Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 110 of 322
Found at i:35691233 original size:15 final size:15
Alignment explanation
Indices: 35691213--35691245 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
35691203 ATAGAAAAAC
35691213 CCAGAATAAAGAAAT
1 CCAGAATAAAGAAAT
35691228 CCAGAATAAAGAAAT
1 CCAGAATAAAGAAAT
35691243 CCA
1 CCA
35691246 AAAATAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (15 bp):
CCAGAATAAAGAAAT
Found at i:35691254 original size:15 final size:16
Alignment explanation
Indices: 35691217--35691261 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
35691207 AAAAACCCAG
*
35691217 AATAAAGAAATCC-AG
1 AATAAAGAAATCCAAA
35691232 AATAAAGAAATCCAAA
1 AATAAAGAAATCCAAA
*
35691248 AAT-AAGAAACCCAA
1 AATAAAGAAATCCAA
35691262 GATACGATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 23 0.85
16 4 0.15
ACGTcount: A:0.64, C:0.16, G:0.09, T:0.11
Consensus pattern (16 bp):
AATAAAGAAATCCAAA
Found at i:35694340 original size:49 final size:49
Alignment explanation
Indices: 35694268--35694461 Score: 212
Period size: 50 Copynumber: 3.9 Consensus size: 49
35694258 GCCGAAGCTA
* *
35694268 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
35694317 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** * * *
35694367 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
35694415 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
35694462 TCACAATAGA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 38 0.31
50 41 0.34
51 40 0.33
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:35694452 original size:101 final size:99
Alignment explanation
Indices: 35694279--35694465 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 99
35694269 CTGGTACGCA
* * *
35694279 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
35694344 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
35694378 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
35694442 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
35694466 AATAGATCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.39
101 43 0.56
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:35702058 original size:27 final size:27
Alignment explanation
Indices: 35702027--35702182 Score: 147
Period size: 27 Copynumber: 5.8 Consensus size: 27
35702017 TTAGTTTACC
*
35702027 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTCAAATACCCTCAATTTGTA
* * *
35702054 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTCAAA-TACCCTCAATTTGTA
* * *
35702081 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATACCCTCAATTTGTA
* *
35702108 AAATTA-TCGAAATACCCTCAGTTTGCA
1 AAATTACTC-AAATACCCTCAATTTGTA
* * **
35702135 AAATTACTGAAATACCCTCGACATGTA
1 AAATTACTCAAATACCCTCAATTTGTA
35702162 AAATTA-TCAAAGTACCCTCAA
1 AAATTACTCAAA-TACCCTCAA
35702183 ATTACAAAAA
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
26 8 0.08
27 91 0.88
28 5 0.05
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACTCAAATACCCTCAATTTGTA
Found at i:35702109 original size:54 final size:54
Alignment explanation
Indices: 35702019--35702213 Score: 187
Period size: 54 Copynumber: 3.6 Consensus size: 54
35702009 AGAATACTTT
* *
35702019 AGTTTACCAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAGTACCCCC
1 AGTTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCC
* ** * * *
35702073 -GATTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTC
1 AG-TTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTA-CCAAAGTACCCCC
* ** * *
35702127 AGTTTGCAAAATTACTGAAATACCCTCGACATGTAAAATTATCAAAGTACCCTC
1 AGTTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCC
** ***
35702181 AAATTACAAAAATTACTGTTTTACCCTCGATTT
1 AGTTTAC-AAAATTACTGAAATACCCTCGATTT
35702214 ACAGNNTGAT
Statistics
Matches: 111, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
53 4 0.04
54 82 0.74
55 25 0.23
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
AGTTTACAAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCC
Found at i:35702551 original size:6 final size:6
Alignment explanation
Indices: 35702540--35702602 Score: 58
Period size: 6 Copynumber: 10.3 Consensus size: 6
35702530 CTGTCACCTA
* * *
35702540 ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
35702589 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
35702603 AATGTTTCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
5 2 0.04
6 39 0.85
7 4 0.09
8 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:35702555 original size:25 final size:25
Alignment explanation
Indices: 35702515--35702581 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
35702505 CCTGATACTG
* *
35702515 ATTCTGACTCTAATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
*
35702540 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
35702565 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
35702582 CATTTTGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.45
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:35702575 original size:31 final size:30
Alignment explanation
Indices: 35702484--35702581 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 30
35702474 TTGCATTCAC
* * *
35702484 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGAT-CTG
* *
35702515 ATTCTGACTCTAATTCTGTCACCT-A----
1 ATTCTGATTCTGATTCTGTCACCTGATCTG
35702540 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGA-TCTG
35702571 ATTCTGATTCT
1 ATTCTGATTCT
35702582 CATTTTGATT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
25 22 0.41
26 1 0.02
30 1 0.02
31 30 0.56
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.46
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACCTGATCTG
Found at i:35709290 original size:21 final size:21
Alignment explanation
Indices: 35709240--35709317 Score: 65
Period size: 21 Copynumber: 3.7 Consensus size: 21
35709230 GGTCCAAACC
*
35709240 CCGTGTGAAGT-GTAGCACACAA
1 CCGTGTGAAGTAG--GCACACGA
*
35709262 CCGCGTGACAG-AGGCACAC-A
1 CCGTGTGA-AGTAGGCACACGA
*
35709282 CCTGTGTGAAGTAGGGACACGA
1 CC-GTGTGAAGTAGGCACACGA
35709304 CCGTGTGAA-TAGGC
1 CCGTGTGAAGTAGGC
35709318 CATGTAACTC
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 9 0.19
21 25 0.53
22 10 0.21
23 3 0.06
ACGTcount: A:0.28, C:0.24, G:0.32, T:0.15
Consensus pattern (21 bp):
CCGTGTGAAGTAGGCACACGA
Found at i:35712458 original size:85 final size:85
Alignment explanation
Indices: 35712321--35712483 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 85
35712311 ATCTGAGATA
** * * *
35712321 TCGTGTAAGACTGTGTCTGGGACACAAGCCTCGATTGATATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACACAAGCATCGATTGATATTTACGTATAAGACCAAGTCAGGGA
*
35712386 CATTGGCATTGTATCTAATT
66 CATCGGCATTGTATCTAATT
* * *
35712406 TCGTGTAAGACCCTGTCTGGGACAGAAGCATCGATATTGA-A-TTACTTGTAAGACCAAGTCAGG
1 TCGTGTAAGACCCTGTCTGGGACACAAGCATCG--ATTGATATTTACGTATAAGACCAAGTCAGG
35712469 GACATCGGCATTGTA
64 GACATCGGCATTGTA
35712484 CTTGTTTGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 61 0.91
86 1 0.01
87 5 0.07
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACACAAGCATCGATTGATATTTACGTATAAGACCAAGTCAGGGA
CATCGGCATTGTATCTAATT
Found at i:35722288 original size:16 final size:15
Alignment explanation
Indices: 35722262--35722293 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
35722252 GCTAGATCGG
35722262 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
35722277 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
35722293 C
1 C
35722294 GGTATTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.28, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:35722581 original size:28 final size:28
Alignment explanation
Indices: 35722541--35722633 Score: 152
Period size: 28 Copynumber: 3.3 Consensus size: 28
35722531 ATGTACTAAA
35722541 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
35722569 ATACTCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
35722597 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
35722625 ATACCCCTA
1 ATACCCCTA
35722634 GGGTTAATTT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 1 0.02
28 60 0.98
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:35722797 original size:27 final size:27
Alignment explanation
Indices: 35722739--35722828 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
35722729 AGGAAGCGTC
35722739 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
35722767 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
35722794 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
35722823 CTGGTG
1 CTGGTG
35722829 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:35722847 original size:55 final size:56
Alignment explanation
Indices: 35722739--35722853 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
35722729 AGGAAGCGTC
* *
35722739 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
35722794 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
35722850 CTGG
1 CTGG
35722854 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:35723316 original size:19 final size:19
Alignment explanation
Indices: 35723292--35723330 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
35723282 TTTTAATTAT
* *
35723292 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
35723311 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
35723330 T
1 T
35723331 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:35733196 original size:10 final size:11
Alignment explanation
Indices: 35733181--35733228 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
35733171 ATTTTGATGT
*
35733181 ACATGATTTG-
1 ACATGATATGC
35733191 ACATGATATGC
1 ACATGATATGC
35733202 ACATGATATG-
1 ACATGATATGC
*
35733212 -TATGATATGC
1 ACATGATATGC
35733222 ACATGAT
1 ACATGAT
35733229 GTATTCATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:35733575 original size:31 final size:30
Alignment explanation
Indices: 35733540--35733652 Score: 140
Period size: 31 Copynumber: 3.7 Consensus size: 30
35733530 TGTTTACAGT
35733540 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGT-ATATGAATAATGA
*
35733571 AAAGGCTTCGGCCCAGTGATATGAATTATGA
1 AAAGGCTTCGGCCCAGT-ATATGAATAATGA
* **
35733602 AAAGGCTTCAGCCCAGTA-ATCGTTTAATG-
1 AAAGGCTTCGGCCCAGTATAT-GAATAATGA
*
35733631 AAAGGCTTCGGCCTAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
35733653 TTGAGGCTGA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
29 19 0.26
30 8 0.11
31 46 0.63
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGAATAATGA
Found at i:35738608 original size:27 final size:27
Alignment explanation
Indices: 35738578--35738750 Score: 195
Period size: 27 Copynumber: 6.4 Consensus size: 27
35738568 GGGGCAAAAT
* * *
35738578 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
35738605 GGTAATTCTACCCTA-TAGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* *
35738632 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
35738659 TGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
35738686 AATAATTCTACCCTACAGGGGAATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
35738713 GGTAATTCTACCCTACAGGGGAATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
