Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 179 of 316
Found at i:57804292 original size:27 final size:26
Alignment explanation
Indices: 57804261--57804322 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
57804251 ATTTACTAAA
57804261 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAAGTAT-AAAATTACCATT
* * * * *
57804288 TTACCCTTAGGTGTAAACTTACCATT
1 ATACCCCTAAGTATAAAATTACCATT
57804314 ATACCCCTA
1 ATACCCCTA
57804323 GGGTTAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (26 bp):
ATACCCCTAAGTATAAAATTACCATT
Found at i:57804499 original size:27 final size:26
Alignment explanation
Indices: 57804427--57804540 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 26
57804417 AGAGGAAGCA
*
57804427 TTCTGGTGGCTATGCCACAAATATCTAT
1 TTCTGGTGGCTATGCCAC-AATATCT-G
*
57804455 TTCTGGTAGCTATGCCACAAATATCTG
1 TTCTGGTGGCTATGCCAC-AATATCTG
* *
57804482 TTCTGGTGGCTCTACCACAATATCTG
1 TTCTGGTGGCTATGCCACAATATCTG
* * *
57804508 TATCTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGGCTATGCCACAATATCTG
57804535 TTCTGG
1 TTCTGG
57804541 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 14 0.18
27 38 0.49
28 25 0.32
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCACAATATCTG
Found at i:57804528 original size:54 final size:54
Alignment explanation
Indices: 57804427--57804540 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
57804417 AGAGGAAGCA
* *
57804427 TTCTGGTGGCTATGCCACAAATATCTATTTCTGGTAGCTATGCCACAAATATCTG
1 TTCTGGTGGCTATACCACAAATATCTATATCTGGTAGCTATGCCAC-AATATCTG
* * * *
57804482 TTCTGGTGGCTCTACCAC-AATATCTGTATCTGGT-GACTCTGTCACAATATCTG
1 TTCTGGTGGCTATACCACAAATATCTATATCTGGTAG-CTATGCCACAATATCTG
57804535 TTCTGG
1 TTCTGG
57804541 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 15 0.29
54 21 0.40
55 16 0.31
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (54 bp):
TTCTGGTGGCTATACCACAAATATCTATATCTGGTAGCTATGCCACAATATCTG
Found at i:57806359 original size:4 final size:4
Alignment explanation
Indices: 57806350--57806374 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
57806340 TTACTATCAA
57806350 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
57806375 GTTTTTTTAA
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:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:57807401 original size:17 final size:16
Alignment explanation
Indices: 57807375--57807415 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
57807365 AATAATGTTT
57807375 AAATAGAAATAAAAGTAA
1 AAATA-AAATAAAAGT-A
*
57807393 AAATAAAATAATAGTA
1 AAATAAAATAAAAGTA
57807409 AAATAAA
1 AAATAAA
57807416 CGGACTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 9 0.41
18 5 0.23
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (16 bp):
AAATAAAATAAAAGTA
Found at i:57819426 original size:29 final size:29
Alignment explanation
Indices: 57819382--57819500 Score: 145
Period size: 29 Copynumber: 4.2 Consensus size: 29
57819372 GTGAGCATGA
*
57819382 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
*
57819410 ATATGAATATGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
57819439 ATAAGAATATGAACTGGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * *
57819468 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
57819496 ATATG
1 ATATG
57819501 CATGTATGTA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
28 22 0.29
29 55 0.71
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:57819449 original size:58 final size:57
Alignment explanation
Indices: 57819386--57819498 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 57
57819376 GCATGAATAT
** *
57819386 AATATGATTTGGGCCTA-ATGGGCCATATGAATATGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAATAAG-ATTGGGCCTAGTGGGCCATAAG
*
57819444 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATA
57819499 TGCATGTATG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 21 0.42
58 29 0.58
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATAAG
Found at i:57822151 original size:30 final size:30
Alignment explanation
Indices: 57822108--57822164 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
57822098 ACGACTATGA
*
57822108 CACACGAGTGTGTGGTCTACCCGTGTACTT
1 CACACGAGCGTGTGGTCTACCCGTGTACTT
* *
57822138 CACACGGGCGTGTGGTTTACCCGTGTA
1 CACACGAGCGTGTGGTCTACCCGTGTA
57822165 GAAGTGCCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (30 bp):
CACACGAGCGTGTGGTCTACCCGTGTACTT
Found at i:57827134 original size:10 final size:11
Alignment explanation
Indices: 57827119--57827166 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
57827109 ATTTTGATGT
*
57827119 ACATGATTTG-
1 ACATGATATGC
57827129 ACATGATATGC
1 ACATGATATGC
57827140 ACATGATATG-
1 ACATGATATGC
*
57827150 -TATGATATGC
1 ACATGATATGC
57827160 ACATGAT
1 ACATGAT
57827167 GTATTCATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:57827513 original size:31 final size:31
Alignment explanation
Indices: 57827478--57827590 Score: 135
Period size: 31 Copynumber: 3.7 Consensus size: 31
57827468 CATTTACAGT
* *
57827478 AAAGGCTTTGGCCCGGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
57827509 AAAGGCTTCGGCACAGTGATATGAATTATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
**
57827540 AAAGGCTTCGGCCCAGT-A-ATCGTTTAATG-
1 AAAGGCTTCGGCCCAGTGATAT-GAATAATGA
57827569 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
57827591 TTGAGACTGA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
29 21 0.29
30 8 0.11
31 43 0.60
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:57837397 original size:30 final size:30
Alignment explanation
Indices: 57837351--57837409 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
57837341 TTTACGAGCC
* *
57837351 TAGGGGCCAAAGTGCAAATATGTGAAAGTT
1 TAGGGGCCAAAATGCAAATATGTAAAAGTT
* *
57837381 TAGGGGTCAAAATGCAAATTTGTAAAAGT
1 TAGGGGCCAAAATGCAAATATGTAAAAGT
57837410 ATGATTTCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.25
Consensus pattern (30 bp):
TAGGGGCCAAAATGCAAATATGTAAAAGTT
Found at i:57839441 original size:46 final size:46
Alignment explanation
Indices: 57839374--57839545 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
57839364 AACCCGCCCC
* *
57839374 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
57839420 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
57839468 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
57839513 TAGGTGAACTCGAACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
57839546 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 58 0.55
47 28 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:57839487 original size:93 final size:93
Alignment explanation
Indices: 57839379--57839549 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
57839369 GCCCCTAAGT
* * *
57839379 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
57839444 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
57839472 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGAACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
57839537 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57839550 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57840520 original size:50 final size:50
Alignment explanation
Indices: 57840440--57840674 Score: 183
Period size: 50 Copynumber: 4.7 Consensus size: 50
57840430 CCTGTTAACT
* * * *
57840440 TTAA-TCACGTGTGTAGTATTAA-TTGTAGGCTACTACATGTATCAGATGG
