Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 108 of 207
Found at i:32469753 original size:117 final size:117
Alignment explanation
Indices: 32469545--32469766 Score: 338
Period size: 117 Copynumber: 1.9 Consensus size: 117
32469535 AAAGCTTTCT
*
32469545 ATTTCTACATCACCACTAACATTTCAAGTGCTAAATAACATAGAAATAAGCATATTTATACAAAT
1 ATTTCTACATCACCACTAACATTTCAAGTACTAAATAACATAGAAATAAGCATATTTATACAAAT
* *
32469610 TAATGTCCTAAGTACATGCCACAATATATAAATACACAAACTCTAGCATTCA
66 TAATGACCTAAGTACATGCCAAAATATATAAATACACAAACTCTAGCATTCA
* * * * *
32469662 ATTTCTACATCACCACTAACATTTTAGGTACTAACTAACATATG-AATAAGCTTATTTATACAAG
1 ATTTCTACATCACCACTAACATTTCAAGTACTAAATAACATA-GAAATAAGCATATTTATACAAA
* *
32469726 TTATTGACCTAAGTACATGCCAAAATATATAAATATACAAA
65 TTAATGACCTAAGTACATGCCAAAATATATAAATACACAAA
32469767 TTCCATACTC
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
117 93 0.99
118 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (117 bp):
ATTTCTACATCACCACTAACATTTCAAGTACTAAATAACATAGAAATAAGCATATTTATACAAAT
TAATGACCTAAGTACATGCCAAAATATATAAATACACAAACTCTAGCATTCA
Found at i:32470776 original size:40 final size:40
Alignment explanation
Indices: 32470731--32470834 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
32470721 GTTTGGACAA
*
32470731 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTACA-C
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTAT-CAGC
* *
32470771 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTATCAGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTATCAGC
*
32470811 AAAGCGCCGCTAAAAAT-GAGCATT
1 AAAACGCCGCTAAAAATCGAGCATT
32470835 TGTAAAAACG
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
39 9 0.16
40 49 0.84
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTATCAGC
Found at i:32470948 original size:41 final size:41
Alignment explanation
Indices: 32470889--32471084 Score: 302
Period size: 41 Copynumber: 4.8 Consensus size: 41
32470879 GGACCTTTCG
* **
32470889 GGGCTTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
* *
32470930 GGGCTTTAGCGGCATTTTTGGAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
* *
32470971 GGGCTTTAGCGGCATTTTTGGAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
32471012 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
* **
32471053 AGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
32471085 AAAAACATTT
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 145 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
Found at i:32471757 original size:21 final size:21
Alignment explanation
Indices: 32471722--32471780 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
32471712 TATATTAAAT
*
32471722 AAGGTTTATGGGTTAGTAGTTA
1 AAGG-TTAAGGGTTAGTAGTTA
**
32471744 AAGGTTAAGGGTTAGGGGTTA
1 AAGGTTAAGGGTTAGTAGTTA
* *
32471765 GAGGTTAAGAGTTAGT
1 AAGGTTAAGGGTTAGT
32471781 GATTTAGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.34
Consensus pattern (21 bp):
AAGGTTAAGGGTTAGTAGTTA
Found at i:32472258 original size:4 final size:4
Alignment explanation
Indices: 32472249--32472273 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
32472239 AAGAACATTG
32472249 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
32472274 AGTAACAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:32477043 original size:27 final size:26
Alignment explanation
Indices: 32477013--32477070 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
32477003 AATTTTGAGG
*
32477013 TTTATAATTTATAATTTTTATTAATT
1 TTTATAATTTATAACTTTTATTAATT
** * *
32477039 ATTTATGTTTTCTCACTTTTATTAATT
1 -TTTATAATTTATAACTTTTATTAATT
32477066 TTTAT
1 TTTAT
32477071 TATTATTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTATAATTTATAACTTTTATTAATT
Found at i:32477357 original size:43 final size:43
Alignment explanation
Indices: 32477257--32477588 Score: 423
Period size: 43 Copynumber: 7.7 Consensus size: 43
32477247 GATATGTTTT
* * * * * *
32477257 TAGCGGCGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* * * *
32477299 TAGCAGCATTTGTGGGAAAAGCGCCGCTAAAGGTTATGGCCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
** * *
32477342 TAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGATCATGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
*
32477385 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGCCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* * *
32477428 TAGCGGCGATTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* * * *
32477471 TAGCGGCGTTTGTGAGAAGAGCGCCGCTAAAGCTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
**
32477514 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTGTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
32477557 TAGCGGCGTTTGTGGGAAAAGTGCCGCAAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
32477589 TTAGCGACGC
Statistics
Matches: 250, Mismatches: 39, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
42 28 0.11
43 222 0.89
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
Found at i:32481256 original size:39 final size:39
Alignment explanation
Indices: 32481202--32481281 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
32481192 CTATAACTAT
32481202 TACTAAAATTCCTATTAGAAACCCAATTTTGTAACAAAA
1 TACTAAAATTCCTATTAGAAACCCAATTTTGTAACAAAA
* *
32481241 TACTAAAATTCCTATTGGAAACCCAATTTTGTAACCAAA
1 TACTAAAATTCCTATTAGAAACCCAATTTTGTAACAAAA
32481280 TA
1 TA
32481282 TTTCGTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (39 bp):
TACTAAAATTCCTATTAGAAACCCAATTTTGTAACAAAA
Found at i:32481421 original size:21 final size:22
Alignment explanation
Indices: 32481386--32481436 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
32481376 ATATATTTTT
*
32481386 TAAATAAAAATTATAA-AAATCA
1 TAAA-AAAAACTATAAGAAATCA
32481408 TAAAAAAAACTATAAGTAAATCA
1 TAAAAAAAACTATAAG-AAATCA
*
32481431 CAAAAA
1 TAAAAA
32481437 TTATAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 4 0.16
23 11 0.44
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.22
Consensus pattern (22 bp):
TAAAAAAAACTATAAGAAATCA
Found at i:32481549 original size:38 final size:39
Alignment explanation
Indices: 32481490--32481564 Score: 91
Period size: 38 Copynumber: 1.9 Consensus size: 39
32481480 TTTTCAAAAC
*
32481490 ATTTGGTTACAAAGTATGGTTT-CAATAAAAATTTTAAT
1 ATTTGGTTACAAAATATGGTTTCCAATAAAAATTTTAAT
* * *
32481528 ATTTGGTTATAAAAT-TGGGTTTCCAATAGATATTTTA
1 ATTTGGTTACAAAATAT-GGTTTCCAATAAAAATTTTA
32481565 CTAATAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
37 1 0.03
38 18 0.58
39 12 0.39
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (39 bp):
ATTTGGTTACAAAATATGGTTTCCAATAAAAATTTTAAT
Found at i:32481831 original size:18 final size:18
Alignment explanation
Indices: 32481808--32481847 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
32481798 CAAAAAAATA
32481808 TTTTATAATGT-TTATGAT
1 TTTTATAAT-TATTATGAT
32481826 TTTTATAATTATTATGAT
1 TTTTATAATTATTATGAT
32481844 TTTT
1 TTTT
32481848 CAACATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTTATAATTATTATGAT
Found at i:32493647 original size:22 final size:23
Alignment explanation
Indices: 32493610--32493653 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
32493600 GGGGGTAAGA
*
32493610 CAAAATTTGCATGAATTTTAAAG
1 CAAAATTTACATGAATTTTAAAG
32493633 CAAAA-TTACATGAATTTTAAA
1 CAAAATTTACATGAATTTTAAA
32493654 TTTTTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (23 bp):
CAAAATTTACATGAATTTTAAAG
Found at i:32493748 original size:12 final size:12
Alignment explanation
Indices: 32493731--32493772 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
32493721 AAAAGTTGTT
32493731 CATAAGTTTACA
1 CATAAGTTTACA
*
32493743 CATAAGTTTTCA
1 CATAAGTTTACA
32493755 CATAAGTTTACA
1 CATAAGTTTACA
32493767 CATAAG
1 CATAAG
32493773 CATGATTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (12 bp):
CATAAGTTTACA
Found at i:32499920 original size:31 final size:31
Alignment explanation
Indices: 32499877--32499936 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
32499867 TGAGAAAGCA
*
32499877 TACACTCGGAACTTAGAGTAGAGG-TTTAGCT
1 TACACTCAGAACTTAGAGTAG-GGATTTAGCT
32499908 TACACTCAGAACTTAGAGTAGGGATTTAG
1 TACACTCAGAACTTAGAGTAGGGATTTAG
32499937 GCTACTCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (31 bp):
TACACTCAGAACTTAGAGTAGGGATTTAGCT
Found at i:32504462 original size:150 final size:150
Alignment explanation
Indices: 32504186--32504482 Score: 549
Period size: 150 Copynumber: 2.0 Consensus size: 150
32504176 TACTCATTTC
32504186 GTAATTCAACATTTACAGATATATAGATATAATTAAGATATTAAAGTATTAATTAAATTATTTAA
1 GTAATTCAACATTTACAGATATATAGATATAATTAAGATATTAAAGTATTAATTAAATTATTTAA
* *
32504251 AGTAAATACATAGAGTTCGATTTCAAGGACTACAAACTTACCTTAATCGAAACGGTTGTAAAATA
66 AGTAAATACATAGAGTTCGATTTCAAGGACTAAAAACTTACCTTAATCGAAACGGTCGTAAAATA
32504316 ACGTCGGTAACTAATCCAAA
131 ACGTCGGTAACTAATCCAAA
*
32504336 GTAATTCAACATTTACATATATATAGATATAATTAAGATATTAAAGTATTAATTAAATTATTTAA
1 GTAATTCAACATTTACAGATATATAGATATAATTAAGATATTAAAGTATTAATTAAATTATTTAA
*
32504401 AGTAAATACATAGAGTTCGATTTTAAGGACTAAAAACTTACCTTAATCGAAACGGTCGTAAAATA
66 AGTAAATACATAGAGTTCGATTTCAAGGACTAAAAACTTACCTTAATCGAAACGGTCGTAAAATA
*
32504466 ACGTTGGTAACTAATCC
131 ACGTCGGTAACTAATCC
32504483 GAAACTTTTG
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 142 1.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (150 bp):
GTAATTCAACATTTACAGATATATAGATATAATTAAGATATTAAAGTATTAATTAAATTATTTAA
AGTAAATACATAGAGTTCGATTTCAAGGACTAAAAACTTACCTTAATCGAAACGGTCGTAAAATA
ACGTCGGTAACTAATCCAAA
Found at i:32508603 original size:14 final size:15
Alignment explanation
Indices: 32508573--32508607 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
32508563 TTTGGGCTCC
*
32508573 TTCATACTTGTTTTT
1 TTCAAACTTGTTTTT
32508588 TTCAAACTTGTTTTT
1 TTCAAACTTGTTTTT
32508603 TTCAA
1 TTCAA
32508608 GCTTACCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.14, G:0.06, T:0.60
Consensus pattern (15 bp):
TTCAAACTTGTTTTT
Found at i:32509076 original size:6 final size:6
Alignment explanation
Indices: 32509067--32509134 Score: 68
Period size: 6 Copynumber: 11.7 Consensus size: 6
32509057 AACAAAAAGA
* ** *
32509067 AAAATC AAAATC AAAGTC AAAAAG AAAA-- AAAATA AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
* *
32509113 AAAATC AAAATG AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAA
32509135 AGAGAAAAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
4 4 0.07
6 50 0.93
ACGTcount: A:0.72, C:0.09, G:0.06, T:0.13
Consensus pattern (6 bp):
AAAATC
Found at i:32509098 original size:40 final size:40
Alignment explanation
Indices: 32509045--32509135 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
32509035 ACCCAATTCA
* *
32509045 AAAAAGAAGAAAAACAAAAAGAAAAATCAAAATCAAAGTC
1 AAAAAGAAAAAAAACAAAAAGAAAAATCAAAATCAAAATC
* ** *
32509085 AAAAAGAAAAAAAATAAAAATCAAAATCAAAATCAAAATG
1 AAAAAGAAAAAAAACAAAAAGAAAAATCAAAATCAAAATC
*
32509125 AAAATGAAAAA
1 AAAAAGAAAAA
32509136 GAGAAAAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.75, C:0.08, G:0.08, T:0.10
Consensus pattern (40 bp):
AAAAAGAAAAAAAACAAAAAGAAAAATCAAAATCAAAATC
Found at i:32509104 original size:34 final size:34
Alignment explanation
Indices: 32509060--32509128 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
32509050 GAAGAAAAAC
*
32509060 AAAAAGAAAAATCAAAATCAAAGTCAAAAAGAAA
1 AAAAAGAAAAATCAAAATCAAAATCAAAAAGAAA
* *
32509094 AAAAATAAAAATCAAAATCAAAATCAAAATGAAA
1 AAAAAGAAAAATCAAAATCAAAATCAAAAAGAAA
