Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 287 of 438
Found at i:89886521 original size:21 final size:22
Alignment explanation
Indices: 89886495--89886535 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
89886485 CACTTGACAC
89886495 AGGGGC-ACACGCCCATGTGGG
1 AGGGGCAACACGCCCATGTGGG
*
89886516 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCATGTG
89886536 ACCAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGGG
Found at i:89889245 original size:49 final size:50
Alignment explanation
Indices: 89889005--89889250 Score: 262
Period size: 49 Copynumber: 4.9 Consensus size: 50
89888995 ATCTATTGTG
* * * ** *
89889005 AGGTCACGTATGTAGTACTAAGTGCAAGCTACTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * * *
89889055 -GGCCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * **
89889105 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
89889155 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
89889205 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
89889251 GCCTTGTCTA
Statistics
Matches: 161, Mismatches: 33, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
49 77 0.48
50 47 0.29
51 37 0.23
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:89889249 original size:99 final size:101
Alignment explanation
Indices: 89889062--89889249 Score: 272
Period size: 99 Copynumber: 1.9 Consensus size: 101
89889052 ATTGGCCGCA
* *
89889062 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTTCGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTTCGATCACATGTGTAGTACTAAG
* *
89889127 TGCAGGCTACTATGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTATGCGTACCAGATGGTTAGGTCACG
* * * * *
89889163 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTTCGATCACATGTGTAGTACTAAG
*
89889226 TGTAGGCTACTATGCGTACCAGAT
66 TGCAGGCTACTATGCGTACCAGAT
89889250 AGCCTTGTCT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 39 0.51
100 2 0.03
101 36 0.47
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTTCGATCACATGTGTAGTACTAAG
TGCAGGCTACTATGCGTACCAGATGGTTAGGTCACG
Found at i:89893286 original size:37 final size:37
Alignment explanation
Indices: 89893236--89893379 Score: 207
Period size: 37 Copynumber: 3.9 Consensus size: 37
89893226 ACCTTTAGCT
* * * *
89893236 CGGACGAAATCTCCACACGAAGTTATCGGGTTTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
89893273 CGGACAAAATCTCCACATGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
89893310 CGGACAAAATCTCCACACGTAGTCATCGAGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * *
89893347 CGGACATACTCTCTACACGTAGTCATCGGGTCT
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCT
89893380 CACCTGGAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:89893602 original size:47 final size:47
Alignment explanation
Indices: 89893550--89893689 Score: 226
Period size: 47 Copynumber: 3.0 Consensus size: 47
89893540 TTTCACACTA
* * * * *
89893550 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
89893597 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
89893644 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATT
89893690 AAAATCCTAA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 86 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:89907474 original size:30 final size:30
Alignment explanation
Indices: 89907440--89907500 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
89907430 TCCTTAACTC
89907440 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
89907470 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
89907500 A
1 A
89907501 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:89911914 original size:30 final size:30
Alignment explanation
Indices: 89911880--89911940 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
89911870 TCCTTAACTC
89911880 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
89911910 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
89911940 A
1 A
89911941 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:89916362 original size:30 final size:30
Alignment explanation
Indices: 89916328--89916388 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
89916318 TCCTTAACTC
89916328 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
89916358 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
89916388 A
1 A
89916389 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:89919102 original size:40 final size:38
Alignment explanation
Indices: 89919057--89919182 Score: 121
Period size: 39 Copynumber: 3.2 Consensus size: 38
89919047 CGGAATATAA
89919057 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATG-CTTCGGGTCTTAGC
** * *
89919097 CCGGATATAGCCACTAGCACAATTGCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCTTCGGGTCTTAGC
* * *
89919136 CC-GATATAAATTC-CAGCATAAATGTCTTCGGGGCTTAGC
1 CCGGATAT-AA-TCACTGCACAAATG-CTTCGGGTCTTAGC
89919175 CCGGATAT
1 CCGGATAT
89919183 CATTCAATTT
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
38 12 0.17
39 32 0.46
40 26 0.37
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (38 bp):
CCGGATATAATCACTGCACAAATGCTTCGGGTCTTAGC
Found at i:89927166 original size:358 final size:360
Alignment explanation
Indices: 89926507--89927218 Score: 1182
Period size: 358 Copynumber: 2.0 Consensus size: 360
89926497 ATACTTCACT
*
89926507 TTTACGAGCCATTTTCGCATGGCCGTACATATATACATCACAACATATTCAACCAACAAGGGGTA
1 TTTACGAGCCATTTTCGCATGGCCGTACATATATACATCACAACATATTCAACAAACAAGGGGTA
* *
89926572 GTCCTATACATGCCATTTCAAAGTTCAACCAAAATTTATACCAAAATAGAGGCGTGGATAGTGTG
66 GTCCTATACATGCCATCTCAAAGTTCAACCAAAATTTATACCAAAATAGAGGCGTGGACAGTGTG
* ** * * *
89926637 GATGACTTCGACTTTATTGATCTCGAATCCGATTGCTATCGAGCGAAATCTATAAAACAGAGAGC
131 GATGACTTCGACTTCAACGATCCCAAATCCGATTGCTATCGAGCGAAATCTAGAAAACAGAGAGC
*
89926702 CAAAGTAACGGGGTAAGCATTTTTATGCTTAGTAAGTCTCAAGGAATATAATCAACTCTAATTAC
196 CAAAGCAACGGGGTAAGCATTTTTATGCTTAGTAAGTCTCAAGGAATATAATCAACTCTAATTAC
89926767 AGCAATACATTCACATAGCCAAATGCATCATTTCATTAATACACATTCTTACTTCACACTTCATC
261 AGCAATACATTCACATAGCCAAATGCATCATTTCATTAATACACATTCTTACTTCACACTTCATC
** *
89926832 ATTATATACTTTCACAAAGTATCAATCAACTCTAA
326 ATTATATAAGTTCACAAAGCATCAATCAACTCTAA
* * *
89926867 TTTACGAGCCATTTTCGCATGGCCGTATATACT-TACATTACAACATATTTAACAAACAAGGGGT
1 TTTACGAGCCATTTTCGCATGGCCGTACATA-TATACATCACAACATATTCAACAAACAAGGGGT
* *
89926931 AGTCCTATACATGCCATCTC-AAGTTCAACCAAAAATTTATACCAAAATGGAGGC-TTGACAGTG
65 AGTCCTATACATGCCATCTCAAAGTTCAACC-AAAATTTATACCAAAATAGAGGCGTGGACAGTG
89926994 TGGATGACTTCGACTTCAACGATCCCAAATCCGATTGCT-TCGAGCGAAATCTAGAAAACTA-AG
129 TGGATGACTTCGACTTCAACGATCCCAAATCCGATTGCTATCGAGCGAAATCTAGAAAAC-AGAG
89927057 AGCCAAAGCAACGGGGTAAGCATTTTTATGCTTAGTAAGTCTCAAGGAATATAATCAACTCTAAT
193 AGCCAAAGCAACGGGGTAAGCATTTTTATGCTTAGTAAGTCTCAAGGAATATAATCAACTCTAAT
*
89927122 TACAGCAATACATTCACATAGCCAAATGCATCATTTCATTAATACACATTCTTACTTCATACTTC
258 TACAGCAATACATTCACATAGCCAAATGCATCATTTCATTAATACACATTCTTACTTCACACTTC
*
89927187 ATCATTATATAAGTTCGCAAAGCATCAATCAA
323 ATCATTATATAAGTTCACAAAGCATCAATCAA
89927219 TTCAATAACT
Statistics
Matches: 329, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
358 177 0.54
359 52 0.16
360 99 0.30
361 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (360 bp):
TTTACGAGCCATTTTCGCATGGCCGTACATATATACATCACAACATATTCAACAAACAAGGGGTA
GTCCTATACATGCCATCTCAAAGTTCAACCAAAATTTATACCAAAATAGAGGCGTGGACAGTGTG
GATGACTTCGACTTCAACGATCCCAAATCCGATTGCTATCGAGCGAAATCTAGAAAACAGAGAGC
CAAAGCAACGGGGTAAGCATTTTTATGCTTAGTAAGTCTCAAGGAATATAATCAACTCTAATTAC
AGCAATACATTCACATAGCCAAATGCATCATTTCATTAATACACATTCTTACTTCACACTTCATC
ATTATATAAGTTCACAAAGCATCAATCAACTCTAA
Found at i:89927429 original size:40 final size:40
Alignment explanation
Indices: 89927384--89927549 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
89927374 CGGAATATAA
89927384 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
89927424 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
89927464 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
89927504 CCGGATATAATTC-C-AGCATAAATGTCTTCGGG-CTTAGC
1 CCGGATATAA-TCACTAGCACAAATGCCTTCGGGTCTTAGC
89927542 CCGGATAT
1 CCGGATAT
89927550 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
38 13 0.12
39 16 0.15
40 77 0.72
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:89930399 original size:18 final size:19
Alignment explanation
Indices: 89930367--89930403 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
89930357 TGGTCTCGAT
89930367 TTTTCTAAAGGTATCAATA
1 TTTTCTAAAGGTATCAATA
*
89930386 TTTTC-AAAGTTATCAATA
1 TTTTCTAAAGGTATCAATA
89930404 CTTGTCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (19 bp):
TTTTCTAAAGGTATCAATA
Found at i:89930496 original size:20 final size:20
Alignment explanation
Indices: 89930465--89930516 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
89930455 TAAAAAAAAT
*
89930465 TTAAAATGATTTTAACATGA
1 TTAAAATCATTTTAACATGA
* * * *
89930485 TTGAAATCATTTTGACTTGG
1 TTAAAATCATTTTAACATGA
89930505 TTAAAATCATTT
1 TTAAAATCATTT
89930517 GCACTTGATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.44
Consensus pattern (20 bp):
TTAAAATCATTTTAACATGA
Found at i:89933497 original size:40 final size:39
Alignment explanation
Indices: 89933347--89933499 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
89933337 GAATGTTCGA
*
89933347 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
89933386 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
89933425 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
89933464 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
89933500 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:89933515 original size:40 final size:39
Alignment explanation
Indices: 89933348--89933530 Score: 249
Period size: 39 Copynumber: 4.6 Consensus size: 39
89933338 AATGTTCGAG
* *
89933348 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
89933387 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
89933426 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
89933465 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
89933505 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
89933531 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.68
40 41 0.32
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:89933557 original size:79 final size:78
Alignment explanation
Indices: 89933354--89933568 Score: 218
Period size: 78 Copynumber: 2.7 Consensus size: 78
89933344 CGAGTGATAT
** * * *
89933354 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
