Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 190 of 213
Found at i:57161901 original size:33 final size:33
Alignment explanation
Indices: 57161854--57161930 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 33
57161844 GGCTCCCAAG
57161854 TAGCTTGAGCTGAGTATCATTT-AGCTCAAATGA
1 TAGCTTGAGCTGAGTAT-ATTTCAGCTCAAATGA
* * *
57161887 TAGCTTGAGTTGAGTATTTTTCAGCTCGAATGA
1 TAGCTTGAGCTGAGTATATTTCAGCTCAAATGA
57161920 TAG-TTCGAGCT
1 TAGCTT-GAGCT
57161931 CAGCTCAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 5 0.13
33 33 0.87
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (33 bp):
TAGCTTGAGCTGAGTATATTTCAGCTCAAATGA
Found at i:57164681 original size:21 final size:21
Alignment explanation
Indices: 57164655--57164695 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57164645 ATCTGCTCAA
* *
57164655 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
57164676 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
57164696 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:57168997 original size:25 final size:23
Alignment explanation
Indices: 57168969--57169014 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
57168959 GCATTATTAA
*
57168969 GATAATTAATCCTGTTTTATAATAC
1 GATAATTAAACC--TTTTATAATAC
*
57168994 GATATTTAAACCTTTTATAAT
1 GATAATTAAACCTTTTATAAT
57169015 CAAGGTCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
25 10 0.53
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (23 bp):
GATAATTAAACCTTTTATAATAC
Found at i:57170860 original size:40 final size:38
Alignment explanation
Indices: 57170796--57170920 Score: 144
Period size: 40 Copynumber: 3.2 Consensus size: 38
57170786 CGTTTGGATA
57170796 AAAAAAGCCACTAAAAATCAAGCATTAGCGGCGCTTTTAC
1 AAAAAAGCCACTAAAAATC-AGCATTAGCGGCGCTTTT-C
* * *
57170836 AAAAATGCCACTAAAGATCGAGCATTAGCGGCGCATTTTG
1 AAAAAAGCCACTAAAAATC-AGCATTAGCGGCGC-TTTTC
* * *
57170876 GAAAACGCCGCTAAAAATCAGCATTAGCGGCG-TTTTC
1 AAAAAAGCCACTAAAAATCAGCATTAGCGGCGCTTTTC
*
57170913 TAAAAAGC
1 AAAAAAGC
57170921 GACGCAAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
37 10 0.14
39 13 0.18
40 46 0.63
41 4 0.05
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (38 bp):
AAAAAAGCCACTAAAAATCAGCATTAGCGGCGCTTTTC
Found at i:57171084 original size:41 final size:41
Alignment explanation
Indices: 57170966--57171084 Score: 175
Period size: 41 Copynumber: 2.9 Consensus size: 41
57170956 AGAGTTTTTA
* * **
57170966 GGGCATTTAGCGGCTTTTTTGAAAAAGCGCCGCTAGCGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
**
57171007 GTACCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
57171048 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGGCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
57171085 AATAAAATCT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:57172184 original size:7 final size:7
Alignment explanation
Indices: 57172174--57172229 Score: 60
Period size: 7 Copynumber: 8.1 Consensus size: 7
57172164 TTTTGAGTTC
57172174 AGGGTTT
1 AGGGTTT
57172181 AGGGTTT
1 AGGGTTT
57172188 A-GGTTT
1 AGGGTTT
*
57172194 AGGGCTT
1 AGGGTTT
* *
57172201 GGGGATT
1 AGGGTTT
57172208 AGGGTTT
1 AGGGTTT
*
57172215 AAGGTTT
1 AGGGTTT
*
57172222 AGAGTTT
1 AGGGTTT
57172229 A
1 A
57172230 CATTTTAGTG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 6 0.15
7 34 0.85
ACGTcount: A:0.20, C:0.02, G:0.39, T:0.39
Consensus pattern (7 bp):
AGGGTTT
Found at i:57173771 original size:12 final size:12
Alignment explanation
Indices: 57173754--57173779 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57173744 CAAAACAGGC
57173754 TTTTAGCGGCGT
1 TTTTAGCGGCGT
57173766 TTTTAGCGGCGT
1 TTTTAGCGGCGT
57173778 TT
1 TT
57173780 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:57174006 original size:114 final size:113
Alignment explanation
Indices: 57173807--57174019 Score: 284
Period size: 114 Copynumber: 1.9 Consensus size: 113
57173797 AAAAAAAGCA
* * *
57173807 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTT
1 TTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGACGCCATTTTCTAAGCTTT
* * **
57173872 CGGGGATTTTGCGGCGTTTTTAA-GAAAGCGCCGCTAATGCTCGGGGTT
66 CGGGGATCTAGCAACGTTTTTAAGGAAA-CGCCGCTAATGCTCGGGGTT
* * * * *
57173920 TTAGCGGCATTTTTGGGAAAGCGCCGCAAAAAAACATAAGCCCAACGATGTCGTTTTTTAAGCTT
1 TTAGCGGCATTTTTGAGAAAGCGCCGC-AAAAAACATAAGCCCAACGACGCCATTTTCTAAGCTT
*
57173985 TCGGGGATCTAGTAACGTTTTTAAGGAAACGCCGC
65 TCGGGGATCTAGCAACGTTTTTAAGGAAACGCCGC
57174020 AAAAATAATT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
113 25 0.29
114 56 0.66
115 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (113 bp):
TTAGCGGCATTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGACGCCATTTTCTAAGCTTT
CGGGGATCTAGCAACGTTTTTAAGGAAACGCCGCTAATGCTCGGGGTT
Found at i:57174206 original size:147 final size:146
Alignment explanation
Indices: 57174011--57175561 Score: 1466
Period size: 147 Copynumber: 10.7 Consensus size: 146
57174001 GTTTTTAAGG
* *
57174011 AAACGCCGC-AAAAATAATTCAACTTATAAAAAAA-ATAAAAAAATTTTAGAATAGCAAAACGGA
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA-AAAAAAATTTTAGAATAGCAAAACGGC
57174074 GTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAA
65 GTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAA
57174139 TAGCGGCGTTTCCTATAA
130 TAGCGGCGTTT-CTATAA
*
57174157 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAATTTTAGAATAGCAAAACGGCG
*
57174222 TCGTTTTGTTCAAAATGAAAAAA-TTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
66 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAAT
* * *
57174286 AGTGGCGTTTTTGTAAA
131 AGCGGCGTTTCTAT-AA
*
57174303 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATAAAAAAAAATTTAGAATAGCA
1 AAACGCCGCAAAAAATAAATCAAC-T-T------ATAAAAAAATAAAAAAAATTTTAGAATAGCA
* *
57174368 AAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGC-TTAGGTAAGAAATAGCGGCG-T
58 AAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTA--TAAG--A-AGCGCCGCT
**** * * *****
57174431 TTTTGTAA--AA-AACGCCGCAAAAAATAA
118 AAAGGTAAGCAATAGCGGCG-TTTCTATAA
***** * * * * * ** **** *
57174458 ATCAACTTATAAAAAAATAAA-AAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGA
1 A--AACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAA------AAAATT-TT-AGAAT--
** ** * * * * * **
57174522 AAAAAAATTTGCGGCG--CT-TT----AT--AATAA----GCGCCGGTAAAGGTAAGCAATAGCG
54 AGCAAAA-CGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTA--TAAG--A-AGCG
* * *****
57174574 GCGTTTCCTATAA--AA-A-CGGCG---C-A-AA
113 CCGCTAAAGGTAAGCAATAGCGGCGTTTCTATAA
* *
57174599 AAA-----TAAATCAAAT-TAT-AA---A-A-AAAAAT-AAAAAAATTTTAGAATAGCAAAACGG
1 AAACGCCGCAAA--AAATAAATCAACTTATAAAAAAATAAAAAAAATTTTAGAATAGCAAAACGG
* * * * *
57174651 CATCGTTTTGTTCAAAATTAAAAAATTTTGCGGCACTTTATAATAAGCGCTGCTAAAGGTAAGCA
64 CGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCA
*
57174716 ATAGCGGCGTTT-T-T-G
129 ATAGCGGCGTTTCTATAA
* * * *
57174731 TAA----GCAAAAAATGAATCAACTTATAAAAAAAATAATAAAATTTTTAGAATAGCAAAACGGC
1 AAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAATAAAAAAAATTTTAGAATAGCAAAACGGC
* *
57174792 GTCGTTTTGTTCAAAATGAAAAAATTTTGCAGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAA
65 GTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAA
57174857 TAGCGGCGTTTCCTATAA
130 TAGCGGCGTTT-CTATAA
*
57174875 AAACGCCGCAAAAAATAAATCAACTTAT-AAAAAATAAAAAAAA-TTTAGAATAGCAAAACGGAG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAATTTTAGAATAGCAAAACGGCG
*
57174938 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCACTAAAGGTAAGCAAT
66 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAAT
57175003 AGCGGCGTTTCCTATAA
131 AGCGGCGTTT-CTATAA
*
57175020 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAA-ATAAAAAATTTTTAGAATAGCAAAACGGC
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA-AAAAAAATTTTAGAATAGCAAAACGGC
* *
57175084 GTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCACCGCTAAAGGTAAGCAA
65 GTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAA
* * *
57175149 TAGTGGCGTTTTTGTAAA
130 TAGCGGCGTTTCTAT-AA
*
57175167 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAATTTTAGAATAGCAAAACGGCG
* * **
57175232 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAATAAAT
66 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAAT
* * *
57175297 AGCAGCGTTTTTGTAAAA
131 AGCGGCG--TTTCTATAA
* *
57175315 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAT-AAAAAATTTTTAGAATAGCAAAATGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAATTTTAGAATAGCAAAACGGCG
* *
57175379 TCGTTTTGTTCAAAATGAAAAAAATTTTGTGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGTAA
66 TCGTTTTGTTCAAAATG-AAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAA
57175444 TAGCGGCGTTTCCTATAA
130 TAGCGGCGTTT-CTATAA
* *
57175462 AAACGGCGCAAAAAATAAATCAAATTATAAAAAAATAAAAAAAATTTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAATTTTAGAATAGCAAAACGGCG
*
57175527 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCT
66 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCT
57175562 AAAGGTAAGC
Statistics
Matches: 1172, Mismatches: 147, Indels: 171
0.79 0.10 0.11
Matches are distributed among these distances:
118 4 0.00
119 5 0.00
120 1 0.00
121 6 0.01
122 2 0.00
123 2 0.00
125 2 0.00
126 9 0.01
127 5 0.00
128 2 0.00
129 7 0.01
130 8 0.01
131 11 0.01
132 4 0.00
133 5 0.00
134 3 0.00
135 3 0.00
136 5 0.00
138 1 0.00
139 8 0.01
140 96 0.08
141 3 0.00
142 2 0.00
143 1 0.00
144 2 0.00
145 129 0.11
146 119 0.10
147 410 0.35
148 171 0.15
149 4 0.00
150 4 0.00
152 2 0.00
154 66 0.06
155 20 0.02
156 14 0.01
157 14 0.01
158 11 0.01
159 11 0.01
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (146 bp):
AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAATTTTAGAATAGCAAAACGGCG
TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAAT
AGCGGCGTTTCTATAA
Found at i:57174354 original size:9 final size:8
Alignment explanation
Indices: 57174329--57174353 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
57174319 AAATCAACTT
57174329 ATAAAAAA
1 ATAAAAAA
57174337 ATAAAAAA
1 ATAAAAAA
57174345 ATAAAAAA
1 ATAAAAAA
57174353 A
1 A
57174354 AATTTAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
ATAAAAAA
Found at i:57174494 original size:128 final size:131
Alignment explanation
Indices: 57174275--57174540 Score: 403
Period size: 137 Copynumber: 2.0 Consensus size: 131
57174265 GCGCCGCTAA
* *
57174275 AGGTAAGCAATAGTGGCGTTTTTGTAAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA
1 AGGTAAGAAATAGCGGCGTTTTTGTAAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA
* *
57174340 AAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT-TAAAAAATTTTG
66 AAAAAAT-------AATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAAATTTG
57174404 CGGCGCTT
124 CGGCGCTT
57174412 AGGTAAGAAATAGCGGCGTTTTTGTAAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAT-
1 AGGTAAGAAATAGCGGCGTTTTTGTAAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA
*
57174476 AAAAAAT-TTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAAATTTGCGGCGCT
66 AAAAAATAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAAATTTGCGGCGCT
57174540 T
131 T
57174541 TATAATAAGC
Statistics
Matches: 123, Mismatches: 5, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
128 36 0.29
129 18 0.15
136 7 0.06
137 62 0.50
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (131 bp):
AGGTAAGAAATAGCGGCGTTTTTGTAAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA
AAAAAATAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAAATTTGCGGCGCT
T
Found at i:57174622 original size:148 final size:146
Alignment explanation
Indices: 57174011--57174411 Score: 574
Period size: 146 Copynumber: 2.7 Consensus size: 146
57174001 GTTTTTAAGG
* * *
57174011 AAACGCCGC-AAAAATAATTCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGAG
1 AAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCG
*
57174075 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAAT
65 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
57174140 AGCGGCGTTTCCTATAA
130 AGCGGCGTTTCCTATAA
**
57174157 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAT-AAAAAATTTTTAGAATAGCAAAACGGCG
57174222 TCGTTTTGTTCAAAATGAAAAAA-TTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
65 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
* * *
57174286 AGTGGCGTTT-TTGTAAA
130 AGCGGCGTTTCCTAT-AA
*
57174303 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATAAAAAAAAATTTAGAATAGCA
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAT-AAAAAAT--------TTTTAGAATAGCA
*
57174368 AAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTT
57 AAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTT
57174412 AGGTAAGAAA
Statistics
Matches: 234, Mismatches: 9, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
145 2 0.01
146 111 0.47
147 66 0.28
154 43 0.18
155 12 0.05
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (146 bp):
AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGT
CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATA
GCGGCGTTTCCTATAA
Found at i:57174708 original size:148 final size:147
Alignment explanation
Indices: 57174412--57175561 Score: 1729
Period size: 147 Copynumber: 7.9 Consensus size: 147
57174402 TGCGGCGCTT
* * *
