Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 286 of 325
Found at i:88325336 original size:26 final size:26
Alignment explanation
Indices: 88325300--88325408 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
88325290 CATGAAATTC
88325300 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
88325326 TTATCATGAAACATTTACCTAACCC-
1 TTATCATGAAACATTTACCTAACCCA
* *
88325351 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
88325377 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
88325403 TTATCA
1 TTATCA
88325409 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 23 0.29
26 57 0.71
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:88325380 original size:51 final size:51
Alignment explanation
Indices: 88325299--88325400 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
88325289 ACATGAAATT
88325299 CTTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACC
1 CTTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACC
* * *
88325350 CTTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACC
1 CTTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACC
88325401 TATTATCAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (51 bp):
CTTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACC
Found at i:88329402 original size:27 final size:26
Alignment explanation
Indices: 88329364--88329479 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
88329354 CAGCATGGCT
* *
88329364 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
88329390 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
88329418 ACCAGAACAGATATATGTGGTAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
88329445 ACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
88329472 ACCAGAAC
1 ACCAGAAC
88329480 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.08
27 56 0.71
28 17 0.22
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:88329423 original size:54 final size:54
Alignment explanation
Indices: 88329364--88329479 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
88329354 CAGCATGGCT
*
88329364 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
** * * *
88329418 ACCAGAACAGATATATGTGGTAGAGCCACCAGATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
88329472 ACCAGAAC
1 ACCAGAAC
88329480 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 38 0.69
55 17 0.31
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:88331131 original size:26 final size:26
Alignment explanation
Indices: 88331095--88331204 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
88331085 CATGAAATTC
88331095 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
88331121 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
88331147 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
88331173 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
88331199 TTATCA
1 TTATCA
88331205 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:88341574 original size:20 final size:20
Alignment explanation
Indices: 88341551--88341588 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88341541 CACATCCAAA
*
88341551 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
88341571 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
88341589 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:88349432 original size:20 final size:20
Alignment explanation
Indices: 88349409--88349446 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88349399 CACATCCAAA
*
88349409 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
88349429 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
88349447 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:88354646 original size:44 final size:44
Alignment explanation
Indices: 88354597--88354709 Score: 172
Period size: 44 Copynumber: 2.6 Consensus size: 44
88354587 AAATCTCATT
88354597 TCCCTGAAGTAGCAGTGGAGCAGATTAAAGTTGAAGATCTTACC
1 TCCCTGAAGTAGCAGTGGAGCAGATTAAAGTTGAAGATCTTACC
* *
88354641 TCCCTGAAGTAGCAGTGGAGCAGATTGAAGTTGAAGATCTTATC
1 TCCCTGAAGTAGCAGTGGAGCAGATTAAAGTTGAAGATCTTACC
* * * *
88354685 TCCTTGAAGTTGTAGTGGAGTAGAT
1 TCCCTGAAGTAGCAGTGGAGCAGAT
88354710 CAGATATGGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
TCCCTGAAGTAGCAGTGGAGCAGATTAAAGTTGAAGATCTTACC
Found at i:88355687 original size:130 final size:129
Alignment explanation
Indices: 88355527--88355885 Score: 391
Period size: 130 Copynumber: 2.8 Consensus size: 129
88355517 TTAGAAGAGC
* * * *
88355527 CGAGTGAAATTTTGAAGGGATATTTGATTATTTTAAAC-AATCGAGAAATTGCTACCCAACACGT
1 CGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAAT-GAGAAATTGCAACCCAACACGT
* * * * *
88355591 TAGGGCACGATCCCATGAATTGTCAAATACCAGATATCGCCTTCGTTTTAGGGACTTTAAAAGAC
65 TAGGGCACGATCCC-TGAATTGCCAAACACCAAATATCACCTTCGTTTAAGGGACTTTAAAAGAC
88355656 A
129 A
* * * *
88355657 CGAGCGAAATTTTAAAGTGATATTCGATTATTTCGAGCAAAT-ACGAAATTGCAACCCAACACGT
1 CGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGA-GAAATTGCAACCCAACACGT
* * * *
88355721 TAGGGCACGACTCCGC-GAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGA
65 TAGGGCACGA-TCC-CTGAATTGCCAAACACCAAATATCACCTTCGTTTAAGGGACTTTAAAAGA
*
88355785 TA
128 CA
* * * * * * *
88355787 TGAATGGAATTTCGAAGGGAAATTCTATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTT
1 CGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGAGAAATTGCAACCCAACACGTT
* * *
88355852 AGGGCACGATTCCGTGAATTGCCGAACATCAAAT
66 AGGGCACGA-TCCCTGAATTGCCAAACACCAAAT
88355886 TTCGTCTTCG
Statistics
Matches: 191, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
129 1 0.01
130 183 0.96
131 6 0.03
132 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (129 bp):
CGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGAGAAATTGCAACCCAACACGTT
AGGGCACGATCCCTGAATTGCCAAACACCAAATATCACCTTCGTTTAAGGGACTTTAAAAGACA
Found at i:88355894 original size:130 final size:130
Alignment explanation
Indices: 88355571--88355898 Score: 404
Period size: 130 Copynumber: 2.5 Consensus size: 130
88355561 AAACAATCGA
* * * * * * * *
88355571 GAAATTGCTACCCAACACGTTAGGGCACGATCCCATGAATTGTCAAATACCAGATATCGCCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGTGAATTGCCAAACATCAAATATCGTCTTCG
* * * * *
88355636 TTTTAGGGACTTTAAAAGACACGAGCGAAATTTTAAAGTGATATTCGATTATTTCGAGCAAATAC
66 TTTAAGGGACTTTAAAAGACACGAACGAAATTTCAAAGGGAAATTCGATTATTTCGAGCAAATAC
* * * *
88355701 GAAATTGCAACCCAACACGTTAGGGCACGACTCCGCGAATTGCCAAACATCAAATCTCATCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGTGAATTGCCAAACATCAAATATCGTCTTCG
* * * * * * * * *
88355766 TTTAAGGGATTTTAAAAGATATGAATGGAATTTCGAAGGGAAATTCTATTATTTTGAGCAAATGC
66 TTTAAGGGACTTTAAAAGACACGAACGAAATTTCAAAGGGAAATTCGATTATTTCGAGCAAATAC
* *
88355831 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGTGAATTGCCGAACATCAAATTTCGTCTTCG
1 GAAATTGCAACCCAACACGTTAGGGCACGATTCCGTGAATTGCCAAACATCAAATATCGTCTTCG
88355896 TTT
66 TTT
88355899 TGAAGAATTT
Statistics
Matches: 167, Mismatches: 31, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
130 167 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (130 bp):
GAAATTGCAACCCAACACGTTAGGGCACGATTCCGTGAATTGCCAAACATCAAATATCGTCTTCG
TTTAAGGGACTTTAAAAGACACGAACGAAATTTCAAAGGGAAATTCGATTATTTCGAGCAAATAC
Found at i:88356253 original size:21 final size:23
Alignment explanation
Indices: 88356203--88356253 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
88356193 ACGATAATGT
*
88356203 ACATAGCATGATATAGAATAACA
1 ACATAGCAAGATATAGAATAACA
88356226 A-AT-GCAAGATATA-AA-AACA
1 ACATAGCAAGATATAGAATAACA
88356245 ACATAGCAA
1 ACATAGCAA
88356254 TTAGAAGCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 5 0.20
20 4 0.16
21 13 0.52
22 2 0.08
23 1 0.04
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.18
Consensus pattern (23 bp):
ACATAGCAAGATATAGAATAACA
Found at i:88359429 original size:44 final size:44
Alignment explanation
Indices: 88359380--88359873 Score: 772
Period size: 44 Copynumber: 11.2 Consensus size: 44
88359370 CTCAGGAACA
88359380 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * *
88359424 CCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACGGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* **
88359468 CCAAATCTGCTATCTTCGATCTACTCTCCGCCAATATGGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
88359512 CCAAATCTGCTATCTTCGATCTGCTTTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
88359556 CCAAATTTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * *
88359600 CCAAATCTGCTATCTTCAATTTGCTCTCTGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
88359644 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAAAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * * *
88359688 CCAAATTTGCTATCTTTGATCTACTCTCTGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * * *
88359732 CCAAATCTGCTACCTTTGATCTGTTCTCTGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
88359776 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * *
88359820 CCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATACAAAGAAG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
88359864 CCAAATCTGC