32509128 A
1 A
32509129 TGAAAAAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.12
Consensus pattern (34 bp):
AAAAAGAAAAATCAAAATCAAAATCAAAAAGAAA
Found at i:32509122 original size:28 final size:28
Alignment explanation
Indices: 32509066--32509122 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
32509056 AAACAAAAAG
* * *
32509066 AAAAATCAAAATCAAAGTCAAAAAGAAA
1 AAAAATAAAAATCAAAATCAAAAACAAA
*
32509094 AAAAATAAAAATCAAAATCAAAATCAAA
1 AAAAATAAAAATCAAAATCAAAAACAAA
32509122 A
1 A
32509123 TGAAAATGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.74, C:0.11, G:0.04, T:0.12
Consensus pattern (28 bp):
AAAAATAAAAATCAAAATCAAAAACAAA
Found at i:32510931 original size:42 final size:42
Alignment explanation
Indices: 32510883--32511018 Score: 107
Period size: 42 Copynumber: 3.2 Consensus size: 42
32510873 AAAACAAAGC
32510883 CTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGAAGAAAT
1 CTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGAAGAAAT
** * * * * * * *
32510925 CTTGCCTTCC-T-GCGTTAACAGCGAAGC-AGATAAAAAACAAAGC
1 CTTGCC-TCCATCG-GTT-GTAGTGGAGCTGGTTAAAGAAGAAA-T
*
32510968 CTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGAT
1 CTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGA-AG-AAAT
32511012 CTTGCCT
1 CTTGCCT
32511019 TCCTGCATTG
Statistics
Matches: 66, Mismatches: 19, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
41 1 0.02
42 29 0.44
43 25 0.38
44 9 0.14
45 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (42 bp):
CTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGAAGAAAT
Found at i:32511069 original size:87 final size:87
Alignment explanation
Indices: 32510740--32511628 Score: 1403
Period size: 87 Copynumber: 10.3 Consensus size: 87
32510730 AATAGATTAG
* * *
32510740 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAAGAAAGTCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
* *
32510805 CATCGGTTGCAGTGGAGCTAGT
66 CATCGGTTGTAGTGGAGCTGGT
*
32510827 TAAAGA-AGCAGATCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
32510891 CATCGGTTGTAGTGGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
* * **
32510913 TAAAGA-AG-AAATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATAAAAAACAAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
32510976 CATCGGTTGTAGTGGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
* * *
32510998 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAATAAAGTCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
** *
32511063 CATCGGTTACAGTAGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
* * *
32511085 TAAAGA-AGCAGATCTTGCCGTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCATTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
*
32511149 CATCGGTTGTAGTAGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
*
32511171 TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
* *
32511236 CATCGGTTATAGTTGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
* * *
32511258 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAAACAAAGTCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
*
32511323 CATCGGTTGTAGTGGAGCTAGT
66 CATCGGTTGTAGTGGAGCTGGT
* *
32511345 TAAAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCTTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
32511409 CATCGGTTGTAGTGGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
* *
32511431 TGAAGATAGCAGATCTTGCCTTCCTGCATTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
32511496 CATCGGTTGTAGTGGAGCTGGT
66 CATCGGTTGTAGTGGAGCTGGT
* * *
32511518 TAAAGATAACAGAT-TTTCCTTCCTGCATTAACAGCGAAACAGATCGAAAACAAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
* *
32511582 CATCGGTTGCAGTGGAGCTGTT
66 CATCGGTTGTAGTGGAGCTGGT
*
32511604 TAAAGACAGCAGATCTTGCCTTCCT
1 TAAAGATAGCAGATCTTGCCTTCCT
32511629 AAGCACTAGC
Statistics
Matches: 735, Mismatches: 62, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
85 78 0.11
86 319 0.43
87 338 0.46
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (87 bp):
TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
CATCGGTTGTAGTGGAGCTGGT
Found at i:32511170 original size:173 final size:173
Alignment explanation
Indices: 32510740--32511628 Score: 1385
Period size: 173 Copynumber: 5.1 Consensus size: 173
32510730 AATAGATTAG
* *
32510740 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAAGAAAGTCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG-CTTGCCTC
* * *
32510805 CATCGGTTGCAGTGGAGCTAGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACAGTGAAGCAG
65 CATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAG
32510869 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
130 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
* * **
32510913 TAAAGA-AG-AAATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATAAAAAACAAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG-CTTGCCTC
*
32510976 CATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAG
65 CATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAG
* * ** *
32511041 ATCGAAAATAAAGTCTTGCCTCCATCGGTTACAGTAGAGCTGGT
130 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
* *
32511085 TAAAGA-AGCAGATCTTGCCGTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCATTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGC-TTGCCTC
* *
32511149 CATCGGTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAG
65 CATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAG
* *
32511214 ATCGAAAACAAAGCCTTGCCTCCATCGGTTATAGTTGAGCTGGT
130 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
* *
32511258 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAAACAAAGTCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG-CTTGCCTC
* *
32511323 CATCGGTTGTAGTGGAGCTAGTTAAAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAG
65 CATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAG
*
32511387 ATCGAAAACAAAGCTTTGCCTCCATCGGTTGTAGTGGAGCTGGT
130 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
* *
32511431 TGAAGATAGCAGATCTTGCCTTCCTGCATTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG-CTTGCCTC
* * *
32511496 CATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGAT-TTTCCTTCCTGCATTAACAGCGAAACAG
65 CATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAG
* *
32511560 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGTT
130 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
*
32511604 TAAAGACAGCAGATCTTGCCTTCCT
1 TAAAGATAGCAGATCTTGCCTTCCT
32511629 AAGCACTAGC
Statistics
Matches: 657, Mismatches: 53, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
171 74 0.11
172 84 0.13
173 415 0.63
174 83 0.13
175 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (173 bp):
TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCTTGCCTCC
ATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
TCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
Found at i:32511306 original size:260 final size:260
Alignment explanation
Indices: 32510740--32511628 Score: 1498
Period size: 260 Copynumber: 3.4 Consensus size: 260
32510730 AATAGATTAG
*
32510740 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAAGAAAGTCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTC
* *
32510805 CATCGGTTGCAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGTGAAGCAGA
66 CATCGGTTGCAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGA
* * *
32510870 TCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGA-AG-AAATCTTGCCTT
131 TCGAAAACAAAGCATTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTT
* **
32510933 CCTGCGTTAACAGCGAAGCAGATAAAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
196 CCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
*
32510998 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAATAAAGTCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTC
* * * *
32511063 CATCGGTTACAGTAGAGCTGGTTAAAGAAGCAGATCTTGCCGTCCTGCGTTAACAGCGAAGCAGA
66 CATCGGTTGCAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGA
*
32511128 TCGAAAACAAAGCATTGCCTCCATCGGTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTT
131 TCGAAAACAAAGCATTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTT
* *
32511193 CCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTATAGTTGAGCTGGT
196 CCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
*
32511258 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAAACAAAGTCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTC
*
32511323 CATCGGTTGTAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGA
66 CATCGGTTGCAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGA
*
32511388 TCGAAAACAAAGCTTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTT
131 TCGAAAACAAAGCATTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTT
*
32511453 CCTGCATTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
196 CCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
* * * * *
32511518 TAAAGATAACAGAT-TTTCCTTCCTGCATTAACAGCGAAACAGATCGAAAACAAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTC
32511582 CATCGGTTGCAGTGGAGCT-GTTTAAAGACAGCAGATCTTGCCTTCCT
66 CATCGGTTGCAGTGGAGCTAG-TTAAAGA-AGCAGATCTTGCCTTCCT
32511629 AAGCACTAGC
Statistics
Matches: 592, Mismatches: 35, Indels: 6
0.94 0.06 0.01
Matches are distributed among these distances:
258 170 0.29
259 72 0.12
260 350 0.59
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (260 bp):
TAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTC
CATCGGTTGCAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGA
TCGAAAACAAAGCATTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTT
CCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGT
Found at i:32515661 original size:19 final size:19
Alignment explanation
Indices: 32515639--32515675 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32515629 ATATAAACCT
*
32515639 ATAATTAACAAATAAATAC
1 ATAAATAACAAATAAATAC
*
32515658 ATAAATAATAAATAAATA
1 ATAAATAACAAATAAATA
32515676 TTCACTTGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
ATAAATAACAAATAAATAC
Found at i:32528519 original size:20 final size:20
Alignment explanation
Indices: 32528473--32528522 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
32528463 TATCATGGTC
32528473 TTTGCTT-CTTCTTTACTTA
1 TTTGCTTACTTCTTTACTTA
* *
32528492 -CTGTCTTACTTGTTTACTTA
1 TTTG-CTTACTTCTTTACTTA
32528512 TTTGCTTACTT
1 TTTGCTTACTT
32528523 AAATAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 18 0.72
21 2 0.08
ACGTcount: A:0.12, C:0.20, G:0.08, T:0.60
Consensus pattern (20 bp):
TTTGCTTACTTCTTTACTTA
Found at i:32528803 original size:50 final size:50
Alignment explanation
Indices: 32528725--32528870 Score: 204
Period size: 50 Copynumber: 2.9 Consensus size: 50
32528715 GATAATAAAA
* **
32528725 TGCCAAAGCCATGTCCCAA-ACATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGT-CCAAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
32528775 TGCCCATGCCATGTCCAAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCAAGACATGGTCTTACATGGGACCTCTCATATCGG
*
32528825 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAACGCCATGTCCAAGACATGGTCTTACATGGGACCTCTCATA
32528871 ACCTCAATAA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 4 0.05
50 80 0.95
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCAAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:32528902 original size:56 final size:56
Alignment explanation