57174412 AGGTAAGAAATAGCGGCGTTT-TTGTAAAAAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAA
1 AGGTAAGCAATAGCGGCGTTTCCTAT-AAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAA
* *
57174475 TAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAAATTTGCGGCGCT
65 TAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG-AAAAAATTTTGCGGCGCT
*
57174540 TTATAATAAGCGCCGGTAA
129 TTATAATAAGCGCCGCTAA
* *
57174559 AGGTAAGCAATAGCGGCGTTTCCTATAAAAACGGCGCAAAAAATAAATCAAATTATAAAAAAAAA
1 AGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAAA
* * *
57174624 TAAAAAAATTTTAGAATAGCAAAACGGCATCGTTTTGTTCAAAATTAAAAAATTTTGCGGCACTT
65 TAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTT
*
57174689 TATAATAAGCGCTGCTAA
130 TATAATAAGCGCCGCTAA
** *
57174707 AGGTAAGCAATAGCGGCGTTT--T-T-GTAA----GCAAAAAATGAATCAACTTATAAAAAAAAT
1 AGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAAT
* *
57174764 AATAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCAGCGCTT
66 AA-AAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTT
57174829 TATAATAAGCGCCGCTAA
130 TATAATAAGCGCCGCTAA
57174847 AGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTAT--AAAAAAT
1 AGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAAT
* *
57174910 AAAAAAAATTTAGAATAGCAAAACGGAGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTT
66 AAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTT
* *
57174975 ATAAGAAGCGCCACTAA
131 ATAATAAGCGCCGCTAA
57174992 AGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAAT
1 AGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAAT
*
57175057 AAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTT
66 AAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTT
*
57175122 ATAATAAGCACCGCTAA
131 ATAATAAGCGCCGCTAA
* * *
57175139 AGGTAAGCAATAGTGGCGTTT-TTGTAAAAAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAA
1 AGGTAAGCAATAGCGGCGTTTCCTAT-AAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAA
* *
57175202 TAAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCT
65 T-AAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCT
57175267 TTATAATAAGCGCCGCTAA
129 TTATAATAAGCGCCGCTAA
** * ** *
57175286 AGGTAATAAATAGCAGCGTTTTTGTAAAAAAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAA
1 AGGTAAGCAATAGCGGCG-TTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAA
* * *
57175350 TAAAAAATTTTTAGAATAGCAAAATGGCGTCGTTTTGTTCAAAATGAAAAAAATTTTGTGGCGCT
65 TAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG-AAAAAATTTTGCGGCGCT
*
57175415 TTATAAGAAGCGCCGCTAA
129 TTATAATAAGCGCCGCTAA
* * *
57175434 AGGTAAGTAATAGCGGCGTTTCCTATAAAAACGGCGCAAAAAATAAATCAAATTAT-AAAAAAAT
1 AGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAAT
*
57175498 AAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCT
66 -AAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCT
57175562 AAAGGTAAGC
Statistics
Matches: 914, Mismatches: 69, Indels: 40
0.89 0.07 0.04
Matches are distributed among these distances:
139 11 0.01
140 114 0.12
142 1 0.00
143 1 0.00
144 4 0.00
145 131 0.14
146 20 0.02
147 372 0.41
148 209 0.23
149 51 0.06
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (147 bp):
AGGTAAGCAATAGCGGCGTTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAAT
AAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTT
ATAATAAGCGCCGCTAA
Found at i:57175466 original size:295 final size:294
Alignment explanation
Indices: 57174011--57176942 Score: 3921
Period size: 306 Copynumber: 10.1 Consensus size: 294
57174001 GTTTTTAAGG
* * *
57174011 AAACGCCGC-AAAAATAATTCAACTTATAAAAAAA-ATAAAAAAATTTTAGAATAGCAAAACGGA
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA-AAAAAAAATTTAGAATAGCAAAACGGC
* *
57174074 GTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAA
65 GTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAA
** * **
57174139 TAGCGGCG-TTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAAAT
130 TAGCGGCGTTTTTGTAAAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAT-AAAAAATTT
57174203 TTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAA-TTTGCGGCGCTTTATAATAAGC
194 TTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGC
* * *
57174267 GCCGCTAAAGGTAAGCAATAGTGGCGTTT-TTGTAAA
259 GCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTAT-AA
57174303 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATAAAAAAAAATTTAGAATAGCA
1 AAACGCCGCAAAAAATAAATCAAC-T-T------ATAAAAAAATAAAAAAAAATTTAGAATAGCA
57174368 AAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGC----T--T-A--G--G-T-AA-G
58 AAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGG
57174419 --A--AATAGCGGCGTTTTTGT-AAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAA
123 TAAGCAATAGCGGCGTTTTTGTAAAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAA
*
57174479 AAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAAATTTGCGGCGCTTTAT
188 AAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG-AAAAAATTTTGCGGCGCTTTAT
*
57174544 AATAAGCGCCGGTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
252 AATAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
* *
57174587 AAACGGCGCAAAAAATAAATCAAATTATAAAAAAA-AATAAAAAAATTTTAGAATAGCAAAACGG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAA-AAAAAAA-TTTAGAATAGCAAAACGG
* * *
57174651 CATCGTTTTGTTCAAAATTAAAAAATTTTGCGGCACTTTATAATAAGCGCTGCTAAAGGTAAGCA
64 CGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCA
*
57174716 ATAGCGGCGTTTTTGT-----AA----GCAAAAAATGAATCAACTTATAAAAAAAATAATAAAAT
129 ATAGCGGCGTTTTTGTAAAAAAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAATAA-AAAAT
*
57174772 TTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCAGCGCTTTATAATAA
192 TTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAA
57174837 GCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
257 GCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
*
57174875 AAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAT-AAAAAAAATTTAGAATAGCAAAACGGAG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCG
* * *
57174938 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCACTAAAGGTAAGCAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
** *
57175003 AGCGGCG-TTTCCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAATTTT
131 AGCGGCGTTTTTGTAAAAAAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAATAAAAAATTTT
*
57175067 TAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCA
195 TAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCG
* * *
57175132 CCGCTAAAGGTAAGCAATAGTGGCGTTT-TTGTAAA
260 CCGCTAAAGGTAAGCAATAGCGGCGTTTCCTAT-AA
57175167 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCG
**
57175232 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAATAAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
*
57175297 AGCAGCGTTTTTGTAAAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAATTTTT
131 AGCGGCGTTTTTGTAAAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAATTTTT
* * *
57175362 AGAATAGCAAAATGGCGTCGTTTTGTTCAAAATGAAAAAAATTTTGTGGCGCTTTATAAGAAGCG
196 AGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG-AAAAAATTTTGCGGCGCTTTATAATAAGCG
*
57175427 CCGCTAAAGGTAAGTAATAGCGGCGTTTCCTATAA
260 CCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
* * *
57175462 AAACGGCGCAAAAAATAAATCAAATTATAAAAAAATAAAAAAAATTTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCG
57175527 TCGTTTTGTTCAAAATTAAAAAATTTT-----GC----------G-G-CGCTAAAGGTAAGCAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
** * * * **
57175575 AGCGGCGTTTTTGTAAGCAAAAA--ATG-AATCAACT-TAT-AA-AA---AAAAAAT--AAAATT
131 AGCGGCGTTTTTGTAA--AAAAACGCCGCAA-AAAATAAATCAACTTATAAAAAAATAAAAAATT
* *
57175629 TTTAGAATAGCAAAACGGCGTCGTTTTATTCAAAATGAAAAAATTTTGCAGCGCTTTATAATAAG
193 TTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAG
*
57175694 CGCCGCTAAAGGTAAGCAATAGCGGTGTTTCCTATAA
258 CGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
* * *
57175731 AAAAGCCGCAAAAAAT-AATCAACTTAT-AAAAAAT-AAAAAAATTTTAGAATACCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCG
* * * *
57175793 TCGTTTTGTTCAAAATAAAAAAATTATGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGAAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
*
57175858 AGCGGCGTTTTTGT-AAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTT
131 AGCGGCGTTTTTGTAAAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAATTTTT
* *
57175922 AGAATAGCAAAGCGGCGTCGTTTTGTTTAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGC
196 AGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGC
* *
57175987 CGCTAAAGGTAAGGAATAGCGGCGTTTTCTATAA
261 CGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
*
57176021 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAA-AGAAAAAAATTTTAGAATAGCAAAACGGC
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA-AAAAAAAATTTAGAATAGCAAAACGGC
* * * *
57176085 GTCGTTTTGTTCAAAATGAAAAAATTTTGCAGCACTTTATAAGAAGCGCCGCTAAAGGTAAGCAA
65 GTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAA
*
57176150 TAGCGGCGTTTTTATAGCGGCGCTTTCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAA
130 TAGCGGCG-TTTT-T------G-----TAAAAAAACGCCGCAAAAAATAAATCAACTTAT-AAAA
* *
57176215 AAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCG
181 AAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCG
* *
57176280 CTTTATAATAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTT-TTACAA
246 CTTTATAATAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
57176328 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAAT-AAAAAAAATTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCG
* *
57176392 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
*
57176457 AGCGGCGTTTTTATAGCGGCGCTTTCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAA
131 AGCGGCG-TTTT-T------G-----TAAAAAAACGCCGCAAAAAATAAATCAACTTAT-AAAAA
*
57176522 AATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGC
182 AATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGC
57176587 TTTATAATAAGCGCCGCTAAAGGTAAGC---A------------AT--
247 TTTATAATAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
* * *
57176618 ---CGCCGCAAAAAATAAATAAACTTATAAAAAAAT-AAAAATATTTTAGAATAGCAAAACGGCG
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCG
57176679 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
66 TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
* *
57176744 AGCGGCTTTTTTTTACAAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAGAAAAA-TT
131 AGCGGCGTTTTTGTA-AAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATA-AAAAATTT
* *
57176808 TTAGAATAGCAAAACGGCGTCGTTTTGTTAAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGC
194 TTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGC
* **
57176873 GCCGCTAAAGGTAAGCAATAGTGTTGTTTCCTATAA
259 GCCGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
57176909 AAACGCCGCAAAAAATAAATCAACTTATAAAAAA
1 AAACGCCGCAAAAAATAAATCAACTTATAAAAAA
57176943 TTTCCCAAAA
Statistics
Matches: 2385, Mismatches: 130, Indels: 248
0.86 0.05 0.09
Matches are distributed among these distances:
266 52 0.02
267 7 0.00
268 10 0.00
269 74 0.03
270 41 0.02
271 2 0.00
272 7 0.00
274 91 0.04
275 37 0.02
276 18 0.01
277 57 0.02
278 34 0.01
279 1 0.00
280 11 0.00
281 2 0.00
282 50 0.02
283 90 0.04
284 84 0.04
285 89 0.04
286 12 0.01
287 155 0.06
288 108 0.05
289 49 0.02
290 120 0.05
291 16 0.01
292 145 0.06
293 146 0.06
294 181 0.08
295 198 0.08
296 2 0.00
297 1 0.00
301 69 0.03
302 1 0.00
303 1 0.00
306 248 0.10
307 69 0.03
308 107 0.04
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.25
Consensus pattern (294 bp):
AAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAAATTTAGAATAGCAAAACGGCG
TCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
AGCGGCGTTTTTGTAAAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAATAAAAAATTTTT
AGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGC
CGCTAAAGGTAAGCAATAGCGGCGTTTCCTATAA
Found at i:57175753 original size:146 final size:145
Alignment explanation
Indices: 57175591--57176617 Score: 1448
Period size: 161 Copynumber: 6.8 Consensus size: 145
57175581 GTTTTTGTAA
*
57175591 GCAAAAAATGAATCAACTTATAAAAAAAAAATAAAATTTTTAGAATAGCAAAACGGCGTCGTTTT
1 GCAAAAAATAAATCAACTTATAAAAAAAAAA-AAAA-TTTTAGAATAGCAAAACGGCGTCGTTTT
* * *
57175656 ATTCAAAATGAAAAAATTTTGCAGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATAGCGGTG
64 GTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATAGCGGCG
*
57175721 TTTCCTATAAAAAAGCC
129 TTTCCTATAAAAACGCC
* *
57175738 GCAAAAAAT-AATCAACTTATAAAAAATAAAAAAATTTTAGAATACCAAAACGGCGTCGTTTTGT
1 GCAAAAAATAAATCAACTTATAAAAAAAAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGT
* * * *
57175802 TCAAAATAAAAAAATTATGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGAAATAGCGGCGTT
66 TCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTT
* *
57175867 T-TTGTAAAAAACGCC
131 TCCTAT-AAAAACGCC
*
57175882 GCAAAAAATAAATCAACTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAGCGGCGTCGTTTTG
1 GCAAAAAATAAATCAACTTATAAAAAAA-AAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTG
* *
57175947 TTTAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGGAATAGCGGCGT
65 TTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATAGCGGCGT
*
57176012 TTTCTATAAAAACGCC
130 TTCCTATAAAAACGCC
57176028 GCAAAAAATAAATCAACTTATAAAAAAAAGAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTT
1 GCAAAAAATAAATCAACTTAT-AAAAAAA-AAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTT
* * *
57176093 GTTCAAAATGAAAAAATTTTGCAGCACTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCG
64 GTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATAGCGGCG
57176158 TTTTTATAGCGGCGCTTTCTATAAAAACGCC
129 ---TT-T-------C---CTATAAAAACGCC
57176189 GCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTT
1 GCAAAAAATAAATCAACTTAT-AAAAAAA-AAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTT
*
57176254 GTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATAGCGGCG
64 GTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATAGCGGCG
* *
57176319 TTT-TTACAAAAACGCC
129 TTTCCTATAAAAACGCC
*
57176335 GCAAAAAATAAATCAACTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTG
1 GCAAAAAATAAATCAACTTATAAAAAAA-AAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTG
*
57176400 TTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGT
65 TTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATAGCGGCG-
57176465 TTTTATAGCGGCGCTTTCTATAAAAACGCC
129 --TT-T-------C---CTATAAAAACGCC
57176495 GCAAAAAATAAATCAACTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTT
1 GCAAAAAATAAATCAACTTATAAAAAAAA-AAAAAA-TTTTAGAATAGCAAAACGGCGTCGTTTT
*
57176560 GTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
64 GTTCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
57176618 CGCCGCAAAA
Statistics
Matches: 799, Mismatches: 45, Indels: 58
0.89 0.05 0.06
Matches are distributed among these distances:
143 2 0.00
144 105 0.13
145 126 0.16
146 178 0.22
147 112 0.14
148 2 0.00
149 1 0.00
150 2 0.00
151 1 0.00
157 1 0.00
158 2 0.00
159 1 0.00
160 45 0.06
161 221 0.28
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (145 bp):
GCAAAAAATAAATCAACTTATAAAAAAAAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGT
TCAAAATGAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTT
TCCTATAAAAACGCC
Found at i:57176360 original size:145 final size:147
Alignment explanation
Indices: 57176163--57176617 Score: 707
Period size: 145 Copynumber: 3.0 Consensus size: 147
57176153 CGGCGTTTTT
* *
57176163 ATAGCGGCGCTTTCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATT
1 ATAGCGGCGCTTTTTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATT
57176228 TTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGC
66 TTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGC
57176293 GCCGCTAAAGGTAAGCA
131 GCCGCTAAAGGTAAGCA
*
57176310 ATAGCGGCG-TTTTTACAAAAACGCCGCAAAAAATAAATCAACTTAT-AAAAAAATAAAAAAAAT
1 ATAGCGGCGCTTTTTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATT
* *
57176373 TTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGC
66 TTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGC
57176438 GCCGCTAAAGGTAAGCA
131 GCCGCTAAAGGTAAGCA
*
57176455 ATAGCGGCGTTTTTATAGCGGCGCTTTCTATAAAAACGCCGCAAAAAATAAATCAACTTATAAAA
1 ATAGCGGCGCTTTT-TA----------C---AAAAACGCCGCAAAAAATAAATCAACTTATAAAA
*
57176520 AAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGC
52 AAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGC
57176585 GCTTTATAATAAGCGCCGCTAAAGGTAAGCA
117 GCTTTATAATAAGCGCCGCTAAAGGTAAGCA
57176616 AT
1 AT
57176618 CGCCGCAAAA
Statistics
Matches: 283, Mismatches: 9, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
145 105 0.37
146 39 0.14
147 11 0.04
157 1 0.00
160 30 0.11
161 97 0.34
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.25
Consensus pattern (147 bp):
ATAGCGGCGCTTTTTACAAAAACGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAAATT
TTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGC
GCCGCTAAAGGTAAGCA
Found at i:57176675 original size:126 final size:127
Alignment explanation
Indices: 57176491--57176743 Score: 474
Period size: 126 Copynumber: 2.0 Consensus size: 127
57176481 TCTATAAAAA
*
57176491 CGCCGCAAAAAATAAATCAACTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCG
1 CGCCGCAAAAAATAAATAAACTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCG
57176556 TTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
66 TTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
57176618 CGCCGCAAAAAATAAATAAACTTAT-AAAAAAAT-AAAAATATTTTAGAATAGCAAAACGGCGTC
1 CGCCGCAAAAAATAAATAAACTTATAAAAAAAATAAAAAAT-TTTTAGAATAGCAAAACGGCGTC
57176681 GTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
65 GTTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
57176744 AGCGGCTTTT
Statistics
Matches: 124, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
125 6 0.05
126 94 0.76
127 24 0.19
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (127 bp):
CGCCGCAAAAAATAAATAAACTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCG
TTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAAT
Found at i:57176776 original size:148 final size:146
Alignment explanation
Indices: 57176618--57176942 Score: 528
Period size: 148 Copynumber: 2.2 Consensus size: 146
57176608 GGTAAGCAAT
*
57176618 CGCCGCAAAAAATAAATAAACTTATAAAAAAATA-AAAATATTTTAGAATAGCAAAACGGCGTCG
1 CGCCGCAAAAAATAAATCAACTTATAAAAAAATAGAAAA-ATTTTAGAATAGCAAAACGGCGTCG
* * *
57176682 TTTTGTTCAAAATTAAAAAATTTTGCGGCGCTTTATAATAAGCGCCGCTAAAGGTAAGCAATAGC
65 TTTTGTTAAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAG-
**
57176747 GGCTT-TTTTTTACAAAAAA
129 GG-TTGTTTCCTA-AAAAAA
57176766 CGCCGCAAAAAATAAATCAACTTATAAAAAAATAGAAAAATTTTAGAATAGCAAAACGGCGTCGT
1 CGCCGCAAAAAATAAATCAACTTATAAAAAAATAGAAAAATTTTAGAATAGCAAAACGGCGTCGT
*
57176831 TTTGTTAAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGTG
66 TTTGTTAAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGGG
*
57176896 TTGTTTCCTATAAAAA
131 TTGTTTCCTAAAAAAA
57176912 CGCCGCAAAAAATAAATCAACTTATAAAAAA
1 CGCCGCAAAAAATAAATCAACTTATAAAAAA
57176943 TTTCCCAAAA
Statistics
Matches: 167, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
146 38 0.23
147 6 0.04
148 119 0.71
149 4 0.02
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (146 bp):
CGCCGCAAAAAATAAATCAACTTATAAAAAAATAGAAAAATTTTAGAATAGCAAAACGGCGTCGT
TTTGTTAAAAATGAAAAAATTTTGCGGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGGG
TTGTTTCCTAAAAAAA
Found at i:57177350 original size:15 final size:17
Alignment explanation
Indices: 57177320--57177351 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
57177310 TTGTAAGAGA
57177320 TAAAATAGTATTAATTT
1 TAAAATAGTATTAATTT
57177337 TAAAATA-T-TTAATTT
1 TAAAATAGTATTAATTT
57177352 AATTATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TAAAATAGTATTAATTT
Found at i:57177483 original size:14 final size:15
Alignment explanation
Indices: 57177455--57177487 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
57177445 AAGTTTTATA
57177455 GATTATGGAATTAGG
1 GATTATGGAATTAGG
57177470 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
57177484 GATT
1 GATT
57177488 CCGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:57177737 original size:89 final size:89
Alignment explanation
Indices: 57177596--57177786 Score: 264
Period size: 89 Copynumber: 2.1 Consensus size: 89
57177586 TTAAGTTAGA
*
57177596 GTTTAGGGTTTAGATTAATTAGTGTATTTTAATTATATATTAAACAAGGTTTAGGGGTTAGGGGT
1 GTTTAGGGTTTAGATTAATTAGTGTATTTTAATTATATATTAAACAAAGTTTAGGGGTTAGGGGT
*
57177661 TAGGGATCTAG-GATCGGGTTAT-G
66 TAAGGAT-TAGTGATCGGGTTATAG
*
57177684 GTTTAGGGTTTAGATTAATTA-T-TATTTTTAAATTTATATATTAAATAAAGTTTAGGGGTTAGG
1 GTTTAGGGTTTAGATTAATTAGTGTA-TTTT-AA-TTATATATTAAACAAAGTTTAGGGGTTAGG
* * *
57177747 GGTTAAGGATTTGTGGTCGGGTTTTAG
63 GGTTAAGGATTAGTGATCGGGTTATAG
57177774 GTTTAGGGTTTAG
1 GTTTAGGGTTTAG
57177787 GGTTTAGGGT
Statistics
Matches: 92, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
86 2 0.02
87 5 0.05
88 25 0.27
89 46 0.50
90 14 0.15
ACGTcount: A:0.27, C:0.02, G:0.28, T:0.43
Consensus pattern (89 bp):
GTTTAGGGTTTAGATTAATTAGTGTATTTTAATTATATATTAAACAAAGTTTAGGGGTTAGGGGT
TAAGGATTAGTGATCGGGTTATAG
Found at i:57177783 original size:7 final size:7
Alignment explanation
Indices: 57177769--57177800 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
57177759 GTGGTCGGGT
57177769 TTTA-GG
1 TTTAGGG
57177775 TTTAGGG
1 TTTAGGG
57177782 TTTAGGG
1 TTTAGGG
57177789 TTTAGGG
1 TTTAGGG
57177796 TTTAG
1 TTTAG
57177801 ATTAATTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:57177784 original size:14 final size:15
Alignment explanation
Indices: 57177765--57177798 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
57177755 ATTTGTGGTC
57177765 GGGTTTTA-GGTTTA
1 GGGTTTTAGGGTTTA
57177779 GGG-TTTAGGGTTTA
1 GGGTTTTAGGGTTTA
57177793 GGGTTT
1 GGGTTT
57177799 AGATTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 12 0.67
15 2 0.11
ACGTcount: A:0.12, C:0.00, G:0.41, T:0.47
Consensus pattern (15 bp):
GGGTTTTAGGGTTTA
Found at i:57178042 original size:10 final size:10
Alignment explanation
Indices: 57178027--57178060 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
57178017 TTAAAATCGT
57178027 AAAATTGTAA
1 AAAATTGTAA
57178037 AAAATTGT-A
1 AAAATTGTAA
*
57178046 AAAATTATAA
1 AAAATTGTAA
57178056 AAAAT
1 AAAAT
57178061 AAAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (10 bp):
AAAATTGTAA
Found at i:57178090 original size:19 final size:20
Alignment explanation
Indices: 57178046--57178085 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
57178036 AAAAATTGTA
57178046 AAAATTATAAAAAATAAAAAT
1 AAAATTA-AAAAAATAAAAAT
*
57178067 AAAATTAAAAAATTAAAAA
1 AAAATTAAAAAAATAAAAA
57178086 GAAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATTAAAAAAATAAAAAT
Found at i:57178095 original size:19 final size:19
Alignment explanation
Indices: 57178054--57178105 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
57178044 TAAAAATTAT
57178054 AAAAAATAAAAATAAAATTA
1 AAAAAATAAAAATAAAA-TA
* *
57178074 AAAAATTAAAAA-GAAATA
1 AAAAAATAAAAATAAAATA
*
57178092 AAAACACTAAAAAT
1 AAAA-AATAAAAAT
57178106 TTTATTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.22
19 10 0.37
20 11 0.41
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAAAATAAAAATAAAATA
Found at i:57178149 original size:47 final size:48
Alignment explanation
Indices: 57178090--57178188 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 48
57178080 TAAAAAGAAA
* * *
57178090 TAAAAACACTAAAAATT-TTATTTTTACCTAATTTTTATAAATACTACT
1 TAAAAACACT-AAAATTGATAATTTTACCTAATTTTTATAAATACTACC
* *
57178138 TAAAAA-ACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
1 TAAAAACACTAAAATTGATAATTTTACCTAATTTTTATAAATACTACC
57178185 TAAA
1 TAAA
57178189 CAAAATTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 6 0.13
47 33 0.73
48 6 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.42
Consensus pattern (48 bp):
TAAAAACACTAAAATTGATAATTTTACCTAATTTTTATAAATACTACC
Found at i:57180060 original size:26 final size:26
Alignment explanation
Indices: 57180031--57180083 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
57180021 CATTGAAGTT
* * *
57180031 TGGTTTATCTTTTTACATGCATGAAA
1 TGGTTTATATTTATACACGCATGAAA
57180057 TGGTTTATATTTATACACGCATGAAA
1 TGGTTTATATTTATACACGCATGAAA
57180083 T
1 T
57180084 CATAAAGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (26 bp):
TGGTTTATATTTATACACGCATGAAA
Found at i:57181721 original size:21 final size:21
Alignment explanation
Indices: 57181678--57181724 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
57181668 TTAAATTTGA
* *
57181678 AATTTTACAATTTAATCATCT
1 AATTTTACAATATAATCAACT
* *
57181699 AATTTTACAATATCATTAACT
1 AATTTTACAATATAATCAACT
57181720 AATTT
1 AATTT
57181725 AAATAGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTTTACAATATAATCAACT
Found at i:57182032 original size:42 final size:40
Alignment explanation
Indices: 57181929--57182063 Score: 146
Period size: 41 Copynumber: 3.3 Consensus size: 40
57181919 CGCCACTAAA
* *
57181929 TCTTTAGCGACGCTTAAAAAAACGCTGCTAAAGATA-ATGT
1 TCTTTAGCGGCGCTAAAAAAAACGCTGCTAAAGA-ACATGT
* * *
57181969 TCTTTACCGGCGCTTGAAAAAAACGCTGCTAAAGACCATGT
1 TCTTTAGCGGCGC-TAAAAAAAACGCTGCTAAAGAACATGT
* * *
57182010 TCTTTAGCGGCGCGTAAGAAAAAATGCCGCTAAAGAACATGA
1 TCTTTAGCGGCGC-TAA-AAAAAACGCTGCTAAAGAACATGT
*
57182052 TCTTTAGAGGCG
1 TCTTTAGCGGCG
57182064 TTTTTATCTA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 11 0.14
41 38 0.47
42 31 0.39
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (40 bp):
TCTTTAGCGGCGCTAAAAAAAACGCTGCTAAAGAACATGT
Found at i:57182085 original size:42 final size:42
Alignment explanation
Indices: 57182035--57182152 Score: 182
Period size: 42 Copynumber: 2.8 Consensus size: 42
57182025 AAGAAAAAAT
* *
57182035 GCCGCTAAAGAACATGATCTTTAGAGGCGTTTTTATCTAAGC
1 GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTATCTAAGC
* * *
57182077 GCCTCTAAAGAACATGGTCTTTAGCGACGTTTTTTTCTAAGC
1 GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTATCTAAGC
*
57182119 GCCGCTAAAGAACATGGTCTTTAGCGGCATTTTT
1 GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
57182153 GTTTGTAAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (42 bp):
GCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTATCTAAGC
Found at i:57184971 original size:43 final size:43
Alignment explanation
Indices: 57184863--57185014 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