** *
89933419 CGAGCTATGATAT
66 CGAGCTACCATAA
** * *
89933432 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGT
* *
89933497 GCGGGTTACCATAA
65 GCGAGCTACCATAA
* ** *
89933511 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
89933569 TATGTGATTC
Statistics
Matches: 118, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 48 0.41
79 45 0.38
80 24 0.20
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
CGAGCTACCATAA
Found at i:89937410 original size:33 final size:33
Alignment explanation
Indices: 89937364--89937434 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
89937354 AAATTCATAT
* *
89937364 ATCATGTATATCATTTGTAACATTTCACTCTCA
1 ATCATGTACATCATTTGAAACATTTCACTCTCA
89937397 ATCATGTACATCATTTGAAACATTTCACTCTCA
1 ATCATGTACATCATTTGAAACATTTCACTCTCA
89937430 ATCAT
1 ATCAT
89937435 ATAAACAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (33 bp):
ATCATGTACATCATTTGAAACATTTCACTCTCA
Found at i:89937683 original size:24 final size:24
Alignment explanation
Indices: 89937649--89937694 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
89937639 ATTGAGCTAA
*
89937649 AACAGTAAGCTCTTACGAGCTGAT
1 AACAGTAAGCTCTTACAAGCTGAT
*
89937673 AACAGTGAGCTCTTACAAGCTG
1 AACAGTAAGCTCTTACAAGCTG
89937695 CGGTGAGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (24 bp):
AACAGTAAGCTCTTACAAGCTGAT
Found at i:89940469 original size:27 final size:28
Alignment explanation
Indices: 89940439--89940508 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
89940429 ATAGTGAATC
*
89940439 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
89940466 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
89940494 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89940509 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:89940580 original size:42 final size:42
Alignment explanation
Indices: 89940516--89940622 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
89940506 GCTGTACAAT
* *
89940516 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
89940558 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
89940600 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
89940623 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:89942864 original size:40 final size:39
Alignment explanation
Indices: 89942820--89943038 Score: 217
Period size: 40 Copynumber: 5.5 Consensus size: 39
89942810 GCTCGATTGT
* * *
89942820 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
89942860 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
89942900 CTTCGGGACTTAACCCGGTTTTGGTAACTAGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
89942940 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
89942980 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
89943021 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
89943039 ATACCATTCG
Statistics
Matches: 154, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.01
40 125 0.81
41 25 0.16
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:89942918 original size:80 final size:79
Alignment explanation
Indices: 89942820--89943040 Score: 271
Period size: 80 Copynumber: 2.7 Consensus size: 79
89942810 GCTCGATTGT
* * * * * *
89942820 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
89942885 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
89942900 CTTCGGGACTTAACCCGGTTTTGGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
89942965 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * *
89942980 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
89943041 ACCATTCGAA
Statistics
Matches: 119, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 87 0.73
81 32 0.27
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTAGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATGC
Found at i:89948118 original size:143 final size:142
Alignment explanation
Indices: 89947913--89948327 Score: 539
Period size: 143 Copynumber: 2.9 Consensus size: 142
89947903 CCATAACTTG
* * * ** * *
89947913 TAGCTTTAATCTACTCCGCTGCAATTTCAGGGAAATAAGATTAGCTATCTTCAATCTGCTCCGCT
1 TAGCTTTAATCTATTCCACTTCAACGTCAGGGAAATAAGATTAGCTATCTCCAGTCTGCTCCGCT
* *
89947978 GCAACTTCAAGGAGATAAGGCTGATGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGAT
66 GCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
*
89948043 TTGT-CACAATTTT
131 TT-TCCAC-ATTTA
* * * *
89948056 TAGCTTTAATTTGTTCCACTGT-AACGTCAGGGAAATAAGATTCGCTATCTCCAGTCTACTCCGC
1 TAGCTTTAATCTATTCCACT-TCAACGTCAGGGAAATAAGATTAGCTATCTCCAGTCTGCTCCGC
* * *
89948120 TGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGA
65 TGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
89948185 TTTTCCATCATTTA
130 TTTTCCA-CATTTA
* * * * * *
89948199 TAGCTTTAATCTATTCCACTTCAATGTCAGGAAAATAAGATTTGATGTCTCTAGTCTGCT-CGCT
1 TAGCTTTAATCTATTCCACTTCAACGTCAGGGAAATAAGATTAGCTATCTCCAGTCTGCTCCGCT
* * *
89948263 GCAACTTCAAGGAGATAAGGCTGGTGGTTTCAATTTGCTCCACTGCAACTTCTGGAAGATAAGAT
66 GCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
89948328 CTGTTATCTT
Statistics
Matches: 236, Mismatches: 32, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
142 65 0.28
143 170 0.72
144 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (142 bp):
TAGCTTTAATCTATTCCACTTCAACGTCAGGGAAATAAGATTAGCTATCTCCAGTCTGCTCCGCT
GCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
TTTCCACATTTA
Found at i:89948309 original size:44 final size:44
Alignment explanation
Indices: 89948253--89948495 Score: 161
Period size: 44 Copynumber: 5.5 Consensus size: 44
89948243 ATGTCTCTAG
*
89948253 TCTGCT-CGCTGCAACTTCAAGGAGATAAGGCTGGTGGTTTCAA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGGTTTCAA
* * * ** *
89948296 TTTGCTCCACTGCAACTTC-TGGAAGATAAGATCT-GTTATCTTCAG
1 TCTGCTCCACTGCAACTTCAAGG-AGATAAG-GCTGGTGGT-TTCAA
* * *
89948341 TCTGCTCTACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGGTTTCAA
* * * * * ** * *** *
89948385 TCTGCTTCATTACAACTTC-AGAAATATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAAG-GAGATAAGGCTGGTGGT-TTCAA
* * *
89948430 TCTGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGGTTTCAA
* * *
89948474 TCTACTTCACTACAACTTCAAG
1 TCTGCTCCACTGCAACTTCAAG
89948496 AAAATAAGAT
Statistics
Matches: 141, Mismatches: 50, Indels: 17
0.68 0.24 0.08
Matches are distributed among these distances:
43 8 0.06
44 71 0.50
45 59 0.42
46 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGGTTTCAA
Found at i:89948358 original size:45 final size:45
Alignment explanation
Indices: 89948298--89949187 Score: 183
Period size: 44 Copynumber: 19.4 Consensus size: 45
89948288 GGTTTCAATT
* *
89948298 TGCTCCACTGCAACTTCTGGAAGATAAGATCTGTTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGAAGATAAGATCTGCTATCTTCAGTC
* * * * ** *
89948343 TGCTCTACTGCAACTTCAGGGAGATAAG-GCTGGTGGCTTCAATC
1 TGCTCCACTGCAACTTCAGGAAGATAAGATCTGCTATCTTCAGTC
* * * * * * *
89948387 TGCTTCATTACAACTTCAGAAATATAAGATTTGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGAAGATAAGATCTGCTATCTTCAGTC
* * * * ** *
89948432 TGCTCCACTGCAACTTTAGGGAGATAAG-GCTGGTGGCTTCAATC
1 TGCTCCACTGCAACTTCAGGAAGATAAGATCTGCTATCTTCAGTC
* * * * * * * * *
89948476 TACTTCACTACAACTTCAAGAAAATAAGATTTGCCATAATTTGTAGCTTTAATA
1 TGCTCCACTGCAACTTCAGGAAGATAAGATCTG-C-T-A----T--CTTCAGTC
* * * *
89948530 TGTTCCACTGCAACATCAAGGAA-ATAAGAT-TCACTGTCTTCAGTC
1 TGCTCCACTGCAACTTC-AGGAAGATAAGATCT-GCTATCTTCAGTC
* * * ** *
89948575 TAG-TCCGCTGCAACTTCA-GAGAGATAAG-GCTGGTGGCTTCAATC
1 T-GCTCCACTGCAACTTCAGGA-AGATAAGATCTGCTATCTTCAGTC
* * * * * *
89948619 TACTCCATTACAACTTCAGGAATATAAGATTTGCCATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGAAGATAAGATCTGCTATCTTCAGTC
* * * * ** *
89948664 TACTCCGCT-CAACTTCAGGGAGATAAG-GCTAG-TGGCTTCAATC
1 TGCTCCACTGCAACTTCAGGAAGATAAGATCT-GCTATCTTCAGTC
* * * * * *
89948707 TACTTCACTGCAACTTCAGGAAAATGAGAT-TCGCCATAATTTGTAGCTTTAATC
1 TGCTCCACTGCAACTTCAGGAAGATAAGATCT-G-C-T-A----T--CTTCAGTC
* * * * *
89948761 TGTTCCACTGCAACGTCAGGGAA-ATAAGAT-TCACTGTCTTTAGTC
1 TGCTCCACTGCAACTTCA-GGAAGATAAGATCT-GCTATCTTCAGTC
* * * * * * ** *
89948806 TGCTCCGCTACAACTTTA-GAGGGATAAG-GCTGGTGGCTTCAATC
1 TGCTCCACTGCAACTTCAGGA-AGATAAGATCTGCTATCTTCAGTC
* * *
89948850 TACTCCACTGCAACTTCAAGAAGATAAGATCTTCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGAAGATAAGATCTGCTATCTTCAGTC
** * ** *
89948895 TGCT-CAGCTGCAACTTCAAGG-ATTTAAG--CTGGTGGCTTCAATC
1 TGCTCCA-CTGCAACTTC-AGGAAGATAAGATCTGCTATCTTCAGTC
* * * * * *
89948938 TGCTCCACTACAACTCCAGGAAGATAAAATTCTCCATAATTTGTAGCTTTAATC
1 TGCTCCACTGCAACTTCAGGAAGATAAGA-TCTGC-T-A----T--CTTCAGTC
** * * * * *
89948992 TATTCCACTGTAACGTCAGGGAA-ATAAGATTTGTTGTCTTCAGTC
1 TGCTCCACTGCAACTTCA-GGAAGATAAGATCTGCTATCTTCAGTC
* * * * * ** *
89949037 TGCTTCACTGTAACTTCAGGGAGATAAG-GCTGGTGGCTTCAATC
1 TGCTCCACTGCAACTTCAGGAAGATAAGATCTGCTATCTTCAGTC
* * * *
89949081 TGCTTCACTGCTACTTCAGGAAGATAAGATCTACCATAT-TTGA-TC
1 TGCTCCACTGCAACTTCAGGAAGATAAGATCT-GC-TATCTTCAGTC
* ** * *
89949126 TACTCCACTGCAACTTCAAGGAA-ATAAGATCCAC-AACTTCAATC
1 TGCTCCACTGCAACTTC-AGGAAGATAAGATCTGCTATCTTCAGTC
* *
89949170 TGCTCCGCTGCTACTTCA
1 TGCTCCACTGCAACTTCA
89949188 AGGAGATGAG
Statistics
Matches: 591, Mismatches: 192, Indels: 126
0.65 0.21 0.14
Matches are distributed among these distances:
42 4 0.01
43 49 0.08
44 214 0.36
45 206 0.35
46 13 0.02
47 7 0.01
52 3 0.01
53 5 0.01
54 78 0.13
55 12 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (45 bp):
TGCTCCACTGCAACTTCAGGAAGATAAGATCTGCTATCTTCAGTC
Found at i:89948372 original size:89 final size:88
Alignment explanation
Indices: 89948251--89948512 Score: 346
Period size: 89 Copynumber: 3.0 Consensus size: 88
89948241 TGATGTCTCT
* * * * * * *
89948251 AGTCTGCTCGCTGCAACTTCAAGGAGATAAGGCTGGTGGTTTCAATTTGCTCCACTGCAACTTCT
1 AGTCTGCTCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTACAACTTCA
* **
89948316 GGAAGATAAGATCTGTTATCTTC
66 GAAAGATAAGATCTGCCATCTTC
*
89948339 AGTCTGCTCTACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCATTACAACTTC
1 AGTCTGCTC-ACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTACAACTTC
* *
89948404 AGAAATATAAGATTTGCCATCTTC
65 AGAAAGATAAGATCTGCCATCTTC
* *
89948428 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTACTTCACTACAACTTC
1 AGTCTGCT-CACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTACAACTTC
*
89948493 AAGAAA-ATAAGATTTGCCAT
65 -AGAAAGATAAGATCTGCCAT
89948513 AATTTGTAGC
Statistics
Matches: 155, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
88 9 0.06
89 140 0.90
90 6 0.04
