Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
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 107 of 425
Found at i:31291261 original size:29 final size:28
Alignment explanation
Indices: 31291224--31291326 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 28
31291214 GTGACGAGAT
* *
31291224 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
31291253 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
31291282 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
31291311 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
31291327 TGATCGATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.06
29 63 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:31299306 original size:29 final size:28
Alignment explanation
Indices: 31299269--31299371 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 28
31299259 GTGACGAGAT
* *
31299269 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
31299298 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
31299327 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
31299356 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
31299372 TGATCGATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.06
29 63 0.94
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:31314714 original size:41 final size:41
Alignment explanation
Indices: 31314655--31314798 Score: 193
Period size: 41 Copynumber: 3.5 Consensus size: 41
31314645 CTCGAATGAT
*
31314655 ATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGACTAAGAT-CCGAAGGCTTTTGTGCTAAGCGACTAC
31314696 ATCCGGACTAAGATCCGAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGACTAAGATCCGAAGGCTTTTGTGCTAAGCGACTAC
* * * * *
31314737 ATCCGGACTAAGATCCGAAGGCATTTATGCT-AGTGACCAT
1 ATCCGGACTAAGATCCGAAGGCTTTTGTGCTAAGCGACTAC
* *
31314777 ATCCGGGCTAAGACCCGAAGGC
1 ATCCGGACTAAGATCCGAAGGC
31314799 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
40 26 0.28
41 67 0.71
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (41 bp):
ATCCGGACTAAGATCCGAAGGCTTTTGTGCTAAGCGACTAC
Found at i:31316389 original size:29 final size:27
Alignment explanation
Indices: 31316355--31316457 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
31316345 TACTCGATCA
*
31316355 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
31316384 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
31316413 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
31316442 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
31316458 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:31324405 original size:29 final size:28
Alignment explanation
Indices: 31324373--31324445 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
31324363 ATTTAAGCCT
*
31324373 GCACACATAGTGCCATATAGTCCAAACTC
1 GCACAC-TAGTGCCATACAGTCCAAACTC
* * *
31324402 GCACACTTAGTGCCATACATTTCAAGCTC
1 GCACAC-TAGTGCCATACAGTCCAAACTC
31324431 GCACACTCAGTGCCA
1 GCACACT-AGTGCCA
31324446 ATCTCGTCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 1 0.03
29 37 0.97
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (28 bp):
GCACACTAGTGCCATACAGTCCAAACTC
Found at i:31327403 original size:41 final size:41
Alignment explanation
Indices: 31327323--31327404 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
31327313 TTAGCACCTC
* * * **
31327323 GTGTTCGACTCCGGCCACGGTCTCGGTTATGGGGTGTTACA
1 GTGTTCGACTCAGGCCACGGTCTCGGGTACGGGACGTTACA
* *
31327364 GTGTTCGACTCAGGCGACGGTTTCGGGTACGGGACGTTACA
1 GTGTTCGACTCAGGCCACGGTCTCGGGTACGGGACGTTACA
31327405 CGTAGAAATC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.15, C:0.23, G:0.35, T:0.27
Consensus pattern (41 bp):
GTGTTCGACTCAGGCCACGGTCTCGGGTACGGGACGTTACA
Found at i:31342248 original size:29 final size:29
Alignment explanation
Indices: 31342215--31342374 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
31342205 GTGACGAGAT
31342215 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
31342244 TGGCACTAAGTGTGCATGCTAGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
31342273 TGGCACTAAGTGTGCACGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
31342302 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* * * *
31342331 TGGCACTATGTGTGCAGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
31342360 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
31342375 GAAATGGAGT
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
28 3 0.03
29 105 0.96
30 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:31346698 original size:28 final size:28
Alignment explanation
Indices: 31346633--31346733 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
31346623 ATAGTGAATC
*
31346633 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
31346662 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
31346690 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
31346720 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31346734 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:31354648 original size:28 final size:28
Alignment explanation
Indices: 31354583--31354683 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
31354573 ATAGTGAATC
*
31354583 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
31354612 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
31354640 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
31354670 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31354684 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:31361980 original size:71 final size:71
Alignment explanation
Indices: 31361892--31362055 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
31361882 GAGATGTATC
31361892 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31361957 AGGACA
66 AGGACA
*
31361963 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
31362028 CGGACA
66 AGGACA
31362034 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
31362056 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:31364383 original size:28 final size:28
Alignment explanation
Indices: 31364348--31364406 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
31364338 CTAGGGTATA
31364348 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
31364376 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
31364404 TCG
1 TCG
31364407 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:31365070 original size:27 final size:27
Alignment explanation
Indices: 31365039--31365199 Score: 214
Period size: 27 Copynumber: 6.0 Consensus size: 27
31365029 TTCTACCCTA
*
31365039 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
31365066 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
31365093 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
31365120 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
31365147 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
31365174 CAAGGGTATTTTGGTAATTCTATAAA
1 CAAGGGTATTTTGGTAATTTTATAAA
31365200 TTGAAGGTAA
Statistics
Matches: 112, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:31365109 original size:54 final size:54
Alignment explanation
Indices: 31365042--31365192 Score: 248
Period size: 54 Copynumber: 2.8 Consensus size: 54
31365032 TACCCTACAA
* *
31365042 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
31365096 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
31365150 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
31365193 CTATAAATTG
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:31365216 original size:27 final size:27
Alignment explanation
Indices: 31365185--31365435 Score: 322
Period size: 27 Copynumber: 9.3 Consensus size: 27
31365175 AAGGGTATTT
* *
31365185 TGGTAATTCTATAAATTGAAGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
31365212 CGGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* * * *
31365239 CGTTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
31365266 TAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
31365293 TGGTAATTCTGTAAATCGAGGATAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
*
31365320 TAGTAATTCTGTAAATTGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
* *
31365347 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
** * *
31365374 CAGTAATTTTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
*
31365401 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATTGAGGGTAAAA
31365428 TGGTAATT
1 TGGTAATT
31365436 TTACAAGTCG
Statistics
Matches: 191, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 191 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
TGGTAATTCTGTAAATTGAGGGTAAAA
Found at i:31365218 original size:81 final size:81
Alignment explanation
Indices: 31365050--31365219 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 81
31365040 AAGGGTATTT
* * * *
31365050 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
***
31365115 TAAACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * * * * *
31365131 TAGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTA
1 CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
**
31365196 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
31365212 CGGTAATT
1 CGGTAATT
31365220 CTGTAAACTG
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
81 68 0.97
82 2 0.03
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (81 bp):
CGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA
TAAACCAAGGGTAAAA
Found at i:31365449 original size:54 final size:54
Alignment explanation
Indices: 31365185--31365435 Score: 376
Period size: 54 Copynumber: 4.6 Consensus size: 54
31365175 AAGGGTATTT
* * * **
31365185 TGGTAATTCTATAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* * *