57184853 AGGTTATGTT
* * * * *
57184863 TTTAGCGGTGTTTTTGCGAGAAGCGCCGCTAAAGGT-TTGATC
1 TTTAGCGGCGTTTGTGCGAAAAGCGTCGCTAAAGGTCTTGGTC
* * *
57184905 TATAGCGGCGTTTGTGACAAAAAGCGTTGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTG-CGAAAAGCGTCGCTAAAGGTCTTGGTC
* * * *
57184949 TTTAGCGGTGTTTGTGGGAAAAGCATCGCTAAATGTCTTGGTC
1 TTTAGCGGCGTTTGTGCGAAAAGCGTCGCTAAAGGTCTTGGTC
* *
57184992 TTTAGGGGCGTTTGTGGGAAAAG
1 TTTAGCGGCGTTTGTGCGAAAAG
57185015 TGCCACTAAA
Statistics
Matches: 91, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 13 0.14
43 59 0.65
44 19 0.21
ACGTcount: A:0.22, C:0.14, G:0.32, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGCGAAAAGCGTCGCTAAAGGTCTTGGTC
Found at i:57186413 original size:3 final size:3
Alignment explanation
Indices: 57186405--57186478 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
57186395 AAATTAGTTA
57186405 AAT AAT AAT AAT 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 AAT AAT AAT AAT
57186453 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
57186479 AAGGATAGAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:57186831 original size:31 final size:32
Alignment explanation
Indices: 57186771--57186836 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
57186761 AGGCAAATTA
57186771 AAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 AAAGAGTAATTGAATCCTAATAAAAACTCTTT
57186803 AAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 AAAGAGTAATTGAATCCTAATAAAAACTCTTT
57186834 AAA
1 AAA
57186837 ATTATCTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.38
32 21 0.62
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (32 bp):
AAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:57205520 original size:20 final size:21
Alignment explanation
Indices: 57205495--57205535 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
57205485 ATATATGTAC
57205495 ATATATA-AGTTAT-AAAATAA
1 ATATATAGA-TTATGAAAATAA
57205515 ATATATAGATTATGAAAATAA
1 ATATATAGATTATGAAAATAA
57205536 TGATTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
ATATATAGATTATGAAAATAA
Found at i:57207255 original size:45 final size:45
Alignment explanation
Indices: 57207204--57207324 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 45
57207194 TCAGTTTGCC
* *
57207204 CCACTGCAAT-TTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCT
1 CCACTGC-ATCTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTACT
* * * *
57207249 CCACTGCATCTTCAGGGAAATAAGACTCGTTTTCTTGGGTCTACT
1 CCACTGCATCTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTACT
* * *
57207294 CCACTACATCTTCAAGGAGATAAGACATGCT
1 CCACTGCATCTTCAGGGAGATAAGACTTGCT
57207325 ATGATCTACT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
44 2 0.03
45 61 0.97
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (45 bp):
CCACTGCATCTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTACT
Found at i:57207389 original size:44 final size:43
Alignment explanation
Indices: 57207338--57207621 Score: 250
Period size: 44 Copynumber: 6.5 Consensus size: 43
57207328 ATCTACTCTT
** *
57207338 TGCAACTTCAGAAAGATAAGATCTATCACTTTAATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGAT-TATCACTTTAATCTGCTCCAC
* * * **
57207382 TGCAACTTTATGGAGATAGGATTATTGGCTTTAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTA-TCACTTTAATCTGCTCCAC
* * ***
57207426 TGCAACCTCA-GGAGATAAGATTTTCCATCTTGGGTCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTAT-CA-CTTTAATCTGCTCCAC
* * * * ** **
57207470 TGCAACTTCAGGGAGATAAGACT-TGA-TATGATCTAATATAC
1 TGCAACTTCAGGGAGATAAGATTATCACTTTAATCTGCTCCAC
*
57207511 TGCAACTTCAGAGAGATAAGATTTATCACTTTAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGA-TTATCACTTTAATCTGCTCCAC
** * **
57207555 TATAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTA-TCACTTTAATCTGCTCCAC
57207599 TGCAACTTCAGGGAGATAAGATT
1 TGCAACTTCAGGGAGATAAGATT
57207622 CGCCATCTTC
Statistics
Matches: 187, Mismatches: 45, Indels: 16
0.75 0.18 0.06
Matches are distributed among these distances:
41 28 0.15
42 2 0.01
43 19 0.10
44 127 0.68
45 11 0.06
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (43 bp):
TGCAACTTCAGGGAGATAAGATTATCACTTTAATCTGCTCCAC
Found at i:57207540 original size:173 final size:172
Alignment explanation
Indices: 57207243--57207668 Score: 548
Period size: 173 Copynumber: 2.5 Consensus size: 172
57207233 CTTTCTTGAG
* * * * *** * * *
57207243 TCTGCTCCACTGCATCTTCAGGGAAATAAGACTCGTTTTCTTGGGTCTACTCCACTACATCTTCA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTCGCCATCTTGGGTCTGCTCCACTGCAACTTC-
* * * * *
57207308 AGGAGATAAGACATGCTATGATCTACTCTTTGCAACTTCAGAAAGATAAGATCTATCACTTTAAT
65 AGGAGATAAGACTTGATATGATCTAATATCTGCAACTTCAGAAAGATAAGATCTATCACTTTAAT
* * *
57207373 CCGCTCCACTGCAACTTTATGGAGATAGGATTATTGGCTTTAA
130 CCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAA
**
57207416 TCTGCTCCACTGCAACCTCA-GGAGATAAGATTTTCCATCTTGGGTCTGCTCCACTGCAACTTCA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTCGCCATCTTGGGTCTGCTCCACTGCAACTTCA
* *
57207480 GGGAGATAAGACTTGATATGATCTAATATACTGCAACTTCAGAGAGATAAGATTTATCACTTTAA
66 -GGAGATAAGACTTGATATGATCTAATAT-CTGCAACTTCAGAAAGATAAGATCTATCACTTTAA
* *
57207545 TCTGCTCCACTATAACTTCAGGGAGATAGGATTATTGGCTTTAA
129 TCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAA
* ** * *
57207589 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACCGCAACTTCA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTCGCCATCTTGGGTCTGCTCCACTGCAACTTCA
57207654 GGAGGATAAGACTTG
66 GGA-GATAAGACTTG
57207669 CTTACCTGAG
Statistics
Matches: 218, Mismatches: 31, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
171 1 0.00
172 57 0.26
173 111 0.51
174 49 0.22
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (172 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGATTCGCCATCTTGGGTCTGCTCCACTGCAACTTCA
GGAGATAAGACTTGATATGATCTAATATCTGCAACTTCAGAAAGATAAGATCTATCACTTTAATC
CGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAA
Found at i:57208560 original size:25 final size:26
Alignment explanation
Indices: 57208532--57208580 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
57208522 AGTGTCTTGA
57208532 AAAGAAAAAAATATT-CAAGAACAGC
1 AAAGAAAAAAATATTGCAAGAACAGC
* *
57208557 AAAGAATAAAGTATTGCAAGAACA
1 AAAGAAAAAAATATTGCAAGAACA
57208581 AACAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.61, C:0.10, G:0.14, T:0.14
Consensus pattern (26 bp):
AAAGAAAAAAATATTGCAAGAACAGC
Found at i:57220030 original size:12 final size:12
Alignment explanation
Indices: 57220013--57220058 Score: 74
Period size: 12 Copynumber: 3.7 Consensus size: 12
57220003 ATATAGATTA
57220013 TAAAATATGTAT
1 TAAAATATGTAT
57220025 TAAAATATAAGTAT
1 TAAAATAT--GTAT
57220039 TAAAATATGTAT
1 TAAAATATGTAT
57220051 TAAAATAT
1 TAAAATAT
57220059 ATAGATTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 20 0.62
14 12 0.38
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (12 bp):
TAAAATATGTAT
Found at i:57220066 original size:26 final size:26
Alignment explanation
Indices: 57220001--57220066 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 26
57219991 ATAGATAGAT
57220001 ATATATAGATTATAAAATATGTATTAAA
1 ATATATAGA-T-TAAAATATGTATTAAA
57220029 ATATA-AGTATTAAAATATGTATTAAA
1 ATATATAG-ATTAAAATATGTATTAAA
57220055 ATATATAGATTA
1 ATATATAGATTA
57220067 TGAAATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 25 0.69
27 5 0.14
28 6 0.17
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (26 bp):
ATATATAGATTAAAATATGTATTAAA
Found at i:57223553 original size:17 final size:17
Alignment explanation
Indices: 57223531--57223566 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
57223521 ATGAATTAGG
*
57223531 TATTTGATTAATATCAA
1 TATTTGATTAACATCAA
57223548 TATTTGATTAACATCAA
1 TATTTGATTAACATCAA
57223565 TA
1 TA
57223567 AATTTATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (17 bp):
TATTTGATTAACATCAA
Found at i:57224412 original size:15 final size:16
Alignment explanation
Indices: 57224384--57224421 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
57224374 TTTCCATCAT
57224384 ATTTGTTGTTAATTTC
1 ATTTGTTGTTAATTTC
57224400 ATTTGTT-TTAATTTC
1 ATTTGTTGTTAATTTC
57224415 ATTTGTT
1 ATTTGTT
57224422 AAAATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (16 bp):
ATTTGTTGTTAATTTC
Found at i:57228891 original size:21 final size:22
Alignment explanation
Indices: 57228862--57228908 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
57228852 CAGAAGGAGT
*
57228862 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
57228884 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
57228905 GAGT
1 GAGT
57228909 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:57232023 original size:90 final size:90
Alignment explanation
Indices: 57231773--57232041 Score: 295
Period size: 90 Copynumber: 3.0 Consensus size: 90
57231763 AACCACGAAA
* * * * * *
57231773 ATTGTAGGTTAATACGCTGACAAATGGTTGTGAATGCGCAACTTATTTGGAAATGAAAGCTGCCA
1 ATTGTAGGTTAATACGCTGACAGATGGTTGTGAATGCACAACATATTTGCAGATAAAAGCTGCCA
* *
57231838 GAATATGGGCGGATGAACCACCAGT
66 GAAAATGGGTGGATGAACCACCAGT
* * * * * ** *
57231863 GTTGCAGGTTAATATGCTGCCAGATGGTTATGAATGCACAATGTATTTGTAGATAAAAGCTGCCA
1 ATTGTAGGTTAATACGCTGACAGATGGTTGTGAATGCACAACATATTTGCAGATAAAAGCTGCCA
*
57231928 GAAAATGGGTGGATGAACCACTAGT
66 GAAAATGGGTGGATGAACCACCAGT
* * * * **
57231953 ATTGTAGGTTAATACACAGTCAGATAGTTGTGAATGCACAACATATTTGCAGATAAAAGCTATCA
1 ATTGTAGGTTAATACGCTGACAGATGGTTGTGAATGCACAACATATTTGCAGATAAAAGCTGCCA
* ** *
57232018 AAAAATCTGTGGATGAACTACCAG
66 GAAAATGGGTGGATGAACCACCAG
57232042 AGTTGCGTAT
Statistics
Matches: 146, Mismatches: 33, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 146 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (90 bp):
ATTGTAGGTTAATACGCTGACAGATGGTTGTGAATGCACAACATATTTGCAGATAAAAGCTGCCA
GAAAATGGGTGGATGAACCACCAGT
Found at i:57234928 original size:17 final size:17
Alignment explanation
Indices: 57234895--57234927 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
57234885 TTCGGCATAA
57234895 GATTTATTTTTCTTTTT
1 GATTTATTTTTCTTTTT
57234912 GATTT-TTTTTCTTTTT
1 GATTTATTTTTCTTTTT
57234928 TACGCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (17 bp):
GATTTATTTTTCTTTTT
Found at i:57235850 original size:24 final size:22
Alignment explanation
Indices: 57235806--57235848 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
57235796 ACATGCATAC
*
57235806 ATTTTTATAATATACGTATATT
1 ATTTTTATAATATACATATATT
* *
57235828 ATTTTTATAATTTATATATAT
1 ATTTTTATAATATACATATAT
57235849 ATACACGTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTTATAATATACATATATT
Found at i:57237430 original size:29 final size:30
Alignment explanation
Indices: 57237388--57237456 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 30
57237378 AGGCCTTTAA
*
57237388 CGGGGCTTTTTA-GCCGCTAAAAGTATTTG
1 CGGGGCTTTTTACGCCGCTAAAAATATTTG
57237417 CGGGGCTTTTTAGCGCCGCTAAAAATATTTG
1 CGGGGCTTTTTA-CGCCGCTAAAAATATTTG
*
57237448 CGGCGCTTT
1 CGGGGCTTT
57237457 GCTAAATAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 12 0.33
31 24 0.67
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (30 bp):
CGGGGCTTTTTACGCCGCTAAAAATATTTG
Found at i:57237959 original size:43 final size:43
Alignment explanation
Indices: 57237897--57237982 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
57237887 ACATATGCAA
*
57237897 GGTAATAAAACATACAATACATTT-TCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTAT-TTAATCAAGGAAATCTT
* *
57237940 GGTAATAAAAGATATAATACATTTATTTAATCAAGGAAATCTT
1 GGTAATAAAACATACAATACATTTATTTAATCAAGGAAATCTT
57237983 ATAATGAACT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.35
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTATTTAATCAAGGAAATCTT
Found at i:57241026 original size:150 final size:149
Alignment explanation
Indices: 57240857--57241237 Score: 577
Period size: 148 Copynumber: 2.6 Consensus size: 149
57240847 TAAAATGGTA
* * *
57240857 CTATTTTTTAAAAGTAAAATTATTTTTTTGTGGCGTTTTTTTATAAAAATGTCGCTATTGCTTAT
1 CTATTTTTTTAAAGTAAAATTA-TTTTTTGTGGCGTTTTTTTATAAAAACGTCGCTATTGCTTAC
* * * *
57240922 CTTTTACGGCGTTTTTAATAAAAATGTC-TCAAAAAATTATTTTATTTAGAATAAAACGATACTA
65 CTTTTGCGGCGTTTTTAATAAAAACGCCGT-AAAAAATTATTTTATTTAGAATAAAACGACACTA
57240986 TTTTGCTATGCTAAAAGGGCG
129 TTTTGCTATGCTAAAAGGGCG
*
57241007 CTATTTTTTTAAAGTAAAATTATTTTTTGTGGTG-TTTTTTATAAAAACGTCGCTATTGCTTACC
1 CTATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGTCGCTATTGCTTACC
* * * * * *
57241071 TTTTGCGGCGTTTTTCATGAAAACGCCGTAAAAAATTATTTTATTTGGTATAAAACGACATTGTT
66 TTTTGCGGCGTTTTTAATAAAAACGCCGTAAAAAATTATTTTATTTAGAATAAAACGACACTATT
57241136 TTGCTATGCTAAAAGGGCG
131 TTGCTATGCTAAAAGGGCG
* *
57241155 CTATTTTTTTAAAGTAAAATTATTTTTTGTGACGTTTTTTTTATAAAAACGCCGCTATTGCTTAC
1 CTATTTTTTTAAAGTAAAATTATTTTTTGTGGCG-TTTTTTTATAAAAACGTCGCTATTGCTTAC
57241220 CTTTTGCGGCGTTTTTAA
65 CTTTTGCGGCGTTTTTAA
57241238 AATTATTTCA
Statistics
Matches: 210, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
148 132 0.63
149 12 0.06
150 66 0.31
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.45
Consensus pattern (149 bp):
CTATTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACGTCGCTATTGCTTACC
TTTTGCGGCGTTTTTAATAAAAACGCCGTAAAAAATTATTTTATTTAGAATAAAACGACACTATT