1 CCAAATCTGC
88359874 AGGATTTACC
Statistics
Matches: 413, Mismatches: 37, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 413 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
Found at i:88360717 original size:10 final size:9
Alignment explanation
Indices: 88360690--88360715 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
88360680 TTCTTCTCTC
88360690 TTTTTTTTA
1 TTTTTTTTA
88360699 TTTTTTTTA
1 TTTTTTTTA
88360708 TTTTTTTT
1 TTTTTTTT
88360716 TAGATTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:88372010 original size:130 final size:130
Alignment explanation
Indices: 88371648--88372014 Score: 421
Period size: 130 Copynumber: 2.8 Consensus size: 130
88371638 AGAGCCGAGT
* * * * *
88371648 GAAATTTTGAAGGGATATTTGATTATTTTAAAC-AATCGAGAAATTGCTACCCAACACGTTAGGG
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAAT-GCGAAATTGCAACCCAACACGTTAGGG
* * * * * * * * * *
88371712 CACGATCCCATGAATTGTCAAATACCAGATATCGCCTTCGTTTTAGGGGCTTTAAAAGACACGAG
65 CACGATTCCGTGAATTGCCAAACATCAAATATCGTCTTCGTTTAAGGGACTTTAAAAGACACGAA
88371777 C
130 C
* * * *
88371778 GAAATTTTAAAGTGATATTCGATTATTTCGAGCAAATGCAAAATTGCAACCCAACACGTTAGGGC
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
* * * * * * * *
88371843 ACGACTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGATATGAAT
66 ACGATTCCGTGAATTGCCAAACATCAAATATCGTCTTCGTTTAAGGGACTTTAAAAGACACGAAC
* * *
88371908 GGAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
* * *
88371973 ACGATTCTGTGAATTGCCGAACATCAAATTTCGTCTTCGTTT
66 ACGATTCCGTGAATTGCCAAACATCAAATATCGTCTTCGTTT
88372015 TGAAGAATTT
Statistics
Matches: 196, Mismatches: 40, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
130 193 0.98
131 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (130 bp):
GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
ACGATTCCGTGAATTGCCAAACATCAAATATCGTCTTCGTTTAAGGGACTTTAAAAGACACGAAC
Found at i:88375548 original size:44 final size:44
Alignment explanation
Indices: 88375500--88375993 Score: 736
Period size: 44 Copynumber: 11.2 Consensus size: 44
88375490 CTCAGGAACA
*
88375500 CCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
88375544 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACGGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * **
88375588 CCAAATCTGCTATCTTCGATCTACTCTCTGCTGATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
88375632 CCAAATCTGCTATCTTCAATCTGCTTTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
88375676 CCAAATTTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
88375720 CCAAATCTGCTATCTTCAATCTGCTCTCTGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * *
88375764 CCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAAAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * * **
88375808 CCAAATTTGCTATCTTTGATCTACTCTCTTCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * *
88375852 CCAAATCTGCTACCTTTGATCTGCTCTCTGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
88375896 CCAAATCTGCTATCTTCGATCAGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * * *
88375940 CCAAATTTGCTATCTTTGATCTGCTCTCCGCCAATACAAAGAAG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
88375984 CCAAATCTGC
1 CCAAATCTGC
88375994 AGGATTTACC
Statistics
Matches: 406, Mismatches: 44, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 406 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
Found at i:88376195 original size:52 final size:52
Alignment explanation
Indices: 88376117--88376215 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
88376107 AGTAGCAATA
*
88376117 GAGCAGATTGAATTTGAAGATCTTATCTCTCTT-AAGTAGCAGTGGAGCAGTG
1 GAGCAGATTGAAGTTGAAGATCTTATCTC-CTTGAAGTAGCAGTGGAGCAGTG
*
88376169 GAGCAGATTGAAGTTGAAGATCTTATCTCCTTGAAGTTGCAGTGGAG
1 GAGCAGATTGAAGTTGAAGATCTTATCTCCTTGAAGTAGCAGTGGAG
88376216 TAGATCAGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 3 0.07
52 41 0.93
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (52 bp):
GAGCAGATTGAAGTTGAAGATCTTATCTCCTTGAAGTAGCAGTGGAGCAGTG
Found at i:88376296 original size:44 final size:44
Alignment explanation
Indices: 88376247--88376350 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 44
88376237 TATCTTCTTG
** **
88376247 AAGTTGCAGCGAAGCAGATTGAAGCCACCGGCCTTATCTCCCTA
1 AAGTTGCAGCGAAGCAGACGGAAGCCACAAGCCTTATCTCCCTA
* * * * *
88376291 AAGTTGCAGCGGAGTAGACGGAAGTCACAAGTCTTATCTCCCTG
1 AAGTTGCAGCGAAGCAGACGGAAGCCACAAGCCTTATCTCCCTA
*
88376335 AAGATGCAGCGAAGCA
1 AAGTTGCAGCGAAGCA
88376351 AATTATAGAT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (44 bp):
AAGTTGCAGCGAAGCAGACGGAAGCCACAAGCCTTATCTCCCTA
Found at i:88378338 original size:3 final size:3
Alignment explanation
Indices: 88378330--88378429 Score: 200
Period size: 3 Copynumber: 33.3 Consensus size: 3
88378320 TTACTATATG
88378330 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
88378378 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
88378426 TAT T
1 TAT T
88378430 CACAGATCTA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 97 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:88381558 original size:29 final size:30
Alignment explanation
Indices: 88381496--88381558 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 30
88381486 ATATAATCAC
*
88381496 AATTCACATCTTTAAAATTCGAATTTTGGT
1 AATTCACATCTTTAAAATTCGAATTTTGCT
* *
88381526 -ATTCATATCTTTTAAAATT-TAATTTT-CT
1 AATTCACATC-TTTAAAATTCGAATTTTGCT
88381554 AATTC
1 AATTC
88381559 TATTTATTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.04
29 18 0.64
30 9 0.32
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.49
Consensus pattern (30 bp):
AATTCACATCTTTAAAATTCGAATTTTGCT
Found at i:88387350 original size:19 final size:20
Alignment explanation
Indices: 88387326--88387364 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
88387316 TCTCATTATT
88387326 TATTTATTTAT-TGTTTTAA
1 TATTTATTTATATGTTTTAA
*
88387345 TATTTATTTTTATGTTTTAA
1 TATTTATTTATATGTTTTAA
88387365 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TATTTATTTATATGTTTTAA
Found at i:88387352 original size:23 final size:23
Alignment explanation
Indices: 88387322--88387380 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 23
88387312 TTAGTCTCAT
88387322 TATTTATTTATTTATTGTTTTAA
1 TATTTATTTATTTATTGTTTTAA
88387345 TATTTA-TT-TTTA-TGTTTTAA
1 TATTTATTTATTTATTGTTTTAA
*
88387365 -ATGTATTTGATTTATT
1 TATTTATTT-ATTTATT
88387381 AAATTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 4 0.13
20 10 0.32
21 4 0.13
22 6 0.19
23 7 0.23
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (23 bp):
TATTTATTTATTTATTGTTTTAA
Found at i:88387406 original size:23 final size:25
Alignment explanation
Indices: 88387359--88387406 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
88387349 TATTTTTATG
*
88387359 TTTTAAATGTATTTGATTTATTAAA
1 TTTTAAATGTATTTGATTTAATAAA
*
88387384 TTTTAAA-GT-TTTTATTTAATAAA
1 TTTTAAATGTATTTGATTTAATAAA
88387407 AAAGCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 2 0.10
25 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (25 bp):
TTTTAAATGTATTTGATTTAATAAA
Found at i:88387881 original size:15 final size:16
Alignment explanation
Indices: 88387861--88387893 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
88387851 ATATATATTT
88387861 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
88387876 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
88387893 T
1 T
88387894 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:88387966 original size:21 final size:21
Alignment explanation
Indices: 88387940--88387997 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
88387930 GTTTTAAGAA
*
88387940 TTGTTTTAGTATTATTTTTAT
1 TTGTTTTAATATTATTTTTAT
*
88387961 TTGTTTTAATATTTTTTTTAT
1 TTGTTTTAATATTATTTTTAT
*
88387982 GT-TTTTAA-ATATATTT
1 TTGTTTTAATAT-TATTT
88387998 AATTTTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.06
20 10 0.31
21 20 0.62
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (21 bp):
TTGTTTTAATATTATTTTTAT
Found at i:88387975 original size:18 final size:18
Alignment explanation
Indices: 88387952--88388014 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
88387942 GTTTTAGTAT
88387952 TATTTTTATTTGTTTTAA
1 TATTTTTATTTGTTTTAA
*
88387970 TATTTTTTTTATGTTTTTAAA
1 TATTTTTATT-TG-TTTT-AA
* *
88387991 TATATTTAATT-TTTT-A
1 TATTTTTATTTGTTTTAA
88388007 TATTTTTA
1 TATTTTTA
88388015 AATTTTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
16 8 0.22
18 13 0.35
19 2 0.05
20 5 0.14
21 9 0.24
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TATTTTTATTTGTTTTAA
Found at i:88388009 original size:16 final size:17
Alignment explanation
Indices: 88387990--88388024 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
88387980 ATGTTTTTAA
88387990 ATATATTT-AATTTTTT
1 ATATATTTAAATTTTTT
*
88388006 ATATTTTTAAATTTTTT
1 ATATATTTAAATTTTTT
88388023 AT
1 AT
88388025 TTAATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATATTTAAATTTTTT
Found at i:88388733 original size:17 final size:17
Alignment explanation
