Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 97 of 226
Found at i:33412055 original size:51 final size:51
Alignment explanation
Indices: 33411973--33412160 Score: 222
Period size: 51 Copynumber: 3.7 Consensus size: 51
33411963 GATGAACACG
* * *
33411973 TGTGTAGTACTATGTGAAGGCTACTGCGTGTATTGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGTCACA
* * *
33412024 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGCT-TTGGTCAAA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA--TATTGGTCACA
* * * * *
33412075 TGTGTAGTACTATGTGGAGGCTACTACGTGGACCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATA-TTGGTCACA
33412125 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
33412161 ATGATAATAA
Statistics
Matches: 114, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
50 41 0.36
51 72 0.63
52 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGTCACA
Found at i:33412149 original size:101 final size:102
Alignment explanation
Indices: 33411973--33412161 Score: 265
Period size: 101 Copynumber: 1.9 Consensus size: 102
33411963 GATGAACACG
* * ** *
33411973 TGTGTAGTACTATGTGAAGGCTACTGCGTGTATTGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGGACCGATAAATAATGATCACATGTGTAGTACTAAG
*
33412038 TGAAGGCTACTATGTGTATCGAAAAGCTTTGGTCAAA
66 TGAAGGCTACTACGTGTATCGAAAAGCTTTGGTCAAA
* * * *
33412075 TGTGTAGTACTATGTGGAGGCTACTACGTGGACCG-TAAA-ACTTGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGGACCGATAAATA-ATGATCACATGTGTAGTACTAA
33412138 GTGAAGGCTACTACGTGTATCGAA
65 GTGAAGGCTACTACGTGTATCGAA
33412162 TGATAATAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
100 1 0.01
101 45 0.59
102 30 0.39
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (102 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGGACCGATAAATAATGATCACATGTGTAGTACTAAG
TGAAGGCTACTACGTGTATCGAAAAGCTTTGGTCAAA
Found at i:33421717 original size:23 final size:23
Alignment explanation
Indices: 33421691--33421766 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
33421681 ATAAGTGCCA
33421691 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
33421714 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
33421737 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
33421760 CACTGAT
1 CACTGAT
33421767 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:33421866 original size:8 final size:8
Alignment explanation
Indices: 33421853--33421881 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
33421843 ACCCGGGACT
33421853 CACTGTAA
1 CACTGTAA
33421861 CACTGTAA
1 CACTGTAA
33421869 CACTGTAA
1 CACTGTAA
33421877 CACTG
1 CACTG
33421882 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:33427321 original size:23 final size:23
Alignment explanation
Indices: 33427295--33427370 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
33427285 ATAAGTGCCA
33427295 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
33427318 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
33427341 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
33427364 CACTGAT
1 CACTGAT
33427371 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:33427470 original size:8 final size:8
Alignment explanation
Indices: 33427457--33427485 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
33427447 ACCCGGGACT
33427457 CACTGTAA
1 CACTGTAA
33427465 CACTGTAA
1 CACTGTAA
33427473 CACTGTAA
1 CACTGTAA
33427481 CACTG
1 CACTG
33427486 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:33427616 original size:18 final size:17
Alignment explanation
Indices: 33427590--33427628 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
33427580 ATTTTCCTTC
33427590 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
33427607 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
33427625 CACA
1 CACA
33427629 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:33440762 original size:25 final size:25
Alignment explanation
Indices: 33440734--33440789 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
33440724 ATTAGAAAGA
* *
33440734 AATTTCAATTAATCAACCTAGAGTT
1 AATTGCAATTAATCAACATAGAGTT
**
33440759 AATTGCTCTTAATCAACATAGAGTT
1 AATTGCAATTAATCAACATAGAGTT
*
33440784 AGTTGC
1 AATTGC
33440790 TCTTACTCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (25 bp):
AATTGCAATTAATCAACATAGAGTT
Found at i:33440790 original size:25 final size:25
Alignment explanation
Indices: 33440742--33440794 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
33440732 GAAATTTCAA
*
33440742 TTAATCAACCTAGAGTTAATTGCTC
1 TTAATCAACATAGAGTTAATTGCTC
*
33440767 TTAATCAACATAGAGTTAGTTGCTC
1 TTAATCAACATAGAGTTAATTGCTC
33440792 TTA
1 TTA
33440795 CTCTCGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (25 bp):
TTAATCAACATAGAGTTAATTGCTC
Found at i:33441702 original size:73 final size:72
Alignment explanation
Indices: 33441567--33441738 Score: 265
Period size: 73 Copynumber: 2.4 Consensus size: 72
33441557 AAAATAAGTA
*
33441567 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCTCGAGCTTT
1 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCTCGAGCTTT
33441632 CGGGGAT
66 CGGGGAT
* *
33441639 TTAGCGGCGTTTCTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTT-TGTGAGCT
1 TTAGCGGCGTTTCTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTCT-CGAGCT
33441703 TTCGGGGAT
64 TTCGGGGAT
* * *
33441712 TTAGCGGCGTTTTTAAGAACGCGCCGC
1 TTAGCGGCGTTTCTGAGAAAGCGCCGC
33441739 TAACGCTCAG
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
72 26 0.29
73 65 0.71
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.23
Consensus pattern (72 bp):
TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCTCGAGCTTT
CGGGGAT
Found at i:33441786 original size:114 final size:114
Alignment explanation
Indices: 33441638--33441953 Score: 515
Period size: 114 Copynumber: 2.8 Consensus size: 114
33441628 CTTTCGGGGA
* *
33441638 TTTAGCGGCGTTTCTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
*
33441703 TTCGGGGATTTAGCGGCGTTTTTAAGAACGCGCCGCTAACGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAACGCTCAGGGC
* * *
33441752 TTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCAACTACGACGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
* * * *
33441817 TTCGGGGATTTAGCGGCGTTTTAAAGAAATCGCCGCTAATGTTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAACGCTCAGGGC
* *
33441866 GTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAATGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
*
33441931 TTCGGGGATTTAACGGCGTTTTT
66 TTCGGGGATTTAGCGGCGTTTTT
33441954 GGGGAAGCGC
Statistics
Matches: 185, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 185 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAACGCTCAGGGC
Found at i:33442003 original size:74 final size:73
Alignment explanation
Indices: 33441871--33442040 Score: 225
Period size: 74 Copynumber: 2.3 Consensus size: 73
33441861 AGGGCGTTAG
* * * *
33441871 CGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAATGACGCCGTTTTGTGAGCTTTCGG
1 CGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTATTCTGAGCTTTCGG
33441936 GGATTTAA
66 GGATTTAA
* * *
33441944 CGGCGTTTTTGGGGAAGCGCCGCAAAAAAAAACTAAGCCCAACGATGCCGTATTCTGAGCTTTCG
1 CGGCGTTTTTGAGAAAGCGCCGC-AAAAAAAACTAAGCCCAACGACGCCGTATTCTGAGCTTTCG
*
33442009 GGGATTTAG
65 GGGATTTAA
* *
33442018 CTGG-GCTTTTAAGAAAGCGCCGC
1 C-GGCGTTTTTGAGAAAGCGCCGC
33442041 TAATGTTCAG
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
73 21 0.25
74 60 0.72
75 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (73 bp):
CGGCGTTTTTGAGAAAGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTATTCTGAGCTTTCGG
GGATTTAA
Found at i:33442073 original size:188 final size:187
Alignment explanation
Indices: 33441745--33442132 Score: 530
Period size: 188 Copynumber: 2.1 Consensus size: 187
33441735 CCGCTAACGC
* * * * *
33441745 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCAACTACGACGTTTT
1 TCAGGGATTTAACGGCGTTTTTGAGAAAGCGCCACAAAAAAAACTAAGCCCAACGACGACGTATT
* *
33441810 GTGAGCTTTCGGGGATTTAGCGGCGTTTTAAAGAAATCGCCGCTAATGTTCAGGGCGTTAGCGGC
66 CTGAGCTTTCGGGGATTTAGCGGCGTTTTAAAGAAAGCGCCGCTAATGTTCAGGGCGTTAGCGGC
* *
33441875 GTTTTTGAGAAAGCGCCGCAAAAAAACCT-AAGCCCAATGACGCCGTTTTGTGAGCTT
131 GTTTTTGAGAAAGCGCCGC-AAAAAACCTAAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * * * *
33441932 TCGGGGATTTAACGGCGTTTTTGGGGAAGCGCCGCAAAAAAAAACTAAGCCCAACGATGCCGTAT
1 TCAGGGATTTAACGGCGTTTTTGAGAAAGCGCCAC-AAAAAAAACTAAGCCCAACGACGACGTAT
*
33441997 TCTGAGCTTTCGGGGATTTAGCTGG-GCTTTT-AAGAAAGCGCCGCTAATGTTCAGGGCTTTAGC
65 TCTGAGCTTTCGGGGATTTAGC-GGCG-TTTTAAAGAAAGCGCCGCTAATGTTCAGGGCGTTAGC
* * **
33442060 GGCGTTTTTGAGAAAGTGCCGCAAATAATTTAAAGCCCAACGACGCCGTTTTCTGAGCTT
128 GGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAAGCCCAACGACGCCGTTTTCTGAGCTT
*
33442120 TTAGGGATTTAAC
1 TCAGGGATTTAAC
33442133 AGCCAAAAAT
Statistics
Matches: 175, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
187 35 0.20
188 134 0.77
189 6 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (187 bp):
TCAGGGATTTAACGGCGTTTTTGAGAAAGCGCCACAAAAAAAACTAAGCCCAACGACGACGTATT
CTGAGCTTTCGGGGATTTAGCGGCGTTTTAAAGAAAGCGCCGCTAATGTTCAGGGCGTTAGCGGC
GTTTTTGAGAAAGCGCCGCAAAAAACCTAAAGCCCAACGACGCCGTTTTCTGAGCTT
Found at i:33442119 original size:302 final size:300
Alignment explanation
Indices: 33441567--33442130 Score: 837
Period size: 302 Copynumber: 1.9 Consensus size: 300
33441557 AAAATAAGTA
33441567 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCTCGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCTCGAGCTTT
* * * * *
33441632 CGGGGATTTAGCGGCGTTTCTGAGAAAGTGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTG
66 CGGGGATTTAACGGCGTTTCTGAGAAAGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTATTC
* *
33441697 TGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAACGCGCCGCTAACGCTCAGGGCTTTAGCGGCG
131 TGAGCTTTCGGGGATTTAGCGGCGCTTTTAAGAAAGCGCCGCTAACGCTCAGGGCTTTAGCGGCG
* * *
33441762 TTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCAACTACGACGTTTTGTGAGCTTTCGGGGATT
196 TTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGACGTTTTCTGAGCTTTCAGGGATT
33441827 TAGCGGCGTTTTAAAGAAATCGCCGCTAATGTTCAGGGCG
261 TAGCGGCGTTTTAAAGAAATCGCCGCTAATGTTCAGGGCG
* *
33441867 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAATGACGCCGTTT-TGTGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTCT-CGAGCT
* * * *
33441931 TTCGGGGATTTAACGGCGTTTTTGGGGAAGCGCCGCAAAAAAAAACTAAGCCCAACGATGCCGTA
64 TTCGGGGATTTAACGGCGTTTCTGAGAAAGCGCCGC-AAAAAAAACTAAGCCCAACGACGCCGTA
* *
33441996 TTCTGAGCTTTCGGGGATTTAGCTGG-GCTTTTAAGAAAGCGCCGCTAATGTTCAGGGCTTTAGC
128 TTCTGAGCTTTCGGGGATTTAGC-GGCGCTTTTAAGAAAGCGCCGCTAACGCTCAGGGCTTTAGC
* * * ** * *
33442060 GGCGTTTTTGAGAAAGTGCCGC-AAATAATTTAAAGCCCAACGACGCCGTTTTCTGAGCTTTTAG
192 GGCGTTTTTGAGAAAGCGCCACAAAAAAACCT-AAGCCCAACGACGACGTTTTCTGAGCTTTCAG
33442124 GGATTTA
256 GGATTTA
33442131 ACAGCCAAAA
Statistics
Matches: 234, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
300 28 0.12
301 69 0.29
302 135 0.58