35738740 GATAATTCTAC
1 GGTAATTCTAC
35738751 AACTTATCCA
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.03
27 120 0.94
28 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:35738644 original size:54 final size:54
Alignment explanation
Indices: 35738580--35738750 Score: 225
Period size: 54 Copynumber: 3.2 Consensus size: 54
35738570 GGCAAAATGG
* * * * * *
35738580 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGTTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
* * * *
35738634 TATTTCTACCCTATAAGGGTATTTCTGTAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
* * *
35738688 TAATTCTACCCTACAGGGGAATTTCGGTAATTCTACCCTACAGGGGAATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
35738742 TAATTCTAC
1 TAATTCTAC
35738751 AACTTATCCA
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 100 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA
Found at i:35745472 original size:26 final size:27
Alignment explanation
Indices: 35745443--35745496 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
35745433 TCACACAAGT
*
35745443 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
35745469 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
35745496 T
1 T
35745497 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:35745527 original size:27 final size:27
Alignment explanation
Indices: 35745497--35745669 Score: 211
Period size: 27 Copynumber: 6.4 Consensus size: 27
35745487 GGGGCAAAAT
* * *
35745497 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
35745524 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
35745551 GGTATTTCTACCCTACAAGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
35745578 GGTAATTCTATCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
35745605 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
35745632 AATAATTCTACCCTACAGGGGAATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
35745659 AGTAATTCTAC
1 GGTAATTCTAC
35745670 AACTTATCCA
Statistics
Matches: 128, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:35746080 original size:65 final size:65
Alignment explanation
Indices: 35746001--35746125 Score: 223
Period size: 65 Copynumber: 1.9 Consensus size: 65
35745991 TGCCGTCCCA
35746001 ACATAGCAAAATAATCAACCTTTGCATGCCAAGGGATTCAAACCAAAGTCCTCTCACATGGCGTG
1 ACATAGCAAAATAATCAACCTTTGCATGCCAAGGGATTCAAACCAAAGTCCTCTCACATGGCGTG
* **
35746066 ACATAGCAAAATAATCAACCTTTGCGTGCCAAGGGATTTGAACCAAAGTCCTCTCACATG
1 ACATAGCAAAATAATCAACCTTTGCATGCCAAGGGATTCAAACCAAAGTCCTCTCACATG
35746126 CCAACTCACG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (65 bp):
ACATAGCAAAATAATCAACCTTTGCATGCCAAGGGATTCAAACCAAAGTCCTCTCACATGGCGTG
Found at i:35751382 original size:40 final size:40
Alignment explanation
Indices: 35751312--35751569 Score: 405
Period size: 40 Copynumber: 6.5 Consensus size: 40
35751302 AACCCAAGTA
* *
35751312 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
35751351 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
35751391 CCTTTGGGACTTAGCCCGGATATCGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35751431 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
35751471 CCTTCGGGACTTAGCCCGGTTATCA-TAACTCACACAAATT
1 CCTTCGGGACTTAGCCCGGATAT-AGTAACTCGCACAAATG
*
35751511 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35751551 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35751570 TTATCATCCG
Statistics
Matches: 201, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 15 0.07
40 185 0.92
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35755901 original size:52 final size:51
Alignment explanation
Indices: 35755833--35755964 Score: 187
Period size: 50 Copynumber: 2.6 Consensus size: 51
35755823 ATGAATAGAT
*
35755833 GAGTTACTTAATGCATGACTTAATTTAATGATGCT-AACTTTAACTAACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATG-TAAAC-TTAACTAACATGA
* * *
35755885 GAGTTACATAAAGCATGTCATAATTT-ATGATGTAAACTTAACTAACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATGTAAACTTAACTAACATGA
*
35755935 GAGTTACATAATGCATGACTTTATTTAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
35755965 CAAAACACAT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
50 36 0.51
51 12 0.17
52 22 0.31
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGTAAACTTAACTAACATGA
Found at i:35757926 original size:20 final size:21
Alignment explanation
Indices: 35757903--35757951 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
35757893 TTTCTTTCAA
35757903 TTTTTTTTCTCTC-ATTTCTT
1 TTTTTTTTCTCTCAATTTCTT
*
35757923 TTTTTCTTCTCTCAATTTCTT
1 TTTTTTTTCTCTCAATTTCTT
*
35757944 TTATTTTT
1 TTTTTTTT
35757952 AACTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTTTTCTCTCAATTTCTT
Found at i:35757950 original size:25 final size:24
Alignment explanation
Indices: 35757886--35757951 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 24
35757876 TTCTTTCAAG
* *
35757886 CTCTCATTTTCTTTCAATTTTTTTT
1 CTCTCAATTTCTTT-TATTTTTTTT
*
35757911 CTCTC-ATTTC--TT-TTTTTCTT
1 CTCTCAATTTCTTTTATTTTTTTT
35757931 CTCTCAATTTCTTTTATTTTT
1 CTCTCAATTTCTTTTATTTTT
35757952 AACTTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
20 12 0.35
21 5 0.15
22 1 0.03
23 2 0.06
24 9 0.26
25 5 0.15
ACGTcount: A:0.11, C:0.21, G:0.00, T:0.68
Consensus pattern (24 bp):
CTCTCAATTTCTTTTATTTTTTTT
Found at i:35758638 original size:38 final size:39
Alignment explanation
Indices: 35758595--35758743 Score: 210
Period size: 39 Copynumber: 3.8 Consensus size: 39
35758585 GTTTTAAGTC
* * *
35758595 TTTAATTATATCATAATTTTAACATCATTAATATGAG-T
1 TTTAATTATGTCATAATTTGAACATCATTAATAAGAGTT
*
35758633 TTTAATTATGTCATAATCTGAACATCATTAATAAGAGTT
1 TTTAATTATGTCATAATTTGAACATCATTAATAAGAGTT
* *
35758672 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGTT
1 TTTAATTATGTCATAATTTGAACATCATTAATAAGAGTT
* * *
35758711 TTTAATTATGTCATAGTTTGGACATCTTTAATA
1 TTTAATTATGTCATAATTTGAACATCATTAATA
35758744 CATGCTTTTA
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 33 0.33
39 66 0.67
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (39 bp):
TTTAATTATGTCATAATTTGAACATCATTAATAAGAGTT
Found at i:35758686 original size:77 final size:78
Alignment explanation
Indices: 35758595--35758743 Score: 210
Period size: 77 Copynumber: 1.9 Consensus size: 78
35758585 GTTTTAAGTC
* * **
35758595 TTTAATTATATCATAATTTTAACATCATTAATATGAG-TTTTAATTATGTCATAATCTGAACATC
1 TTTAATTATATCATAACTTGAACATCATTAATAAAAGTTTTTAATTATGTCATAATCTGAACATC
35758659 ATTAATAAGAGTT
66 ATTAATAAGAGTT
* * * *
35758672 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGTTTTTAATTATGTCATAGTTTGGACATC
1 TTTAATTATATCATAACTTGAACATCATTAATAAAAGTTTTTAATTATGTCATAATCTGAACATC
*
35758737 TTTAATA
66 ATTAATA
35758744 CATGCTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
77 32 0.52
78 30 0.48
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (78 bp):
TTTAATTATATCATAACTTGAACATCATTAATAAAAGTTTTTAATTATGTCATAATCTGAACATC
ATTAATAAGAGTT
Found at i:35758760 original size:39 final size:39
Alignment explanation
Indices: 35758595--35758760 Score: 174
Period size: 39 Copynumber: 4.3 Consensus size: 39
35758585 GTTTTAAGTC
* * * **
35758595 TTTAATTATATCATAATTTTAACATCATTAATATGAG-T
1 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGCT
* *
35758633 TTTAATTATGTCATAA-TCTGAACATCATTAATAAGAGTT
1 TTTAATTATGTCATAACT-TGAACATCATTAATAAAAGCT
*
35758672 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGTT
1 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGCT
** * * * *
35758711 TTTAATTATGTCATAGTTTGGACATCTTTAATACATGCT
1 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGCT
*
35758750 TTTAAGTATGT
1 TTTAATTATGT
35758761 TTAAATTCTA
Statistics
Matches: 113, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.01
38 32 0.28
39 79 0.70
40 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45
Consensus pattern (39 bp):
TTTAATTATGTCATAACTTGAACATCATTAATAAAAGCT
Found at i:35758760 original size:78 final size:77
Alignment explanation
Indices: 35758595--35758760 Score: 199
Period size: 78 Copynumber: 2.1 Consensus size: 77
35758585 GTTTTAAGTC
* * * **
35758595 TTTAATTATATCATAATTTTAACATCATTAATATGAGTTTTAATTATGTCATAATCTGAACATCA
1 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGTTTTAATTATGTCATAATCTGAACATCA
*
35758660 TTAATAAGAGTT
66 TTAATAAGAGCT
* * *
35758672 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGTTTTTAATTATGTCATAGTTTGGACATC
1 TTTAATTATGTCATAACTTGAACATCATTAATAAAAG-TTTTAATTATGTCATAATCTGAACATC
* *
35758737 TTTAATACA-TGCT
65 ATTAATA-AGAGCT
*
35758750 TTTAAGTATGT
1 TTTAATTATGT
35758761 TTAAATTCTA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
77 32 0.43
78 42 0.56
79 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45
Consensus pattern (77 bp):
TTTAATTATGTCATAACTTGAACATCATTAATAAAAGTTTTAATTATGTCATAATCTGAACATCA
TTAATAAGAGCT
Found at i:35758774 original size:78 final size:77
Alignment explanation
Indices: 35758595--35758781 Score: 189
Period size: 78 Copynumber: 2.4 Consensus size: 77
35758585 GTTTTAAGTC
* * * **
35758595 TTTAATTATATCATAATTTTAACATCATTAATATGAGTTTTAATTATGTCATAATCTGAACATCA
1 TTTAAGTATGTCATAAATTTAACATCATTAATAAAAGTTTTAATTATGTCATAATCTGAACATCA
*
35758660 TTAATAAGAGTT
66 TTAATAAGAGCT
* * * * * *
35758672 TTTAATTATGTCATAACTTGAACATCATTAATAAAAGTTTTTAATTATGTCATAGTTTGGACATC
1 TTTAAGTATGTCATAAATTTAACATCATTAATAAAAG-TTTTAATTATGTCATAATCTGAACATC
* *
35758737 TTTAATACA-TGCT
65 ATTAATA-AGAGCT
* *
35758750 TTTAAGTATGT-TTAAATTCTAACATCTTTAAT
1 TTTAAGTATGTCATAAATT-TAACATCATTAAT
35758782 GTTTGTTTAA
Statistics
Matches: 91, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
77 37 0.41
78 53 0.58
79 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (77 bp):
TTTAAGTATGTCATAAATTTAACATCATTAATAAAAGTTTTAATTATGTCATAATCTGAACATCA
TTAATAAGAGCT
Found at i:35760771 original size:27 final size:28
Alignment explanation
Indices: 35760741--35760810 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
35760731 ATATTAAGTC
*
35760741 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
35760768 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
35760796 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35760811 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:35768805 original size:28 final size:28
Alignment explanation
Indices: 35768741--35768839 Score: 137
Period size: 27 Copynumber: 3.5 Consensus size: 28
35768731 TATATTAAGT
*
35768741 TCGCACACTCAGTGCTATATAATC-AAC
1 TCGCACACTTAGTGCTATATAATCAAAC
35768768 TCGCACACTTAGTGCTATATAATCAAAC
1 TCGCACACTTAGTGCTATATAATCAAAC
* * *
35768796 TCGCACACTTAGTGCTGTACAATTTAAAC
1 TCGCACACTTAGTGCTATATAA-TCAAAC
*
35768825 CCGCACACTTAGTGC
1 TCGCACACTTAGTGC
35768840 CAATCTCATG
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.35
28 23 0.35
29 19 0.29
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATATAATCAAAC
Found at i:35768834 original size:29 final size:28
Alignment explanation
Indices: 35768742--35768839 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
35768732 ATATTAAGTT
* * *
35768742 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATACAATCAAACC
* *