Indices: 88388711--88388745 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
88388701 ACTAAAAACT
88388711 ACAAAAA-AAAAAGTAAA
1 ACAAAAACAAAAA-TAAA
88388728 ACAAAAACAAAAATAAA
1 ACAAAAACAAAAATAAA
88388745 A
1 A
88388746 TAAATGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.83, C:0.09, G:0.03, T:0.06
Consensus pattern (17 bp):
ACAAAAACAAAAATAAA
Found at i:88388760 original size:23 final size:24
Alignment explanation
Indices: 88388705--88388760 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
88388695 TACACCACTA
88388705 AAAACTACAAAAAAAAAAGTAAAAC
1 AAAAC-ACAAAAAAAAAAGTAAAAC
* **
88388730 AAAA-ACAAAAATAAAA-TAAATG
1 AAAACACAAAAAAAAAAGTAAAAC
88388752 AAAACACAA
1 AAAACACAA
88388761 GCCTAAAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 8 0.30
23 15 0.56
25 4 0.15
ACGTcount: A:0.77, C:0.11, G:0.04, T:0.09
Consensus pattern (24 bp):
AAAACACAAAAAAAAAAGTAAAAC
Found at i:88390562 original size:26 final size:25
Alignment explanation
Indices: 88390533--88390585 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
88390523 TCAAACATGC
88390533 ATTTAGGTTAATTTAACC-CTAGGGGT
1 ATTTAGG-TAATTT-ACCACTAGGGGT
*
88390559 ATTTCGGTAATTTACCTACTAGGGGT
1 ATTTAGGTAATTTACC-ACTAGGGGT
88390585 A
1 A
88390586 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 6 0.25
26 15 0.62
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (25 bp):
ATTTAGGTAATTTACCACTAGGGGT
Found at i:88392107 original size:26 final size:26
Alignment explanation
Indices: 88392071--88392180 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
88392061 CATGAAATTC
88392071 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
88392097 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
88392123 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
88392149 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
88392175 TTATCA
1 TTATCA
88392181 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:88392987 original size:23 final size:23
Alignment explanation
Indices: 88392956--88393021 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
88392946 ATACACAGAT
*
88392956 TCCAACCAAACACACC-GAAATAA
1 TCCACCCAAACACACCAG-AATAA
*
88392979 TCCACCCAAATACACCAGAATAA
1 TCCACCCAAACACACCAGAATAA
88393002 TCCACCCAAACACACCAGAA
1 TCCACCCAAACACACCAGAA
88393022 CAGCAATCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
23 38 0.97
24 1 0.03
ACGTcount: A:0.48, C:0.38, G:0.05, T:0.09
Consensus pattern (23 bp):
TCCACCCAAACACACCAGAATAA
Found at i:88394052 original size:16 final size:18
Alignment explanation
Indices: 88394026--88394058 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
88394016 TGACTCTCTC
88394026 TTTCTTTTTA-TGCTTTG
1 TTTCTTTTTATTGCTTTG
88394043 TTTC-TTTTATTGCTTT
1 TTTCTTTTTATTGCTTT
88394059 TATGTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (18 bp):
TTTCTTTTTATTGCTTTG
Found at i:88394076 original size:25 final size:25
Alignment explanation
Indices: 88394031--88394086 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
88394021 CTCTCTTTCT
*
88394031 TTTTATGCTTTGTTTCTTTTATT-G
1 TTTTATGCTTTATTTCTTTTATTAG
*
88394055 CTTTTATGTTTTATTTAC-TTTATTAG
1 -TTTTATGCTTTATTT-CTTTTATTAG
88394081 TTTTAT
1 TTTTAT
88394087 AATAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.14, C:0.07, G:0.09, T:0.70
Consensus pattern (25 bp):
TTTTATGCTTTATTTCTTTTATTAG
Found at i:88396391 original size:24 final size:24
Alignment explanation
Indices: 88396364--88396412 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
88396354 CAAGAACACT
88396364 AATGAATCCCCTTCCTCGAGGCTA
1 AATGAATCCCCTTCCTCGAGGCTA
88396388 AATGAATCCCCTTCCTCGAGGCTA
1 AATGAATCCCCTTCCTCGAGGCTA
88396412 A
1 A
88396413 CTTTCCCTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (24 bp):
AATGAATCCCCTTCCTCGAGGCTA
Found at i:88404186 original size:6 final size:6
Alignment explanation
Indices: 88404166--88404423 Score: 488
Period size: 6 Copynumber: 43.7 Consensus size: 6
88404156 TAAGTAAATA
88404166 TATATG TATAT- TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
88404213 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
88404261 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
88404309 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
88404357 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
88404405 TATAT- TATAT- TATAT- TATA
1 TATATG TATATG TATATG TATA
88404424 ATAACTAAAT
Statistics
Matches: 251, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
5 19 0.08
6 232 0.92
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:88407402 original size:42 final size:42
Alignment explanation
Indices: 88407340--88407424 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
88407330 AATTGAGTAC
* * *
88407340 GTTCAATTAATTGATTAGTGACGAATTGATGGATAAGACCAT
1 GTTCAATTAATTGATCAGTGACGAATTGAGGGATAAAACCAT
*
88407382 GTTCAATTAATTGATCAGTGATGAATTGAGGGATAAAACCAT
1 GTTCAATTAATTGATCAGTGACGAATTGAGGGATAAAACCAT
88407424 G
1 G
88407425 GTTAAATCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.32
Consensus pattern (42 bp):
GTTCAATTAATTGATCAGTGACGAATTGAGGGATAAAACCAT
Found at i:88412837 original size:46 final size:46
Alignment explanation
Indices: 88412610--88412836 Score: 294
Period size: 46 Copynumber: 4.9 Consensus size: 46
88412600 TTTGACATGA
* * * * *
88412610 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * * * * *
88412656 TGCCATGGTGTCTTTTAACCATGGTCTTATTCTTTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
88412702 TGCCATGGTATCTTTCAACCATGGTCCTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
88412748 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
88412794 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
88412837 GAGAGCACAC
Statistics
Matches: 163, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 159 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:88414941 original size:11 final size:11
Alignment explanation
Indices: 88414925--88414982 Score: 71
Period size: 11 Copynumber: 5.1 Consensus size: 11
88414915 CTAATATACA
88414925 AATAAAATAAT
1 AATAAAATAAT
88414936 AATAAAATAAT
1 AATAAAATAAT
*
88414947 AATAAAATATCTT
1 AATAAAATA--AT
* *
88414960 ATTAAAATATT
1 AATAAAATAAT
88414971 AATAAAATAAT
1 AATAAAATAAT
88414982 A
1 A
88414983 TTTATCTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
11 32 0.78
13 9 0.22
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:88414973 original size:27 final size:28
Alignment explanation
Indices: 88414941--88415011 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
88414931 ATAATAATAA
88414941 AATAATAATAAAATATCTTAT-TAAAAT
1 AATAATAATAAAATATCTTATCTAAAAT
* **
88414968 ATTAATAA-AATAATAT-TTATCTAATTT
1 AATAATAATAA-AATATCTTATCTAAAAT
*
88414995 AATAATTATAAAATATC
1 AATAATAATAAAATATC
88415012 AAAATATCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
26 6 0.17
27 27 0.77
28 2 0.06
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (28 bp):
AATAATAATAAAATATCTTATCTAAAAT
Found at i:88417624 original size:30 final size:30
Alignment explanation
Indices: 88417590--88417649 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
88417580 ACCTAATACG
88417590 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
88417620 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
88417650 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:88429357 original size:23 final size:22
Alignment explanation
Indices: 88429328--88429436 Score: 96
Period size: 22 Copynumber: 4.9 Consensus size: 22
88429318 TGATTAATAA
* *
88429328 TAAGCTCTAATGAGCTGGAACGG
1 TAAGCTCTAATGAGCT-AAACAG
*
88429351 TAAGCTCT-ATCAAGCTAAACAG
1 TAAGCTCTAAT-GAGCTAAACAG
* * *
88429373 TAAGCTATATTGAGCTGAACAG
1 TAAGCTCTAATGAGCTAAACAG
*
88429395 TAAGCTC-ATACGAGCTGAAACAG
1 TAAGCTCTA-ATGAGCT-AAACAG
*
88429418 TAAGCTCCAATGAGCTAAA
1 TAAGCTCTAATGAGCTAAA
88429437 AATAGTAAGT
Statistics
Matches: 69, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
21 1 0.01
22 36 0.52
23 31 0.45
24 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (22 bp):
TAAGCTCTAATGAGCTAAACAG
Found at i:88429387 original size:45 final size:45
Alignment explanation
Indices: 88429328--88429433 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
88429318 TGATTAATAA
* *
88429328 TAAGCTCTAATGAGCTGGAACGGTAAGCTC-TATCAAGCT-AAACAG
1 TAAGCTATAATGAGCT-GAACAGTAAGCTCATA-CAAGCTGAAACAG
* *
88429373 TAAGCTATATTGAGCTGAACAGTAAGCTCATACGAGCTGAAACAG
1 TAAGCTATAATGAGCTGAACAGTAAGCTCATACAAGCTGAAACAG
**
88429418 TAAGCTCCAATGAGCT
1 TAAGCTATAATGAGCT
88429434 AAAAATAGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 17 0.33
45 35 0.67
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (45 bp):
TAAGCTATAATGAGCTGAACAGTAAGCTCATACAAGCTGAAACAG
Found at i:88431179 original size:31 final size:31
Alignment explanation
Indices: 88431144--88431205 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
88431134 AGACATGGCC
88431144 AATGACCAATTTACCAGCTGGTACATTCTCT
1 AATGACCAATTTACCAGCTGGTACATTCTCT
* *
88431175 AATGACTAATTTGCCAGCTGGTACATTCTCT
1 AATGACCAATTTACCAGCTGGTACATTCTCT