TTGCTATGCTAAAAGGGCG
Found at i:57242149 original size:21 final size:21
Alignment explanation
Indices: 57242125--57242164 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
57242115 TACTAACTCT
*
57242125 TAACCCCAAACCCTAAACCCC
1 TAACACCAAACCCTAAACCCC
* *
57242146 TAACACTAACCCCTAAACC
1 TAACACCAAACCCTAAACC
57242165 TTATTTAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.47, G:0.00, T:0.12
Consensus pattern (21 bp):
TAACACCAAACCCTAAACCCC
Found at i:57243742 original size:39 final size:39
Alignment explanation
Indices: 57243688--57243810 Score: 140
Period size: 40 Copynumber: 3.1 Consensus size: 39
57243678 TTTGTGGCGT
*
57243688 TTTTTAGAAAA-CGCCGCTAATGCTTATTTTTAGCAGTG
1 TTTTTAGAAAAGCGCCGCTAATGCTTATTTTTAGCAGCG
* **
57243726 TTTTTCGAAAAGCGCCGCTAATGCTCTACCTTTAGCAGCG
1 TTTTTAGAAAAGCGCCGCTAATGCT-TATTTTTAGCAGCG
* * * **
57243766 TTTTTATAAAAGCACAGCTAATGCTTGATTTTTAGTGGCG
1 TTTTTAGAAAAGCGCCGCTAATGCTT-ATTTTTAGCAGCG
57243806 TTTTT
1 TTTTT
57243811 TGCCCAAACG
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 10 0.14
39 14 0.20
40 46 0.66
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (39 bp):
TTTTTAGAAAAGCGCCGCTAATGCTTATTTTTAGCAGCG
Found at i:57253608 original size:44 final size:45
Alignment explanation
Indices: 57253560--57253682 Score: 203
Period size: 45 Copynumber: 2.8 Consensus size: 45
57253550 AAGAAAAAGG
*
57253560 ACCAAGGTGAAAACCCACAAAGGGCACTTTGAGTTCT-AAAAAAA
1 ACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTTCTAAAAAAAA
*
57253604 ACCAATGTGAAAACCCACAAAGGGCGCTTTGAGTTCTAAAAAAAA
1 ACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTTCTAAAAAAAA
* *
57253649 ACCAAGGTGAAAACCCGCAAAGGGTGCTTTGAGT
1 ACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGT
57253683 CCAAAAGATG
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
44 35 0.48
45 38 0.52
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.17
Consensus pattern (45 bp):
ACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTTCTAAAAAAAA
Found at i:57255288 original size:21 final size:21
Alignment explanation
Indices: 57255262--57255304 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
57255252 CCGGCATTGT
*
57255262 AGTGGAATAGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
* *
57255283 AGTGGAGCGGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
57255304 A
1 A
57255305 AGCAGCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.21
Consensus pattern (21 bp):
AGTGGAACAGATTAAAGCTGA
Found at i:57255500 original size:45 final size:45
Alignment explanation
Indices: 57255434--57255654 Score: 169
Period size: 45 Copynumber: 5.0 Consensus size: 45
57255424 CCTGGCATTA
* * * *
57255434 AAATTGAAGA-AAGTAAGTCTTATCCCCCTGAAGTTGCAGTGGGGC
1 AAATTGAAGACAA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
**
57255479 AAATTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AAATTGAAGACAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * *
57255524 AGATTGAAGCCAACAAGTCTTATCTCCCTCAAGTTGCAATGGAGC
1 AAATTGAAGACAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * ** * * ** *
57255569 AGACTGACTA-AACCAATCTCATCTCTTTGAAGTTGCAGTAGAGC
1 AAATTGAAGACAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* ** * * * *
57255613 AGATTGAAG-TTACTAATCCTACCTTCCTGAAGTTGCAGTGGA
1 AAATTGAAGACAACAAATCTTATCTCCCTGAAGTTGCAGTGGA
57255655 ACGGATTAAA
Statistics
Matches: 138, Mismatches: 36, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
44 55 0.40
45 82 0.59
46 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (45 bp):
AAATTGAAGACAACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
Found at i:57255830 original size:51 final size:51
Alignment explanation
Indices: 57255730--57255830 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
57255720 TATCCTATTG
* * * *
57255730 GCATTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTA
1 GCATTACAGCGGAACAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTA
* *
57255781 GCATTGCAGCGGAGCAGATTAAAGCTGAAA-GCAGCGAATCTTATCTCCCT
1 GCATTACAGCGGAACAGATTAAAGCT-AAAGGCAGCGAATCTTATCTCCCT
57255831 GGCGTTAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 40 0.93
52 3 0.07
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (51 bp):
GCATTACAGCGGAACAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTA
Found at i:57256028 original size:404 final size:403
Alignment explanation
Indices: 57255330--57256077 Score: 1239
Period size: 404 Copynumber: 1.9 Consensus size: 403
57255320 CTCCTTGGTG
* * * *
57255330 TTACAGTGGAACAGATTAAAGCTAAATGTAGTGAATCTTGTTTCCCTGGCATTGCAGCGGAGCCG
1 TTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAGCGGAGCAG
57255395 ATTAAAGCTGAAGCACCAAATCTTATCTCCCTGGCATTAAAATTGAAGAAAGTAAGTCTTATCCC
66 ATTAAAGCTGAAGCACCAAATCTTATCTCCCTGGCATTAAAATTGAAGAAAGTAAGTCTTATCCC
* *
57255460 CCTGAAGTTGCAGTGGGGCAAATTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
131 CCTGAAGTTGCAGTGGGGCAAACTGAAGATGACAAATCTTATCTCCCTGAAGTTACAGTGGAGCA
* * *
57255525 GATTGAAGCCAACAAGTCTTATCTCCCTCAAGTTGCAATGGAGCAGACTGACTAAACCAATCTCA
196 GATTAAAGCCAACAAGTCTTATCTCCCTCAAGTTGCAATGGAGCAAACTAACTAAACCAATCTCA
** * * *
57255590 TCTCTTTGAAGTTGCAGTAGAGCAGATTGAAGTTACTAATCCTACCTTCCTGAAGTTGCAGTGGA
261 TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTACTAATCATACCTCCCTAAAGTTGCAGTGGA
57255655 ACGGATTAAAATGATGGATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTGAATACACCAGACT
326 ACGGATTAAAATGATGGATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTGAATACACCAGACT
57255720 TATCCTATTGGCA
391 TATCCTATTGGCA
57255733 TTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAGCGGAGCAG
1 TTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAGCGGAGCAG
* * *
57255798 ATTAAAGCTGAAAGCAGCGAATCTTATCTCCCTGGCGTTAAAATTGAAGAAAGTAAGTCTTATCC
66 ATTAAAGCTG-AAGCACCAAATCTTATCTCCCTGGCATTAAAATTGAAGAAAGTAAGTCTTATCC
* *
57255863 CCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGA-AAATCTTATCTCCCTGAAGTTATAGTGGAG
130 CCCTGAAGTTGCAGTGGGGCAAACTGAAGAT-GACAAATCTTATCTCCCTGAAGTTACAGTGGAG
*
57255927 CAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTTGCAGA-GGAGCAAACTAACTAAACCAATC
194 CAGATTAAAGCCAACAAGTCTTATCTCCCTCAAGTTGCA-ATGGAGCAAACTAACTAAACCAATC
* * *
57255991 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAATCATACCTCCCTAAAGTTGTAGT
258 TCATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTACTAATCATACCTCCCTAAAGTTGCAGT
*
57256056 GGAGCGGATTAAAATGATGGAT
323 GGAACGGATTAAAATGATGGAT
57256078 ATTATCTCTC
Statistics
Matches: 318, Mismatches: 24, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
403 71 0.22
404 244 0.77
405 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (403 bp):
TTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAGCGGAGCAG
ATTAAAGCTGAAGCACCAAATCTTATCTCCCTGGCATTAAAATTGAAGAAAGTAAGTCTTATCCC
CCTGAAGTTGCAGTGGGGCAAACTGAAGATGACAAATCTTATCTCCCTGAAGTTACAGTGGAGCA
GATTAAAGCCAACAAGTCTTATCTCCCTCAAGTTGCAATGGAGCAAACTAACTAAACCAATCTCA
TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGTTACTAATCATACCTCCCTAAAGTTGCAGTGGA
ACGGATTAAAATGATGGATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTGAATACACCAGACT
TATCCTATTGGCA
Found at i:57256043 original size:44 final size:44
Alignment explanation
Indices: 57255855--57256276 Score: 308
Period size: 44 Copynumber: 9.6 Consensus size: 44
57255845 AGAAAGTAAG
* * *
57255855 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGAA--AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T--AACCAA
** * *
57255900 TCTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGCCAA-CAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TAACCAA
* * * *
57255944 GTCTTATCTCCCTGAAGTTGCAGAGGAGCAAACT-AACTAAACCAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AACCAA
* *
57255989 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACCAA
* * * * * * * * ***
57256033 TCATACCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATGATGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACCAA
* * * * * *
57256077 TATTATCTCTCT-AGAGATGCAGTAGAGCAGATCG-CGT--CCAA
1 TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGTAACCAA
* * *
57256118 TCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-CAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TAACCAA
* * * * *
57256162 GTCTTATCTTCCTGAAGTTGTAGTAGAGCAGACTG-ACTGAACCAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AACCAA
57256207 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-TAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AACCAA
* *
57256251 TCCTATCTCCCTGAAGTTACAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
57256277 ACAAATTAAA
Statistics
Matches: 291, Mismatches: 71, Indels: 31
0.74 0.18 0.08
Matches are distributed among these distances:
41 26 0.09
42 2 0.01
43 4 0.01
44 162 0.56
45 97 0.33
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACCAA
Found at i:57256287 original size:218 final size:218
Alignment explanation
Indices: 57255898--57256329 Score: 609
Period size: 218 Copynumber: 2.0 Consensus size: 218
57255888 GAAGATGGAA
* *
57255898 AATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTT
1 AATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTT
*
57255963 GCAGAGGAGCAAACTAACTAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTT
66 GCAGAGGAGCAAACTAACTAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTA
* ** * ** * *
57256028 ACTAATCATACCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATGATGGATATTATCTCTCT-AGA
131 ACCAATCATACCTCCCTAAAGTTACAGTGGAACAAATTAAAAAGATGGATATTATCTATCTGA-A
57256092 GATGCAGTAGAGCAGATCGCGTCC
195 GATGCAGTAGAGCAGATCGCGTCC
* *
57256116 AATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTTCCTGAAGTT
1 AATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTT
* * * *
57256181 GTAGTA-GAGCAGACTGACTGAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-T
66 GCAG-AGGAGCAAACTAACTAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT
* * * *
57256244 AAACCAATCCTATCTCCCTGAAGTTACAGTGGAACAAATTAAAAAGATGGATTTTATCTATCTGA
130 -AACCAATCATACCTCCCTAAAGTTACAGTGGAACAAATTAAAAAGATGGATATTATCTATCTGA
* *
57256309 AGTTGTAGTAGAGCAGATCGC
194 AGATGCAGTAGAGCAGATCGC
57256330 ATCAGACTTT
Statistics
Matches: 188, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
217 1 0.01
218 185 0.98
219 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (218 bp):
AATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTT
GCAGAGGAGCAAACTAACTAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTA
ACCAATCATACCTCCCTAAAGTTACAGTGGAACAAATTAAAAAGATGGATATTATCTATCTGAAG
ATGCAGTAGAGCAGATCGCGTCC
Found at i:57256412 original size:218 final size:216
Alignment explanation
Indices: 57255927--57256415 Score: 513
Period size: 218 Copynumber: 2.2 Consensus size: 216
57255917 TATAGTGGAG
* * *
57255927 CAGATTAAAGCCAACAAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAAACTAACTAAACCAATCT
1 CAGATTAAAGCCAACAAGTCTTATCT-CCTGAAGTTGCAG-TGAGCAGACTGACTAAACCAATCT
* * **
57255992 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAATCATACCTCCCTAAAGTTGTAGTG
64 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACCAATCATACCTCCCTAAAGTTACAGTG
* ** * * *
57256057 GAGCGGATTAAAATGATGGATATTATCTCTCTAGAGATGCAGTAGAGCAGATCGCGTCCAATCTT
129 GAACAAATTAAAAAGATGGATATTATCTATCTAGAGATGCAGTAGAGCAGATCGCATCCAATCTT
* * ** *
57256122 ATCCCCCTGAAGTTGCAGTGGAG
194 ATCCCCCTAAAGATGCAGTAAAA
* *
57256145 CAGATTAAAGCCAACAAGTCTTATCTTCCTGAAGTTGTAGTAGAGCAGACTGACTGAACCAATCT
1 CAGATTAAAGCCAACAAGTCTTATC-TCCTGAAGTTGCAGT-GAGCAGACTGACTAAACCAATCT
* * *
57256210 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-TAAACCAATCCTATCTCCCTGAAGTTACAGT
64 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-AACCAATCATACCTCCCTAAAGTTACAGT
* * *
57256274 GGAACAAATTAAAAAGATGGATTTTATCTATCT-GAAGTTGTAGTAGAGCAGATCGCAT-CAGA-
128 GGAACAAATTAAAAAGATGGATATTATCTATCTAG-AGATGCAGTAGAGCAGATCGCATCCA-AT
*****
57256336 CTTTATTTTTTTTAAAGATGCAGTAAAA
191 C-TTA-TCCCCCTAAAGATGCAGTAAAA
* * * *
57256364 CA-AGTTGAAG-CTACAGGTCTTATCTCACTGAGGTTGCAGTGTAGCAGACTGA
1 CAGA-TTAAAGCCAACAAGTCTTATCTC-CTGAAGTTGCAGTG-AGCAGACTGA
57256416 AGATAGCAAA
Statistics
Matches: 225, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
217 8 0.04
218 197 0.88
219 20 0.09
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (216 bp):
CAGATTAAAGCCAACAAGTCTTATCTCCTGAAGTTGCAGTGAGCAGACTGACTAAACCAATCTTA
TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACCAATCATACCTCCCTAAAGTTACAGTGGA
ACAAATTAAAAAGATGGATATTATCTATCTAGAGATGCAGTAGAGCAGATCGCATCCAATCTTAT
CCCCCTAAAGATGCAGTAAAA
Found at i:57261143 original size:32 final size:32
Alignment explanation
Indices: 57261093--57261167 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
57261083 ACATGCATAC
* *
57261093 ATTTTTATAATATACGTACAT-TATTTTTATA
1 ATTTATATAATACACGTACATATATTTTTATA
* *
57261124 ATTTATATATATACACGTACTTATATTTTTTTA
1 ATTTATATA-ATACACGTACATATATTTTTATA
57261157 TATTT-TATAAT
1 -ATTTATATAAT
57261168 TTATATACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 8 0.22
32 12 0.32
33 13 0.35
34 4 0.11
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.56
Consensus pattern (32 bp):
ATTTATATAATACACGTACATATATTTTTATA
Found at i:57263636 original size:15 final size:15
Alignment explanation
Indices: 57263618--57263649 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