1 TTAAGTCACGTGTGTAGTACTAAGTT-CAGGCTACTACATATACCAGATGG
* *
57840489 TTAAGTCACGTGTGTAGTACTAAGTTCAGGCTACTACATGTACCAGATTG
1 TTAAGTCACGTGTGTAGTACTAAGTTCAGGCTACTACATATACCAGATGG
* * * * * * * * **
57840539 AT-AGTCGCATGTGTACTACTAAGTGCAGGCTACTACACATACCCGTTAAC
1 TTAAGTCACGTGTGTAGTACTAAGTTCAGGCTACTACATATACCAGAT-GG
* * * * *
57840589 TT-CGATCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTATATCAGATGG
1 TTAAG-TCACGTGTGTAGTACTAAGTTCAGGCTACTACATATACCAGATGG
* * *
57840639 TTAACTCACGTATTTAGTACTAAGTGT-AGGCTACTA
1 TTAAGTCACGTGTGTAGTACTAAGT-TCAGGCTACTA
57840675 TGTGTACTAG
Statistics
Matches: 146, Mismatches: 34, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
49 41 0.28
50 69 0.47
51 36 0.25
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (50 bp):
TTAAGTCACGTGTGTAGTACTAAGTTCAGGCTACTACATATACCAGATGG
Found at i:57840663 original size:150 final size:151
Alignment explanation
Indices: 57840376--57840724 Score: 477
Period size: 150 Copynumber: 2.3 Consensus size: 151
57840366 ATTACATATG
* ** * *
57840376 TGTACCAAATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGTTAACTT
1 TGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACACATACCCGTTAACTT
* * * * * * * *
57840441 TAATCACGTGTGTAGTATTAATTGTAGGCTACTACATGTATCAGATGGTTAAGTCACGTGTGTAG
66 CAATCAAGTGTGTAGTACTAAGTGCAGGCTACTACATATATCAGATGGTTAACTCACGTATGTAG
57840506 TACTAAGT-TCAGGCTACTACA
131 TACTAAGTGT-AGGCTACTACA
*
57840527 TGTACCAGATTGATA-GTCGCATGTGTACTACTAAGTGCAGGCTACTACACATACCCGTTAACTT
1 TGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACACATACCCGTTAACTT
* * *
57840591 CGATCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTATATCAGATGGTTAACTCACGTATTTAG
66 CAATCAAGTGTGTAGTACTAAGTGCAGGCTACTACATATATCAGATGGTTAACTCACGTATGTAG
**
57840656 TACTAAGTGTAGGCTACTATG
131 TACTAAGTGTAGGCTACTACA
* * *
57840677 TGTACTAGATTGATAGGTCGCATGTGTAGTGCTAAGTGTAGGCTACTA
1 TGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
57840725 TGCTTACCAG
Statistics
Matches: 173, Mismatches: 23, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
150 129 0.75
151 44 0.25
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (151 bp):
TGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACACATACCCGTTAACTT
CAATCAAGTGTGTAGTACTAAGTGCAGGCTACTACATATATCAGATGGTTAACTCACGTATGTAG
TACTAAGTGTAGGCTACTACA
Found at i:57840956 original size:16 final size:16
Alignment explanation
Indices: 57840935--57840966 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57840925 AGAATAGAGT
57840935 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
57840951 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
57840967 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:57844611 original size:31 final size:31
Alignment explanation
Indices: 57844570--57844633 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
57844560 CCTTTTCATA
*
57844570 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
57844601 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
57844632 TT
1 TT
57844634 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:57844879 original size:24 final size:24
Alignment explanation
Indices: 57844846--57844992 Score: 235
Period size: 24 Copynumber: 6.2 Consensus size: 24
57844836 GGCCTTGCCT
*
57844846 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
57844870 CTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
57844894 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
57844917 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
57844941 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
57844965 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
57844988 CTTTT
1 CTTTT
57844993 TAACTTCCTC
Statistics
Matches: 114, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 43 0.38
24 71 0.62
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:57844944 original size:71 final size:71
Alignment explanation
Indices: 57844846--57844992 Score: 258
Period size: 71 Copynumber: 2.1 Consensus size: 71
57844836 GGCCTTGCCT
* *
57844846 CTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCG
1 CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
57844911 TAAGCC
66 TAAGCC
* *
57844917 CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
1 CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
57844982 TAAGCC
66 TAAGCC
57844988 CTTTT
1 CTTTT
57844993 TAACTTCCTC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (71 bp):
CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCA
TAAGCC
Found at i:57844992 original size:47 final size:48
Alignment explanation
Indices: 57844846--57844992 Score: 235
Period size: 47 Copynumber: 3.1 Consensus size: 48
57844836 GGCCTTGCCT
* *
57844846 CTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
* *
57844894 C-TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
*
57844941 CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
57844988 CTTTT
1 CTTTT
57844993 TAACTTCCTC
Statistics
Matches: 92, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
47 70 0.76
48 22 0.24
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (48 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
Found at i:57845067 original size:20 final size:20
Alignment explanation
Indices: 57845042--57845108 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
57845032 TTATGAATAC
*
57845042 ATCATGTGCATACCATACAT
1 ATCATGTGCATATCATACAT
57845062 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
57845082 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
57845102 ACCATGT
1 ATCATGT
57845109 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:57845177 original size:25 final size:25
Alignment explanation
Indices: 57845145--57845192 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57845135 ATACATAAAC
* * *
57845145 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
57845170 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
57845193 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:57847282 original size:15 final size:15
Alignment explanation
Indices: 57847249--57847287 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
57847239 TATGATATTG
*
57847249 TATCTTGGATTTCCT
1 TATCTTAGATTTCCT
57847264 TATCTTAGATTT-CT
1 TATCTTAGATTTCCT
57847278 CTATCTTAGA
1 -TATCTTAGA
57847288 GATCCTGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.21, C:0.18, G:0.10, T:0.51
Consensus pattern (15 bp):
TATCTTAGATTTCCT
Found at i:57860074 original size:30 final size:30
Alignment explanation
Indices: 57860029--57860088 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
57860019 ATTTAATACG
*
57860029 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
57860059 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
57860089 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:57862387 original size:30 final size:30
Alignment explanation
Indices: 57862353--57862411 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
57862343 TTTACAGGCC
* *
57862353 TAGGGGCCAAAGTGAAAATATGTGAAAGTT
1 TAGGGGCCAAAATGAAAATATGTAAAAGTT
* * *
57862383 TAGGGGTCAAAATGTAAATTTGTAAAAGT
1 TAGGGGCCAAAATGAAAATATGTAAAAGT
57862412 ATGATTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (30 bp):
TAGGGGCCAAAATGAAAATATGTAAAAGTT
Found at i:57862668 original size:18 final size:20
Alignment explanation