88431206 CGAACGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (31 bp):
AATGACCAATTTACCAGCTGGTACATTCTCT
Found at i:88431979 original size:21 final size:21
Alignment explanation
Indices: 88431927--88431984 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
88431917 AAGTTAAAAT
88431927 TAATAAGTCTTAATT-AATTAA
1 TAATAAG-CTTAATTAAATTAA
* *
88431948 -ACTAAACCTTAATTAAATTAA
1 TAAT-AAGCTTAATTAAATTAA
88431969 TAATAAGCTTAATTAA
1 TAATAAGCTTAATTAA
88431985 CATAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 9 0.30
21 19 0.63
22 2 0.07
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (21 bp):
TAATAAGCTTAATTAAATTAA
Found at i:88433354 original size:31 final size:31
Alignment explanation
Indices: 88433316--88433379 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
88433306 ACCAAGATGC
88433316 TAGCAACTTATCCTGTTGTTTATGTAGTACA
1 TAGCAACTTATCCTGTTGTTTATGTAGTACA
88433347 TAGCAACTTATCCTGTTGTTTATGTAGTACA
1 TAGCAACTTATCCTGTTGTTTATGTAGTACA
88433378 TA
1 TA
88433380 CTTAGGATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (31 bp):
TAGCAACTTATCCTGTTGTTTATGTAGTACA
Found at i:88437266 original size:69 final size:69
Alignment explanation
Indices: 88437155--88437293 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 69
88437145 CGGCTCCTGG
* * * *
88437155 TAATCCACCTTTTTCCTTCACTCTGATATGCTTCATCAATCTTTGCCGAGCCTTCATCACTTTGA
1 TAATCCACCTCTTTCCTTCACTCTGATAGGCTTCATCAATCTTTGCAGAGACTTCATCACTTTGA
88437220 AGGT
66 AGGT
* * *
88437224 TAATCCACCTCTTTCCTTCACTGTGATAGGCTTCATCGATCTTTGCAGAGACTTCTTCACTTTGA
1 TAATCCACCTCTTTCCTTCACTCTGATAGGCTTCATCAATCTTTGCAGAGACTTCATCACTTTGA
88437289 AGGT
66 AGGT
88437293 T
1 T
88437294 GCAGATCTGA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (69 bp):
TAATCCACCTCTTTCCTTCACTCTGATAGGCTTCATCAATCTTTGCAGAGACTTCATCACTTTGA
AGGT
Found at i:88437526 original size:9 final size:8
Alignment explanation
Indices: 88437510--88437624 Score: 63
Period size: 8 Copynumber: 13.5 Consensus size: 8
88437500 TAAAAAATTA
88437510 ATTTTTTT
1 ATTTTTTT
88437518 ATCTTTTTT
1 AT-TTTTTT
88437527 ATTTTTTATT
1 A-TTTTT-TT
*
88437537 TTTCTTTTT
1 ATT-TTTTT
*
88437546 AAGTTTTTT
1 -ATTTTTTT
*
88437555 ATTTATTT
1 ATTTTTTT
*
88437563 A-CTTTTT
1 ATTTTTTT
*
88437570 AATTTTTT
1 ATTTTTTT
*
88437578 ATTTATTT
1 ATTTTTTT
*
88437586 A-CTTTTT
1 ATTTTTTT
*
88437593 AATTTTTT
1 ATTTTTTT
88437601 ATTTGTCCTTT
1 ATTT-T--TTT
88437612 ATTTATTTT
1 ATTT-TTTT
88437621 ATTT
1 ATTT
88437625 ATTTGTTTAT
Statistics
Matches: 82, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
7 10 0.12
8 29 0.35
9 28 0.34
10 7 0.09
11 8 0.10
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (8 bp):
ATTTTTTT
Found at i:88437531 original size:7 final size:7
Alignment explanation
Indices: 88437521--88437604 Score: 80
Period size: 7 Copynumber: 11.4 Consensus size: 7
88437511 TTTTTTTATC
88437521 TTTTTTA
1 TTTTTTA
88437528 TTTTTTA
1 TTTTTTA
*
88437535 -TTTTTC
1 TTTTTTA
*
88437541 TTTTTAA
1 TTTTTTA
88437548 GTTTTTTA
1 -TTTTTTA
88437556 TTTATTTA
1 TTT-TTTA
*
88437564 CTTTTTAA
1 -TTTTTTA
88437572 TTTTTTA
1 TTTTTTA
88437579 TTTATTTA
1 TTT-TTTA
*
88437587 CTTTTTAA
1 -TTTTTTA
88437595 TTTTTTA
1 TTTTTTA
88437602 TTT
1 TTT
88437605 GTCCTTTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
6 5 0.08
7 32 0.51
8 20 0.32
9 6 0.10
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:88437561 original size:4 final size:4
Alignment explanation
Indices: 88437552--88437635 Score: 52
Period size: 4 Copynumber: 21.5 Consensus size: 4
88437542 TTTTAAGTTT
* *
88437552 TTTA TTTA TTTA CTTT- TTAA TTT- TTTA TTTA TTTA CTTT- TTAA TTT-
1 TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA
* ** *
88437598 TTTA TTT- GTCC TTTA TTTA TTTTA TTTA TTTG TTTA TT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TT
88437636 ATTGGTCTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
3 11 0.18
4 40 0.66
5 10 0.16
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:88437601 original size:23 final size:23
Alignment explanation
Indices: 88437510--88437604 Score: 133
Period size: 23 Copynumber: 4.2 Consensus size: 23
88437500 TAAAAAATTA
* *
88437510 ATTTTTTTATCTTTTTTATTTTTT
1 ATTTATTTA-CTTTTTAATTTTTT
88437534 A-TT-TTT-CTTTTTAAGTTTTTT
1 ATTTATTTACTTTTTAA-TTTTTT
88437555 ATTTATTTACTTTTTAATTTTTT
1 ATTTATTTACTTTTTAATTTTTT
88437578 ATTTATTTACTTTTTAATTTTTT
1 ATTTATTTACTTTTTAATTTTTT
88437601 ATTT
1 ATTT
88437605 GTCCTTTATT
Statistics
Matches: 66, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
20 7 0.11
21 7 0.11
22 5 0.08
23 38 0.58
24 9 0.14
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (23 bp):
ATTTATTTACTTTTTAATTTTTT
Found at i:88437737 original size:21 final size:20
Alignment explanation
Indices: 88437711--88437756 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
88437701 TTTTTTTAAT
88437711 TTTTTTAAAATTTAAATATTA
1 TTTTTTAAAATTTAAATA-TA
*
88437732 TTTTTTAAATTTTAAATATA
1 TTTTTTAAAATTTAAATATA
88437752 TTTTT
1 TTTTT
88437757 AAATAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTTAAAATTTAAATATA
Found at i:88437847 original size:22 final size:21
Alignment explanation
Indices: 88437821--88437866 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
88437811 TTTTATTTGT
88437821 TTTATA-ATATTTTAAATATATA
1 TTTATATA-ATTTTAAATATA-A
*
88437843 TTTATTTAATTTTAAATATAA
1 TTTATATAATTTTAAATATAA
88437864 TTT
1 TTT
88437867 TTTAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 17 0.77
23 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTATATAATTTTAAATATAA
Found at i:88437870 original size:20 final size:22
Alignment explanation
Indices: 88437829--88437871 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
88437819 GTTTTATAAT
88437829 ATTTTAAATATATATTTATTTA
1 ATTTTAAATATATATTTATTTA
88437851 ATTTTAAATATA-ATTT-TTTA
1 ATTTTAAATATATATTTATTTA
88437871 A
1 A
88437872 ATTATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 12 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTAAATATATATTTATTTA
Found at i:88438062 original size:20 final size:21
Alignment explanation
Indices: 88438028--88438084 Score: 89
Period size: 20 Copynumber: 2.8 Consensus size: 21
88438018 GGCTTTTTTT
*
88438028 TAAAATATATATATTAAAAAA
1 TAAAAAATATATATTAAAAAA
88438049 TAAAAAAT-TATATTAAAAAA
1 TAAAAAATATATATTAAAAAA
*
88438069 TTAAAAATATATATTA
1 TAAAAAATATATATTA
88438085 TAATTGGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAAAATATATATTAAAAAA
Found at i:88441220 original size:5 final size:5
Alignment explanation
Indices: 88441210--88441284 Score: 57
Period size: 5 Copynumber: 15.0 Consensus size: 5
88441200 TTTGTTTTAG
* * **
88441210 ATTTT ATTTT A-TTT ATTAT -TTTT ATTTG ATGGT -TTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
*
88441257 ATTTTT ATTTTT ATTTCT AGTTT ATTTT
1 A-TTTT A-TTTT ATTT-T ATTTT ATTTT
88441285 TAGAAGTTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
4 9 0.16
5 31 0.56
6 15 0.27
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:88441236 original size:6 final size:6
Alignment explanation
Indices: 88441211--88441286 Score: 61
Period size: 6 Copynumber: 12.8 Consensus size: 6
88441201 TTGTTTTAGA
**
88441211 TTTTA- TTTTAT TTATTAT TTTTAT TTGATGGT TTTTA- TTTTA- TTTTAT
1 TTTTAT TTTTAT TT-TTAT TTTTAT TT--TTAT TTTTAT TTTTAT TTTTAT
* *
88441259 TTTTAT TTTTAT TTCTA- GTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
88441287 GAAGTTACGT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
5 18 0.32
6 29 0.51
7 6 0.11
8 4 0.07
ACGTcount: A:0.18, C:0.01, G:0.05, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:88441268 original size:17 final size:17
Alignment explanation
Indices: 88441211--88441286 Score: 75
Period size: 17 Copynumber: 4.3 Consensus size: 17
88441201 TTGTTTTAGA
88441211 TTTTATTTTATTTATTAT
1 TTTTATTTTATTT-TTAT
*
88441229 TTTTATTTGATGGTTTT-T
1 TTTTATTTTAT--TTTTAT
88441247 ATTTTATTTTATTTTTAT
1 -TTTTATTTTATTTTTAT
*
88441265 TTTTATTTCTA-GTTTAT
1 TTTTATTT-TATTTTTAT
88441282 TTTTA
1 TTTTA
88441287 GAAGTTACGT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
17 22 0.44
18 14 0.28
19 12 0.24
20 2 0.04
ACGTcount: A:0.18, C:0.01, G:0.05, T:0.75
Consensus pattern (17 bp):
TTTTATTTTATTTTTAT
Found at i:88442810 original size:92 final size:92
Alignment explanation
Indices: 88442553--88442821 Score: 353
Period size: 92 Copynumber: 2.9 Consensus size: 92
88442543 TTATTGATAA
* * * *
88442553 CAGTATAGCAGATTACCGCATTGCACTGTACCGCATGTACGTTAGCTACACTACGTACCATTAAC
1 CAGTATAGCGGATTACCGTATTGCACTGTACCGCATGTATGTTAGCTACGCTACGTACCATTAAC
*
88442618 GGAAT-TGGCAATCATACTGAAATCTAT
66 GG-ATCTGGCAGTCATACTGAAATCTAT
* * ** *
88442645 CAGTATAGCGGATTACCGTATTGCACTGTACCGCATGTATGTAAGTTACGCTATATACCGTTAAC
1 CAGTATAGCGGATTACCGTATTGCACTGTACCGCATGTATGTTAGCTACGCTACGTACCATTAAC
* *
88442710 GGAACTGGCAGTCTTACT-ACAATCTAT
66 GGATCTGGCAGTCATACTGA-AATCTAT
* * *
88442737 CAGTATAGCGGATTACTGTATTGCACTGTACCGCATGTATGTTAGCTACGCTACGTACCACTATC
1 CAGTATAGCGGATTACCGTATTGCACTGTACCGCATGTATGTTAGCTACGCTACGTACCATTAAC
*
88442802 TGATCTGGCAGTTCATACTG
66 GGATCTGGCAG-TCATACTG