303 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (300 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTCTCGAGCTTT
CGGGGATTTAACGGCGTTTCTGAGAAAGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTATTC
TGAGCTTTCGGGGATTTAGCGGCGCTTTTAAGAAAGCGCCGCTAACGCTCAGGGCTTTAGCGGCG
TTTTTGAGAAAGCGCCACAAAAAAACCTAAGCCCAACGACGACGTTTTCTGAGCTTTCAGGGATT
TAGCGGCGTTTTAAAGAAATCGCCGCTAATGTTCAGGGCG
Found at i:33442468 original size:14 final size:14
Alignment explanation
Indices: 33442449--33442478 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
33442439 AAGTATGGGT
33442449 TTAGGGATTATGGA
1 TTAGGGATTATGGA
33442463 TTAGGGATTATGGA
1 TTAGGGATTATGGA
33442477 TT
1 TT
33442479 TAAGGTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:33442580 original size:14 final size:15
Alignment explanation
Indices: 33442563--33442604 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
33442553 TAGGGATTAT
33442563 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
33442577 GGTTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
*
33442592 GG-TTAGGGGTTAG
1 GGTTTAAGGGTTAG
33442605 ATGTTAGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.48, T:0.36
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:33442610 original size:14 final size:14
Alignment explanation
Indices: 33442593--33442627 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
33442583 AGGTTTAGGG
33442593 GTTAGGGGTT-AGA
1 GTTAGGGGTTAAGA
33442606 TGTTAGGGGTTAAGA
1 -GTTAGGGGTTAAGA
33442621 GTTAGGG
1 GTTAGGG
33442628 ATATAAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (14 bp):
GTTAGGGGTTAAGA
Found at i:33443566 original size:108 final size:108
Alignment explanation
Indices: 33443419--33443743 Score: 451
Period size: 109 Copynumber: 3.0 Consensus size: 108
33443409 AAAGGTAAGC
* * *
33443419 AATAGCGGTGTTTTTTATAAAAAAACGCCGTAAAAAATAAAT-AACTTTATAAAAAAATAAAATA
1 AATAGCGGCGTTTTTT-TATAAAAACGCCGCAAAAAATAAATCAA-TTTATAAAAAAATAAAATA
* * * *
33443483 AAAATTTTTTAGCATAGCAAAACGGTGTTATTTTGTTGAAAATGA
64 AAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
* * *
33443528 AATAGCGACGTTTTTTTATAAAAGCGCCGCAAAAAATAAATCAATATATATAAAAAATAAAATAA
1 AATAGCGGCGTTTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATA-AAAAAATAAAATAA
* *
33443593 AAAATCTTTAGCAGAGCAAAACGGCGTCATTTTGTTCAAAATGA
65 AAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
*
33443637 CATAGCGGCG-TTTTTTATAAAAACGCCGC-AAAAATAAATCAATTTAT-AAAAAATAAAATAAA
1 AATAGCGGCGTTTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAATAAA
* * *
33443699 AAAATTTTAGAATAGCAAAATGGCGTCATTTTGTTCAAAATGA
66 AAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
33443742 AA
1 AA
33443744 ATTTTATTAC
Statistics
Matches: 192, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
105 54 0.28
107 17 0.09
108 45 0.23
109 76 0.40
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (108 bp):
AATAGCGGCGTTTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAATAAA
AAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
Found at i:33446177 original size:13 final size:13
Alignment explanation
Indices: 33446147--33446247 Score: 53
Period size: 13 Copynumber: 7.6 Consensus size: 13
33446137 ACTTTAGTGT
* *
33446147 ATTACTTGAATAT
1 ATTACTTAAATAA
*
33446160 TTTACTTAAATAA
1 ATTACTTAAATAA
*
33446173 ATTACTTAAAATAC
1 ATTACTT-AAATAA
*
33446187 ATTACTT-ACTAAA
1 ATTACTTAAAT-AA
** **
33446200 ATTGGGTTAAATTT
1 ATT-ACTTAAATAA
33446214 ATTACTTAAA-AA
1 ATTACTTAAATAA
* *
33446226 TGTTACTTAAATAC
1 -ATTACTTAAATAA
33446240 ATTACTTA
1 ATTACTTA
33446248 CTAAAATTTA
Statistics
Matches: 63, Mismatches: 19, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
12 2 0.03
13 41 0.65
14 18 0.29
15 2 0.03
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (13 bp):
ATTACTTAAATAA
Found at i:33446190 original size:14 final size:14
Alignment explanation
Indices: 33446161--33446194 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
33446151 CTTGAATATT
33446161 TTACTT-AAATAAA
1 TTACTTAAAATAAA
*
33446174 TTACTTAAAATACA
1 TTACTTAAAATAAA
33446188 TTACTTA
1 TTACTTA
33446195 CTAAAATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (14 bp):
TTACTTAAAATAAA
Found at i:33446201 original size:27 final size:26
Alignment explanation
Indices: 33446171--33446255 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
33446161 TTACTTAAAT
33446171 AAATTACTTAAAATACATTACTTACTA
1 AAATTACTT-AAATACATTACTTACTA
** **
33446198 AAATTGGGTTAAATTTATTACTTA--A
1 AAATT-ACTTAAATACATTACTTACTA
33446223 AAATGTTACTTAAATACATTACTTACTA
1 AAA--TTACTTAAATACATTACTTACTA
33446251 AAATT
1 AAATT
33446256 TAAGTATATA
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
25 4 0.09
26 16 0.36
27 19 0.42
28 6 0.13
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.40
Consensus pattern (26 bp):
AAATTACTTAAATACATTACTTACTA
Found at i:33446330 original size:19 final size:18
Alignment explanation
Indices: 33446288--33446330 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
33446278 AAGAACTTAT
33446288 TAAAATATATTAAATTAC
1 TAAAATATATTAAATTAC
*
33446306 TTAAATATATATT-ATTTAC
1 -TAAA-ATATATTAAATTAC
33446325 TAAAAT
1 TAAAAT
33446331 TGGGTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.09
18 4 0.18
19 9 0.41
20 7 0.32
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATATATTAAATTAC
Found at i:33446360 original size:13 final size:13
Alignment explanation
Indices: 33446344--33446371 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33446334 GTTAAATTTA
33446344 TTACTTAAAAATG
1 TTACTTAAAAATG
33446357 TTACTTAAAAATG
1 TTACTTAAAAATG
33446370 TT
1 TT
33446372 GCCAATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (13 bp):
TTACTTAAAAATG
Found at i:33448497 original size:25 final size:25
Alignment explanation
Indices: 33448468--33448515 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
33448458 TTAAGGTAAA
33448468 CTTGCAAAAGCTAGGTACTATATAG
1 CTTGCAAAAGCTAGGTACTATATAG
33448493 CTTGCAAAAGCTAGGTACTATAT
1 CTTGCAAAAGCTAGGTACTATAT
33448516 GAGATACACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (25 bp):
CTTGCAAAAGCTAGGTACTATATAG
Found at i:33449140 original size:21 final size:20
Alignment explanation
Indices: 33449114--33449156 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
33449104 TTGAACCCTG
*
33449114 AACCTCAAACCCTAAATCCCA
1 AACCTCAAACCATAAA-CCCA
33449135 AACCTCAAACCATAAACCCA
1 AACCTCAAACCATAAACCCA
33449155 AA
1 AA
33449157 TCTCGAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.12
Consensus pattern (20 bp):
AACCTCAAACCATAAACCCA
Found at i:33449214 original size:7 final size:7
Alignment explanation
Indices: 33449198--33449256 Score: 57
Period size: 7 Copynumber: 8.6 Consensus size: 7
33449188 AACCTTTTGA
*
33449198 TTTAGTG
1 TTTAGGG
33449205 TTTAGGG
1 TTTAGGG
*
33449212 TTTA-AG
1 TTTAGGG
*
33449218 TTTAAGG
1 TTTAGGG
*
33449225 TTTGGGG
1 TTTAGGG
33449232 TTTAGGG
1 TTTAGGG
*
33449239 TTTAAGG
1 TTTAGGG
*
33449246 TTTAGGA
1 TTTAGGG
33449253 TTTA
1 TTTA
33449257 AGATTCAGGG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 5 0.12
7 37 0.88
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:33449247 original size:14 final size:14
Alignment explanation
Indices: 33449204--33449258 Score: 67
Period size: 14 Copynumber: 4.0 Consensus size: 14
33449194 TTGATTTAGT
33449204 GTTTAGGGTTTAA-
1 GTTTAGGGTTTAAG
* **
33449217 GTTTAAGGTTTGGG
1 GTTTAGGGTTTAAG
33449231 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
*
33449245 GTTTAGGATTTAAG
1 GTTTAGGGTTTAAG
33449259 ATTCAGGGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
13 10 0.29
14 24 0.71
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:33449766 original size:3 final size:3
Alignment explanation
Indices: 33449758--33449793 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
33449748 CGTGAAAATG
33449758 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33449794 GGATTTGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33449966 original size:98 final size:97
Alignment explanation
Indices: 33449842--33450038 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 97
33449832 GTAAAAGCTT
33449842 GAGAACTTGGTCTCTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATAAGCTAGTAAAC
1 GAGAACTTGGTCTCTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATAAGCTAGTAAAC
33449907 ATAAGGTGTATTAACAACTATGGCTCAATATA
66 ATAAGGTGTATTAACAACTATGGCTCAATATA
* * *
33449939 GAGAACTTGGTCTATTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATTAGCTAGTAAG
1 GAGAACTTGGTCT-CTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATAAGCTAGTAAA
33450004 CATAAGGTGTATTAACAACTATGGCTCAATATA
65 CATAAGGTGTATTAACAACTATGGCTCAATATA
33450037 GA
1 GA
33450039 AACATAGTTG
Statistics
Matches: 96, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
97 13 0.14
98 83 0.86
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (97 bp):
GAGAACTTGGTCTCTAAGTAATGAAAATTTGTATTGAAAGTTGATGCATTGATAAGCTAGTAAAC
ATAAGGTGTATTAACAACTATGGCTCAATATA
Found at i:33451914 original size:2 final size:2
Alignment explanation
Indices: 33451907--33451938 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
33451897 ACCACGCACG
33451907 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
33451939 AAAAAGGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:33453908 original size:41 final size:41
Alignment explanation
Indices: 33453848--33454114 Score: 367
Period size: 41 Copynumber: 6.6 Consensus size: 41
33453838 AATTGTTTCT
*
33453848 TGAATTGCACATACGTGCCCCTGTTTATACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
33453889 TGAATTGCACATACATGCCCCTGTTTGCACTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * *
33453930 TGAATTACACATACGTGCCCTTTTTTGTACTTTGATACCGC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
33453971 TGAATTGCACATATGTTCCCCTATTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
33454012 TGAATTTCACATACGT-ACCCTGTTTGTACTTCGGTACTCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
33454052 TGAATTGCACATACGTG-CCCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
33454092 TGAATTGCACATACGTGCCCCTG
1 TGAATTGCACATACGTGCCCCTG
33454115 CTTACACTCT
Statistics
Matches: 196, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 74 0.38
41 122 0.62
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:33454092 original size:20 final size:20
Alignment explanation
Indices: 33454029--33454093 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
33454019 CACATACGTA
33454029 CCCTGTTTGTACTTCGGTAC
1 CCCTGTTTGTACTTCGGTAC
* * * * *
33454049 TCCTGAATTGCACATAC-GT-G
1 CCCTG-TTTGTAC-TTCGGTAC
33454069 CCCTGTTTGTACTTCGGTAC
1 CCCTGTTTGTACTTCGGTAC
33454089 CCCTG
1 CCCTG
33454094 AATTGCACAT
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
18 2 0.06
19 7 0.23
20 13 0.42
21 7 0.23
22 2 0.06
ACGTcount: A:0.14, C:0.31, G:0.20, T:0.35
Consensus pattern (20 bp):
CCCTGTTTGTACTTCGGTAC
Found at i:33454114 original size:21 final size:21
Alignment explanation
Indices: 33454050--33454114 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
