AATATAACCA
92000695 TATTAAATATATTT
1 TATTAAATATATTT
92000709 TATTAAA-ATATTT
1 TATTAAATATATTT
* *
92000722 GATTAAATAAATTT
1 TATTAAATATATTT
92000736 ACTTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
TATTAAATATATTT
Found at i:92001395 original size:16 final size:16
Alignment explanation
Indices: 92001374--92001406 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
92001364 ATAGAAGTTA
92001374 TGAACAAAGCAGAGAC
1 TGAACAAAGCAGAGAC
92001390 TGAACAAAGCAGAGAC
1 TGAACAAAGCAGAGAC
92001406 T
1 T
92001407 AAATCAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.18, G:0.24, T:0.09
Consensus pattern (16 bp):
TGAACAAAGCAGAGAC
Found at i:92003541 original size:30 final size:30
Alignment explanation
Indices: 92003507--92003591 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
92003497 TATCTTTTGT
*
92003507 ATCGACAA-TCATTGCATTTTGTCACACACA
1 ATCGACAACT-ATTGCATTCTGTCACACACA
**
92003537 ATCGACAACTATTGCATTCTGTTGCACACA
1 ATCGACAACTATTGCATTCTGTCACACACA
* * * *
92003567 ATCAACAACCATCGCAATCTGTCAC
1 ATCGACAACTATTGCATTCTGTCAC
92003592 TTCCTATGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 44 0.98
31 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (30 bp):
ATCGACAACTATTGCATTCTGTCACACACA
Found at i:92008875 original size:23 final size:22
Alignment explanation
Indices: 92008826--92008874 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
92008816 TAATGACTTA
*
92008826 GAATTTT--TTTATATTTTTTT
1 GAATTTTCATTTATAATTTTTT
92008846 GAATTTTCATTTATAATTTTTT
1 GAATTTTCATTTATAATTTTTT
92008868 GAATTTT
1 GAATTTT
92008875 TAGAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 7 0.27
22 19 0.73
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (22 bp):
GAATTTTCATTTATAATTTTTT
Found at i:92010922 original size:61 final size:61
Alignment explanation
Indices: 92010848--92010982 Score: 252
Period size: 61 Copynumber: 2.2 Consensus size: 61
92010838 ATATATATTA
92010848 TTCTTTCTTTCTTTCTAAGTAGCCTTTGCCAAACTTCTAACCCTTTTGCCTATTCATTTCT
1 TTCTTTCTTTCTTTCTAAGTAGCCTTTGCCAAACTTCTAACCCTTTTGCCTATTCATTTCT
92010909 TTCTTTCTTTCTTTCTAAGTAGCCTTTGCCAAACTTCTAACCCTTTTGCCTATTCATTTCT
1 TTCTTTCTTTCTTTCTAAGTAGCCTTTGCCAAACTTCTAACCCTTTTGCCTATTCATTTCT
*
92010970 TCTCTTTCGTTCT
1 T-TCTTTCTTTCT
92010983 CTTTTGAGAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 62 0.86
62 10 0.14
ACGTcount: A:0.15, C:0.28, G:0.07, T:0.50
Consensus pattern (61 bp):
TTCTTTCTTTCTTTCTAAGTAGCCTTTGCCAAACTTCTAACCCTTTTGCCTATTCATTTCT
Found at i:92014823 original size:29 final size:29
Alignment explanation
Indices: 92014767--92014823 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
92014757 CACCTTAACA
* * * * *
92014767 CGAATTCTCAATGAACAAGTTTTTCATCG
1 CGAACTCTCAACGAACAAATTCTCCATCG
92014796 CGAACTCTCAACGAACAAATTCTCCATC
1 CGAACTCTCAACGAACAAATTCTCCATC
92014824 TCTTCCATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAATTCTCCATCG
Found at i:92026917 original size:19 final size:19
Alignment explanation
Indices: 92026881--92026918 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
92026871 CATGAGGTTG
*
92026881 TTTATAAATTATTTATAAT
1 TTTATAAATTATTAATAAT
92026900 TTTAT-AATTAATTAATAAT
1 TTTATAAATT-ATTAATAAT
92026919 AAATTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATAAATTATTAATAAT
Found at i:92028767 original size:24 final size:24
Alignment explanation