88442822 CATGTCTGTA
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
91 2 0.01
92 142 0.95
93 6 0.04
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (92 bp):
CAGTATAGCGGATTACCGTATTGCACTGTACCGCATGTATGTTAGCTACGCTACGTACCATTAAC
GGATCTGGCAGTCATACTGAAATCTAT
Found at i:88444175 original size:21 final size:22
Alignment explanation
Indices: 88444143--88444261 Score: 77
Period size: 21 Copynumber: 5.3 Consensus size: 22
88444133 TCACCAAATA
**
88444143 AAATATTAATTTTTAAAAT-TTT
1 AAATA-TAATTTAAAAAATATTT
88444165 AAATATAATTTAAAAAATATTT
1 AAATATAATTTAAAAAATATTT
*
88444187 AAATAT-CTTT-AAAAATAATTT
1 AAATATAATTTAAAAAAT-ATTT
* *
88444208 AAAAATTAATAATTAAAAAA-ATAT
1 AAATA-TAAT--TTAAAAAATATTT
**
88444232 ATTTGA-AATTTAAAAAATATTT
1 AAAT-ATAATTTAAAAAATATTT
88444254 AAAATATA
1 -AAATATA
88444262 CACTTAAATA
Statistics
Matches: 74, Mismatches: 12, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
20 6 0.08
21 30 0.41
22 19 0.26
23 7 0.09
24 4 0.05
25 3 0.04
26 5 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (22 bp):
AAATATAATTTAAAAAATATTT
Found at i:88444205 original size:32 final size:30
Alignment explanation
Indices: 88444154--88444212 Score: 91
Period size: 32 Copynumber: 1.9 Consensus size: 30
88444144 AATATTAATT
*
88444154 TTTAAAATTTTAAATATAATTTAAAAAATA
1 TTTAAAATTTTAAAAATAATTTAAAAAATA
88444184 TTTAAATATCTTTAAAAATAATTTAAAAA
1 TTTAAA-AT-TTTAAAAATAATTTAAAAA
88444213 TTAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 6 0.23
31 2 0.08
32 18 0.69
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
TTTAAAATTTTAAAAATAATTTAAAAAATA
Found at i:88444211 original size:11 final size:11
Alignment explanation
Indices: 88444162--88444213 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
88444152 TTTTTAAAAT
*
88444162 TTTAAATATAA
1 TTTAAAAATAA
88444173 TTTAAAAA-ATA
1 TTTAAAAATA-A
* *
88444184 TTTAAATAT-C
1 TTTAAAAATAA
88444194 TTTAAAAATAA
1 TTTAAAAATAA
88444205 TTTAAAAAT
1 TTTAAAAAT
88444214 TAATAATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
10 9 0.27
11 24 0.73
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
TTTAAAAATAA
Found at i:88444368 original size:21 final size:22
Alignment explanation
Indices: 88444344--88444414 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 22
88444334 TATAATATTA
88444344 AAAAAATTATATTT-AAAATTT
1 AAAAAATTATATTTAAAAATTT
*
88444365 -AAAAATAATATTATAAAACATTT
1 AAAAAATTATATT-TAAAA-ATTT
* *
88444388 AAAATA-TATATTTCAAAATTT
1 AAAAAATTATATTTAAAAATTT
*
88444409 ATAAAA
1 AAAAAA
88444415 CTAATAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 11 0.28
21 9 0.22
22 7 0.17
23 9 0.22
24 4 0.10
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAAAATTATATTTAAAAATTT
Found at i:88444387 original size:23 final size:20
Alignment explanation
Indices: 88444345--88444420 Score: 73
Period size: 23 Copynumber: 3.5 Consensus size: 20
88444335 ATAATATTAA
*
88444345 AAAAATTATATTTAAAATTT
1 AAAAATAATATTTAAAATTT
88444365 AAAAATAATATTATAAAACATTT
1 AAAAATAATATT-T-AAA-ATTT
88444388 -AAAATATATATTTCAAAATTT
1 AAAAATA-ATATTT-AAAATTT
88444409 ATAAAACTAATA
1 A-AAAA-TAATA
88444421 ATAAACAAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
20 11 0.23
21 5 0.11
22 13 0.28
23 16 0.34
24 2 0.04
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATAATATTTAAAATTT
Found at i:88444444 original size:23 final size:21
Alignment explanation
Indices: 88444420--88444499 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 21
88444410 TAAAACTAAT
88444420 AATAAACAAACAAATAAATAAATA
1 AATAAA-AAACAAATAAAT-AA-A
**
88444444 AATAAAGGACAAATAAATAAA
1 AATAAAAAACAAATAAATAAA
* **
88444465 ACTTAAAAAGTAAATAAATAAA
1 A-ATAAAAAACAAATAAATAAA
88444487 AA-AAACAAACAAA
1 AATAAA-AAACAAA
88444500 AAGGAAAAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
20 3 0.07
21 7 0.16
22 18 0.41
23 10 0.23
24 6 0.14
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (21 bp):
AATAAAAAACAAATAAATAAA
Found at i:88445132 original size:26 final size:25
Alignment explanation
Indices: 88445092--88445141 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
88445082 TTTTTTTAGT
* *
88445092 TATAATTTAATAATTTATATAATAC
1 TATAATTTAAAAATTAATATAATAC
*
88445117 TATAATTTTAAAAATTAATTTAATA
1 TATAA-TTTAAAAATTAATATAATA
88445142 ACAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TATAATTTAAAAATTAATATAATAC
Found at i:88445196 original size:67 final size:64
Alignment explanation
Indices: 88445083--88445213 Score: 199
Period size: 67 Copynumber: 2.0 Consensus size: 64
88445073 TATTATAGAT
*
88445083 TTTTTTAGTTATAATTTAATAATTTATATAATACTATAATTTTAAAAATTAATTTAATAACAAAA
1 TTTTTTAGTTATAATTTAATAATTTATATAATACTATAATTTTAAAAAGTAATTTAATAA-AAAA
* * *
88445148 TTTTTTAGTTATAATTTAATAATTTGAATATATTATTATAATTTTAAAAAGTATTTTAATAAAAA
1 TTTTTTAGTTATAATTTAATAATTT--ATATAATACTATAATTTTAAAAAGTAATTTAATAAAAA
88445213 A
64 A
88445214 GTTATAAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
65 25 0.42
66 4 0.07
67 31 0.52
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (64 bp):
TTTTTTAGTTATAATTTAATAATTTATATAATACTATAATTTTAAAAAGTAATTTAATAAAAAA
Found at i:88455427 original size:33 final size:33
Alignment explanation
Indices: 88455381--88455535 Score: 168
Period size: 33 Copynumber: 4.7 Consensus size: 33
88455371 TCCGAGTGGT
* **
88455381 AAGTATACATTTCCTTTTCATTTGATATACACA
1 AAGTATACCTTTCCTTTTCAAATGATATACACA
* * * *
88455414 AAGTATTCCTTTCCTTTTTATATGGTATACACA
1 AAGTATACCTTTCCTTTTCAAATGATATACACA
* **
88455447 AAGTATACATTTCCTTTTCAAATGGCATACACA
1 AAGTATACCTTTCCTTTTCAAATGATATACACA
** *
88455480 AAGTATACCTAACATTTTCAAAT-AGTATACACA
1 AAGTATACCTTTCCTTTTCAAATGA-TATACACA
*
88455513 AAGTATACCTTTCCTTTGCAAAT
1 AAGTATACCTTTCCTTTTCAAAT
88455536 TCGATAGCCG
Statistics
Matches: 101, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
33 101 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (33 bp):
AAGTATACCTTTCCTTTTCAAATGATATACACA
Found at i:88455508 original size:66 final size:66
Alignment explanation
Indices: 88455381--88455535 Score: 193
Period size: 66 Copynumber: 2.3 Consensus size: 66
88455371 TCCGAGTGGT
** * * ** * * * *
88455381 AAGTATACATTTCCTTTTCATTTGATATACACAAAGTATTCCTTTCCTTTTTATATGGTATACAC
1 AAGTATACATTTCCTTTTCAAATGACATACACAAAGTATACCTAACATTTTCAAATAGTATACAC
88455446 A
66 A
*
88455447 AAGTATACATTTCCTTTTCAAATGGCATACACAAAGTATACCTAACATTTTCAAATAGTATACAC
1 AAGTATACATTTCCTTTTCAAATGACATACACAAAGTATACCTAACATTTTCAAATAGTATACAC
88455512 A
66 A
* *
88455513 AAGTATACCTTTCCTTTGCAAAT
1 AAGTATACATTTCCTTTTCAAAT
88455536 TCGATAGCCG
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 76 1.00
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (66 bp):
AAGTATACATTTCCTTTTCAAATGACATACACAAAGTATACCTAACATTTTCAAATAGTATACAC
A
Found at i:88455567 original size:29 final size:29
Alignment explanation
Indices: 88455525--88455649 Score: 196
Period size: 29 Copynumber: 4.3 Consensus size: 29
88455515 GTATACCTTT
* *
88455525 CCTTTGCAAATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
88455554 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
88455583 CATTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
88455612 CATTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
88455641 CCTATTCAC
1 CCTTTTCAC
88455650 TGATCAGGTA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:88455680 original size:31 final size:31
Alignment explanation
Indices: 88455540--88455835 Score: 315
Period size: 31 Copynumber: 9.7 Consensus size: 31
88455530 GCAAATTCGA
* *
88455540 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGG
* *
88455569 TAGCCGAAGCTATCCA-TTTTCAC-ATTC-GA
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGG
** *
88455598 TAGCCGAAGCTATCCA-TTTTCAC--ATTTGA
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGG
* *
88455627 TAGCCGAAGCTATCC-CTATTCACTGATCAGG
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGG
*
88455658 TAGCTGAAGCTACCACTTTTCACTAATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
* * *
88455689 TAGCCAAAGCTACTACTTTTCACTAATTAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
* *
88455720 TAGCCGAAGCTACCATTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
*
88455751 TAGCCGAAGCTACTACTTTTCACTAATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
**
88455782 TAGCCGAAGCTACCACTTTTCACTGGTCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
*
88455813 TAGCTGAAGCTACCACTTTTCAC
1 TAGCCGAAGCTACCACTTTTCAC
88455836 ATTGTACACA
Statistics
Matches: 236, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
28 1 0.00
29 74 0.31
30 2 0.01
31 159 0.67
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTAATCAGG
Found at i:88457460 original size:22 final size:22
Alignment explanation
Indices: 88457435--88457484 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
88457425 GGGGTGGGTC
*
88457435 TTGTATATGTGGATGAAGTGAT
1 TTGTATATGTGGAGGAAGTGAT
88457457 TTGTATATGTGGAGGAAGTGAT
1 TTGTATATGTGGAGGAAGTGAT
*
88457479 CTGTAT
1 TTGTAT
88457485 GTGTCGCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.26, C:0.02, G:0.32, T:0.40