57263608 TGCTCATTCA
57263618 ATCGCATTCGTAACC
1 ATCGCATTCGTAACC
57263633 ATCGCATTCGTAACC
1 ATCGCATTCGTAACC
57263648 AT
1 AT
57263650 AAGAAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.28
Consensus pattern (15 bp):
ATCGCATTCGTAACC
Found at i:57265235 original size:3 final size:3
Alignment explanation
Indices: 57265177--57265223 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
57265167 GGTTCGTTAG
57265177 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
57265224 CTGTTTATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:57265527 original size:30 final size:30
Alignment explanation
Indices: 57265493--57265552 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
57265483 TTATGTTTTC
57265493 ATTAGTGTTTTAAAAGAATGTTTTAACCTT
1 ATTAGTGTTTTAAAAGAATGTTTTAACCTT
57265523 ATTAGTGTTTTAAAAGAATGTTTTAACCTT
1 ATTAGTGTTTTAAAAGAATGTTTTAACCTT
57265553 GCTCATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (30 bp):
ATTAGTGTTTTAAAAGAATGTTTTAACCTT
Found at i:57267775 original size:17 final size:17
Alignment explanation
Indices: 57267753--57267785 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
57267743 AGGGTATTGG
57267753 TGTAAAATTGTTCACAA
1 TGTAAAATTGTTCACAA
57267770 TGTAAAATTGTTCACA
1 TGTAAAATTGTTCACA
57267786 TTACTATATC
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:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
TGTAAAATTGTTCACAA
Found at i:57272292 original size:24 final size:24
Alignment explanation
Indices: 57272265--57272314 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
57272255 ACCCATTAAA
*
57272265 AACATAACTTTTAACCTTTCATTT
1 AACATAACTCTTAACCTTTCATTT
* *
57272289 AACATAACTCTTGACTTTTCATTT
1 AACATAACTCTTAACCTTTCATTT
57272313 AA
1 AA
57272315 GTTTATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.44
Consensus pattern (24 bp):
AACATAACTCTTAACCTTTCATTT
Found at i:57282331 original size:5 final size:5
Alignment explanation
Indices: 57282323--57282383 Score: 56
Period size: 5 Copynumber: 12.8 Consensus size: 5
57282313 AATTTTTATT
* * * *
57282323 TTTAA TTTAA TTTAA TTTAA TTTTA TTTTA TTTTA TTTAC TTT-A TTT-A
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
*
57282371 -TTAA TTTAT TTTA
1 TTTAA TTTAA TTTA
57282384 TTATTTATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
3 2 0.04
4 5 0.10
5 42 0.86
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (5 bp):
TTTAA
Found at i:57282384 original size:5 final size:5
Alignment explanation
Indices: 57282316--57282385 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
57282306 GCCACCCAAT
* * * *
57282316 TTTTA TTTTTAA TTTAA TTTAA TTTAA TTTTA TTTTA TTTTA -TTTA CTTTA
1 TTTTA -TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
57282367 TTTATTA ATTTA TTTTA TT
1 -TT-TTA TTTTA TTTTA TT
57282386 ATTTATTACT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
4 4 0.07
5 38 0.69
6 9 0.16
7 4 0.07
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:57282395 original size:32 final size:31
Alignment explanation
Indices: 57282339--57282400 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
57282329 TTAATTTAAT
57282339 TTAATTTTATTTTATTTTATTTACTTTATTTA
1 TTAATTTTATTTTATTTTATTTAC-TTATTTA
57282371 TTAA-TTTATTTTATTATT-TATTACTTATTT
1 TTAATTTTATTTTATT-TTAT-TTACTTATTT
57282401 GGATATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (31 bp):
TTAATTTTATTTTATTTTATTTACTTATTTA
Found at i:57282578 original size:22 final size:22
Alignment explanation
Indices: 57282550--57282593 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
57282540 CAGAATGCCT
57282550 ATTACCCTATTCCTGCAGCCAA
1 ATTACCCTATTCCTGCAGCCAA
57282572 ATTACCCTATTCCTGCAGCCAA
1 ATTACCCTATTCCTGCAGCCAA
57282594 CCATGCGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.36, G:0.09, T:0.27
Consensus pattern (22 bp):
ATTACCCTATTCCTGCAGCCAA
Found at i:57283662 original size:20 final size:21
Alignment explanation
Indices: 57283641--57283690 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 21
57283631 CCTAAGGCAT
57283641 AAAAAATATAAAT-AATAAATA
1 AAAAAATA-AAATAAATAAATA
57283662 AATCAAAATCAAAATAAATAAATA
1 AA--AAAAT-AAAATAAATAAATA
57283686 AAAAA
1 AAAAA
57283691 GAAAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 2 0.08
22 3 0.12
23 9 0.36
24 11 0.44
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAATAAATAAATA
Found at i:57283695 original size:20 final size:20
Alignment explanation
Indices: 57283654--57283699 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
57283644 AAATATAAAT
* *
57283654 AATAAATAAATCAAAATCAA
1 AATAAATAAATAAAAAACAA
*
57283674 AATAAATAAATAAAAAAGAA
1 AATAAATAAATAAAAAACAA
57283694 AA-AAAT
1 AATAAAT
57283700 TAGAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (20 bp):
AATAAATAAATAAAAAACAA
Found at i:57284289 original size:15 final size:15
Alignment explanation
Indices: 57284269--57284298 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57284259 TATTTTGATT
*
57284269 ATATTAGGATAATTA
1 ATATTAAGATAATTA
57284284 ATATTAAGATAATTA
1 ATATTAAGATAATTA
57284299 TTAAGGATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:57303709 original size:20 final size:20
Alignment explanation
Indices: 57303675--57303723 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
57303665 AAATTATATC
* *
57303675 GATATAAATAGATTTCTTTTCA
1 GATA-AAATAAATTT-TTGTCA
57303697 -ATAAAATAAATTTTTGTCA
1 GATAAAATAAATTTTTGTCA
57303716 GATAAAAT
1 GATAAAAT
57303724 TAGTAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 16 0.67
21 3 0.12
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (20 bp):
GATAAAATAAATTTTTGTCA
Found at i:57308134 original size:13 final size:13
Alignment explanation
Indices: 57308116--57308141 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57308106 GCATAAATAA
57308116 TATAAAAATATAT
1 TATAAAAATATAT
57308129 TATAAAAATATAT
1 TATAAAAATATAT
57308142 ATTTTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATAAAAATATAT
Found at i:57324728 original size:31 final size:31
Alignment explanation
Indices: 57324683--57324743 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
57324673 TACCCAACAA
* * *
57324683 TTCGACAACGTATAACCATTCACGAATCAAG
1 TTCGACAACATATAACCATACACAAATCAAG
* *
57324714 TTCGACAATATATAATCATACACAAATCAA
1 TTCGACAACATATAACCATACACAAATCAA
57324744 ATTTGGCATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (31 bp):
TTCGACAACATATAACCATACACAAATCAAG
Found at i:57324966 original size:184 final size:184
Alignment explanation
Indices: 57324641--57325186 Score: 756
Period size: 184 Copynumber: 3.0 Consensus size: 184
57324631 ATATATTCAA
* * * * * *
57324641 ATACGAATCCAATTCAGC-AATGAATATCGATATACCCAACAATTCGACAACGTATAACCATTCA
1 ATACGAAT-CAATTCAGCAAAT-TATATCCATATACCAAACAATTCGGCAATGTATAACCATACA
* * * * * * *
57324705 CGAATCAAGTTCGACAATATATAATCATACACAAATCAAATTTGGCATCCTATATTCATAAACAA
64 CGAATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAA
* * * *
57324770 TTCAATATCGACAATATATAACCATGTACGAA-TTAATTTCAGTAATGTACAACCTT
129 TTCAATATCGACAATATATAACCATGTAC-AATTTAATTTCAGCAAGGTAAAACCAT
* *
57324826 GTACGAATCAATTCAACAAATTATATCCATATACCAAACAATTCGGCAATGTATAACCATACACG
1 ATACGAATCAATTCAGCAAATTATATCCATATACCAAACAATTCGGCAATGTATAACCATACACG
* *
57324891 AATCAAGTTCGATAATGTATAATTAAATACAAATCCAATTCGGCATCCTATATACATAAAAAATT
66 AATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAATT
* *
57324956 CAAAATCGACAATATAAAACCATGTACAATTTAATTTCAGCAAGGTAAAACCAT
131 CAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTAAAACCAT
* * * * * * *
57325010 ATATGAATCAATTCGGCAAAATT-TATCCATATGCCAAATAATTCAGTAATATATAACCATACAC
1 ATACGAATCAATTCAGC-AAATTATATCCATATACCAAACAATTCGGCAATGTATAACCATACAC
57325074 GAATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAAT
65 GAATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAAT
*
57325139 TCAATATCGACAATATATAACCATGTACAATTTAATTTTAGCAAGGTA
130 TCAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTA
57325187 TAAAACATTT
Statistics
Matches: 321, Mismatches: 37, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
183 2 0.01
184 304 0.95
185 15 0.05
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (184 bp):
ATACGAATCAATTCAGCAAATTATATCCATATACCAAACAATTCGGCAATGTATAACCATACACG
AATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAATT
CAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTAAAACCAT
Found at i:57327395 original size:16 final size:16
Alignment explanation
Indices: 57327374--57327404 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57327364 TCTAAGAAGT
57327374 ACTTTTGAGACAAAAC
1 ACTTTTGAGACAAAAC
*
57327390 ACTTTTGAGATAAAA
1 ACTTTTGAGACAAAA
57327405 GCATGGCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (16 bp):
ACTTTTGAGACAAAAC
Found at i:57341116 original size:15 final size:15
Alignment explanation
Indices: 57341098--57341142 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
57341088 ACAATACCTG
57341098 TTTAAAGAATTTGGT
1 TTTAAAGAATTTGGT
57341113 TTT-AAG--TTTGGT
1 TTTAAAGAATTTGGT
57341125 TTTATAA-AATTTGGT
1 TTTA-AAGAATTTGGT
57341140 TTT
1 TTT
57341143 GAATTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 9 0.35
14 5 0.19
15 12 0.46
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.56
Consensus pattern (15 bp):
TTTAAAGAATTTGGT
Found at i:57343471 original size:138 final size:139
Alignment explanation
Indices: 57343223--57343504 Score: 557
Period size: 138 Copynumber: 2.0 Consensus size: 139
57343213 AGAGTAAAAA
57343223 CAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTAATTAAAACTCTTATCGTCACATTAACT
1 CAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTAATTAAAACTCTTATCGTCACATTAACT
57343288 CGATCTATGGATTCCCTTATTAGATTTGACTCTAATCCAGTAGATTTATGTCGTTCTATTTCTAG
66 CGATCTATGGATTCCCTTATTAGATTTGACTCTAATCCAGTAGATTTATGTCGTTCTATTTCTAG
57343353 GATTGCAT-
131 GATTGCATG
57343361 CAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTAATTAAAACTCTTATCGTCACATTAACT
1 CAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTAATTAAAACTCTTATCGTCACATTAACT
57343426 CGATCTATGGATTCCCTTATTAGATTTGACTCTAATCCAGTAGATTTATGTCGTTCTATTTCTAG
66 CGATCTATGGATTCCCTTATTAGATTTGACTCTAATCCAGTAGATTTATGTCGTTCTATTTCTAG
57343491 GATTGCATG
131 GATTGCATG
57343500 CAACT
1 CAACT
57343505 CCACTCAATT
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
138 138 0.97
139 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (139 bp):
CAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTAATTAAAACTCTTATCGTCACATTAACT
CGATCTATGGATTCCCTTATTAGATTTGACTCTAATCCAGTAGATTTATGTCGTTCTATTTCTAG
GATTGCATG
Found at i:57346471 original size:17 final size:17
Alignment explanation
Indices: 57346451--57346486 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
57346441 ATGAGTCTAG
57346451 CAAACCCTAGAGTTCGC
1 CAAACCCTAGAGTTCGC
* *
57346468 CAAACCTTGGAGTTCGC
1 CAAACCCTAGAGTTCGC
57346485 CA
1 CA
57346487 GATGACGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (17 bp):
CAAACCCTAGAGTTCGC
Found at i:57352936 original size:48 final size:48
Alignment explanation
Indices: 57352851--57353592 Score: 429
Period size: 48 Copynumber: 15.5 Consensus size: 48
57352841 AGGAGTCCCT
* * * ** *
57352851 CCTTGGCTTGAACTCCCAATGAAAAAC-AATGATGGATTTCTATCCATC
1 CCTTGGATTGAACTTCCAGTGAAAAACTGTTG-TGGATTTGTATCCATC
* * * *
57352899 TCTTGGATTGAGCTTCCAGTGAAAAACTGTTGCGGATTTGTATCCATT
1 CCTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATC
* * * *
57352947 CCTTGGCTTG-ACTTCTCAGGGAAAAGCTGTCGTGGATTTGTATCCATC
1 CCTTGGATTGAACTTC-CAGTGAAAAACTGTTGTGGATTTGTATCCATC
57352995 CCTTGGATTGAAC-TCCTAGTGAAAAACTGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTTCC-AGTGAAAAACTGTTGTGGATTTGTATCCATC
* * *
57353043 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTTCCAGTGAA-AA-------A-CTGTTGTGGATTTGTATCCATC
* *
57353100 CCTTGGCTTGAAC-TCCTAGTGAAAAATTGTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTTCC-AGTGAAAAACTGTTGTGGATTTGTATCCATC
* * * *
57353148 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGATGTTGTGGATTTGTCTCCATT
1 CCTTGGATTGAACTTCCAGTGAAAAAC---------TGTTGTGGATTTGTATCCATC
* *
57353205 CCTTGGCTTG-ACTTCTCATTG-AAAA--GTTGTGGATTTGTATCCATC
1 CCTTGGATTGAACTTC-CAGTGAAAAACTGTTGTGGATTTGTATCCATC
57353250 CCTTGGATTGAAC-TCCTAGTG---AAC------GGATTTGTATCCATC
1 CCTTGGATTGAACTTCC-AGTGAAAAACTGTTGTGGATTTGTATCCATC
* * * ****
57353289 CCTTGGCTTGAAC-TCCTAGTGAAGAACTGTGGTGGATGTTGTGGGGGA--
1 CCTTGGATTGAACTTCC-AGTGAAAAACTGTTGTGGAT-TTGT-ATCCATC
* * * * *
57353337 ----GAGA-AGAAC-T-GAGGTG---GA-TGTCGTGGATTTGTATTCATC
1 CCTTG-GATTGAACTTCCA-GTGAAAAACTGTTGTGGATTTGTATCCATC
* * *
57353376 CCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATC
* *
57353424 CCTTGGCTTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATT
1 CCTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATC
* * * *
57353472 CCTT-GACTTGAACTCCCAG-GAAAAAATTGTTGTCGATTTGTATCCATT
1 CCTTGGA-TTGAACTTCCAGTG-AAAAACTGTTGTGGATTTGTATCCATC
* * * * * * * * *
57353520 TCTT-GACTTGAACTCCCAATGAAAAACTGTTTTGAATTTGTGTTCGTT
1 CCTTGGA-TTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATC
* * *
57353568 CCTTGGCTTGAACTCCCAGGGAAAA
1 CCTTGGATTGAACTTCCAGTGAAAA
57353593 GCTGCTGGCA
Statistics
Matches: 552, Mismatches: 83, Indels: 118
0.73 0.11 0.16