31365239 CGTTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* *
31365293 TGGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAATTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* * *
31365347 CGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
*
31365401 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
1 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
31365436 TTACAAGTCG
Statistics
Matches: 178, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 178 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (54 bp):
TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
Found at i:31367398 original size:56 final size:56
Alignment explanation
Indices: 31367336--31367462 Score: 218
Period size: 56 Copynumber: 2.3 Consensus size: 56
31367326 AAACGAAATC
* * *
31367336 CGCACACATAGTGCCCACTGACCGATCTCGCACACATATTTCTCGGTTAAAGAATT
1 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
*
31367392 CGCACACACAGTGCCCACTGACCGATCTCGCATACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
31367448 CGCACACACAGTGCC
1 CGCACACACAGTGCC
31367463 TCAATTCATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.21
Consensus pattern (56 bp):
CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:31367422 original size:28 final size:28
Alignment explanation
Indices: 31367336--31367433 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 28
31367326 AAACGAAATC
31367336 CGCACACATAGTGCCCACTGACCGATCT
1 CGCACACATAGTGCCCACTGACCGATCT
* * * ** * **
31367364 CGCACACATATTTCTCGGTTAAAGAAT-T
1 CGCACACATAGTGCCCACTGACCG-ATCT
*
31367392 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACATAGTGCCCACTGACCGATCT
*
31367420 CGCATACATAGTGC
1 CGCACACATAGTGC
31367434 TCGGTTAAAG
Statistics
Matches: 49, Mismatches: 19, Indels: 4
0.68 0.26 0.06
Matches are distributed among these distances:
27 2 0.04
28 45 0.92
29 2 0.04
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACATAGTGCCCACTGACCGATCT
Found at i:31367485 original size:25 final size:25
Alignment explanation
Indices: 31367445--31367498 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
31367435 CGGTTAAAGA
31367445 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCGCACACACAGTGCCT-ATATTC
* *
31367470 ATTCGCACCCATAGTGCCTATATTC
1 ATTCGCACACACAGTGCCTATATTC
31367495 ATTC
1 ATTC
31367499 ATTATTACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.26, C:0.33, G:0.11, T:0.30
Consensus pattern (25 bp):
ATTCGCACACACAGTGCCTATATTC
Found at i:31367684 original size:43 final size:43
Alignment explanation
Indices: 31367618--31367760 Score: 178
Period size: 43 Copynumber: 3.3 Consensus size: 43
31367608 CTTTGCTCGA
** * *
31367618 ATCACCAGCATTAAGCCTGCTAGGTACGAAGACCCAAATACAC
1 ATCACCAGCACGAAGCCTGCTAGGAACGAAGGCCCAAATACAC
* * *
31367661 ATCGCCAGCACGAAGCCTACTAGGAACGAAGGCCCGAATACAC
1 ATCACCAGCACGAAGCCTGCTAGGAACGAAGGCCCAAATACAC
* * * * *
31367704 ATCACCAGCACAAAGCCTGCTAGGCATGAAGGCCTAATTACAC
1 ATCACCAGCACGAAGCCTGCTAGGAACGAAGGCCCAAATACAC
31367747 ATCACCAGCACGAA
1 ATCACCAGCACGAA
31367761 TGCCCTTCAG
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.13
Consensus pattern (43 bp):
ATCACCAGCACGAAGCCTGCTAGGAACGAAGGCCCAAATACAC
Found at i:31367814 original size:40 final size:40
Alignment explanation
Indices: 31367749--31367909 Score: 268
Period size: 40 Copynumber: 4.0 Consensus size: 40
31367739 AATTACACAT
* * *
31367749 CACCAGCACGAATGCCCTTCAGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
31367789 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
31367829 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGCTATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
31367869 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
31367909 C
1 C
31367910 TCTCAATTCT
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 113 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:31371422 original size:22 final size:22
Alignment explanation
Indices: 31371396--31371443 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
31371386 AAATCTTTTG
31371396 CACATAGCAACCTCATCAGCCA
1 CACATAGCAACCTCATCAGCCA
31371418 CACATAGCAACCTCATCAGCCA
1 CACATAGCAACCTCATCAGCCA
31371440 CACA
1 CACA
31371444 CTCCCGAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.42, G:0.08, T:0.12
Consensus pattern (22 bp):
CACATAGCAACCTCATCAGCCA
Found at i:31373724 original size:29 final size:28
Alignment explanation
Indices: 31373689--31373792 Score: 138
Period size: 29 Copynumber: 3.6 Consensus size: 28
31373679 ATAATCGATT
*
31373689 TCGCACACTTAGTGCCATGTGATTTAAGC
1 TCGCACACTTAGTGCCATAT-ATTTAAGC
*
31373718 TCGCACACATAGTGCCATATAATTTAA-C
1 TCGCACACTTAGTGCCATAT-ATTTAAGC
31373746 TTCGCACACTTAGTGCCATATATTTCAAGC
1 -TCGCACACTTAGTGCCATATATTT-AAGC
*
31373776 TTGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
31373793 ATCTTGTCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
28 5 0.07
29 61 0.91
30 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATATATTTAAGC
Found at i:31374435 original size:2 final size:2
Alignment explanation
Indices: 31374423--31374454 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
31374413 TGATGGCCGA
*
31374423 AT AT GT 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
31374455 CAACTATGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31376994 original size:29 final size:28
Alignment explanation
Indices: 31376961--31377064 Score: 138
Period size: 29 Copynumber: 3.6 Consensus size: 28
31376951 ATAATCGATT
*
31376961 TCGCACACTTAGTGCCATGTGATTTAAGC
1 TCGCACACTTAGTGCCATAT-ATTTAAGC
*
31376990 TCGCACACATAGTGCCATATAATTTAA-C
1 TCGCACACTTAGTGCCATAT-ATTTAAGC
31377018 TTCGCACACTTAGTGCCATATATTTCAAGC
1 -TCGCACACTTAGTGCCATATATTT-AAGC
*
31377048 TTGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
31377065 ATCTTGTCAC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
28 5 0.07
29 61 0.91
30 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATATATTTAAGC
Found at i:31377707 original size:2 final size:2
Alignment explanation
Indices: 31377695--31377730 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
31377685 TGATGGCCGA
*
31377695 AT AT GT 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
31377731 CAACTATGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31379570 original size:39 final size:39
Alignment explanation
Indices: 31379516--31379667 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
31379506 TATGGTAACC
** *
31379516 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAA-T
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
31379555 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
31379594 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
31379633 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
31379668 TCGAACATTC
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 17 0.16
39 90 0.84
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:31379607 original size:78 final size:78
Alignment explanation
Indices: 31379485--31379666 Score: 267
Period size: 78 Copynumber: 2.3 Consensus size: 78
31379475 TCGTTCAAAC
* * **
31379485 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGG-CTTAACCCGGATATC
31379550 ACAA-TCGCACAATT
64 ACAACTCGCACAATT
* ** *
31379564 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCAC
31379629 AACTCGCACAATT
66 AACTCGCACAATT
31379642 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
31379667 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 18 0.19
78 67 0.71
79 9 0.10
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.23
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCAC
AACTCGCACAATT
Found at i:31387607 original size:38 final size:39
Alignment explanation
Indices: 31387510--31387671 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
31387500 TATGGTAACC
* *
31387510 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
31387550 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
31387589 CGCAC-ATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
31387627 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
31387666 CGCACA
1 CGCACA
31387672 TTCATACACA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.32
39 61 0.54
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:31387669 original size:77 final size:78
Alignment explanation
Indices: 31387518--31387673 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 78
31387508 CCCGCACAAA
31387518 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
* *
31387583 ATAGCTCGCACAT
66 ACAACTCGCACAT
*
31387596 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
*
31387660 ACAATTCGCACAT
66 ACAACTCGCACAT
31387673 T
1 T
31387674 CATACACATC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 64 0.86
78 10 0.14
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
ACAACTCGCACAT
Found at i:31393640 original size:21 final size:22
Alignment explanation
Indices: 31393616--31393656 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
31393606 CACTTCGTAC
* *
31393616 AGGGGC-ACACTCTCGTGTGGG
1 AGGGGCGACACGCCCGTGTGGG
31393637 AGGGGCGACACGCCCGTGTG
1 AGGGGCGACACGCCCGTGTG
31393657 ACCAATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.15, C:0.27, G:0.44, T:0.15
Consensus pattern (22 bp):
AGGGGCGACACGCCCGTGTGGG
Found at i:31401278 original size:46 final size:46
Alignment explanation
Indices: 31401225--31401441 Score: 222
Period size: 46 Copynumber: 4.6 Consensus size: 46
31401215 ATTGTGGGCT
* * *
31401225 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GACGAGAGCC