Indices: 32528780--32528978 Score: 257
Period size: 56 Copynumber: 3.7 Consensus size: 56
32528770 ATCGGTGCCC
* * ** *
32528780 ATGCCATGTCCAAGACATGGTCTTACAGGGGACCTCTCAT---CTC---GGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATTCCA
*
32528830 ACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATTCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATTCCA
* ** *
32528886 ATTCCATGTCTTAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATTCGA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATTCCA
*
32528942 ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
32528979 TCCTCTTAAT
Statistics
Matches: 128, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
50 37 0.29
53 3 0.02
56 88 0.69
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (56 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATTCCA
Found at i:32531999 original size:21 final size:21
Alignment explanation
Indices: 32531975--32532014 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
32531965 AACTTGAAAA
32531975 CATAA-TATAAAAATAGAGTGT
1 CATAACTA-AAAAATAGAGTGT
32531996 CATAACTAAAAAATAGAGT
1 CATAACTAAAAAATAGAGT
32532015 TTCAAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (21 bp):
CATAACTAAAAAATAGAGTGT
Found at i:32538603 original size:49 final size:50
Alignment explanation
Indices: 32538480--32538649 Score: 200
Period size: 50 Copynumber: 3.4 Consensus size: 50
32538470 TATCCCAAAT
** * * *
32538480 ATGGTCTTACATGGGAGTTCTCATAC-AGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCAT-CTCGGTGCCAACGCCATGTCCCAGAC
* ** *
32538530 ATGGTTTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCTC-GAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * *
32538579 ATGGTCTTACATGGGACCTATCATCTCGATGACAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
32538629 ATGGTCTTACATGGGATCTCT
1 ATGGTCTTACATGGGACCTCT
32538650 TTACCCAAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 43 0.43
50 57 0.57
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:32543030 original size:583 final size:585
Alignment explanation
Indices: 32541916--32543091 Score: 2158
Period size: 583 Copynumber: 2.0 Consensus size: 585
32541906 TGAATTCCAT
* *
32541916 TCTAGTATAGCCTAATTTTTTTTAGGATCTATCTTAATCCCATCTAGGGAGATGACATGGCCAAA
1 TCTAGCATAGCCTAAATTTTTTTAGGATCTATCTTAATCCCATCTAGGGAGATGACATGGCCAAA
*
32541981 AAAGTGAACATCCTTCAAGCAAAACTTACTATTGCTAAATTTGGTGTACAATTTGTTTTTCTCGA
66 AAAGTGAACATCCTTCAAGCAAAACTCACTATTGCTAAATTTGGTGTACAATTTGTTTTTCTCGA
*
32542046 AGAACATTTAAAATTATCCGTAAGTGTTCCTCGTGCTCTGCCTCACTCTTCAAGTAAATCAAAAT
131 AGAACATTTAAAATTATCCGTAAGTGTTCCTCGTGCTCCGCCTCACTCTTCAAGTAAATCAAAAT
* *
32542111 ATTATCAATGAAGATGAAAACACATCGATCGAGGTAGGGTTGGAATACTCTATTCATCAAATCTA
196 ATTATCAATGAAGACGAAAACACATCGATAGAGGTAGGGTTGGAATACTCTATTCATCAAATCTA
*
32542176 TGAACACTGCTAGCGTATTAGTCCAGCCAAAAGGCGTCCTAGAAATTCATAATGCCCGTAATGTG
261 TGAACACTGCTAGCGTATTAGTCCAGCCAAAAGGAGTCCTAGAAATTCATAATGCCCGTAATGTG
* *
32542241 TGTGAAATGCAATCTTAGGAATATTATCCCCTTAGATCTTAACTTGGTAATACCTCGACTATAGA
326 TGTGAAATGCAATCTTAGAAATATTATCCCCTTAGATCTTAACTTGATAATACCTCGACTATAGA
*
32542306 TCAATCTTTGAGAACACTCTGGCTCTACTCAGTTGATCAACCAAGTCCTCAATCCTAGGCAACAG
391 TCAATCTTTGAGAACACTCTGGCTCTACTCAGTTGATCAACCAAGTCCTCAATCCTAGGCAAAAG
*
32542371 ATACTTATTCTTAATGGTAACCTTGTTCAGCTGCCTATAATCAATACACAATCGGAGGGTCTCAT
456 ATACTTATTCTTAATGGTAACCTTGTTCAGCTGCCTATAATCAATACACAATCAGAGGGTCTCAT
* *
32542436 CTTTTTTCTTAAAAGATAATATTGGCGTACCCCAAGGCGAAACACTTGGTCTAATGAACCCCTTA
521 CCTTTTTCTTAAAAAATAATATTGGCGTACCCCAAGGCGAAACACTTGGTCTAATGAACCCCTTA
32542501 TCTAGCATAGCCTAAATTTTTTTAGGATCTATCTTAATCCCATCTAGGGAGATGACATGGCCAAA
1 TCTAGCATAGCCTAAATTTTTTTAGGATCTATCTTAATCCCATCTAGGGAGATGACATGGCCAAA
* *
32542566 AAGGTGAACATCCTTCAAGCAAAACTCACTATTGCTAAATTTGGTGTACAGTTTG-TTTTCTCGA
66 AAAGTGAACATCCTTCAAGCAAAACTCACTATTGCTAAATTTGGTGTACAATTTGTTTTTCTCGA
32542630 AGAACATTT-AAATTATCCGTAAGTGTTCCTCGTGCTCCGCCTCACTCTTCAAGTAAATCAAAAT
131 AGAACATTTAAAATTATCCGTAAGTGTTCCTCGTGCTCCGCCTCACTCTTCAAGTAAATCAAAAT
32542694 ATTATCAATGAAGACGAAAACACATCGATAGAGGTAGGGTTGGAATACTCTATTCATCAAATCTA
196 ATTATCAATGAAGACGAAAACACATCGATAGAGGTAGGGTTGGAATACTCTATTCATCAAATCTA
*
32542759 TGAACACTGCTAGCGTATTAGTCCAGCCAAAATGAGTCCTAGAAATTCATAATGCCCGTAATGTG
261 TGAACACTGCTAGCGTATTAGTCCAGCCAAAAGGAGTCCTAGAAATTCATAATGCCCGTAATGTG
*
32542824 TGTGAAATGCACTCTTAGAAATATTATCCCCTTAGATCTTAACTTGATAATACCTCGACTATAGA
326 TGTGAAATGCAATCTTAGAAATATTATCCCCTTAGATCTTAACTTGATAATACCTCGACTATAGA
*
32542889 TCAATCTTTGAGAACACTCTGGCTCTACTTAGTTGATCAACCAAGTCCTCAATCCTAGGCAAAAG
391 TCAATCTTTGAGAACACTCTGGCTCTACTCAGTTGATCAACCAAGTCCTCAATCCTAGGCAAAAG
* *
32542954 ATACTTATTCTTAATGGTCACCTTGTTCAGTTGCCTATAATCAATACACAATCAGAGGGTCTCAT
456 ATACTTATTCTTAATGGTAACCTTGTTCAGCTGCCTATAATCAATACACAATCAGAGGGTCTCAT
32543019 CCTTTTTCTTAAAAAATAATATTGGCGTACCCCAAGGCGAAACACTTGGTCTAATGAACCCCTTA
521 CCTTTTTCTTAAAAAATAATATTGGCGTACCCCAAGGCGAAACACTTGGTCTAATGAACCCCTTA
32543084 TCTAGCAT
1 TCTAGCAT
32543092 TTTTTGCAAC
Statistics
Matches: 571, Mismatches: 20, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
583 438 0.77
584 18 0.03
585 115 0.20
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (585 bp):
TCTAGCATAGCCTAAATTTTTTTAGGATCTATCTTAATCCCATCTAGGGAGATGACATGGCCAAA
AAAGTGAACATCCTTCAAGCAAAACTCACTATTGCTAAATTTGGTGTACAATTTGTTTTTCTCGA
AGAACATTTAAAATTATCCGTAAGTGTTCCTCGTGCTCCGCCTCACTCTTCAAGTAAATCAAAAT
ATTATCAATGAAGACGAAAACACATCGATAGAGGTAGGGTTGGAATACTCTATTCATCAAATCTA
TGAACACTGCTAGCGTATTAGTCCAGCCAAAAGGAGTCCTAGAAATTCATAATGCCCGTAATGTG
TGTGAAATGCAATCTTAGAAATATTATCCCCTTAGATCTTAACTTGATAATACCTCGACTATAGA
TCAATCTTTGAGAACACTCTGGCTCTACTCAGTTGATCAACCAAGTCCTCAATCCTAGGCAAAAG
ATACTTATTCTTAATGGTAACCTTGTTCAGCTGCCTATAATCAATACACAATCAGAGGGTCTCAT
CCTTTTTCTTAAAAAATAATATTGGCGTACCCCAAGGCGAAACACTTGGTCTAATGAACCCCTTA
Found at i:32547217 original size:30 final size:30
Alignment explanation
Indices: 32547181--32547241 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
32547171 CATCCAAGAC
32547181 AATCATCACGGTCGAGTGGAATATGAATTT
1 AATCATCACGGTCGAGTGGAATATGAATTT
32547211 AATCATCACGGTCGAGTGGAATATGAATTT
1 AATCATCACGGTCGAGTGGAATATGAATTT
32547241 A
1 A
32547242 CTTACCACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (30 bp):
AATCATCACGGTCGAGTGGAATATGAATTT
Found at i:32552981 original size:26 final size:25
Alignment explanation
Indices: 32552951--32553092 Score: 85
Period size: 26 Copynumber: 5.6 Consensus size: 25
32552941 AATTTAAAGC
32552951 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATGTAAAA-AAATTAAAAT
* * *
32552977 GAATAATAT-TCAAAGCAATTTAAAAAT
1 AAATAATATGT-AAA-AAAATT-AAAAT
* * * *
32553004 AAATAACATATAAAATAATT--TA-
1 AAATAATATGTAAAAAAATTAAAAT
**
32553026 AAATAATATGTAAAAAGTTTAAAAT
1 AAATAATATGTAAAAAAATTAAAAT
* *
32553051 AAATAATATGTCAAAAGAAATCTTAAGT
1 AAATAATATGT-AAAA-AAAT-TAAAAT
*
32553079 GAATAATATGTAAA
1 AAATAATATGTAAA
32553093 CAATTTTATT
Statistics
Matches: 86, Mismatches: 20, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
22 15 0.17
23 1 0.01
24 1 0.01
25 12 0.14
26 22 0.26
27 20 0.23
28 15 0.17
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (25 bp):
AAATAATATGTAAAAAAATTAAAAT
Found at i:32553046 original size:21 final size:22
Alignment explanation
Indices: 32553004--32553052 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
32552994 ATTTAAAAAT
32553004 AAATAACATATAAAATAATTTA
1 AAATAACATATAAAATAATTTA
* * *
32553026 AAATAATATGTAAAA-AGTTTA
1 AAATAACATATAAAATAATTTA
32553047 AAATAA
1 AAATAA
32553053 ATAATATGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (22 bp):
AAATAACATATAAAATAATTTA
Found at i:32553259 original size:26 final size:26
Alignment explanation
Indices: 32553221--32553288 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
32553211 TTAACATAGT
**
32553221 TTAAAATGCATAATATAT-GAAAAAAC
1 TTAAAATAAATAATATATAG-AAAAAC
* * *
32553247 TTAAAATATATAATA-ATAGAATAAT
1 TTAAAATAAATAATATATAGAAAAAC
32553272 TTAAAATAAATAATATA
1 TTAAAATAAATAATATA
32553289 AATTTTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.32
Consensus pattern (26 bp):
TTAAAATAAATAATATATAGAAAAAC
Found at i:32553295 original size:21 final size:22
Alignment explanation
Indices: 32553247--32553312 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 22
32553237 ATGAAAAAAC
*
32553247 TTAAAATATATAATAATAGAATAAT
1 TTAAAATAAATAAT-ATA-AAT-AT
32553272 TTAAAATAAATAATATAAAT-T
1 TTAAAATAAATAATATAAATAT
32553293 TTAAAATAAATAA-ATAAATA
1 TTAAAATAAATAATATAAATA
32553313 AATTGCAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 6 0.15
21 14 0.36
23 3 0.08
24 3 0.08
25 13 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TTAAAATAAATAATATAAATAT
Found at i:32553323 original size:25 final size:25
Alignment explanation
Indices: 32553275--32553327 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
32553265 GAATAATTTA
**
32553275 AAATAAATAATATAAATTTTAAAAT
1 AAATAAATAATATAAATTCAAAAAT
32553300 AAATAAATAA-ATAAATTGCAAAAAT
1 AAATAAATAATATAAATT-CAAAAAT
32553325 AAA
1 AAA
32553328 GTGAAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (25 bp):
AAATAAATAATATAAATTCAAAAAT
Found at i:32553854 original size:24 final size:25
Alignment explanation
Indices: 32553813--32553880 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 25
32553803 CTGCTGAAAC
*
32553813 TTTTTTAGTTTGTGGGC-TATTCGG
1 TTTTTTAATTTGTGGGCTTATTCGG
* * *
32553837 TTTTTTAATTTTTTGGCTTGTTCGG
1 TTTTTTAATTTGTGGGCTTATTCGG
*
32553862 TTAGATTTAATTT-TGGGCT
1 TT--TTTTAATTTGTGGGCT
32553881 GGCATTTTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 14 0.40
25 8 0.23
26 5 0.14
27 8 0.23
ACGTcount: A:0.12, C:0.07, G:0.24, T:0.57
Consensus pattern (25 bp):
TTTTTTAATTTGTGGGCTTATTCGG
Found at i:32554235 original size:43 final size:43
Alignment explanation
Indices: 32554178--32554264 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
32554168 TTTGTGGTTA
* *
32554178 TAGTCTACTTCACTGCAACTTCAGGGAGATAAGACTCGTGATT
1 TAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTCATGATT
*
32554221 TAGTCTTCTCCACTGCAACTTCAGGGAGATAAGACTCATGATT
1 TAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTCATGATT
32554264 T
1 T
32554265 TGACCTGCCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
TAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTCATGATT
Found at i:32554545 original size:44 final size:43
Alignment explanation
Indices: 32554490--32554902 Score: 186
Period size: 44 Copynumber: 9.3 Consensus size: 43
32554480 TTGTTTTCAG
* *
32554490 TCTGCTCCGCTGCAAACTTAGGAAGGCGAGGCTGGTGTCTTCGA
1 TCTGCTTCGCTGCAAAC-TAGGAAGGCAAGGCTGGTGTCTTCGA
* * * *
32554534 TCTGCTTCGCTGCCAATAC-AGGAAGACAAGATCTGCTATCTTC-A
1 TCTGCTTCGCTG-CAA-ACTAGGAAGGCAAG-GCTGGTGTCTTCGA
* *
32554578 GTCTGCTTCGCTGCAAACTTAGGGAGGCGAGGCTGGTGTCTTCGA
1 -TCTGCTTCGCTGCAAAC-TAGGAAGGCAAGGCTGGTGTCTTCGA
* ** * *
32554623 TCTGCTTCGCTGCCAATAC-AGGAAGACAAGATTTGCTATCTTC-A
1 TCTGCTTCGCTG-CAA-ACTAGGAAGGCAAG-GCTGGTGTCTTCGA
* * *
32554667 GTCTGCTCCGCTGCAAACTCAGGGAGGTCAA-GCTAGTGTCTTCGA
1 -TCTGCTTCGCTGCAAACT-AGGAAGG-CAAGGCTGGTGTCTTCGA
* ** * * *
32554712 TCTACTTCGCTGCAAGTA-TAGGAAAACAAGATCTGCTATCTTC-A
1 TCTGCTTCGCTGCAA--ACTAGGAAGGCAAG-GCTGGTGTCTTCGA
* ** * * *
32554756 GTCTACTAT-ATTGCAAACTCAGGGAGGTC-AGGCTGATGTCCTCGA
1 -TCTGCT-TCGCTGCAAACT-AGGAAGG-CAAGGCTGGTGTCTTCGA
* * * * *
32554801 TCTGCTTCGCTTCCAATAC-AGGAAGACAAGATCTGCTATCTTC-A
1 TCTGCTTCGC-TGCAA-ACTAGGAAGGCAAG-GCTGGTGTCTTCGA
* *