Consensus pattern (22 bp):
TTGTATATGTGGAGGAAGTGAT
Found at i:88457845 original size:38 final size:38
Alignment explanation
Indices: 88457794--88457869 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
88457784 GCGACGAAGG
88457794 CTCAGCGATGACCACTCGACCGATAACTGTTTATATTT
1 CTCAGCGATGACCACTCGACCGATAACTGTTTATATTT
88457832 CTCAGCGATGACCACTCGACCGATAACTGTTTATATTT
1 CTCAGCGATGACCACTCGACCGATAACTGTTTATATTT
88457870 AGTAATTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (38 bp):
CTCAGCGATGACCACTCGACCGATAACTGTTTATATTT
Found at i:88460727 original size:17 final size:19
Alignment explanation
Indices: 88460705--88460747 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
88460695 TGGAAGCTTT
*
88460705 GGAAAAC-ATTT-ATTTTA
1 GGAAAACTATTTGATCTTA
88460722 GGAAAACTATTTGATCTTA
1 GGAAAACTATTTGATCTTA
88460741 GTGAAAA
1 G-GAAAA
88460748 TCGAGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 6 0.27
20 5 0.23
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (19 bp):
GGAAAACTATTTGATCTTA
Found at i:88464438 original size:140 final size:138
Alignment explanation
Indices: 88464159--88464562 Score: 446
Period size: 139 Copynumber: 2.9 Consensus size: 138
88464149 CGAGTTTAGT
* * *
88464159 TTCTT-TCCTACTCACATATGTATTTTTTTCGTTTTATGTTGCTTCAAGCTTTTTAAATTTTTAA
1 TTCTTCTCCTACTCACATTTGTA--TTTTT-ATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAA
* * * * *
88464223 TTCATTTTATTTAACATATTAGTT-TTTTGTTAGATAGTTAGATAGTTGCAATTATATCCTTGAG
63 TTAATATT-TTTAACATATTAGTTCTTTTGTTAGATGGTTAAATAGTTGCAATTACATCCTTGAG
*
88464287 TCTTGAATTTGA
127 TCTTCAATTTGA
*
88464299 TTCTTCTCCTACTCACATTTGTAATTTTTATTTCATTTTGCTTCAAGCTTTTTAAATTTTTAATT
1 TTCTTCTCCTACTCACATTTGT-ATTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATT
*
88464364 AATATTTTCTAACATATTAGTTCTTTTGTTAGATGGTTAAATAGTTGTAATTACATCAC-TGAGT
65 AATATTTT-TAACATATTAGTTCTTTTGTTAGATGGTTAAATAGTTGCAATTACATC-CTTGAGT
88464428 C-TCAAGTTTGA
128 CTTCAA-TTTGA
* * * * *
88464439 TTCCTCTACTATTCACATTTTGT-TTTTTATTTCGTGTTGCTTCAAGCCTTTTT---TCTTTAAT
1 TTCTTCTCCTACTCACA-TTTGTATTTTTATTTCATGTTGCTTCAAG-CTTTTTAAATTTTTAAT
* * * * * * *
88464500 TAATATTTTTAACATATTAACTCCTTTTGTCAGATGGTTAGATAATTACGATTACATCCTTGA
64 TAATATTTTTAACATATT-AGTTCTTTTGTTAGATGGTTAAATAGTTGCAATTACATCCTTGA
88464563 ATTTGAGGTT
Statistics
Matches: 229, Mismatches: 25, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
136 10 0.04
137 50 0.22
138 2 0.01
139 74 0.32
140 71 0.31
141 21 0.09
142 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (138 bp):
TTCTTCTCCTACTCACATTTGTATTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTA
ATATTTTTAACATATTAGTTCTTTTGTTAGATGGTTAAATAGTTGCAATTACATCCTTGAGTCTT
CAATTTGA
Found at i:88464692 original size:21 final size:21
Alignment explanation
Indices: 88464629--88464706 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
88464619 TTCAAGATTT
88464629 TTTTTATTTTTAATTAATGT-
1 TTTTTATTTTTAATTAATGTA
* * **
88464649 TTTGATGATGTTT--TTAAACTA
1 TTT--TTATTTTTAATTAATGTA
88464670 TTTTTATTTTTAATTAATGTA
1 TTTTTATTTTTAATTAATGTA
88464691 TTTTTATTTTTAATTA
1 TTTTTATTTTTAATTA
88464707 TTTTTATAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
19 6 0.13
20 8 0.18
21 25 0.56
22 6 0.13
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.65
Consensus pattern (21 bp):
TTTTTATTTTTAATTAATGTA
Found at i:88464798 original size:22 final size:22
Alignment explanation
Indices: 88464772--88464817 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
88464762 TTGATTTTAT
*
88464772 AAATAAAAGAGTTAAAAATAAA
1 AAATAAAAGAATTAAAAATAAA
* **
88464794 AAATACATTAATTAAAAATAAA
1 AAATAAAAGAATTAAAAATAAA
88464816 AA
1 AA
88464818 TAATTAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (22 bp):
AAATAAAAGAATTAAAAATAAA
Found at i:88466297 original size:9 final size:9
Alignment explanation
Indices: 88466285--88466309 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
88466275 TTTTTCTTAT
88466285 TTTATTTTG
1 TTTATTTTG
88466294 TTTATTTTG
1 TTTATTTTG
88466303 TTTATTT
1 TTTATTT
88466310 ATTTTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (9 bp):
TTTATTTTG
Found at i:88466315 original size:14 final size:13
Alignment explanation
Indices: 88466268--88466328 Score: 52
Period size: 14 Copynumber: 4.6 Consensus size: 13
88466258 TTTTTTAAGT
*
88466268 TTTATATTTTTT-
1 TTTATTTTTTTTA
* *
88466280 CTTATTTTATTTTG
1 TTTATTTT-TTTTA
*
88466294 TTTATTTTGTTTA
1 TTTATTTTTTTTA
88466307 TTTATTTTTTGTTA
1 TTTATTTTTT-TTA
*
88466321 TTAATTTT
1 TTTATTTT
88466329 AAAAAATTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 6 0.15
13 16 0.41
14 17 0.44
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTATTTTTTTTA
Found at i:88466373 original size:43 final size:42
Alignment explanation
Indices: 88466323--88466425 Score: 113
Period size: 43 Copynumber: 2.4 Consensus size: 42
88466313 TTTTGTTATT
88466323 AATTTTAAA-A-AATTTGAAATT-TTTTATAATATATATTTTTTAA
1 AATTTTAAATATAATTTGAAATTATTTT-TAA-AT-TATTTTTT-A
* *
88466366 AATTTTAAATATTATTTTTAAATTATTTTTAAATTATTTTTTA
1 AATTTTAAATA-TAATTTGAAATTATTTTTAAATTATTTTTTA
*
88466409 AATTTTAAATATTATTT
1 AATTTTAAATATAATTT
88466426 TTTAAATATT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
42 4 0.08
43 21 0.40
44 9 0.17
45 2 0.04
46 12 0.23
47 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (42 bp):
AATTTTAAATATAATTTGAAATTATTTTTAAATTATTTTTTA
Found at i:88466384 original size:22 final size:21
Alignment explanation
Indices: 88466344--88466449 Score: 124
Period size: 22 Copynumber: 4.8 Consensus size: 21
88466334 ATTTGAAATT
88466344 TTTTATAATATATATTTTTTAAAA
1 TTTTA-AATAT-TATTTTTT-AAA
*
88466368 TTTTAAATATTATTTTTAAATTA
1 TTTTAAATATTATTTTTTAA--A
*
88466391 TTTTTAA-ATTATTTTTTAAA
1 TTTTAAATATTATTTTTTAAA
88466411 TTTTAAATATTATTTTTTAAA
1 TTTTAAATATTATTTTTTAAA
*
88466432 TATTAAATATGTATTTTT
1 TTTTAAATAT-TATTTTT
88466450 AATAATATAA
Statistics
Matches: 73, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
20 7 0.10
21 24 0.33
22 25 0.34
23 12 0.16
24 5 0.07
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (21 bp):
TTTTAAATATTATTTTTTAAA
Found at i:88466395 original size:12 final size:11
Alignment explanation
Indices: 88466359--88466412 Score: 67
Period size: 12 Copynumber: 4.9 Consensus size: 11
88466349 TAATATATAT
88466359 TTTTTAAA--A
1 TTTTTAAATTA
*
88466368 TTTTAAATATTA
1 TTTTTAA-ATTA
88466380 TTTTTAAATTA
1 TTTTTAAATTA
88466391 TTTTTAAATTA
1 TTTTTAAATTA
88466402 TTTTTTAAATT
1 -TTTTTAAATT
88466413 TTAAATATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
9 6 0.15
10 1 0.03
11 15 0.38
12 17 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTAAATTA
Found at i:88466426 original size:43 final size:47
Alignment explanation
Indices: 88466339--88466432 Score: 144
Period size: 44 Copynumber: 2.1 Consensus size: 47
88466329 AAAAAATTTG
88466339 AAATTTTTTATAATATATATTTTTTAAAATTTTAAATATTA-TTTTT
1 AAATTTTTTATAATATATATTTTTTAAAATTTTAAATATTATTTTTT
88466385 AAATTATTTT-TAA-AT-TATTTTTT-AAATTTTAAATATTATTTTTT
1 AAATT-TTTTATAATATATATTTTTTAAAATTTTAAATATTATTTTTT
88466429 AAAT
1 AAAT
88466433 ATTAAATATG
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
43 15 0.33
44 17 0.37
45 2 0.04
46 8 0.17
47 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (47 bp):
AAATTTTTTATAATATATATTTTTTAAAATTTTAAATATTATTTTTT
Found at i:88466430 original size:14 final size:13
Alignment explanation
Indices: 88466368--88466436 Score: 57
Period size: 11 Copynumber: 5.9 Consensus size: 13
88466358 TTTTTTAAAA
88466368 TTTTAAATATTAT
1 TTTTAAATATTAT
88466381 TTTT-AA-ATTAT
1 TTTTAAATATTAT
88466392 TTTT-AA-ATTAT
1 TTTTAAATATTAT
*
88466403 TTTT---TA--AA
1 TTTTAAATATTAT
88466411 TTTTAAATATTATT
1 TTTTAAATATTA-T
88466425 TTTTAAATATTA
1 TTTTAAATATTA
88466437 AATATGTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
8 5 0.11
10 1 0.02
11 22 0.47
12 2 0.04
13 5 0.11
14 12 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:88466447 original size:43 final size:44
Alignment explanation
Indices: 88466339--88466449 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 44
88466329 AAAAAATTTG
*
88466339 AAATTTTTTATAATATATATTTTTTAAAATTTTAAATATTATTTTT
1 AAATTATTTA-AATAT-TATTTTTTAAAATTTTAAATATTATTTTT
*
88466385 AAATTATTTTTAA-ATTATTTTTT-AAATTTTAAATATTATTTTTT
1 AAATTA-TTTAAATATTATTTTTTAAAATTTTAAATATTA-TTTTT
88466429 AAA-TA-TTAAATATGTATTTTT
1 AAATTATTTAAATAT-TATTTTT
88466450 AATAATATAA
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
41 4 0.07
42 2 0.03
43 24 0.41
44 16 0.28
45 2 0.03
46 7 0.12
47 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (44 bp):
AAATTATTTAAATATTATTTTTTAAAATTTTAAATATTATTTTT
Found at i:88466456 original size:23 final size:21
Alignment explanation
Indices: 88466344--88466465 Score: 120
Period size: 21 Copynumber: 5.5 Consensus size: 21
88466334 ATTTGAAATT
88466344 TTTTATAATATATATTTTTTAAAA
1 TTTTA-AATAT-TA-TTTTTAAAA
88466368 TTTTAAATATTATTTTTAAATTA
1 TTTTAAATATTATTTTTAAA--A
* *
88466391 TTTTTAA-ATTATTTTTTAAA
1 TTTTAAATATTATTTTTAAAA
*
88466411 TTTTAAATATTATTTTTTAAA
1 TTTTAAATATTATTTTTAAAA