Indices: 57862632--57862678 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
57862622 AGTTGTAAGT
57862632 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
57862652 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
57862671 ATGATATA
1 AT-ATATA
57862679 ACCTGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:57863149 original size:50 final size:50
Alignment explanation
Indices: 57863025--57863309 Score: 214
Period size: 50 Copynumber: 5.7 Consensus size: 50
57863015 ATTCGTTGTG
* * * * * * **
57863025 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGAT-GGTTA
* * *
57863075 CGATCACGTGTTTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
1 AG-TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGTTA
* * * * **
57863126 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGTTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGAT-GGTTA
* * * * * * *
57863176 CGATCATGTGTGTAATACTAAGTGCAAGCTACTATGTGTATCAGATGGTTA
1 AG-TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGTTA
* ** * *
57863227 AGTCATGTGTACAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGTTA
* * * * *
57863277 GGTCGCATGTGTAGTACTAAATGCAGGCTACTA
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTA
57863310 TGCGTACTAG
Statistics
Matches: 181, Mismatches: 49, Indels: 10
0.75 0.20 0.04
Matches are distributed among these distances:
50 107 0.59
51 74 0.41
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGTTA
Found at i:57863208 original size:51 final size:51
Alignment explanation
Indices: 57863031--57863211 Score: 213
Period size: 51 Copynumber: 3.6 Consensus size: 51
57863021 TGTGAGTCAT
57863031 GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCAC
* * * * * * * ** *
57863082 GTGTTTAGTACTAAGTGTAGGCTACTACGTGTATCAGAT-GGTT-AAGTCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA-TCAC
* *
57863132 GTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGTTAACTTCGATCAT
1 GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCAC
* *
57863183 GTGTGTAATACTAAGTGCAAGCTACTATG
1 GTGTGTAGTACTAAGTGCAGGCTACTATG
57863212 TGTATCAGAT
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.01
50 39 0.38
51 63 0.61
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (51 bp):
GTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCAC
Found at i:57863267 original size:101 final size:101
Alignment explanation
Indices: 57863025--57863259 Score: 380
Period size: 101 Copynumber: 2.3 Consensus size: 101
57863015 ATTCGTTGTG
* * *
57863025 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTTTAG
1 AGTCATGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAA
* *
57863090 TACTAAGTGTAGGCTACTACGTGTATCAGATGGTTA
66 TACTAAGTGCAAGCTACTACGTGTATCAGATGGTTA
* *
57863126 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGTTAACTTCGATCATGTGTGTAA
1 AGTCATGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAA
*
57863191 TACTAAGTGCAAGCTACTATGTGTATCAGATGGTTA
66 TACTAAGTGCAAGCTACTACGTGTATCAGATGGTTA
**
57863227 AGTCATGTGTACAGTACTAAGTGTAGGCTACTA
1 AGTCATGTGTGTAGTACTAAGTGTAGGCTACTA
57863260 CGTGTACCAG
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 123 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (101 bp):
AGTCATGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAA
TACTAAGTGCAAGCTACTACGTGTATCAGATGGTTA
Found at i:57866899 original size:30 final size:30
Alignment explanation
Indices: 57866865--57866925 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57866855 TCCTTAACTC
57866865 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
57866895 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
57866925 A
1 A
57866926 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:57878656 original size:27 final size:27
Alignment explanation
Indices: 57878598--57878687 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
57878588 AGGAAGCTTC
*
57878598 CTGGTGGCTA-TGCCACAAATTATCTACT
1 CTGGTGGC-ACTGCCACAAA-TATCTATT
* * *
57878626 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTATT
57878653 CTGGTGGCACTGCCACAAAATATCTATAT
1 CTGGTGGCACTGCCAC-AAATATCTAT-T
57878682 CTGGTG
1 CTGGTG
57878688 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 21 0.40
28 24 0.46
29 7 0.13
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTATT
Found at i:57878698 original size:29 final size:28
Alignment explanation
Indices: 57878608--57878698 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
57878598 CTGGTGGCTA
* * * *
57878608 TGCCACAAATTATCTACTCTGGTGGCCC
1 TGCCACAAAATATCTATTCTGGTGACAC
* * *
57878636 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTATTCTGGTGACAC
*
57878663 TGCCACAAAATATCTATATCTGGTGACTC
1 TGCCACAAAATATCTAT-TCTGGTGACAC
*
57878692 TGTCACA
1 TGCCACA
57878699 TTTTCTATAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 22 0.43
28 14 0.27
29 15 0.29
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTATTCTGGTGACAC
Found at i:57878712 original size:56 final size:55
Alignment explanation
Indices: 57878598--57878712 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 55
57878588 AGGAAGCTTC
* * * *
57878598 CTGGTGGCTATGCCACAAATTATCTACTCTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTAATCTGGTGACCCTGCCACATATATCTATT
* * *
57878653 CTGGTGGC-ACTGCCACAAAATATCTATATCTGGTGACTCTGTCACAT-TTTCTATAT
1 CTGGTGGCTA-TGCCACAAAATATCTA-ATCTGGTGACCCTGCCACATATATCTAT-T
57878709 CTGG
1 CTGG
57878713 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.56
56 21 0.42
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTAATCTGGTGACCCTGCCACATATATCTATT
Found at i:57882418 original size:7 final size:7
Alignment explanation
Indices: 57882406--57882469 Score: 69
Period size: 7 Copynumber: 9.1 Consensus size: 7
57882396 ACCTTATTTT
57882406 TATATTA
1 TATATTA
57882413 TATATTA
1 TATATTA
57882420 TATAATTA
1 TAT-ATTA
*
57882428 TTTTATTA
1 -TATATTA
57882436 TATATTA
1 TATATTA
*
57882443 TTTA-TA
1 TATATTA
57882449 T-TATTA
1 TATATTA
*
57882455 TTTATTA
1 TATATTA
57882462 TATATTA
1 TATATTA
57882469 T
1 T
57882470 TTTTCACAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
5 2 0.04
6 6 0.12
7 31 0.63
8 8 0.16
9 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATATTA
Found at i:57882434 original size:23 final size:26
Alignment explanation
Indices: 57882399--57882469 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
57882389 ATTTTTAACC
*
57882399 TTATTTTTATATTATATATTATATA-A
1 TTATTATT-TATTATATATTATATATA
*
57882425 TTA-T-TTTATTATATATTATTTATA
1 TTATTATTTATTATATATTATATATA
57882449 TTATTATTTATTATATATTAT
1 TTATTATTTATTATATATTAT
57882470 TTTTCACAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
23 15 0.37
24 6 0.15
25 2 0.05
26 18 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
TTATTATTTATTATATATTATATATA
Found at i:57882444 original size:3 final size:3
Alignment explanation
Indices: 57882399--57882565 Score: 64
Period size: 3 Copynumber: 54.0 Consensus size: 3
57882389 ATTTTTAACC
* *
57882399 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* **
57882443 TT- TATA TTA TTA TTTA TTA TATA TTA TTT TTCA CAAA TTA TTA TTA
1 TTA T-TA TTA TTA -TTA TTA T-TA TTA TTA TT-A -TTA TTA TTA TTA
*
57882489 TT- TTA -CA TTA TTA TTTA TATA TTA TTA TGTCA TT- TT- TTA -TA TTA
1 TTA TTA TTA TTA TTA -TTA T-TA TTA TTA T-T-A TTA TTA TTA TTA TTA
* * *
57882533 TTA TACA TTT TTA TCTA TATA TTA TTA TCA TTA
1 TTA T-TA TTA TTA T-TA T-TA TTA TTA TTA TTA