32554845 GTCTACTCCGCTGCAAACTCAAGG-AGGTC-AGGCTGGTGTCTTCGA
1 -TCTGCTTCGCTGCAAACT--AGGAAGG-CAAGGCTGGTGTCTTCGA
32554890 TCTGCTTCGCTGC
1 TCTGCTTCGCTGC
32554903 CAGTACAGAA
Statistics
Matches: 269, Mismatches: 64, Indels: 72
0.66 0.16 0.18
Matches are distributed among these distances:
43 12 0.04
44 128 0.48
45 113 0.42
46 16 0.06
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.27
Consensus pattern (43 bp):
TCTGCTTCGCTGCAAACTAGGAAGGCAAGGCTGGTGTCTTCGA
Found at i:32554554 original size:89 final size:89
Alignment explanation
Indices: 32554454--32554967 Score: 710
Period size: 89 Copynumber: 5.8 Consensus size: 89
32554444 ATATGTTTCA
* * * * * * *
32554454 CTGCCAGTACAGGAATACAAGATCTGTTGTTTTCAGTCTGCTCCGCTGCAAACTTAGGAAGG-CG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGTC-
32554518 AGGCTGGTGTCTTCGATCTGCTTCG
65 AGGCTGGTGTCTTCGATCTGCTTCG
* *
32554543 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTTCGCTGCAAACTTAGGGAGG-CG
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGTC-
32554607 AGGCTGGTGTCTTCGATCTGCTTCG
65 AGGCTGGTGTCTTCGATCTGCTTCG
*
32554632 CTGCCAATACAGGAAGACAAGATTTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGTCA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGTCA
* * *
32554697 AGCTAGTGTCTTCGATCTACTTCG
66 GGCTGGTGTCTTCGATCTGCTTCG
* * * ****
32554721 CTG-CAAGTATAGGAAAACAAGATCTGCTATCTTCAGTCTACTATATTGCAAACTCAGGGAGGTC
1 CTGCCAA-TACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGTC
* *
32554785 AGGCTGATGTCCTCGATCTGCTTCG
65 AGGCTGGTGTCTTCGATCTGCTTCG
* * *
32554810 CTTCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTCCGCTGCAAACTCAAGGAGGTCA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGTCA
32554875 GGCTGGTGTCTTCGATCTGCTTCG
66 GGCTGGTGTCTTCGATCTGCTTCG
* * * * *
32554899 CTGCCAGTACAGAAAGACAAGATCTGCTATCTTCAATCTGCTCCCCTGCAAATTCAGGGAGGTCA
1 CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGTCA
32554964 GGCT
66 GGCT
32554968 AGATATGATG
Statistics
Matches: 378, Mismatches: 44, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
88 3 0.01
89 371 0.98
90 4 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (89 bp):
CTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGTCA
GGCTGGTGTCTTCGATCTGCTTCG
Found at i:32566593 original size:26 final size:25
Alignment explanation
Indices: 32566564--32566689 Score: 71
Period size: 26 Copynumber: 4.9 Consensus size: 25
32566554 AAACGAAACA
** *
32566564 AAATAATATATAGAACAATTTGGAGT
1 AAATAATATATA-AACAATTTAAAGC
*
32566590 AAATAGTATA-AAACAATTTAAAGC
1 AAATAATATATAAACAATTTAAAGC
* * *
32566614 AAATAATATGTAAAACAAATAAAATG-
1 AAATAATATAT-AAACAATTTAAA-GC
**
32566640 -AATAATAT-TCAAAGCAATTTAAAAAT
1 AAATAATATAT-AAA-CAATTT-AAAGC
*
32566666 AAATAACATATAAGACAATTTAAA
1 AAATAATATATAA-ACAATTTAAA
32566690 ATAATATGTA
Statistics
Matches: 78, Mismatches: 13, Indels: 18
0.72 0.12 0.17
Matches are distributed among these distances:
24 22 0.28
25 13 0.17
26 25 0.32
27 16 0.21
28 2 0.03
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (25 bp):
AAATAATATATAAACAATTTAAAGC
Found at i:32566617 original size:24 final size:23
Alignment explanation
Indices: 32566568--32566618 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
32566558 GAAACAAAAT
* ** *
32566568 AATATATAGAACAATTTGGAGTA
1 AATATATAAAACAATTTAAAGCA
32566591 AATAGTATAAAACAATTTAAAGCA
1 AATA-TATAAAACAATTTAAAGCA
32566615 AATA
1 AATA
32566619 ATATGTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (23 bp):
AATATATAAAACAATTTAAAGCA
Found at i:32566691 original size:22 final size:21
Alignment explanation
Indices: 32566666--32566714 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
32566656 ATTTAAAAAT
32566666 AAATAACATATAAGACAA-TTTA
1 AAATAACATATAA-A-AAGTTTA
* *
32566688 AAATAATATGTAAAAAGTTTA
1 AAATAACATATAAAAAGTTTA
32566709 AAATAA
1 AAATAA
32566715 ATAATATGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 11 0.46
22 11 0.46
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (21 bp):
AAATAACATATAAAAAGTTTA
Found at i:32566928 original size:26 final size:26
Alignment explanation
Indices: 32566890--32566957 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
32566880 TTAACATAGT
**
32566890 TTAAAATGCATAATATAT-GAAAAAAC
1 TTAAAATAAATAATATATAG-AAAAAC
* *
32566916 TTAAAATAAATAATA-ATAGAATAAT
1 TTAAAATAAATAATATATAGAAAAAC
32566941 TTAAAATAAATAATATA
1 TTAAAATAAATAATATA
32566958 AAGTTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 21 0.58
26 15 0.42
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (26 bp):
TTAAAATAAATAATATATAGAAAAAC
Found at i:32566954 original size:51 final size:53
Alignment explanation
Indices: 32566842--32566957 Score: 132
Period size: 53 Copynumber: 2.2 Consensus size: 53
32566832 GTAGTCTAAC
* * * *
32566842 ATAAATAATATATATATAAATTTAAAATGAATAATAGATTAACATAGTTTAAA
1 ATAAATAATATATATAAAAACTTAAAATAAATAATAGATTAACATAATTTAAA
**
32566895 ATGCATAATATATGA-AAAAACTTAAAATAAATAATA-A-TAGA-ATAATTTAAA
1 ATAAATAATATAT-ATAAAAACTTAAAATAAATAATAGATTA-ACATAATTTAAA
32566946 ATAAATAATATA
1 ATAAATAATATA
32566958 AAGTTTAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
51 21 0.40
52 2 0.04
53 29 0.55
54 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (53 bp):
ATAAATAATATATATAAAAACTTAAAATAAATAATAGATTAACATAATTTAAA
Found at i:32566971 original size:21 final size:21
Alignment explanation
Indices: 32566911--32566979 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 21
32566901 AATATATGAA
*
32566911 AAAACTTAAAATAAATAATAAT
1 AAAATTTAAAATAAATAAT-AT
32566933 AGAATAATTTAAAATAAATAATAT
1 --AA-AATTTAAAATAAATAATAT
*
32566957 AAAGTTTAAAATAAATAA-AT
1 AAAATTTAAAATAAATAATAT
32566977 AAA
1 AAA
32566980 TAAATAAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.12
21 15 0.36
22 2 0.05
24 4 0.10
25 16 0.38
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (21 bp):
AAAATTTAAAATAAATAATAT
Found at i:32566987 original size:21 final size:21
Alignment explanation
Indices: 32566916--32566987 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 21
32566906 ATGAAAAAAC
32566916 TTAAAATAAATAATAATAGAATAA
1 TTAAAATAAAT-A-AATA-AATAA
32566940 TTTAAAATAAATAATATAAAGT--
1 -TTAAAATAAATAA-ATAAA-TAA
32566962 TTAAAATAAATAAATAAATAA
1 TTAAAATAAATAAATAAATAA
*
32566983 ATAAA
1 TTAAA
32566988 GTGAAATCTA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
19 1 0.02
20 5 0.12
21 17 0.40
23 3 0.07
24 5 0.12
25 11 0.26
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (21 bp):
TTAAAATAAATAAATAAATAA
Found at i:32570403 original size:29 final size:29
Alignment explanation
Indices: 32570335--32570403 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
32570325 AACCAAAAAA
32570335 GGCCGATTTTTTTCAAAATTTACCGAAATG
1 GGCC-ATTTTTTTCAAAATTTACCGAAATG
** * * *
32570365 GGCCGGTTTTTT-AATTATTTACTGGAATG
1 GGCCATTTTTTTCAA-AATTTACCGAAATG
32570394 GGCCATTTTT
1 GGCCATTTTT
32570404 CGCGAAATCG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 2 0.06
29 25 0.81
30 4 0.13
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.42
Consensus pattern (29 bp):
GGCCATTTTTTTCAAAATTTACCGAAATG
Found at i:32581128 original size:21 final size:20
Alignment explanation
Indices: 32581104--32581144 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
32581094 AACATGCCTT
*
32581104 TATACTAAATTGTTACTAAAA
1 TATACTAAATT-ATACTAAAA
*
32581125 TATACTTAATTATACTAAAA
1 TATACTAAATTATACTAAAA
32581145 AAATAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (20 bp):
TATACTAAATTATACTAAAA
Found at i:32582019 original size:29 final size:31
Alignment explanation
Indices: 32581977--32582053 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
32581967 TTTACCTCAG
*
32581977 GTTACATTTTAGTCACTTATGTT-TA-AAAT
1 GTTACATTTTAGTCACTTACGTTATAGAAAT
* *
32582006 GTTACATTTTAGTCACTTACGTTATAGTATT
1 GTTACATTTTAGTCACTTACGTTATAGAAAT
*
32582037 GTAACATTTTAGTCACT
1 GTTACATTTTAGTCACT
32582054 GAGTCGTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 2 0.05
31 18 0.43
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.47
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTACGTTATAGAAAT
Found at i:32582265 original size:27 final size:26
Alignment explanation
Indices: 32582208--32582267 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
32582198 TTTTAACTTT
* *
32582208 CTTTTTTTCTTCCTTATTTTCCATTCT
1 CTTTTTTTCTCCCTTATTTTCCA-TCC
32582235 CTTTTGTTTCTCCCTCTATTTTCC-TCC
1 CTTTT-TTTCTCCCT-TATTTTCCATCC
32582262 CTTTTT
1 CTTTTT
32582268 CATTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 1 0.03
27 12 0.41
28 8 0.28
29 8 0.28
ACGTcount: A:0.05, C:0.30, G:0.02, T:0.63
Consensus pattern (26 bp):
CTTTTTTTCTCCCTTATTTTCCATCC
Found at i:32590819 original size:24 final size:24
Alignment explanation
Indices: 32590763--32590821 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
32590753 ACTTTCTAAT
* * *
32590763 TAAGTGCTCTTCGGAGCTTCCGGT
1 TAAGTGCTCTTCGGAGCTACCCGA
32590787 TAAGTGCTCTTCGGAGCTACCCGA
1 TAAGTGCTCTTCGGAGCTACCCGA
32590811 TATAG-GCTCTT
1 TA-AGTGCTCTT
32590822 TGTGAGCTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 29 0.94
25 2 0.06
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.32
Consensus pattern (24 bp):
TAAGTGCTCTTCGGAGCTACCCGA
Found at i:32596315 original size:54 final size:54
Alignment explanation
Indices: 32596222--32596348 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
32596212 GGTCCACATG
*
32596222 GGCACAGAGAGTTACACAGCCTGGCGACACGACCGTGTGACCCTGAGCTACAC-
1 GGCACAGAGAGTTACACAGCCTGGCGACACGACCATGTGACCCTGAGCTACACA
* * * * * * * *
32596275 GGTCACAGAGAGTTACACGGCGTGGTGCCATGGCCATGTGATCCTGAGTTACACA
1 GG-CACAGAGAGTTACACAGCCTGGCGACACGACCATGTGACCCTGAGCTACACA
32596330 GGCACAGTA-AGTTACACAG
1 GGCACAG-AGAGTTACACAG
32596349 TCTACGTACA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 2 0.03
54 56 0.92
55 3 0.05
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.17
Consensus pattern (54 bp):
GGCACAGAGAGTTACACAGCCTGGCGACACGACCATGTGACCCTGAGCTACACA
Found at i:32599665 original size:25 final size:25
Alignment explanation
Indices: 32599637--32599684 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
32599627 CACAGCTCAA
*
32599637 ATGAGCTTCTCGTTATTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCGC
*
32599662 ATGAGCTTCCCGTTATTTAGCTC
1 ATGAGCTTCCCGTTATTCAGCTC
32599685 AGAAGAGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.38
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCGC
Found at i:32599692 original size:25 final size:25
Alignment explanation
Indices: 32599629--32599694 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
32599619 GGACTCACCA
*
32599629 CAGCTCA-AATGAGCTTCTCGTTATT
1 CAGCTCAGAA-GAGCTTCCCGTTATT
*
32599654 CAGCTC-GCATGAGCTTCCCGTTATT
1 CAGCTCAG-AAGAGCTTCCCGTTATT
*
32599679 TAGCTCAGAAGAGCTT
1 CAGCTCAGAAGAGCTT
32599695 ATTGTTTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 32 0.94
26 2 0.06
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (25 bp):
CAGCTCAGAAGAGCTTCCCGTTATT
Found at i:32601537 original size:2 final size:2
Alignment explanation
Indices: 32601530--32601555 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32601520 TTACACCCTT
32601530 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
32601556 TATATATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:32607840 original size:29 final size:30
Alignment explanation
Indices: 32607807--32607867 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