35768769 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACC
* *
35768797 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATACAA-TCAAACC
35768826 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35768840 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACC
Found at i:35772909 original size:52 final size:51
Alignment explanation
Indices: 35772853--35772972 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 51
35772843 GTTATTTAAT
*
35772853 GCATGACTTAATTTAATGATGCAAACTTTAACTAACATGAGAGTTACATAAA
1 GCATGACTTAATTTAATGATGCAAA-ATTAACTAACATGAGAGTTACATAAA
* * * * *
35772905 GCATGTCATAAATT-ATGATTCAAAATTAACTAACATGAGAGTTACATAAT
1 GCATGACTTAATTTAATGATGCAAAATTAACTAACATGAGAGTTACATAAA
* * *
35772955 GCATAATTTTATTTAATG
1 GCATGACTTAATTTAATG
35772973 CAAAACACAT
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
50 32 0.58
51 12 0.22
52 11 0.20
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (51 bp):
GCATGACTTAATTTAATGATGCAAAATTAACTAACATGAGAGTTACATAAA
Found at i:35776996 original size:29 final size:28
Alignment explanation
Indices: 35776925--35777010 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
35776915 TACTTGTATC
* * *
35776925 TGGCCCATTAAGCCCAACCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
** *
35776953 TGGCCCATTTTGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
35776982 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
35777010 T
1 T
35777011 TCATGCTCAC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 25 0.53
29 22 0.47
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:35781473 original size:57 final size:58
Alignment explanation
Indices: 35781412--35781522 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
35781402 AAAATCACAT
* * * *
35781412 ACCTGTATCTGGCCCATTAAG-CCTAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCACTAGGCCCAAATC
* * *
35781469 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGCTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCACTAGGCCCA
35781523 GTCAGATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 19 0.41
58 27 0.59
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCACTAGGCCCAAATC
Found at i:35781478 original size:29 final size:29
Alignment explanation
Indices: 35781415--35781522 Score: 121
Period size: 29 Copynumber: 3.8 Consensus size: 29
35781405 ATCACATACC
* * * *
35781415 TGTATCTGGCCCATTAAG-CCTAATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
35781443 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
35781472 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* **
35781501 TTTATATGGCCCGCTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
35781523 GTCAGATTCA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.01
28 14 0.21
29 52 0.76
30 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:35786863 original size:27 final size:26
Alignment explanation
Indices: 35786817--35786876 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
35786807 GCGAGGCTAC
35786817 CAGATATTGTGACGAAGCCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
35786844 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
35786870 CAAATAT
1 CAGATAT
35786877 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:35786963 original size:27 final size:26
Alignment explanation
Indices: 35786915--35786966 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35786905 GCGAGGTTGC
*
35786915 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
35786941 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
35786967 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:35789744 original size:27 final size:28
Alignment explanation
Indices: 35789699--35789781 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 28
35789689 GCGTACCTAG
* *
35789699 ACCCTTAATCGGGTAAAATGATCGAAAT
1 ACCCTTAATAGGGTAAAATGACCGAAAT
*
35789727 ACCCTT-ATAGGGTGAAATGACCGAAAT
1 ACCCTTAATAGGGTAAAATGACCGAAAT
** * *
35789754 ACCC-CCATAGAGTAAATTGACCGAAAT
1 ACCCTTAATAGGGTAAAATGACCGAAAT
35789781 A
1 A
35789782 TTTCTATAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
27 41 0.87
28 6 0.13
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (28 bp):
ACCCTTAATAGGGTAAAATGACCGAAAT
Found at i:35793687 original size:45 final size:45
Alignment explanation
Indices: 35793623--35793813 Score: 242
Period size: 45 Copynumber: 4.3 Consensus size: 45
35793613 TATCGTACAG
* * *
35793623 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGACGCAGGCGAAA
1 TACTATTCGGGCCCTTGAGCCTAGCAGGCTATGATGCAGGTGAAA
*
35793668 TACTATTCGGGCCCTTGAGCCTAGCAGGCTATGATGCTGGTGAAA
1 TACTATTCGGGCCCTTGAGCCTAGCAGGCTATGATGCAGGTGAAA
* * * *
35793713 CACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCCTTGAGCCTAGCAGGCTATGATGCAGGTGAAA
* * * *
35793758 TACTATTCGGG-CCTTCGAGTCTAGCAGGCTATAATTCTGGTGAAA
1 TACTATTCGGGCCCTT-GAGCCTAGCAGGCTATGATGCAGGTGAAA
*
35793803 TAATA-TCGGGC
1 TACTATTCGGGC
35793814 TTCGAGCTTA
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 8 0.06
45 120 0.94
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCCTTGAGCCTAGCAGGCTATGATGCAGGTGAAA
Found at i:35793782 original size:90 final size:90
Alignment explanation
Indices: 35793624--35793828 Score: 281
Period size: 90 Copynumber: 2.3 Consensus size: 90
35793614 ATCGTACAGT
35793624 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGACGCAGGCGAAATACTATTCGGGCCCTTGAGCC
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGACGCAGGCGAAATACTATTCGGGCCCTTGAGCC
*
35793689 TAGCAGGCTATGATGCTGGTGAAAC
66 TAGCAGGCTATAATGCTGGTGAAAC
* * * * *
35793714 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATACTATTCGGG-CCTTCGAGT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGACGCAGGCGAAATACTATTCGGGCCCTT-GAGC
* *
35793778 CTAGCAGGCTATAATTCTGGTGAAAT
65 CTAGCAGGCTATAATGCTGGTGAAAC
* * *
35793804 AATA-TCGGG-CTTCGAGCTTAGCAGG
1 ACTATTCGGGCCTTTGAGCCTAGCAGG
35793829 ATAAATACCG
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
88 14 0.14
89 9 0.09
90 80 0.78
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (90 bp):
ACTATTCGGGCCTTTGAGCCTAGCAGGCTATGACGCAGGCGAAATACTATTCGGGCCCTTGAGCC
TAGCAGGCTATAATGCTGGTGAAAC
Found at i:35795934 original size:22 final size:22
Alignment explanation
Indices: 35795906--35796027 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
35795896 TTCCACATCC
35795906 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
35795928 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
35795952 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
35795975 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
35795999 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
35796022 ATCACA
1 ATCACA
35796028 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:35795941 original size:47 final size:47
Alignment explanation
Indices: 35795878--35796134 Score: 365
Period size: 47 Copynumber: 5.4 Consensus size: 47
35795868 CCCTTCGGGA
* * *
35795878 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
35795925 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
35795972 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
35796019 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
35796066 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
35796115 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
35796135 GTACATCAAT
Statistics
Matches: 192, Mismatches: 14, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 150 0.78
49 40 0.21
50 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:35805180 original size:47 final size:47
Alignment explanation
Indices: 35805112--35805258 Score: 170
Period size: 47 Copynumber: 3.1 Consensus size: 47
35805102 GAAATGATAG
* *
35805112 TAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
35805159 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * *
35805208 -CAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
35805255 TAAG
1 TAAG
35805259 TCCCGAAGGG
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
47 44 0.52
48 7 0.08
49 33 0.39
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:35805433 original size:37 final size:37
Alignment explanation
Indices: 35805377--35805455 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
35805367 CCGAGCTCTA
* * *
35805377 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
35805414 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
35805451 AAGAC
1 AAGAC
35805456 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:35806893 original size:50 final size:50
Alignment explanation
Indices: 35806825--35807028 Score: 250
Period size: 50 Copynumber: 4.1 Consensus size: 50
35806815 CAACACATGC
*
35806825 GACC-AATTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGT
1 GACCTAATTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGT
** *
35806874 GACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGT
1 GACCTAATTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGT
* * * * * * * *
35806924 GATCGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTAGTACACATGC
1 GACCTAA-TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGT
* * *
35806975 GAAC-AATTATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACAAGT
1 GACCTAATTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGT
35807024 GACCT
1 GACCT
35807029 CACAATAGCT
Statistics
Matches: 128, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 43 0.34
50 48 0.38
51 37 0.29
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
GACCTAATTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGT
Found at i:35809340 original size:15 final size:15
Alignment explanation
Indices: 35809311--35809349 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
35809301 AACAGAGAAG
35809311 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
35809327 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
35809342 CCATGATA
1 CCAAGATA
35809350 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:35818040 original size:45 final size:45
Alignment explanation
Indices: 35817976--35818150 Score: 223
Period size: 45 Copynumber: 4.0 Consensus size: 45
35817966 TATCATACAG
* *
35817976 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * * * *
35818021 TACTATTCGGGCTTTTGAGCCTAGCAGGCTATGATGCTGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * *
35818066 TACTATTCGGGCCTTCGAGCCTAACAGGCTATAATACTGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
35818111 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCTA-AATGCCGGTGA
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
35818151 TTTGATAAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
42 9 0.08
43 18 0.15
44 5 0.04
45 84 0.72
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:35818952 original size:34 final size:35
Alignment explanation
Indices: 35818889--35818971 Score: 114
Period size: 34 Copynumber: 2.4 Consensus size: 35
35818879 TATTGAGGTG
*
35818889 GGCTTAGGCCTAGACTGTTTACTGATACTAAAATA
1 GGCTTAGGCCCAGACTGTTTACTGATACTAAAATA
* * * *
35818924 GGCTAAGGCCCAGACTG-TTACTGTTACTAATATG
1 GGCTTAGGCCCAGACTGTTTACTGATACTAAAATA
35818958 GGCTTAGGCCCAGA
1 GGCTTAGGCCCAGA