*
88466432 TATTAAATATGTATTTTTAATAA
1 TTTTAAATAT-TATTTTTAA-AA
* *
88466455 TATAAAATATT
1 TTTTAAATATT
88466466 TAAATATTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
20 7 0.08
21 30 0.34
22 22 0.25
23 23 0.26
24 5 0.06
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
TTTTAAATATTATTTTTAAAA
Found at i:88466533 original size:19 final size:21
Alignment explanation
Indices: 88466509--88466556 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
88466499 TTATTAGTTT
88466509 TTTAA-TAATTTA-AATATTA
1 TTTAATTAATTTATAATATTA
88466528 TTTAATTTAATTTATAATATT-
1 TTTAA-TTAATTTATAATATTA
*
88466549 TTAAATTA
1 TTTAATTA
88466557 TGATTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.20
20 3 0.12
21 11 0.44
22 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAATTAATTTATAATATTA
Found at i:88466549 original size:14 final size:14
Alignment explanation
Indices: 88466532--88466597 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 14
88466522 ATATTATTTA
*
88466532 ATTTAATTTATAAT
1 ATTTAAATTATAAT
*
88466546 ATTTTAAATTATGAT
1 A-TTTAAATTATAAT
*
88466561 TTTTAAATTATATAT
1 ATTTAAATTATA-AT
* **
88466576 ATTGAAAAAATATAT
1 ATTTAAATTATA-AT
88466591 ATTTAAA
1 ATTTAAA
88466598 ATTTAAAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
14 11 0.27
15 30 0.73
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
ATTTAAATTATAAT
Found at i:88466555 original size:21 final size:21
Alignment explanation
Indices: 88466514--88466555 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
88466504 AGTTTTTTAA
*
88466514 TAATTTAAATATTATTTAATT
1 TAATTTAAATATTATTAAATT
88466535 TAATTTATAATATT-TTAAATT
1 TAATTTA-AATATTATTAAATT
88466556 ATGATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTTAAATATTATTAAATT
Found at i:88466557 original size:15 final size:15
Alignment explanation
Indices: 88466533--88466578 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
88466523 TATTATTTAA
*
88466533 TTTAATTTATAATAT
1 TTTAAATTATAATAT
*
88466548 TTTAAATTATGAT-T
1 TTTAAATTATAATAT
88466562 TTTAAATTATATATAT
1 TTTAAATTATA-ATAT
88466578 T
1 T
88466579 GAAAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 11 0.42
15 13 0.50
16 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (15 bp):
TTTAAATTATAATAT
Found at i:88466682 original size:18 final size:18
Alignment explanation
Indices: 88466659--88466696 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
88466649 TAAAATTAAT
88466659 AATAAAAAAATAAAAATA
1 AATAAAAAAATAAAAATA
* *
88466677 AATAAATAAATAAAGATA
1 AATAAAAAAATAAAAATA
88466695 AA
1 AA
88466697 GACATGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (18 bp):
AATAAAAAAATAAAAATA
Found at i:88466974 original size:18 final size:17
Alignment explanation
Indices: 88466941--88466974 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
88466931 AAAAATTTTA
*
88466941 TTTAAAATTTTTAAAAG
1 TTTAAAATTATTAAAAG
88466958 TTTAAATATTATTAAAA
1 TTTAAA-ATTATTAAAA
88466975 ATATATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTAAAATTATTAAAAG
Found at i:88466983 original size:22 final size:21
Alignment explanation
Indices: 88466958--88467017 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
88466948 TTTTTAAAAG
88466958 TTTAAATATTATTAAAAATATA
1 TTTAAATATT-TTAAAAATATA
*
88466980 TTT-AATA-TTTAAGAATAATA
1 TTTAAATATTTTAAAAAT-ATA
*
88467000 TTTAAA-ATTTAAAAAATA
1 TTTAAATATTTTAAAAATA
88467018 ATTGCAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 7 0.22
20 9 0.28
21 13 0.41
22 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TTTAAATATTTTAAAAATATA
Found at i:88467019 original size:21 final size:20
Alignment explanation
Indices: 88466969--88467019 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
88466959 TTAAATATTA
*
88466969 TTAAAAAT-ATATTTAATAT
1 TTAAAAATAATATTTAAAAT
*
88466988 TTAAGAATAATATTTAAAAT
1 TTAAAAATAATATTTAAAAT
88467008 TTAAAAAATAAT
1 TT-AAAAATAAT
88467020 TGCAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 7 0.26
20 12 0.44
21 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TTAAAAATAATATTTAAAAT
Found at i:88467187 original size:12 final size:13
Alignment explanation
Indices: 88467158--88467204 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
88467148 CAAATTTTTT
*
88467158 AAAATTAATAACA
1 AAAAATAATAACA
88467171 AAAAATAATAAACA
1 AAAAATAAT-AACA
*
88467185 AAATAA-AATAAGA
1 AAA-AATAATAACA
88467198 AAAAATA
1 AAAAATA
88467205 TAAAACTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 2 0.07
13 15 0.52
14 10 0.34
15 2 0.07
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAAATAATAACA
Found at i:88467194 original size:17 final size:17
Alignment explanation
Indices: 88467172--88467209 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
88467162 TTAATAACAA
*
88467172 AAAATAATAAACAAA-AT
1 AAAATAAGAAA-AAATAT
88467189 AAAATAAGAAAAAATAT
1 AAAATAAGAAAAAATAT
88467206 AAAA
1 AAAA
88467210 CTTAAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (17 bp):
AAAATAAGAAAAAATAT
Found at i:88467489 original size:14 final size:15
Alignment explanation
Indices: 88467470--88467502 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
88467460 ATCTTTAAAA
88467470 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
88467484 ATAATTTAAAATATT
1 ATAATTTAAAATATT
88467499 ATAA
1 ATAA
88467503 AACAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATT
Found at i:88467610 original size:23 final size:21
Alignment explanation
Indices: 88467576--88467643 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
88467566 AAAATATTTA
* *
88467576 AATATTTTATATTATTAAAAAT
1 AATATTTAATATT-TAAAAAAT
88467598 ATATATTTAATATTTAAAAAAT
1 A-ATATTTAATATTTAAAAAAT
* *
88467620 AATATTCAAAATTTAAAAAAT
1 AATATTTAATATTTAAAAAAT
88467641 AAT
1 AAT
88467644 TTAAAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
21 21 0.51
22 9 0.22
23 11 0.27
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATTTAATATTTAAAAAAT
Found at i:88467654 original size:32 final size:34
Alignment explanation
Indices: 88467609--88467673 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
88467599 TATATTTAAT
88467609 ATTTAAAAAATAATATTCAAAA-TTTAAAAAATA
1 ATTTAAAAAATAATATTCAAAATTTTAAAAAATA
*
88467642 ATTT-AAAAATAATATTTAAAATTTTAAAAAAT
1 ATTTAAAAAATAATATTCAAAATTTTAAAAAAT
88467674 TTATATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (34 bp):
ATTTAAAAAATAATATTCAAAATTTTAAAAAATA
Found at i:88467730 original size:9 final size:9
Alignment explanation
Indices: 88467716--88467749 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
88467706 TTAATAACAA
88467716 AAAATAAAT
1 AAAATAAAT
88467725 AAAATAAAT
1 AAAATAAAT
88467734 AAACA-AAAT
1 AAA-ATAAAT
88467743 AAAATAA
1 AAAATAA
88467750 GAAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:88467733 original size:13 final size:13
Alignment explanation
Indices: 88467703--88467745 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
88467693 AAATTTTTTA
* *
88467703 AAATTAATAACAAA
1 AAATAAATAA-AAT
88467717 AAATAAATAAAAT
1 AAATAAATAAAAT
*
88467730 AAATAAACAAAAT
1 AAATAAATAAAAT
88467743 AAA
1 AAA
88467746 ATAAGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:88467747 original size:23 final size:24
Alignment explanation
Indices: 88467701--88467758 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
88467691 TCAAATTTTT
*
88467701 TAAAATTAAT-AACAAAAAATAAA
1 TAAAATAAATAAACAAAAAATAAA
*
88467724 TAAAATAAATAAACAAAATA-AAA
1 TAAAATAAATAAACAAAAAATAAA
*
88467747 TAAGAAAAAATA
1 TAA-AATAAATA
88467759 TAAAACTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (24 bp):
TAAAATAAATAAACAAAAAATAAA
Found at i:88468596 original size:21 final size:22
Alignment explanation
Indices: 88468572--88468657 Score: 74
Period size: 22 Copynumber: 4.0 Consensus size: 22
88468562 GAATAATTTG
88468572 ATATATATTTTT-TATTTTTTA
1 ATATATATTTTTATATTTTTTA
*
88468593 ATATATATATTTT-TGTTTATTT-
1 ATATATAT-TTTTATATTT-TTTA
* *
88468615 ATTTATACTTTTTAGATTTTTTA
1 ATATATA-TTTTTATATTTTTTA
*
88468638 A-AT-TATTTTTATAATTTTTA
1 ATATATATTTTTATATTTTTTA
88468658 TCTAAAAGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
20 13 0.25
21 10 0.19
22 22 0.42
23 8 0.15
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.67
Consensus pattern (22 bp):
ATATATATTTTTATATTTTTTA
Found at i:88468615 original size:23 final size:22
Alignment explanation
Indices: 88468567--88468628 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
88468557 TTTTTGAATA
*
88468567 ATTTGATATATATTTTTTATTT
1 ATTTAATATATATTTTTTATTT
*
88468589 -TTTAATATATATATTTTTGTTT
1 ATTTAATATATAT-TTTTTATTT
* *
88468611 ATTT-ATTTATACTTTTTA
1 ATTTAATATATATTTTTTA
88468629 GATTTTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 16 0.48
22 14 0.42
23 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (22 bp):
ATTTAATATATATTTTTTATTT
Found at i:88470076 original size:43 final size:43
Alignment explanation
Indices: 88470029--88470142 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 43
88470019 ACATGTTAGT
88470029 AAAAAGCTCGCCTAGCTGGAAGAGCTTTCCTGCCAACTATGCA