33454040 CTTCGGTACT
33454050 CCTGAATTGCACATACGTG-C
1 CCTGAATTGCACATACGTGCC
* * * *
33454070 CCTG-TTTGTAC-TTCGGTACC
1 CCTGAATTGCACATAC-GTGCC
33454090 CCTGAATTGCACATACGTGCC
1 CCTGAATTGCACATACGTGCC
33454111 CCTG
1 CCTG
33454115 CTTACACTCT
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
18 2 0.06
19 7 0.21
20 9 0.27
21 13 0.39
22 2 0.06
ACGTcount: A:0.18, C:0.32, G:0.20, T:0.29
Consensus pattern (21 bp):
CCTGAATTGCACATACGTGCC
Found at i:33465933 original size:3 final size:3
Alignment explanation
Indices: 33465925--33465977 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
33465915 AACTAATACA
* * * * * *
33465925 AAT AAT AAT ACT AAT AAT TAT AGT AAC ATT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33465973 AAT AA
1 AAT AA
33465978 AAAATACTTA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33479451 original size:3 final size:3
Alignment explanation
Indices: 33479443--33479495 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
33479433 AACTAATACA
* * * * * *
33479443 AAT AAT AAT ACT AAT AAT TAT AGT AAC ATT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33479491 AAT AA
1 AAT AA
33479496 AAAATACTTA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33483026 original size:19 final size:19
Alignment explanation
Indices: 33482998--33483039 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
33482988 TTTTCAAGTG
**
33482998 TTTTTAATGTCTTTTTAGT
1 TTTTTAATGTAATTTTAGT
33483017 ATTTTT-ATGTAATTTTAGT
1 -TTTTTAATGTAATTTTAGT
33483036 TTTT
1 TTTT
33483040 ACAAGTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.20
19 11 0.55
20 5 0.25
ACGTcount: A:0.19, C:0.02, G:0.10, T:0.69
Consensus pattern (19 bp):
TTTTTAATGTAATTTTAGT
Found at i:33489339 original size:31 final size:31
Alignment explanation
Indices: 33489297--33489372 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
33489287 AGGTTTAGTC
* * *
33489297 ATTTGAGCATTTTTTAAAAAGTTTGACCTTT
1 ATTTGAGCATTTTTTAAAAAATTTAACATTT
*
33489328 ATTTGACCA--TTTTAAAAAATTTAACATTT
1 ATTTGAGCATTTTTTAAAAAATTTAACATTT
*
33489357 ATTTTAGCATTTTTTA
1 ATTTGAGCATTTTTTA
33489373 TAAATGTTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
29 24 0.65
31 13 0.35
ACGTcount: A:0.33, C:0.09, G:0.08, T:0.50
Consensus pattern (31 bp):
ATTTGAGCATTTTTTAAAAAATTTAACATTT
Found at i:33490898 original size:153 final size:155
Alignment explanation
Indices: 33490689--33491001 Score: 495
Period size: 153 Copynumber: 2.0 Consensus size: 155
33490679 TAGAATACCC
* * *
33490689 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGGTTATTA
1 TTAGCAGAAATTTGTTTTGGT-AA-GATTATTATTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
33490754 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACCCATTTTAATTAAAA
64 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAATTAAAA
* *
33490819 TCTATAATTTCATAAAATTCTTAATAA
129 TATATAATTTAATAAAATTCTTAATAA
33490846 TTAGCAGAAATTTGTTTTGGT-A-ATTATTATTATTGTTATTTAAATTTTAATAAGATTATTAAT
1 TTAGCAGAAATTTGTTTTGGTAAGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTAAT
* *
33490909 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATA
66 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAATTAAAATA
33490974 TATAATTTAATAAAATTCTTAATAA
131 TATAATTTAATAAAATTCTTAATAA
33490999 TTA
1 TTA
33491002 ATATTCTTAT
Statistics
Matches: 145, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
153 124 0.86
155 1 0.01
157 20 0.14
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (155 bp):
TTAGCAGAAATTTGTTTTGGTAAGATTATTATTATTGTTATTTAAATTTTAATAAGATTATTAAT
ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAATTAAAATA
TATAATTTAATAAAATTCTTAATAA
Found at i:33490972 original size:16 final size:16
Alignment explanation
Indices: 33490935--33490976 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
33490925 TTAATCATAT
*
33490935 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
33490951 TT-AAATATATTATAA
1 TTAAAATATATTATAA
33490966 TTAAAATATAT
1 TTAAAATATAT
33490977 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:33490983 original size:14 final size:15
Alignment explanation
Indices: 33490944--33490985 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
33490934 TTTAAACATA
*
33490944 ATTATTATTAAATAT
1 ATTATAATTAAATAT
33490959 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
33490973 A-TATAATTTAATA
1 ATTATAATTAAATA
33490986 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:33491074 original size:120 final size:121
Alignment explanation
Indices: 33490933--33491230 Score: 494
Period size: 120 Copynumber: 2.5 Consensus size: 121
33490923 ATTTAATCAT
*
33490933 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
33490998 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAACATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAACA-AA
33491055 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
**
33491118 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAACAAA
* * * *
33491174 ATTTGAA-ATAATTAGTATTAAATATATTTTATTTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
33491231 TAAAATAATT
Statistics
Matches: 167, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
119 3 0.02
120 159 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAACAAA
Found at i:33491103 original size:14 final size:15
Alignment explanation
Indices: 33491054--33491105 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
33491044 GTAAAACATA
33491054 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
33491069 TATTAAATATATTAT
1 AATTAAATATATTAT
33491084 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
33491097 AATTTAATA
1 AATTAAATA
33491106 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:33491317 original size:24 final size:25
Alignment explanation
Indices: 33491271--33491318 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
33491261 TATGAATTTG
33491271 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
33491297 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
33491319 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:33491322 original size:92 final size:92
Alignment explanation
Indices: 33491226--33491454 Score: 227
Period size: 92 Copynumber: 2.5 Consensus size: 92
33491216 TGATTTAATA
* * *
33491226 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
33491288 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
33491318 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* * *
33491383 ATTAAATATAATTTAA-CAGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
33491408 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
33491455 CTAAAATCAA
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 80 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:33494729 original size:48 final size:48
Alignment explanation
Indices: 33494677--33494953 Score: 477
Period size: 48 Copynumber: 5.8 Consensus size: 48
33494667 ATTTCGTGCT
33494677 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
33494725 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
***
33494773 TAGCAATAAAATATTAAAGTCCTTA-TTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
*
33494820 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTAATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
***
33494868 TAGCAATAAAATATTAAAGTCCTTA-TTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
33494915 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT
33494954 GTAATTTTTA
Statistics
Matches: 213, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 87 0.41
48 126 0.59
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (48 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
Found at i:33494816 original size:95 final size:95
Alignment explanation
Indices: 33494681--33494953 Score: 528
Period size: 95 Copynumber: 2.9 Consensus size: 95
33494671 CGTGCTTTTT
33494681 AATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAAAGTC
1 AATAAAATATTAAAGTCCTTA-TTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAAAGTC
33494746 CTTATTTTAATTATTGATTAGTCCTTATAGC
65 CTTATTTTAATTATTGATTAGTCCTTATAGC
33494777 AATAAAATATTAAAGTCCTTATTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAAAGTCC
1 AATAAAATATTAAAGTCCTTATTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAAAGTCC
*
33494842 TTATTTTAATTATTAATTAGTCCTTATAGC
66 TTATTTTAATTATTGATTAGTCCTTATAGC
33494872 AATAAAATATTAAAGTCCTTATTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAAAGTCC
1 AATAAAATATTAAAGTCCTTATTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAAAGTCC
33494937 TTATTTTAATTATTGAT
66 TTATTTTAATTATTGAT
33494954 GTAATTTTTA
Statistics
Matches: 175, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 154 0.88
96 21 0.12
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (95 bp):
AATAAAATATTAAAGTCCTTATTTAATTATTGATTAGTCCTTATTTTAATAAAATATTAAAGTCC
TTATTTTAATTATTGATTAGTCCTTATAGC
Found at i:33496980 original size:15 final size:15
Alignment explanation
Indices: 33496960--33496997 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
33496950 AACCGATGAC
33496960 GCAAATCGACAGAGA
1 GCAAATCGACAGAGA
33496975 GCAAATCGACAGAGA
1 GCAAATCGACAGAGA
33496990 GCAAATCG
1 GCAAATCG
33496998 GCCGAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.26, T:0.08
Consensus pattern (15 bp):
GCAAATCGACAGAGA
Found at i:33509372 original size:15 final size:15
Alignment explanation
Indices: 33509352--33509431 Score: 60
Period size: 15 Copynumber: 5.4 Consensus size: 15
33509342 TAGGTCAGAT
33509352 AATTAAATAATTAGA
1 AATTAAATAATTAGA
* * *
33509367 AATTAATTAAATAAA
1 AATTAAATAATTAGA
33509382 ATATTAAAATAATTAG-
1 A-ATT-AAATAATTAGA
*
33509398 AATTAAA-AATTATA
1 AATTAAATAATTAGA
*
33509412 AGTTAAGA-AATT-GA
1 AATTAA-ATAATTAGA
33509426 AATTAA
1 AATTAA
33509432 GTGTCCGGGA
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
13 5 0.10
14 14 0.27
15 21 0.41
16 4 0.08
17 7 0.14
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (15 bp):
AATTAAATAATTAGA
Found at i:33509387 original size:23 final size:23
Alignment explanation
Indices: 33509352--33509409 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
33509342 TAGGTCAGAT
33509352 AATT-AAATAATTAGAAATTAATTA-
1 AATTAAAAT-ATTA-AAA-TAATTAG
33509376 AA-TAAAATATTAAAATAATTAG
1 AATTAAAATATTAAAATAATTAG
33509398 AATTAAAA-ATTA
1 AATTAAAATATTA
33509410 TAAGTTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 6 0.19
22 9 0.29
23 10 0.32
24 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (23 bp):
AATTAAAATATTAAAATAATTAG
Found at i:33509967 original size:22 final size:23
Alignment explanation
Indices: 33509940--33509983 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
33509930 TTAGCGAACA
33509940 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATGAAATAAAC
* *
33509962 AAATATTTATATATGAAATAAA
1 AAATATATAAATATGAAATAAA
33509984 ATATAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATGAAATAAAC
Found at i:33527271 original size:24 final size:24
Alignment explanation
Indices: 33527256--33527307 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