35818972 ATGTATTCTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 27 0.64
35 15 0.36
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (35 bp):
GGCTTAGGCCCAGACTGTTTACTGATACTAAAATA
Found at i:35824160 original size:23 final size:23
Alignment explanation
Indices: 35824134--35824281 Score: 185
Period size: 22 Copynumber: 6.5 Consensus size: 23
35824124 ATAGCTCGTA
*
35824134 AGAGCTTACTATTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCATT
35824157 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCATT
*
35824180 AGAGCTTACTG-TTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCATT
35824202 AGAGCTTACTG-TTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCATT
* * *
35824224 GGAGCTTACCGTTT-AGCTCAAT
1 AGAGCTTACTGTTTCAGCTCATT
* * *
35824246 AGTGCTTACTGTTATCAACTCATGA
1 AGAGCTTACTGTT-TCAGCTCAT-T
35824271 AGAGCTTACTG
1 AGAGCTTACTG
35824282 ACCATGACTC
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
22 57 0.53
23 36 0.33
24 5 0.05
25 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCATT
Found at i:35837524 original size:54 final size:54
Alignment explanation
Indices: 35837442--35837550 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
35837432 TCTCTTAACA
* *
35837442 TACCACTCATATGACCGTTTCGTTTCTTCCATATGAAAGTGGATTCATCAAGGT
1 TACCACTCATATGACCGTTTCGTTTCTTCAATATGAAAGTGGATTCAACAAGGT
35837496 TACCACTCATATGACCGTTTCGTTTCTTCAATATGAAAGTGGATTCAACAAGGT
1 TACCACTCATATGACCGTTTCGTTTCTTCAATATGAAAGTGGATTCAACAAGGT
35837550 T
1 T
35837551 CATTTAAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (54 bp):
TACCACTCATATGACCGTTTCGTTTCTTCAATATGAAAGTGGATTCAACAAGGT
Found at i:35838917 original size:47 final size:47
Alignment explanation
Indices: 35838839--35839189 Score: 567
Period size: 47 Copynumber: 7.4 Consensus size: 47
35838829 CCCTTCGGGA
* * * * * *
35838839 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35838886 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35838933 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35838980 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35839027 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35839074 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
35839121 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35839170 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
35839190 GTACATCAAT
Statistics
Matches: 287, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 244 0.85
49 43 0.15
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35845287 original size:40 final size:40
Alignment explanation
Indices: 35845230--35845550 Score: 482
Period size: 40 Copynumber: 8.1 Consensus size: 40
35845220 CGAATACACG
* * * *
35845230 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * *
35845270 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
35845310 TCACTAGCACGAATGCTCTTCGGAACTTAGTCTGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
35845350 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
35845390 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
35845430 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGGTACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
35845470 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
35845510 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
35845549 TC
1 TC
35845551 GTCGAGACCT
Statistics
Matches: 255, Mismatches: 26, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 4 0.02
40 251 0.98
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:35845646 original size:38 final size:38
Alignment explanation
Indices: 35845604--35845678 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
35845594 GAATTTTAAT
*
35845604 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
35845642 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
35845679 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:35847889 original size:49 final size:49
Alignment explanation
Indices: 35847764--35848270 Score: 860
Period size: 49 Copynumber: 10.6 Consensus size: 49
35847754 CCCTTCGGGA
* * * * *
35847764 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35847810 CTCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35847858 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35847907 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35847956 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35848005 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35848052 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35848101 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35848150 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35848197 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35848244 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
35848271 TATTCAAATA
Statistics
Matches: 446, Mismatches: 7, Indels: 15
0.95 0.01 0.03
Matches are distributed among these distances:
46 3 0.01
47 200 0.45
48 2 0.00
49 241 0.54
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35848029 original size:145 final size:143
Alignment explanation
Indices: 35847764--35848270 Score: 862
Period size: 145 Copynumber: 3.5 Consensus size: 143
35847754 CCCTTCGGGA
* * * * * *
35847764 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATA
35847826 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
35847891 ACATCGGCCATTAGGC
128 ACATCGGCCATTAGGC
35847907 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
35847972 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
35848037 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
35848052 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
35848117 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
35848182 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
35848197 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
35848260 ACTTTCACATT
66 ACTTTCACATT
35848271 TATTCAAATA
Statistics
Matches: 353, Mismatches: 6, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
141 19 0.05
143 57 0.16
144 1 0.00
145 227 0.64
146 2 0.01
147 47 0.13
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:35851780 original size:40 final size:40
Alignment explanation
Indices: 35851568--35851773 Score: 324
Period size: 40 Copynumber: 5.2 Consensus size: 40
35851558 AACCCAAGTA
* * *
35851568 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
35851607 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
35851647 CCTTCGGGACATAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
35851687 CCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
35851727 CCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
35851767 CCTTCGG
1 CCTTCGG
35851774 ATCTTAGTCC
Statistics
Matches: 153, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 13 0.08
40 140 0.92
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:35861876 original size:20 final size:21
Alignment explanation
Indices: 35861826--35861876 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
35861816 ACCCATCCCC
*
35861826 ATGCAATATGTCATGCATCAT
1 ATGCAATATGTCATACATCAT
*
35861847 AT-C-ATAATGTCATACAT-GT
1 ATGCAAT-ATGTCATACATCAT
35861866 ATGCAATATGT
1 ATGCAATATGT
35861877 ATATAATGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
19 5 0.20
20 16 0.64
21 4 0.16
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGCAATATGTCATACATCAT
Found at i:35868461 original size:54 final size:54
Alignment explanation
Indices: 35868277--35868688 Score: 334
Period size: 54 Copynumber: 7.8 Consensus size: 54
35868267 AACTTACCAT
* * * * **
35868277 TGCCATGTCTTGACATGGTTTTACGTGGTATCCTTGCCTTAT-GAACTCA-CAAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTATAGAACTCATC-AA
* * ** *
35868330 TGCCATACCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTAT-CTTATAG-AACTCATCAA
* * * *
35868385 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTATAGAACTCATCAA
*
35868439 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTATAGAACTCATCAA
* ** ** * * *
35868485 TACCATGTTCC-AAACATGGTCTTACATGGCATCTTTGTCTTAT-GAACTCACCAA
1 TGCCATG--CCTTGACATGGTCTTACATGATATCCTTATCTTATAGAACTCATCAA
* ** *
35868539 TGCCATGCCTTAGA-ATGGCCTTACATGGGA-CCTT-TGACTTATATTAACTCATCAA
1 TGCCATGCCTT-GACATGGTCTTACATGATATCCTTAT--CTTATA-GAACTCATCAA
* * *
35868594 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTATCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTATAGAACTCATCAA
* *
35868648 TGCCATGCCATGGCATGGTCTTACATGATATCCTTATCTTA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTA
35868689 CCAAATGCCA
Statistics
Matches: 287, Mismatches: 49, Indels: 45
0.75 0.13 0.12
Matches are distributed among these distances:
46 8 0.03
47 21 0.07
48 4 0.01
49 3 0.01
51 3 0.01
52 12 0.04
53 49 0.17
54 101 0.35
55 76 0.26
56 9 0.03
57 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTATCTTATAGAACTCATCAA
Found at i:35868619 original size:155 final size:156
Alignment explanation
Indices: 35868343--35868634 Score: 380
Period size: 155 Copynumber: 1.9 Consensus size: 156
35868333 CATACCTTGG
* * * *
35868343 CATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTA
1 CATGGTCTTACATGGCACCTTTTCCTTATAGTAACTCACCAATGCCATGCCTTGACATGGCCTTA
*** * *
35868408 CATGATTTCCTTACCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCT
66 CATGAGGACCTTACCTTATAGAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCCT
35868473 TATCTTACCAAATACCATGTTCCAAA
131 TATCTTACCAAATACCATGTTCCAAA
*
35868499 CATGGTCTTACATGGCATCTTTGT-CTTAT-G-AACTCACCAATGCCATGCCTTAGA-ATGGCCT
1 CATGGTCTTACATGGCACCTTT-TCCTTATAGTAACTCACCAATGCCATGCCTT-GACATGGCCT
* *
35868560 TACATG-GGACCTTTGA-CTTATATTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGAT
64 TACATGAGGACC-TT-ACCTTATA-GAACTCATCAATGCCATGCCTTGACATGGTCTTACATGAT
*
35868623 TTCCTTATCTTA
126 ATCCTTATCTTA
35868635 TAGAACTTAT
Statistics
Matches: 118, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
153 2 0.02
154 39 0.33
155 51 0.43
156 25 0.21
157 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.36
Consensus pattern (156 bp):
CATGGTCTTACATGGCACCTTTTCCTTATAGTAACTCACCAATGCCATGCCTTGACATGGCCTTA
CATGAGGACCTTACCTTATAGAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCCT
TATCTTACCAAATACCATGTTCCAAA
Found at i:35868649 original size:209 final size:209
Alignment explanation
Indices: 35868289--35868735 Score: 734
Period size: 209 Copynumber: 2.1 Consensus size: 209
35868279 CCATGTCTTG
* * * * * * * *
35868289 ACATGGTTTTACGTGGTATCCTTGCCTTATGAACTCACAAATGCCATACCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGCATCTTTGTCTTATGAACTCACAAATGCCATACCTTAGAATGGCCTTAC
**
35868354 ATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
66 ATGGGACCTTTGACTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
*
35868419 TACCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
131 TACCTTATAGAACTTATCAATGCCATGCCATGGCATGGTCTTACATGATATCCTTATCTTACCAA
35868484 ATACCATGTTCCAA
196 ATACCATGTTCCAA
* *
35868498 ACATGGTCTTACATGGCATCTTTGTCTTATGAACTCACCAATGCCATGCCTTAGAATGGCCTTAC
1 ACATGGTCTTACATGGCATCTTTGTCTTATGAACTCACAAATGCCATACCTTAGAATGGCCTTAC
*
35868563 ATGGGACCTTTGACTTATATTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
66 ATGGGACCTTTGACTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
*
35868628 TATCTTATAGAACTTATCAATGCCATGCCATGGCATGGTCTTACATGATATCCTTATCTTACCAA
131 TACCTTATAGAACTTATCAATGCCATGCCATGGCATGGTCTTACATGATATCCTTATCTTACCAA
*
35868693 ATGCCATGTTCCAA
196 ATACCATGTTCCAA
35868707 ACATGGTCTTACATGGCAT-TCTTGTCTTA
1 ACATGGTCTTACATGGCATCT-TTGTCTTA
35868736 GTGCCAATAT
Statistics
Matches: 221, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
208 1 0.00
209 220 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.36
Consensus pattern (209 bp):
ACATGGTCTTACATGGCATCTTTGTCTTATGAACTCACAAATGCCATACCTTAGAATGGCCTTAC
ATGGGACCTTTGACTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
TACCTTATAGAACTTATCAATGCCATGCCATGGCATGGTCTTACATGATATCCTTATCTTACCAA
ATACCATGTTCCAA
Found at i:35872002 original size:67 final size:64
Alignment explanation
Indices: 35871886--35872137 Score: 226
Period size: 67 Copynumber: 3.9 Consensus size: 64
35871876 ATACAGATGG
* ** * * *
35871886 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAG--
35871949 ATA
62 ATA
*
35871952 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
35872017 TATGTAGCTGGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
35872082 TA
63 TA
* * * *
35872084 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
35872138 CAAAATTATA
Statistics
Matches: 154, Mismatches: 24, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 24 0.16
65 4 0.03
66 22 0.14
67 81 0.53
68 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:35875391 original size:27 final size:27
Alignment explanation
Indices: 35875361--35875432 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
35875351 CTTTAGGGGC
* *
35875361 ATTTTGGTAATTTTACAAGTCGAGGGT
1 ATTTCGGTAATTTTACAAGTCGAAGGT
* *
35875388 ATTTCGGTAATTGTACAGGTCGAAGGT
1 ATTTCGGTAATTTTACAAGTCGAAGGT
* *
35875415 ATTTCGATAATTTCACAA
1 ATTTCGGTAATTTTACAA
35875433 ATTAGGGGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (27 bp):
ATTTCGGTAATTTTACAAGTCGAAGGT
Found at i:35875788 original size:29 final size:29
Alignment explanation
Indices: 35875722--35875812 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
35875712 AAGTCTACAT
* *
35875722 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
35875750 TCATTCATATGGTCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
35875779 ACATTCATATGGCCCATCT-GGCCCAAATC
1 ACATTCATATGGCCCAT-TAGGCCCAAATC
35875808 A-ATTC
1 ACATTC
35875813 CAAGCCATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 24 0.44
29 30 0.55
30 1 0.02
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:35876800 original size:4 final size:4
Alignment explanation
Indices: 35876791--35876817 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
35876781 AAGTATTTGA
35876791 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
35876818 ATACAAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:35879475 original size:27 final size:27
Alignment explanation
Indices: 35879359--35879495 Score: 87
Period size: 27 Copynumber: 5.1 Consensus size: 27
35879349 TCGTTAAGAC
**
35879359 CCCCCAATTTGTAAAATTACTAAAATA
1 CCCCCAATTTGTAAAATTACCGAAATA
* ** **
35879386 -CCTCAGGTTGTAAAATTTTCGAAATA
1 CCCCCAATTTGTAAAATTACCGAAATA
* * ** * *
35879412 CCTCTAATTTGTGTAATTGCCAAAATA
1 CCCCCAATTTGTAAAATTACCGAAATA
** * *
35879439 CCATCGATTTGTGAAATTACCGAAATA
1 CCCCCAATTTGTAAAATTACCGAAATA
* **
35879466 CCCCCAATTTTTAAAATTATTGAAATA
1 CCCCCAATTTGTAAAATTACCGAAATA
35879493 CCC
1 CCC
35879496 TTGTAGTGTA
Statistics
Matches: 78, Mismatches: 31, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
26 19 0.24
27 59 0.76
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
CCCCCAATTTGTAAAATTACCGAAATA
Found at i:35879507 original size:27 final size:27
Alignment explanation
Indices: 35879477--35879536 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
35879467 CCCCAATTTT
* * *
35879477 TAAAATTATTGAAATACCCTTGTAGTG
1 TAAAATTATTGAAATACCCCTATAGGG
35879504 TAAAATTATTGAAATACCCCTATAGGG
1 TAAAATTATTGAAATACCCCTATAGGG
35879531 TAAAAT
1 TAAAAT
35879537 GACTATTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (27 bp):
TAAAATTATTGAAATACCCCTATAGGG
Found at i:35880340 original size:32 final size:32
Alignment explanation
Indices: 35880304--35880370 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 32
35880294 GTTTATGAGA
*
35880304 TCTGTCACT-GTATTGGGCTTAGGCCCACTTG-T
1 TCTGTCACTGGT-TTGGGC-TAGGCCCAATTGAT
* *
35880336 TCTGTTATTGGTTTGGGCTAGGCCCAATTGAT
1 TCTGTCACTGGTTTGGGCTAGGCCCAATTGAT
35880368 TCT
1 TCT
35880371 ATTATTGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
31 11 0.37
32 17 0.57
33 2 0.07
ACGTcount: A:0.13, C:0.21, G:0.25, T:0.40
Consensus pattern (32 bp):
TCTGTCACTGGTTTGGGCTAGGCCCAATTGAT
Found at i:35880361 original size:31 final size:33
Alignment explanation
Indices: 35880316--35880380 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
35880306 TGTCACTGTA
* *
35880316 TTGGGCTTAGGCCCACTTG-TTCTGTTATTGGT
1 TTGGGCTTAGGCCCAATTGATTCTATTATTGGT
35880348 TTGGGC-TAGGCCCAATTGATTCTATTATTGGT
1 TTGGGCTTAGGCCCAATTGATTCTATTATTGGT
35880380 T
1 T
35880381 GTGTCCCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 11 0.37
32 19 0.63
ACGTcount: A:0.14, C:0.17, G:0.26, T:0.43
Consensus pattern (33 bp):
TTGGGCTTAGGCCCAATTGATTCTATTATTGGT
Found at i:35884710 original size:39 final size:39
Alignment explanation
Indices: 35884619--35884745 Score: 168
Period size: 39 Copynumber: 3.3 Consensus size: 39
35884609 AGATTACATC
* *
35884619 TTTAATTATATCATAATTTGAACATCATTAATATGAG-T
1 TTTAATTATGTCATAATTTGAACATCATTAATAAGAGTT
*
35884657 TTTAATTATGTCATAATCTGAACATCATTAATAAGAGTT
1 TTTAATTATGTCATAATTTGAACATCATTAATAAGAGTT
* * *
35884696 TTTAATTATGTCATAGTTTGGACATCTTTAATAA-ATGTT
1 TTTAATTATGTCATAATTTGAACATCATTAATAAGA-GTT
*
35884735 TTTAAGTATGT
1 TTTAATTATGT
35884746 TTAAATTTTG
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
38 35 0.44
39 44 0.56
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (39 bp):
TTTAATTATGTCATAATTTGAACATCATTAATAAGAGTT
Found at i:35891709 original size:135 final size:137
Alignment explanation
Indices: 35891464--35891733 Score: 481
Period size: 135 Copynumber: 2.0 Consensus size: 137
35891454 GTTCATAAGT
*
35891464 GTTTGGACTTGGAAATTTAAGAGCAAATTGTAATAATTTGCTTTGGACAGCAGCAGCAGTAATGT
1 GTTTGGACTTGGAAATTTAAGAGCAAATTGTAATAATTTGCTTTGGA-AGCAGCAGCAGTAACGT
* *
35891529 GATTTTTGAAAATCACTATAAATTGTTGGTGTGGAATTATAGGCTGAATAAAATATGTAATCAAA
65 GATTTTAGAAAATCACTATAAATTGTTGGTGCGGAATTATAGGCTGAATAAAATATGTAATCAAA
35891594 GCTTAGTC
130 GCTTAGTC
35891602 GTTTGGACTTGGAAATTTAAGAGCAAATTGTAATAATTTGCTTTGG-A-CAGCAGCAGTAACGTG
1 GTTTGGACTTGGAAATTTAAGAGCAAATTGTAATAATTTGCTTTGGAAGCAGCAGCAGTAACGTG
*
35891665 ATTTTAGAAAATCACTATAAATTGTTGGTGCGGAATTATAGGCTGAATAAAATATGTAATCAAAT
66 ATTTTAGAAAATCACTATAAATTGTTGGTGCGGAATTATAGGCTGAATAAAATATGTAATCAAAG
35891730 CTTA
131 CTTA
35891734 TTTAGTCTAG
Statistics
Matches: 128, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
135 81 0.63
136 1 0.01
138 46 0.36
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.34
Consensus pattern (137 bp):
GTTTGGACTTGGAAATTTAAGAGCAAATTGTAATAATTTGCTTTGGAAGCAGCAGCAGTAACGTG
ATTTTAGAAAATCACTATAAATTGTTGGTGCGGAATTATAGGCTGAATAAAATATGTAATCAAAG
CTTAGTC
Found at i:35892008 original size:125 final size:125
Alignment explanation
Indices: 35891786--35892034 Score: 471
Period size: 125 Copynumber: 2.0 Consensus size: 125
35891776 ATTTCCTATA
35891786 AAGAGATATTTAAAGTTGTGTGGGACAGTGTCAGAATGACTCCGAAATCCCCTGTTCAGTTTTTA
1 AAGAGATATTTAAAGTTGTGTGGGACAGTGTCAGAATGACTCCGAAATCCCCTGTTCAGTTTTTA
*
35891851 GAAAAATCATTATAATTTGTACAAAAATGGTTATAAGATAAAATTTAAATGTCTAGACTC
66 GAAAAATCATTATAATTTGTACAAAAATGGTTATAAGATAAAATTTAAATGCCTAGACTC
*
35891911 AAGAGATATTTAAAGTTGTGTGGGACAGTGTCAGAATGACTCCGAAATCCCCTGTTTAGTTTTTA
1 AAGAGATATTTAAAGTTGTGTGGGACAGTGTCAGAATGACTCCGAAATCCCCTGTTCAGTTTTTA
*
35891976 GAAAAATCATTATAATTTGTACAAAAATGGTTATAAGATAAAATTTATATGCCTAGACT
66 GAAAAATCATTATAATTTGTACAAAAATGGTTATAAGATAAAATTTAAATGCCTAGACT
35892035 TCTTAATGAG
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 121 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (125 bp):
AAGAGATATTTAAAGTTGTGTGGGACAGTGTCAGAATGACTCCGAAATCCCCTGTTCAGTTTTTA
GAAAAATCATTATAATTTGTACAAAAATGGTTATAAGATAAAATTTAAATGCCTAGACTC
Found at i:35892676 original size:247 final size:245
Alignment explanation
Indices: 35892191--35892681 Score: 937
Period size: 247 Copynumber: 2.0 Consensus size: 245
35892181 CAAACCAAAA
*
35892191 ATTCTGAAAATTTGCTGGATAAGATATGTATGAGTCTATTTCCAGGGAAAATTAACGGCACTCCA
1 ATTCTGAAAATTTGCTGGATAAGATATGTATGAGTCTATTTCCAGGGAAAATTAACCGCACTCCA
35892256 TTTGGAGTTTCGTAGCTCCATTTACGAATAATTTAATGACTGTTGCTCAGAAAAAAAAGCTTGTG
66 TTTGGAGTTTCGTAGCTCCATTTACGAATAATTTAATGACTGTTGCTCAGAAAAAAAAGCTTGTG
**
35892321 CTGAATTTGGAATTTTGTTGTAAACCTTAATAAAACCATTTGAGTTGCTTATAAGCTATTTATTA
131 CTGAATTTGGAATTTTGTTGTAAACCTTAATAAAACCATTTGAGTTGCTTATAAGCTATCGATTA
35892386 AACATTGGTAATCAAAGTACCAAATTCGTATTAAAGTGAAGCTATAAGCT
196 AACATTGGTAATCAAAGTACCAAATTCGTATTAAAGTGAAGCTATAAGCT
35892436 ATTCTGAAAATTTGCTGGATAAGATATGTATGAGTCTATTTCCAGGGAAAATTAACCGCACTCCA
1 ATTCTGAAAATTTGCTGGATAAGATATGTATGAGTCTATTTCCAGGGAAAATTAACCGCACTCCA
35892501 TTTGGAGTTTCGTAGCTCCATTTACGAATAATTTAATGACTGTTGCTCAGAAAAAAAAAAGCTTG
66 TTTGGAGTTTCGTAGCTCCATTTACGAATAATTTAATGACTGTTGCTCAG--AAAAAAAAGCTTG
35892566 TGCTGAATTTGGAATTTTGTTGTAAACCTTAATAAAACCATTTGAGTTGCTTATAAGCTATCGAT
129 TGCTGAATTTGGAATTTTGTTGTAAACCTTAATAAAACCATTTGAGTTGCTTATAAGCTATCGAT
35892631 TAAACATTGGTAATCAAAGTACCAAATTCGTATTAAAGTGAAGCTATAAGC
194 TAAACATTGGTAATCAAAGTACCAAATTCGTATTAAAGTGAAGCTATAAGC
35892682 CACAAATGAC
Statistics
Matches: 241, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
245 114 0.47
247 127 0.53
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.34
Consensus pattern (245 bp):
ATTCTGAAAATTTGCTGGATAAGATATGTATGAGTCTATTTCCAGGGAAAATTAACCGCACTCCA
TTTGGAGTTTCGTAGCTCCATTTACGAATAATTTAATGACTGTTGCTCAGAAAAAAAAGCTTGTG
CTGAATTTGGAATTTTGTTGTAAACCTTAATAAAACCATTTGAGTTGCTTATAAGCTATCGATTA
AACATTGGTAATCAAAGTACCAAATTCGTATTAAAGTGAAGCTATAAGCT
Found at i:35892790 original size:47 final size:47
Alignment explanation
Indices: 35892733--35893268 Score: 404
Period size: 47 Copynumber: 11.4 Consensus size: 47
35892723 ATTGATGTAC
* * ** *
35892733 AAGTATATATATGTGGTAGGGTTGAGTGGCCAATGTGATGAATGTGA
1 AAGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
35892780 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTATATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * * *
35892829 ACA-TGTGTATGTGTGATAGGGACGAGTGGCCAATGTGATGAATGTGA
1 A-AGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
35892876 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTATATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
35892925 AAGTGTATAAATGTGATAAGTCCCGAA-GGGCAAT-TG-TGTCA-GT--
1 AAGTATATATATGTGATAAG-GCCGAATGGCCAATGTGATG-AATGTGA
* **** * * ** * ** *
35892968 -ACTATATCCGGGTTAAAACCCCGTA-GGCTTTATGCGATGAATGTG-
1 AAGTATATATATGTGATAAGGCCGAATGGC-CAATGTGATGAATGTGA
* *