** * * *
31401271 AGTGTAAGACCATGTCTGGGACATCGCATCGGCGTCGAGACGGGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGACGAGAGCC
*
31401319 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAG-GCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACG-AGAGCC
* * * * * * *
31401365 TGTGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGAGAGCC
31401411 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
31401442 ACATGAGATA
Statistics
Matches: 143, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 71 0.50
47 42 0.29
48 28 0.20
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGAGAGCC
Found at i:31401462 original size:47 final size:44
Alignment explanation
Indices: 31401222--31401491 Score: 188
Period size: 47 Copynumber: 5.8 Consensus size: 44
31401212 GTTATTGTGG
* * * *
31401222 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA-CATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCATGA-GAT-ATA
* * **
31401268 GCCAGTGTAAGACCATGTCTGGGACATCGCATCGGCGTCGAGACGGGT-
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT-GAGA--TATA
* **
31401316 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-GAGATATA
* **
31401361 GGCCT-GTGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGATA
1 -G-CTAGTGTAAGACATGTCTGGGACATGCATCGGC-ATGAGAT-ATA
*
31401408 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAGATATTA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATGAGATA-TA
* *
31401455 GCTAGTGTAAGACAGTGTCTAGGACATGGCATTGGCA
1 GCTAGTGTAAGACA-TGTCTGGGACAT-GCATCGGCA
31401492 CCTTACCCAT
Statistics
Matches: 182, Mismatches: 24, Indels: 35
0.76 0.10 0.15
Matches are distributed among these distances:
44 3 0.02
46 70 0.38
47 83 0.46
48 25 0.14
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATGAGATATA
Found at i:31401480 original size:140 final size:140
Alignment explanation
Indices: 31401226--31401482 Score: 356
Period size: 140 Copynumber: 1.8 Consensus size: 140
31401216 TTGTGGGCTA
* **
31401226 GTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGG
1 GTGTAAGACATGTCTAGGACATGCATCAGCCACAAGATGAGAGCCAGTGTAAGACCATGTCTGGG
* * * *
31401291 ACATCGCATCGGCGTCGAGACGGGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
66 ACATCGCATCGACATCGAGACGAGTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAG
31401356 ACGTAGGCCT
131 ACGTAGGCCT
* * * *
31401366 GTGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGATAGTCAGTGTAAGACCATGTCTGGG
1 GTGTAAGACATGTCTAGGACATGCATCAGCCACAAGATGAGAGCCAGTGTAAGACCATGTCTGGG
* * *
31401431 ACATGGCATCGACAT-GAGA-TATTAGCTAGTGTAAGACAGTGTCTAGGACATG
66 ACATCGCATCGACATCGAGACGAGT-GCTAGTGTAAGACA-TGTCTAGGACATG
31401483 GCATTGGCAC
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
138 1 0.01
139 18 0.18
140 82 0.81
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (140 bp):
GTGTAAGACATGTCTAGGACATGCATCAGCCACAAGATGAGAGCCAGTGTAAGACCATGTCTGGG
ACATCGCATCGACATCGAGACGAGTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAG
ACGTAGGCCT
Found at i:31402651 original size:21 final size:22
Alignment explanation
Indices: 31402611--31402651 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
31402601 TCAAATTGGT
*
31402611 CACATGGGAGTGTCGCCCCTCC
1 CACACGGGAGTGTCGCCCCTCC
*
31402633 CACACGGGCGTGT-GCCCCT
1 CACACGGGAGTGTCGCCCCT
31402652 GTGCCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.12, C:0.41, G:0.29, T:0.17
Consensus pattern (22 bp):
CACACGGGAGTGTCGCCCCTCC
Found at i:31406165 original size:71 final size:71
Alignment explanation
Indices: 31406077--31406240 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
31406067 GAGATGTATC
31406077 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31406142 AGGACA
66 AGGACA
*
31406148 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
31406213 CGGACA
66 AGGACA
31406219 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
31406241 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:31410104 original size:40 final size:39
Alignment explanation
Indices: 31410059--31410266 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
31410049 CGGAAAACAA
*
31410059 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
31410099 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
31410139 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
31410179 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
31410219 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
31410259 CCGGATAT
1 CCGGATAT
31410267 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:31410199 original size:80 final size:81
Alignment explanation
Indices: 31410059--31410264 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
31410049 CGGAAAACAA
* * *
31410059 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
31410123 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
31410139 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
31410202 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
31410219 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
31410265 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:31419953 original size:26 final size:26
Alignment explanation
Indices: 31419916--31419974 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
31419906 ATATATATAT
*
31419916 ATATATGTTCTGGTG-CCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
31419941 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
31419968 ATATCTG
1 ATATCTG
31419975 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 7 0.25
26 7 0.25
27 14 0.50
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:31429993 original size:23 final size:23
Alignment explanation
Indices: 31429967--31430096 Score: 77
Period size: 25 Copynumber: 5.5 Consensus size: 23
31429957 AGTGAACAAG
31429967 AAATATTCTCTGGCATGAATAGT
1 AAATATTCTCTGGCATGAATAGT
* ** *
31429990 AAATACTCTCTATCATGAACAGT
1 AAATATTCTCTGGCATGAATAGT
* ** *
31430013 GGAA-A-TCTCTAACA-GAAACAGT
1 -AAATATTCTCTGGCATG-AATAGT
*
31430035 AAAGATTCTCTGGTGCATGAATAGT
1 AAATATTCTCT-G-GCATGAATAGT
* *
31430060 GAAGATTCTCTGGTGCATGAATAGT
1 AAATATTCTCT-G-GCATGAATAGT
*
31430085 GAATATTCTCTG
1 AAATATTCTCTG
31430097 TAGTTTATAT
Statistics
Matches: 88, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
21 3 0.03
22 15 0.17
23 25 0.28
24 3 0.03
25 41 0.47
26 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (23 bp):
AAATATTCTCTGGCATGAATAGT
Found at i:31430065 original size:25 final size:25
Alignment explanation
Indices: 31430036--31430096 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
31430026 AGAAACAGTA
31430036 AAGATTCTCTGGTGCATGAATAGTG
1 AAGATTCTCTGGTGCATGAATAGTG
31430061 AAGATTCTCTGGTGCATGAATAGTG
1 AAGATTCTCTGGTGCATGAATAGTG
*
31430086 AATATTCTCTG
1 AAGATTCTCTG
31430097 TAGTTTATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (25 bp):
AAGATTCTCTGGTGCATGAATAGTG
Found at i:31432708 original size:41 final size:43
Alignment explanation
Indices: 31432629--31432766 Score: 142
Period size: 41 Copynumber: 3.2 Consensus size: 43
31432619 TCTCAGACGT
*
31432629 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
*
31432672 GGTCTTACATG-AATCAAATA-CGATGCCGA-TGTCCCAGACAT
1 GGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCCAGACAG
* * * *
31432713 GGTATTACACGTAACCACATATATTGATGCCAAC-GTCCCAGAC-G
1 GGTCTTACATGTAATCA-A-ATATCGATGCC-ACTGTCCCAGACAG
31432757 TGGTCTTACA
1 -GGTCTTACA
31432767 CGAGAACACG
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
41 27 0.34
42 13 0.16
43 12 0.15
44 3 0.04
45 24 0.30
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
Found at i:31433350 original size:20 final size:20
Alignment explanation
Indices: 31433325--31433362 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31433315 GTTTATTCGC
*
31433325 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
31433345 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
31433363 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:31435015 original size:28 final size:28
Alignment explanation
Indices: 31434983--31435051 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
31434973 GCGTAGATCA
31434983 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
31435011 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
* *
31435039 TGATA-TACCCCTA
1 CGAAATTACCCCTA
31435052 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:31439181 original size:20 final size:20
Alignment explanation
Indices: 31439156--31439193 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31439146 GTTTATTCGC
*
31439156 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
31439176 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
31439194 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:31440835 original size:28 final size:28
Alignment explanation
Indices: 31440803--31440871 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
31440793 GCGTAGATCA
31440803 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
31440831 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
31440859 CGATA-TACCCCTA
1 CGAAATTACCCCTA
31440872 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:31444199 original size:40 final size:40
Alignment explanation
Indices: 31444140--31444308 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
31444130 CGGGACTTTA
* * *
31444140 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
31444180 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
31444220 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
31444260 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
31444300 CCCGGATAT
1 CCCGGATAT
31444309 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:31452295 original size:40 final size:40