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (88 bp):
AGTCTGCTCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTACAACTTCA
GAAAGATAAGATCTGCCATCTTC
Found at i:89948460 original size:320 final size:320
Alignment explanation
Indices: 89948082--89948743 Score: 843
Period size: 320 Copynumber: 2.1 Consensus size: 320
89948072 CACTGTAACG
* * *
89948082 TCAGGGAAATAAGATTCGCTATCTCCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTG
1 TCAGGAAAATAAGATTCGCCATCTCCAGTCTACTCCACTGCAACTTCAGGGAGATAAGGCTGGTG
* ** * * * * * *
89948147 GCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTTTCCATCATTTATAGCTTTAATCTA
66 GCTTCAATCTACTCCACTACAACTTCAAGAAAATAAGATTTGCCATAATTTATAGCTTTAATATA
* ** *
89948212 TTCCACTTCAATGTC-AGGAAAATAAGATTTGA-TGTC-TCTAGTCT-G-CTCGCTGCAACTTCA
131 TTCCACTGCAACATCAAGG-AAATAAGA-TTCACTGTCTTC-AGTCTAGTC-CGCTGCAACTTCA
* * * * * **
89948272 -AGGAGATAAGGCTGGTGGTTTCAATTTGCTCCACTGCAACTTCTGGAAGATAAGATCTGTTATC
192 GA-GAGATAAGGCTGGTGGCTTCAATCTACTCCACTACAACTTCAGGAAGATAAGATCTGCCATC
* * * * *
89948336 TTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCATTACAAC
256 TTCAGTCTACTCCACT-CAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTTCACTACAAC
89948401 T
320 T
* * * *
89948402 TCA-GAAATATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGGCTGGT
1 TCAGGAAA-ATAAGATTCGCCATCTCCAGTCTACTCCACTGCAACTTCAGGGAGATAAGGCTGGT
* *
89948466 GGCTTCAATCTACTTCACTACAACTTCAAGAAAATAAGATTTGCCATAATTTGTAGCTTTAATAT
65 GGCTTCAATCTACTCCACTACAACTTCAAGAAAATAAGATTTGCCATAATTTATAGCTTTAATAT
*
89948531 GTTCCACTGCAACATCAAGGAAATAAGATTCACTGTCTTCAGTCTAGTCCGCTGCAACTTCAGAG
130 ATTCCACTGCAACATCAAGGAAATAAGATTCACTGTCTTCAGTCTAGTCCGCTGCAACTTCAGAG
* * *
89948596 AGATAAGGCTGGTGGCTTCAATCTACTCCATTACAACTTCAGGAATATAAGATTTGCCATCTTCA
195 AGATAAGGCTGGTGGCTTCAATCTACTCCACTACAACTTCAGGAAGATAAGATCTGCCATCTTCA
* *
89948661 GTCTACTCCGCTCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTTCACTGCAACT
260 GTCTACTCCACTCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTTCACTACAACT
*
89948722 TCAGGAAAATGAGATTCGCCAT
1 TCAGGAAAATAAGATTCGCCAT
89948744 AATTTGTAGC
Statistics
Matches: 292, Mismatches: 42, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
319 6 0.02
320 196 0.67
321 88 0.30
322 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (320 bp):
TCAGGAAAATAAGATTCGCCATCTCCAGTCTACTCCACTGCAACTTCAGGGAGATAAGGCTGGTG
GCTTCAATCTACTCCACTACAACTTCAAGAAAATAAGATTTGCCATAATTTATAGCTTTAATATA
TTCCACTGCAACATCAAGGAAATAAGATTCACTGTCTTCAGTCTAGTCCGCTGCAACTTCAGAGA
GATAAGGCTGGTGGCTTCAATCTACTCCACTACAACTTCAGGAAGATAAGATCTGCCATCTTCAG
TCTACTCCACTCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTTCACTACAACT
Found at i:89948699 original size:88 final size:89
Alignment explanation
Indices: 89948533--89948743 Score: 273
Period size: 88 Copynumber: 2.4 Consensus size: 89
89948523 TTTAATATGT
* * * ** *
89948533 TCCACTGCAACATCAAGG-AAATAAGATTCACTGTCTTCAGTCTAGTCCGCTGCAACTTCAGAGA
1 TCCACTACAACTTC-AGGAAAATAAGATTCGCCATCTTCAGTCTACTCCGCTGCAACTTCAGAGA
*
89948597 GATAAGGCTGGTGGCTTCAATCTAC
65 GATAAGGCTAGTGGCTTCAATCTAC
* * * *
89948622 TCCATTACAACTTCAGGAATATAAGATTTGCCATCTTCAGTCTACTCCGCT-CAACTTCAGGGAG
1 TCCACTACAACTTCAGGAAAATAAGATTCGCCATCTTCAGTCTACTCCGCTGCAACTTCAGAGAG
89948686 ATAAGGCTAGTGGCTTCAATCTAC
66 ATAAGGCTAGTGGCTTCAATCTAC
* * *
89948710 TTCACTGCAACTTCAGGAAAATGAGATTCGCCAT
1 TCCACTACAACTTCAGGAAAATAAGATTCGCCAT
89948744 AATTTGTAGC
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
88 66 0.63
89 38 0.37
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (89 bp):
TCCACTACAACTTCAGGAAAATAAGATTCGCCATCTTCAGTCTACTCCGCTGCAACTTCAGAGAG
ATAAGGCTAGTGGCTTCAATCTAC
Found at i:89948791 original size:231 final size:232
Alignment explanation
Indices: 89948334--89949110 Score: 1049
Period size: 231 Copynumber: 3.4 Consensus size: 232
89948324 AGATCTGTTA
** * * * *
89948334 TCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCATTACA
1 TCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTACA
* * * *
89948399 ACTTCAGAAATATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGGCTG
66 ACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTG
* *
89948464 GTGGCTTCAATCTACTTCACTACAACTTCAAGAAAATAAGATTTGCCATAATTTGTAGCTTTAAT
131 GTGGCTTCAATCTACTTCACTACAACTTCAGGAAAATAAGATTCGCCATAATTTGTAGCTTTAAT
* * *
89948529 ATGTTCCACTGCAACATCAAGGAAATAAGATTCACTG
196 CTGTTCCACTGCAACGTCAGGGAAATAAGATTCACTG
*
89948566 TCTTCAGTCTAG-TCCGCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCATTAC
1 TCTTCAGTCT-GCTCCGCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTAC
* *
89948630 AACTTCAGGAATATAAGATTTGCCATCTTCAGTCTACTCCGCT-CAACTTCAGGGAGATAAGGCT
65 AACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCT
* * *
89948694 AGTGGCTTCAATCTACTTCACTGCAACTTCAGGAAAATGAGATTCGCCATAATTTGTAGCTTTAA
130 GGTGGCTTCAATCTACTTCACTACAACTTCAGGAAAATAAGATTCGCCATAATTTGTAGCTTTAA
89948759 TCTGTTCCACTGCAACGTCAGGGAAATAAGATTCACTG
195 TCTGTTCCACTGCAACGTCAGGGAAATAAGATTCACTG
* * * * *
89948797 TCTTTAGTCTGCTCCGCTACAACTTTAGAGGGATAAGGCTGGTGGCTTCAATCTACTCCACTGCA
1 TCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTACA
* * * * **
89948862 ACTTCAAGAAGATAAGATCTT-CTATCTTCAGTCTGCTCAGCTGCAACTTCAAGGATTTAA-GCT
66 ACTTCAGGAAGATAAGAT-TTGCCATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCT
* * * * * *
89948925 GGTGGCTTCAATCTGCTCCACTACAACTCCAGGAAGATAAAATTCTCCATAATTTGTAGCTTTAA
130 GGTGGCTTCAATCTACTTCACTACAACTTCAGGAAAATAAGATTCGCCATAATTTGTAGCTTTAA
* * ***
89948990 TCTATTCCACTGTAACGTCAGGGAAATAAGATTTGTTG
195 TCTGTTCCACTGCAACGTCAGGGAAATAAGATTCACTG
* * * * * * * *
89949028 TCTTCAGTCTGCTTCACTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCT
1 TCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTACA
89949093 ACTTCAGGAAGATAAGAT
66 ACTTCAGGAAGATAAGAT
89949111 CTACCATATT
Statistics
Matches: 484, Mismatches: 57, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
230 1 0.00
231 369 0.76
232 113 0.23
233 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (232 bp):
TCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCACTACA
ACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTG
GTGGCTTCAATCTACTTCACTACAACTTCAGGAAAATAAGATTCGCCATAATTTGTAGCTTTAAT
CTGTTCCACTGCAACGTCAGGGAAATAAGATTCACTG
Found at i:89948834 original size:463 final size:458
Alignment explanation
Indices: 89947915--89949110 Score: 1253
Period size: 463 Copynumber: 2.6 Consensus size: 458
89947905 ATAACTTGTA
* * * * * * * *
89947915 GCTTTAATCTACTCCGCTGCAATTTCAGGGAA-ATAAGATTAGCTATCTTCAATCTGCTCCGCTG
1 GCTTCAATCTACTCCACTACAACTTCA-AGAAGATAAGATTTGCTATCTTCAGTCTGCTCCACTG
* *
89947979 CAACTTCAAGGAGATAAGGCTGATGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATT
65 CAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTACAACTTCAGGAAGATAAGATT
* * * * * *
89948044 TGTCACAATTTTTAGCTTTAATTTGTTCCACTGTAACGTCAGGGAAATAAGATTCGCTATCTCCA
130 TGCCATAATTTGTAGCTTTAATATGTTCCACTGTAACGTCAGGGAAATAAGATTCGCTGTCTTCA
* * *
89948109 GTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTTA
195 GTCTAGTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCA
* *
89948174 GGAAGATAAGATTTTCCATCATTTATAGCTTTAATCTATTCCACTTCAATGTCAGGAAAATAAGA
260 GGAAGATAAGATTTGCCATC--TTATA-C--TAATCTACTCCACTTCAATGTCAGGAAAATAAGA
* * * * * * * * * *
89948239 TTTGATGTCTCTAGTCTGCTCGCTGCAACTTCAAGGAGATAAGGCTGGTGGTTTCAATTTGCTCC
320 CTAGATGGCTCTAATCTACTCACTGCAACTTCAAGGAAATAAGCCTGGTGCTTTCAATCTGCTCC
* * ** * *
89948304 ACTGCAACTTCTGGAAGATAAGATCTGTTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATA
385 ACTGCAACGTCGGGAAGATAAGATCTACTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATA
89948369 AGGCTGGTG
450 AGGCTGGTG
* * * * *
89948378 GCTTCAATCTGCTTCATTACAACTTC-AGAAATATAAGATTTGCCATCTTCAGTCTGCTCCACTG
1 GCTTCAATCTACTCCACTACAACTTCAAG-AAGATAAGATTTGCTATCTTCAGTCTGCTCCACTG
* * * * *
89948442 CAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTACTTCACTACAACTTCAAGAAAATAAGATT
65 CAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTACAACTTCAGGAAGATAAGATT
* * * *
89948507 TGCCATAATTTGTAGCTTTAATATGTTCCACTGCAACATCAAGGAAATAAGATTCACTGTCTTCA
130 TGCCATAATTTGTAGCTTTAATATGTTCCACTGTAACGTCAGGGAAATAAGATTCGCTGTCTTCA
* * * *
89948572 GTCTAGTCCGCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTACTCCATTACAACTTCA
195 GTCTAGTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCA
* * * * * *
89948637 GGAATATAAGATTTGCCATC-T-T-C-AGTCTACTCCGC-TCAACT-TCAGGGAGATAAGGCTAG
260 GGAAGATAAGATTTGCCATCTTATACTAATCTACTCCACTTCAA-TGTCAGGAAAATAAGACTAG
*
89948696 -TGGCT-TCAATCTACTTCACTGCAACTTC-AGGAAAATGAGATTCGCCATAATTTGTAGCTTT-
324 ATGGCTCT-AATCTAC-TCACTGCAACTTCAAGG-AAAT-A-A---GCC-----TGGT-GCTTTC
* * * *
89948757 AATCTGTTCCACTGCAACGTCAGGGAA-ATAAGAT-TCACTGTCTTTAGTCTGCTCCGCTACAAC
375 AATCTGCTCCACTGCAACGTC-GGGAAGATAAGATCT-ACTATCTTCAGTCTGCTCCACTACAAC
*
89948820 TTTAGAGG-GATAAGGCTGGTG
438 TTCAG-GGAGATAAGGCTGGTG
*
89948841 GCTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATCTT-CTATCTTCAGTCTGCT-CAGCT
1 GCTTCAATCTACTCCACTACAACTTCAAGAAGATAAGAT-TTGCTATCTTCAGTCTGCTCCA-CT
** * * *
89948904 GCAACTTCAAGGATTTAA-GCTGGTGGCTTCAATCTGCTCCACTACAACTCCAGGAAGATAAAAT
64 GCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTACAACTTCAGGAAGATAAGAT
* * * *
89948968 TCT-CCATAATTTGTAGCTTTAATCTATTCCACTGTAACGTCAGGGAAATAAGATTTGTTGTCTT
129 T-TGCCATAATTTGTAGCTTTAATATGTTCCACTGTAACGTCAGGGAAATAAGATTCGCTGTCTT
* * * * *
89949032 CAGTCT-GCTTCACTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCTACT
193 CAGTCTAG-TCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACT
89949096 TCAGGAAGATAAGAT
257 TCAGGAAGATAAGAT
89949111 CTACCATATT
Statistics
Matches: 608, Mismatches: 100, Indels: 51
0.80 0.13 0.07
Matches are distributed among these distances:
451 1 0.00
452 12 0.02
453 32 0.05
454 11 0.02
455 1 0.00
457 1 0.00
458 2 0.00
459 1 0.00
460 1 0.00
461 2 0.00
462 166 0.27
463 364 0.60
464 14 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (458 bp):
GCTTCAATCTACTCCACTACAACTTCAAGAAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGC
AACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTACAACTTCAGGAAGATAAGATTT
GCCATAATTTGTAGCTTTAATATGTTCCACTGTAACGTCAGGGAAATAAGATTCGCTGTCTTCAG
TCTAGTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAG
GAAGATAAGATTTGCCATCTTATACTAATCTACTCCACTTCAATGTCAGGAAAATAAGACTAGAT
GGCTCTAATCTACTCACTGCAACTTCAAGGAAATAAGCCTGGTGCTTTCAATCTGCTCCACTGCA
ACGTCGGGAAGATAAGATCTACTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGGCTG
GTG