35893013 -AGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-
1 AAGTAT--ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
35893060 -AGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-
1 AAGTAT--ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
35893107 -AGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-
1 AAGTAT--ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
35893154 -AGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTAT--ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
35893202 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
35893249 AAGTGTGTAAATGTGATAAG
1 AAGTATATATATGTGATAAG
35893269 TCCCGAAGGG
Statistics
Matches: 412, Mismatches: 59, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
41 7 0.02
42 12 0.03
43 2 0.00
44 4 0.01
45 7 0.02
46 4 0.01
47 287 0.70
48 8 0.02
49 80 0.19
50 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (47 bp):
AAGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:35892904 original size:96 final size:95
Alignment explanation
Indices: 35892759--35893252 Score: 501
Period size: 94 Copynumber: 5.3 Consensus size: 95
35892749 TAGGGTTGAG
35892759 TGGCCAATGTGATGAATGTGAAAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAA
1 TGGCCAATGTGATGAATGTG-AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAA
* * * *
35892824 TGTGAACATGTGTATGTGTGATAGGGACGAG
65 TGTGAACATGTATATGTGTGATAAGGCCGAA
*
35892855 TGGCCAATGTGATGAATGTGAAAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGGA
1 TGGCCAATGTGATGAATGTG-AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAA
* ** *
35892920 TGTGGAA-GTGTATAAATGTGATAAGTCCCGAA
65 TGT-GAACATGTATATGTGTGATAAG-GCCGAA
* * ** * * * ** * ** *
35892952 -GGGCAA--T--TG--TGT-CAGTACTATATCCGGGTTAAAACCCCGTA-GGCTTTATGCGATGA
1 TGGCCAATGTGATGAATGTGAAGTA-TATATATGCGTGATAAGGCCGAATGGC-CAATGTGATGA
* *
35893008 ATGTGAGCATGCATATGTGTGATAAGGCCGAA
64 ATGTGAACATGTATATGTGTGATAAGGCCGAA
* ** *
35893040 TGGCCAATGTGATGAATGTG-AGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 TGGCCAATGTGATGAATGTGAAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAAT
* *
35893104 GTGAGCATGCATATGTGTGATAAGGCCGAA
66 GTGAACATGTATATGTGTGATAAGGCCGAA
* ** *
35893134 TGGCCAATGTGATGAATGTG-AGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 TGGCCAATGTGATGAATGTGAAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAAT
*
35893198 GTGAA-AGTGTATATATGTGATAAGGCCGAA
66 GTGAACA-TGTATATGTGTGATAAGGCCGAA
*
35893228 TGGCCAATGTGATGGATGTGGAAGT
1 TGGCCAATGTGATGAATGT-GAAGT
35893253 GTGTAAATGT
Statistics
Matches: 332, Mismatches: 49, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
88 14 0.04
89 45 0.14
90 3 0.01
91 1 0.00
92 2 0.01
93 3 0.01
94 161 0.48
95 10 0.03
96 87 0.26
97 6 0.02
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.27
Consensus pattern (95 bp):
TGGCCAATGTGATGAATGTGAAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAAT
GTGAACATGTATATGTGTGATAAGGCCGAA
Found at i:35893185 original size:141 final size:140
Alignment explanation
Indices: 35892759--35893247 Score: 534
Period size: 141 Copynumber: 3.5 Consensus size: 140
35892749 TAGGGTTGAG
*
35892759 TGGCCAATGTGATGAATGTGA-AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGA
1 TGGCCAATGTGATGAATGTGAGAAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGA
* * * * * **
35892823 ATGTGAACATGTGTATGTGTGATAGGGACGAGTGGCCAATGTGATGAATGTGAAAGTATATATAT
64 ATGTG-ACATG-ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG--AGCATGCATAT
*
35892888 GCGTGATAAGGCCGAA
125 GTGTGATAAGGCCGAA
* * * * *
35892904 TGGCCAATGTGATGGATGTG-GAAGTGTATAAATGTGATAAGTCCCGAA-GGGCAAT-TG-TGTC
1 TGGCCAATGTGATGAATGTGAGAAGTGTATATATGTGATAAG-GCCGAATGGCCAATGTGATG-A
* * * ** * ** *
35892965 A-GT-AC-T-ATATCCGGGTTAAAACCCCGTA-GGCTTTATGCGATGAATGTGAGCATGCATATG
64 ATGTGACATGATAT--GTGTGATAAGGCCGAATGGC-CAATGTGATGAATGTGAGCATGCATATG
35893025 TGTGATAAGGCCGAA
126 TGTGATAAGGCCGAA
* * *
35893040 TGGCCAATGTGATGAATGTGAGCA-TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 TGGCCAATGTGATGAATGTGAGAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
35893104 GTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGT
66 GTGA-CATG-ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGT
35893169 GATAAGGCCGAA
129 GATAAGGCCGAA
*
35893181 TGGCCAATGTGATGAATGTGA-AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGAT
1 TGGCCAATGTGATGAATGTGAGAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
35893245 GTG
66 GTG
35893248 GAAGTGTGTA
Statistics
Matches: 282, Mismatches: 44, Indels: 40
0.77 0.12 0.11
Matches are distributed among these distances:
135 5 0.02
136 65 0.23
137 8 0.03
138 25 0.09
139 3 0.01
140 2 0.01
141 116 0.41
142 6 0.02
143 18 0.06
144 5 0.02
145 29 0.10
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.27
Consensus pattern (140 bp):
TGGCCAATGTGATGAATGTGAGAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
GTGACATGATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGA
TAAGGCCGAA
Found at i:35894126 original size:47 final size:47
Alignment explanation
Indices: 35894072--35894265 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
35894062 TTAGGATTTT
** * *
35894072 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
35894119 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
35894166 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
35894213 ATGTGGTGAATGTGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
35894260 ATGTGA
1 ATGTGA
35894266 AATATGTATG
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:35894172 original size:22 final size:22
Alignment explanation
Indices: 35894101--35894172 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
35894091 GTATATATGA
35894101 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
35894123 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
35894148 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
35894170 GAT
1 GAT
35894173 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:35894221 original size:25 final size:25
Alignment explanation
Indices: 35894146--35894221 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
35894136 ATGCATATAT
35894146 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
35894171 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
35894193 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
35894218 GTGA
1 GTGA
35894222 ATGTGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:35894298 original size:48 final size:48
Alignment explanation
Indices: 35894235--35894417 Score: 339
Period size: 48 Copynumber: 3.8 Consensus size: 48
35894225 TGAACATGCA
35894235 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
35894283 TATATGTGGTAAAGCCGAATGGATAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
35894331 TATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
35894379 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
35894418 GGCGATGTGC
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 130 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:35894709 original size:37 final size:37
Alignment explanation
Indices: 35894564--35894708 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
35894554 GGAAATATAT
*
35894564 TCCGGGTAAGACCCGATGACTACGTGTGGTGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
35894601 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
35894638 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
35894675 TCCGGGTAAGACCCGATAACTTCGTGTAGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
35894709 TCGTCTGAGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:35901780 original size:45 final size:44
Alignment explanation
Indices: 35901731--35901819 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 44
35901721 GTTAGGAAAG
*
35901731 ATACTTACTGTTGGTAGAATTTCCCTACAATAATAGTTATCAGA
1 ATACTTACCGTTGGTAGAATTTCCCTACAATAATAGTTATCAGA
35901775 NATACTTACCGTTGGTAGAATTTCCCTACAATAATAGTTATCAGA
1 -ATACTTACCGTTGGTAGAATTTCCCTACAATAATAGTTATCAGA
35901820 TGAGTTTGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.35
Consensus pattern (44 bp):
ATACTTACCGTTGGTAGAATTTCCCTACAATAATAGTTATCAGA
Found at i:35907115 original size:26 final size:26
Alignment explanation
Indices: 35907058--35907120 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
35907048 ATAAACACTT
* * *
35907058 AGTTTTTCAGCCTCTTTTTCATCCTT
1 AGTTTTTCAACCTATTTTTCATCCTC
*
35907084 AGTTTTTCAACCTATTTTTCTTCTCTC
1 AGTTTTTCAACCTATTTTTCATC-CTC
*
35907111 ATTTTTTCAA
1 AGTTTTTCAA
35907121 ATTTCTTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.16, C:0.24, G:0.05, T:0.56
Consensus pattern (26 bp):
AGTTTTTCAACCTATTTTTCATCCTC
Found at i:35907165 original size:15 final size:14
Alignment explanation
Indices: 35907126--35907169 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
35907116 TTCAAATTTC
35907126 TTTTCTTTTTCTTT
1 TTTTCTTTTTCTTT
**
35907140 TTCACTCTTTTCTTT
1 TTTTCT-TTTTCTTT
35907155 TTGTTCTTTTTCTTT
1 TT-TTCTTTTTCTTT
35907170 CAATTGCTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 4 0.17
15 18 0.75
16 2 0.08
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:35909204 original size:46 final size:46
Alignment explanation
Indices: 35909127--35909252 Score: 146
Period size: 46 Copynumber: 2.7 Consensus size: 46
35909117 ATTTAAGTAT
* * * **
35909127 TTAATGTGTCTTGAGTCTATTTAATATGTTCTAATTAGATTC-GGTAA
1 TTAATATGTCTTAAGT-TATTTAATGTGTTCTAATTAG-TTCAGCCAA
* * *
35909174 TTAATTTGTCTTAAGTTAATTAATGTGTTCTAATTAGTTCAGCCAT
1 TTAATATGTCTTAAGTTATTTAATGTGTTCTAATTAGTTCAGCCAA
35909220 TTAATATGTCTTAAGTTTATTTAATGTGTTCTA
1 TTAATATGTCTTAAG-TTATTTAATGTGTTCTA
35909253 GTTAATATAG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 3 0.04
46 35 0.51
47 30 0.44
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (46 bp):
TTAATATGTCTTAAGTTATTTAATGTGTTCTAATTAGTTCAGCCAA
Found at i:35909271 original size:47 final size:46
Alignment explanation
Indices: 35909127--35909281 Score: 150
Period size: 47 Copynumber: 3.3 Consensus size: 46
35909117 ATTTAAGTAT
* * * * *
35909127 TTAATGTGTCTTGAGTCTATTTAATATGTTCTAATTAGATTCGGTAA
1 TTAATGTGTCTTAAGTTTATTTAATGTGTTCTAATTA-ATTAGCTAA
* * * * *
35909174 TTAATTTGTCTTAAG-TTAATTAATGTGTTCTAATTAGTTCAGCCAT
1 TTAATGTGTCTTAAGTTTATTTAATGTGTTCTAATTAATT-AGCTAA
* * *
35909220 TTAATATGTCTTAAGTTTATTTAATGTGTTCTAGTTAATATAGCTAC
1 TTAATGTGTCTTAAGTTTATTTAATGTGTTCTAATTAAT-TAGCTAA
*
35909267 TTAATGTGTCATAAG
1 TTAATGTGTCTTAAG
35909282 CTTAGACAAT
Statistics
Matches: 87, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
45 2 0.02
46 34 0.39
47 50 0.57
48 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (46 bp):
TTAATGTGTCTTAAGTTTATTTAATGTGTTCTAATTAATTAGCTAA
Found at i:35916643 original size:21 final size:21
Alignment explanation
Indices: 35916618--35916669 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
35916608 GCTCTGACCA
*
35916618 AGTTAAAAGAATTAAAGTCTC
1 AGTTACAAGAATTAAAGTCTC
35916639 AGTTACAAGAATTAAAGTCTC
1 AGTTACAAGAATTAAAGTCTC
35916660 AGTTACAAGA
1 AGTTACAAGA
35916670 GTTGACAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (21 bp):
AGTTACAAGAATTAAAGTCTC