33527246 AATCAAAGTC
33527256 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
33527280 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
33527304 AAAT
1 AAAT
33527308 CCTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:33529823 original size:39 final size:39
Alignment explanation
Indices: 33529777--33529852 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
33529767 GAGAGAAAAT
33529777 AAATCAATTTTTGCAATATCATCTAACTTTTTATGAACC
1 AAATCAATTTTTGCAATATCATCTAACTTTTTATGAACC
33529816 AAATCAATTTTTGCAATATCATCTAACTTTTTATGAA
1 AAATCAATTTTTGCAATATCATCTAACTTTTTATGAA
33529853 GCATTGGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (39 bp):
AAATCAATTTTTGCAATATCATCTAACTTTTTATGAACC
Found at i:33529846 original size:20 final size:20
Alignment explanation
Indices: 33529784--33529847 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 20
33529774 AATAAATCAA
33529784 TTTTTGCAATATCATCTAAC
1 TTTTTGCAATATCATCTAAC
* *
33529804 TTTTTATG-AACCA-AATC-AA-
1 -TTTT-TGCAA-TATCATCTAAC
33529823 TTTTTGCAATATCATCTAAC
1 TTTTTGCAATATCATCTAAC
33529843 TTTTT
1 TTTTT
33529848 ATGAAGCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 13
0.66 0.08 0.26
Matches are distributed among these distances:
17 3 0.09
18 9 0.27
19 2 0.06
20 7 0.21
21 9 0.27
22 3 0.09
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTTGCAATATCATCTAAC
Found at i:33531504 original size:38 final size:38
Alignment explanation
Indices: 33531448--33531535 Score: 149
Period size: 38 Copynumber: 2.3 Consensus size: 38
33531438 TCAACCCAAG
* * *
33531448 GTCTTGAGACATAGGGGTTAGTATCTCAAAAAATCTAT
1 GTCTCGAGACATAAGGGTTAGTATCTCAAAAAATATAT
33531486 GTCTCGAGACATAAGGGTTAGTATCTCAAAAAATATAT
1 GTCTCGAGACATAAGGGTTAGTATCTCAAAAAATATAT
33531524 GTCTCGAGACAT
1 GTCTCGAGACAT
33531536 GGTCCAATTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (38 bp):
GTCTCGAGACATAAGGGTTAGTATCTCAAAAAATATAT
Found at i:33538373 original size:20 final size:20
Alignment explanation
Indices: 33538331--33538398 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
33538321 GGGCACAAAT
* *
33538331 GTGCAAATAGGGGCACCGTA
1 GTGCAAATAGGGACACCGAA
* *
33538351 GTGCGAATAGGGACACTGAA
1 GTGCAAATAGGGACACCGAA
* * * * *
33538371 GTGTATACAGGGGCACCAAA
1 GTGCAAATAGGGACACCGAA
33538391 GTGCAAAT
1 GTGCAAAT
33538399 CTCGTACAAG
Statistics
Matches: 34, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (20 bp):
GTGCAAATAGGGACACCGAA
Found at i:33553130 original size:7 final size:7
Alignment explanation
Indices: 33553115--33553187 Score: 67
Period size: 7 Copynumber: 10.4 Consensus size: 7
33553105 TTTATTCCTA
*
33553115 AATTCTC
1 AATTTTC
33553122 AATTTTC
1 AATTTTC
* *
33553129 AATCTCC
1 AATTTTC
33553136 AATTTTC
1 AATTTTC
33553143 AATTTT-
1 AATTTTC
33553149 ATATTTTC
1 A-ATTTTC
*
33553157 AATCTTC
1 AATTTTC
* *
33553164 AAATTTA
1 AATTTTC
*
33553171 AATTTTT
1 AATTTTC
33553178 AATTTTC
1 AATTTTC
33553185 AAT
1 AAT
33553188 CCTCAATCTA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
6 1 0.02
7 50 0.96
8 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (7 bp):
AATTTTC
Found at i:33553146 original size:28 final size:27
Alignment explanation
Indices: 33553113--33553188 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 27
33553103 TTTTTATTCC
* *
33553113 TAAATTCTCAATTTTCAATCTCCAATTT
1 TAAATT-TTAATTTTCAATCTCCAAATT
* *
33553141 TCAATTTTATATTTTCAATCTTCAAATT
1 TAAATTTTA-ATTTTCAATCTCCAAATT
33553169 TAAATTTTTAATTTTCAATC
1 TAAA-TTTTAATTTTCAATC
33553189 CTCAATCTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 2 0.05
28 34 0.83
29 5 0.12
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (27 bp):
TAAATTTTAATTTTCAATCTCCAAATT
Found at i:33553159 original size:21 final size:21
Alignment explanation
Indices: 33553115--33553187 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
33553105 TTTATTCCTA
* * * *
33553115 AATTCTCAATTTTCAATCTCC
1 AATTTTCAATTTTAAATTTTC
*
33553136 AATTTTCAATTTTATATTTTC
1 AATTTTCAATTTTAAATTTTC
* * *
33553157 AATCTTCAAATTTAAATTTTT
1 AATTTTCAATTTTAAATTTTC
33553178 AATTTTCAAT
1 AATTTTCAAT
33553188 CCTCAATCTA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTTCAATTTTAAATTTTC
Found at i:33559035 original size:25 final size:25
Alignment explanation
Indices: 33558988--33559063 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
33558978 TCATACGAGT
* *
33558988 ACATAACGGGAAGCTCTTTTGAGCC
1 ACATAACGGGAAGCTCATGTGAGCC
*
33559013 ACATAACGGGAAGCTCATGTGAGTC
1 ACATAACGGGAAGCTCATGTGAGCC
** * * *
33559038 ATGTAATGGGAAGCTCAAGAGAGCC
1 ACATAACGGGAAGCTCATGTGAGCC
33559063 A
1 A
33559064 AATTCAGAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (25 bp):
ACATAACGGGAAGCTCATGTGAGCC
Found at i:33559133 original size:24 final size:24
Alignment explanation
Indices: 33559082--33559307 Score: 97
Period size: 25 Copynumber: 9.2 Consensus size: 24
33559072 AAGCTCATGC
* * *
33559082 GAGCTAATATCGGGAAG-TTCAAA
1 GAGCCAATATCGGGAAGCTCCTAA
*
33559105 CGAGCCAATATCGGGAAGCTCCGAA
1 -GAGCCAATATCGGGAAGCTCCTAA
* * * *
33559130 GAGCCATTAACCGAGAAGCTCTTAA
1 GAGCCAAT-ATCGGGAAGCTCCTAA
*
33559155 GAG-CAAGTTATCAGGAAGCTCCTAA
1 GAGCCAA--TATCGGGAAGCTCCTAA
* * *
33559180 GAGCCAATTATCAGGAA-CTTTCAAA
1 GAGCCAA-TATCGGGAAGC-TCCTAA
*
33559205 GAGCCACA-AACGGGAAGCT--TAAA
1 GAGCCA-ATATCGGGAAGCTCCT-AA
* *
33559228 TGAGCCATTAATCGAGAAGCTCGC-AA
1 -GAGCCAAT-ATCGGGAAGCTC-CTAA
* * * *
33559254 GAACCATATAACGGGAGGCTCATAA
1 GAGCCA-ATATCGGGAAGCTCCTAA
* *
33559279 GAGCCAAATATCGGGACGCTCATAA
1 GAGCC-AATATCGGGAAGCTCCTAA
33559304 GAGC
1 GAGC
33559308 TGCGGTGTGT
Statistics
Matches: 154, Mismatches: 30, Indels: 35
0.70 0.14 0.16
Matches are distributed among these distances:
23 2 0.01
24 39 0.25
25 104 0.68
26 9 0.06
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (24 bp):
GAGCCAATATCGGGAAGCTCCTAA
Found at i:33561992 original size:30 final size:31
Alignment explanation
Indices: 33561956--33562020 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
33561946 AAAAGTTGGT
* * *
33561956 AAAAAAAAATTTTGGAC-CCTTAAAAGCTAA
1 AAAAAAAAAATTTAGACTCCTTAAAAACTAA
*
33561986 AAAAAAAAAATTTAGACTCCTTAAAAACTGA
1 AAAAAAAAAATTTAGACTCCTTAAAAACTAA
33562017 AAAA
1 AAAA
33562021 TAATATTTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.22
Consensus pattern (31 bp):
AAAAAAAAAATTTAGACTCCTTAAAAACTAA
Found at i:33562382 original size:9 final size:9
Alignment explanation
Indices: 33562368--33562595 Score: 93
Period size: 10 Copynumber: 23.4 Consensus size: 9
33562358 CATTTTTCTA
*
33562368 ATAAAAATC
1 ATAAAAATT
*
33562377 ATAAAAA-A
1 ATAAAAATT
33562385 ATAAATAATGT
1 ATAAA-AAT-T
*
33562396 -TAAAATTTT
1 ATAAAA-ATT
*
33562405 ATAAAAATA
1 ATAAAAATT
33562414 ATAAAAAATTT
1 AT-AAAAA-TT
*
33562425 ATATAAACTT
1 ATA-AAAATT
33562435 ATAAAAATTT
1 ATAAAAA-TT
* *
33562445 ATAAATATC
1 ATAAAAATT
*
33562454 ATAAATATGT
1 ATAAAAAT-T
33562464 ATAAAAATT
1 ATAAAAATT
33562473 ATAAAAAAATT
1 AT--AAAAATT
*
33562484 ATAAAACATC
1 ATAAAA-ATT
*
33562494 CTAAAAATT
1 ATAAAAATT
**
33562503 ATAAAAAAAA
1 AT-AAAAATT
*
33562513 AGTTAAAATT
1 A-TAAAAATT
*
33562523 -TATAAATTT
1 ATA-AAAATT
*
33562532 ATAAAAAATAG
1 AT-AAAAAT-T
* *
33562543 AAAAAAATC
1 ATAAAAATT
33562552 ATAAAAACTT
1 ATAAAAA-TT
*
33562562 ATAATGAATT
1 ATAA-AAATT
33562572 ATAAAAAATT
1 AT-AAAAATT
33562582 ATAAAAAATT
1 AT-AAAAATT
33562592 ATAA
1 ATAA
33562596 TTTTTAAAAA
Statistics
Matches: 166, Mismatches: 31, Indels: 44
0.69 0.13 0.18
Matches are distributed among these distances:
8 6 0.04
9 49 0.30
10 89 0.54
11 22 0.13
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:33562457 original size:19 final size:19
Alignment explanation
Indices: 33562368--33562588 Score: 108
Period size: 20 Copynumber: 11.4 Consensus size: 19
33562358 CATTTTTCTA
*
33562368 ATAAAAATCATAAAAA--A
1 ATAAAAATCATAAAAATTT
** *
33562385 ATAAATAATGTTAAAATTTT
1 ATAAA-AATCATAAAAATTT
*
33562405 ATAAAAATAATAAAAAATTT
1 ATAAAAATCAT-AAAAATTT
* *
33562425 ATATAAACTTATAAAAATTT
1 ATA-AAAATCATAAAAATTT
* * *
33562445 ATAAATATCATAAATATGT
1 ATAAAAATCATAAAAATTT
* *
33562464 ATAAAAATTATAAAAAAATT
1 ATAAAAATCAT-AAAAATTT
*
33562484 ATAAAACATCCTAAAAA-TT
1 ATAAAA-ATCATAAAAATTT
** *
33562503 ATAAAAAAAAAGTTAAAATTT
1 AT-AAAAATCA-TAAAAATTT
* * **
33562524 AT-AAATTTATAAAAAATAG
1 ATAAAAATCAT-AAAAATTT
* *
33562543 AAAAAAATCATAAAAACTT
1 ATAAAAATCATAAAAATTT
* * *
33562562 ATAATGAATTATAAAAAATT
1 ATAA-AAATCATAAAAATTT
33562582 ATAAAAA
1 ATAAAAA
33562589 ATTATAATTT
Statistics
Matches: 149, Mismatches: 42, Indels: 24
0.69 0.20 0.11
Matches are distributed among these distances:
17 5 0.03
18 9 0.06
19 49 0.33
20 73 0.49
21 13 0.09
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAATCATAAAAATTT
Found at i:33562479 original size:10 final size:10
Alignment explanation
Indices: 33562397--33562595 Score: 106
Period size: 10 Copynumber: 20.0 Consensus size: 10
33562387 AAATAATGTT
*
33562397 AAAATTTTATA
1 AAAATTATA-A
*
33562408 AAAATAATAA
1 AAAATTATAA
*
33562418 AAAATTTATAT
1 AAAA-TTATAA
*
33562429 AAACTTATAA
1 AAAATTATAA
*
33562439 AAATTTAT-A
1 AAAATTATAA
* *
33562448 AATATCAT-A
1 AAAATTATAA
*
33562457 AATATGTAT-A
1 AAAAT-TATAA
33562467 AAAATTATAAA
1 AAAATTAT-AA
33562478 AAAATTATAA
1 AAAATTATAA
* **
33562488 AACATCCT-A
1 AAAATTATAA
33562497 AAAATTATAA
1 AAAATTATAA
** *
33562507 AAAAAAAGT-T
1 AAAATTA-TAA
*
33562517 AAAATT-TAT
1 AAAATTATAA
*
33562526 AAATTTATAA
1 AAAATTATAA
*
33562536 AAAA-TAGAAA
1 AAAATTA-TAA
*
33562546 AAAATCATAA
1 AAAATTATAA
*
33562556 AAACTTATAA
1 AAAATTATAA
**
33562566 TGAATTATAA
1 AAAATTATAA
33562576 AAAATTATAA
1 AAAATTATAA
33562586 AAAATTATAA
1 AAAATTATAA
33562596 TTTTTAAAAA
Statistics
Matches: 142, Mismatches: 36, Indels: 21
0.71 0.18 0.11
Matches are distributed among these distances:
8 1 0.01
9 29 0.20
10 87 0.61
11 25 0.18
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAATTATAA
Found at i:33562594 original size:68 final size:66
Alignment explanation
Indices: 33562407--33562605 Score: 154
Period size: 68 Copynumber: 2.9 Consensus size: 66
33562397 AAAATTTTAT
* * * *
33562407 AAAAATAATAAAAAATT-TATATAAACTTATAAAAATTTATAAATATCATAAATATGTATAAAAA
1 AAAAATAATAAAAACTTATA-AT-AA-TTATAAAAAATTATAAAAATTATAAAT-T-TATAAAAA
* *
33562471 TTATAA
61 ATAGAA
* * ** *
33562477 AAAAATTATAAAACATCCTA-AA-AATTATAAAAAAAAAGTTAAAATTTATAAATTTATAAAAAA
1 AAAAATAATAAAA-A-CTTATAATAATTATAAAAAATTA--TAAAAATTATAAATTTATAAAAAA
33562540 TAGAA
62 TAGAA
* *
33562545 AAAAATCATAAAAACTTATAATGAATTATAAAAAATTATAAAAAATTAT-AATTTTTAAAAA
1 AAAAATAATAAAAACTTATAAT-AATTATAAAAAATTAT-AAAAATTATAAATTTATAAAAA
33562606 TATAAAATAT
Statistics
Matches: 103, Mismatches: 17, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
66 3 0.03
67 15 0.15
68 42 0.41
69 16 0.16
70 23 0.22
71 2 0.02
72 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (66 bp):
AAAAATAATAAAAACTTATAATAATTATAAAAAATTATAAAAATTATAAATTTATAAAAAATAGA
A
Found at i:33562604 original size:25 final size:25
Alignment explanation