Found at i:89950715 original size:27 final size:27
Alignment explanation
Indices: 89950685--89950743 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
89950675 AGGGTGTTTT
89950685 GGTAAATCTACAAACCAA-GGTTATTTC
1 GGTAAATCTACAAACCAATGG-TATTTC
* * *
89950712 GGTAATTTTGCAAACCAATGGTATTTC
1 GGTAAATCTACAAACCAATGGTATTTC
*
89950739 TGTAA
1 GGTAA
89950744 TTTTTTAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (27 bp):
GGTAAATCTACAAACCAATGGTATTTC
Found at i:89950862 original size:27 final size:27
Alignment explanation
Indices: 89950693--89950970 Score: 210
Period size: 27 Copynumber: 10.3 Consensus size: 27
89950683 TTGGTAAATC
* * *
89950693 TACAAACCAAGGTTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* * *
89950720 TGCAAACCAATGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
**
89950747 TTTAAAGTCAAGGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTCTGTAATTT
** *
89950775 TGTAAATC-AGGG-ATACTCTTGTAATTT
1 TACAAATCAAGGGTAT-TTC-TGTAATTT
** * *
89950802 TGTAAATTAAGGGTATTCCTGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* *
89950829 T-CTAAATCAAGGGTATTTTTATAATTT
1 TAC-AAATCAAGGGTATTTCTGTAATTT
**
89950856 TACAAATTGAGGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCTG-TAATTT
*
89950883 TACAAATCGAGGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCTG-TAATTT
* * *
89950910 CACAAATTAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
* *
89950937 TACAAACCAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
89950964 TACAAAT
1 TACAAAT
89950971 TAGGGGGATT
Statistics
Matches: 210, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
25 2 0.01
26 6 0.03
27 169 0.80
28 31 0.15
29 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCTGTAATTT
Found at i:89950896 original size:81 final size:80
Alignment explanation
Indices: 89950673--89950996 Score: 244
Period size: 81 Copynumber: 4.0 Consensus size: 80
89950663 TTTCACCCTA
* * * * * * * * *
89950673 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGTTATTTCGGTAATTTTGCAAACCAATGGTATTT
1 CAAGGGTATTTTTGTAATTTTACAAATC-AGGGTATTTCGGTAATTTTACAAATCAAGGGTATTT
*
89950738 CTGTAATTTTTTAAAGT
65 CTGTAATTTTCTAAA-T
* ** ** *
89950755 CAAGGGTATTTCTGTAATTTTGTAAATCAGGGATACTCTT--GTAATTTTGTAAATTAAGGGTAT
1 CAAGGGTATTTTTGTAATTTTACAAATCAGGG-TA-T-TTCGGTAATTTTACAAATCAAGGGTAT
*
89950818 TCCTGTAATTTTCTAAAT
63 TTCTGTAATTTTCTAAAT
* * * *
89950836 CAAGGGTATTTTTATAATTTTACAAATTGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTT
1 CAAGGGTATTTTTGTAATTTTACAAA-TCAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTT
*
89950901 C-GATAA-TTTCACAAAT
65 CTG-TAATTTTC-TAAAT
* * * * * * * *
89950917 TAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATTAGGGGGATTT
1 CAAGGGTATTTTTGTAATTTTACAAATCA-GGGTATTTCGGTAATTTTACAAATCAAGGGTATTT
89950982 -TGGTAATTTTGCTAA
65 CT-GTAATTTT-CTAA
89950997 TCGAGGGCAT
Statistics
Matches: 189, Mismatches: 40, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
79 2 0.01
80 7 0.04
81 109 0.58
82 67 0.35
83 2 0.01
84 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (80 bp):
CAAGGGTATTTTTGTAATTTTACAAATCAGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTC
TGTAATTTTCTAAAT
Found at i:89950898 original size:54 final size:52
Alignment explanation
Indices: 89950757--89951003 Score: 196
Period size: 54 Copynumber: 4.6 Consensus size: 52
89950747 TTTAAAGTCA
** * **
89950757 AGGGTATTTCTGTAATTTTGTAAATC-AGGGATACTCTTG-TAATTTTGTAAATT
1 AGGGTATTTC-GTAATTTTACAAATCGAGGG-TA-TTTTGATAATTTTACAAATT
* * *
89950810 AAGGGTATTCCTGTAATTTT-CTAAATCAAGGGTATTTTTATAATTTTACAAATT
1 -AGGGTATTTC-GTAATTTTAC-AAATCGAGGGTATTTTGATAATTTTACAAATT
* *
89950864 GAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTCACAAATT
1 -AGGGTATTTCG-TAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATT
* * *
89950918 AGGGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTTTGGTAATTTTACAAATT
1 A-GGGTA-TTTCGTAATTTTACAAATCGA-GGGTATTTTGATAATTTTACAAATT
* * * *
89950972 AGGGGGATTTTGGTAATTTTGCTAATCGAGGG
1 A-GGGTA-TTTCGTAATTTTACAAATCGAGGG
89951004 CATTCAATAA
Statistics
Matches: 163, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
53 7 0.04
54 145 0.89
55 11 0.07
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (52 bp):
AGGGTATTTCGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATT
Found at i:89950975 original size:27 final size:27
Alignment explanation
Indices: 89950795--89950991 Score: 177
Period size: 27 Copynumber: 7.3 Consensus size: 27
89950785 GGATACTCTT
** * *
89950795 GTAATTTTGTAAATTAAGGGTATTCCT-
1 GTAATTTTACAAATTAGGGGTATT-TTG
* * *
89950822 GTAATTTT-CTAAATCAAGGGTATTTTT
1 GTAATTTTAC-AAATTAGGGGTATTTTG
* *
89950849 ATAATTTTACAAATT-GAGGGTATTTCG
1 GTAATTTTACAAATTAG-GGGTATTTTG
* * *
89950876 ATAATTTTACAAA-TCGAGGGTATTTCG
1 GTAATTTTACAAATTAG-GGGTATTTTG
* *
89950903 ATAATTTCACAAATTAGGGGTATTTTG
1 GTAATTTTACAAATTAGGGGTATTTTG
**
89950930 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATTAGGGGTATTTTG
*
89950957 GTAATTTTACAAATTAGGGGGATTTTG
1 GTAATTTTACAAATTAGGGGTATTTTG
89950984 GTAATTTT
1 GTAATTTT
89950992 GCTAATCGAG
Statistics
Matches: 146, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.01
27 141 0.97
28 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
GTAATTTTACAAATTAGGGGTATTTTG
Found at i:89951041 original size:27 final size:27
Alignment explanation
Indices: 89951000--89951077 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
89950990 TTGCTAATCG
*
89951000 AGGGCA-TTCAATAATTCTACCCTACA
1 AGGGCATTTCAGTAATTCTACCCTACA
*
89951026 AGGGTATTTCAGTAATTCTACCCTACA
1 AGGGCATTTCAGTAATTCTACCCTACA
* * *
89951053 GGGGCATTTCAGTAATACTAGCCTA
1 AGGGCATTTCAGTAATTCTACCCTA
89951078 TAGATATGAG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
26 5 0.11
27 40 0.89
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (27 bp):
AGGGCATTTCAGTAATTCTACCCTACA
Found at i:89953753 original size:11 final size:11
Alignment explanation
Indices: 89953737--89953762 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
89953727 CGAAGCCCAC
89953737 ATCACAATAAT
1 ATCACAATAAT
89953748 ATCACAATAAT
1 ATCACAATAAT
89953759 ATCA
1 ATCA
89953763 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:89954081 original size:22 final size:22
Alignment explanation
Indices: 89954045--89954108 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
89954035 GTAAATACGT
* *
89954045 TTGGCACACATCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
89954067 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
89954089 TTGGCGCAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
89954109 AAATAATTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:89954206 original size:32 final size:33
Alignment explanation
Indices: 89954145--89954211 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
89954135 ACTGTGTCAT
*
89954145 GTTAGGCACATAACCACCAGTGACAGTAATATA
1 GTTAGGCACATAACCACCAGCGACAGTAATATA
* * *
89954178 GTTAGG-ACATAGCCACTAGCGACGGTAATATA
1 GTTAGGCACATAACCACCAGCGACAGTAATATA
89954210 GT
1 GT
89954212 CGGCACACAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 24 0.80
33 6 0.20
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (33 bp):
GTTAGGCACATAACCACCAGCGACAGTAATATA
Found at i:89954342 original size:41 final size:40
Alignment explanation
Indices: 89954281--89954405 Score: 187
Period size: 41 Copynumber: 3.0 Consensus size: 40
89954271 CTTAAAAGCC
* *
89954281 ATCGGTGGATCCACGATCGTCAAGCAACCATGTGATCCTTA
1 ATCGGTGGATCCACG-TCGTCAAGCAACCATGCGATCCTCA
89954322 ATCGGTGGATCCACAGTCGTCAAGCAACCATGCGATCCTCA
1 ATCGGTGGATCCAC-GTCGTCAAGCAACCATGCGATCCTCA
* *
89954363 ATCGGTGGATCCAGGGTCATCAAGCAACCATGCGATCCTCA
1 ATCGGTGGATCCA-CGTCGTCAAGCAACCATGCGATCCTCA
89954404 AT
1 AT
89954406 TTCTTCCTCC
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
41 77 0.99
42 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
ATCGGTGGATCCACGTCGTCAAGCAACCATGCGATCCTCA
Found at i:89954774 original size:27 final size:27
Alignment explanation
Indices: 89954665--89954905 Score: 159
Period size: 27 Copynumber: 8.9 Consensus size: 27
89954655 GGTAAATCTA
* * *
89954665 CAAACCAAAGGTATTTCTGTAATTTTTT
1 CAAATCAAGGGTATTTCGGTAA-TTTTT
* *
89954693 GAAAGTCAAGGGTATTTCTGTAATTTTGT
1 CAAA-TCAAGGGTATTTCGGTAATTTT-T
* *
89954722 -AAAT-TAGAGGTA-TTCTTGTAATTTTT
1 CAAATCAAG-GGTATTTC-GGTAATTTTT
*
89954748 CAAATCAAGGGTACTTCGGTAATTTTT
1 CAAATCAAGGGTATTTCGGTAATTTTT
* *
89954775 CAAATC-AGGGATATTTTGGTAATTTTA
1 CAAATCAAGGG-TATTTCGGTAATTTTT
* * * * *
89954802 CAAATTAAGGGTTTTTCGATAGTTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTT
* ** *
89954829 GAGGTCAAGGGTATTTCGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTT
* * * *
89954856 CAAATCAGGGGTATTTTGATAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTT
* * *
89954883 CTAATCAAAGGTA-TTCAGTAATT
1 CAAATCAAGGGTATTTCGGTAATT
89954906 CTACCCTACA
Statistics
Matches: 170, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
26 17 0.10
27 117 0.69
28 19 0.11
29 17 0.10
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGGTAATTTTT
Found at i:89954930 original size:27 final size:27
Alignment explanation
Indices: 89954896--89954969 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
89954886 ATCAAAGGTA
*
89954896 TTCAGTAATTCTACCCTACAATGGCAT
1 TTCAGTAATTCTACCCTACAAGGGCAT
*
89954923 TAT-AGTAATTCTACCCTACAAGGGTAT
1 T-TCAGTAATTCTACCCTACAAGGGCAT
* *
89954950 TTCAGTAATACTAGCCTACA
1 TTCAGTAATTCTACCCTACA
89954970 GATATGAGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (27 bp):
TTCAGTAATTCTACCCTACAAGGGCAT
Found at i:89956413 original size:35 final size:35
Alignment explanation
Indices: 89956367--89956436 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
89956357 CACTTTGTGC
89956367 TTAGTAAGCTCATGTAACAAGAATTATACTTACCT
1 TTAGTAAGCTCATGTAACAAGAATTATACTTACCT
89956402 TTAGTAAGCTCATGTAACAAGAATTATACTTACCT
1 TTAGTAAGCTCATGTAACAAGAATTATACTTACCT
89956437 AATATTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (35 bp):
TTAGTAAGCTCATGTAACAAGAATTATACTTACCT
Found at i:89964416 original size:12 final size:12
Alignment explanation
Indices: 89964399--89964430 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
89964389 TATTTTACCC
89964399 AATTTCTTCAAT
1 AATTTCTTCAAT
89964411 AATTTCTTCAAT
1 AATTTCTTCAAT
89964423 AATTTCTT
1 AATTTCTT
89964431 TTTCTAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTCTTCAAT
Found at i:89965818 original size:16 final size:16
Alignment explanation