Found at i:35920696 original size:42 final size:43
Alignment explanation
Indices: 35920591--35920716 Score: 116
Period size: 42 Copynumber: 2.9 Consensus size: 43
35920581 TGTATTTTCA
* * * * *
35920591 TGTAAGACCACGTCTGGGAC-GTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCATGTCCGGGACAG-TGACATCGA-TATTTGATTT-TG
*
35920635 TGTAAGACCATGTCTGGGACA-TCGACATC-ATATTTGATTTTG
1 TGTAAGACCATGTCCGGGACAGT-GACATCGATATTTGATTTTG
* *
35920677 TGTAAGACCTTGTCCGGGACAGTGCCATCGATATTTGATT
1 TGTAAGACCATGTCCGGGACAGTGACATCGATATTTGATT
35920717 ACATATAAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
42 26 0.37
43 20 0.29
44 24 0.34
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCCGGGACAGTGACATCGATATTTGATTTTG
Found at i:35926588 original size:27 final size:27
Alignment explanation
Indices: 35926557--35926734 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35926547 TAAATTGTAC
35926557 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35926584 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35926610 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35926638 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35926666 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35926693 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35926720 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35926735 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35926671 original size:82 final size:81
Alignment explanation
Indices: 35926558--35926713 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35926548 AAATTGTACA
* *
35926558 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35926622 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35926639 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35926704 TGCGAGTTGA
65 TGCGAATTGA
35926714 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35926725 original size:82 final size:81
Alignment explanation
Indices: 35926554--35926734 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35926544 GATTAAATTG
* *
35926554 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35926619 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35926635 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35926699 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35926717 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35926735 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35939958 original size:41 final size:43
Alignment explanation
Indices: 35939854--35940002 Score: 126
Period size: 41 Copynumber: 3.5 Consensus size: 43
35939844 TGTTTTCTCC
** * * *
35939854 TGTAAGACCACGTCTGGGAC-GTTGGCATCGATATATGTGGTTACG
1 TGTAAGACCATATCTGGGACAG-TGACATCG--ATATGTGATTACA
* *
35939899 TGTAAGACCATGTCTGGGACA-TCGACATCG-TATTTGATT-CA
1 TGTAAGACCATATCTGGGACAGT-GACATCGATATGTGATTACA
* * *
35939940 TGTAAGACCCTATTTGGGACAGTGGCATCGATATGTGATTACA
1 TGTAAGACCATATCTGGGACAGTGACATCGATATGTGATTACA
**
35939983 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATATCTGGGAC
35940003 GTTGGCATTG
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
41 25 0.29
42 16 0.19
43 18 0.21
44 1 0.01
45 25 0.29
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACAGTGACATCGATATGTGATTACA
Found at i:35942057 original size:21 final size:21
Alignment explanation
Indices: 35942016--35942060 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
35942006 CTATTTACAA
*
35942016 CCACAACAAGGATGTTTACCT
1 CCACAACAAGGATGTTCACCT
*
35942037 CCACAACGA-GATCGTTCACCT
1 CCACAACAAGGAT-GTTCACCT
35942058 CCA
1 CCA
35942061 TCTCAAGCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.31, C:0.36, G:0.13, T:0.20
Consensus pattern (21 bp):
CCACAACAAGGATGTTCACCT
Found at i:35954631 original size:29 final size:30
Alignment explanation
Indices: 35954589--35954663 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 30
35954579 CAAGATATGT
* *
35954589 TGGGCCGAAGCCTTTCGTTAA-AC-TATTAC
1 TGGGCCGAAGCCTTTC-ATAATACATATCAC
*
35954618 TGGGCCGAAGCCTTTTCATAATTCATATCAC
1 TGGGCCGAAGCC-TTTCATAATACATATCAC
35954649 TGGGCCGAAGCCTTT
1 TGGGCCGAAGCCTTT
35954664 ACTGTAAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
29 15 0.38
30 8 0.20
31 17 0.43
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (30 bp):
TGGGCCGAAGCCTTTCATAATACATATCAC
Found at i:35954912 original size:25 final size:25
Alignment explanation
Indices: 35954884--35954953 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
35954874 CTCTTTTAAT
*
35954884 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35954909 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
35954934 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
35954954 GCACTTCTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:35955012 original size:10 final size:10
Alignment explanation
Indices: 35954999--35955037 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
35954989 ATATATGAAT
35954999 ATATCATGGC
1 ATATCATGGC
35955009 ATATCATGTGC
1 ATATCATG-GC
*
35955020 ATATTATGGC
1 ATATCATGGC
35955030 ATATCATG
1 ATATCATG
35955038 TATAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:35955028 original size:21 final size:21
Alignment explanation
Indices: 35954999--35955038 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35954989 ATATATGAAT
35954999 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
*
35955020 ATATTATGGCATATCATGT
1 ATATCATGGCATATCATGT
35955039 ATAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:35960400 original size:27 final size:27
Alignment explanation
Indices: 35960370--35960547 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35960360 ATATTGAGTC
* * * *
35960370 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35960397 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35960424 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35960452 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35960479 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35960506 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35960533 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35960548 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35960509 original size:82 final size:81
Alignment explanation
Indices: 35960391--35960546 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35960381 TGCTATATAA
* *
35960391 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35960456 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35960473 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35960537 CACTTAGTGC
65 CACTTAGTGC
35960547 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35966114 original size:25 final size:25
Alignment explanation
Indices: 35966086--35966155 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
35966076 CTATTTTAAT
*
35966086 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
35966111 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
35966136 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
35966156 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:35966214 original size:10 final size:10
Alignment explanation
Indices: 35966201--35966239 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
35966191 ATATATGAAT
35966201 ATATCATGGC
1 ATATCATGGC
35966211 ATATCATGTGC
1 ATATCATG-GC
*
35966222 ATATTATGGC
1 ATATCATGGC
35966232 ATATCATG
1 ATATCATG
35966240 TATAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:35966230 original size:21 final size:21
Alignment explanation
Indices: 35966201--35966240 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35966191 ATATATGAAT
35966201 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
*
35966222 ATATTATGGCATATCATGT
1 ATATCATGGCATATCATGT
35966241 ATAAAACAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:35967752 original size:127 final size:128
Alignment explanation
Indices: 35967515--35967768 Score: 474
Period size: 127 Copynumber: 2.0 Consensus size: 128
35967505 GCCGATTTCT
*
35967515 CCTCCCTAATCCCCCCTATTCGGCCAACTCTAATCCCTCTTTCAAATCCCTAAAATCTCTCCCCT
1 CCTCCCTAATCCCCCCTATTCGACCAACTCTAATCCCTCTTTCAAATCCCTAAAATCTCTCCCCT
35967580 TATCACTCCTTAATCCATGCGTTTGACTGATTCAAACTCTCTCCAACAGGGTTTTATTCAGCA
66 TATCACTCCTTAATCCATGCGTTTGACTGATTCAAACTCTCTCCAACAGGGTTTTATTCAGCA
* *
35967643 CCTCCCTAAT-CCCCCTATTCGACCAACTCTAATCCCTCTTTCAAATCTCTAAGATCTCTCCCCT
1 CCTCCCTAATCCCCCCTATTCGACCAACTCTAATCCCTCTTTCAAATCCCTAAAATCTCTCCCCT
35967707 TATCACTCCTTAATCCATGCGTTTGACTGATTCAAACTCTCTCCAACAGGGTTTTATTCAGC
66 TATCACTCCTTAATCCATGCGTTTGACTGATTCAAACTCTCTCCAACAGGGTTTTATTCAGC
35967769 TTCAAACTTC
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
127 113 0.92
128 10 0.08
ACGTcount: A:0.23, C:0.36, G:0.08, T:0.33
Consensus pattern (128 bp):
CCTCCCTAATCCCCCCTATTCGACCAACTCTAATCCCTCTTTCAAATCCCTAAAATCTCTCCCCT
TATCACTCCTTAATCCATGCGTTTGACTGATTCAAACTCTCTCCAACAGGGTTTTATTCAGCA
Found at i:35971506 original size:47 final size:47
Alignment explanation
Indices: 35971396--35971513 Score: 123
Period size: 47 Copynumber: 2.5 Consensus size: 47
35971386 NNNNNNNNNN
* *
35971396 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGAGAAGGCCGAATGGCCAATGTGATGAACGTGAACATGCATATA
* ** * *
35971443 TGTGATAAGGTAGAATGGCCAATGTGATGAACGTGGAA-GTGTATATA
1 TGTGAGAAGGCCGAATGGCCAATGTGATGAACGT-GAACATGCATATA
* *
35971490 TGTGGCGAA-GCCGAATGGCTAATG
1 TGT-GAGAAGGCCGAATGGCCAATG
35971514 CGAAATGTGT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 53 0.90
48 6 0.10
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.25
Consensus pattern (47 bp):
TGTGAGAAGGCCGAATGGCCAATGTGATGAACGTGAACATGCATATA
Found at i:35984240 original size:20 final size:20
Alignment explanation
Indices: 35984215--35984266 Score: 72
Period size: 18 Copynumber: 2.7 Consensus size: 20
35984205 TATTTTATGT
*
35984215 ATTTAATGTGTCTTGAGTCC
1 ATTTAATATGTCTTGAGTCC
*
35984235 ATTTAATATGT-TCGAG-CC
1 ATTTAATATGTCTTGAGTCC
35984253 ATTTAATATGTCTT
1 ATTTAATATGTCTT
35984267 AAGTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 13 0.46
19 5 0.18
20 10 0.36
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (20 bp):
ATTTAATATGTCTTGAGTCC
Found at i:35985015 original size:306 final size:306
Alignment explanation
Indices: 35984462--35985073 Score: 1215
Period size: 306 Copynumber: 2.0 Consensus size: 306
35984452 ACTAAAAACA
35984462 CCCTTCAGTTACGAAAGCCTTGTTTAAAACATTTGATTTTTAAAAAAAAACTTAGTTGCGGAAAC
1 CCCTTCAGTTACGAAAGCCTTGTTTAAAACATTTGATTTTTAAAAAAAAACTTAGTTGCGGAAAC
35984527 ATAGAAAACATATTATAATTTAAGAAATCCATGTTCAACTTCTCGTAATTACATTGAAAATAATA
66 ATAGAAAACATATTATAATTTAAGAAATCCATGTTCAACTTCTCGTAATTACATTGAAAATAATA
35984592 ATAATAATTCAAGTAATAATAACATAATGAAAACCTTATTACAACCTGGTCTGAACACACTTAAA
131 ATAATAATTCAAGTAATAATAACATAATGAAAACCTTATTACAACCTGGTCTGAACACACTTAAA
*
35984657 AAGAAATAAAAACTTAAATGCTTAAAAAAAACCAAGTCTTAATTATCATGCTAGTCGGCCACCCA
196 AAGAAATAAAAACTTAAATGCTTAAAAAAAACCAAGTCTTAATTATCATGCTAGCCGGCCACCCA
35984722 GAGTCCCTCCAAACATCGAACCTTCTACTGAGCATCACCTGAAAAT
261 GAGTCCCTCCAAACATCGAACCTTCTACTGAGCATCACCTGAAAAT
35984768 CCCTTCAGTTACGAAAGCCTTGTTTAAAACATTTGATTTTTAAAAAAAAACTTAGTTGCGGAAAC