Matches are distributed among these distances:
37 1 0.00
38 4 0.01
39 44 0.08
40 1 0.00
42 5 0.01
43 10 0.02
44 10 0.02
45 34 0.06
46 2 0.00
47 8 0.01
48 333 0.60
49 17 0.03
50 1 0.00
56 12 0.02
57 70 0.13
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (48 bp):
CCTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATC
Found at i:57353016 original size:96 final size:98
Alignment explanation
Indices: 57352883--57353518 Score: 390
Period size: 105 Copynumber: 6.6 Consensus size: 98
57352873 AAAACAATGA
* * * * *
57352883 TGGATTTCTATCCATCTCTTGGATTGAGCTTCC-AGTGAAAAACTGTTGCGGATTTGTATCCATT
1 TGGATTTGTATCCATCCCTTGGATTGAAC-TCCTAGTGAAAAACTGTTGTGGATTTGTATCCATC
* * *
57352947 CCTTGGCTTGACTTCTCAG-G-GAA-AAGCTGTCG
65 CCTTGGATTGAC-TCCCAGTGAGAAGAAGATGTCG
57352979 TGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATCC
1 TGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATCC
* *
57353044 CTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTTG
66 CTTGGATTG-ACTCCCAGTG-AGAA-----GAAGATGTCG
* * *
57353084 TGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAATTGTTGTGGATTTGTATCCATCC
1 TGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATCC
** *
57353149 CTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGATGTTG
66 CTTGGATTG-ACTCCCAGTG-AGAA-----GAAGATGTCG
* * * * *
57353189 TGGATTTGTCTCCATTCCTTGGCTTG-ACTTCTCATTG-AAAA--GTTGTGGATTTGTATCCATC
1 TGGATTTGTATCCATCCCTTGGATTGAACTCCT-AGTGAAAAACTGTTGTGGATTTGTATCCATC
*
57353250 CCTTGGATTGAACT-CC--T-AG-TG-A-A---C-
65 CCTTGGATTG-ACTCCCAGTGAGAAGAAGATGTCG
* * * *
57353274 -GGATTTGTATCCATCCCTTGGCTTGAACTCCTAGTGAAGAACTGTGGTGGA--TGT-T--GT--
1 TGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATCC
*** ***** * **
57353331 GGGGGA--GAGAAGAACTGAG--GTGGATGTCG
66 CTTGGATTGACTCCCAGTGAGAAGAAGATGTCG
* * * *
57353360 TGGATTTGTATTCATCCCTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCATTC
1 TGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATCC
* * * *
57353425 CTTGGCTTGAACTTCCAGTGA-AA-AA-CTGTTG
66 CTTGGATTG-ACTCCCAGTGAGAAGAAGATGTCG
* * * *
57353456 TGGATTTGTATCCATTCCTT-GACTTGAACTCCCAG-GAAAAAATTGTTGTCGATTTGTATCCAT
1 TGGATTTGTATCCATCCCTTGGA-TTGAACTCCTAGTG-AAAAACTGTTGTGGATTTGTATCCAT
57353519 TTCTTGACTT
Statistics
Matches: 440, Mismatches: 59, Indels: 82
0.76 0.10 0.14
Matches are distributed among these distances:
77 1 0.00
78 1 0.00
80 5 0.01
81 2 0.00
82 2 0.00
84 27 0.06
85 12 0.03
87 54 0.12
89 4 0.01
90 1 0.00
91 1 0.00
92 1 0.00
94 2 0.00
95 5 0.01
96 128 0.29
97 10 0.02
99 4 0.01
101 2 0.00
102 34 0.08
104 9 0.02
105 135 0.31
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (98 bp):
TGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATCC
CTTGGATTGACTCCCAGTGAGAAGAAGATGTCG
Found at i:57353111 original size:57 final size:57
Alignment explanation
Indices: 57353022--57353215 Score: 253
Period size: 57 Copynumber: 3.6 Consensus size: 57
57353012 AGTGAAAAAC
57353022 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGA
* * * *
57353079 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAA-AA-------A-T
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGA
*
57353127 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGA
* * *
57353184 TGTTGTGGATTTGTCTCCATTCCTTGGCTTGA
1 TGTTGTGGATTTGTATCCATCCCTTGGATTGA
57353216 CTTCTCATTG
Statistics
Matches: 116, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
48 41 0.35
49 3 0.03
56 2 0.02
57 70 0.60
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (57 bp):
TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGA
Found at i:57353160 original size:105 final size:104
Alignment explanation
Indices: 57352978--57353272 Score: 479
Period size: 105 Copynumber: 2.8 Consensus size: 104
57352968 AAAAGCTGTC
* *
57352978 GTGGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAAAACTGTTGTGGATTTGTATCCATC
1 GTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAA-TGTTGTGGATTTGTATCCATC
57353043 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTT
65 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTT
57353083 GTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAATTGTTGTGGATTTGTATCCATC
1 GTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAA-TGTTGTGGATTTGTATCCATC
*
57353148 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGATGTT
65 CCTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTT
* * *
57353188 GTGGATTTGTCTCCATTCCTTGGCTTG-ACTTCTCATTG-AAAA-GTTGTGGATTTGTATCCATC
1 GTGGATTTGTATCCATTCCTTGGCTTGAACTCCT-AGTGAAAAATGTTGTGGATTTGTATCCATC
*
57353250 CCTTGGATTGAACTCCTAGTGAA
65 CCTTGGATTGAACTCCCAGTGAA
57353273 CGGATTTGTA
Statistics
Matches: 181, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
102 42 0.23
104 9 0.05
105 130 0.72
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.36
Consensus pattern (104 bp):
GTGGATTTGTATCCATTCCTTGGCTTGAACTCCTAGTGAAAAATGTTGTGGATTTGTATCCATCC
CTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTT
Found at i:57353289 original size:39 final size:39
Alignment explanation
Indices: 57353235--57353311 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
57353225 GAAAAGTTGT
57353235 GGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAC
1 GGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAC
*
57353274 GGATTTGTATCCATCCCTTGGCTTGAACTCCTAGTGAA
1 GGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAA
57353312 GAACTGTGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (39 bp):
GGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAC
Found at i:57355984 original size:20 final size:20
Alignment explanation
Indices: 57355947--57355985 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57355937 AGATGTCGCC
**
57355947 GTCATGTGCTGGTGACTTTA
1 GTCATGTGCTGGCAACTTTA
57355967 GTCATGTGCTGGCAACTTT
1 GTCATGTGCTGGCAACTTT
57355986 GATACAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.28, T:0.38
Consensus pattern (20 bp):
GTCATGTGCTGGCAACTTTA
Found at i:57356383 original size:38 final size:39
Alignment explanation
Indices: 57356311--57356395 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 39
57356301 GATTTTACAT
* *
57356311 GTTATATAACGAGATCTAGCATTTGTTATAGATTCTCGG
1 GTTATATAACGAGATCTAGCATTTGTTACAGATTCTCAG
* *
57356350 GTTATTTAACGAGATCTAGC-TTTGTTGCAGATTCTCAG
1 GTTATATAACGAGATCTAGCATTTGTTACAGATTCTCAG
57356388 GTTATATA
1 GTTATATA
57356396 TAACATAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 22 0.54
39 19 0.46
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (39 bp):
GTTATATAACGAGATCTAGCATTTGTTACAGATTCTCAG
Found at i:57357864 original size:2 final size:2
Alignment explanation
Indices: 57357857--57357893 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
57357847 GGGTGTTACG
57357857 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
57357894 GTGAGTGAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:57361320 original size:48 final size:48
Alignment explanation
Indices: 57361236--57361466 Score: 284
Period size: 48 Copynumber: 4.8 Consensus size: 48
57361226 TGCCAGCAGC
* * * * * * * * *
57361236 TTTTCCCTGGGAGTTCAAACTAAGGAACGAACACAAATTCAAAACGGT
1 TTTTCACTGGGAGTTCAAGCCAAGGAATGGATACAAATCCACAACAGT
* * * *
57361284 TTTTCATTGGGAGTTCAAGTCAAGAAATGGATACAAATCGACAACAGTT
1 TTTTCACTGGGAGTTCAAGCCAAGGAATGGATACAAATCCACAACAG-T
* * *
57361333 TTTTC-CTGGGAGTTCAAGTCAAGGAATGGATACAAATCCATAATAGT
1 TTTTCACTGGGAGTTCAAGCCAAGGAATGGATACAAATCCACAACAGT
*
57361380 TTTTCACTGGAAGTTCAAGCCAAGGAATGGATACAAATCCACAACAGT
1 TTTTCACTGGGAGTTCAAGCCAAGGAATGGATACAAATCCACAACAGT
*
57361428 TTTTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATC
1 TTTTCACTGGGAGTTCAAGCCAAGGAATGGATACAAATC
57361467 TGTTCACTGG
Statistics
Matches: 157, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
47 6 0.04
48 145 0.92
49 6 0.04
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (48 bp):
TTTTCACTGGGAGTTCAAGCCAAGGAATGGATACAAATCCACAACAGT
Found at i:57361490 original size:39 final size:39
Alignment explanation
Indices: 57361430--57361505 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
57361420 ACAACAGTTT
57361430 TTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCTG
1 TTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCTG
* *
57361469 TTCACTGGGAGTTCGATCCAAGGGATGGATACAAATC
1 TTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATC
57361506 CACAACTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (39 bp):
TTCACTGGGAGTTCAAGCCAAGGGATGGATACAAATCTG
Found at i:57365781 original size:4 final size:4
Alignment explanation
Indices: 57365757--57365824 Score: 52
Period size: 4 Copynumber: 16.5 Consensus size: 4
57365747 GCAACCCAAT
* *
57365757 TTTA TTTT TATTA TTTA -TTA TTTA TTTC TTTA CTTTA TTTA -TTA CTTTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA
57365806 TTTTA TTT- TATTA TTTA TT
1 -TTTA TTTA T-TTA TTTA TT
57365825 ACTTATTTCG
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
3 7 0.13
4 30 0.58
5 15 0.29
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:57365823 original size:17 final size:16
Alignment explanation
Indices: 57365763--57365824 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 16
57365753 CAATTTTATT
57365763 TTTATTATTTA--TTA
1 TTTATTATTTATTTTA
* *
57365777 TTTATTTCTTTACTTTA
1 TTTA-TTATTTATTTTA
57365794 TTTATTACTTTATTTTA
1 TTTATTA-TTTATTTTA
57365811 TTTTATTATTTATT
1 -TTTATTATTTATT
57365825 ACTTATTTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 4 0.10
15 6 0.15
16 2 0.05
17 21 0.52
18 7 0.17
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATTATTTATTTTA
Found at i:57368707 original size:48 final size:48
Alignment explanation
Indices: 57368642--57368885 Score: 247
Period size: 48 Copynumber: 4.9 Consensus size: 48
57368632 ACATCCACCG
* * *
57368642 CAGTTCTTCACTGGGAGTTCAATCCAAGGGATGGATACAAATCCATAA
1 CAGTTTTTCACTAGGAGTTCAATCCAAGGGATGGATACAAATCCACAA
* * * *
57368690 TAGTTTTTCACTAGGAGTTCAAGCCAAGGAATAGATACAAATCCACAACACTCACCA
1 CAGTTTTTCACTAGGAGTTCAATCCAAGGGATGGATACAAAT---C--CA--CA--A
* * *
57368747 CAGTTCTTCACTGGGAGTTCAATCCAAGGGATGGATACAAACCCACAA
1 CAGTTTTTCACTAGGAGTTCAATCCAAGGGATGGATACAAATCCACAA
*
57368795 CAGTTTTTCACTAGGAGTTCAATCCAAGGGATGGATACAAATCCACGA
1 CAGTTTTTCACTAGGAGTTCAATCCAAGGGATGGATACAAATCCACAA
* * * * *
57368843 CAGCTTTTCCCTGAGAAG-TCAAGCCAAGGAATGGATACAAATC
1 CAGTTTTTCACT-AGGAGTTCAATCCAAGGGATGGATACAAATC
57368886 ACTACTTTTC
Statistics
Matches: 163, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
48 114 0.70
49 4 0.02
50 2 0.01
51 1 0.01
52 2 0.01
53 2 0.01
54 1 0.01
55 1 0.01
57 36 0.22
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (48 bp):
CAGTTTTTCACTAGGAGTTCAATCCAAGGGATGGATACAAATCCACAA
Found at i:57368763 original size:105 final size:103
Alignment explanation
Indices: 57368501--57368840 Score: 443
Period size: 105 Copynumber: 3.3 Consensus size: 103
57368491 CCGCATCAAG
* * *
57368501 TCAAGTCAAGGAATGGAGACAAATCCACAACATGCACCACAGTTCTTCACTGGGAGTTCAATTCA
1 TCAAGCCAAGGAATGGAGACAAATCCACAACATCCACCACAGTTCTTCACTGGGAGTTCAATCCA
** * * * *
57368566 AGGGATGGATGTAAATCCACAA-CTTTTCAATGAGAAG-
66 AGGGATGGATACAAATCCAAAAGTTTTTCACT-AGGAGT
* * *
57368603 TCAAGCCAAGAAATGGAGACAAATCCATAACATCCACCGCAGTTCTTCACTGGGAGTTCAATCCA
1 TCAAGCCAAGGAATGGAGACAAATCCACAACATCCACCACAGTTCTTCACTGGGAGTTCAATCCA
57368668 AGGGATGGATACAAATCCATAATAGTTTTTCACTAGGAGT
66 AGGGATGGATACAAATCCA-AA-AGTTTTTCACTAGGAGT
* *
57368708 TCAAGCCAAGGAATAGATACAAATCCACAACA-CTCACCACAGTTCTTCACTGGGAGTTCAATCC
1 TCAAGCCAAGGAATGGAGACAAATCCACAACATC-CACCACAGTTCTTCACTGGGAGTTCAATCC
*
57368772 AAGGGATGGATACAAACCCACAACAGTTTTTCACTAGGAGT
65 AAGGGATGGATACAAATCCA-AA-AGTTTTTCACTAGGAGT
* * *
57368813 TCAATCCAAGGGATGGATACAAATCCAC
1 TCAAGCCAAGGAATGGAGACAAATCCAC
57368841 GACAGCTTTT
Statistics
Matches: 210, Mismatches: 23, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
102 76 0.36
103 1 0.00
104 6 0.03
105 127 0.60
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (103 bp):
TCAAGCCAAGGAATGGAGACAAATCCACAACATCCACCACAGTTCTTCACTGGGAGTTCAATCCA
AGGGATGGATACAAATCCAAAAGTTTTTCACTAGGAGT
Found at i:57369078 original size:53 final size:53
Alignment explanation
Indices: 57369021--57369123 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 53
57369011 AAATGGCTAA
* *
57369021 AAAACATATTTTTATTTTTAAAAATCTAAACTTTCTCATTTAAAAAAAAAAAC
1 AAAACATATTCTTATTTTTAAAAATCTAAACTTTATCATTTAAAAAAAAAAAC
* *
57369074 AAAACCTATTCTTATTTTTCAAAATCTAAACTTTATCATTTAAAAAAAAA
1 AAAACATATTCTTATTTTTAAAAATCTAAACTTTATCATTTAAAAAAAAA
57369124 CCAAAAACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.38
Consensus pattern (53 bp):
AAAACATATTCTTATTTTTAAAAATCTAAACTTTATCATTTAAAAAAAAAAAC
Found at i:57371219 original size:2 final size:2
Alignment explanation
Indices: 57371212--57371262 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
57371202 GCTCACTCAC
57371212 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
57371254 CT CT CT CT C
1 CT CT CT CT C
57371263 CGTAACACCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:57372808 original size:39 final size:38
Alignment explanation
Indices: 57372724--57372808 Score: 125
Period size: 38 Copynumber: 2.2 Consensus size: 38
57372714 ACCTATGTTA
* *
57372724 TATATAACCTGAGAATCTGCAACAAAGCTAGATCTCGT
1 TATATAACCCGAGAATCTACAACAAAGCTAGATCTCGT
* *