Indices: 33562571--33562643 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
33562561 TATAATGAAT
*
33562571 TATAAAAAATTATAAAAAATTATA-A
1 TATATAAAATTATAAAAAATTA-ACA
* * * *
33562596 TTTTTAAAAATATAAAATATTAACA
1 TATATAAAATTATAAAAAATTAACA
33562621 TATATATAAATTATTAAAAAATT
1 TATATA-AAATTA-TAAAAAATT
33562644 CATTTATTGA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
24 1 0.03
25 22 0.61
26 5 0.14
27 8 0.22
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (25 bp):
TATATAAAATTATAAAAAATTAACA
Found at i:33562982 original size:10 final size:10
Alignment explanation
Indices: 33562953--33563116 Score: 62
Period size: 10 Copynumber: 17.3 Consensus size: 10
33562943 ATAAATGTCA
*
33562953 TTTTTATAGT
1 TTTTTATAAT
*
33562963 TTTATA-AAT
1 TTTTTATAAT
33562972 TTTTTATAAT
1 TTTTTATAAT
* * **
33562982 TTATTAGAGC
1 TTTTTATAAT
*
33562992 TTTTTGT-A-
1 TTTTTATAAT
* *
33563000 CTTTTATAGT
1 TTTTTATAAT
* *
33563010 ATT-TATAAG
1 TTTTTATAAT
*
33563019 TTTTTATGAT
1 TTTTTATAAT
*
33563029 TTTATATAA-
1 TTTTTATAAT
33563038 TTTTTATAA-
1 TTTTTATAAT
*
33563047 -GTTTAT-AT
1 TTTTTATAAT
33563055 TTTTTA-AAT
1 TTTTTATAAT
33563064 ATTTTTA-ATAT
1 -TTTTTATA-AT
* *
33563075 GTTTTATTA-
1 TTTTTATAAT
*
33563084 TTTTCATAAT
1 TTTTTATAAT
* *
33563094 TTATTATAAG
1 TTTTTATAAT
33563104 TTTTTATAAT
1 TTTTTATAAT
33563114 TTT
1 TTT
33563117 ATAAGCTTTA
Statistics
Matches: 108, Mismatches: 35, Indels: 22
0.65 0.21 0.13
Matches are distributed among these distances:
7 1 0.01
8 10 0.09
9 33 0.31
10 62 0.57
11 2 0.02
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:33563031 original size:9 final size:9
Alignment explanation
Indices: 33563001--33563164 Score: 93
Period size: 10 Copynumber: 17.6 Consensus size: 9
33562991 CTTTTTGTAC
*
33563001 TTTTATAGT
1 TTTTATAAT
*
33563010 ATTTATAAGT
1 TTTTATAA-T
*
33563020 TTTTATGAT
1 TTTTATAAT
33563029 TTTATATAAT
1 TTT-TATAAT
33563039 TTTTATAA-
1 TTTTATAAT
* *
33563047 GTTTATATT
1 TTTTATAAT
*
33563056 TTTTAAATAT
1 TTTTATA-AT
33563066 TTTTA-ATAT
1 TTTTATA-AT
*
33563075 GTTTTATTAT
1 -TTTTATAAT
*
33563085 TTTCATAAT
1 TTTTATAAT
33563094 TTATTATAAGT
1 TT-TTATAA-T
33563105 TTTTATAA-
1 TTTTATAAT
*
33563113 TTTTATAAG
1 TTTTATAAT
* *
33563122 CTTTAT-GT
1 TTTTATAAT
*
33563130 TTGTTATAAC
1 TT-TTATAAT
33563140 TTTTATAACT
1 TTTTATAA-T
*
33563150 TTATATAAGT
1 TTTTATAA-T
33563160 TTTTA
1 TTTTA
33563165 ATATGAACCT
Statistics
Matches: 119, Mismatches: 24, Indels: 23
0.72 0.14 0.14
Matches are distributed among these distances:
8 15 0.13
9 48 0.40
10 53 0.45
11 3 0.03
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:33563041 original size:19 final size:20
Alignment explanation
Indices: 33563001--33563054 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
33562991 CTTTTTGTAC
33563001 TTTTAT-AGTATT-TATAAGT
1 TTTTATAAGT-TTATATAAGT
* *
33563020 TTTTATGATTTTATATAA-T
1 TTTTATAAGTTTATATAAGT
33563039 TTTTATAAGTTTATAT
1 TTTTATAAGTTTATAT
33563055 TTTTTAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTTATAAGTTTATATAAGT
Found at i:33563046 original size:29 final size:28
Alignment explanation
Indices: 33562952--33563119 Score: 114
Period size: 28 Copynumber: 5.9 Consensus size: 28
33562942 AATAAATGTC
* *
33562952 ATTTTTAT-AGTTTTATAAATTTTTTATA
1 ATTTTTATAAGTTTT-TATATTTTATATA
* * *
33562980 ATTTATTA-GAGCTTTTTGTACTTT-TATA
1 ATTT-TTATAAG-TTTTTATATTTTATATA
* *
33563008 GTATTTATAAGTTTTTATGATTTTATATA
1 ATTTTTATAAGTTTTTAT-ATTTTATATA
* * *
33563037 ATTTTTATAAGTTTATATTTTTTAAAT-
1 ATTTTTATAAGTTTTTATATTTTATATA
* *
33563064 ATTTTTAATATG-TTTTATTATTTT-CATA
1 ATTTTT-ATAAGTTTTTA-TATTTTATATA
33563092 ATTTATTATAAGTTTTTATAATTTTATA
1 ATTT-TTATAAGTTTTTAT-ATTTTATA
33563120 AGCTTTATGT
Statistics
Matches: 108, Mismatches: 19, Indels: 24
0.72 0.13 0.16
Matches are distributed among these distances:
27 21 0.19
28 41 0.38
29 41 0.38
30 5 0.05
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (28 bp):
ATTTTTATAAGTTTTTATATTTTATATA
Found at i:33563107 original size:28 final size:27
Alignment explanation
Indices: 33563001--33563164 Score: 120
Period size: 29 Copynumber: 5.9 Consensus size: 27
33562991 CTTTTTGTAC
* * *
33563001 TTTTATAGTATTTATAAGTTTTTATGA
1 TTTTATAATTTTTATAAGTTTTTATTA
*
33563028 TTTTATATAATTTTTATAAGTTTATATT-
1 -TTT-TATAATTTTTATAAGTTTTTATTA
* *
33563056 TTTTAAATATTTTTAATATG-TTTTATTA
1 TTTTATA-ATTTTT-ATAAGTTTTTATTA
*
33563084 TTTTCATAATTTATTATAAGTTTTTATAA
1 TTTT-ATAATTT-TTATAAGTTTTTATTA
** *
33563113 TTTTATAAGCTTTAT--GTTTGTTATAA
1 TTTTATAATTTTTATAAGTTT-TTATTA
*
33563139 CTTTTATAACTTTATATAAGTTTTTA
1 -TTTTATAA-TTTTTATAAGTTTTTA
33563165 ATATGAACCT
Statistics
Matches: 109, Mismatches: 15, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
25 4 0.04
26 9 0.08
27 27 0.25
28 28 0.26
29 37 0.34
30 4 0.04
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.60
Consensus pattern (27 bp):
TTTTATAATTTTTATAAGTTTTTATTA
Found at i:33563151 original size:26 final size:25
Alignment explanation
Indices: 33563103--33563153 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
33563093 TTTATTATAA
33563103 GTTTTTATAATTTTATAAGCTTTAT
1 GTTTTTATAATTTTATAAGCTTTAT
33563128 GTTTGTTATAACTTTTATAA-CTTTAT
1 GTTT-TTATAA-TTTTATAAGCTTTAT
33563154 ATAAGTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 4 0.17
26 12 0.50
27 8 0.33
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (25 bp):
GTTTTTATAATTTTATAAGCTTTAT
Found at i:33563355 original size:27 final size:27
Alignment explanation
Indices: 33563316--33563501 Score: 152
Period size: 29 Copynumber: 6.7 Consensus size: 27
33563306 TTTAAGAGAT
*
33563316 TTTTTATACTTTTATAATATTTATAAG
1 TTTTTATATTTTTATAATATTTATAAG
*
33563343 TTTTTATGA-TTTTATATATCTTTTATAAG
1 TTTTTAT-ATTTTTATA-AT-ATTTATAAG
* *
33563372 --TTTATATTTTTA-AATATTTTTAATA
1 TTTTTATATTTTTATAATATTTATAA-G
* *
33563397 TGTTTTATTATTTTTATAATTTATTAGAA-
1 T-TTTTA-TATTTTTATAATAT-TTATAAG
33563426 TTTATTATAAGTTTTTATAATATTTATAAG
1 TTT-TTAT-A-TTTTTATAATATTTATAAG
33563456 -TTTTATATTTTTATAA-ATTTATATAAG
1 TTTTTATATTTTTATAATA-TT-TATAAG
33563483 TTTTTAATATTTTTATAAT
1 TTTTT-ATATTTTTATAAT
33563502 TTTTTATGAT
Statistics
Matches: 130, Mismatches: 9, Indels: 37
0.74 0.05 0.21
Matches are distributed among these distances:
24 6 0.05
25 3 0.02
26 13 0.10
27 31 0.24
28 18 0.14
29 40 0.31
30 15 0.12
31 4 0.03
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTTTATATTTTTATAATATTTATAAG
Found at i:33563443 original size:10 final size:9
Alignment explanation
Indices: 33563316--33563517 Score: 139
Period size: 10 Copynumber: 21.8 Consensus size: 9
33563306 TTTAAGAGAT
33563316 TTTTTAT-A
1 TTTTTATAA
*
33563324 CTTTTATAA
1 TTTTTATAA
*
33563333 TATTTATAA
1 TTTTTATAA
*
33563342 GTTTTTATGA
1 -TTTTTATAA
33563352 -TTTTATATA
1 TTTTTATA-A
33563361 TCTTTTATAA
1 T-TTTTATAA
*
33563371 -GTTTAT-A
1 TTTTTATAA
*
33563378 TTTTTAAATA
1 TTTTTATA-A
33563388 TTTTTA-ATA
1 TTTTTATA-A
*
33563397 TGTTTTATTA
1 T-TTTTATAA
33563407 TTTTTATAA
1 TTTTTATAA
*
33563416 TTTATTAGAA
1 TTT-TTATAA
33563426 TTTATTATAA
1 TTT-TTATAA
33563436 GTTTTTATAA
1 -TTTTTATAA
*
33563446 TATTTATAA
1 TTTTTATAA
*
33563455 GTTTTAT-A
1 TTTTTATAA
33563463 TTTTTATAAA
1 TTTTTAT-AA
*
33563473 TTTATATAA
1 TTTTTATAA
33563482 GTTTTTA-ATA
1 -TTTTTATA-A
33563492 TTTTTATAA
1 TTTTTATAA
*
33563501 TTTTTTATGA
1 -TTTTTATAA
33563511 TTTTTAT
1 TTTTTAT
33563518 TAGAAAATAA
Statistics
Matches: 156, Mismatches: 20, Indels: 35
0.74 0.09 0.17
Matches are distributed among these distances:
7 1 0.01
8 28 0.18
9 53 0.34
10 64 0.41
11 10 0.06
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:33563513 original size:19 final size:18
Alignment explanation
Indices: 33563314--33563517 Score: 116
Period size: 19 Copynumber: 10.9 Consensus size: 18
33563304 AATTTAAGAG
*
33563314 ATTTTTTATACTTTTATA
1 ATTTTTTATATTTTTATA
* *
33563332 A-TATTTATAAGTTTTTATG
1 ATTTTTTAT-A-TTTTTATA
*
33563351 ATTTTATATATCTTTTATA
1 ATTTTTTATAT-TTTTATA
*
33563370 A--GTTTATATTTTTA-A
1 ATTTTTTATATTTTTATA
*
33563385 ATATTTTTAATATGTTTTATT
1 AT-TTTTT-ATAT-TTTTATA
*
33563406 A-TTTTTATAATTTATTAGA
1 ATTTTTTAT-ATTT-TTATA
*
33563425 ATTTATTATAAGTTTTTATA
1 ATTTTTTAT-A-TTTTTATA
* *
33563445 A-TATTTATAAGTTTTAT-
1 ATTTTTTAT-ATTTTTATA
* *
33563462 ATTTTTATAAATTTATATA
1 ATTTTT-TATATTTTTATA
*
33563481 AGTTTTTAATATTTTTATA
1 A-TTTTTTATATTTTTATA
33563500 ATTTTTTATGATTTTTAT
1 ATTTTTTAT-ATTTTTAT
33563518 TAGAAAATAA
Statistics
Matches: 142, Mismatches: 25, Indels: 37
0.70 0.12 0.18
Matches are distributed among these distances:
15 2 0.01
16 5 0.04
17 13 0.09
18 32 0.23
19 58 0.41
20 28 0.20
21 4 0.03
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (18 bp):
ATTTTTTATATTTTTATA
Found at i:33563815 original size:23 final size:24
Alignment explanation
Indices: 33563789--33563833 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
33563779 TTGAAATTAA
*
33563789 AAAAGATATAATTTAA-AAAAACT
1 AAAAGATATAAATTAATAAAAACT
*
33563812 AAAATATATAAATTAATAAAAA
1 AAAAGATATAAATTAATAAAAA
33563834 GTATAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAAGATATAAATTAATAAAAACT
Found at i:33563958 original size:15 final size:16
Alignment explanation
Indices: 33563940--33563974 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
33563930 TATTATATCT
*
33563940 TTTTATATTTTATA-A
1 TTTTATAATTTATATA
33563955 TTTTATAATTTATATA
1 TTTTATAATTTATATA
33563971 TTTT
1 TTTT
33563975 TCAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATAATTTATATA
Found at i:33563975 original size:17 final size:17
Alignment explanation
Indices: 33563882--33563975 Score: 66
Period size: 20 Copynumber: 5.2 Consensus size: 17
33563872 AATGGTTGTG
33563882 TTTAGTAATTATATATATT
1 TTTA-TAATT-TATATATT
*
33563901 TATTATAAATTTTTATATTT
1 T-TTAT-AATTTATATA-TT
* *
33563921 GTTTCAAAATATTATATCTT
1 -TTT-ATAAT-TTATATATT
*
33563941 TTTAT-ATTT-TATAAT
1 TTTATAATTTATATATT
33563956 TTTATAATTTATATATT
1 TTTATAATTTATATATT
33563973 TTT
1 TTT
33563976 CAAAAATAAC
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
15 9 0.15
16 6 0.10
17 10 0.17
18 1 0.02
19 10 0.17
20 16 0.27
21 7 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTATAATTTATATATT
Found at i:33568593 original size:13 final size:13
Alignment explanation
Indices: 33568575--33568601 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33568565 CTGTAGTTCT
33568575 CTCACACCATTAC
1 CTCACACCATTAC
33568588 CTCACACCATTAC
1 CTCACACCATTAC
33568601 C
1 C
33568602 ACACTTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.22
Consensus pattern (13 bp):
CTCACACCATTAC
Found at i:33569264 original size:3 final size:3
Alignment explanation
Indices: 33569256--33569280 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
33569246 ATATGTGTTT
33569256 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
33569281 CTTTTATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:33569867 original size:23 final size:24
Alignment explanation
Indices: 33569828--33569872 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
33569818 TTCTAAAAAC
*
33569828 ATAAAAAAAAATGTAAAATAAATT