Alignment explanation
Indices: 31452236--31452404 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
31452226 CGGGACTTTA
* * *
31452236 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
31452276 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
31452316 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
31452356 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
31452396 CCCGGATAT
1 CCCGGATAT
31452405 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:31454806 original size:28 final size:28
Alignment explanation
Indices: 31454774--31454842 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
31454764 GCGTAGATCA
*
31454774 CGAAATTACCCCTAAAGAGGAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
31454802 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
31454830 CGATA-TACCCCTA
1 CGAAATTACCCCTA
31454843 GGGTTTTAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.12, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:31458982 original size:20 final size:20
Alignment explanation
Indices: 31458957--31458994 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31458947 GTTTATTCGC
*
31458957 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
31458977 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
31458995 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:31460640 original size:28 final size:28
Alignment explanation
Indices: 31460608--31460676 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
31460598 GCGTAGATCA
31460608 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
31460636 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
31460664 CGATA-TACCCCTA
1 CGAAATTACCCCTA
31460677 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:31463208 original size:28 final size:28
Alignment explanation
Indices: 31463176--31463244 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
31463166 GCGTAGATCA
31463176 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
31463204 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
31463232 CGATA-TACCCCTA
1 CGAAATTACCCCTA
31463245 GGGTTTTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:31471214 original size:39 final size:39
Alignment explanation
Indices: 31471101--31471216 Score: 160
Period size: 39 Copynumber: 3.0 Consensus size: 39
31471091 CAGGACATAT
* * * * *
31471101 TTCCAGTACGTAGCCTGTGGACCTTAAGTCCGAATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
* *
31471140 ATCCAGCACATAGCTTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
*
31471179 TTCCAGCACATAGCCTGCGGACCCTAAGTCTGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
31471217 CATCAGTGAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
Found at i:31476988 original size:40 final size:39
Alignment explanation
Indices: 31476828--31477020 Score: 296
Period size: 39 Copynumber: 4.9 Consensus size: 39
31476818 TGTGTATGAA
*
31476828 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
31476867 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
31476906 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
31476945 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * * *
31476985 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGG
31477021 TGTTTGAACA
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 103 0.72
40 41 0.28
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:31486517 original size:17 final size:18
Alignment explanation
Indices: 31486491--31486524 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31486481 AGTAATAAAT
31486491 AATATAATTT-ATATTAA
1 AATATAATTTGATATTAA
*
31486508 AATATTATTTGATATTA
1 AATATAATTTGATATTA
31486525 CTTTATTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
AATATAATTTGATATTAA
Found at i:31486639 original size:39 final size:39
Alignment explanation
Indices: 31486596--31486675 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
31486586 CAAAGTTGAT
31486596 AATAATTACATATTAGTTATTATCACCTTTATTTATTTA
1 AATAATTACATATTAGTTATTATCACCTTTATTTATTTA
31486635 AATAATTACATATTAGTTATTATCACCTTTATTTATTTA
1 AATAATTACATATTAGTTATTATCACCTTTATTTATTTA
31486674 AA
1 AA
31486676 AATAAAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.50
Consensus pattern (39 bp):
AATAATTACATATTAGTTATTATCACCTTTATTTATTTA
Found at i:31497372 original size:2 final size:2
Alignment explanation
Indices: 31497365--31497392 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
31497355 CACATTCGGC
31497365 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31497393 AATGTATGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31497975 original size:28 final size:28
Alignment explanation
Indices: 31497943--31498017 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 28
31497933 AATGAGATTG
*
31497943 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
31497971 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
31497999 GCACTAAGTGTGCGGAGTT
1 GCACTAAGTGTGC-GAGTT
31498018 ACTATATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 36 0.84
29 7 0.16
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:31501730 original size:38 final size:40
Alignment explanation
Indices: 31501619--31501747 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
31501609 GACTCGCTCA
* **
31501619 AATGCCTTCGGGAC-GAAGCCC-GGTTATAGCGACTTGCACG
1 AATGCCTTCGGGACTTAA-CCCGGGTT-TAGTAACTTGCACG
31501659 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC-
1 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCACG
* * *
31501698 AATGCCTTCGGG-CTTAGCCCGGAG-TTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGG-GTTTAGTAACTTGCACG
31501737 AATGCCTTCGG
1 AATGCCTTCGG
31501748 ATCCTAGTCC
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
38 21 0.27
39 24 0.30
40 28 0.35
41 6 0.08
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCACG
Found at i:31509139 original size:28 final size:28
Alignment explanation
Indices: 31509107--31509176 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
31509097 AATGAGATTG
*
31509107 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
31509135 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
31509163 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31509177 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:31515702 original size:39 final size:39
Alignment explanation
Indices: 31515590--31515772 Score: 267
Period size: 39 Copynumber: 4.6 Consensus size: 39
31515580 TCGTTCAAAC
* * ** * *
31515590 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* *
31515630 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
31515670 GCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
31515709 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
31515748 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
31515773 CTCGAACATT
Statistics
Matches: 131, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 90 0.69
40 41 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:31523752 original size:38 final size:39
Alignment explanation
Indices: 31523662--31523816 Score: 224
Period size: 38 Copynumber: 4.0 Consensus size: 39
31523652 CCGGTTATGG
* **
31523662 TAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
1 TAACTCGCACAATTGCCTTCGGG-CTTAACCCGGATATCA
* * *
31523702 CAA-TTGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TAACTCGCACAATTGCCTTCGGGCTTAACCCGGATATCA
*
31523740 TAACTCGC-CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TAACTCGCACAATTGCCTTCGGGCTTAACCCGGATATCA
31523778 TAACTCGCACAATTGCCTTCGGGCTTAACCCGGATATCA
1 TAACTCGCACAATTGCCTTCGGGCTTAACCCGGATATCA
31523817 CTCGAACATT
Statistics
Matches: 104, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
38 55 0.53
39 47 0.45
40 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
TAACTCGCACAATTGCCTTCGGGCTTAACCCGGATATCA
Found at i:31528268 original size:3 final size:3
Alignment explanation
Indices: 31528260--31528330 Score: 124
Period size: 3 Copynumber: 23.7 Consensus size: 3
31528250 AAACATACAA
*
31528260 AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
31528308 AAT AAT AAT AAT AAT AAT GAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
31528331 CATCCAAATT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:31530347 original size:28 final size:27
Alignment explanation
Indices: 31530275--31530354 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
31530265 CTGCCAGAAC
* * *
31530275 AGATATTGTGACAGAGTCACCAGATAT
1 AGATATTGTGGCAGAGCCACCAGAAAT
*
31530302 AGATATTGTGGCAGAGCCACCGGAAAT
1 AGATATTGTGGCAGAGCCACCAGAAAT
31530329 AGATATTTGTGGCAGAGCCACCAGAA
1 AGATA-TTGTGGCAGAGCCACCAGAA
31530355 CACTTCATCC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 28 0.60
28 19 0.40
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.21
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGAAAT
Found at i:31533192 original size:29 final size:29
Alignment explanation
Indices: 31533158--31533231 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
31533148 TAATCAGCCG
*
31533158 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
31533187 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
*
31533216 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
31533232 ATCTCTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:31535507 original size:3 final size:3
Alignment explanation
Indices: 31535499--31535548 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
31535489 AAACATACGA
*
31535499 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31535547 AA
1 AA
31535549 CATCCAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:31536858 original size:70 final size:71