57372762 TAAATAACCCGAGAATCTATAACAAATGCTAGATCTCGT
1 TATATAACCCGAGAATCTACAACAAA-GCTAGATCTCGT
57372801 TATATAAC
1 TATATAAC
57372809 ATGTAAAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 22 0.54
39 19 0.46
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (38 bp):
TATATAACCCGAGAATCTACAACAAAGCTAGATCTCGT
Found at i:57390114 original size:2 final size:2
Alignment explanation
Indices: 57390107--57390131 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57390097 ATAAGCAACA
57390107 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
57390132 TTAGTATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:57390379 original size:57 final size:56
Alignment explanation
Indices: 57390306--57390442 Score: 141
Period size: 57 Copynumber: 2.4 Consensus size: 56
57390296 TGGCAATAGC
* ** * *
57390306 TCCCACATTGGTGCCTAAACTTTTTTGTCATTGTTAGCCCCTAAAATTTAT-ATTTAT
1 TCCCATATTGGTGCCTAAACTTTTTTAACATAGTTAGCCCCT-AAATTGATAATTT-T
* * * * *
57390363 TCCCATATTGGGGCCTAATCATTTTTTAACCTAGTTAGTCCCTAACTTGATAATTTT
1 TCCCATATTGGTGCCTAAAC-TTTTTTAACATAGTTAGCCCCTAAATTGATAATTTT
*
57390420 TCCTATATTGGTGCCTAAACTTT
1 TCCCATATTGGTGCCTAAACTTT
57390443 AGGCTTTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
56 3 0.05
57 41 0.63
58 21 0.32
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (56 bp):
TCCCATATTGGTGCCTAAACTTTTTTAACATAGTTAGCCCCTAAATTGATAATTTT
Found at i:57407521 original size:68 final size:70
Alignment explanation
Indices: 57407415--57407650 Score: 266
Period size: 68 Copynumber: 3.4 Consensus size: 70
57407405 AACCCTATAT
* ** *
57407415 GTTGTTATAGTCGAATTATGGT-TTCAAACATTATGAACTCATGTTTAACATCTTAGCAGACTCT
1 GTTGTCATAGTCGAGCTATGGTCTT-ACACATTATGAACTCATGTTTAACATCTTAGCAGACTCT
57407479 CTA-T-
65 CTATTG
* * * *
57407483 GTTGCCATAGTCGAGCTATGGTCTTACACATTATGAACTCATATTTAACATCCTAGCGGACTCTC
1 GTTGTCATAGTCGAGCTATGGTCTTACACATTATGAACTCATGTTTAACATCTTAGCAGACTCTC
57407548 TATTG
66 TATTG
* * * ** * *
57407553 GTTGTCATAGCCGAGTTATGGTCTTACACACTAT-TCCTCATGTTTAACAT-TCTGGCAAACTCT
1 GTTGTCATAGTCGAGCTATGGTCTTACACATTATGAACTCATGTTTAACATCT-TAGCAGACTCT
57407616 CTATTG
65 CTATTG
* *
57407622 GTTGTCATAGTCGAGGTATGGTTTTACAC
1 GTTGTCATAGTCGAGCTATGGTCTTACAC
57407651 TTTAAACCTC
Statistics
Matches: 142, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
68 56 0.39
69 56 0.39
70 30 0.21
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (70 bp):
GTTGTCATAGTCGAGCTATGGTCTTACACATTATGAACTCATGTTTAACATCTTAGCAGACTCTC
TATTG
Found at i:57407616 original size:69 final size:70
Alignment explanation
Indices: 57407415--57407650 Score: 257
Period size: 69 Copynumber: 3.4 Consensus size: 70
57407405 AACCCTATAT
* ** * *
57407415 GTTGTTATAGTCGAATTATGGT-TTCAAACATTATGAACTCATGTTTAACA-TCTTAGCAGACTC
1 GTTGTCATAGTCGAGCTATGGTCTT-ACACACTATGAACTCATGTTTAACATTC-TAGCAGACTC
57407478 TCTA-T-
64 TCTATTG
* * * * *
57407483 GTTGCCATAGTCGAGCTATGGTCTTACACATTATGAACTCATATTTAACATCCTAGCGGACTCTC
1 GTTGTCATAGTCGAGCTATGGTCTTACACACTATGAACTCATGTTTAACATTCTAGCAGACTCTC
57407548 TATTG
66 TATTG
* * ** * *
57407553 GTTGTCATAGCCGAGTTATGGTCTTACACACTAT-TCCTCATGTTTAACATTCTGGCAAACTCTC
1 GTTGTCATAGTCGAGCTATGGTCTTACACACTATGAACTCATGTTTAACATTCTAGCAGACTCTC
57407617 TATTG
66 TATTG
* *
57407622 GTTGTCATAGTCGAGGTATGGTTTTACAC
1 GTTGTCATAGTCGAGCTATGGTCTTACAC
57407651 TTTAAACCTC
Statistics
Matches: 142, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
68 54 0.38
69 58 0.41
70 30 0.21
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (70 bp):
GTTGTCATAGTCGAGCTATGGTCTTACACACTATGAACTCATGTTTAACATTCTAGCAGACTCTC
TATTG
Found at i:57408189 original size:20 final size:21
Alignment explanation
Indices: 57408164--57408204 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57408154 GAGCGAAACT
*
57408164 GCCCTT-GATGTCATGACATA
1 GCCCTTCGATGTCACGACATA
*
57408184 GCCCTTCTATGTCACGACATA
1 GCCCTTCGATGTCACGACATA
57408205 CCCCCTGCGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (21 bp):
GCCCTTCGATGTCACGACATA
Found at i:57414214 original size:43 final size:43
Alignment explanation
Indices: 57414161--57414280 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 43
57414151 TTTTTTTATA
* * *
57414161 AGTGTTTTCATGTAAGACCACGTCTGGGACGTTGACATCGACTT
1 AGTGATTTCATGTAAGACCACGTCTGGGACGTTGACATC-AATC
* * *
57414205 A-TGATTTCATGTAAGACC-CTGTCCGGGACAG-CGGCATCAATC
1 AGTGATTTCATGTAAGACCAC-GTCTGGGAC-GTTGACATCAATC
*
57414247 AGTGATTACATGTAAGACCACGTCTGGGACGTTG
1 AGTGATTTCATGTAAGACCACGTCTGGGACGTTG
57414281 GCGTTGTATA
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
42 5 0.08
43 54 0.87
44 3 0.05
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (43 bp):
AGTGATTTCATGTAAGACCACGTCTGGGACGTTGACATCAATC
Found at i:57421530 original size:9 final size:9
Alignment explanation
Indices: 57421518--57421553 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
57421508 CAAAATATAT
57421518 AAAAAAACAA
1 AAAAAAAC-A
57421528 AAAAAAACA
1 AAAAAAACA
57421537 AAAAAAACA
1 AAAAAAACA
57421546 GAAAAAAA
1 -AAAAAAA
57421554 ACCTGGACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 10 0.40
10 15 0.60
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:57421555 original size:11 final size:10
Alignment explanation
Indices: 57421518--57421555 Score: 60
Period size: 9 Copynumber: 3.8 Consensus size: 10
57421508 CAAAATATAT
57421518 AAAAAAACAA
1 AAAAAAACAA
57421528 AAAAAAAC-A
1 AAAAAAACAA
57421537 AAAAAAACAGA
1 AAAAAAACA-A
57421548 AAAAAAAC
1 AAAAAAAC
57421556 CTGGACTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.35
10 8 0.31
11 9 0.35
ACGTcount: A:0.87, C:0.11, G:0.03, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:57421624 original size:27 final size:27
Alignment explanation
Indices: 57421584--57421661 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
57421574 TCCCTGGGTG
** *
57421584 AAGGGAACATTGTTGGTGGCACCAAAC
1 AAGGGAACCCTGTTGGCGGCACCAAAC
57421611 AAGGGAACCCTGTTGGCGGCACCAAAC
1 AAGGGAACCCTGTTGGCGGCACCAAAC
**
57421638 AAGGGTTCCCTGTTGGCGGCACCA
1 AAGGGAACCCTGTTGGCGGCACCA
57421662 CTCGTGTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.27, C:0.26, G:0.31, T:0.17
Consensus pattern (27 bp):
AAGGGAACCCTGTTGGCGGCACCAAAC
Found at i:57422099 original size:14 final size:14
Alignment explanation
Indices: 57422080--57422108 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
57422070 TAACTGAAAC
57422080 TAGAATAATTAAAT
1 TAGAATAATTAAAT
57422094 TAGAATAATTAAAT
1 TAGAATAATTAAAT
57422108 T
1 T
57422109 GATACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:57422954 original size:14 final size:14
Alignment explanation
Indices: 57422935--57422963 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
57422925 TTTTTGTATC
57422935 AATTTAATTATTCT
1 AATTTAATTATTCT
57422949 AATTTAATTATTCT
1 AATTTAATTATTCT
57422963 A
1 A
57422964 GTTTCAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:57423477 original size:12 final size:12
Alignment explanation
Indices: 57423458--57423503 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
57423448 AATCAATCCA
*
57423458 GTTTTTTTTTTCT
1 GTTTTGTTTTT-T
57423471 GTTTT-TTATTTT
1 GTTTTGTT-TTTT
57423483 -TTTTGTTTTTT
1 GTTTTGTTTTTT
57423494 GTTTTGTTTT
1 GTTTTGTTTT
57423504 GGATGTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.27
12 14 0.47
13 8 0.27
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (12 bp):
GTTTTGTTTTTT
Found at i:57423484 original size:16 final size:15
Alignment explanation
Indices: 57423459--57423498 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
57423449 ATCAATCCAG
57423459 TTTTTTTTTTCTGTT
1 TTTTTTTTTTCTGTT
*
57423474 TTTTATTTTTTTTGTT
1 TTTT-TTTTTTCTGTT
57423490 TTTTGTTTT
1 TTTT-TTTT
57423499 GTTTTGGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.03, C:0.03, G:0.07, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTCTGTT
Found at i:57428595 original size:62 final size:62
Alignment explanation
Indices: 57428525--57428657 Score: 257
Period size: 62 Copynumber: 2.1 Consensus size: 62
57428515 TCATAATTCA
*
57428525 ATCTTCAAATCTTAAATTTCAACTCAATTGTTCTTCAATTTATGGGCTTTACTCGTTCAAAT
1 ATCTTCAAATCTTAAATTTCAACTCAATTGTTCTTCAATTTATGGGCTTAACTCGTTCAAAT
57428587 ATCTTCAAATCTTAAATTTCAACTCAATTGTTCTTCAATTTATGGGCTTAACTCGTTCAAAT
1 ATCTTCAAATCTTAAATTTCAACTCAATTGTTCTTCAATTTATGGGCTTAACTCGTTCAAAT
57428649 ATCTTCAAA
1 ATCTTCAAA
57428658 ATAATCAGTC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 70 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.42
Consensus pattern (62 bp):
ATCTTCAAATCTTAAATTTCAACTCAATTGTTCTTCAATTTATGGGCTTAACTCGTTCAAAT
Found at i:57430461 original size:22 final size:23
Alignment explanation
Indices: 57430436--57430478 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
57430426 GATTTAGGCA
* *
57430436 CTATGTTTTTCTTT-CATTAATG
1 CTATGCTTCTCTTTGCATTAATG
57430458 CTATGCTTCTCTTTGCATTAA
1 CTATGCTTCTCTTTGCATTAA
57430479 CTATTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.53
Consensus pattern (23 bp):
CTATGCTTCTCTTTGCATTAATG
Found at i:57450999 original size:30 final size:31
Alignment explanation
Indices: 57450960--57451019 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
57450950 GGAGGTGTGA
* *
57450960 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTGTAGGGGAAAAG
* *
57450991 TGGG-AGGGAGTAAAAATTGTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTGTAGGGGAAAA
57451020 TAAAAGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.18
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTGTAGGGGAAAAG
Found at i:57458996 original size:29 final size:31
Alignment explanation
Indices: 57458942--57459004 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
57458932 AACCTCTATA
*
57458942 TTTTTATAATTTTTAAAGAATTAAAT-TAAT
1 TTTTTATAATTTTTAAAGAATGAAATATAAT
*
57458972 TTTTTATAA-TTTT-AGGAGATGAAATATAAT
1 TTTTTATAATTTTTAAAGA-ATGAAATATAAT
57459002 TTT
1 TTT
57459005 ATCTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.10
29 10 0.34
30 16 0.55
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTTTATAATTTTTAAAGAATGAAATATAAT
Found at i:57466060 original size:41 final size:43
Alignment explanation
Indices: 57465973--57466062 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 43
57465963 TTATGAGTAT
* *
57465973 TGAGC-TTCTATTTAACCCTTATGGGTTCCCGTTTAGCTTTTA
1 TGAGCTTTCTATTCAACCCTTATGGGTTCCCGTTTAGCTCTTA
*
57466015 TGAGCTTTC-ATTCAACCCTTATGGGTT-CTGTTTAGCTCTTA
1 TGAGCTTTCTATTCAACCCTTATGGGTTCCCGTTTAGCTCTTA
57466056 TGAGCTT
1 TGAGCTT
57466063 CTGTTCAGCC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
41 19 0.43
42 22 0.50
43 3 0.07
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (43 bp):
TGAGCTTTCTATTCAACCCTTATGGGTTCCCGTTTAGCTCTTA
Found at i:57467942 original size:45 final size:45
Alignment explanation
Indices: 57467892--57467980 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
57467882 AACAGATACT
* * *
57467892 CGGTGGATTTAGCACATAGCAACCACCTTATTAATCAATAATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTC
*
57467937 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGT
57467981 TCGATTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTC
Found at i:57468054 original size:51 final size:50
Alignment explanation
Indices: 57467982--57468177 Score: 223
Period size: 51 Copynumber: 3.9 Consensus size: 50
57467972 CAATGATGTT
* * * *
57467982 CGATTCACATAGTAGCTTGCACATATTACTACACATGTGACCATTACCATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * *
57468033 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * *
57468084 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
* *
57468134 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
57468178 CACTTTCACT
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 41 0.34
51 76 0.63
52 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (50 bp):
CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:57468165 original size:101 final size:101
Alignment explanation
Indices: 57467989--57468173 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
57467979 GTTCGATTCA
* * *
57467989 CATAGTAGCTTGCACATATTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
57468054 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* *
57468091 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
57468155 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
57468174 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 4 0.05
101 41 0.53
102 32 0.42
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:57473306 original size:20 final size:19
Alignment explanation
Indices: 57473281--57473397 Score: 60
Period size: 20 Copynumber: 6.0 Consensus size: 19
57473271 TTTATTAAAT
*
57473281 TATTAAAATTTAATAAAAAA
1 TATTAAAAATT-ATAAAAAA
*
57473301 TATTAAAAATTATAAAAATCG
1 TATTAAAAATTATAAAAA--A
** *
57473322 TAAAAAAAATTATAAAATA
1 TATTAAAAATTATAAAAAA
*
57473341 TA-TAGAAA-TATAGAAAAA
1 TATTAAAAATTATA-AAAAA
* * **
57473359 -ATTATAAAGTTTTATAAAGT
1 TATTA-AAAATTATA-AAAAA
*
57473379 TGTTAAAAATTATAAAAAA
1 TATTAAAAATTATAAAAAA
57473398 AGTAAAGAAA
Statistics
Matches: 70, Mismatches: 20, Indels: 15
0.67 0.19 0.14
Matches are distributed among these distances:
17 5 0.07
18 10 0.14
19 14 0.20
20 23 0.33
21 18 0.26
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (19 bp):
TATTAAAAATTATAAAAAA
Done.