1 ATAAAAAAAAATCTAAAATAAATT
*
33569852 ATAAAAAAAAA-CTAAATTAAA
1 ATAAAAAAAAATCTAAAATAAA
33569873 AAGGTGAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (24 bp):
ATAAAAAAAAATCTAAAATAAATT
Found at i:33576606 original size:20 final size:20
Alignment explanation
Indices: 33576577--33576620 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33576567 CCCTTTCCAA
*
33576577 ATTTTCTTACTTT-CATTTGC
1 ATTTTATTACTTTCCA-TTGC
33576597 ATTTTATTACTTTCCATTGC
1 ATTTTATTACTTTCCATTGC
33576617 ATTT
1 ATTT
33576621 ACTTTCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTTATTACTTTCCATTGC
Found at i:33579053 original size:122 final size:122
Alignment explanation
Indices: 33578832--33579053 Score: 302
Period size: 122 Copynumber: 1.8 Consensus size: 122
33578822 TACAGATACC
* *
33578832 TTGAGGACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCCCCTCCTGCACTTCTACC
1 TTGAGGACTTCTACCAAAACAAGTCAAAACAGTAGCCAAAGTTCAACCCCTCCTGCACTTCTACC
** * **
33578897 GATACTATGCTGGGTTCTATTGATACCAGTTGAAATCACTAGAGTTTTACTGCTAAT
66 GATACTATAATGGGTTCTACTGATACCAAATGAAATCACTAGAGTTTTACTGCTAAT
* * * * *
33578954 TTGAGGATTTCTACCAAAACTAGTCAAAACAGTAGCCAAATTTCAACTTCC-CCTGCACTTTTAC
1 TTGAGGACTTCTACCAAAACAAGTCAAAACAGTAGCCAAAGTTCAAC-CCCTCCTGCACTTCTAC
* *
33579018 CGATACTCTAATGGGTTTTACTGATACCAAATGAAA
65 CGATACTATAATGGGTTCTACTGATACCAAATGAAA
33579054 CCCTCAGGGT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
122 83 0.98
123 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (122 bp):
TTGAGGACTTCTACCAAAACAAGTCAAAACAGTAGCCAAAGTTCAACCCCTCCTGCACTTCTACC
GATACTATAATGGGTTCTACTGATACCAAATGAAATCACTAGAGTTTTACTGCTAAT
Found at i:33579351 original size:10 final size:10
Alignment explanation
Indices: 33579326--33579363 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
33579316 CTTTCAAGAA
33579326 CTCAAT-TTT
1 CTCAATCTTT
33579335 C-CAATCTTT
1 CTCAATCTTT
33579344 CTCAATCTTT
1 CTCAATCTTT
33579354 CTCAATCTTT
1 CTCAATCTTT
33579364 TACAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 4 0.15
9 5 0.19
10 18 0.67
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (10 bp):
CTCAATCTTT
Found at i:33582593 original size:95 final size:95
Alignment explanation
Indices: 33582471--33582926 Score: 474
Period size: 95 Copynumber: 4.8 Consensus size: 95
33582461 ATATTGTTAA
* * * *
33582471 GGCTCGCTAATTTAAGATCAT-AGCCTAAGTTCATTCAATTTAACATCATGAACAATCTTATCTG
1 GGCTCACTGATTTAAGATC-TCAGCCTAAGTTCATTCGATTTAACATCATGAACAATCTTCTCTG
* *
33582535 AGTTAGTTGATTTAACATCGTTGCTCCAAAT
65 AGTTAGTTGATTTAACATCGCTGCTCCAAAC
* * * * *
33582566 GGCTCGCTTATTTAAGATCTCAACCTAAGTTCA-TCAATTTAACATCATGAACAA-CTTTCTTTG
1 GGCTCACTGATTTAAGATCTCAGCCTAAGTTCATTCGATTTAACATCATGAACAATC-TTCTCTG
** * *
33582629 AGTTAACTGATTTAACATCGCTGGTCCAAAT
65 AGTTAGTTGATTTAACATCGCTGCTCCAAAC
* * * *
33582660 GGCTCAATGATTTAAGATCAT-AGCCTAAGTTTATTTGATTTAACATCATAAACAATCTTCTCTG
1 GGCTCACTGATTTAAGATC-TCAGCCTAAGTTCATTCGATTTAACATCATGAACAATCTTCTCTG
*
33582724 AGTTAGTTGATTTAACATCACTGCTCCAAAC
65 AGTTAGTTGATTTAACATCGCTGCTCCAAAC
** * * ** * *
33582755 AACTCATTGATTTAAGATCCCAGCCTGTGTTCATTCGATTTAACATCATGAACAATTTTCTCTAA
1 GGCTCACTGATTTAAGATCTCAGCCTAAGTTCATTCGATTTAACATCATGAACAATCTTCTCTGA
* * *
33582820 GTTAGCTAATTTAACATCG-TAGCACCAAAC
66 GTTAGTTGATTTAACATCGCT-GCTCCAAAC
* * ** * * *
33582850 GGCTTACTGATTTAAGATCACAATCTAAGTTCATTTGATTTAACAT-ATTGAATAATTTTCTCTG
1 GGCTCACTGATTTAAGATCTCAGCCTAAGTTCATTCGATTTAACATCA-TGAACAATCTTCTCTG
*
33582914 AGTTAGTTAATTT
65 AGTTAGTTGATTT
33582927 GTCATCACTA
Statistics
Matches: 303, Mismatches: 50, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
93 1 0.00
94 82 0.27
95 219 0.72
96 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (95 bp):
GGCTCACTGATTTAAGATCTCAGCCTAAGTTCATTCGATTTAACATCATGAACAATCTTCTCTGA
GTTAGTTGATTTAACATCGCTGCTCCAAAC
Found at i:33582958 original size:190 final size:189
Alignment explanation
Indices: 33582480--33582963 Score: 567
Period size: 190 Copynumber: 2.6 Consensus size: 189
33582470 AGGCTCGCTA
** *
33582480 ATTTAAGATCATAGCCTAAGTTCATTCAATTTAACATCATGAACAATCTTATCTGAGTTAGTTGA
1 ATTTAAGATCATAGCCTAAGTTCATTTGATTTAACATCATGAACAATCTTCTCTGAGTTAGTTGA
** * *
33582545 TTTAACATCGTTGCTCCAAATGGCTCGCTTATTTAAGATCTCAACCTAAGTTCATCAATTTAACA
66 TTTAACATCACTGCTCCAAATGGCTCGCTGATTTAAGATCCCAACCTAAGTTCATCAATTTAACA
* * * ** *
33582610 TCATGAACAACTTTCTTTGAGTTAACTGATTTAACATCGCTGGTCCAAATGGCTCAATG
131 TCATGAACAACTTTCTCTAAGTTAACTAATTTAACATCGCTGCACCAAACGGCTCAATG
* *
33582669 ATTTAAGATCATAGCCTAAGTTTATTTGATTTAACATCATAAACAATCTTCTCTGAGTTAGTTGA
1 ATTTAAGATCATAGCCTAAGTTCATTTGATTTAACATCATGAACAATCTTCTCTGAGTTAGTTGA
*** ** * ** *
33582734 TTTAACATCACTGCTCCAAACAACTCATTGATTTAAGATCCCAGCCTGTGTTCATTCGATTTAAC
66 TTTAACATCACTGCTCCAAATGGCTCGCTGATTTAAGATCCCAACCTAAGTTCA-TCAATTTAAC
* * * *
33582799 ATCATGAACAATTTTCTCTAAGTTAGCTAATTTAACATCG-TAGCACCAAACGGCTTACTG
130 ATCATGAACAACTTTCTCTAAGTTAACTAATTTAACATCGCT-GCACCAAACGGCTCAATG
* ** * * *
33582859 ATTTAAGATCACAATCTAAGTTCATTTGATTTAACAT-ATTGAATAATTTTCTCTGAGTTAGTTA
1 ATTTAAGATCATAGCCTAAGTTCATTTGATTTAACATCA-TGAACAATCTTCTCTGAGTTAGTTG
** * ** *
33582923 ATTTGTCATCACTACTCTGAATGGCTTGCTGATTTAAGATC
65 ATTTAACATCACTGCTCCAAATGGCTCGCTGATTTAAGATC
33582964 GTAACTGATA
Statistics
Matches: 245, Mismatches: 47, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
189 104 0.42
190 141 0.58
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (189 bp):
ATTTAAGATCATAGCCTAAGTTCATTTGATTTAACATCATGAACAATCTTCTCTGAGTTAGTTGA
TTTAACATCACTGCTCCAAATGGCTCGCTGATTTAAGATCCCAACCTAAGTTCATCAATTTAACA
TCATGAACAACTTTCTCTAAGTTAACTAATTTAACATCGCTGCACCAAACGGCTCAATG
Found at i:33597377 original size:17 final size:18
Alignment explanation
Indices: 33597355--33597388 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
33597345 CGGGTCTTGA
33597355 CTTCTTTGGGT-GCTTCT
1 CTTCTTTGGGTAGCTTCT
33597372 CTTCTTTGGGTAGCTTC
1 CTTCTTTGGGTAGCTTC
33597389 ATTCCAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.03, C:0.24, G:0.24, T:0.50
Consensus pattern (18 bp):
CTTCTTTGGGTAGCTTCT
Found at i:33597719 original size:44 final size:44
Alignment explanation
Indices: 33597604--33597720 Score: 144
Period size: 44 Copynumber: 2.7 Consensus size: 44
33597594 TTTTAATCCG
* * *
33597604 CTCCACTACAACTTCAGGGAGATAGGATTAGTAACTTCAATCTG
1 CTCCACTACAACTTCAGGGAGATAAGATTAGTAACTTCAACCTA
* * * *
33597648 CTCCACTACAACTTTAGAGAGATAAGATTGGTATCTTCAACCTA
1 CTCCACTACAACTTCAGGGAGATAAGATTAGTAACTTCAACCTA
* * *
33597692 TTCTACTACAACTTCAGGGAGAAAAGATT
1 CTCCACTACAACTTCAGGGAGATAAGATT
33597721 TGATATGCTC
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (44 bp):
CTCCACTACAACTTCAGGGAGATAAGATTAGTAACTTCAACCTA
Found at i:33597754 original size:85 final size:88
Alignment explanation
Indices: 33597643--33597946 Score: 240
Period size: 92 Copynumber: 3.4 Consensus size: 88
33597633 AGTAACTTCA
* * * *
33597643 ATCTGCTCCACTACAACTTTAGAGAGATAAGAT-T-GGTAT-CTTCAACCTATTCTACTACAACT
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTAGGTATACTTCAACATATTCTACTACAACT
33597705 TCAGGGAGAA-AAGATTTGATATG
66 TCAGGGA-AATAAGATTTGATATG
* ** * * *
33597728 CTCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACAATTTATAGCTTCAATATGTTCTACTGC
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT---AGGTATA-CTTCAACATATTCTACTAC
* *
33597793 AACTTTAGGGAAATGAGATTTGATATG
62 AACTTCAGGGAAATAAGATTTGATATG
* ** * * * *
33597820 ATCTGCTCTACTGCAAATTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATATGTTCCACTAA
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATC--T-AGGTATA-CTTCAACATATTCTACTAC
* *
33597885 AACTTCAAGGAAATAAGATTTG-TAACTTC
62 AACTTCAGGGAAATAAGATTTGAT-A--TG
* * *
33597914 AGTTTTCTCTACTGCAACTTCAGGGAGATAAGA
1 A-TCTGCTCTACTGCAACTTCAGAGAGATAAGA
33597947 CTTGTAATTT
Statistics
Matches: 180, Mismatches: 25, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
85 29 0.16
86 1 0.01
90 3 0.02
91 3 0.02
92 114 0.63
94 3 0.02
95 27 0.15
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (88 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTAGGTATACTTCAACATATTCTACTACAACT
TCAGGGAAATAAGATTTGATATG
Found at i:33597796 original size:92 final size:92
Alignment explanation
Indices: 33597692--33598001 Score: 367
Period size: 92 Copynumber: 3.3 Consensus size: 92
33597682 CTTCAACCTA
33597692 TTCTACTACAACTTCAGGGAGAA-AAGATTTGATATGCTCTGCTCTACTGCAACTTCAGAGAGAT
1 TTCTACTACAACTTCAGGGA-AATAAGATTTGATATGCTCTGCTCTACTGCAACTTCAGAGAGAT
**
33597756 AAGATCTACAATTTATAGCTTCAATATG
65 AAGATCTGTAATTTATAGCTTCAATATG
* * * * *
33597784 TTCTACTGCAACTTTAGGGAAATGAGATTTGATATGATCTGCTCTACTGCAAATTCAGAGAGATA
1 TTCTACTACAACTTCAGGGAAATAAGATTTGATATGCTCTGCTCTACTGCAACTTCAGAGAGATA
33597849 AGATCTGTAATTTATAGCTTCAATATG
66 AGATCTGTAATTTATAGCTTCAATATG
* * * * * * *
33597876 TTCCACTAAAACTTCAAGGAAATAAGATTTG-TAACTTCAGTTTTCTCTACTGCAACTTCAGGGA
1 TTCTACTACAACTTCAGGGAAATAAGATTTGAT-A-TGC--TCTGCTCTACTGCAACTTCAGAGA
*
33597940 GATAAGA-CTTGTAATTTATAGCTTCAATCTG
62 GATAAGATC-TGTAATTTATAGCTTCAATATG
* * *
33597971 CTCCT-CTACAACTTCAAGGAAATGAGATTTG
1 -TTCTACTACAACTTCAGGGAAATAAGATTTG
33598002 CTATCTTCAG
Statistics
Matches: 187, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
91 3 0.02
92 108 0.58
93 1 0.01
94 1 0.01
95 72 0.39
96 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (92 bp):
TTCTACTACAACTTCAGGGAAATAAGATTTGATATGCTCTGCTCTACTGCAACTTCAGAGAGATA
AGATCTGTAATTTATAGCTTCAATATG
Found at i:33598117 original size:137 final size:137
Alignment explanation
Indices: 33597920--33598177 Score: 428
Period size: 137 Copynumber: 1.9 Consensus size: 137
33597910 CTTCAGTTTT
* *
33597920 CTCTACTGCAACTTCAGGGAGATAAGACTTGTAATTTATAGCTTCAATCTGCTCCTCTACAACTT
1 CTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTATAGCTTCAATCTGCTCCACTACAACTT
* *
33597985 CAAGGAAATGAGATTTGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAAGTTTGATA
66 CAAGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAAGTTTGATA
33598050 TGATCTG
131 TGATCTG
*
33598057 CTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTATAGCTTCAATCTGTTCCACTACAACT
1 CTCTACTGCAACTTCAGAGAGATAAGACT-TGTAATTTATAGCTTCAATCTGCTCCACTACAACT
* * *
33598121 TCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAA
65 TCAAGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAA
33598178 GGCTGGTGGC
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
136 1 0.01
137 111 0.99
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (137 bp):
CTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTATAGCTTCAATCTGCTCCACTACAACTT
CAAGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAAGTTTGATA
TGATCTG
Found at i:33598164 original size:45 final size:45
Alignment explanation
Indices: 33597598--33598178 Score: 183
Period size: 51 Copynumber: 12.7 Consensus size: 45
33597588 TCATCGTTTT
* * * *
33597598 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTAG-TAACTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTC
* * *
33597642 AATCTGCTCCACTACAACTTTAGAGAGATAAGATT-GGTATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTC
* ** * * * * *