57882566 AAGGTTTTTA
Statistics
Matches: 124, Mismatches: 19, Indels: 42
0.67 0.10 0.23
Matches are distributed among these distances:
2 16 0.13
3 76 0.61
4 30 0.24
5 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:57882513 original size:30 final size:29
Alignment explanation
Indices: 57882405--57882516 Score: 93
Period size: 30 Copynumber: 3.6 Consensus size: 29
57882395 AACCTTATTT
57882405 TTATATTATATATTATATAATTATTTT-ATTA
1 TTAT-TTATATATTAT-T-ATTATTTTAATTA
* *
57882436 TATATTATTTATATTATTATTTATTATATATTA
1 T-TATT-TATATATTATTA-TTATTTTA-ATTA
* *
57882469 TT-TTTCACAAATTATTATTATTTTACATTA
1 TTATTT-ATATATTATTATTATTTTA-ATTA
57882499 TTATTTATATATTATTAT
1 TTATTTATATATTATTAT
57882517 GTCATTTTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
30 25 0.38
31 22 0.34
32 13 0.20
33 5 0.08
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (29 bp):
TTATTTATATATTATTATTATTTTAATTA
Found at i:57882544 original size:20 final size:22
Alignment explanation
Indices: 57882506--57882557 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
57882496 TTATTATTTA
*
57882506 TATATTATTATGTCATTTT-T-
1 TATATTATTATGACATTTTATC
57882526 TATATTATTAT-ACATTTTTATC
1 TATATTATTATGACA-TTTTATC
57882548 TATA-TATTAT
1 TATATTATTAT
57882558 TATCATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 15 0.54
21 7 0.25
22 4 0.14
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (22 bp):
TATATTATTATGACATTTTATC
Found at i:57882844 original size:18 final size:17
Alignment explanation
Indices: 57882820--57882879 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
57882810 CCAATATATT
57882820 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
57882837 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
57882853 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
57882871 TTATATTTT
1 TTATATTTT
57882880 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:57882864 original size:15 final size:16
Alignment explanation
Indices: 57882821--57882879 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
57882811 CAATATATTT
57882821 TATATTTTTTATATAA
1 TATATTTTTTATATAA
57882837 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
57882853 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
57882871 TTATATTTT
1 -TATATTTT
57882880 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:57882904 original size:26 final size:26
Alignment explanation
Indices: 57882856--57882905 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
57882846 TTATAAATAT
* * * *
57882856 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
57882882 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
57882906 TTTATTATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:57884929 original size:42 final size:43
Alignment explanation
Indices: 57884823--57884963 Score: 148
Period size: 42 Copynumber: 3.3 Consensus size: 43
57884813 TATGTGTTTT
* *
57884823 CATGTAAGACCACGTCT-GGA-ATGTTGGCATCGAT-TTGAGATTTA
1 CATGTAAGACCATGTCTGGGACA-G-TGGCATCGATATT-TGA-TTA
* *
57884867 CATGTAAGACCATGTTTGGGACA-TCGGCATC-ATATTTGATTT
1 CATGTAAGACCATGTCTGGGACAGT-GGCATCGATATTTGATTA
* *
57884909 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTA
1 CATGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTA
57884952 CATGTAAGACCA
1 CATGTAAGACCA
57884964 CATATAGGAC
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
42 28 0.35
43 26 0.32
44 23 0.28
45 3 0.04
46 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTA
Found at i:57884946 original size:43 final size:42
Alignment explanation
Indices: 57884810--57884963 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 42
57884800 TATAGGATTC
* * * * **
57884810 CGATATGTGTTTTCATGTAAGACCACGTCTGGAATGTTGGCAT
1 CGATATTTGATTTCATGTAAGACCATGTCTGGGA-CATGGCAT
* *
57884853 CGAT-TTGAGATTTACATGTAAGACCATGTTTGGGACATCGGCAT
1 CGATATT-TGATTT-CATGTAAGACCATGTCTGGGACAT-GGCAT
* *
57884897 C-ATATTTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTCATGTAAGACCATGTCTGGGACA-TGGCAT
*
57884939 CGATATTTGATTACATGTAAGACCA
1 CGATATTTGATTTCATGTAAGACCA
57884964 CATATAGGAC
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
42 27 0.30
43 37 0.41
44 26 0.29
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
CGATATTTGATTTCATGTAAGACCATGTCTGGGACATGGCAT
Found at i:57884980 original size:43 final size:43
Alignment explanation
Indices: 57884823--57884981 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
57884813 TATGTGTTTT
* * *
57884823 CATGTAAGACCACGTCTGGAATGTTGGCATCGAT-TTGAGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGA-TTA
* * * * *
57884867 CATGTAAGACCATGTTTGGGACATCGGCATC-ATATTTGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
*
57884909 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTA
* * *
57884952 CATGTAAGACCACATATAGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
57884982 TGTACGAGCC
Statistics
Matches: 91, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
42 27 0.30
43 36 0.40
44 28 0.31
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:57887172 original size:19 final size:20
Alignment explanation
Indices: 57887139--57887176 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
57887129 TTATAATATC
*
57887139 ATAAATAATATGAATAAAAA
1 ATAAATAATAGGAATAAAAA
57887159 ATAAA-AATAGGAATAAAA
1 ATAAATAATAGGAATAAAA
57887177 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
ATAAATAATAGGAATAAAAA
Found at i:57887626 original size:24 final size:24
Alignment explanation
Indices: 57887594--57887655 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
57887584 AACTAAGTGA
***
57887594 CACTATGTGTGCGAGATTCCCTGG
1 CACTATGTGTGCGAGAAAACCTGG
* *
57887618 CACTATGTGTGGGAGAAAACGTGG
1 CACTATGTGTGCGAGAAAACCTGG
57887642 CACTATGTGTGCGA
1 CACTATGTGTGCGA
57887656 ATAAGTAAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (24 bp):
CACTATGTGTGCGAGAAAACCTGG
Found at i:57891263 original size:31 final size:31
Alignment explanation
Indices: 57891216--57891278 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
57891206 GTTGCGAGTT
*
57891216 AGAGATTCTGACGTTCCTAAAACTGCTTTCA
1 AGAGATTCTGACGTTCCTAAAACTACTTTCA
* * *
57891247 AGAGATTTTGATGTTCCTAAGACTACTTTCA
1 AGAGATTCTGACGTTCCTAAAACTACTTTCA
57891278 A
1 A
57891279 AACGAGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (31 bp):
AGAGATTCTGACGTTCCTAAAACTACTTTCA
Found at i:57894118 original size:19 final size:20
Alignment explanation
Indices: 57894085--57894122 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
57894075 TTATAATATC
*
57894085 ATAAATAATATGAATAAAAA
1 ATAAATAATAGGAATAAAAA
57894105 ATAAA-AATAGGAATAAAA
1 ATAAATAATAGGAATAAAA
57894123 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
ATAAATAATAGGAATAAAAA
Found at i:57894568 original size:49 final size:48
Alignment explanation
Indices: 57894492--57894603 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 48
57894482 AGAAATTTCA
* * ** *
57894492 GCACTATGTGTGCAAGGTTATGCGACACTATGTGTGC-A-AAAACTAAGTG
1 GCACTATGTGTGCGAGATTACACGACACTATGTGTACGAGAAAAC---GTG
*
57894541 GCACTATGTGTGCGAGATTACATGACACTATGTGTACGAGAAAACGTG
1 GCACTATGTGTGCGAGATTACACGACACTATGTGTACGAGAAAACGTG
57894589 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
57894604 ATAAGTAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 18 0.33
49 31 0.56
50 1 0.02
51 5 0.09