Alignment explanation
Indices: 31536709--31536871 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
31536699 GAGATGTATC
31536709 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31536774 AGGACA
66 AGGACA
31536780 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGC-AGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
31536844 CGGACA
66 AGGACA
31536850 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
31536872 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 52 0.57
71 39 0.43
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.18
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:31543816 original size:68 final size:70
Alignment explanation
Indices: 31543744--31543941 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
31543734 ACACCCTGTA
* * * *
31543744 GTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
31543806 ATAAAT
65 ATAAAT
* *
31543812 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
31543877 ATAAAT
65 ATAAAT
* * * * *
31543883 GTAGCTGGGCCGCATGCGTGATTCCAAGTGACGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGA-AGACACCATGTAGACAAGAGAGCTACG
31543942 AGACAAATCG
Statistics
Matches: 116, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
68 23 0.20
69 3 0.03
70 1 0.01
71 89 0.77
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:31543866 original size:71 final size:71
Alignment explanation
Indices: 31543778--31543941 Score: 301
Period size: 71 Copynumber: 2.3 Consensus size: 71
31543768 GAGATGTATC
*
31543778 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGCCGCATGCGTGATTCCAAGTGA
31543843 AGGACA
66 AGGACA
*
31543849 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGCCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGCCGCATGCGTGATTCCAAGTGA
*
31543914 CGGACA
66 AGGACA
31543920 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
31543942 AGACAAATCG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 90 1.00
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGCCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:31547680 original size:42 final size:41
Alignment explanation
Indices: 31547633--31547777 Score: 155
Period size: 42 Copynumber: 3.4 Consensus size: 41
31547623 AGACTATGTA
*
31547633 TAAGACCATATCTGGGATATGGCATCATTTTGAGATTTCATG
1 TAAGACCATATCTGGGATATGGCATCA-TATGAGATTTCATG
* *
31547675 TAAGACCATATCTGGGATATGGCATTGATATGAGATTTCGTG
1 TAAGACCATATCTGGGATATGGCA-TCATATGAGATTTCATG
* * * * ** **
31547717 TAAGATCATAGCTAGGCTATTGGCATCAGTACAAGATCCCATG
1 TAAGACCATATCTGGGATA-TGGCATCA-TATGAGATTTCATG
31547760 TAAGACCATATCTGGGAT
1 TAAGACCATATCTGGGAT
31547778 GTTGCATTGG
Statistics
Matches: 83, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 53 0.64
43 30 0.36
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (41 bp):
TAAGACCATATCTGGGATATGGCATCATATGAGATTTCATG
Found at i:31550904 original size:7 final size:7
Alignment explanation
Indices: 31550892--31550918 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
31550882 TAATAATGTC
31550892 GATAAAT
1 GATAAAT
31550899 GATAAAT
1 GATAAAT
31550906 GATAAAT
1 GATAAAT
31550913 GATAAA
1 GATAAA
31550919 AATGTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:31554411 original size:19 final size:18
Alignment explanation
Indices: 31554366--31554412 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
31554356 TTTTTATAAA
*
31554366 TGAATTTAA-TCATCAAT
1 TGAATTCAATTCATCAAT
* *
31554383 TTAATACAATTCATGCAAT
1 TGAATTCAATTCAT-CAAT
31554402 TGAATTCAATT
1 TGAATTCAATT
31554413 TACACTCTAG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 6 0.26
18 4 0.17
19 13 0.57
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (18 bp):
TGAATTCAATTCATCAAT
Found at i:31556628 original size:27 final size:27
Alignment explanation
Indices: 31556289--31556627 Score: 405
Period size: 27 Copynumber: 12.6 Consensus size: 27
31556279 AAAGTACTCC
31556289 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
31556316 C-AGGTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** * *
31556343 CGATTTGTAAAATTACCGTTTTACTCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
31556370 TGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
31556397 C-AGTTTACAGAATCACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
31556424 CGATTTACAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
31556451 CAATTTACATAATTACCATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
31556477 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
31556504 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
31556531 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
31556558 CGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
31556585 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
31556612 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
31556628 TAAAATACCC
Statistics
Matches: 266, Mismatches: 41, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
26 25 0.09
27 239 0.90
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:31556664 original size:81 final size:81
Alignment explanation
Indices: 31556418--31556665 Score: 221
Period size: 81 Copynumber: 3.1 Consensus size: 81
31556408 ATCACTATTT
* * * * ***
31556418 TACCCTCGATTTACAGAATTACCGTTTTACCCCCAATTTACATAATTACCATTTTACCC-CGATT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* * * ****
31556482 TACATAATTATCGTTT
66 TATAGAATTACCACAA
* ***
31556498 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* ***
31556563 TATAGAATTACTATTT
66 TATAGAATTACCACAA
* * * *
31556579 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
* *
31556644 TGT-GAAATTACCGCAA
66 TATAG-AATTACCACAA
31556660 TACCCT
1 TACCCT
31556666 CAATTTGTAA
Statistics
Matches: 143, Mismatches: 23, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
80 56 0.39
81 87 0.61
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATT
TATAGAATTACCACAA
Found at i:31557896 original size:25 final size:24
Alignment explanation
Indices: 31557863--31557910 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
31557853 CTATAACATG
* * *
31557863 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
31557887 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
31557911 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:31557961 original size:9 final size:9
Alignment explanation
Indices: 31557949--31558005 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
31557939 TTTGATAAAC
31557949 ATGATATGT
1 ATGATATGT
*
31557958 ATGATATGCAC
1 ATGATATG--T
*
31557969 ATGACATGT
1 ATGATATGT
*
31557978 ATGATATGCAC
1 ATGATATG--T
31557989 ATGATATGT
1 ATGATATGT
31557998 ATGATATG
1 ATGATATG
31558006 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:31557972 original size:20 final size:20
Alignment explanation
Indices: 31557947--31558017 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
31557937 ATTTTGATAA
31557947 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
31557967 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
31557987 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
31558007 ACATGAGATGT
1 ACATGATATGT
31558018 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:31557994 original size:11 final size:11
Alignment explanation
Indices: 31557958--31558012 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
31557948 CATGATATGT
31557958 ATGATATGCAC
1 ATGATATGCAC
* *
31557969 ATGACATG--T
1 ATGATATGCAC
31557978 ATGATATGCAC
1 ATGATATGCAC
*
31557989 ATGATATG--T
1 ATGATATGCAC
31557998 ATGATATGCAC
1 ATGATATGCAC
31558009 ATGA
1 ATGA
31558013 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:31558119 original size:24 final size:24
Alignment explanation
Indices: 31558062--31558228 Score: 232
Period size: 24 Copynumber: 7.0 Consensus size: 24
31558052 GGAGGAAGTG
31558062 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
31558086 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
31558109 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
31558133 CAAAAGGGCTTACGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
31558157 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
31558180 AAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
31558204 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
31558229 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
23 43 0.33
24 75 0.58
25 11 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:31558131 original size:47 final size:48
Alignment explanation
Indices: 31558062--31558229 Score: 234
Period size: 47 Copynumber: 3.5 Consensus size: 48
31558052 GGAGGAAGTG
*
31558062 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
31558109 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
31558157 -TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
31558204 TAAAAGAGGC-TAGGCCTCCAGTTATA
1 CAAAAG-GGCTTATGCC-CCAGTTATA
31558230 TGATAAAGCA
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 67 0.61
48 30 0.28
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (48 bp):
CAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:31558178 original size:71 final size:71
Alignment explanation
Indices: 31558062--31558228 Score: 264
Period size: 71 Copynumber: 2.3 Consensus size: 71
31558052 GGAGGAAGTG
* *
31558062 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
31558127 AGTTAT
66 AGTTAT
*
31558133 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
31558198 AGTTAT
66 AGTTAT
* *
31558204 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTACGCC-CCAGTTAT
31558229 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 78 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