1 CCCTTCAGTTACGAAAGCCTTGTTTAAAACATTTGATTTTTAAAAAAAAACTTAGTTGCGGAAAC
35984833 ATAGAAAACATATTATAATTTAAGAAATCCATGTTCAACTTCTCGTAATTACATTGAAAATAATA
66 ATAGAAAACATATTATAATTTAAGAAATCCATGTTCAACTTCTCGTAATTACATTGAAAATAATA
35984898 ATAATAATTCAAGTAATAATAACATAATGAAAACCTTATTACAACCTGGTCTGAACACACTTAAA
131 ATAATAATTCAAGTAATAATAACATAATGAAAACCTTATTACAACCTGGTCTGAACACACTTAAA
35984963 AAGAAATAAAAACTTAAATGCTTAAAAAAAACCAAGTCTTAATTATCATGCTAGCCGGCCACCCA
196 AAGAAATAAAAACTTAAATGCTTAAAAAAAACCAAGTCTTAATTATCATGCTAGCCGGCCACCCA
35985028 GAGTCCCTCCAAACATCGAACCTTCTACTGAGCATCACCTGAAAAT
261 GAGTCCCTCCAAACATCGAACCTTCTACTGAGCATCACCTGAAAAT
35985074 AAAATAAAAG
Statistics
Matches: 305, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
306 305 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (306 bp):
CCCTTCAGTTACGAAAGCCTTGTTTAAAACATTTGATTTTTAAAAAAAAACTTAGTTGCGGAAAC
ATAGAAAACATATTATAATTTAAGAAATCCATGTTCAACTTCTCGTAATTACATTGAAAATAATA
ATAATAATTCAAGTAATAATAACATAATGAAAACCTTATTACAACCTGGTCTGAACACACTTAAA
AAGAAATAAAAACTTAAATGCTTAAAAAAAACCAAGTCTTAATTATCATGCTAGCCGGCCACCCA
GAGTCCCTCCAAACATCGAACCTTCTACTGAGCATCACCTGAAAAT
Found at i:35985904 original size:28 final size:28
Alignment explanation
Indices: 35985793--35985904 Score: 109
Period size: 28 Copynumber: 4.0 Consensus size: 28
35985783 ACCTATATAT
* * *
35985793 ATATGGCCTACTAGGCCCAATCTCTTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
35985821 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCACTAGGCCCAATCACATTC
* * * *
35985849 ATGTGGCCCATTAGGCGCAAATCGCATTC
1 ATATGGCCCACTAGGC-CCAATCACATTC
35985878 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
35985905 TACAGTCATG
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
27 1 0.01
28 53 0.79
29 13 0.19
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:35987259 original size:286 final size:286
Alignment explanation
Indices: 35986747--35987322 Score: 1143
Period size: 286 Copynumber: 2.0 Consensus size: 286
35986737 CTAAAAAAAA
35986747 TGAATCAAAAACCTGAGTAGAAGAAGAATAAAAATTTGCACAAGAAGAGAAATAAAGAAGCAAGG
1 TGAATCAAAAACCTGAGTAGAAGAAGAATAAAAATTTGCACAAGAAGAGAAATAAAGAAGCAAGG
35986812 GTTTTTGGCTTTTTGGATCTTGAAGAGAAAAGGGTTTTCGGTAACAGAGTGACAAAGATTTTGGC
66 GTTTTTGGCTTTTTGGATCTTGAAGAGAAAAGGGTTTTCGGTAACAGAGTGACAAAGATTTTGGC
35986877 ATTAGCCTGGAAACCTTGCATTCGGCACCTATTTATAGCCCGTATAGCCGAATTCCTCATAGCTA
131 ATTAGCCTGGAAACCTTGCATTCGGCACCTATTTATAGCCCGTATAGCCGAATTCCTCATAGCTA
35986942 AATTCCCATTTCGGCTCCAACACTTCCCCCTTCTCATCTCCTCGTTTTTCTCCCTGATAACTCCC
196 AATTCCCATTTCGGCTCCAACACTTCCCCCTTCTCATCTCCTCGTTTTTCTCCCTGATAACTCCC
35987007 CAATCTATTTCCTAAATTTTCTCTTC
261 CAATCTATTTCCTAAATTTTCTCTTC
35987033 TGAATCAAAAACCTGAGTAGAAGAAGAATAAAAATTTGCACAAGAAGAGAAATAAAGAAGCAAGG
1 TGAATCAAAAACCTGAGTAGAAGAAGAATAAAAATTTGCACAAGAAGAGAAATAAAGAAGCAAGG
35987098 GTTTTTGGCTTTTTGGATCTTGAAGAGAAAAGGGTTTTCGGTAACAGAGTGACAAAGATTTTGGC
66 GTTTTTGGCTTTTTGGATCTTGAAGAGAAAAGGGTTTTCGGTAACAGAGTGACAAAGATTTTGGC
35987163 ATTAGCCTGGAAACCTTGCATTCGGCACCTATTTATAGCCCGTATAGCCGAATTCCTCATAGCTA
131 ATTAGCCTGGAAACCTTGCATTCGGCACCTATTTATAGCCCGTATAGCCGAATTCCTCATAGCTA
*
35987228 AATTCTCATTTCGGCTCCAACACTTCCCCCTTCTCATCTCCTCGTTTTTCTCCCTGATAACTCCC
196 AATTCCCATTTCGGCTCCAACACTTCCCCCTTCTCATCTCCTCGTTTTTCTCCCTGATAACTCCC
35987293 CAATCTATTTCCTAAATTTTCTCTTC
261 CAATCTATTTCCTAAATTTTCTCTTC
35987319 TGAA
1 TGAA
35987323 CACTCCCCTT
Statistics
Matches: 289, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
286 289 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (286 bp):
TGAATCAAAAACCTGAGTAGAAGAAGAATAAAAATTTGCACAAGAAGAGAAATAAAGAAGCAAGG
GTTTTTGGCTTTTTGGATCTTGAAGAGAAAAGGGTTTTCGGTAACAGAGTGACAAAGATTTTGGC
ATTAGCCTGGAAACCTTGCATTCGGCACCTATTTATAGCCCGTATAGCCGAATTCCTCATAGCTA
AATTCCCATTTCGGCTCCAACACTTCCCCCTTCTCATCTCCTCGTTTTTCTCCCTGATAACTCCC
CAATCTATTTCCTAAATTTTCTCTTC
Found at i:35993859 original size:24 final size:24
Alignment explanation
Indices: 35993832--35993886 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
35993822 TACCCCTAAG
* *
35993832 TAGGGAAAATTACCATTATAGCCC
1 TAGGGAAAATGACCAATATAGCCC
* *
35993856 TAGGTACAAAATGACCAATATAGCCT
1 TAGG--GAAAATGACCAATATAGCCC
35993882 TAGGG
1 TAGGG
35993887 TTAATTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
24 4 0.17
26 20 0.83
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (24 bp):
TAGGGAAAATGACCAATATAGCCC
Found at i:36001970 original size:27 final size:26
Alignment explanation
Indices: 36001929--36001988 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
36001919 ACATATGTAT
* *
36001929 ATATCTGCTCTGGTGGCCTAGCCACA
1 ATATCTGATCTGGTGACCTAGCCACA
* * *
36001955 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTG-ATCTGGTGACCTAGCCACA
36001982 ATATCTG
1 ATATCTG
36001989 GTAGCCTCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGATCTGGTGACCTAGCCACA
Found at i:36009242 original size:163 final size:163
Alignment explanation
Indices: 36008972--36009297 Score: 643
Period size: 163 Copynumber: 2.0 Consensus size: 163
36008962 CTTGCTTGGT
36008972 GTTGATGTTGTGTTGATGAGATATCAAGTTATTTTTGTGACCCAAGTTGAGATTTGGATTTTGGA
1 GTTGATGTTGTGTTGATGAGATATCAAGTTATTTTTGTGACCCAAGTTGAGATTTGGATTTTGGA
36009037 ATGAGTAAGGTTTTCGGCTATGGTAATTATAAGGGTGATGGATGTTGTTTCATGCTAAATCTAGA
66 ATGAGTAAGGTTTTCGGCTATGGTAATTATAAGGGTGATGGATGTTGTTTCATGCTAAATCTAGA
36009102 TGAACAATGTTAGTGCTTATATCTCGATATTTA
131 TGAACAATGTTAGTGCTTATATCTCGATATTTA
*
36009135 GTTGATGTTGTGTTGATGAGATATTAAGTTATTTTTGTGACCCAAGTTGAGATTTGGATTTTGGA
1 GTTGATGTTGTGTTGATGAGATATCAAGTTATTTTTGTGACCCAAGTTGAGATTTGGATTTTGGA
36009200 ATGAGTAAGGTTTTCGGCTATGGTAATTATAAGGGTGATGGATGTTGTTTCATGCTAAATCTAGA
66 ATGAGTAAGGTTTTCGGCTATGGTAATTATAAGGGTGATGGATGTTGTTTCATGCTAAATCTAGA
36009265 TGAACAATGTTAGTGCTTATATCTCGATATTTA
131 TGAACAATGTTAGTGCTTATATCTCGATATTTA
36009298 TGAGTTTCTT
Statistics
Matches: 162, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 162 1.00
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.41
Consensus pattern (163 bp):
GTTGATGTTGTGTTGATGAGATATCAAGTTATTTTTGTGACCCAAGTTGAGATTTGGATTTTGGA
ATGAGTAAGGTTTTCGGCTATGGTAATTATAAGGGTGATGGATGTTGTTTCATGCTAAATCTAGA
TGAACAATGTTAGTGCTTATATCTCGATATTTA
Found at i:36011102 original size:56 final size:56
Alignment explanation
Indices: 36011035--36011208 Score: 348
Period size: 56 Copynumber: 3.1 Consensus size: 56
36011025 GTACTAATTG
36011035 GCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTT
1 GCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTT
36011091 GCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTT
1 GCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTT
36011147 GCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTT
1 GCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTT
36011203 GCCCAT
1 GCCCAT
36011209 CATTCCTTGT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.45
Consensus pattern (56 bp):
GCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTT
Found at i:36017090 original size:40 final size:40
Alignment explanation
Indices: 36017046--36017263 Score: 219
Period size: 40 Copynumber: 5.5 Consensus size: 40
36017036 GCTCCTCGTT
* *
36017046 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAACCCGGATT-TAGTAACTCGCA
* *
36017086 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
*
36017126 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
* * * * * *
36017166 CCAATGCCTTC-GGGCTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
36017205 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCAGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
36017246 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCAGGACTTA
36017264 GCCTGGACAT
Statistics
Matches: 150, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
39 34 0.23
40 104 0.69
41 12 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36017179 original size:80 final size:80
Alignment explanation
Indices: 36017046--36017263 Score: 255
Period size: 79 Copynumber: 2.7 Consensus size: 80
36017036 GCTCCTCGTT
* * *
36017046 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCAGGACTTAGCCCGGATT-TAGTAACTTGCACCAATGCCTTCGGGACTTAACCCG
*
36017110 GATTTAGTAACTCACA
65 GAATTAGTAACTCACA
* *
36017126 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTTGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCAGGACTTAGCCCGGATTTAGTAACTTGCACCAATGCCTTCGGGACTTAACCCGG
* **
36017190 AATTAGTATCTCGTA
66 AATTAGTAACTCACA
* * * * *
36017205 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTA
1 CAAATGCCTTCAGGA-CTTAGCCCGGATTTAGTAACTT-GCACCAATGCCTTCGGGACTTA
36017264 GCCTGGACAT
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
78 3 0.03
79 60 0.50
80 54 0.45
81 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCAGGACTTAGCCCGGATTTAGTAACTTGCACCAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCACA
Found at i:36017254 original size:119 final size:120
Alignment explanation
Indices: 36017048--36017263 Score: 269
Period size: 119 Copynumber: 1.8 Consensus size: 120
36017038 TCCTCGTTCA
*
36017048 AATGCCTTCAGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
36017113 TTAGTAACTCACACAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTTGCACC
66 ATAGTAACTCACACAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTTGCACC
* * * * **
36017168 AATGCCTTC-GGGCTTAGCCCGGA-ATTAGTATCTCGTACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCAGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
36017230 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
64 ATATAGTAACTCA-CACAAATGCCTTCAGGACTTA
36017264 GCCTGGACAT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 4 0.05
119 62 0.77
120 15 0.19
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (120 bp):
AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTCACACAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTTGCACC
Found at i:36025306 original size:28 final size:29
Alignment explanation
Indices: 36025247--36025306 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
36025237 TTCACTTTTA
* *
36025247 TTTCTCAATTTAACCCCTTAATTTACACT
1 TTTCTCAAATTAACCCCTTAATTGACACT
*
36025276 TTTCTCAAATT-ACTCCC-TAATTGACATT
1 TTTCTCAAATTAAC-CCCTTAATTGACACT
36025304 TTT
1 TTT
36025307 GTAAAAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.47
Consensus pattern (29 bp):
TTTCTCAAATTAACCCCTTAATTGACACT
Found at i:36032340 original size:49 final size:49
Alignment explanation
Indices: 36032265--36032452 Score: 216
Period size: 49 Copynumber: 3.8 Consensus size: 49
36032255 TAGCCGAAGC
* *
36032265 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAGACCAAT
* * * * *
36032314 AATCTGGTACACGTAGTAGCCCGCACTTAGTACTACACACGTGATCACAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAGA-C-CAAT
* * * * * *
36032365 TTTCGGGTACGCATACTAGCTTGCACTTAGTACTACACATAAGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAGACCAAT
*
36032414 TATCCT-GTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TAT-CTGGTACACATAGTAGCCTGCACTTAGTACTACACA
36032453 CGTGACCTCA
Statistics
Matches: 113, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 73 0.65
50 3 0.03
51 37 0.33
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAGACCAAT
Done.