Indices: 92028740--92028787 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
92028730 AAAAATGGCT
92028740 ATTAAATAT-AAATTTTAAATAATA
1 ATTAAA-ATCAAATTTTAAATAATA
* *
92028764 ATTAAAATCATATTTTAATTAATA
1 ATTAAAATCAAATTTTAAATAATA
92028788 TATATTGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTAAAATCAAATTTTAAATAATA
Found at i:92037366 original size:19 final size:20
Alignment explanation
Indices: 92037341--92037390 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
92037331 TGTTTTAAAT
92037341 TGATTAATTGTTCTATGTGA
1 TGATTAATTGTTCTATGTGA
92037361 -GATTAATTGTTCTATGTGA
1 TGATTAATTGTTCTATGTGA
92037380 TG-TTAATTGTT
1 TGATTAATTGTT
92037391 TCAATTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 28 0.97
20 1 0.03
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.52
Consensus pattern (20 bp):
TGATTAATTGTTCTATGTGA
Found at i:92039717 original size:49 final size:50
Alignment explanation
Indices: 92039653--92039752 Score: 157
Period size: 49 Copynumber: 2.0 Consensus size: 50
92039643 TTATTTTCAA
*
92039653 TACATAAGATAATATTTATTTTAAAACAAA-TCCAAAAATAATATTTATT
1 TACATAAGATAATATTTATTTTAAAACAAACTCAAAAAATAATATTTATT
* * *
92039702 TACATAAGATAATATTTGTTTTGAAGCAAACTCAAAAAATAATATTTATT
1 TACATAAGATAATATTTATTTTAAAACAAACTCAAAAAATAATATTTATT
92039752 T
1 T
92039753 TCATTCAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 27 0.59
50 19 0.41
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (50 bp):
TACATAAGATAATATTTATTTTAAAACAAACTCAAAAAATAATATTTATT
Found at i:92039950 original size:16 final size:16
Alignment explanation
Indices: 92039931--92039961 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92039921 GCATATTTTT
*
92039931 ATTAATAAATGATAAA
1 ATTAATAAATAATAAA
92039947 ATTAATAAATAATAA
1 ATTAATAAATAATAA
92039962 GTATAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
ATTAATAAATAATAAA
Found at i:92043592 original size:26 final size:27
Alignment explanation
Indices: 92043563--92043630 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
92043553 TTCTATCTAT
92043563 TATTATTATCTTATTT-A-AAATATTAA
1 TATTATTATCTTATTTCATAAATATT-A
*
92043589 TATTATTA--TTATTTCCATAATTATTA
1 TATTATTATCTTATTT-CATAAATATTA
92043615 TATTATTATTCTTATT
1 TATTATTA-TCTTATT
92043631 AGTACGCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
24 6 0.17
26 18 0.51
27 6 0.17
29 5 0.14
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (27 bp):
TATTATTATCTTATTTCATAAATATTA
Found at i:92043783 original size:3 final size:3
Alignment explanation
Indices: 92043777--92044017 Score: 124
Period size: 3 Copynumber: 80.0 Consensus size: 3
92043767 TTACATCATC
* ** *
92043777 ATT ATT ATT AATT -TGT ATT ATC ATT ATT ATT ATT -TT ACC ATT ATA
1 ATT ATT ATT -ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * ***
92043822 ACTT AAC A-T ATT ATT ATT ATT ACTT -TT ATT TTT ATT ATT ATT GCC
1 A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
*
92043867 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ACT ATT ATT ATT -TAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
* * * *
92043914 ATT CGTT AGT ATT ATT ATT AATT -TT ATCT -TT ATT -TT CTTT ACT ATT
1 ATT -ATT ATT ATT ATT ATT -ATT ATT AT-T ATT ATT ATT -ATT ATT ATT
* * * * * *
92043960 ATT TTT ATT ATC ATT ATTT ATTT ATT ACT ATT GTT ATT ATT ATT GTC
1 ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