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
GCACTATGTGTGCGAGATTACACGACACTATGTGTACGAGAAAACGTG
Found at i:57894574 original size:24 final size:24
Alignment explanation
Indices: 57894515--57894603 Score: 83
Period size: 24 Copynumber: 3.7 Consensus size: 24
57894505 AAGGTTATGC
57894515 GACACTATGTGTGC-A-AAAACTAAGT
1 GACACTATGTGTGCGAGAAAAC--A-T
* **
57894540 GGCACTATGTGTGCGAGATTACAT
1 GACACTATGTGTGCGAGAAAACAT
* *
57894564 GACACTATGTGTACGAGAAAACGT
1 GACACTATGTGTGCGAGAAAACAT
*
57894588 GGCACTATGTGTGCGA
1 GACACTATGTGTGCGA
57894604 ATAAGTAAGA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
24 34 0.65
25 14 0.27
26 1 0.02
27 3 0.06
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (24 bp):
GACACTATGTGTGCGAGAAAACAT
Found at i:57900931 original size:13 final size:13
Alignment explanation
Indices: 57900913--57900937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57900903 TAATTTATAT
57900913 GTGTGAAAATTTC
1 GTGTGAAAATTTC
57900926 GTGTGAAAATTT
1 GTGTGAAAATTT
57900938 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:57909016 original size:13 final size:13
Alignment explanation
Indices: 57908998--57909022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57908988 TAATTTATAT
57908998 GTGTGAAAATTTC
1 GTGTGAAAATTTC
57909011 GTGTGAAAATTT
1 GTGTGAAAATTT
57909023 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:57911754 original size:54 final size:54
Alignment explanation
Indices: 57911572--57911765 Score: 257
Period size: 55 Copynumber: 3.6 Consensus size: 54
57911562 TTACCATTTT
* * * *
57911572 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGC
1 CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
* **
57911625 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATGC
1 CATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGC
* * *
57911680 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGC
1 CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
*
57911734 CATGCCTTGGCATGGTCTTACATGATATCCTT
1 CATGCCTTGACATGGTCTTACATGATATCCTT
57911766 ATCTTACCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.02
53 32 0.26
54 42 0.34
55 45 0.37
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
Found at i:57911852 original size:47 final size:47
Alignment explanation
Indices: 57911744--57911865 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
57911734 CATGCCTTGG
* *
57911744 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
57911791 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
**
57911838 CATGGTCTTACATGGTATAATTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
57911866 GTGCCAATAC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:57912262 original size:45 final size:45
Alignment explanation
Indices: 57912211--57912300 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
57912201 AATGCTACTC
*
57912211 AACTTACATACTTACATTCTCAATCTCATCATATCATCAACTTAA
1 AACTTACATACTTACATTCTAAATCTCATCATATCATCAACTTAA
*
57912256 AACTTACATACTTATATTCTAAATCTCATCATATCATCAACTTAA
1 AACTTACATACTTACATTCTAAATCTCATCATATCATCAACTTAA
57912301 CTTATTCTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (45 bp):
AACTTACATACTTACATTCTAAATCTCATCATATCATCAACTTAA
Found at i:57917174 original size:10 final size:12
Alignment explanation
Indices: 57917153--57917186 Score: 54
Period size: 10 Copynumber: 3.0 Consensus size: 12
57917143 TTGAGTGATG
57917153 TGTAGAGAGATT
1 TGTAGAGAGATT
57917165 T-TAG-GAGATT
1 TGTAGAGAGATT
57917175 TGTAGAGAGATT
1 TGTAGAGAGATT
57917187 GGGAGTGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.35
11 6 0.30
12 7 0.35
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (12 bp):
TGTAGAGAGATT
Found at i:57919484 original size:43 final size:42
Alignment explanation
Indices: 57919431--57919549 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
57919421 TGAAAAGTAT
* * *
57919431 ATACAATGCCAATGTCCCAGACATGGTCTTACATGCAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* * *
57919473 ACGT-CGATGCCACTGTCCCAGACAAGGTCTTACACGAAATCAG
1 A--TACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
*
57919516 ATACGAT-CTCGATGTCCCAGACATGGTCTTACAC
1 ATACGATGC-CAATGTCCCAGACATGGTCTTACAC
57919550 ATAAAACAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.03
42 27 0.42
43 34 0.53
44 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:57927681 original size:48 final size:48
Alignment explanation
Indices: 57927545--57927716 Score: 195
Period size: 48 Copynumber: 3.6 Consensus size: 48
57927535 AAATGTGTCT
* * * * *
57927545 GTGTAAGACCATGTTTGGGACATGGCATCGATGATGATATATATGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCA
*
57927593 GTGTAAGACCATGTCTAGGACATGGCATCGGTGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCA
** * * *
57927641 GTGTAAGATAATGTCTGGGACATGGTATTGGTGATGATATGTG-GATTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTG--CCA
* *
57927690 -TCTAAGACCATGTCGGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
57927717 TGGTACTTTA
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
47 1 0.01
48 102 0.97
49 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCA
Found at i:57932944 original size:35 final size:35
Alignment explanation
Indices: 57932898--57932967 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
57932888 AAGAATCATC
*
57932898 TTTCATATTTTATTTTTATGTTTCTTTGCTTGAGG
1 TTTCATATTTTATTTTTATGTTTCTTTACTTGAGG
57932933 TTTCATATTTTATTTTTATGTTTCTTTACTTGAGG
1 TTTCATATTTTATTTTTATGTTTCTTTACTTGAGG
57932968 ACAAGCAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.16, C:0.09, G:0.13, T:0.63
Consensus pattern (35 bp):
TTTCATATTTTATTTTTATGTTTCTTTACTTGAGG
Found at i:57933902 original size:235 final size:237
Alignment explanation
Indices: 57933471--57933936 Score: 810
Period size: 235 Copynumber: 2.0 Consensus size: 237
57933461 CAACTTGGTC
57933471 AATAGTGTTTTGTAAGTATGGGTTCCAAAACGGAAACAGTTAAGGAATCACAAAAAGGCTAGGTG
1 AATAGTGTTTTGTAAGTATGGGTTCCAAAACGGAAACAGTTAAGGAATCACAAAAAGGCTAGGTG
* * *
57933536 AAGAATGTAAGTAATGTCCTAAATATGCTAAGGGTTAGAAATAGTCACAAAGCAATGTATAGTGT
66 AAGAATGTAAGTAATGTACTAAATATGCTAAGGGTTAGAAATAGCCACAAAGCAATGTATAGCGT
* * *
57933601 CTATGTTAGGATGAAGAAAGGTACTCGCCAAAGTCAAGTTGAAAAATGAAGAATAATGAGATGAT
131 CTATGTTAGGATGAAAAAAGGTACTCGCCAAAGTCAAGCTGAAAAACGAAGAATAATGAGATGAT
57933666 AATGAAATCACCAGATGCATTGTACTAAGAT-GGTATAGGTA
196 AATGAAATCACCAGATGCATTGTACTAAGATAGGTATAGGTA
* *
57933707 AATAGTGTTTTGTAAGTAT-GGTTCCAAAATGGAAACAGTTAAGGAATCACGAAAAGGCTAGGTG
1 AATAGTGTTTTGTAAGTATGGGTTCCAAAACGGAAACAGTTAAGGAATCACAAAAAGGCTAGGTG
* * *
57933771 AAGAATGTAAGTAATGTACTAAATATGCTAAGGGTTAGGAATGGCCACAAAGCAATGTATGGCGT
66 AAGAATGTAAGTAATGTACTAAATATGCTAAGGGTTAGAAATAGCCACAAAGCAATGTATAGCGT
*
57933836 CTATGTTAGGATGAAAAAAGGTACTCGCCAAAGTCAAGCTGAAGAACGAAGAATAATGAGATGAT
131 CTATGTTAGGATGAAAAAAGGTACTCGCCAAAGTCAAGCTGAAAAACGAAGAATAATGAGATGAT
57933901 AATGAAATCACCAGATGCATTGTACTAAGATAGGTA
196 AATGAAATCACCAGATGCATTGTACTAAGATAGGTA
57933937 AATGGAGTTT
Statistics
Matches: 217, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
235 194 0.89
236 23 0.11
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (237 bp):
AATAGTGTTTTGTAAGTATGGGTTCCAAAACGGAAACAGTTAAGGAATCACAAAAAGGCTAGGTG
AAGAATGTAAGTAATGTACTAAATATGCTAAGGGTTAGAAATAGCCACAAAGCAATGTATAGCGT
CTATGTTAGGATGAAAAAAGGTACTCGCCAAAGTCAAGCTGAAAAACGAAGAATAATGAGATGAT
AATGAAATCACCAGATGCATTGTACTAAGATAGGTATAGGTA