AGTTAT
Found at i:31561255 original size:24 final size:23
Alignment explanation
Indices: 31561228--31561300 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 23
31561218 TATTACTAAT
31561228 AATAGTAATATAATAAAAAAGTAA
1 AATAGTAATATAAT-AAAAAGTAA
*
31561252 AATATTAATATTAATAAAAA-TAAA
1 AATAGTAATA-TAATAAAAAGT-AA
31561276 AATAGT-ATAATAATAAAAAGTAA
1 AATAGTAAT-ATAATAAAAAGTAA
31561299 AA
1 AA
31561301 ACCAAAAAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
23 16 0.37
24 23 0.53
25 4 0.09
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.27
Consensus pattern (23 bp):
AATAGTAATATAATAAAAAGTAA
Found at i:31561267 original size:30 final size:32
Alignment explanation
Indices: 31561227--31561287 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 32
31561217 CTATTACTAA
*
31561227 TAATAGTAAT-ATAATAAAAA-AGTAAAATAT
1 TAATAGTAATAAAAATAAAAATAGTAAAATAT
* *
31561257 TAATATTAATAAAAATAAAAATAGTATAATA
1 TAATAGTAATAAAAATAAAAATAGTAAAATA
31561288 ATAAAAAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 9 0.35
31 9 0.35
32 8 0.31
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (32 bp):
TAATAGTAATAAAAATAAAAATAGTAAAATAT
Found at i:31564904 original size:27 final size:27
Alignment explanation
Indices: 31564874--31565271 Score: 571
Period size: 27 Copynumber: 14.7 Consensus size: 27
31564864 TACTGAAATG
* * * *
31564874 CCCTCAATTTGTAAAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
31564901 CCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
31564928 CCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
31564955 CCCTCGATTTATAGAATTGCCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
31564982 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
31565009 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
31565036 CCCTCGATTTACAGAATTACGATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
31565063 CCCTCGATTTATAGAATTATCGTTCTA
1 CCCTCGATTTATAGAATTACCATTTTA
31565090 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
31565117 CCCTCGATTTATAGAATTATCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
31565144 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
31565171 CCCTCGATTTATAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
31565198 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
31565225 CCTTCAATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
31565252 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
31565272 TAAAATACCC
Statistics
Matches: 338, Mismatches: 33, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 338 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:31565280 original size:27 final size:27
Alignment explanation
Indices: 31564899--31565416 Score: 162
Period size: 27 Copynumber: 19.2 Consensus size: 27
31564889 ATTACTATTT
* * * ***
31564899 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ***
31564926 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ***
31564953 TACCCTCGATTTATAGAATTGCCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ***
31564980 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ****
31565007 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ***
31565034 TACCCTCGATTTACAGAATTACGATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ****
31565061 TACCCTCGATTTATAGAATTATCGTTC
1 TACCCTCGATTTACAAAATTACCAAAA
* * ***
31565088 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ***
31565115 TACCCTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ***
31565142 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ****
31565169 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* ***
31565196 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * ****
31565223 TACCTTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
*
31565250 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
31565277 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * *
31565304 TACCCTCGA-TCAGTAAAATTACCAAAG
1 TACCCTCGATTTA-CAAAATTACCAAAA
* ** *
31565331 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
* * **
31565358 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * *
31565385 CACCCCTGGCTTGT--AAAATTACCAAAA
1 TA-CCCTCGATT-TACAAAATTACCAAAA
31565412 TACCC
1 TACCC
31565417 GTGATATATG
Statistics
Matches: 433, Mismatches: 52, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
26 6 0.01
27 418 0.97
28 8 0.02
29 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:31565431 original size:81 final size:81
Alignment explanation
Indices: 31565264--31565457 Score: 230
Period size: 81 Copynumber: 2.4 Consensus size: 81
31565254 CTCGATTTAC
** *
31565264 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAACACCCTCGATCAGTAAAATTACCAA
* * * *
31565329 AGTACCCCTGGTTTGT
66 AATACCCCTGATATAT
* * *
31565345 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAACACCCCTGGCT-TGTAAAATTACCA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAACA-CCCTCGATCAGTAAAATTACCA
*
31565409 AAATACCCGTGATATAT
65 AAATACCCCTGATATAT
* * *
31565426 GAAATTA-TCAAAATACTCTTGATTTGTAAAAT
1 AAAATTACT-AAAATACCCTTGGTTTGTAAAAT
31565458 ATCGAAATAC
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 90 0.93
82 6 0.06
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAACACCCTCGATCAGTAAAATTACCAA
AATACCCCTGATATAT
Found at i:31565457 original size:27 final size:27
Alignment explanation
Indices: 31565264--31565470 Score: 200
Period size: 27 Copynumber: 7.7 Consensus size: 27
31565254 CTCGATTTAC
* **
31565264 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
31565291 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
31565318 AAAATTACCAAAGTACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
31565345 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
31565372 AAAATTACCAAAACACCCCTGGCTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * * *
31565399 AAAATTACCAAAATACCCGTGATATAT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * * *
31565426 GAAATTATCAAAATACTCTTGATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
31565453 AAAA-TATCGAAATACCCT
1 AAAATTACCAAAATACCCT
31565471 GTAGGGTAGA
Statistics
Matches: 145, Mismatches: 35, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
26 12 0.08
27 133 0.92
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:31565500 original size:27 final size:26
Alignment explanation
Indices: 31565460--31565649 Score: 254
Period size: 27 Copynumber: 7.0 Consensus size: 26
31565450 TGTAAAATAT
31565460 CGAAATACCCTGTAGGGTAGAATTAC
1 CGAAATACCCTGTAGGGTAGAATTAC
*
31565486 CGAAATATCCCTGTAGGGTAGAATTAT
1 CGAAATA-CCCTGTAGGGTAGAATTAC
31565513 CGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCC-TGTAGGGTAGAATTAC
*
31565540 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATA-CCCTGTAGGGTAGAATTAC
* *
31565567 CGAAATACCCTTGTAGGGTATAAATAC
1 CGAAATACCC-TGTAGGGTAGAATTAC
31565594 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATA-CCCTGTAGGGTAGAATTAC
* * *
31565621 CGAGATACCCTTGTGGGGTAAAAATTAC
1 CGAAATACCC-TGTAGGGT-AGAATTAC
31565649 C
1 C
31565650 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.11
27 116 0.79
28 14 0.10
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (26 bp):
CGAAATACCCTGTAGGGTAGAATTAC
Found at i:31565537 original size:54 final size:54
Alignment explanation
Indices: 31565460--31565649 Score: 292
Period size: 54 Copynumber: 3.5 Consensus size: 54
31565450 TGTAAAATAT
* *
31565460 CGAAATACCC-TGTAGGGTAGAATTACCGAAATATCCCTGTAGGGTAGAATTAT
1 CGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTAC
*
31565513 CGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTAC
* *
31565567 CGAAATACCCTTGTAGGGTATAAATACCGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTAC
* * *
31565621 CGAGATACCCTTGTGGGGTAAAAATTACC
1 CGAAATACCCTTGTAGGGT-AGAATTACC
31565650 ATTTTGCCCC
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
53 10 0.08
54 108 0.86
55 7 0.06
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (54 bp):
CGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTAC
Found at i:31565889 original size:25 final size:25
Alignment explanation
Indices: 31565851--31565920 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
31565841 AGGAAGTGCT
*
31565851 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
31565876 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
31565901 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
31565921 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:31576085 original size:25 final size:25
Alignment explanation
Indices: 31576056--31576119 Score: 128
Period size: 25 Copynumber: 2.6 Consensus size: 25
31576046 TTGAATACTA
31576056 GGGCAAAGCCCTTTTCGGTAAACTG
1 GGGCAAAGCCCTTTTCGGTAAACTG
31576081 GGGCAAAGCCCTTTTCGGTAAACTG
1 GGGCAAAGCCCTTTTCGGTAAACTG
31576106 GGGCAAAGCCCTTT
1 GGGCAAAGCCCTTT
31576120 CTCACTTCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (25 bp):
GGGCAAAGCCCTTTTCGGTAAACTG
Found at i:31576203 original size:20 final size:20
Alignment explanation
Indices: 31576166--31576203 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31576156 ATATATGAAT
* *
31576166 ATATCATGTGCATTTCATAC
1 ATATCATGTACATATCATAC
31576186 ATATCATGTACATATCAT
1 ATATCATGTACATATCAT
31576204 GTCAAACCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (20 bp):
ATATCATGTACATATCATAC
Found at i:31584002 original size:25 final size:25
Alignment explanation
Indices: 31583946--31584036 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
31583936 CCCAGTTAAT
31583946 ACTAGGGCAAAGCCC-TTT---TAA
1 ACTAGGGCAAAGCCCTTTTCGGTAA
31583967 TACTAGGGCAAAGCCCTTTTCGGTAA