32607797 ATTATGCATT
32607807 TGTGTTTGG-TTTTTTTTTTGTACTTTTTA
1 TGTGTTTGGTTTTTTTTTTTGTACTTTTTA
32607836 TGTGTTTGGTTTTTTTTTTTGTACTTTTTA
1 TGTGTTTGGTTTTTTTTTTTGTACTTTTTA
32607866 TG
1 TG
32607868 AACTTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.07, C:0.03, G:0.18, T:0.72
Consensus pattern (30 bp):
TGTGTTTGGTTTTTTTTTTTGTACTTTTTA
Found at i:32612122 original size:28 final size:29
Alignment explanation
Indices: 32612073--32612131 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
32612063 TTTCATGATT
32612073 ATAAATATATATTTTTATAATTATAAATA
1 ATAAATATATATTTTTATAATTATAAATA
*
32612102 ATAAAT-TATAATTTTTA-AATTTTAAATA
1 ATAAATATAT-ATTTTTATAATTATAAATA
32612130 AT
1 AT
32612132 TTTTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
ATAAATATATATTTTTATAATTATAAATA
Found at i:32612792 original size:22 final size:22
Alignment explanation
Indices: 32612750--32612794 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
32612740 TTTTTATGCA
* **
32612750 TTTTATAAATTTTTATTATTTT
1 TTTTATAAAATTTTACAATTTT
32612772 TTTTATAAAATTTTACAATTTT
1 TTTTATAAAATTTTACAATTTT
32612794 T
1 T
32612795 ATTTTTTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATAAAATTTTACAATTTT
Found at i:32613054 original size:87 final size:82
Alignment explanation
Indices: 32612955--32613127 Score: 256
Period size: 87 Copynumber: 2.0 Consensus size: 82
32612945 TTTGAAAATT
*
32612955 TTGAAGATCTTTTTGATGCATTTTGAAAGTTCAAGTACTCAATTGAGTGAAAAAAACATAGGCTT
1 TTGAAAATCTTTTTGATGCATTTTGAAAGTTCAAGTACTCAATTGAGTGAAAAAAA-A-AGGCTT
32613020 AATTACTTTTTTATAAAAAAAA
64 AATTA--TTTTTA-AAAAAAAA
* * *
32613042 TTGAAAATCTTTTTGATGTATTTTGAAAGTTTAAGTTCTCAATTGAGTGAAAAAAAAAGGCTTAA
1 TTGAAAATCTTTTTGATGCATTTTGAAAGTTCAAGTACTCAATTGAGTGAAAAAAAAAGGCTTAA
*
32613107 TTATTTTTAAAAAAAAT
66 TTATTTTTAAAAAAAAA
32613124 TTGA
1 TTGA
32613128 GAATTTTCTA
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
82 11 0.14
83 6 0.07
85 11 0.14
86 1 0.01
87 52 0.64
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (82 bp):
TTGAAAATCTTTTTGATGCATTTTGAAAGTTCAAGTACTCAATTGAGTGAAAAAAAAAGGCTTAA
TTATTTTTAAAAAAAAA
Found at i:32614157 original size:285 final size:285
Alignment explanation
Indices: 32613647--32614216 Score: 1122
Period size: 285 Copynumber: 2.0 Consensus size: 285
32613637 ATAAAAACAA
32613647 ACAACCCGAGACCCACCCCCTCCCGGGCAACCACCACTCTCGTCACTCGTCCATCCGGCCTCTCT
1 ACAACCCGAGACCCACCCCCTCCCGGGCAACCACCACTCTCGTCACTCGTCCATCCGGCCTCTCT
32613712 GACTCTCTGACTCTCTCAACCTCTCTTCACTCTTTAGTCTCCAATCTCCCTCCACCTTCCGGCTT
66 GACTCTCTGACTCTCTCAACCTCTCTTCACTCTTTAGTCTCCAATCTCCCTCCACCTTCCGGCTT
32613777 TCAGCCTCCAGTTCACCCGCCTTTAGCCGTCTGCTTCTTCGACGACCGTCCCTGCTGAAAAATGA
131 TCAGCCTCCAGTTCACCCGCCTTTAGCCGTCTGCTTCTTCGACGACCGTCCCTGCTGAAAAATGA
32613842 GAAAGTCAGAAAGACAGGTTTGGTGGTAAAGGACAAATGAGAATTGAAAAGAGTTAACGATAATA
196 GAAAGTCAGAAAGACAGGTTTGGTGGTAAAGGACAAATGAGAATTGAAAAGAGTTAACGATAATA
32613907 ATTTTTTAGGTTTGCGTACTTTATG
261 ATTTTTTAGGTTTGCGTACTTTATG
32613932 ACAACCCGAGACCCACCCCCTCCCGGGCAACCACCACTCTCGTCACTCGTCCATCCGGCCTCTCT
1 ACAACCCGAGACCCACCCCCTCCCGGGCAACCACCACTCTCGTCACTCGTCCATCCGGCCTCTCT
*
32613997 GACTCTCTGACTCTCTCAACCTCTCTTCACTCTTTAGTCTCCAATCTTCCTCCACCTTCCGGCTT
66 GACTCTCTGACTCTCTCAACCTCTCTTCACTCTTTAGTCTCCAATCTCCCTCCACCTTCCGGCTT
32614062 TCAGCCTCCAGTTCACCCGCCTTTAGCCGTCTGCTTCTTCGACGACCGTCCCTGCTGAAAAATGA
131 TCAGCCTCCAGTTCACCCGCCTTTAGCCGTCTGCTTCTTCGACGACCGTCCCTGCTGAAAAATGA
32614127 GAAAGTCAGAAAGACAGGTTTGGTGGTAAAGGACAAATGAGAATTGAAAAGAGTTAACGATAATA
196 GAAAGTCAGAAAGACAGGTTTGGTGGTAAAGGACAAATGAGAATTGAAAAGAGTTAACGATAATA
*
32614192 ATTTTTTAGGTTTTCGTACTTTATG
261 ATTTTTTAGGTTTGCGTACTTTATG
32614217 TTGGGTATGG
Statistics
Matches: 283, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
285 283 1.00
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (285 bp):
ACAACCCGAGACCCACCCCCTCCCGGGCAACCACCACTCTCGTCACTCGTCCATCCGGCCTCTCT
GACTCTCTGACTCTCTCAACCTCTCTTCACTCTTTAGTCTCCAATCTCCCTCCACCTTCCGGCTT
TCAGCCTCCAGTTCACCCGCCTTTAGCCGTCTGCTTCTTCGACGACCGTCCCTGCTGAAAAATGA
GAAAGTCAGAAAGACAGGTTTGGTGGTAAAGGACAAATGAGAATTGAAAAGAGTTAACGATAATA
ATTTTTTAGGTTTGCGTACTTTATG
Found at i:32618716 original size:30 final size:30
Alignment explanation
Indices: 32618661--32618797 Score: 91
Period size: 30 Copynumber: 4.6 Consensus size: 30
32618651 ACAAACTCAT
* * * * *
32618661 GAAGCAGCTCCTCAGGAGGTATCCCATCAT
1 GAAGTAGCTCATCAAGAAGTATCCCATCAA
*
32618691 GAAGTAGCTCATCAAGAAG-ATTCCCATCAC
1 GAAGTAGCTCATCAAGAAGTA-TCCCATCAA
* * * *
32618721 GATGTTGCTCATCGAGAAGTATCCGATCAA
1 GAAGTAGCTCATCAAGAAGTATCCCATCAA
* * * *
32618751 GAAGTAG-ACAGTCAAGAAATAACCCATCAG
1 GAAGTAGCTCA-TCAAGAAGTATCCCATCAA
*
32618781 GAAGAAGCCTC-TCAAGA
1 GAAGTAG-CTCATCAAGA
32618798 GGTACCTTCT
Statistics
Matches: 82, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
29 3 0.04
30 77 0.94
31 1 0.01
32 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (30 bp):
GAAGTAGCTCATCAAGAAGTATCCCATCAA
Found at i:32620605 original size:17 final size:17
Alignment explanation
Indices: 32620583--32620617 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32620573 TCAAATGATT
**
32620583 ATTAAAAATTAAAAAGA
1 ATTAAAAAGAAAAAAGA
32620600 ATTAAAAAGAAAAAAGA
1 ATTAAAAAGAAAAAAGA
32620617 A
1 A
32620618 AAAAAATACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (17 bp):
ATTAAAAAGAAAAAAGA
Found at i:32621265 original size:18 final size:17
Alignment explanation
Indices: 32621223--32621265 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
32621213 TTTTTAAGTT
*
32621223 TGTAATATTTTATATTA
1 TGTAATTTTTTATATTA
* *
32621240 TATTATTTTTATATATTA
1 TGTAATTTTT-TATATTA
32621258 TGTAATTT
1 TGTAATTT
32621266 ATAACATATA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TGTAATTTTTTATATTA
Found at i:32626045 original size:21 final size:21
Alignment explanation
Indices: 32626019--32626061 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
32626009 GTCATGAGTG
32626019 TAAGGAAATCACACATCAATA
1 TAAGGAAATCACACATCAATA
32626040 TAAGGAAATCACACATCAATA
1 TAAGGAAATCACACATCAATA
32626061 T
1 T
32626062 TTTTAACAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.19, G:0.09, T:0.21
Consensus pattern (21 bp):
TAAGGAAATCACACATCAATA
Found at i:32629256 original size:23 final size:23
Alignment explanation
Indices: 32629226--32629292 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
32629216 CCTTTTTGAA
32629226 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCGTACCAAATT
32629249 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCGTACCAAATT
* *
32629272 ACATTACCATTTCGTACCAAA
1 CCATTTCCATTTCGTACCAAA
32629293 CCCAAACCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.36
Consensus pattern (23 bp):
CCATTTCCATTTCGTACCAAATT
Found at i:32629643 original size:21 final size:21
Alignment explanation
Indices: 32629617--32629667 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
32629607 AAAAAGTTTG
*
32629617 AAAAAAAAAA-ATTCGAAATT
1 AAAAAAAAAATATACGAAATT
32629637 CAAAAAAAAAATATACGAAATT
1 -AAAAAAAAAATATACGAAATT
32629659 AAAAAAAAA
1 AAAAAAAAA
32629668 GAAAAAAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAAAAAAAATATACGAAATT
Found at i:32629645 original size:22 final size:21
Alignment explanation
Indices: 32629617--32629667 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
32629607 AAAAAGTTTG
*
32629617 AAAAAAAAAAATTCGAAATTCA
1 AAAAAAAAAAATACGAAATT-A
*
32629639 AAAAAAAAATATACGAAATTA
1 AAAAAAAAAAATACGAAATTA
32629660 AAAAAAAA
1 AAAAAAAA
32629668 GAAAAAAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAAAAAAAAATACGAAATTA
Found at i:32629716 original size:25 final size:22
Alignment explanation
Indices: 32629655--32629716 Score: 52
Period size: 25 Copynumber: 2.6 Consensus size: 22
32629645 AAATATACGA
*
32629655 AATTAAAAAAAAAGAAAAAAGTG
1 AATTAAAAAAAAA-AAAAAAATG
* **
32629678 AATTGAAATTAAAAATAAAATCATG
1 AATT-AAA--AAAAAAAAAAAAATG
32629703 AATTAAAAAAAAAA
1 AATTAAAAAAAAAA
32629717 GGTGTTGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
22 6 0.19
23 4 0.13
24 6 0.19
25 10 0.32
26 5 0.16
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (22 bp):
AATTAAAAAAAAAAAAAAAATG
Found at i:32631819 original size:19 final size:21
Alignment explanation
Indices: 32631790--32631833 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
32631780 CAAATGAGAG
32631790 AAAAAGAAAAGAAAA-ATGAA
1 AAAAAGAAAAGAAAACATGAA
*
32631810 AAAAAG-AAAGAAAACTTGAA
1 AAAAAGAAAAGAAAACATGAA
32631830 AAAA
1 AAAA
32631834 GAGAGTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (21 bp):
AAAAAGAAAAGAAAACATGAA
Found at i:32636056 original size:23 final size:23
Alignment explanation
Indices: 32636026--32636092 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
32636016 CCTTTTTGAA
32636026 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCGTACCAAATT
32636049 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCGTACCAAATT
* *
32636072 ACATTACCATTTCGTACCAAA
1 CCATTTCCATTTCGTACCAAA
32636093 CCCAAACCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.36
Consensus pattern (23 bp):
CCATTTCCATTTCGTACCAAATT
Found at i:32636710 original size:15 final size:15
Alignment explanation
Indices: 32636690--32636719 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32636680 GGCGAACTAA
32636690 GGGGTTCACCAAAAG
1 GGGGTTCACCAAAAG
*
32636705 GGGGTTCGCCAAAAG
1 GGGGTTCACCAAAAG
32636720 TGTATCAGTA
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:0.30, C:0.20, G:0.37, T:0.13
Consensus pattern (15 bp):
GGGGTTCACCAAAAG
Found at i:32647315 original size:17 final size:16
Alignment explanation
Indices: 32647293--32647326 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32647283 AGGGATGACG
32647293 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
32647310 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
32647326 T
1 T
32647327 CATAATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:32665727 original size:49 final size:49
Alignment explanation
Indices: 32665655--32665753 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
32665645 TTGATATTTA
*
32665655 TGTCTGTTTAAATAAGTATTCAACTCACATTGAGCTTTCATATGCTTAC
1 TGTCTGTTTAAATAAGTATTCAACTCACATTGAGCTTTCATAAGCTTAC
32665704 TGTCTGTTTAAATAAGTATTCAACTCACATTGAGCTTTCATAAGCTTAC
1 TGTCTGTTTAAATAAGTATTCAACTCACATTGAGCTTTCATAAGCTTAC
32665753 T
1 T
32665754 CCCCCACAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (49 bp):
TGTCTGTTTAAATAAGTATTCAACTCACATTGAGCTTTCATAAGCTTAC
Found at i:32668454 original size:47 final size:47
Alignment explanation
Indices: 32668400--32668510 Score: 134
Period size: 47 Copynumber: 2.4 Consensus size: 47
32668390 ACCAGTAATA
* * *
32668400 CAGATAAACTACCACTTAATAATATTGTGGACAAGCCACCACTTTTG
1 CAGATAAACTACCACATAAAAATATCGTGGACAAGCCACCACTTTTG
* * * *
32668447 CATATAAACTGCCACATAAAAATATCGTTGACAAGCCACCATTTTTG
1 CAGATAAACTACCACATAAAAATATCGTGGACAAGCCACCACTTTTG
*
32668494 TAGATAAAC-AGCCACAT
1 CAGATAAACTA-CCACAT
32668511 CTTCCACCTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (47 bp):
CAGATAAACTACCACATAAAAATATCGTGGACAAGCCACCACTTTTG
Found at i:32686288 original size:28 final size:28
Alignment explanation
Indices: 32686257--32686324 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
32686247 AGTAACGGTC
* *
32686257 TGGGCCTAAGCCCTAAGCAGTTTTAGTG
1 TGGGCCTAAGCCCTAAGCAGTATCAGTG
*
32686285 TGGGCC-AGAGCCCTAAGTAGTATCAGTG
1 TGGGCCTA-AGCCCTAAGCAGTATCAGTG
*
32686313 TGGGCCTTAGCC
1 TGGGCCTAAGCC