Found at i:57936368 original size:37 final size:37
Alignment explanation
Indices: 57936327--57936557 Score: 127
Period size: 37 Copynumber: 6.2 Consensus size: 37
57936317 CCACCTTTAA
*
57936327 GGCATAATCCAAGGAGGTCAGCAAGACTCAGCTATAT
1 GGCATAATCCAAGGAGGTCAGCTAGACTCAGCTATAT
* * * * * *
57936364 GGCATGATCTAGGGAGGTCCGCTAAACT-TGCCTATAT
1 GGCATAATCCAAGGAGGTCAGCTAGACTCAG-CTATAT
* ** * * *
57936401 GGCATGAT-CTGGGAAGGTTC-GCTAGA-TCCATCTTTAA
1 GGCATAATCCAAGG-AGG-TCAGCTAGACT-CAGCTATAT
*
57936438 GGCATAATCCAGGGAGGTCAGCTAGACTC-GCTTATAT
1 GGCATAATCCAAGGAGGTCAGCTAGACTCAGC-TATAT
* * * * * * *
57936475 GGCATGATCCAAGAAGGTTC-GCCAGATTCACCTTTAA
1 GGCATAATCCAAGGAGG-TCAGCTAGACTCAGCTATAT
* *
57936512 GGCATAATCCAATGAGGTCAACTAGA--CATGCCTATAT
1 GGCATAATCCAAGGAGGTCAGCTAGACTCA-G-CTATAT
57936549 GGCATAATC
1 GGCATAATC
57936558 TAGTAGAGTC
Statistics
Matches: 145, Mismatches: 35, Indels: 28
0.70 0.17 0.13
Matches are distributed among these distances:
35 2 0.01
36 10 0.07
37 123 0.85
38 10 0.07
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (37 bp):
GGCATAATCCAAGGAGGTCAGCTAGACTCAGCTATAT
Found at i:57936476 original size:74 final size:73
Alignment explanation
Indices: 57936364--57936559 Score: 230
Period size: 74 Copynumber: 2.6 Consensus size: 73
57936354 TCAGCTATAT
* * * * ** *
57936364 GGCATGATCTAGGGAGGTCCGCTAAACTTGCCTATATGGCATGATCTGGGAAGGTTCGCTAGATC
1 GGCATAATCCAGGGAGGTCAGCTAGAC-TGCCTATATGGCATGATCTAAGAAGGTTCGCCAGATC
*
57936429 CATCTTTAA
65 CACCTTTAA
* * *
57936438 GGCATAATCCAGGGAGGTCAGCTAGACTCGCTTATATGGCATGATCCAAGAAGGTTCGCCAGATT
1 GGCATAATCCAGGGAGGTCAGCTAGACT-GCCTATATGGCATGATCTAAGAAGGTTCGCCAGATC
57936503 CACCTTTAA
65 CACCTTTAA
** * *
57936512 GGCATAATCCAATGAGGTCAACTAGACATGCCTATATGGCATAATCTA
1 GGCATAATCCAGGGAGGTCAGCTAGAC-TGCCTATATGGCATGATCTA
57936560 GTAGAGTCCA
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
73 1 0.01
74 101 0.98
75 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (73 bp):
GGCATAATCCAGGGAGGTCAGCTAGACTGCCTATATGGCATGATCTAAGAAGGTTCGCCAGATCC
ACCTTTAA
Found at i:57936516 original size:111 final size:111
Alignment explanation
Indices: 57936306--57936516 Score: 264
Period size: 111 Copynumber: 1.9 Consensus size: 111
57936296 ATCCAGGTAA
57936306 GTTCGCCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCAAGACTCAGCTATATGGCATGA
1 GTTCGCCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCAAGACTCAGCTATATGGCATGA
* * * * * *
57936371 TCTAGGGAGGTCCGCTAAACTTGCCTATATGGCATGATCTGGGAAG
66 TCCAAGAAGGTCCGCCAAACTTACCTATAAGGCATGATCTGGGAAG
* * * * *
57936417 GTTCGCTAGATCCATCTTTAAGGCATAATCCAGGGAGGTCAGCTAGACTC-GCTTATATGGCATG
1 GTTCGCCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCAAGACTCAGC-TATATGGCATG
* * *
57936481 ATCCAAGAAGGTTCGCCAGA-TTCACCTTTAAGGCAT
65 ATCCAAGAAGGTCCGCCAAACTT-ACCTATAAGGCAT
57936517 AATCCAATGA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
110 4 0.05
111 80 0.95
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (111 bp):
GTTCGCCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCAAGACTCAGCTATATGGCATGA
TCCAAGAAGGTCCGCCAAACTTACCTATAAGGCATGATCTGGGAAG
Found at i:57939123 original size:22 final size:21
Alignment explanation
Indices: 57939071--57939135 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
57939061 TTATTTCTTA
* *
57939071 AAATATTATTATTTAATTGAAT
1 AAAT-TTATTATTCAATTAAAT
* *
57939093 TAATATATTAATTCAATTAAAT
1 AAATTTATT-ATTCAATTAAAT
57939115 AAATTTATT-TCTCAATTAAAT
1 AAATTTATTAT-TCAATTAAAT
57939136 TATCTTCTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.03
21 14 0.40
22 20 0.57
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATTTATTATTCAATTAAAT
Found at i:57939136 original size:17 final size:17
Alignment explanation
Indices: 57939114--57939146 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57939104 TTCAATTAAA
57939114 TAAATTTAT-TTCTCAAT
1 TAAA-TTATCTTCTCAAT
57939131 TAAATTATCTTCTCAA
1 TAAATTATCTTCTCAA
57939147 CTCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATTATCTTCTCAAT
Found at i:57943953 original size:10 final size:9
Alignment explanation
Indices: 57943935--57943968 Score: 52
Period size: 10 Copynumber: 3.8 Consensus size: 9
57943925 AGAATGATTC
57943935 TTTTTTTCT
1 TTTTTTTCT
57943944 TTTCTTTTCT
1 TTT-TTTTCT
57943954 TTTTTTT-T
1 TTTTTTTCT
57943962 TTTTTTT
1 TTTTTTT
57943969 GCATTATCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 7 0.29
10 9 0.38
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:57943955 original size:18 final size:16
Alignment explanation
Indices: 57943932--57943967 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
57943922 AAAAGAATGA
57943932 TTCTTTTTTTCTTTTCTT
1 TTCTTTTTTT-TTTT-TT
57943950 TTCTTTTTTTTTTTTT
1 TTCTTTTTTTTTTTTT
57943966 TT
1 TT
57943968 TGCATTATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTCTTTTTTTTTTTTT
Found at i:57945396 original size:275 final size:278
Alignment explanation
Indices: 57944863--57945402 Score: 695
Period size: 275 Copynumber: 1.9 Consensus size: 278
57944853 TATATGTTAT
* *
57944863 ATTATATAAATGTATTATTTATAAAATCATATATATGAAATATAAAGATATTTATTATATAAATA
1 ATTATATAAATGTATTATTTATAAAATCATACACATGAAATATAAAGATATTTATTATATAAATA
* * * * *
57944928 ATTCAATTTTGATTTTATAACTAAAGTAGAATTATTTTTGTACTTTTTTGGTTAATGAAAAAAAT
66 ATTAAATTTTAATTTTAAAACTAAAGTA-AATTATTTTTGTACTATTTTGATTAATGAAAAAAAT
* * * *
57944993 TACTTTAAAATGAAGTAATTTGATAAAAAATTTTAACTTTTTTATTTATTATCATATAAATGCAT
130 TACTTTAAAATAAAATAATTTGATAAAAAATATTAACTTTTTTA-TAATTATCATATAAATGCAT
* ** *
57945058 TAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTTTTTATACCTGTGATAAATCTAGTAAATAAT
194 TAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTATTTATAAATATGATAAATCTAGTAAATAAT
57945123 AAAAACCATTTATATAATAA
259 AAAAACCATTTATATAATAA
* *
57945143 ATTATATAAA-GTATTATTTATAAAATTATACACATGAAATATAAAGTTATTTATTATATAAATA
1 ATTATATAAATGTATTATTTATAAAATCATACACATGAAATATAAAGATATTTATTATATAAATA
*
57945207 ATTAAATTTTAATATTTAAAACTAAAGT-AA-TATTTTT-TCACTATTTT-ATTAATGAAACATA
66 ATTAAATTTTAAT-TTTAAAACTAAAGTAAATTATTTTTGT-ACTATTTTGATTAATGAAA-AAA
* * *
57945268 A-TACTTTAAAGATAAAAT-ATTT-CTATACAAATATTAACCTTTTTTA-AATTATTATATAAAT
128 ATTACTTTAAA-ATAAAATAATTTGATA-AAAAATATTAA-CTTTTTTATAATTATCATATAAAT
* * * * *
57945329 TCATTTAACAGAAGTGTTTTAAAAGAATCAGAATTCTTATTTATAAATATGATAAATTTTA-TAA
190 GCATTAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTATTTATAAATATGATAAA-TCTAGTAA
57945393 ATAATAAAAA
254 ATAATAAAAA
57945403 ATATTTAAAA
Statistics
Matches: 227, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
275 76 0.33
276 35 0.15
277 30 0.13
278 2 0.01
279 61 0.27
280 23 0.10
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (278 bp):
ATTATATAAATGTATTATTTATAAAATCATACACATGAAATATAAAGATATTTATTATATAAATA
ATTAAATTTTAATTTTAAAACTAAAGTAAATTATTTTTGTACTATTTTGATTAATGAAAAAAATT
ACTTTAAAATAAAATAATTTGATAAAAAATATTAACTTTTTTATAATTATCATATAAATGCATTA
AACAAAAGTGTTTTAAAAGAATCAAAATTCTTATTTATAAATATGATAAATCTAGTAAATAATAA
AAACCATTTATATAATAA
Found at i:57950339 original size:14 final size:14
Alignment explanation
Indices: 57950320--57950346 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57950310 AAAAAACCTC
57950320 TAATTTCTCTCTAT
1 TAATTTCTCTCTAT
57950334 TAATTTCTCTCTA
1 TAATTTCTCTCTA
57950347 ATTTCTCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATTTCTCTCTAT
Found at i:57950348 original size:11 final size:11