Indices: 89965788--89965817 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89965778 GACATATGAT
89965788 TTCTCATTTTCTTTTC
1 TTCTCATTTTCTTTTC
89965804 TTCTCATTTT-TTTT
1 TTCTCATTTTCTTTT
89965818 TAAAAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCTCATTTTCTTTTC
Found at i:89966712 original size:19 final size:19
Alignment explanation
Indices: 89966670--89966725 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
89966660 TTCTTCATAA
89966670 GTATATATCAATCATTTCA-
1 GTATATATCAAT-ATTTCAT
89966689 -T-TATATCAATATTTCAT
1 GTATATATCAATATTTCAT
89966706 GTATATATCAATATTTCAT
1 GTATATATCAATATTTCAT
89966725 G
1 G
89966726 CTCCATCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.18
17 9 0.26
18 2 0.06
19 17 0.50
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (19 bp):
GTATATATCAATATTTCAT
Found at i:89967070 original size:46 final size:46
Alignment explanation
Indices: 89967020--89967372 Score: 487
Period size: 46 Copynumber: 7.7 Consensus size: 46
89967010 TGCCATACTG
* * *
89967020 TCTTTCAACTATGGTCTTACTCATATTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCAT-TTCATATCAGGTTGCCATGGTA
* * * *
89967066 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
* *** *
89967112 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
* * ** *
89967158 TCTTTCAACCATGGTCTTATTCGTTTCATATCACATTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
89967204 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
89967250 TCTTTCAACCATGGTCTTA-TACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACT-CATTTCATATCAGGTTGCCATGGTA
*
89967296 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
89967342 TCTTTCAACCATGGTCTTACAT-ATTTCATAT
1 TCTTTCAACCATGGTCTTAC-TCATTTCATAT
89967373 TAGAGAGCAC
Statistics
Matches: 279, Mismatches: 24, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
45 3 0.01
46 276 0.99
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
Found at i:89969236 original size:14 final size:13
Alignment explanation
Indices: 89969211--89969244 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
89969201 TCTTTTATAC
89969211 TAAATAAATAATAA
1 TAAAT-AATAATAA
89969225 TATAATAATAATAA
1 TA-AATAATAATAA
89969239 TAAATA
1 TAAATA
89969245 TCTCATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 12 0.63
15 3 0.16
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAATAATAATAA
Found at i:89973201 original size:15 final size:15
Alignment explanation
Indices: 89973181--89973210 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89973171 GGTTTCACTC
*
89973181 CCCAAAAACCTAAAA
1 CCCAAAAACCCAAAA
89973196 CCCAAAAACCCAAAA
1 CCCAAAAACCCAAAA
89973211 ACATAAAGAA
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:0.60, C:0.37, G:0.00, T:0.03
Consensus pattern (15 bp):
CCCAAAAACCCAAAA
Found at i:89981542 original size:2 final size:2
Alignment explanation
Indices: 89981535--89981567 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
89981525 AAATTTACAA
89981535 AT 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 AT A
89981568 AACAATAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89982785 original size:23 final size:23
Alignment explanation
Indices: 89982758--89982804 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
89982748 CAAACATTTC
* *
89982758 AACTACTCAATTCTATAT-TCAAA
1 AACTAC-CAAATCAATATGTCAAA
89982781 AACTACCAAATCAATATGTCAAA
1 AACTACCAAATCAATATGTCAAA
89982804 A
1 A
89982805 TCATCAAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (23 bp):
AACTACCAAATCAATATGTCAAA
Found at i:89986021 original size:17 final size:17
Alignment explanation
Indices: 89985978--89986026 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
89985968 TTGTGAATAT
* *
89985978 GATTTTATTTTTTTATTA
1 GATTTTA-TTTTTAAGTA
89985996 -ATTTATATTTTTAAGTA
1 GATTT-TATTTTTAAGTA
89986013 GATTTTATTTTTAA
1 GATTTTATTTTTAA
89986027 AGGTCTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
GATTTTATTTTTAAGTA
Found at i:89989308 original size:2 final size:2
Alignment explanation
Indices: 89989301--89989336 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
89989291 ATCAATTTTC
89989301 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89989337 TTAGAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90003888 original size:30 final size:32
Alignment explanation
Indices: 90003848--90003913 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 32
90003838 AATAATTTAT
*
90003848 TTTTCTATAATTTTTAAAAAG-TTAAATTA-AA
1 TTTTCTATAA-TTTTAAAAAGATTAAAATATAA
*
90003879 TTTT-TATAATTTTAAAAGGATTAAAATATAA
1 TTTTCTATAATTTTAAAAAGATTAAAATATAA
90003910 TTTT
1 TTTT
90003914 ATCTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 9 0.29
30 12 0.39
31 10 0.32
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (32 bp):
TTTTCTATAATTTTAAAAAGATTAAAATATAA
Found at i:90004700 original size:27 final size:27
Alignment explanation
Indices: 90004670--90004727 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
90004660 AAAAGGGAAG
* *
90004670 AAAAAAGAGGGAGAAGCAAAAGAAA-AT
1 AAAAAAGAAGGAGAA-AAAAAGAAAGAT
* *
90004697 AAAACATAAGGAGAAAAAAAGAAAGAT
1 AAAAAAGAAGGAGAAAAAAAGAAAGAT
90004724 AAAA
1 AAAA
90004728 GAATATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.71, C:0.03, G:0.21, T:0.05
Consensus pattern (27 bp):
AAAAAAGAAGGAGAAAAAAAGAAAGAT
Found at i:90006105 original size:2 final size:2
Alignment explanation
Indices: 90006100--90006126 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
90006090 AAAAAACCCC
90006100 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 A
90006127 AGGTTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90006324 original size:2 final size:2
Alignment explanation
Indices: 90006317--90006369 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
90006307 ATTATCCCCC
90006317 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
90006359 GT AT AT AT AT A
1 AT AT AT AT AT A
90006370 AGGAGTTGCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90015503 original size:28 final size:29
Alignment explanation
Indices: 90015449--90015504 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
90015439 ATAGGGGTTT
*
90015449 TCACACGGCCAAGCACACGCTCATGTCCC
1 TCACACGGCCAAGCACACGCCCATGTCCC
* *
90015478 TCACACGGCCTAG-ACACGCCCGTGTCC
1 TCACACGGCCAAGCACACGCCCATGTCC
90015505 AAAAACTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.21, C:0.45, G:0.20, T:0.14
Consensus pattern (29 bp):
TCACACGGCCAAGCACACGCCCATGTCCC
Found at i:90019734 original size:31 final size:32
Alignment explanation
Indices: 90019693--90019755 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
90019683 TTATCTATAA
*
90019693 AAGATATTTAT-TAATTAAATAT-TTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
90019724 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
90019756 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:90019843 original size:2 final size:2
Alignment explanation
Indices: 90019832--90019867 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
90019822 TTAAGTTAAC
90019832 AT AT -T 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 AT AT AT A
90019868 AAGTAAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90019925 original size:15 final size:15
Alignment explanation
Indices: 90019877--90019930 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
90019867 AAAGTAAAAC
90019877 AAAAGAAAAAGAAATG
1 AAAAGAAAAAG-AATG
*
90019893 AAAAAAAAAAG-ATAG
1 AAAAGAAAAAGAAT-G
*
90019908 AAAAGAAACAGAATG
1 AAAAGAAAAAGAATG
*
90019923 AAACGAAA
1 AAAAGAAA
90019931 CTGAGAGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 2 0.06
15 18 0.56
16 12 0.38
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.06
Consensus pattern (15 bp):
AAAAGAAAAAGAATG
Found at i:90021355 original size:20 final size:21
Alignment explanation
Indices: 90021332--90021380 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
90021322 AATTATATTG
90021332 AATTGAAAAAAAATAT-AATT
1 AATTGAAAAAAAATATGAATT
**
90021352 AATT-AATTAAAATATGAATT
1 AATTGAAAAAAAATATGAATT
90021372 AATTGAAAA
1 AATTGAAAA
90021381 CTGAAAAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (21 bp):
AATTGAAAAAAAATATGAATT
Found at i:90021599 original size:47 final size:47
Alignment explanation
Indices: 90021546--90021652 Score: 151
Period size: 47 Copynumber: 2.3 Consensus size: 47
90021536 CGGATATTGT
* *
90021546 TACTGTTACTGTTTCGAATTTGTTTCGATGAAGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGAATTTGTTCCGATGAAGTACTCTGTGTACCG
* * *
90021593 TACTGTTACTATTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTTACTGTTCCGAATTTGTTCCGATGAAGTACTCTGTGTACCG
* *
90021640 TATTGCTACTGTT
1 TACTGTTACTGTT
90021653 ACTGTTACTG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (47 bp):
TACTGTTACTGTTCCGAATTTGTTCCGATGAAGTACTCTGTGTACCG
Found at i:90021828 original size:18 final size:18
Alignment explanation
Indices: 90021780--90021865 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
90021770 AAAGATCGAC
* *
90021780 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-CTGAT
90021799 TGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAT
* * *
90021817 TATTATTGAATAATTGAT
1 TGTTACTGAATAACTGAT
* *
90021835 TGCTACTGAATAACTGAC
1 TGTTACTGAATAACTGAT
90021853 TGTTACTGAATAA
1 TGTTACTGAATAA
90021866 ATAATCGTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 43 0.77
19 13 0.23
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:90021846 original size:36 final size:37
Alignment explanation
Indices: 90021777--90021865 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
90021767 TGGAAAGATC
* *
90021777 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
1 GACTATTACTGAATAATTTAATTGCTACTGAATAACT
* * *
90021814 GATTATTATTGAATAA-TTGATTGCTACTGAATAACT
1 GACTATTACTGAATAATTTAATTGCTACTGAATAACT
*
90021850 GACTGTTACTGAATAA
1 GACTATTACTGAATAA
90021866 ATAATCGTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 31 0.70
37 13 0.30
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (37 bp):
GACTATTACTGAATAATTTAATTGCTACTGAATAACT
Found at i:90025990 original size:15 final size:15
Alignment explanation
Indices: 90025958--90026021 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
90025948 CAAAGATAAC
90025958 AAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
90025971 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
90025986 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
90026001 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