32686325 TAATACAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.25
Consensus pattern (28 bp):
TGGGCCTAAGCCCTAAGCAGTATCAGTG
Found at i:32686705 original size:27 final size:27
Alignment explanation
Indices: 32686675--32686853 Score: 141
Period size: 27 Copynumber: 6.6 Consensus size: 27
32686665 CATCTCTTAG
* *
32686675 GGGTATATCAGTCATTTTACCCTATAA
1 GGGTATTTCGGTCATTTTACCCTATAA
** * * **
32686702 GGGTATTTTAGTTATTTTA-CCTTTTG
1 GGGTATTTCGGTCATTTTACCCTATAA
* *
32686728 GGTGTATTTTGGTCATCTTACCCTATGAA
1 GG-GTATTTCGGTCATTTTACCCTAT-AA
* * *
32686757 -GGCATTTCGGTCATTTTACCCTTTGA
1 GGGTATTTCGGTCATTTTACCCTATAA
*
32686783 GGGTATTTCGGTCATTTTACCCT-TCGA
1 GGGTATTTCGGTCATTTTACCCTAT-AA
* * *
32686810 GGATATTTTGGTCATTTTACCCT-TCGA
1 GGGTATTTCGGTCATTTTACCCTAT-AA
32686837 GGGTATTTCGGTCATTT
1 GGGTATTTCGGTCATTT
32686854 CCCCACGAAT
Statistics
Matches: 125, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 8 0.06
27 112 0.90
28 5 0.04
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTATAA
Found at i:32686749 original size:54 final size:54
Alignment explanation
Indices: 32686675--32686853 Score: 177
Period size: 54 Copynumber: 3.3 Consensus size: 54
32686665 CATCTCTTAG
* * * * * *
32686675 GGGTATATCAGTCATTTTACCCTAT-AAGGGTATTTTAGTTATTTTACCTTTTG-
1 GGGTATTTCGGTCATTTTACCCTATGAA-GGCATTTCAGTCATTTTACCCTTTGA
* * *
32686728 GGTGTATTTTGGTCATCTTACCCTATGAAGGCATTTCGGTCATTTTACCCTTTGA
1 GG-GTATTTCGGTCATTTTACCCTATGAAGGCATTTCAGTCATTTTACCCTTTGA
* ** *
32686783 GGGTATTTCGGTCATTTTACCCT-TCG-AGGATATTTTGGTCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTAT-GAAGG-CATTTCAGTCATTTTACCCTTTGA
32686837 GGGTATTTCGGTCATTT
1 GGGTATTTCGGTCATTT
32686854 CCCCACGAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.06
54 97 0.91
55 4 0.04
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.44
Consensus pattern (54 bp):
GGGTATTTCGGTCATTTTACCCTATGAAGGCATTTCAGTCATTTTACCCTTTGA
Found at i:32686800 original size:81 final size:81
Alignment explanation
Indices: 32686685--32686853 Score: 207
Period size: 81 Copynumber: 2.1 Consensus size: 81
32686675 GGGTATATCA
* * * * *
32686685 GTCATTTTACCCTATAAGGGTATTTTAGTTATTTTACCTTTTG-GGTGTATTTTGGTCATCTTAC
1 GTCATTTTACCCTATAAGGGTATTTCAGTCATTTTACCCTTCGAGG-ATATTTTGGTCATCTTAC
32686749 CCTAT-GAAGGCATTTCG
65 CCT-TCGAAGGCATTTCG
* * * *
32686766 GTCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGAGGATATTTTGGTCATTTTACC
1 GTCATTTTACCCTATAAGGGTATTTCAGTCATTTTACCCTTCGAGGATATTTTGGTCATCTTACC
* *
32686831 CTTCGAGGGTATTTCG
66 CTTCGAAGGCATTTCG
32686847 GTCATTT
1 GTCATTT
32686854 CCCCACGAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 72 0.96
82 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.45
Consensus pattern (81 bp):
GTCATTTTACCCTATAAGGGTATTTCAGTCATTTTACCCTTCGAGGATATTTTGGTCATCTTACC
CTTCGAAGGCATTTCG
Found at i:32687536 original size:15 final size:14
Alignment explanation
Indices: 32687512--32687542 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
32687502 TCGGCCAGTA
32687512 GAAAAGAGAAAAGG
1 GAAAAGAGAAAAGG
32687526 GAAAGAGAGAAAAGG
1 GAAA-AGAGAAAAGG
32687541 GA
1 GA
32687543 GGATTCGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (14 bp):
GAAAAGAGAAAAGG
Found at i:32693949 original size:27 final size:27
Alignment explanation
Indices: 32693919--32694009 Score: 128
Period size: 27 Copynumber: 3.4 Consensus size: 27
32693909 TCATCTCCTA
* *
32693919 AGGGTATATCGGTCATTTTACCCTTTG
1 AGGGTATTTCGGTCATTTTACCCTTCG
*
32693946 AGGGTATTTCGGTTATTTTACCCTTCG
1 AGGGTATTTCGGTCATTTTACCCTTCG
* * *
32693973 AGGGCATTTCAGTCATTTTATCCTTCG
1 AGGGTATTTCGGTCATTTTACCCTTCG
32694000 AGGGTATTTC
1 AGGGTATTTC
32694010 AATTATTTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.42
Consensus pattern (27 bp):
AGGGTATTTCGGTCATTTTACCCTTCG
Found at i:32697048 original size:32 final size:32
Alignment explanation
Indices: 32697012--32697075 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
32697002 AAATATGAGT
32697012 TAACTAAGAAATTGTATGGTATAGTGAGTATA
1 TAACTAAGAAATTGTATGGTATAGTGAGTATA
32697044 TAACTAAGAAATTGTATGGTATAGTGAGTATA
1 TAACTAAGAAATTGTATGGTATAGTGAGTATA
32697076 AGATTTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (32 bp):
TAACTAAGAAATTGTATGGTATAGTGAGTATA
Found at i:32698518 original size:13 final size:13
Alignment explanation
Indices: 32698500--32698525 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32698490 AGATATCAAG
32698500 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
32698513 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
32698526 GCTAGTTTTG
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:0.15, T:0.23
Consensus pattern (13 bp):
TTGTGAAAAAAAA
Found at i:32701895 original size:25 final size:25
Alignment explanation
Indices: 32701864--32701930 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
32701854 AGCTTAGATC
*
32701864 AGTATGCTTACACGAGCTAAAAATT
1 AGTATGCTCACACGAGCTAAAAATT
* *
32701889 AGTATGCTCATACGAGCTATAAATT
1 AGTATGCTCACACGAGCTAAAAATT
* *
32701914 GGTATGCTCACAGGAGC
1 AGTATGCTCACACGAGC
32701931 GGTGGGTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (25 bp):
AGTATGCTCACACGAGCTAAAAATT
Found at i:32704965 original size:50 final size:50
Alignment explanation
Indices: 32704850--32705087 Score: 239
Period size: 50 Copynumber: 4.7 Consensus size: 50
32704840 ATGCCAAAAT
* * * *
32704850 CATGTCCCATACATGGTCTTACATGGGATG-TTTCATGTAC--TACCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATAT-CGGTGCCAATGC
* * * *
32704899 CATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGC
1 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATGC
* *
32704949 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCGTCTCGGTGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATGC
* * * *
32704999 CATGTCGCAGACATGGTCTTACATAGGACCTCTCATGATCTCAAGGATGCCAATGT
1 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--TC--GG-TGCCAATGC
* *
32705055 CATGTCCCATACATGGTCTTACATGGGATCTCT
1 CATGTCCCAGACATGGTCTTACATGGGAGCTCT
32705088 TTACCCAAAT
Statistics
Matches: 157, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
48 2 0.01
49 31 0.20
50 83 0.53
53 2 0.01
55 2 0.01
56 37 0.24
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATGC
Found at i:32705033 original size:100 final size:103
Alignment explanation
Indices: 32704850--32705087 Score: 263
Period size: 100 Copynumber: 2.3 Consensus size: 103
32704840 ATGCCAAAAT
* * *
32704850 CATGTCCCATACATGGTCTTACATGGGATG-TTTCATGTACTACCAATGCCATATCCCAGATATG
1 CATGTCCCATACATGGTCTTACATGGGA-GCTCTCATCTACTACCAATGCCATATCCCAGACATG
* ** *
32704914 GTCTTACATGGGAGTTCTCAT-A-TC-GG-TGCCCATGC
65 GTCTTACATAGGACCTCTCATGACTCAGGATGCCAATGC
* * * * *
32704949 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCGTCT-CGGTGCCAATGCCATGTCGCAGACAT
1 CATGTCCCATACATGGTCTTACATGGGAGCTCTCATCTAC--TACCAATGCCATATCCCAGACAT
*
32705013 GGTCTTACATAGGACCTCTCATGATCTCAAGGATGCCAATGT
64 GGTCTTACATAGGACCTCTCATGA-CTC-AGGATGCCAATGC
*
32705055 CATGTCCCATACATGGTCTTACATGGGATCTCT
1 CATGTCCCATACATGGTCTTACATGGGAGCTCT
32705088 TTACCCAAAT
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
98 2 0.02
99 32 0.28
100 38 0.33
101 1 0.01
103 2 0.02
105 2 0.02
106 38 0.33
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (103 bp):
CATGTCCCATACATGGTCTTACATGGGAGCTCTCATCTACTACCAATGCCATATCCCAGACATGG
TCTTACATAGGACCTCTCATGACTCAGGATGCCAATGC
Found at i:32706416 original size:39 final size:39
Alignment explanation
Indices: 32706370--32706446 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
32706360 TGGAAGGATT
32706370 AGATTATTCCACTAACACTCATGATTTTTGTGATTAAGC
1 AGATTATTCCACTAACACTCATGATTTTTGTGATTAAGC
32706409 AGATTATTCCACTAACACTCATGATTTTTGTGATTAAG
1 AGATTATTCCACTAACACTCATGATTTTTGTGATTAAG
32706447 TGTGTTTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (39 bp):
AGATTATTCCACTAACACTCATGATTTTTGTGATTAAGC
Found at i:32707811 original size:13 final size:13
Alignment explanation
Indices: 32707795--32707837 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
32707785 ATACAACCAA
32707795 TTCATATAGCCAT
1 TTCATATAGCCAT
* *
32707808 TTCATATAACAAT
1 TTCATATAGCCAT
*
32707821 TTCATATGGCCAT
1 TTCATATAGCCAT
32707834 TTCA
1 TTCA
32707838 AAGTGTTAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.40
Consensus pattern (13 bp):
TTCATATAGCCAT
Found at i:32721606 original size:30 final size:30
Alignment explanation
Indices: 32721570--32721652 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
32721560 GTGTGCTAAA
* *
32721570 CGATGGTCGAAACCATCCCTTTTCCTTAAT
1 CGATGGTCAAAACCATCCCTTTTCATTAAT
*
32721600 CGATGGTCAAAACCATCCTTTTTCATTAAT
1 CGATGGTCAAAACCATCCCTTTTCATTAAT
*
32721630 CGATGATCAAAACCATCCCTTTT
1 CGATGGTCAAAACCATCCCTTTT
32721653 TATAGATGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.34
Consensus pattern (30 bp):
CGATGGTCAAAACCATCCCTTTTCATTAAT
Found at i:32724143 original size:29 final size:28
Alignment explanation
Indices: 32724089--32724149 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 28
32724079 TTATTTGAAA
*
32724089 AAAATTATTGTTATTTTTGTATATA-TT
1 AAAATTATTGTTATTTTTGTAAATATTT
32724116 AAAATTAGTTGTCT-TTTTCTGTAAATATTT
1 AAAATTA-TTGT-TATTTT-TGTAAATATTT
32724146 AAAA
1 AAAA
32724150 AACGTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 7 0.24
28 8 0.28
29 8 0.28
30 6 0.21
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.52
Consensus pattern (28 bp):
AAAATTATTGTTATTTTTGTAAATATTT
Found at i:32724458 original size:6 final size:6
Alignment explanation
Indices: 32724447--32724472 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32724437 ACTTTAAATA
32724447 TCACCT TCACCT TCACCT TCACCT TC
1 TCACCT TCACCT TCACCT TCACCT TC
32724473 TTCCATCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.50, G:0.00, T:0.35
Consensus pattern (6 bp):
TCACCT
Found at i:32732143 original size:35 final size:36
Alignment explanation
Indices: 32732079--32732148 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
32732069 GGAGCACATT
*
32732079 AGTCAGAATAGATCTGAAAGGCTACTGAACTGAATC
1 AGTCAGAATAGATCTAAAAGGCTACTGAACTGAATC
**
32732115 AGTCAGAATAGATC-AAAAGGCTGTTGAACTGAAT
1 AGTCAGAATAGATCTAAAAGGCTACTGAACTGAAT
32732149 AGAGTTTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 17 0.55
36 14 0.45
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (36 bp):
AGTCAGAATAGATCTAAAAGGCTACTGAACTGAATC
Found at i:32734089 original size:33 final size:33
Alignment explanation
Indices: 32733978--32734089 Score: 86
Period size: 33 Copynumber: 3.3 Consensus size: 33
32733968 CATAGCTTCG
*
32733978 CCATGGTCTTACT-TAAACATTGCCATTGTCCAA
1 CCATGGTCTTA-TGTAAACATTGCCATAGTCCAA
* * ** *
32734011 CCATGGTCTTGTGTCTGAAAAATCACCATAG-CC-T
1 CCATGGTCTTATG--T-AAACATTGCCATAGTCCAA
*
32734045 CGCTATGGTCTTATGTAAACATTGCCATGGTCCAA
1 C-C-ATGGTCTTATGTAAACATTGCCATAGTCCAA
32734080 CCATGGTCTT
1 CCATGGTCTT
32734090 GTACATCTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
32 1 0.02
33 28 0.47
34 5 0.08
35 5 0.08
36 20 0.34
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (33 bp):
CCATGGTCTTATGTAAACATTGCCATAGTCCAA
Found at i:32734090 original size:69 final size:69
Alignment explanation
Indices: 32733929--32734091 Score: 249
Period size: 69 Copynumber: 2.4 Consensus size: 69
32733919 ATATATACAC
** *
32733929 TGCCATGGTCCAACCATGGTCTTACGTCTGAAAAACTACCATAGCTTCGCCATGGTCTTACTTAA
1 TGCCATGGTCCAACCATGGTCTTGTGTCTGAAAAACTACCATAGCCTCGCCATGGTCTTACTTAA