Alignment explanation
Indices: 57950317--57950356 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
57950307 TAAAAAAAAC
57950317 CTCTAATTTCT
1 CTCTAATTTCT
57950328 CTCTATTAATTTCT
1 CTC---TAATTTCT
57950342 CTCTAATTTCT
1 CTCTAATTTCT
57950353 CTCT
1 CTCT
57950357 GAAAGCTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 15 0.58
14 11 0.42
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.55
Consensus pattern (11 bp):
CTCTAATTTCT
Found at i:57953595 original size:27 final size:27
Alignment explanation
Indices: 57953547--57953616 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
57953537 TAGTTAATTT
57953547 TGTATTTTGAAAATCCCAAGCTTTAAAA
1 TGTATTTTG-AAATCCCAAGCTTTAAAA
57953575 TGTATTTTGAAATCCCAAGCTTTAAAA
1 TGTATTTTGAAATCCCAAGCTTTAAAA
57953602 TGTATTTTGAAATCC
1 TGTATTTTGAAATCC
57953617 AAAATTTAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 33 0.79
28 9 0.21
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (27 bp):
TGTATTTTGAAATCCCAAGCTTTAAAA
Found at i:57954049 original size:32 final size:32
Alignment explanation
Indices: 57954013--57954074 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
57954003 TTTGATTTTC
57954013 AAAATATTTTGACATAACAAACTATTAAGATG
1 AAAATATTTTGACATAACAAACTATTAAGATG
*
57954045 AAAATATTTTGATATAACAAACTATTAAGA
1 AAAATATTTTGACATAACAAACTATTAAGA
57954075 ATTAAATTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (32 bp):
AAAATATTTTGACATAACAAACTATTAAGATG
Found at i:57959804 original size:47 final size:47
Alignment explanation
Indices: 57959753--57959917 Score: 267
Period size: 47 Copynumber: 3.5 Consensus size: 47
57959743 GTATATATGA
*
57959753 GATAAGGCCGAATGGCCAATGTGATGAACGTGAGCATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGT
57959800 GATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGT
* * *
57959847 GATAAGGCCGAATGGCCAATGTGGTGAATGTGAACATGCATATATGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGT
* * *
57959894 GGTAAAGCCGAATGGCTAATGTGA
1 GATAAGGCCGAATGGCCAATGTGA
57959918 AATATGTATG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 110 1.00
ACGTcount: A:0.31, C:0.13, G:0.32, T:0.24
Consensus pattern (47 bp):
GATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGT
Found at i:57959873 original size:25 final size:25
Alignment explanation
Indices: 57959753--57959873 Score: 64
Period size: 23 Copynumber: 5.1 Consensus size: 25
57959743 GTATATATGA
*
57959753 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
57959778 GA-ACGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
*
57959800 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
57959825 GA-ATGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
57959847 GATAAGGCCGAATGGCCAATGTGGT
1 GATAAGGCCGAATGGCCAATGTGGT
57959872 GA
1 GA
57959874 ATGTGAACAT
Statistics
Matches: 67, Mismatches: 15, Indels: 28
0.61 0.14 0.25
Matches are distributed among these distances:
22 12 0.18
23 20 0.30
24 20 0.30
25 15 0.22
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (25 bp):
GATAAGGCCGAATGGCCAATGTGGT
Found at i:57959950 original size:48 final size:48
Alignment explanation
Indices: 57959887--57960021 Score: 252
Period size: 48 Copynumber: 2.8 Consensus size: 48
57959877 TGAACATGCA
57959887 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGACATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGACATATG
*
57959935 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGACATATG
*
57959983 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
57960022 GGCGATATGC
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGACATATG
Found at i:57960209 original size:37 final size:37
Alignment explanation
Indices: 57960157--57960271 Score: 151
Period size: 37 Copynumber: 3.1 Consensus size: 37
57960147 ACATGAAATT
57960157 TGGAAATATAT-TCCGGGTAAGACCCGATGACTACGTG
1 TGGAAAT-TATGTCCGGGTAAGACCCGATGACTACGTG
57960194 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
* * * * * * *
57960231 TAGAGATTTTGTCTGAGTAAGACCCGATAACTTCGTG
1 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
57960268 TGGA
1 TGGA
57960272 GATTTCGTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 3 0.04
37 66 0.96
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (37 bp):
TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:57963404 original size:45 final size:45
Alignment explanation
Indices: 57963320--57963430 Score: 118
Period size: 45 Copynumber: 2.5 Consensus size: 45
57963310 TAAGACCATA
* *
57963320 GCTAAAAGATGTTATGGCATCATGACAGAAATGAGTAAGACTGTG
1 GCTAAAAGATGTTATGGCATCATGAAAGAAATGACTAAGACTGTG
* ** *
57963365 GCTAAAAGATGTTATGGCGTCATGGTAAAG-AA-GACTAAGACCATA
1 GCTAAAAGATGTTATGGCATCAT-G-AAAGAAATGACTAAGACTGTG
**
57963410 GCTAAAAGACATTATGGCATC
1 GCTAAAAGATGTTATGGCATC
57963431 TTTCGATAGT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
45 49 0.89
46 3 0.05
47 3 0.05
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (45 bp):
GCTAAAAGATGTTATGGCATCATGAAAGAAATGACTAAGACTGTG
Found at i:57965743 original size:68 final size:68
Alignment explanation
Indices: 57965634--57965879 Score: 307
Period size: 68 Copynumber: 3.6 Consensus size: 68
57965624 AAAGAGGTTT
*
57965634 AAGGTGTAAGACCATAGCTCAACTATGACCACCAATAGAGTCCACCAAAATGTTAAACATGGGGT
1 AAGGTGTAAGACCATAGCTCAACTATGACAACCAATAGAGTCCACCAAAATGTTAAACATGGGGT
57965699 TAC
66 TAC
*
57965702 AAGGTGTAAGACCATAGCTCAACTATGACCACCAATAGAGTCCACCAAAATGTTAAACATGGGGT
1 AAGGTGTAAGACCATAGCTCAACTATGACAACCAATAGAGTCCACCAAAATGTTAAACATGGGGT
57965767 TAC
66 TAC
** ** * **** ** * *
57965770 AAGGTGTAAGACCATAAATTGGA-TATGACAACCAATAGAGTTCACTTGGATGTTAAGTATGAGT
1 AAGGTGTAAGACCAT-AGCTCAACTATGACAACCAATAGAGTCCACCAAAATGTTAAACATGGGG
*
57965834 TTCC
65 TTAC
*
57965838 AAGGTGT-AGAACCATAGCTCATCTATGACAACCAATAGAGTC
1 AAGGTGTAAG-ACCATAGCTCAACTATGACAACCAATAGAGTC
57965880 TGCTAGGACG
Statistics
Matches: 154, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
67 4 0.03
68 147 0.95
69 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (68 bp):
AAGGTGTAAGACCATAGCTCAACTATGACAACCAATAGAGTCCACCAAAATGTTAAACATGGGGT
TAC
Found at i:57966585 original size:146 final size:146
Alignment explanation
Indices: 57966318--57966610 Score: 532
Period size: 146 Copynumber: 2.0 Consensus size: 146
57966308 AAATGGTTGG
* *
57966318 ACTGGTAAAGTCTATCGGACATCTATAGTAAGGAAGGATATTTGACCAGGACTAGGTAATCGCAT
1 ACTGGTAAAGTCTATCGGACATCTATAGTAAGAAAGGATATTTAACCAGGACTAGGTAATCGCAT
*
57966383 GATGGACCACAAGGGTTAATAAGATAGGGCATCCAATCAGTTAGCTTATCATCATGTTAGGAAAA
66 GATGGACCACAAGGGTTAATAAGATAGGGCATCCAATCAGTTAGCTTATCACCATGTTAGGAAAA
57966448 TGAGTTTGGACTGGAA
131 TGAGTTTGGACTGGAA
57966464 ACTGGTAAAGTCTATCGGACATCTATAGTAAGAAAGGATATTTAACCAGGACTAGGTAATCGCAT
1 ACTGGTAAAGTCTATCGGACATCTATAGTAAGAAAGGATATTTAACCAGGACTAGGTAATCGCAT
* * *
57966529 GATGGACCATAGGGGTTAATAGGATAGGGCATCCAATCAGTTAGCTTATCACCATGTTAGGAAAA
66 GATGGACCACAAGGGTTAATAAGATAGGGCATCCAATCAGTTAGCTTATCACCATGTTAGGAAAA
57966594 TGAGTTTGGACTGGAA
131 TGAGTTTGGACTGGAA
57966610 A
1 A
57966611 GAGTGTTAGA
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
146 141 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.26
Consensus pattern (146 bp):
ACTGGTAAAGTCTATCGGACATCTATAGTAAGAAAGGATATTTAACCAGGACTAGGTAATCGCAT
GATGGACCACAAGGGTTAATAAGATAGGGCATCCAATCAGTTAGCTTATCACCATGTTAGGAAAA
TGAGTTTGGACTGGAA
Found at i:57973373 original size:40 final size:40