33597686 AACCTATTCTACTACAACTTCAGGGAGAAAAGATTTG--ATATGC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTC
* * * **
33597729 --TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACAATTTATAGCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGAT-T-C--GCTAT--CTTC
* * * * * * * * *
33597778 AATATGTTCTACTGCAACTTTAGGGAAATGAGATTTG--AT-AT-
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTC
* * * * * *
33597819 GATCTGCTCTACTGCAAATTCAGAGAGATAAGA-TCTGTAATTTATAGCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTC-G----CTAT--CTTC
* * * * * * *
33597870 AATATGTTCCACTAAAACTTCAAGGAAATAAGATTTG-TAACTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTC
* * * * * *
33597914 AGTTTTCTCTACTGCAACTTCAGGGAGATAAGACTT-GTAATTTATAGCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGA-TTCG----CTAT--CTTC
* * * * *
33597965 AATCTGCTCCTCTACAACTTCAAGGAAATGAGATTTGCTATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTC
* * * *
33598010 AGTCTACTCCACTACAACTTCAGGGAGATAA-AGTTTG--AT-AT-
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGA-TTCGCTATCTTC
* * * * *
33598051 GATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTATAGCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTC-G----CTAT--CTTC
* *
33598102 AATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTC
* *
33598147 AGTCTGCTCCGCTACAACTTCAGGGAGATAAG
1 AATCTGCTCCACTACAACTTCAGGGAGATAAG
33598179 GCTGGTGGCT
Statistics
Matches: 389, Mismatches: 101, Indels: 93
0.67 0.17 0.16
Matches are distributed among these distances:
40 2 0.01
41 78 0.20
42 4 0.01
43 7 0.02
44 95 0.24
45 70 0.18
46 2 0.01
47 12 0.03
49 4 0.01
50 5 0.01
51 107 0.28
52 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (45 bp):
AATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATCTTC
Found at i:33598349 original size:44 final size:44
Alignment explanation
Indices: 33598286--33598606 Score: 151
Period size: 44 Copynumber: 6.8 Consensus size: 44
33598276 GATCTGCTTT
* * *
33598286 CTTCAGTCTGTTCCGCTGCAACTTCAGGAAGATAAGGTTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGTTGGTGG
* * * *
33598330 CTTCAATCTGCTCTACTGCAACTTTAGGAAGATAAGATCTGCCATAACTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG----G---T---TGGTGG
* * * * **
33598384 CTTTAATTTGTTCCACTGCAACTTCAGGGAGATAAGACTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGTTGGTGG
* * *
33598428 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATATTCCATAACTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG-------GT---TGGTGG
* * * * * * *
33598482 CTTTAATTTGTTCCACTGCAAC-ACTAGGGAA-ATAAGATTCGCTGT
1 CTTCAATCTGCTCCACTGCAACTTC-A-GGAAGATAAGGTT-GGTGG
* * * * * *
33598527 CTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAAAGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGTTGGTGG
*
33598571 CTTCAATCTGCTCCACTGCAACTTCAGAAAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
33598607 ATCCGCCATG
Statistics
Matches: 201, Mismatches: 51, Indels: 50
0.67 0.17 0.17
Matches are distributed among these distances:
44 104 0.52
45 23 0.11
46 1 0.00
47 2 0.01
48 1 0.00
51 2 0.01
53 1 0.00
54 63 0.31
55 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGTTGGTGG
Found at i:33598404 original size:143 final size:143
Alignment explanation
Indices: 33597920--33598463 Score: 526
Period size: 143 Copynumber: 3.9 Consensus size: 143
33597910 CTTCAGTTTT
* * * * * * *
33597920 CTCTACTGCAACTTCAGGGAGATAAGA-CTTG---TAATTTATAGCTTCAATCTGCTCCTCTACA
1 CTCTACTGCAACTTCAGGAAGATAAGATC-TGCCATAACTTGTAGCTTTAATCTGTTCCACTGCA
* * * * * * * *
33597981 ACTTCAAGGAAATGAGATTTGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATAAAG-T-
65 ACTTCAGGGAAATAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGAAGATAAGGCTG
* * *
33598044 -TTGATAT-GATCTG
130 GTGGCT-TCAATCTG
* * * *
33598057 CTCTACTGCAACTTCA-GAGAGATAAGATCTG---TAATTTATAGCTTCAATCTGTTCCACTACA
1 CTCTACTGCAACTTCAGGA-AGATAAGATCTGCCATAACTTGTAGCTTTAATCTGTTCCACTGCA
* *
33598118 ACTTCAGGGAAATAAGAT-TCGCTATCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAAGGCT
65 ACTTCAGGGAAATAAGATCT-GCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGAAGATAAGGCT
*
33598182 GGTGGCTTCAATTTG
129 GGTGGCTTCAATCTG
* * * * ***
33598197 CT-TCACTCCAACTTCAGGAAAATAAGATCCGCCATAACTTGTAGCTTTAATCTATTCTGTTGCA
1 CTCT-ACTGCAACTTCAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATCTGTTCCACTGCA
* * * *
33598261 A-TGCCAGGGAAATAAGATCTGCTTTCTTCAGTCTGTTCCGCTGCAACTTCAGGAAGATAAGGTT
65 ACT-TCAGGGAAATAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGAAGATAAGGCT
33598325 GGTGGCTTCAATCTG
129 GGTGGCTTCAATCTG
* *
33598340 CTCTACTGCAACTTTAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATTTGTTCCACTGCAA
1 CTCTACTGCAACTTCAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATCTGTTCCACTGCAA
* * ** * *
33598405 CTTCAGGGAGATAAGA-CTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
66 CTTCAGGGAAATAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGAAGATAAG
33598464 ATATTCCATA
Statistics
Matches: 344, Mismatches: 47, Indels: 27
0.82 0.11 0.06
Matches are distributed among these distances:
136 2 0.01
137 109 0.32
138 2 0.01
139 2 0.01
140 30 0.09
141 2 0.01
142 38 0.11
143 156 0.45
144 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (143 bp):
CTCTACTGCAACTTCAGGAAGATAAGATCTGCCATAACTTGTAGCTTTAATCTGTTCCACTGCAA
CTTCAGGGAAATAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGAAGATAAGGCTGG
TGGCTTCAATCTG
Found at i:33598409 original size:98 final size:98
Alignment explanation
Indices: 33598294--33598561 Score: 351
Period size: 98 Copynumber: 2.7 Consensus size: 98
33598284 TTCTTCAGTC
* ** * *
33598294 TGTTCCGCTGCAACTTCAGGAAGATAAGGTTGGTGGCTTCAATCTGCTCTACTGCAACTTTAGGA
1 TGTTCCACTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
*
33598359 AGATAAGATCTGCCATAACTTGTAGCTTTAATT
66 AGATAAGATATGCCATAACTTGTAGCTTTAATT
*
33598392 TGTTCCACTGCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
1 TGTTCCACTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
*
33598457 AGATAAGATATTCCATAACTTGTAGCTTTAATT
66 AGATAAGATATGCCATAACTTGTAGCTTTAATT
* * * * * * *
33598490 TGTTCCACTGCAAC-ACTAGGGAA-ATAAGATTCGCTGTCTTCAGTCTGCTCCGCTACAACTTCA
1 TGTTCCACTGCAACTTC-A-GGAAGATAAGACT-GGTGGCTTCAATCTGCTCCACTGCAACTTCA
*
33598553 GGGAGATAA
63 GGAAGATAA
33598562 AGCTGGTGGC
Statistics
Matches: 150, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
97 1 0.01
98 112 0.75
99 37 0.25
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (98 bp):
TGTTCCACTGCAACTTCAGGAAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
AGATAAGATATGCCATAACTTGTAGCTTTAATT
Found at i:33598591 original size:241 final size:241
Alignment explanation
Indices: 33598161--33598615 Score: 660
Period size: 241 Copynumber: 1.9 Consensus size: 241
33598151 TGCTCCGCTA
* * * *
33598161 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATTTGCTTCACTCCAACTTCAGGAAAATAAGATC
1 CAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTCCAACTTCAGGAAAATAAGATA
*** ** *
33598226 CGCCATAACTTGTAGCTTTAATCTATTCTGTTGCAATGCCAGGGAAATAAGATCTGCTTTCTTCA
66 CGCCATAACTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAGATCTGCTGTCTTCA
* * * * * *
33598291 GTCTGTTCCGCTGCAACTTCAGGAAGATAAGGTTGGTGGCTTCAATCTGCTCTACTGCAACTTTA
131 GTCTGCTCCGCTACAACTTCAGGAAGATAAAGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCA
* *
33598356 GGAAGATAAGATCTGCCATAACTTGTAGCTTTAATTTGTTCCACTG
196 GAAAGATAAGATCCGCCATAACTTGTAGCTTTAATTTGTTCCACTG
* *
33598402 CAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATA
1 CAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTCCAACTTCAGGAAAATAAGATA
** * * *
33598467 TTCCATAACTTGTAGCTTTAATTTGTTCCACTGCAACACTAGGGAAATAAGAT-TCGCTGTCTTC
66 CGCCATAACTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAGATCT-GCTGTCTTC
*
33598531 AGTCTGCTCCGCTACAACTTCAGGGAGATAAAGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC
130 AGTCTGCTCCGCTACAACTTCAGGAAGATAAAGCTGGTGGCTTCAATCTGCTCCACTGCAACTTC
33598596 AGAAAGATAAGATCCGCCAT
195 AGAAAGATAAGATCCGCCAT
33598616 GATGACTTCA
Statistics
Matches: 187, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
240 1 0.01
241 186 0.99
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (241 bp):
CAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTCCAACTTCAGGAAAATAAGATA
CGCCATAACTTGTAGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAGATCTGCTGTCTTCA
GTCTGCTCCGCTACAACTTCAGGAAGATAAAGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCA
GAAAGATAAGATCCGCCATAACTTGTAGCTTTAATTTGTTCCACTG
Found at i:33602235 original size:26 final size:27
Alignment explanation
Indices: 33602205--33602257 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
33602195 CACCACTGAA
*
33602205 TCGGGG-AATCAGCACTTAGCAACCCC
1 TCGGGGTAATCAGCACATAGCAACCCC
*
33602231 TCGGGGTTATCAGCACATAGCAACCCC
1 TCGGGGTAATCAGCACATAGCAACCCC
33602258 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (27 bp):
TCGGGGTAATCAGCACATAGCAACCCC
Found at i:33602424 original size:105 final size:104
Alignment explanation
Indices: 33602183--33602544 Score: 566
Period size: 105 Copynumber: 3.5 Consensus size: 104
33602173 AAAAAGATCC
* **
33602183 CGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGTTATCAGCACA
1 CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACA
* **
33602248 TAGCAACCCCCTTT-TCATTTCAAAAATACGGTGGATAT
66 TAGCAACCCCCTTTCACATTTCAAAGGTACGGTGGATAT
*
33602286 CGCACTTAGCACCACCAATGAAATCGGGAAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
1 CGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
33602351 ATAGCAACCCCCTTTCACATTTCAAAGGTACGGTGGATAT
65 ATAGCAACCCCCTTTCACATTTCAAAGGTACGGTGGATAT
*
33602391 CGCACTTAGCACCACCAATGAAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
1 CGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
*
33602456 ATAGCAACCCCCTTTCACATTTCAAAGGTATGGTGGATCA-
65 ATAGCAACCCCCTTTCACATTTCAAAGGTACGGTGGAT-AT
* * **
33602496 CGCACCTAGCACTACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
33602545 TTTATATACA
Statistics
Matches: 241, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
103 19 0.08
104 82 0.34
105 139 0.58
106 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (104 bp):
CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACA
TAGCAACCCCCTTTCACATTTCAAAGGTACGGTGGATAT
Found at i:33602907 original size:30 final size:29
Alignment explanation
Indices: 33602873--33602937 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
33602863 TAACTCACCA
33602873 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
33602903 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
33602933 CCCAA
1 CCCAA
33602938 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:33602911 original size:31 final size:30
Alignment explanation
Indices: 33602880--33602937 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33602870 CCACCCAACT
33602880 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
33602910 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