32733994 ACAT
66 ACAT
* *
32733998 TGCCATTGTCCAACCATGGTCTTGTGTCTGAAAAA-TCACCATAGCCTCGCTATGGTCTTA-TGT
1 TGCCATGGTCCAACCATGGTCTTGTGTCTGAAAAACT-ACCATAGCCTCGCCATGGTCTTACT-T
32734061 AAACAT
64 AAACAT
32734067 TGCCATGGTCCAACCATGGTCTTGT
1 TGCCATGGTCCAACCATGGTCTTGT
32734092 ACATCTTTAT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
68 2 0.02
69 84 0.98
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (69 bp):
TGCCATGGTCCAACCATGGTCTTGTGTCTGAAAAACTACCATAGCCTCGCCATGGTCTTACTTAA
ACAT
Found at i:32750889 original size:17 final size:16
Alignment explanation
Indices: 32750858--32750891 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
32750848 AAATATTATG
32750858 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
32750874 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
32750891 A
1 A
32750892 CGCCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:32758912 original size:6 final size:6
Alignment explanation
Indices: 32758901--32758975 Score: 66
Period size: 6 Copynumber: 12.8 Consensus size: 6
32758891 AATAAATAAA
* *
32758901 TTTTAT TTTTAT GTTTAT TTTTA- TTTTA- TTTTA- TTTTAT TTTTAA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * *
32758946 TTTTAT TATATCT TTTTAA GTTTAT TTTTA
1 TTTTAT T-TTTAT TTTTAT TTTTAT TTTTA
32758976 ATTAAATTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
5 15 0.27
6 36 0.65
7 4 0.07
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:32758969 original size:25 final size:25
Alignment explanation
Indices: 32758941--32758988 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
32758931 TTATTTTATT
*
32758941 TTTAATTTT-ATTATATCTTTTTAAG
1 TTTAATTTTAATTAAAT-TTTTTAAG
*
32758966 TTTATTTTTAATTAAATTTTTTA
1 TTTAATTTTAATTAAATTTTTTA
32758989 GATATGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTAATTTTAATTAAATTTTTTAAG
Found at i:32761947 original size:41 final size:41
Alignment explanation
Indices: 32761874--32761996 Score: 176
Period size: 41 Copynumber: 3.0 Consensus size: 41
32761864 AAGTGTTTTT
*
32761874 AGGGGTACTGAAGTACAAAC-GGGGCACATATGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTC
* * *
32761914 AGGGGTACCGAACTATAAACAGGGGCACGTATGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTC
* * *
32761955 AAGGGTATCAAAGTACAAACAGGGGCACATATGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTC
32761996 A
1 A
32761997 ACGCTACTCC
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 17 0.24
41 55 0.76
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.20
Consensus pattern (41 bp):
AGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTC
Found at i:32764693 original size:51 final size:49
Alignment explanation
Indices: 32764568--32764760 Score: 190
Period size: 51 Copynumber: 3.8 Consensus size: 49
32764558 ATTATTATCA
* * * * *
32764568 TTCGATACACGTAGTAGCCTTCACATAATGCTACACACGTGA-TCAAAATT
1 TTCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACT-AAAA-C
* * *
32764618 TTCGGTTCACATAGTAGCCTGCACATAGTACTACACACGTGACTAAAGCC
1 TTCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACTAAA-AC
* * * *
32764668 TTCCGATACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATC
1 TT-CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACTA-AAAC
* **
32764719 TATCGATACACGTAGTAGCCTGCATTTAGTACTACACACGTG
1 T-TCGATACACATAGTAGCCTGCACATAGTACTACACACGTG
32764761 TTTATAGGCA
Statistics
Matches: 120, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
50 41 0.34
51 77 0.64
52 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (49 bp):
TTCGATACACATAGTAGCCTGCACATAGTACTACACACGTGACTAAAAC
Found at i:32774659 original size:16 final size:16
Alignment explanation
Indices: 32774638--32774692 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
32774628 GTTTGGTTCA
*
32774638 CTGTAATGGAATAGAG
1 CTGTAATAGAATAGAG
32774654 CTGTAATTA-AATAGAG
1 CTGTAA-TAGAATAGAG
* *
32774670 CAGTAATAGAATAAAG
1 CTGTAATAGAATAGAG
*
32774686 TTGTAAT
1 CTGTAAT
32774693 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 2 0.06
16 29 0.91
17 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:32778880 original size:23 final size:23
Alignment explanation
Indices: 32778816--32779227 Score: 317
Period size: 23 Copynumber: 18.0 Consensus size: 23
32778806 TTTGCAGCAC
* *
32778816 TTAAACACTTCAATTGACATCAT
1 TTAAACACTTCAATTTACAACAT
* * *
32778839 TTGAGCACCTT-AATTTACAACAA
1 TTAAACA-CTTCAATTTACAACAT
*
32778862 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAACAT
* *
32778885 TTAAACACCTCAACTTACAACACT
1 TTAAACACTTCAATTTACAACA-T
*
32778909 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAACAT
* *
32778931 TTATACACCTCAA-TTACAACAT
1 TTAAACACTTCAATTTACAACAT
* * *
32778953 TTAAATACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAACA-T
*
32778977 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAACAT
*
32778999 TTAAACACTTCAATTTGCAACACT
1 TTAAACACTTCAATTTACAACA-T
32779023 TT-AACACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAACAT
** *
32779045 TTAAACACTTCAATTTGTAGCACT
1 TTAAACACTTCAATTTACAACA-T
* *
32779069 TT-AACA-TCTCTATTAACAACAT
1 TTAAACACT-TCAATTTACAACAT
* * *
32779091 TTATACACTTCAA-TTACAGCAA
1 TTAAACACTTCAATTTACAACAT
* * ** *
32779113 TAAAACA-TCTCAATTTCCAGGAA
1 TTAAACACT-TCAATTTACAACAT
* * *
32779136 CTAAACAATTCAATTTGCAGTAC-T
1 TTAAACACTTCAATTTACA--ACAT
* *
32779160 TAAAACACTTTAATTTACAACAT
1 TTAAACACTTCAATTTACAACAT
* *
32779183 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAACA-T
32779207 TT-AACACTTCAATTTACAACA
1 TTAAACACTTCAATTTACAACA
32779228 AACATGTTGG
Statistics
Matches: 305, Mismatches: 62, Indels: 44
0.74 0.15 0.11
Matches are distributed among these distances:
21 1 0.00
22 51 0.17
23 219 0.72
24 34 0.11
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAACAT
Found at i:32778886 original size:46 final size:46
Alignment explanation
Indices: 32778816--32779227 Score: 353
Period size: 46 Copynumber: 9.0 Consensus size: 46
32778806 TTTGCAGCAC
* * *
32778816 TTAAACACTTCAA-TTGACATCA-TTTGAGCACCTTAATTTACAACAA
1 TTAAACACTTCAATTTG-CAGCACTTT-AACACCTTAATTTACAACAT
* * *
32778862 TTAAACACTTCAATTTACAGCA-TTTAAACACCTCAACTTACAACACT
1 TTAAACACTTCAATTTGCAGCACTTT-AACACCTTAATTTACAACA-T
** * *
32778909 TT-AACA-TCTCAATTAACAACA-TTTATACACCTCAA-TTACAACAT
1 TTAAACACT-TCAATTTGCAGCACTTTA-ACACCTTAATTTACAACAT
* *
32778953 TTAAATACTTCAATTTGCAGCACTTTAACA-CTTCAATTTACAGCAT
1 TTAAACACTTCAATTTGCAGCACTTTAACACCTT-AATTTACAACAT
*
32778999 TTAAACACTTCAATTTGCAACACTTTAACA-CTTCAATTTACAACAT
1 TTAAACACTTCAATTTGCAGCACTTTAACACCTT-AATTTACAACAT
* * *
32779045 TTAAACACTTCAATTTGTAGCACTTTAACATCTCT-ATTAACAACAT
1 TTAAACACTTCAATTTGCAGCACTTTAACACCT-TAATTTACAACAT
* * * ** * * * ** *
32779091 TTATACACTTCAA-TTACAGCAATAAAACATCTCAATTTCCAGGAA
1 TTAAACACTTCAATTTGCAGCACTTTAACACCTTAATTTACAACAT
* * * * *
32779136 CTAAACAATTCAATTTGCAGTACTTAAAACACTTTAATTTACAACAT
1 TTAAACACTTCAATTTGCAGCACTT-TAACACCTTAATTTACAACAT
32779183 TTAAACACTTCAATTTGCAGCACTTTAACA-CTTCAATTTACAACA
1 TTAAACACTTCAATTTGCAGCACTTTAACACCTT-AATTTACAACA
32779228 AACATGTTGG
Statistics
Matches: 299, Mismatches: 52, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
44 5 0.02
45 60 0.20
46 191 0.64
47 42 0.14
48 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (46 bp):
TTAAACACTTCAATTTGCAGCACTTTAACACCTTAATTTACAACAT
Found at i:32779036 original size:114 final size:114
Alignment explanation
Indices: 32778816--32779224 Score: 370
Period size: 114 Copynumber: 3.6 Consensus size: 114
32778806 TTTGCAGCAC
* * * ** * * * *
32778816 TTAAACACTTCAATTGACATCATTTGAGCACCTT-AATTTACAACAATTAAACACTTCAATTTAC
1 TTAAACACTTCAATTTACAACATTTAAATA-CTTCAATTTGCAGCACTTTAACACTTCAATTTAC
* * *
32778880 AGCATTTAAACACCTCAACTTACAACACTTTAACATCTCAATTAACAACAT
65 AGCATTTAAACACTTCAATTTACAACACTTTAACAT-TCAATTTACAACAT
* *
32778931 TTATACACCTCAA-TTACAACATTTAAATACTTCAATTTGCAGCACTTTAACACTTCAATTTACA
1 TTAAACACTTCAATTTACAACATTTAAATACTTCAATTTGCAGCACTTTAACACTTCAATTTACA
*
32778995 GCATTTAAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAACAT
66 GCATTTAAACACTTCAATTTACAACACTTTAACA-TTCAATTTACAACAT
** * * ** *
32779045 TTAAACACTTCAATTTGTAGCACTTTAACAT-C-TCTATTAACAACA-TTTATACACTTCAA-TT
1 TTAAACACTTCAATTTACAACA-TTTAA-ATACTTCAATTTGCAGCACTTTA-ACACTTCAATTT
* * * * *
32779106 ACAGCAATAAAACA-TCTCAATTTCCAGGA-AC-TAAACAATTCAATTTGCAGTAC-T
63 ACAGCATTTAAACACT-TCAATTTACA--ACACTTTAAC-ATTCAATTTACA--ACAT
* * *
32779160 TAAAACACTTTAATTTACAACATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACA
1 TTAAACACTTCAATTTACAACATTTAAATACTTCAATTTGCAGCACTTTAACACTTCAATTTACA
32779225 ACAAACATGT
Statistics
Matches: 239, Mismatches: 39, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
113 5 0.02
114 140 0.59
115 74 0.31
116 18 0.08
117 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.33
Consensus pattern (114 bp):
TTAAACACTTCAATTTACAACATTTAAATACTTCAATTTGCAGCACTTTAACACTTCAATTTACA
GCATTTAAACACTTCAATTTACAACACTTTAACATTCAATTTACAACAT
Found at i:32779071 original size:160 final size:158
Alignment explanation
Indices: 32778805--32779227 Score: 503
Period size: 160 Copynumber: 2.6 Consensus size: 158
32778795 ATTATATATT
* * * * *
32778805 ATTTGCAGCACTTAAACACTTCAATTGACATCATTTGAGCACCTTAATTTACAACAATTAAACAC
1 ATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACA-CTTAATTTACAAC-ATTTAACAC
* *
32778870 TTCAATTTACAGCATTTAAACACCTCAACTTACAACACTTTAACATCTCAATTAACAACATTTAT
64 TTCAATTTACAGCATTTAAACACTTCAATTTACAACACTTTAACATCTCAATTAACAACATTTAT
*
32778935 ACACCTCAATTACAACATTTAAATAC-T-TCA
129 ACACCTCAATTACAACA-ATAAA-ACATCTCA
* *
32778965 ATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAACACTTTAACAC
1 ATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTT-AATTTACAACA-TTTAACAC
* ** * *
32779030 TTCAATTTACAACATTTAAACACTTCAATTTGTAGCACTTTAACATCTCTATTAACAACATTTAT
64 TTCAATTTACAGCATTTAAACACTTCAATTTACAACACTTTAACATCTCAATTAACAACATTTAT
* *
32779095 ACACTTCAATTACAGCAATAAAACATCTCA
129 ACACCTCAATTACAACAATAAAACATCTCA
* * * * * *
32779125 ATTTCCAGGAAC-TAAACAATTCAATTTGCAGTACTTAAAACACTTTAATTTACAACATTTAAAC
1 ATTTGCA-GCACTTAAACACTTCAATTTACAGCA-TTTAAACAC-TTAATTTACAACATTT-AAC
*
32779189 ACTTCAATTTGCAGCACTTT-AACACTTCAATTTACAACA
62 ACTTCAATTTACAGCA-TTTAAACACTTCAATTTACAACA
32779228 AACATGTTGG
Statistics
Matches: 224, Mismatches: 30, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
158 2 0.01
159 9 0.04
160 154 0.69
161 54 0.24
162 5 0.02
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.33
Consensus pattern (158 bp):
ATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAATTTACAACATTTAACACTT
CAATTTACAGCATTTAAACACTTCAATTTACAACACTTTAACATCTCAATTAACAACATTTATAC
ACCTCAATTACAACAATAAAACATCTCA
Found at i:32787038 original size:22 final size:22
Alignment explanation
Indices: 32787007--32787048 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
32786997 TTATTTTTAC
32787007 ATATACTAATAAATTTATATAT
1 ATATACTAATAAATTTATATAT
*
32787029 ATATATTAATAAATTTATAT
1 ATATACTAATAAATTTATAT
32787049 TTTAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATACTAATAAATTTATATAT
Found at i:32788545 original size:29 final size:28
Alignment explanation
Indices: 32788483--32788546 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
32788473 CGGTATATAA
*
32788483 AAAATTAATAAATAAATTATGAGGTGATG
1 AAAATTAATAAATAAATTATAAGGTGA-G
32788512 AAAATTAATAAA-AAATTGATTAAGGTG-G
1 AAAATTAATAAATAAATT-A-TAAGGTGAG
32788540 ACAAATT
1 A-AAATT
32788547 TTATTACGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