92044007 A-T ATT ATT ATT
1 ATT ATT ATT ATT
92044018 TATGTTTTAT
Statistics
Matches: 178, Mismatches: 40, Indels: 40
0.69 0.16 0.16
Matches are distributed among these distances:
2 15 0.08
3 139 0.78
4 24 0.13
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:92043846 original size:21 final size:19
Alignment explanation
Indices: 92043758--92043933 Score: 69
Period size: 18 Copynumber: 9.3 Consensus size: 19
92043748 CATTTACTTA
* *
92043758 TATTTTTACTTACATCATCAT
1 TATTATTACTTA-AT-ATTAT
* **
92043779 TATTATTAATTTGTATTAT
1 TATTATTACTTAATATTAT
* * *
92043798 CATTATTA-TT-ATTTTAC
1 TATTATTACTTAATATTAT
* *
92043815 CATTATAACTTAACATATTAT
1 TATTATTACTT-A-ATATTAT
* *
92043836 TATTATTACTT-TTATTTT
1 TATTATTACTTAATATTAT
***
92043854 TATTATTA-TTGCCATTAT
1 TATTATTACTTAATATTAT
*
92043872 TATTATTA-TTATTATTAT
1 TATTATTACTTAATATTAT
*
92043890 TATTATT--TTACTATTAT
1 TATTATTACTTAATATTAT
* *
92043907 TATTTATATTCGTTAGTATTAT
1 TA-TTAT-TAC-TTAATATTAT
92043929 TATTA
1 TATTA
92043934 ATTTTATCTT
Statistics
Matches: 121, Mismatches: 24, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
17 24 0.20
18 47 0.39
19 12 0.10
20 1 0.01
21 26 0.21
22 11 0.09
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (19 bp):
TATTATTACTTAATATTAT
Found at i:92051019 original size:19 final size:20
Alignment explanation
Indices: 92050995--92051060 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 20
92050985 AGAAAATCTC
92050995 AAAAAATATA-AAATAATAA
1 AAAAAATATACAAATAATAA
* * **
92051014 AAAAAATTTAGAAA-AATTT
1 AAAAAATATACAAATAATAA
* *
92051033 TAAAAATA-ACAAATATTAA
1 AAAAAATATACAAATAATAA
92051052 AAAAAATAT
1 AAAAAATAT
92051061 TATAAAGGGA
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
18 4 0.12
19 27 0.79
20 3 0.09
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAAATATACAAATAATAA
Found at i:92057793 original size:28 final size:30
Alignment explanation
Indices: 92057752--92057824 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 30
92057742 TCACTGGTGG
* *
92057752 AACTAAAAAAAAAAC-TT-AATAACCTAGT
1 AACTTAAATAAAAACTTTGAATAACCTAGT
* **
92057780 AACTTAAATGAAAACTTTTGAATAATTTAGT
1 AACTTAAATAAAAAC-TTTGAATAACCTAGT
92057811 AACTTAAATAAAAA
1 AACTTAAATAAAAA
92057825 AATTTTAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 12 0.33
30 2 0.06
31 22 0.61
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (30 bp):
AACTTAAATAAAAACTTTGAATAACCTAGT
Found at i:92073405 original size:24 final size:22
Alignment explanation
Indices: 92073374--92073429 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
92073364 CAAGAGAATC
*
92073374 ATAAATAAACA-TATTTATTAGAT
1 ATAAATAAACAGCATTTA-TA-AT
92073397 ATAAAATAATACAGCATTTATAAT
1 AT-AAATAA-ACAGCATTTATAAT
92073421 ATAAATAAA
1 ATAAATAAA
92073430 TGAATTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 1 0.03
23 8 0.28
24 10 0.34
25 5 0.17
26 5 0.17
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAAATAAACAGCATTTATAAT
Found at i:92074440 original size:18 final size:19
Alignment explanation
Indices: 92074412--92074449 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
92074402 TTTATAATAC
*
92074412 TTTATATTATTATGTTATT
1 TTTATATTATTATGTAATT
92074431 TTTATA-TATTATGTAATT
1 TTTATATTATTATGTAATT
92074449 T
1 T
92074450 AGAACACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTATATTATTATGTAATT
Done.