33602938 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:33608108 original size:41 final size:41
Alignment explanation
Indices: 33608036--33608146 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 41
33608026 ACCGGCTTTT
* * * * * * * *
33608036 AGCCTGCTAGACCTATAGTCCGAAATGTATCACTGGTATTA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
*
33608077 AGTCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
*
33608118 AGCCTGCT-GACGTAAAGTCTGTATTATAT
1 AGCCTGCTAGACGTAAAGTCTGAATTATAT
33608147 TCGATCACTT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
40 20 0.34
41 39 0.66
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
Found at i:33608414 original size:12 final size:12
Alignment explanation
Indices: 33608397--33608454 Score: 62
Period size: 12 Copynumber: 4.6 Consensus size: 12
33608387 CTCAAAAACT
33608397 TATATATATACA
1 TATATATATACA
*
33608409 TATATATATTCGA
1 TATATATATAC-A
*
33608422 GTATTATACATACA
1 -TA-TATATATACA
33608436 TATATATATACA
1 TATATATATACA
*
33608448 TACATAT
1 TATATAT
33608455 CTTTGACTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 25 0.66
13 3 0.08
14 3 0.08
15 7 0.18
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.41
Consensus pattern (12 bp):
TATATATATACA
Found at i:33615953 original size:25 final size:27
Alignment explanation
Indices: 33615909--33615971 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
33615899 TTTAAAAAAT
* *
33615909 AGTAAAATATAAAAATAAAATAA-AAC
1 AGTAATATATAAAAAGAAAATAATAAC
*
33615935 AG-AATATATACAAAGAAAATAATAAC
1 AGTAATATATAAAAAGAAAATAATAAC
33615961 AGTAATA-ATAA
1 AGTAATATATAA
33615972 TATTACATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 17 0.55
26 10 0.32
27 4 0.13
ACGTcount: A:0.68, C:0.05, G:0.06, T:0.21
Consensus pattern (27 bp):
AGTAATATATAAAAAGAAAATAATAAC
Found at i:33617802 original size:6 final size:6
Alignment explanation
Indices: 33617791--33617832 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
33617781 TTTTTTAAAA
*
33617791 ATATTT ATATTT ATATTT ATATTA ATA-TT A-ATTT AATATTT A
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT -ATATTT A
33617833 ATAATTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
4 1 0.03
5 4 0.13
6 22 0.71
7 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (6 bp):
ATATTT
Found at i:33617818 original size:18 final size:17
Alignment explanation
Indices: 33617791--33617844 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
33617781 TTTTTTAAAA
*
33617791 ATATTTATATTTATATTT
1 ATATTTATATTAAT-TTT
* *
33617809 ATATTAATATTAATTTA
1 ATATTTATATTAATTTT
33617826 ATATTTA-A-TAATTTT
1 ATATTTATATTAATTTT
33617841 ATAT
1 ATAT
33617845 ATTAATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 10 0.32
16 1 0.03
17 8 0.26
18 12 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTTATATTAATTTT
Found at i:33618330 original size:15 final size:14
Alignment explanation
Indices: 33618270--33618346 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 14
33618260 TCATTTTCCC
33618270 TTTCTTTTCTTTC-
1 TTTCTTTTCTTTCT
*
33618283 TATC-TTTCTTTCTT
1 TTTCTTTTCTTTC-T
33618297 TTTCCCATTTTCTTT-T
1 TTT--C-TTTTCTTTCT
33618313 TTTCTTATTCTTTCT
1 TTTCTT-TTCTTTCT
*
33618328 TTTCTTTTATTTTCT
1 TTTCTTTT-CTTTCT
33618343 TTTC
1 TTTC
33618347 AATCTTGTCG
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
12 8 0.15
13 5 0.10
14 11 0.21
15 16 0.31
16 5 0.10
18 7 0.13
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:33618841 original size:15 final size:16
Alignment explanation
Indices: 33618820--33618855 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
33618810 AGTTTAATTT
33618820 TAATAATAAATTTAAA
1 TAATAATAAATTTAAA
*
33618836 -AATAATAATTTTAAA
1 TAATAATAAATTTAAA
33618851 TAATA
1 TAATA
33618856 TTCTTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAATAAATTTAAA
Found at i:33618899 original size:14 final size:15
Alignment explanation
Indices: 33618875--33618944 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
33618865 TATTATTGAA
33618875 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
33618888 TAATATTTTAATAAT
1 AAATATTTTAATAAT
33618903 AAATATTTATTACA-ATAT
1 AAATA-TT-TTA-ATA-AT
*
33618921 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
33618936 AAATGTTTT
1 AAATATTTT
33618945 GTAGTATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 16 0.36
16 6 0.13
17 5 0.11
18 8 0.18
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:33619223 original size:27 final size:26
Alignment explanation
Indices: 33619183--33619237 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
33619173 TGAATTTAAC
33619183 AAAATATGACATATTTTAATCTAATATA
1 AAAATATGACATATTTTAAT-T-ATATA
33619211 AAAATATGA-ATATTTTAATTATATA
1 AAAATATGACATATTTTAATTATATA
33619236 AA
1 AA
33619238 TATGTGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 7 0.26
26 1 0.04
27 10 0.37
28 9 0.33
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (26 bp):
AAAATATGACATATTTTAATTATATA
Found at i:33624290 original size:21 final size:21
Alignment explanation
Indices: 33624252--33624296 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33624242 TTTCTTGTTA
*
33624252 CCTCTGCTGCCATTGCTGCTG
1 CCTCTGCTGCCATCGCTGCTG
* * *
33624273 CCTCTGCTTCCCTCGCTGTTG
1 CCTCTGCTGCCATCGCTGCTG
33624294 CCT
1 CCT
33624297 ACGCTTTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.42, G:0.20, T:0.36
Consensus pattern (21 bp):
CCTCTGCTGCCATCGCTGCTG
Found at i:33629244 original size:24 final size:25
Alignment explanation
Indices: 33629215--33629269 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
33629205 GGATGGGAAA
33629215 GAAAAAACTAAGTTAGGGATTTAGG
1 GAAAAAACTAAGTTAGGGATTTAGG
* *
33629240 GAAAAAACTAAGTTAGGTATTTGGG
1 GAAAAAACTAAGTTAGGGATTTAGG
33629265 GAAAA
1 GAAAA
33629270 CGATTTGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.45, C:0.04, G:0.27, T:0.24
Consensus pattern (25 bp):
GAAAAAACTAAGTTAGGGATTTAGG
Found at i:33631747 original size:17 final size:17
Alignment explanation
Indices: 33631725--33631757 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
33631715 TGCCATGGAG
33631725 TCTTTCATCCATGGTCT
1 TCTTTCATCCATGGTCT
33631742 TCTTTCATCCATGGTC
1 TCTTTCATCCATGGTC
33631758 GTACACATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.30, G:0.12, T:0.45
Consensus pattern (17 bp):
TCTTTCATCCATGGTCT
Found at i:33637678 original size:21 final size:21
Alignment explanation
Indices: 33637634--33637708 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
33637624 TATATATAGG
* *
33637634 TAAATATATTCAAATATAATAA
1 TAAAAATAATCAAATATAA-AA
*
33637656 TAACAATAAT-AAATAGTAAAA
1 TAAAAATAATCAAATA-TAAAA
*
33637677 TAATAAT-ATCAAATAATAAAAA
1 TAAAAATAATCAAAT-AT-AAAA
33637699 TAAAAATAAT
1 TAAAAATAAT
33637709 TAAGTGATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 2 0.05
21 18 0.42
22 21 0.49
23 2 0.05
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (21 bp):
TAAAAATAATCAAATATAAAA
Found at i:33639331 original size:44 final size:44
Alignment explanation
Indices: 33639296--33639568 Score: 388
Period size: 44 Copynumber: 6.2 Consensus size: 44
33639286 ACTACTGCTT
* *
33639296 AGGGAGACAGGA-TCTACAATCTTCAACCTATTCCACTGCTGTTC
1 AGGGAGATAGGACT-TACAATCTTCAACCTATTCCACTGCTGGTC
* * * * *
33639340 AAGGAGATAGGACATACAATCTTCCACCTATTCCACTGTTGTTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
*
33639384 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
*
33639428 AGGGAGATAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * * *
33639472 AGAGAGACAGGACTTGCAATCCTCAACAC-ATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAAC-CTATTCCACTGCTGGTC
*
33639516 AGGGAGATAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
33639560 AGGGAGATA
1 AGGGAGATA
33639569 AGGCTTTGTG
Statistics
Matches: 209, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
43 1 0.00
44 207 0.99
45 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
Found at i:33643445 original size:26 final size:26
Alignment explanation
Indices: 33643409--33643462 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
33643399 AGATTCTCGC
33643409 TTTAAAGGACTCTGATGTCTGGTGGT
1 TTTAAAGGACTCTGATGTCTGGTGGT
33643435 TTTAAAGGACTCTGATGTCTGGTGGT
1 TTTAAAGGACTCTGATGTCTGGTGGT
33643461 TT
1 TT
33643463 CTGTCTTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (26 bp):
TTTAAAGGACTCTGATGTCTGGTGGT
Found at i:33646558 original size:3 final size:3
Alignment explanation
Indices: 33646550--33646609 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
33646540 ATAATCAAAT
* * *
33646550 ATA ATA ATA ACA ATA ATAA ATA GTA A-A ATA ATA ATA AT- ATC A-A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
33646593 ATA ATA ATA AAA ATA AT
1 ATA ATA ATA ATA ATA AT
33646610 TAAGTGATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
2 5 0.11
3 38 0.83
4 3 0.07
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:33646579 original size:21 final size:21
Alignment explanation
Indices: 33646540--33646609 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 21
33646530 ATAGGTAAAT
33646540 ATAATCAAATATAATAATAACA
1 ATAAT-AAATATAATAATAACA
*
33646562 ATAATAAATAGTAA-AATAATA
1 ATAATAAATA-TAATAATAACA
*
33646583 ATAATATCAA-ATAATAATAAAA
1 ATAATA--AATATAATAATAACA
33646605 ATAAT
1 ATAAT
33646610 TAAGTGATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 20 0.48
22 20 0.48
23 2 0.05
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (21 bp):
ATAATAAATATAATAATAACA
Found at i:33646598 original size:27 final size:31
Alignment explanation
Indices: 33646546--33646609 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 31
33646536 AAATATAATC
*
33646546 AAAT-ATAATAATAACAATAATAAATAGT-A
1 AAATAATAATAATAACAATAATAAATAATAA
*
33646575 AAATAATAATAATATC-A-AAT-AATAATAA
1 AAATAATAATAATAACAATAATAAATAATAA
33646603 AAATAAT
1 AAATAAT
33646610 TAAGTGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 5 0.16
28 11 0.35
29 5 0.16
30 10 0.32
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (31 bp):
AAATAATAATAATAACAATAATAAATAATAA
Found at i:33647253 original size:17 final size:18
Alignment explanation
Indices: 33647231--33647266 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
33647221 ACAAATAATA
33647231 ATAAAGAAAAAAA-GCAG
1 ATAAAGAAAAAAATGCAG
33647248 ATAAAGAAAAAAATGCAG
1 ATAAAGAAAAAAATGCAG
33647266 A
1 A
33647267 GAGAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.69, C:0.06, G:0.17, T:0.08
Consensus pattern (18 bp):
ATAAAGAAAAAAATGCAG
Found at i:33653490 original size:19 final size:18
Alignment explanation
Indices: 33653430--33653491 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
33653420 CTTAATTTTT
33653430 TAAAATT-TTAAAAAAATA
1 TAAAATTATT-AAAAAATA
*
33653448 TATAAATTATTTTTAAAAAT-
1 TA-AAATTA--TTAAAAAATA
33653468 TAAAATTATTAAAAAGATA
1 TAAAATTATTAAAAA-ATA
33653487 TAAAA
1 TAAAA
33653492 ATTAAACATT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
17 6 0.17
18 4 0.11
19 16 0.44
20 2 0.06
21 6 0.17
22 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
TAAAATTATTAAAAAATA
Done.