90026016 AAGAAA
1 AAGAAA
90026022 CCCAAGATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 3 0.07
15 35 0.78
16 1 0.02
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:90029085 original size:46 final size:45
Alignment explanation
Indices: 90028945--90029085 Score: 149
Period size: 46 Copynumber: 3.0 Consensus size: 45
90028935 TGTAACCCGC
* **
90028945 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-ACAT
* *** * *
90028991 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACAT-TCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG--ATGCCACAT
90029038 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-ACAT
90029084 CC
1 CC
90029086 TAGTGACATG
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
44 2 0.03
45 1 0.01
46 37 0.49
47 32 0.43
48 1 0.01
49 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCACAT
Found at i:90033960 original size:20 final size:18
Alignment explanation
Indices: 90033935--90033971 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
90033925 ATTGCTAAGT
90033935 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
90033955 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
90033972 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:90034581 original size:46 final size:46
Alignment explanation
Indices: 90034529--90034704 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
90034519 TGGTTGAGCA
*
90034529 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
90034575 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
90034620 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
90034668 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCATTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90034705 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:90034685 original size:93 final size:93
Alignment explanation
Indices: 90034526--90034696 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
90034516 GGATGGTTGA
* * **
90034526 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90034591 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
90034619 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90034684 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
90034697 ATTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90038285 original size:43 final size:43
Alignment explanation
Indices: 90038238--90038404 Score: 189
Period size: 43 Copynumber: 3.9 Consensus size: 43
90038228 GATTAACGAG
*
90038238 ATGTGATTATATGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCATT
*
90038281 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCATT
* * * *
90038324 ATTTGATTTCGTGTAAGACCATAG-CTGGG-CTATCGGCATCGA-T
1 ATGTGATTACATGTAAGACCAT-GTCTGGGAC-ATTGGCATC-ATT
* * * *
90038367 ACGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
90038405 TGTACGAGCT
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
42 6 0.06
43 98 0.92
44 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCATT
Found at i:90041649 original size:29 final size:29
Alignment explanation
Indices: 90041546--90041634 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
90041536 CCAATTTCTG
90041546 TAAAAGTGAGCCTTTGTGGCTATCT---T
1 TAAAAGTGAGCCTTTGTGGCTATCTCAGT
*
90041572 TGAAAG-GACGCCTTTGTGGCTATCTCAGT
1 TAAAAGTGA-GCCTTTGTGGCTATCTCAGT
* * *
90041601 TAAAAGTGAGTCTTCGTGGCTATCTCTGT
1 TAAAAGTGAGCCTTTGTGGCTATCTCAGT
90041630 TAAAA
1 TAAAA
90041635 AAGTACCTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
25 2 0.04
26 21 0.40
29 28 0.53
30 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (29 bp):
TAAAAGTGAGCCTTTGTGGCTATCTCAGT
Found at i:90048616 original size:46 final size:46
Alignment explanation
Indices: 90048566--90048784 Score: 266
Period size: 46 Copynumber: 4.7 Consensus size: 46
90048556 TGGTTGAGCA
*
90048566 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
90048612 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
90048658 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
90048703 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
90048751 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
90048785 GGGGCGGGTT
Statistics
Matches: 149, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
45 3 0.02
46 104 0.70
47 28 0.19
48 3 0.02
50 3 0.02
51 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:90049046 original size:19 final size:20
Alignment explanation
Indices: 90049009--90049046 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
90048999 ATAAGGTGGT
90049009 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
90049029 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
90049047 TGCTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:90051970 original size:13 final size:13
Alignment explanation
Indices: 90051952--90051977 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90051942 CACGATAGGA
90051952 ACACGCTCGTGTG
1 ACACGCTCGTGTG
90051965 ACACGCTCGTGTG
1 ACACGCTCGTGTG
90051978 CAAGTGCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
ACACGCTCGTGTG
Found at i:90059714 original size:18 final size:18
Alignment explanation
Indices: 90059663--90059714 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
90059653 TATAAACCTC
*
90059663 TTACACATTTTCCTTATT
1 TTACACATTTTCCTTAAT
* * *
90059681 TTTCAAATTAGT-CTTAAT
1 TTACACATT-TTCCTTAAT
90059699 TTACACATTTTCCTTA
1 TTACACATTTTCCTTA
90059715 TTTTTCAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 4
0.69 0.19 0.11
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.52
Consensus pattern (18 bp):
TTACACATTTTCCTTAAT
Found at i:90063827 original size:33 final size:33
Alignment explanation
Indices: 90063790--90063865 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
90063780 ATCATTCATT
90063790 CAAACTATCATACTTTCATATGGCATTCCACAC
1 CAAACTATCATACTTTCATATGGCATTCCACAC
90063823 CAAACTATCATACTTTCATATGGCATTCCACAC
1 CAAACTATCATACTTTCATATGGCATTCCACAC
90063856 C-AACT-TCATA
1 CAAACTATCATA
90063866 TTTATCTATC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
31 5 0.12
32 4 0.09
33 34 0.79
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.30
Consensus pattern (33 bp):
CAAACTATCATACTTTCATATGGCATTCCACAC
Found at i:90064440 original size:10 final size:10
Alignment explanation
Indices: 90064425--90064453 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
90064415 CATTCTTTAT
90064425 ATATATATAA
1 ATATATATAA
90064435 ATATATATAA
1 ATATATATAA
90064445 ATATATATA
1 ATATATATA
90064454 TTCTTACCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATATATAA
Found at i:90065532 original size:21 final size:22
Alignment explanation
Indices: 90065478--90065533 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
90065468 CAATTTGAAC
*
90065478 AATGTGATTATTAAAAAAGTTA
1 AATGTGGTTATTAAAAAAGTTA
90065500 AATGTGGTTATTAAAAAAGTTA
1 AATGTGGTTATTAAAAAAGTTA
*
90065522 AATTTGG-TATTA
1 AATGTGGTTATTA
90065534 TAGATCAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 5 0.16
22 27 0.84
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (22 bp):
AATGTGGTTATTAAAAAAGTTA
Found at i:90065939 original size:42 final size:41
Alignment explanation
Indices: 90065877--90066035 Score: 129
Period size: 42 Copynumber: 3.7 Consensus size: 41
90065867 TAAGTGATTT
* *
90065877 CGTATAAGACCCTGTTTGGGACATGGCATCGATATGAGGTCC
1 CGTATAAGACCATGTCTGGGACATGGCATCGATATGA-GTCC
* * * *
90065919 CGTATAAGACCATGTCTGGGACATGGCGTCGGCACCGATTCGAGACTT
1 CGTATAAGACCATGTCTGGGACATGGCATC-G-A--TA-T-GAGTC-C
* * * *
90065967 CGTATAAGACCATATCTGGGATATGGCATCGATGTGTAGTTC
1 CGTATAAGACCATGTCTGGGACATGGCATCGATATG-AGTCC
* *
90066009 CATGTAAGACCATGTCTGGGACATGGC
1 CGTATAAGACCATGTCTGGGACATGGC
90066036 TTTGGTACCC
Statistics
Matches: 91, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
42 51 0.56
43 4 0.04
44 1 0.01
46 2 0.02
47 4 0.04
48 29 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
CGTATAAGACCATGTCTGGGACATGGCATCGATATGAGTCC
Found at i:90070497 original size:38 final size:38
Alignment explanation
Indices: 90070405--90070534 Score: 136
Period size: 38 Copynumber: 3.4 Consensus size: 38
90070395 CGAGGTATAA
* * *
90070405 AACCCGAACATAACACCAGCACGAAGCCTACGAGACTTT
1 AACCCGAATATAATACCAGCACGAAGCCTACGGGA-TTT
**** * *
90070444 AAAATTAGATATAATACCAGCAC-TAGTCCTGCGGGATTT
1 AACCCGA-ATATAATACCAGCACGAAG-CCTACGGGATTT
90070483 AACCCGAATATAATACCAGCACGAAGCCTACGGGATTT
1 AACCCGAATATAATACCAGCACGAAGCCTACGGGATTT
*
90070521 AACCCGGATATAAT
1 AACCCGAATATAAT
90070535 TCTAGCATAT
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
38 39 0.54
39 13 0.18
40 20 0.28
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (38 bp):
AACCCGAATATAATACCAGCACGAAGCCTACGGGATTT
Found at i:90070565 original size:78 final size:79
Alignment explanation
Indices: 90070404--90070566 Score: 181
Period size: 78 Copynumber: 2.1 Consensus size: 79
90070394 GCGAGGTATA
** *
90070404 AAACCCGAACATAACACCAGCACGAAGCCTACGAGACTTTAAAATTAGATATAATACCAGCACTA
1 AAACCCGAACATAACACCAGCACGAAGCCTACGAGACTTTAAAACCAGATATAATACCAGCAATA
90070469 GTCCTGCGGGATTT
66 GTCCTGCGGGATTT
* * * * * * *
90070483 -AACCCGAATATAATACCAGCACGAAGCCTACGGGA-TTT-AACCCGGATATAATTCTAGCATAT
1 AAACCCGAACATAACACCAGCACGAAGCCTACGAGACTTTAAAACCAGATATAATACCAGCA-AT
*
90070545 AG-CCTGCGGGTCTTT
65 AGTCCTGCGGG-ATTT
90070560 AAACCCG
1 AAACCCG
90070567 GATACACATC
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
76 23 0.33
77 9 0.13
78 38 0.54
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (79 bp):
AAACCCGAACATAACACCAGCACGAAGCCTACGAGACTTTAAAACCAGATATAATACCAGCAATA
GTCCTGCGGGATTT
Found at i:90071335 original size:2 final size:2
Alignment explanation
Indices: 90071323--90071356 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
90071313 CACTTTCAAA
90071323 AT AT A- 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 AT AT A
90071357 CATTTGACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:90073777 original size:33 final size:33
Alignment explanation
Indices: 90073733--90073815 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 33
90073723 GTTTGCATTT
* * *
90073733 AATTATATCTTGCATTATATGTTTTCATCTTTA
1 AATTATGTCTTGCATTATATGTCTGCATCTTTA
90073766 AATTATGTCTTGCATTATATGTCTGCATCTTTA
1 AATTATGTCTTGCATTATATGTCTGCATCTTTA
90073799 AATTATGTCTTGCATTA
1 AATTATGTCTTGCATTA
90073816 AGAGTTTGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.51
Consensus pattern (33 bp):
AATTATGTCTTGCATTATATGTCTGCATCTTTA