1 AAAAAGCTCGCCTAGCTGGAAGAGCTTTCCTGCCAACTATGCA
* ** * * * *
88470072 AAAAA-CTCACCTAGCTATAGGAGTTTTCTTGCCAATTATGCA
1 AAAAAGCTCGCCTAGCTGGAAGAGCTTTCCTGCCAACTATGCA
** * * *
88470114 AAAAAGAACGTCTAGCTGGACGTGCTTTC
1 AAAAAGCTCGCCTAGCTGGAAGAGCTTTC
88470143 ATGCTTTCTT
Statistics
Matches: 54, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
42 35 0.65
43 19 0.35
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (43 bp):
AAAAAGCTCGCCTAGCTGGAAGAGCTTTCCTGCCAACTATGCA
Found at i:88470253 original size:2 final size:2
Alignment explanation
Indices: 88470246--88470279 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
88470236 AGCCATTTTA
88470246 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88470280 CAAAATTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88471577 original size:15 final size:15
Alignment explanation
Indices: 88471559--88471590 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
88471549 CATTTTATTA
*
88471559 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
88471574 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
88471589 TT
1 TT
88471591 TGCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:88473301 original size:21 final size:21
Alignment explanation
Indices: 88473208--88473334 Score: 94
Period size: 21 Copynumber: 6.0 Consensus size: 21
88473198 TTTAACTCTC
* * * *
88473208 ATGAGCTTCTGTTTAACTCAT
1 ATGAGTTTCTGTTCAACCCTT
* *
88473229 ATGAGTTTCCGTTCAACCCTA
1 ATGAGTTTCTGTTCAACCCTT
* * * *
88473250 ATGGGTTTCTGTACAGCTC-T
1 ATGAGTTTCTGTTCAACCCTT
*
88473270 ATTGAGCTTCTGTTCAACCCTT
1 A-TGAGTTTCTGTTCAACCCTT
* * *
88473292 ATGGGTTTCTGTTCAGCTCTT
1 ATGAGTTTCTGTTCAACCCTT
* *
88473313 ATGAGCTTCCGTTCAACCCTT
1 ATGAGTTTCTGTTCAACCCTT
88473334 A
1 A
88473335 CAGGTTTCTG
Statistics
Matches: 78, Mismatches: 26, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 1 0.01
21 75 0.96
22 2 0.03
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.39
Consensus pattern (21 bp):
ATGAGTTTCTGTTCAACCCTT
Found at i:88473356 original size:42 final size:42
Alignment explanation
Indices: 88473214--88473357 Score: 173
Period size: 42 Copynumber: 3.4 Consensus size: 42
88473204 TCTCATGAGC
* * * * *
88473214 TTCTGTTTAACTCATATGAGTTTCCGTTCAACCCTAATGGGT
1 TTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGT
* *
88473256 TTCTGTACAGCTC-TATTGAGCTTCTGTTCAACCCTTATGGGT
1 TTCTGTTCAGCTCTTA-TGAGCTTCCGTTCAACCCTTATGGGT
**
88473298 TTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTACAGGT
1 TTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGT
* *
88473340 TTCTGTTTAGCACTTATG
1 TTCTGTTCAGCTCTTATG
88473358 TGTTTTTATT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.02
42 84 0.95
43 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (42 bp):
TTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGT
Found at i:88475708 original size:48 final size:48
Alignment explanation
Indices: 88475650--88475746 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
88475640 ATTCTAAAAA
*
88475650 TAATATTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATCT
1 TAATAGTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATCT
* * **
88475698 TAATAGTATTTTATTAGTTTGATATTAAATTTAATTTAATGTTTATCT
1 TAATAGTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATCT
88475746 T
1 T
88475747 GTAGATAAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (48 bp):
TAATAGTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATCT
Found at i:88478477 original size:2 final size:2
Alignment explanation
Indices: 88478470--88478497 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
88478460 TACTGCCCAA
88478470 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
88478498 TGACAAAGAT
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):
AT
Found at i:88489842 original size:12 final size:12
Alignment explanation
Indices: 88489789--88489878 Score: 60
Period size: 12 Copynumber: 7.2 Consensus size: 12
88489779 TAAATTGAGA
88489789 TAAATATTAAAT
1 TAAATATTAAAT
*
88489801 TAAAT-TTAAAA
1 TAAATATTAAAT
88489812 TAATACTTATTAAGA-
1 TAA-A--TATTAA-AT
88489827 TAAATATTAAAT
1 TAAATATTAAAT
88489839 TAAAT-TTAATAT
1 TAAATATTAA-AT
* * *
88489851 TAAGATAATCACT
1 TAA-ATATTAAAT
*
88489864 TTAATATTAAAT
1 TAAATATTAAAT
88489876 TAA
1 TAA
88489879 TAAAATACAA
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
11 13 0.22
12 30 0.50
13 5 0.08
14 4 0.07
15 7 0.12
16 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:88489879 original size:20 final size:18
Alignment explanation
Indices: 88489829--88489880 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
88489819 TATTAAGATA
88489829 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
88489846 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
88489866 AATATTAAATTAATA
1 AATATTAAATTAATA
88489881 AAATACAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:88493720 original size:26 final size:26
Alignment explanation
Indices: 88493689--88493789 Score: 168
Period size: 26 Copynumber: 3.9 Consensus size: 26
88493679 TTGATAAAAT
88493689 GTTAGGTAAATGTTCCATGATAATAGG
1 GTTAGGTAAATGTTCCATGATAAT-GG
88493716 G-TAGGTAAATGTTCCATGATAATGG
1 GTTAGGTAAATGTTCCATGATAATGG
*
88493741 GTTAGGTAAATGTTTCATGATAATGG
1 GTTAGGTAAATGTTCCATGATAATGG
*
88493767 GTTAGGTAAATGTTTCATGATAA
1 GTTAGGTAAATGTTCCATGATAA
88493790 GAATTTCATG
Statistics
Matches: 72, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
25 3 0.04
26 68 0.94
27 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
GTTAGGTAAATGTTCCATGATAATGG
Found at i:88499363 original size:26 final size:26
Alignment explanation
Indices: 88499326--88499434 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
88499316 TGATACAAAT
88499326 TGATAA-AGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
88499351 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
88499377 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
88499403 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
88499429 TGATAA
1 TGATAA
88499435 GAATTTCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 6 0.07
26 75 0.93
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:88505154 original size:21 final size:21
Alignment explanation
Indices: 88505130--88505189 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
88505120 TGATAAAGGT
88505130 TAGGTAAATGTTCCATGATAA
1 TAGGTAAATGTTCCATGATAA
*
88505151 TAGGTAAATG-T--ATGGGT--
1 TAGGTAAATGTTCCAT-GATAA
88505168 TAGGTAAATGTTCCATGATAA
1 TAGGTAAATGTTCCATGATAA
88505189 T
1 T
88505190 GGGTTAGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
17 10 0.32
18 3 0.10
19 4 0.13
20 3 0.10
21 11 0.35
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (21 bp):
TAGGTAAATGTTCCATGATAA
Found at i:88505198 original size:26 final size:26
Alignment explanation
Indices: 88505162--88505240 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
88505152 AGGTAAATGT
*
88505162 ATGGGTTAGGTAAATGTTCCATGATA
1 ATGGGTTAGGTAAATGTTTCATGATA
88505188 ATGGGTTAGGTAAATGTTTCATGATA
1 ATGGGTTAGGTAAATGTTTCATGATA
88505214 ATGGGTTAGGTAAATGTTTCATGATA
1 ATGGGTTAGGTAAATGTTTCATGATA
88505240 A
1 A
88505241 GAATTTCATG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.37
Consensus pattern (26 bp):
ATGGGTTAGGTAAATGTTTCATGATA
Found at i:88510253 original size:24 final size:25
Alignment explanation
Indices: 88510184--88510257 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
88510174 TGTAAGCTTG
* *
88510184 TAACGGAAAGCTTATCTGG-GCTTAA
1 TAACAGAAAGCTTAT-AGGAGCTTAA
* *
88510209 TAACAGGAAGCTTATAAGAGCTTAA
1 TAACAGAAAGCTTATAGGAGCTTAA
* *
88510234 -ATCAGAAAGCTTATGGGAGCTTAA
1 TAACAGAAAGCTTATAGGAGCTTAA
88510258 CGGGTAGCTC
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 21 0.52
25 19 0.47
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (25 bp):
TAACAGAAAGCTTATAGGAGCTTAA
Found at i:88512383 original size:13 final size:13
Alignment explanation
Indices: 88512365--88512391 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88512355 GGATTCCTCA
88512365 CATGGGCGTGTCC
1 CATGGGCGTGTCC
88512378 CATGGGCGTGTCC
1 CATGGGCGTGTCC
88512391 C
1 C
88512392 TTTGGCAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.33, G:0.37, T:0.22
Consensus pattern (13 bp):
CATGGGCGTGTCC
Found at i:88516609 original size:15 final size:15
Alignment explanation
Indices: 88516589--88516619 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88516579 CATACAAAGC
88516589 TTCATAAGGTGTCAT
1 TTCATAAGGTGTCAT
*
88516604 TTCATAAGGTTTCAT
1 TTCATAAGGTGTCAT
88516619 T
1 T
88516620 AGGATGATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (15 bp):
TTCATAAGGTGTCAT
Found at i:88527852 original size:20 final size:20
Alignment explanation
Indices: 88527810--88527858 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
88527800 TTCCCCTTAA
* *
88527810 ATTGTTTTATTTATAAGATT
1 ATTGTTTTATTTATAAAAAT
88527830 ATTGTTTTATTTATAAAAAT
1 ATTGTTTTATTTATAAAAAT
*
88527850 ATTATTTTA
1 ATTGTTTTA
88527859 ATAATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
ATTGTTTTATTTATAAAAAT
Done.