28 7 0.23
29 18 0.58
30 6 0.19
ACGTcount: A:0.53, C:0.02, G:0.16, T:0.30
Consensus pattern (28 bp):
AAAATTAATAAATAAATTATAAGGTGAG
Found at i:32790760 original size:17 final size:19
Alignment explanation
Indices: 32790738--32790777 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
32790728 GATGAATAGA
32790738 TATATTATAT-ATT-ATAT
1 TATATTATATGATTAATAT
32790755 TATATTATATGATTAATAT
1 TATATTATATGATTAATAT
32790774 TATA
1 TATA
32790778 GAATATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.48
18 3 0.14
19 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TATATTATATGATTAATAT
Found at i:32790783 original size:24 final size:24
Alignment explanation
Indices: 32790737--32790783 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
32790727 GGATGAATAG
**
32790737 ATATATTATATATTATATTATATT
1 ATATATTATATATTATAGAATATT
32790761 ATATGATTA-ATATTATAGAATAT
1 ATAT-ATTATATATTATAGAATAT
32790784 AATAGAAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
ATATATTATATATTATAGAATATT
Found at i:32792777 original size:102 final size:102
Alignment explanation
Indices: 32792599--32792792 Score: 225
Period size: 102 Copynumber: 1.9 Consensus size: 102
32792589 GTAAGTTTTA
* * * *
32792599 TGAAAAATAGAATGCTATTTTGGTACCGTTTTTAAGATGGGGTATGATATTTCTGAAAATATCGA
1 TGAAAAATAGAATGCTATTTTGGTACCGCTTTTAAGAT-GGGTATAATAATTCTGAAAATATCAA
** *
32792664 TACTTTACC-AAAAGTTAACGATACTTAATTGGGTTTG
65 TACTAGACCAAAAAGGTAACGATACTTAATTGGGTTTG
*
32792701 TGAAAAATAGAATG-TCATTTTGGTATCGCTTTTAAGAAT-GGTATCAATAATTCAT-AAAATAT
1 TGAAAAATAGAATGCT-ATTTTGGTACCGCTTTTAAG-ATGGGTAT-AATAATTC-TGAAAATAT
* *
32792763 CAATACTAGGCCAAAAAGGTATCGATACTT
62 CAATACTAGACCAAAAAGGTAACGATACTT
32792793 TTTAGCCTAG
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
101 6 0.08
102 53 0.69
103 18 0.23
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (102 bp):
TGAAAAATAGAATGCTATTTTGGTACCGCTTTTAAGATGGGTATAATAATTCTGAAAATATCAAT
ACTAGACCAAAAAGGTAACGATACTTAATTGGGTTTG
Found at i:32802819 original size:19 final size:19
Alignment explanation
Indices: 32802795--32802832 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
32802785 AAAGTTAATA
32802795 ACAAATTTGATTACAGTGG
1 ACAAATTTGATTACAGTGG
*
32802814 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACAGTGG
32802833 GTGATATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ACAAATTTGATTACAGTGG
Found at i:32809468 original size:4 final size:4
Alignment explanation
Indices: 32809459--32809485 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
32809449 TAATTCAATC
32809459 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
32809486 CATACAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:32810739 original size:279 final size:284
Alignment explanation
Indices: 32810238--32811083 Score: 1187
Period size: 279 Copynumber: 2.9 Consensus size: 284
32810228 ATAATTAAAA
*
32810238 ATAAATTATTTAATGTTAGAAAACCACACAAACCGTCCACCCGTCCACCATTATTGAATTATGGC
1 ATAAATTATTTAATGTTAGAAAACCACACAAACCGTCCA-CCGTCCACCATTATAGAATTATGGC
* **
32810303 ATAATTACCAATTTGAATCTTAATCACTTATTAATTAAGCC-TTTTAGTTACTAAAAATCAATTT
65 ATAATTACCAATTTGAACCTTAATCACTTATTAATTAAGCCATTTTAGTTACTAAAAATCAATAC
* *
32810367 CGATTAATTTTTACAGTTTTTATAATTTAGTCCTTTTTCCATAATTAACCATCCAAACACTAAAT
130 CGATTAATTTTTACAGTTTTTACAATTTAGTCCTTTTTCCATTATTAACCATCCAAACAC-AAAT
32810432 TTTTTT-AACCAACTTCAATTCACCTATATATCAGTTCTGTACATATTTTATTAAATATTTAC-G
194 TTTTTTGAACCAACTTCAATTCACCTATATATCAGTTCTGTA-ATATTTTATTAAATATTTACAG
*
32810495 GACTCTGTTTAA-C-C-A-T-TTTAATT
258 G-CTCGGTTTAACCTCTATTATTTAATT
* * * *
32810518 -TAAATTATTTAATGTTAAAAAACCACACCAACCGTCCACTCGTCCACTACTATAGAATTATGGC
1 ATAAATTATTTAATGTTAGAAAACCACACAAACCGTCCAC-CGTCCACCATTATAGAATTATGGC
* *
32810582 ATAATTATCAATTTGAACCTTAATCACTTATTAATTAAACCATTTTAGTTACTAAAAATCAATAC
65 ATAATTACCAATTTGAACCTTAATCACTTATTAATTAAGCCATTTTAGTTACTAAAAATCAATAC
* *
32810647 CGATTAATTTTTACAATTTTTACGATTTAGTCCTTTTTCCATTATTAACCATCCAAACAC-AATT
130 CGATTAATTTTTACAGTTTTTACAATTTAGTCCTTTTTCCATTATTAACCATCCAAACACAAATT
* *
32810711 TTTTTGAACCAATTTCAATTCACCTATATATCAGTTCCGTAAGTATTTTATTAAATATTTACAGG
195 TTTTTGAACCAACTTCAATTCACCTATATATCAGTTCTGTAA-TATTTTATTAAATATTTACAGG
32810776 CTCGGTTTAACCATTTTCATTTTAATTATTTAATT
259 CTCGGTTTAACC----TC----T-ATTATTTAATT
*
32810811 AAAAATAAATTATTTAATGTTAGAAAACCACACAAACCATCCACCTGTCCACCATTATAGAATTA
1 ----ATAAATTATTTAATGTTAGAAAACCACACAAACCGTCCACC-GTCCACCATTATAGAATTA
32810876 TGGCATAATTACCAATTTGAACCTTAATCACTTATTAATTAAGCCA-TTTAGTTACTAAAAATCA
61 TGGCATAATTACCAATTTGAACCTTAATCACTTATTAATTAAGCCATTTTAGTTACTAAAAATCA
*
32810940 ATACCGATTAATTTTTACAGTTTTTACAATTTAGTCCTTTTTTCA-TAGTTAACCATCCAAACAC
126 ATACCGATTAATTTTTACAGTTTTTACAATTTAGTCCTTTTTCCATTA-TTAACCATCCAAACAC
* *
32811004 TAAACTTTTTTGGACCAACTTCAATTCACCTATATA-CTAGTTCTGTAAATATTTTATTAAATAT
190 -AAATTTTTTTGAACCAACTTCAATTCACCTATATATC-AGTTCTGT-AATATTTTATTAAATAT
*
32811068 TTACAAGCTCGGTTTA
252 TTACAGGCTCGGTTTA
32811084 TAGAAACAAG
Statistics
Matches: 504, Mismatches: 32, Indels: 41
0.87 0.06 0.07
Matches are distributed among these distances:
278 11 0.02
279 156 0.31
280 80 0.16
285 1 0.00
291 1 0.00
292 1 0.00
293 7 0.01
296 2 0.00
297 77 0.15
298 98 0.19
299 68 0.13
300 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (284 bp):
ATAAATTATTTAATGTTAGAAAACCACACAAACCGTCCACCGTCCACCATTATAGAATTATGGCA
TAATTACCAATTTGAACCTTAATCACTTATTAATTAAGCCATTTTAGTTACTAAAAATCAATACC
GATTAATTTTTACAGTTTTTACAATTTAGTCCTTTTTCCATTATTAACCATCCAAACACAAATTT
TTTTGAACCAACTTCAATTCACCTATATATCAGTTCTGTAATATTTTATTAAATATTTACAGGCT
CGGTTTAACCTCTATTATTTAATT
Found at i:32813451 original size:51 final size:51
Alignment explanation
Indices: 32813330--32813516 Score: 164
Period size: 51 Copynumber: 3.7 Consensus size: 51
32813320 GAAGTTGCTA
* * * * * *
32813330 GATCACGTGTGTAATACTATGTGCAGGCTACTACGTGTATCGGAATG--ATA
1 GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGG-ATGAAATT
* * * * * **
32813380 GGTCGCATGTGTTGTACTATGTACTGGCTACTATGCGTACCGGAT-AGCTT
1 GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAATT
* * * *
32813430 CGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAATT
1 -GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAATT
* *
32813482 GGTCACATGTGTAGTATTATGTGCAGGCTACTATG
1 GATCACATGTGTAGTACTATGTGCAGGCTACTATG
32813517 TGAACTGGGT
Statistics
Matches: 106, Mismatches: 27, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
49 2 0.02
50 34 0.32
51 67 0.63
52 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (51 bp):
GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAATT
Found at i:32816414 original size:29 final size:29
Alignment explanation
Indices: 32816367--32816430 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
32816357 TAATGAGGTT
*
32816367 TGGAGATAGATTGAGACTCACCAACCATAA
1 TGGA-ATAGATTAAGACTCACCAACCATAA
*
32816397 TGGAATAGATTAAGACTCACCAACCATGA
1 TGGAATAGATTAAGACTCACCAACCATAA
32816426 TGGAA
1 TGGAA
32816431 CTGGAAGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 28 0.88
30 4 0.12
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (29 bp):
TGGAATAGATTAAGACTCACCAACCATAA
Found at i:32819111 original size:20 final size:20
Alignment explanation
Indices: 32819083--32819121 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32819073 AAGGTTTCCA
32819083 TGAGCTAGTGTGAAAAAGTT
1 TGAGCTAGTGTGAAAAAGTT
* *
32819103 TGAGGTAGTGTGAGAAAGT
1 TGAGCTAGTGTGAAAAAGT
32819122 GAAGAACAAA
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:0.33, C:0.03, G:0.36, T:0.28
Consensus pattern (20 bp):
TGAGCTAGTGTGAAAAAGTT
Found at i:32819211 original size:17 final size:17
Alignment explanation
Indices: 32819189--32819223 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
32819179 TTATTTTGTG
32819189 TAAGTTCTTCATGAGCA
1 TAAGTTCTTCATGAGCA
32819206 TAAGTTCTTCATGAGCA
1 TAAGTTCTTCATGAGCA
32819223 T
1 T
32819224 GATTTTAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (17 bp):
TAAGTTCTTCATGAGCA
Found at i:32820858 original size:49 final size:50
Alignment explanation
Indices: 32820688--32820934 Score: 298
Period size: 50 Copynumber: 4.8 Consensus size: 50
32820678 ATTTGGGTAA
*
32820688 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
* * * * *
32820744 AGAGGTCCCATGTAAGACCATGTTTGGGACATGACGTTGGCACCAAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
32820794 AGAGGTCCCATGTAAGACCATGTCTGGGA-AAGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
32820843 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
32820893 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
32820935 GTACATTGGC
Statistics
Matches: 166, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
49 42 0.25
50 82 0.49
53 2 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:32820860 original size:99 final size:103
Alignment explanation
Indices: 32820688--32821151 Score: 460
Period size: 100 Copynumber: 4.4 Consensus size: 103
32820678 ATTTGGGTAA
32820688 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCC
* * * *
32820753 ATGTAAGACCATGTTTGGGACATGACGTTGGCACCAAGACG
63 ACGTAAGACCATGTCTGGGACATGACATGGGCACCAAGACG
* * *
32820794 AGAGGTCCCATGTAAGACCATGTCTGGGA-AAGGCATTGGCA-CC-GAG-ATGAGAGGTCCCCCG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACG
* * * *
32820855 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
66 TAAGACCATGTCTGGGACATGACATGGGCACCAAGACG
*
32820893 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACATTGGCATCCTTGAGATC
1 AGAGA-TCCCATGTAAGACCATGTCTGGG--A---CA-T-G--G--CATTGGCATCC-TGAGA--
* * * * * *
32820957 ATGAGAGGTCCCATGTAAGACCATGTTTGGAACATGGCGTTGGCACCAAGACG
51 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGACATGGGCACCAAGACG
* * *
32821010 AGAGGTCCCATGTAAGACCATGTCTGGAACATGGCATTGGCA-CC-GAG-ATGAGAGGTCCCCCG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACG
* * *
32821072 TAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
66 TAAGACCATGTCTGGGACATGACATGGGCACCAAGACG
* *
32821110 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
32821152 GTACATGAAA
Statistics
Matches: 299, Mismatches: 38, Indels: 48
0.78 0.10 0.12
Matches are distributed among these distances:
99 69 0.23
100 82 0.27
101 1 0.00
102 3 0.01
103 3 0.01
104 2 0.01
105 14 0.05
106 36 0.12
107 1 0.00
108 1 0.00
109 1 0.00
110 1 0.00
111 9 0.03
112 4 0.01
114 3 0.01
115 1 0.00
117 68 0.23
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACG
TAAGACCATGTCTGGGACATGACATGGGCACCAAGACG
Found at i:32821036 original size:117 final size:117
Alignment explanation
Indices: 32820840--32821051 Score: 298
Period size: 117 Copynumber: 1.8 Consensus size: 117
32820830 TGGCACCGAG
* * * * *
32820840 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGAACATGGCATGGGCACCAAGACGAGAACTCCCATG
* *
32820905 TAAGACCATATCTGGGATATGGCATTGGCAGTACATTGGCATCCTTGAGATC
66 TAAGACCATATCTGGAACATGGCATTGGCAGTACATTGGCATCCTTGAGATC
* * * * **
32820957 ATGAGAGGTCCCATGTAAGACCATGTTTGGAACATGGCGTTGGCACCAAGACGAGAGGTCCCATG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGAACATGGCATGGGCACCAAGACGAGAACTCCCATG
*
32821022 TAAGACCATGTCTGGAACATGGCATTGGCA
66 TAAGACCATATCTGGAACATGGCATTGGCA
32821052 CCGAGATGAG
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
117 81 1.00
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (117 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGAACATGGCATGGGCACCAAGACGAGAACTCCCATG
TAAGACCATATCTGGAACATGGCATTGGCAGTACATTGGCATCCTTGAGATC
Done.