Found at i:90073812 original size:20 final size:20
Alignment explanation
Indices: 90073758--90073813 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
90073748 TATATGTTTT
90073758 CATCTTTAAATTATGTCTTG
1 CATCTTTAAATTATGTCTTG
90073778 CA---TT--A-TATGTC-TG
1 CATCTTTAAATTATGTCTTG
90073791 CATCTTTAAATTATGTCTTG
1 CATCTTTAAATTATGTCTTG
90073811 CAT
1 CAT
90073814 TAAGAGTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 1 0.03
16 2 0.07
17 2 0.07
18 1 0.03
19 6 0.21
20 7 0.24
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (20 bp):
CATCTTTAAATTATGTCTTG
Found at i:90073826 original size:33 final size:33
Alignment explanation
Indices: 90073719--90073847 Score: 137
Period size: 33 Copynumber: 4.1 Consensus size: 33
90073709 TTTCAGTTCA
*
90073719 ATAAGTTTGCA--TTT-AATTATATCTTGCATT
1 ATAAGTTTGCATCTTTAAATTATGTCTTGCATT
* *
90073749 ATATGTTTTCATCTTTAAATTATGTCTTGCATT
1 ATAAGTTTGCATCTTTAAATTATGTCTTGCATT
* *
90073782 ATATGTCTGCATCTTTAAATTATGTCTTGCATT
1 ATAAGTTTGCATCTTTAAATTATGTCTTGCATT
* *
90073815 A-AGAGTTTGCA--TTT-AATTAAGTCATGCATT
1 ATA-AGTTTGCATCTTTAAATTATGTCTTGCATT
90073845 ATA
1 ATA
90073848 TTTATGTGTT
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
30 24 0.28
31 4 0.05
32 4 0.05
33 53 0.62
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (33 bp):
ATAAGTTTGCATCTTTAAATTATGTCTTGCATT
Found at i:90079997 original size:14 final size:14
Alignment explanation
Indices: 90079961--90079999 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
90079951 TTGTTTCACT
*
90079961 GAAAATGACTTCCG
1 GAAAATGATTTCCG
*
90079975 GAAAATGATTTCTG
1 GAAAATGATTTCCG
90079989 GAAAATGATTT
1 GAAAATGATTT
90080000 ACTTTTCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (14 bp):
GAAAATGATTTCCG
Found at i:90080578 original size:16 final size:16
Alignment explanation
Indices: 90080547--90080583 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
90080537 ATGTGAATAA
90080547 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
90080563 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
90080579 TATTA
1 TATTA
90080584 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:90080642 original size:22 final size:21
Alignment explanation
Indices: 90080595--90080649 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
90080585 AATAAAATTG
*
90080595 AAATATTAAA-TA-ATTTATT
1 AAATAATAAATTATATTTATT
90080614 AAATAATAAATTATATTTATT
1 AAATAATAAATTATATTTATT
* *
90080635 ATATTAATAATTTAT
1 A-AATAATAAATTAT
90080650 TATGTGACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.30
20 2 0.07
21 8 0.27
22 11 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATAATAAATTATATTTATT
Found at i:90082338 original size:17 final size:17
Alignment explanation
Indices: 90082316--90082354 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
90082306 GAATGATGAA
*
90082316 AGGAGATGCAAGAACCG
1 AGGAGAAGCAAGAACCG
90082333 AGGAGAAGCAAGAACCG
1 AGGAGAAGCAAGAACCG
90082350 AGGAG
1 AGGAG
90082355 CTTTAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.38, T:0.03
Consensus pattern (17 bp):
AGGAGAAGCAAGAACCG
Found at i:90091136 original size:29 final size:29
Alignment explanation
Indices: 90091079--90091141 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
90091069 ATATTTTGGA
* *
90091079 AAAAATACATTTTTGCCCCTAAGCTTTAT
1 AAAATTACACTTTTGCCCCTAAGCTTTAT
*
90091108 CAAAATTACACTTTTGCCCCTATGC-TTAT
1 -AAAATTACACTTTTGCCCCTAAGCTTTAT
90091137 AAAAT
1 AAAAT
90091142 AATTTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 4 0.13
30 21 0.70
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (29 bp):
AAAATTACACTTTTGCCCCTAAGCTTTAT
Found at i:90092062 original size:5 final size:5
Alignment explanation
Indices: 90092052--90092081 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
90092042 TTTACCTTGA
*
90092052 TATTC TATTC TATTC TATTC TATTA TATTC
1 TATTC TATTC TATTC TATTC TATTC TATTC
90092082 ACTAAAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTC
Found at i:90093521 original size:17 final size:19
Alignment explanation
Indices: 90093499--90093535 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
90093489 TTTTAGGGAC
90093499 TAAATTAAAG-GC-AAAAG
1 TAAATTAAAGAGCGAAAAG
*
90093516 TAAATTTAAGAGCGAAAAG
1 TAAATTAAAGAGCGAAAAG
90093535 T
1 T
90093536 GTGAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.54, C:0.05, G:0.19, T:0.22
Consensus pattern (19 bp):
TAAATTAAAGAGCGAAAAG
Found at i:90094517 original size:17 final size:18
Alignment explanation
Indices: 90094485--90094519 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
90094475 TATTCTTCAT
*
90094485 TTTAATTTTCGTAATTTA
1 TTTAATTTTCGCAATTTA
90094503 TTTAA-TTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
90094520 GATTCAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:90109643 original size:46 final size:46
Alignment explanation
Indices: 90109542--90109700 Score: 157
Period size: 46 Copynumber: 3.5 Consensus size: 46
90109532 ATATCTATGT
* * * * *
90109542 CGATGCCATGTCCCAGACATGGTCTTAGACTGAC-ATGTCTCGTAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTACGTCTCGAAGC
* *
90109588 CAATG-CATGTCCCATACATGTCTTACACTGGCTTACGTCTCGAAGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGC-TACGTCTCGAAGC
* *
90109634 CGATG-CATGTCTCAGACATGTCTTACACTAGC-ACTCGTCTC-AATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTA--CGTCTCGAA-GC
90109680 CGATGCCATGTCCCAGACATG
1 CGATGCCATGTCCCAGACATG
90109701 GTTTTATATT
Statistics
Matches: 95, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
44 12 0.13
45 15 0.16
46 54 0.57
47 14 0.15
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTACGTCTCGAAGC
Found at i:90110232 original size:19 final size:19
Alignment explanation
Indices: 90110196--90110234 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
90110186 TTCCAAATTC
90110196 TCATTATTTCACACACTTA
1 TCATTATTTCACACACTTA
*
90110215 TCATCTATTTTACA-ACTTA
1 TCAT-TATTTCACACACTTA
90110234 T
1 T
90110235 GCAAAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (19 bp):
TCATTATTTCACACACTTA
Found at i:90116231 original size:54 final size:54
Alignment explanation
Indices: 90116161--90116274 Score: 192
Period size: 54 Copynumber: 2.1 Consensus size: 54
90116151 GGCACACGCT
* * *
90116161 CGTGTGCTAGGTCGTGTTCATCATACGACTGAGACACACGGCCATGTCTCTGCC
1 CGTGTGCTAGGCCGTGTTCATCACACGACTGAGACACACGACCATGTCTCTGCC
*
90116215 CGTGTGCTAGGCCGTGTTCATCACACGACTGAGACACACGACCGTGTCTCTGCC
1 CGTGTGCTAGGCCGTGTTCATCACACGACTGAGACACACGACCATGTCTCTGCC
90116269 CGTGTG
1 CGTGTG
90116275 TTTACAAACA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.18, C:0.31, G:0.27, T:0.25
Consensus pattern (54 bp):
CGTGTGCTAGGCCGTGTTCATCACACGACTGAGACACACGACCATGTCTCTGCC
Found at i:90117208 original size:46 final size:45
Alignment explanation
Indices: 90117097--90117319 Score: 186
Period size: 46 Copynumber: 4.8 Consensus size: 45
90117087 AAACATGGGG
* * * *
90117097 TCAAGTGCTGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATC
1 TCAAG-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCGTC
* *
90117144 T--AGTAGCCGATGCATGTCCCATACATGTCTTACATTGGCTTACGTC
1 TCAAG--GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTC
* * *
90117190 TCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTC
1 TCAAGGCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTC
*
90117236 TCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TC-TC
1 TCAAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCGTC
* * *
90117281 ATAATATGGCCGATGAATGTCCCAGACACGTCTTACACT
1 -TCA-A-GGCCGATGCATGTCCCAGACATGTCTTACACT
90117320 AGCTCACACA
Statistics
Matches: 147, Mismatches: 18, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
44 11 0.07
45 17 0.12
46 69 0.47
47 29 0.20
48 21 0.14
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (45 bp):
TCAAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTC
Found at i:90117292 original size:94 final size:92
Alignment explanation
Indices: 90117106--90117327 Score: 240
Period size: 94 Copynumber: 2.4 Consensus size: 92
90117096 GTCAAGTGCT
* *
90117106 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTAGTAGCCGATGCATGTCCCATACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACACATCTAATAGCCGATGCATGTCCCAGACA
* *
90117169 TGTCTTACATTGGCTTACGTCTCGAGGCC
64 TGTCTTACACTGGCTTACGTCTAGAGGCC
* *
90117198 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT-GCCGATGCCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACACATCT-AATAGCCGATG-CATGTCCCAGACA
*
90117262 TGGTCTTACACTGGC-T-C-TCATAATATGGCC
64 T-GTCTTACACTGGCTTACGTC-T-AGA-GGCC
* * *
90117292 GATGAATGTCCCAGACACGTCTTACACTAGCTCACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACACA
90117328 CAAGTGACCC
Statistics
Matches: 110, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
90 10 0.09
91 17 0.15
92 19 0.17
93 17 0.15
94 47 0.43
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACACATCTAATAGCCGATGCATGTCCCAGACATG
TCTTACACTGGCTTACGTCTAGAGGCC
Found at i:90133013 original size:23 final size:22
Alignment explanation
Indices: 90132973--90133018 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
90132963 TTTATAACTA
90132973 TGTTATGTATACAATTTACATAT
1 TGTTATGTATACAATTTA-ATAT
* *
90132996 TGTTATGTATATATTTTAATAT
1 TGTTATGTATACAATTTAATAT
90133018 T
1 T
90133019 ATTAGTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (22 bp):
TGTTATGTATACAATTTAATAT
Found at i:90133072 original size:19 final size:19
Alignment explanation
Indices: 90133048--90133086 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
90133038 TACTATTTTA
*
90133048 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
90133067 TGTATATTTCTAACATCAT
1 TGTATATTTCTAACATCAT
90133086 T
1 T
90133087 ATTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:90133176 original size:7 final size:7
Alignment explanation
Indices: 90133156--90133187 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
90133146 TCATTTCTAA
90133156 TATATAT
1 TATATAT
90133163 ATATATAT
1 -TATATAT
90133171 TATATAT
1 TATATAT
90133178 TATATAT
1 TATATAT
90133185 TAT
1 TAT
90133188 GTATGTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TATATAT
Found at i:90133533 original size:27 final size:24
Alignment explanation
Indices: 90133446--90133568 Score: 74
Period size: 26 Copynumber: 4.8 Consensus size: 24
90133436 ATACATCATT
90133446 ATATTTATTATTATACCTATTATTTTCA
1 ATATTTATTATTATA--TA-T-TTTTCA
* *
90133474 CTATTATCACTTATTAT-T-TTATTTTA