1 -ACTAGGGCAAAGCCCTTTTCGGTAA
31583993 ACTAGGGCAAAGCCCTTTTCGGTAA
1 ACTAGGGCAAAGCCCTTTTCGGTAA
31584018 ACTAGGGCAAAGCCCTTTT
1 ACTAGGGCAAAGCCCTTTT
31584037 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
22 15 0.23
23 3 0.05
25 44 0.68
26 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (25 bp):
ACTAGGGCAAAGCCCTTTTCGGTAA
Found at i:31584107 original size:20 final size:20
Alignment explanation
Indices: 31584082--31584119 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31584072 ATGTATGAAT
* *
31584082 ATATCATTTGCATTTCATAC
1 ATATCATGTGCATATCATAC
31584102 ATATCATGTGCATATCAT
1 ATATCATGTGCATATCAT
31584120 GTCAAACCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (20 bp):
ATATCATGTGCATATCATAC
Found at i:31589944 original size:43 final size:43
Alignment explanation
Indices: 31589911--31590096 Score: 356
Period size: 43 Copynumber: 4.3 Consensus size: 43
31589901 ATTTGGCCAA
*
31589911 ATGT-ATTGGCTTATATTTGTTTAAGGTGATTTGATATTTACC
1 ATGTAATTGGCTTATATTTATTTAAGGTGATTTGATATTTACC
31589953 ATGTAATTGGCTTATATTTATTTAAGGTGATTTGATATTTACC
1 ATGTAATTGGCTTATATTTATTTAAGGTGATTTGATATTTACC
31589996 ATGTAATTGGCTTATATTTATTTAAGGTGATTTGATATTTACC
1 ATGTAATTGGCTTATATTTATTTAAGGTGATTTGATATTTACC
31590039 ATGTAATTGGCTTATATTTATTTAAGGTGATTTGATATTTACC
1 ATGTAATTGGCTTATATTTATTTAAGGTGATTTGATATTTACC
31590082 ATGTAATTGGCTTAT
1 ATGTAATTGGCTTAT
31590097 TTTGGCTAAA
Statistics
Matches: 142, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
42 4 0.03
43 138 0.97
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.49
Consensus pattern (43 bp):
ATGTAATTGGCTTATATTTATTTAAGGTGATTTGATATTTACC
Found at i:31594485 original size:13 final size:13
Alignment explanation
Indices: 31594457--31594489 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
31594447 AACAAAAGAA
31594457 AAAAATAAAATGT
1 AAAAATAAAATGT
*
31594470 AAAAATAAAATTT
1 AAAAATAAAATGT
31594483 AAAAATA
1 AAAAATA
31594490 TTAAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AAAAATAAAATGT
Found at i:31594500 original size:22 final size:20
Alignment explanation
Indices: 31594469--31594509 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
31594459 AAATAAAATG
31594469 TAAAAATAAAATTTAAAAATAT
1 TAAAAATAAAA--TAAAAATAT
*
31594491 TAAAATTAAAATAAAAATA
1 TAAAAATAAAATAAAAATA
31594510 GCTAAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAAATAAAATAAAAATAT
Found at i:31595632 original size:46 final size:46
Alignment explanation
Indices: 31595558--31595648 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
31595548 TATATATACA
* * * *
31595558 CATCTCATACATATCTCATATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
31595604 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
31595649 ATACACATCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.31, G:0.07, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:31595691 original size:22 final size:22
Alignment explanation
Indices: 31595665--31595740 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
31595655 ATCCACGTTC
31595665 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
31595687 ATCACATGTATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
31595712 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
31595734 ATCACAT
1 ATCACAT
31595741 ATATGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:31595693 original size:47 final size:47
Alignment explanation
Indices: 31595628--31596000 Score: 370
Period size: 47 Copynumber: 7.9 Consensus size: 47
31595618 TTCGCATTAA
* ** ** * *
31595628 CCATTCGGCTTTCCCACATATATACACATCCACGTTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * * *
31595675 CCATTCTGCCTTATCACATGTATGCATGTTCACATTTATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * *
31595722 CCATTCGGCCTTATCACATATATGCATGTTCATATTCTTCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
*
31595769 CCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * * * * *
31595816 CCATTCGGTCTTATCACACAAATGCATGTTCACACTCATCACATTTG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * * * *
31595863 CCATTCGACCTTAGCACACA-AAAGCATGTTCACATTCATCACATTTG
1 CCATTCGGCCTTATCACATATATA-CATGTTCACATTCATCACATTGG
* * * * * **
31595910 CCATTTGGCCTTAGCACACAAATGCATGTTCACATTCATCACATTTT
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * * * ** *
31595957 CCATTTGGCCTTAGCTCATGTATACACATTCACATCCATCACAT
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACAT
31596001 AAAATCCTAA
Statistics
Matches: 280, Mismatches: 44, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
46 1 0.00
47 278 0.99
48 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
Found at i:31595807 original size:141 final size:141
Alignment explanation
Indices: 31595662--31595969 Score: 409
Period size: 141 Copynumber: 2.2 Consensus size: 141
31595652 CACATCCACG
* *** * *
31595662 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTTCACACTCATCACATTGGCCATT
* * * * * * * * *
31595727 CGGCCTTATCACATATATGCATGTTCATATTCTTCACATTGGCCATTCGGCCTTATCACACATAT
66 CGACCTTAGCACACAAAAGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAAT
31595792 ACATGTTCACA
131 ACATGTTCACA
* *
31595803 TTCATCACATTGGCCATTCGGTCTTATCACACAAATGCATGTTCACACTCATCACATTTGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTTCACACTCATCACATTGGCCATT
* *
31595868 CGACCTTAGCACACAAAAGCATGTTCACATTCATCACATTTGCCATTTGGCCTTAGCACACAAAT
66 CGACCTTAGCACACAAAAGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAAT
*
31595933 GCATGTTCACA
131 ACATGTTCACA
** *
31595944 TTCATCACATTTTCCATTTGGCCTTA
1 TTCATCACATTGGCCATTCGGCCTTA
31595970 GCTCATGTAT
Statistics
Matches: 143, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
141 143 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (141 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTTCACACTCATCACATTGGCCATT
CGACCTTAGCACACAAAAGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACAAAT
ACATGTTCACA
Found at i:31595952 original size:23 final size:23
Alignment explanation
Indices: 31595832--31595952 Score: 54
Period size: 23 Copynumber: 5.2 Consensus size: 23
31595822 GGTCTTATCA
*
31595832 CACAAATGCATGTTCACACTCAT
1 CACAAATGCATGTTCACATTCAT
** *
31595855 CACATTTGCCA--TTCGACCTTAGCA-
1 CACAAATG-CATGTTC-ACATT--CAT
*
31595879 CACAAAAGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
** ** *
31595902 CACATTTGCCAT-TTGGCCTTAGCA-
1 CACAAATG-CATGTTCACATT--CAT
31595926 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
31595949 CACA
1 CACA
31595953 TTTTCCATTT
Statistics
Matches: 67, Mismatches: 19, Indels: 24
0.61 0.17 0.22
Matches are distributed among these distances:
22 7 0.10
23 28 0.42
24 25 0.37
25 7 0.10
ACGTcount: A:0.31, C:0.30, G:0.11, T:0.28
Consensus pattern (23 bp):
CACAAATGCATGTTCACATTCAT
Found at i:31595989 original size:94 final size:94
Alignment explanation
Indices: 31595662--31596000 Score: 410
Period size: 94 Copynumber: 3.6 Consensus size: 94
31595652 CACATCCACG
* * * *
31595662 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTAGCACATGTATACATGTTCACATTCATCACATTGGCCATT
* * *
31595727 CGGCCTTATCACATATATGCATGTTCATA
66 CGGCCTTATCACACAAATGCATGTTCACA
* * **
31595756 TTCTTCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTAGCACATGTATACATGTTCACATTCATCACATTGGCCATT
*
31595821 CGGTCTTATCACACAAATGCATGTTCACA
66 CGGCCTTATCACACAAATGCATGTTCACA
* * * ** * *
31595850 CTCATCACATTTGCCATTCGACCTTAGCACA-CAAAAGCATGTTCACATTCATCACATTTGCCAT
1 TTCATCACATTGGCCATTCGGCCTTAGCACATGTATA-CATGTTCACATTCATCACATTGGCCAT
* *
31595914 TTGGCCTTAGCACACAAATGCATGTTCACA
65 TCGGCCTTATCACACAAATGCATGTTCACA
** * * ** *
31595944 TTCATCACATTTTCCATTTGGCCTTAGCTCATGTATACACATTCACATCCATCACAT
1 TTCATCACATTGGCCATTCGGCCTTAGCACATGTATACATGTTCACATTCATCACAT
31596001 AAAATCCTAA
Statistics
Matches: 210, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
93 2 0.01
94 206 0.98
95 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (94 bp):
TTCATCACATTGGCCATTCGGCCTTAGCACATGTATACATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACACAAATGCATGTTCACA
Found at i:31600177 original size:51 final size:52
Alignment explanation
Indices: 31600056--31600189 Score: 193
Period size: 51 Copynumber: 2.6 Consensus size: 52
31600046 ATGTCACCAG
31600056 TGACT-CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTT
* *
31600107 TG-GTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTT
* * *
31600158 TGACTACAAGGGTGGTACTAGGTGCAGGCCAC
1 TGACTACAAGTGTGGTACTATGTGAAGGCCAC
31600190 CGAGTATACG
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
50 1 0.01
51 37 0.50
52 36 0.49
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (52 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTT
Found at i:31602499 original size:42 final size:42
Alignment explanation
Indices: 31602452--31602572 Score: 215
Period size: 42 Copynumber: 2.9 Consensus size: 42
31602442 TATTGGTCTC
31602452 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
31602494 GGCACTAAGTGTACGGGTATAAATGGACACAGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
31602536 GGCACTAAGTGTGCGGGTATAAATGGCCACGGTGACA
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACA
31602573 TACGTGTGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.31, C:0.16, G:0.32, T:0.21
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:31602655 original size:27 final size:28
Alignment explanation
Indices: 31602599--31602667 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 28
31602589 AAATTGTACT
**
31602599 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCGAAGCTGATTATATA
* *
31602627 GCACTATGTGTGCG-AGCTGATTTTATA
1 GCACTAAGTGTGCGAAGCTGATTATATA