1 ATATT-T-A-TTATTATATATT-TTTCA
90133500 ATA-TTATTATGTATATATTTTTCA
1 ATATTTATTAT-TATATATTTTTCA
*
90133524 TATATGTTATGTA-TATACATTTTTCA
1 -ATAT-TTAT-TATTATATATTTTTCA
90133550 ATATTTATTATATATATAT
1 ATATTTATTAT-TATATAT
90133569 ATATATTATG
Statistics
Matches: 76, Mismatches: 6, Indels: 29
0.68 0.05 0.26
Matches are distributed among these distances:
22 4 0.05
23 6 0.08
24 10 0.13
25 17 0.22
26 19 0.25
27 4 0.05
28 7 0.09
29 1 0.01
30 1 0.01
31 7 0.09
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (24 bp):
ATATTTATTATTATATATTTTTCA
Found at i:90133575 original size:17 final size:17
Alignment explanation
Indices: 90133550--90133583 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90133540 ACATTTTTCA
*
90133550 ATATTTATTATATATAT
1 ATATATATTATATATAT
*
90133567 ATATATATTATGTATAT
1 ATATATATTATATATAT
90133584 TTTTTAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATATATATTATATATAT
Found at i:90136639 original size:24 final size:27
Alignment explanation
Indices: 90136612--90136667 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
90136602 TTTCTCATCA
*
90136612 ATTTTATA-GTTA-CATTTTA-ATATT
1 ATTTTATAGGTTAGCATTTGACATATT
*
90136636 ATTTTATAGGTTAGTATTTGACATATT
1 ATTTTATAGGTTAGCATTTGACATATT
90136663 ATTTT
1 ATTTT
90136668 TATTCCACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 8 0.30
25 4 0.15
26 5 0.19
27 10 0.37
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (27 bp):
ATTTTATAGGTTAGCATTTGACATATT
Found at i:90136702 original size:2 final size:2
Alignment explanation
Indices: 90136697--90136745 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
90136687 AAAAATTGTC
90136697 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90136738 AT AT AT AT
1 AT AT AT AT
90136746 TACTTTTTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90137759 original size:3 final size:3
Alignment explanation
Indices: 90137751--90137799 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
90137741 TTTTACTCTC
90137751 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
90137799 T
1 T
90137800 CTAGATACGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:90144960 original size:100 final size:100
Alignment explanation
Indices: 90144777--90145087 Score: 496
Period size: 100 Copynumber: 3.1 Consensus size: 100
90144767 TTTGACATGA
* *
90144777 GTGTCGCGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAATCTAGAG
1 GTGTCACGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
*
90144842 TTAATTGTCGAGAGTGTCACGACACTTAGGATGTT
66 TTGATTGTCGAGAGTGTCACGACACTTAGGATGTT
*** * * *
90144877 GTGTTGTGACACTGAGCCTCCATGACCTCAAGGGTGAAAAACTTCAATAAGAAGTCAACCTAGAG
1 GTGTCACGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
* *
90144942 TTGATTGTCGAGAATGTCACGACATTTAGGATGTT
66 TTGATTGTCGAGAGTGTCACGACACTTAGGATGTT
* *
90144977 GTGTCACGACACTAAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAAAG
1 GTGTCACGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
*
90145042 TTGATTGTCGAGAGTGTCACGACACTTAGGGTGTT
66 TTGATTGTCGAGAGTGTCACGACACTTAGGATGTT
90145077 GTGTCACGACA
1 GTGTCACGACA
90145088 ATGAACCCAA
Statistics
Matches: 191, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 191 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (100 bp):
GTGTCACGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
TTGATTGTCGAGAGTGTCACGACACTTAGGATGTT
Found at i:90146849 original size:21 final size:24
Alignment explanation
Indices: 90146804--90146850 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
90146794 ACTTTCATAT
90146804 TTATATTATAATTAAATGTTAATAA
1 TTATATTATAA-TAAATGTTAATAA
90146829 TTATATTATAA-AAAT-TT-ATAA
1 TTATATTATAATAAATGTTAATAA
90146850 T
1 T
90146851 GAAATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 5 0.23
22 2 0.09
23 4 0.18
25 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTATATTATAATAAATGTTAATAA
Found at i:90147932 original size:69 final size:71
Alignment explanation
Indices: 90147795--90147950 Score: 253
Period size: 69 Copynumber: 2.2 Consensus size: 71
90147785 TCAACTTTAC
*
90147795 CCTTCTCCCTCTTTTTCATTCTCATGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
1 CCTTCTCCCTC-TTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
90147860 CTTCCAA
65 CTTCCAA
* *
90147867 TCTTCTCTCTCTTTTCATTCTCACGTCTGAAGCAT-TTC-TTTTTTCATTCTTCTTCCCATTTCC
1 CCTTCTCCCTCTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTCC
*
90147930 TTCCGA
66 TTCCAA
90147936 CCTTCTCCCTCTTTT
1 CCTTCTCCCTCTTTT
90147951 TCATGCTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
69 43 0.55
70 3 0.04
71 23 0.29
72 9 0.12
ACGTcount: A:0.11, C:0.34, G:0.04, T:0.51
Consensus pattern (71 bp):
CCTTCTCCCTCTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTCC
TTCCAA
Found at i:90150959 original size:33 final size:33
Alignment explanation
Indices: 90150920--90150986 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
90150910 AACTCTTGTT
90150920 TCCATCATGGATGTTTGAACTTGATCAAATTGG
1 TCCATCATGGATGTTTGAACTTGATCAAATTGG
* *
90150953 TCCATCATGGATGTTTGGATTTGATCAAATTGG
1 TCCATCATGGATGTTTGAACTTGATCAAATTGG
90150986 T
1 T
90150987 TGGTTTAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.39
Consensus pattern (33 bp):
TCCATCATGGATGTTTGAACTTGATCAAATTGG
Found at i:90151151 original size:13 final size:12
Alignment explanation
Indices: 90151121--90151154 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
90151111 TATTATTTTT
90151121 ATAATTT-TTTA
1 ATAATTTATTTA
90151132 ATAATTTATTTA
1 ATAATTTATTTA
90151144 ATTAATTTATT
1 A-TAATTTATT
90151155 GATAAATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 5 0.24
13 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATAATTTATTTA
Found at i:90151473 original size:17 final size:17
Alignment explanation
Indices: 90151453--90151485 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
90151443 ATTAAGAATG
90151453 TTATTAAAATATATTTT
1 TTATTAAAATATATTTT
*
90151470 TTATTAAATTATATTT
1 TTATTAAAATATATTT
90151486 AATAATAATT
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTAAAATATATTTT
Found at i:90151491 original size:55 final size:57
Alignment explanation
Indices: 90151432--90151563 Score: 155
Period size: 58 Copynumber: 2.3 Consensus size: 57
90151422 TTTAATTCAT
* *
90151432 ATAATAATTATATTAAGAATGTTATTAAA-ATAT-AT-TTTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGATTAAATATATGATATTTTTATTAAATTATATTTA
* * * *
90151487 ATAATAATTATATTAAAATATGGTTAAATTATTTGTTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGATTAAA-TATATGATATTTTTATTAAATTATATTTA
90151545 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
90151564 TTAATAACAA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
54 9 0.14
55 16 0.24
56 3 0.05
57 1 0.02
58 36 0.55
59 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGATTAAATATATGATATTTTTATTAAATTATATTTA
Found at i:90151750 original size:16 final size:16
Alignment explanation
Indices: 90151729--90151766 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
90151719 TAAATTACTG
* *
90151729 ATTACAGCTCTATTTA
1 ATTACAGCCCTATTCA
90151745 ATTACAGCCCTATTCA
1 ATTACAGCCCTATTCA
90151761 ATTACA
1 ATTACA
90151767 ATGAACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:90166208 original size:19 final size:19
Alignment explanation
Indices: 90166162--90166209 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
90166152 GTATATATTT
90166162 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
90166180 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
90166199 TAAGTTTTATT
1 TAAATTTTATT
90166210 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:90170954 original size:44 final size:43
Alignment explanation
Indices: 90170906--90170998 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
90170896 GTTTTATTCA
*
90170906 TATTTTAGAAATATTTTTTTAGTAGTTTACTAAAATAAGGGAAC
1 TATTTTAGAAATA-TGTTTTAGTAGTTTACTAAAATAAGGGAAC
***** * *
90170950 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTAGAAATATGTTTTAGTAGTTTACTAAAATAAGGGAAC
90170993 TATTTT
1 TATTTT
90170999 CCTAATTAGG
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 33 0.80
44 8 0.20
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.49
Consensus pattern (43 bp):
TATTTTAGAAATATGTTTTAGTAGTTTACTAAAATAAGGGAAC
Found at i:90173171 original size:12 final size:12
Alignment explanation
Indices: 90173156--90173188 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
90173146 CCTAAACTCC
90173156 TCCATAAAAAAT
1 TCCATAAAAAAT
90173168 TCCATAAAAAAT
1 TCCATAAAAAAT
90173180 TCCA-AAAAA
1 TCCATAAAAA
90173189 GCCATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (12 bp):
TCCATAAAAAAT
Found at i:90175174 original size:47 final size:45
Alignment explanation
Indices: 90175051--90175233 Score: 183
Period size: 47 Copynumber: 4.0 Consensus size: 45
90175041 CTATCATAAT
* * * *
90175051 TTCACCCATAATGAACTCAGAACGCAGCTCAACGAGCTCAGG-TG-
1 TTCATCCATAATGAACTCGGAACGCAACTCAACGAGTTC-GGATGC
* *
90175095 TTCACATCCATAATGAACTTGGAACACAACTCAACGAGTTCGGATGC
1 TT--CATCCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGC
90175142 TTGCATCCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGATGC
1 TT-CATCCATAA-TGAACTCGGAACGCAACTCAACGAGTTCGGATGC
* * * *
90175189 CTCAT-AATTCTCACGAACTCGGAACGCAACTCAACGAGTTCGGAT
1 TTCATCCA---TAATGAACTCGGAACGCAACTCAACGAGTTCGGAT
90175234 CTCAATTTCC
Statistics
Matches: 118, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
44 2 0.02
45 3 0.03
46 45 0.38
47 66 0.56
48 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (45 bp):
TTCATCCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGC
Found at i:90184074 original size:51 final size:50
Alignment explanation
Indices: 90183996--90184179 Score: 210
Period size: 51 Copynumber: 3.6 Consensus size: 50
90183986 ACGGATGCCC
* * * *
90183996 AGTGACCTGCACACAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCAAAGCTACCTTCTTCACAA
* *
90184047 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTG-TCAAAGCTA-CCTTCTTCACAA
* * * * *
90184099 AGTGGCCTTCATATAGTACCACACTTGTGACCAAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAA
*
90184148 AGTGG-CTTGCACATAGTACCACACTTGAGTCA
1 AGTGGCCTT-CACATAGTACCACACTTGTGTCA
90184180 CTAGTGACAT
Statistics
Matches: 114, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
48 3 0.03
49 32 0.28
50 1 0.01
51 39 0.34
52 39 0.34
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (50 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAA
Done.