31602654 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31602668 GATTCACTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.64
28 13 0.36
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAAGCTGATTATATA
Found at i:31612781 original size:24 final size:25
Alignment explanation
Indices: 31612754--31612817 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 25
31612744 AAAACTAATT
*
31612754 CTAATC-AATG-TCAAATATATTATG
1 CTAATCAAATGCT-AAATATATTATA
*
31612778 CTAA-CAAATGCTAAATATGTTATA
1 CTAATCAAATGCTAAATATATTATA
*
31612802 CTAAT-AAATACTAAAT
1 CTAATCAAATGCTAAAT
31612818 TTTATAGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 1 0.03
24 32 0.94
25 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.34
Consensus pattern (25 bp):
CTAATCAAATGCTAAATATATTATA
Found at i:31616611 original size:29 final size:28
Alignment explanation
Indices: 31616577--31616679 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
31616567 TAATCGTTCA
31616577 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATGT-ATTTAAGCT
* **
31616606 CGCACACATAGTGCCA-GATAGTCCAAGCT
1 CGCACACTTAGTGCCATG-TA-TTTAAGCT
**
31616635 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCATGTATTT-AAGCT
*
31616664 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
31616680 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGTATTTAAGCT
Found at i:31624692 original size:29 final size:28
Alignment explanation
Indices: 31624658--31624760 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
31624648 TAATCGTTCA
31624658 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATGT-ATTTAAGCT
* **
31624687 CGCACACATAGTGCCA-GATAGTCCAAGCT
1 CGCACACTTAGTGCCATG-TA-TTTAAGCT
**
31624716 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCATGTATTT-AAGCT
*
31624745 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
31624761 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGTATTTAAGCT
Found at i:31630331 original size:19 final size:19
Alignment explanation
Indices: 31630295--31630331 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31630285 GAAAATGTGT
*
31630295 AAGTTATGCTTATAAATTC
1 AAGTTATGCATATAAATTC
*
31630314 AAGTTATGCATATGAATT
1 AAGTTATGCATATAAATT
31630332 TATGATGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (19 bp):
AAGTTATGCATATAAATTC
Found at i:31633774 original size:22 final size:22
Alignment explanation
Indices: 31633749--31633829 Score: 94
Period size: 22 Copynumber: 3.6 Consensus size: 22
31633739 TAGCTCGAAA
*
31633749 AAGCTTACTGTTCAGCTCAATG
1 AAGCTTACTGTTCAGCTCTATG
*
31633771 AAGCTTACCGTTTCAGCTCGTATG
1 AAGCTTACTG-TTCAGCTC-TATG
*
31633795 -AGCTTACTGTTCAGCTTTAT-
1 AAGCTTACTGTTCAGCTCTATG
31633815 AGAGCTTACTGTTCA
1 A-AGCTTACTGTTCA
31633830 TCAGCTCAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
21 3 0.06
22 29 0.57
23 16 0.31
24 3 0.06
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (22 bp):
AAGCTTACTGTTCAGCTCTATG
Found at i:31633776 original size:45 final size:45
Alignment explanation
Indices: 31633707--31633810 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
31633697 TTGGAAGAGT
* * *
31633707 TTACTGTTTCAGCTCATTGGAGCTTGCAGATTT-AGCTCGAAAAAGC
1 TTACTG-TTCAGCTCAATGAAGCTTACAG-TTTCAGCTCGAAAAAGC
* * **
31633753 TTACTGTTCAGCTCAATGAAGCTTACCGTTTCAGCTCGTATGAGC
1 TTACTGTTCAGCTCAATGAAGCTTACAGTTTCAGCTCGAAAAAGC
31633798 TTACTGTTCAGCT
1 TTACTGTTCAGCT
31633811 TTATAGAGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 3 0.06
45 41 0.82
46 6 0.12
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (45 bp):
TTACTGTTCAGCTCAATGAAGCTTACAGTTTCAGCTCGAAAAAGC
Found at i:31633789 original size:23 final size:23
Alignment explanation
Indices: 31633740--31633810 Score: 85
Period size: 22 Copynumber: 3.2 Consensus size: 23
31633730 TTGCAGATTT
*
31633740 AGCTCGAA-AAAGCTTACTGTTC
1 AGCTCGAATGAAGCTTACTGTTC
*
31633762 AGCTC-AATGAAGCTTACCGTTTC
1 AGCTCGAATGAAGCTTACTG-TTC
*
31633785 AGCTCGTATG-AGCTTACTGTTC
1 AGCTCGAATGAAGCTTACTGTTC
31633807 AGCT
1 AGCT
31633811 TTATAGAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
21 2 0.05
22 21 0.50
23 16 0.38
24 3 0.07
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (23 bp):
AGCTCGAATGAAGCTTACTGTTC
Found at i:31639609 original size:22 final size:22
Alignment explanation
Indices: 31639584--31639704 Score: 102
Period size: 22 Copynumber: 5.4 Consensus size: 22
31639574 CAGCTCATTG
*
31639584 GAGCTTACCGTTTAGCTCGAAA
1 GAGCTTACTGTTTAGCTCGAAA
* * *
31639606 GAGCCTAATGTTCAGCTC-AATA
1 GAGCTTACTGTTTAGCTCGAA-A
* * *
31639628 AAGCTTACTGTTTCAGCTCGTAT
1 GAGCTTACTGTTT-AGCTCGAAA
*
31639651 GAGCTTACTGTTTAGCTCGATA
1 GAGCTTACTGTTTAGCTCGAAA
* *
31639673 GAGCTTACCGTTTCAGCT-TAATA
1 GAGCTTACTGTTT-AGCTCGAA-A
31639696 GAGCTTACT
1 GAGCTTACT
31639705 ATTCATCAGC
Statistics
Matches: 76, Mismatches: 18, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
21 2 0.03
22 43 0.57
23 30 0.39
24 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (22 bp):
GAGCTTACTGTTTAGCTCGAAA
Found at i:31639640 original size:67 final size:68
Alignment explanation
Indices: 31639566--31639704 Score: 183
Period size: 67 Copynumber: 2.1 Consensus size: 68
31639556 CGGAAGAGTA
*
31639566 TACTGTTTCAGCTCAT-TGGAGCTTACCGTTTAGCTCGAAAGAGCCTAATG-TTCAGCTCAATAA
1 TACTGTTTCAGCTCATAT-GAGCTTACCGTTTAGCTCGAAAGAGCCTAACGTTTCAGCTCAATAA
31639629 AGCT
65 AGCT
* * * * * * *
31639633 TACTGTTTCAGCTCGTATGAGCTTACTGTTTAGCTCGATAGAGCTTACCGTTTCAGCTTAATAGA
1 TACTGTTTCAGCTCATATGAGCTTACCGTTTAGCTCGAAAGAGCCTAACGTTTCAGCTCAATAAA
31639698 GCT
66 GCT
31639701 TACT
1 TACT
31639705 ATTCATCAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
67 42 0.68
68 20 0.32
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (68 bp):
TACTGTTTCAGCTCATATGAGCTTACCGTTTAGCTCGAAAGAGCCTAACGTTTCAGCTCAATAAA
GCT
Found at i:31639696 original size:23 final size:23
Alignment explanation
Indices: 31639566--31639729 Score: 140
Period size: 23 Copynumber: 7.1 Consensus size: 23
31639556 CGGAAGAGTA
* *
31639566 TACTGTTTCAGCTCATTGGAGCT
1 TACTGTTTCAGCTCAATAGAGCT
* *
31639589 TACCGTTT-AGCTCGAA-AGAGCC
1 TACTGTTTCAGCTC-AATAGAGCT
* *
31639611 TAATG-TTCAGCTCAATAAAGCT
1 TACTGTTTCAGCTCAATAGAGCT
*
31639633 TACTGTTTCAGCTC-GTATGAGCT
1 TACTGTTTCAGCTCAATA-GAGCT
*
31639656 TACTGTTT-AGCTCGATAGAGCT
1 TACTGTTTCAGCTCAATAGAGCT
* *
31639678 TACCGTTTCAGCTTAATAGAGCT
1 TACTGTTTCAGCTCAATAGAGCT
* *
31639701 TACTATTCATCAGCTCAAGAGGAGCT
1 TACTGTT--TCAGCTCAATA-GAGCT
31639727 TAC
1 TAC
31639730 CAACCATGAC
Statistics
Matches: 112, Mismatches: 19, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
21 4 0.04
22 44 0.39
23 47 0.42
25 9 0.08
26 8 0.07
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (23 bp):
TACTGTTTCAGCTCAATAGAGCT
Found at i:31639700 original size:45 final size:45
Alignment explanation
Indices: 31639566--31639704 Score: 135
Period size: 45 Copynumber: 3.1 Consensus size: 45
31639556 CGGAAGAGTA
* * *
31639566 TACTGTTTCAGCTCATTGGAGCTTACCGTTT-AGCTCGAA-AGAGCC
1 TACTGTTT-AGCTCA-TAGAGCTTACCGTTTCAGCTCTAATAGAGCT
* * * *
31639611 TAATGTTCAGCTCAATAAAGCTTACTGTTTCAGCTCGT-AT-GAGCT
1 TACTGTTTAGCTC-ATAGAGCTTACCGTTTCAGCTC-TAATAGAGCT
31639656 TACTGTTTAGCTCGATAGAGCTTACCGTTTCAGCT-TAATAGAGCT
1 TACTGTTTAGCTC-ATAGAGCTTACCGTTTCAGCTCTAATAGAGCT
31639701 TACT
1 TACT
31639705 ATTCATCAGC
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 19 0.25
45 56 0.74
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (45 bp):
TACTGTTTAGCTCATAGAGCTTACCGTTTCAGCTCTAATAGAGCT
Found at i:31646371 original size:48 final size:48
Alignment explanation
Indices: 31646301--31646578 Score: 378
Period size: 48 Copynumber: 5.8 Consensus size: 48
31646291 GTCAGTGACA
* * * *
31646301 ATGCCATGTCCCAAACAAGGTCTTATACTAGCACACATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* * * *
31646349 ATGCCATGTCCCATACATGGTCTTACAATGGCAAACATATCATC-ACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTC-G
* * *
31646397 ATGCCATGTCCCAGACATGGTCTTACACTAGCATACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* *
31646445 ATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCATCGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* * *
31646493 ATGCCATGTCCTAGACATGGTCTTACATTGGCACACATATCATTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
* *
31646541 ATTCCATGTCCCAGACATAGTCTTACACTGGCACACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACAT
31646579 TAATATGGTG
Statistics
Matches: 204, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.00
48 202 0.99
49 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGTCG
Found at i:31650644 original size:19 final size:19
Alignment explanation
Indices: 31650617--31650656 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
31650607 TGAAAATGTG
*
31650617 TAAGTTATGCCTATAAATT
1 TAAGCTATGCCTATAAATT
*
31650636 TAAGCTATGCCTATGAATT
1 TAAGCTATGCCTATAAATT
31650655 TA
1 TA
31650657 TGATGACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (19 bp):
TAAGCTATGCCTATAAATT
Found at i:31656790 original size:23 final size:23
Alignment explanation
Indices: 31656764--31656831 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
31656754 AGTACTGTTA
31656764 TATATGCTTGAAAGTTATGTGAT
1 TATATGCTTGAAAGTTATGTGAT
31656787 TATA----TG--AG-TATTGTGA-
1 TATATGCTTGAAAGTTA-TGTGAT
*
31656803 TATATGCTTGAATGTTATGTGAT
1 TATATGCTTGAAAGTTATGTGAT
31656826 TATATG
1 TATATG
31656832 AGTATTGTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 18
0.65 0.02 0.33
Matches are distributed among these distances:
16 6 0.17
17 7 0.20
19 2 0.06
20 2 0.06
22 6 0.17
23 12 0.34
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (23 bp):
TATATGCTTGAAAGTTATGTGAT
Done.