Alignment explanation
Indices: 57973303--57973443 Score: 140
Period size: 40 Copynumber: 3.5 Consensus size: 40
57973293 CGGGGTTTAG
** * *
57973303 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
57973342 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
57973382 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
57973422 CCGGATGTAGTCGCTTAGCACA
1 CCGGATATAGTCAC-TAGCACA
57973444 TTCATATTTC
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 15 0.18
40 63 0.74
41 7 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:57978476 original size:42 final size:41
Alignment explanation
Indices: 57978429--57978581 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 41
57978419 AACATATACA
*
57978429 ATGCCAACGTCCCAGACGTGGTCTTA-ATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACAAA-A-CG
* *
57978471 ATGCC-ACTGTCCTAGACAG-GGTCTTACATG-AAACCAGATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAAA-CA-AAACG
* *
57978513 ATGCCAATGTCCCAGACATGGTCTTACATGTAAAACAAAA-G
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AAACAAAACG
* *
57978554 ATGCCAACGTCCCAAACGTGATCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
57978582 CGAAATCACA
Statistics
Matches: 91, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
41 27 0.30
42 50 0.55
43 10 0.11
44 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACAAAACG
Found at i:57982182 original size:35 final size:36
Alignment explanation
Indices: 57982140--57982272 Score: 189
Period size: 36 Copynumber: 3.8 Consensus size: 36
57982130 TCAGTTGGAC
* * * * *
57982140 TAGCTC-TTATGAGTATTGGTGTGTTTTGGTGGGAT
1 TAGCTCTTTACGAGCATTGGTGTGTTTTTGAGAGAT
* *
57982175 TAACTC-TTATGAGCATTGGTGTGTTTTTGAGAGAT
1 TAGCTCTTTACGAGCATTGGTGTGTTTTTGAGAGAT
57982210 TAGCTCTTTACGAGCATTGGTGTGTTTTTGAGAGAT
1 TAGCTCTTTACGAGCATTGGTGTGTTTTTGAGAGAT
57982246 TAGCTCTTTACGAGCATTGGTGTGTTT
1 TAGCTCTTTACGAGCATTGGTGTGTTT
57982273 GGACAGATTG
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
35 35 0.39
36 55 0.61
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.44
Consensus pattern (36 bp):
TAGCTCTTTACGAGCATTGGTGTGTTTTTGAGAGAT
Found at i:57982225 original size:36 final size:35
Alignment explanation
Indices: 57982140--57982305 Score: 185
Period size: 36 Copynumber: 4.8 Consensus size: 35
57982130 TCAGTTGGAC
* * * * *
57982140 TAGCTCTTATGAGTATTGGTGTGTTTTGGTGGGAT
1 TAGCTCTTACGAGCATTGGTGTGTTTTTGAGAGAT
* *
57982175 TAACTCTTATGAGCATTGGTGTGTTTTTGAGAGAT
1 TAGCTCTTACGAGCATTGGTGTGTTTTTGAGAGAT
57982210 TAGCTCTTTACGAGCATTGGTGTGTTTTTGAGAGAT
1 TAGCTC-TTACGAGCATTGGTGTGTTTTTGAGAGAT
* *
57982246 TAGCTCTTTACGAGCATTGGTGTG-TTTGGACAGAT
1 TAGCTC-TTACGAGCATTGGTGTGTTTTTGAGAGAT
* * *
57982281 TGGTTCTTATGAGCA-T-GTGTGTTTT
1 TAGCTCTTACGAGCATTGGTGTGTTTT
57982306 GGTTGGATTG
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
32 5 0.04
33 4 0.03
34 8 0.07
35 48 0.41
36 52 0.44
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.43
Consensus pattern (35 bp):
TAGCTCTTACGAGCATTGGTGTGTTTTTGAGAGAT
Found at i:57982253 original size:71 final size:71
Alignment explanation
Indices: 57982140--57982307 Score: 191
Period size: 71 Copynumber: 2.4 Consensus size: 71
57982130 TCAGTTGGAC
* * * * *
57982140 TAGCTCTTATGAGTATTGGTGTGTTTTGGTGGGATTAACTC-TTATGAGCATTGGTGTGTTTTTG
1 TAGCTCTTACGAGCATTGGTGTGTTTTGGAGAGATTAACTCTTTACGAGCATTGGTGTGTTTTTG
57982204 AGAGAT
66 AGAGAT
* * *
57982210 TAGCTCTTTACGAGCATTGGTGTGTTTTTGAGAGATTAGCTCTTTACGAGCATTGGTGTG-TTTG
1 TAGCTC-TTACGAGCATTGGTGTGTTTTGGAGAGATTAACTCTTTACGAGCATTGGTGTGTTTTT
*
57982274 GACAGAT
65 GAGAGAT
* * *
57982281 TGGTTCTTATGAGCA-T-GTGTGTTTTGG
1 TAGCTCTTACGAGCATTGGTGTGTTTTGG
57982308 TTGGATTGTC
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
68 10 0.12
69 1 0.01
70 14 0.17
71 42 0.51
72 16 0.19
ACGTcount: A:0.18, C:0.10, G:0.30, T:0.43
Consensus pattern (71 bp):
TAGCTCTTACGAGCATTGGTGTGTTTTGGAGAGATTAACTCTTTACGAGCATTGGTGTGTTTTTG
AGAGAT
Found at i:57983968 original size:85 final size:85
Alignment explanation
Indices: 57983825--57984001 Score: 264
Period size: 85 Copynumber: 2.1 Consensus size: 85
57983815 CACGGCCTAT
* * *
57983825 CACACGGGCATGTGGGGCTATTTCAAATGTTACACGGCTTGAGACACGGGCGTGTGTCTCAGTCG
1 CACACGGGCATGTGGGGCTATTTCAAATGTTACACAGCTTGAGACACGGGCATGTGTCTCAGCCG
* **
57983890 TGTGAGGCACACGATTTGGC
66 TATGAGGCACACGACCTGGC
* * *
57983910 CACACGGGCATGTGGGGCTATTTCGAATGTTACATAGCTTGAGACATGGGCATGTGTCTCAGCCG
1 CACACGGGCATGTGGGGCTATTTCAAATGTTACACAGCTTGAGACACGGGCATGTGTCTCAGCCG
*
57983975 TATGAGGCACACGGCCTGGC
66 TATGAGGCACACGACCTGGC
57983995 CACACGG
1 CACACGG
57984002 TCGTGTGACC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (85 bp):
CACACGGGCATGTGGGGCTATTTCAAATGTTACACAGCTTGAGACACGGGCATGTGTCTCAGCCG
TATGAGGCACACGACCTGGC
Found at i:57991605 original size:17 final size:18
Alignment explanation
Indices: 57991579--57991615 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
57991569 ACACAAGGTC
57991579 CACCACCTTCT-GAATAT
1 CACCACCTTCTGGAATAT
*
57991596 CACCAGCTTCTGGAATAT
1 CACCACCTTCTGGAATAT
57991614 CA
1 CA
57991616 GATGTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.27
Consensus pattern (18 bp):
CACCACCTTCTGGAATAT
Found at i:57995616 original size:21 final size:21
Alignment explanation
Indices: 57995592--57995655 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
57995582 CCTTTAACTT
* *
57995592 TAGACCTTGGACTCTAGACCC
1 TAGACCTTGGACACTAAACCC
* *
57995613 TAGA-CTATGGACAGTAAACCT
1 TAGACCT-TGGACACTAAACCC
57995634 TAGACCTTGGAC-CTTAAACCC
1 TAGACCTTGGACAC-TAAACCC
57995655 T
1 T
57995656 CGATCTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (21 bp):
TAGACCTTGGACACTAAACCC
Found at i:57995722 original size:21 final size:21
Alignment explanation
Indices: 57995698--57995737 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
57995688 TTTTGGATTC
57995698 AGGGTCT-GGGATCCAAGGTCT
1 AGGGTCTAGGG-TCCAAGGTCT
*
57995719 AGGGTTTAGGGTCCAAGGT
1 AGGGTCTAGGGTCCAAGGT
57995738 TCAAGTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.20, C:0.15, G:0.40, T:0.25
Consensus pattern (21 bp):
AGGGTCTAGGGTCCAAGGTCT
Found at i:58003537 original size:26 final size:26
Alignment explanation
Indices: 58003501--58003570 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
58003491 TTTTCAATAA
*
58003501 TGCTCACACGAGCTGTGAAATGGGTC
1 TGCTCACACGAGCTGTGAAATGGGCC
* *
58003527 TGCTCACACGAGCTATGAAATGTGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
*
58003553 TGCTCACACGAGGTGTGA
1 TGCTCACACGAGCTGTGA
58003571 GTTAGAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGGCC
Found at i:58011514 original size:29 final size:29
Alignment explanation
Indices: 58011472--58011528 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
58011462 AACATCCTTG
*
58011472 GTGATTTGAAGTCCACCCAACCCACCACA
1 GTGATTTCAAGTCCACCCAACCCACCACA
* *
58011501 GTGATTTCAAGTCCACCCGACCCGCCAC
1 GTGATTTCAAGTCCACCCAACCCACCAC
58011529 GGTGCTTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.40, G:0.16, T:0.18
Consensus pattern (29 bp):
GTGATTTCAAGTCCACCCAACCCACCACA
Found at i:58011779 original size:23 final size:23
Alignment explanation
Indices: 58011749--58011820 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
58011739 AATCCAAACT
58011749 ACCGTGCTATAAAAGTAGACATA
1 ACCGTGCTATAAAAGTAGACATA
* *
58011772 ACCGTGCTATAGAAGCAGACATA
1 ACCGTGCTATAAAAGTAGACATA
** * *
58011795 ATTGTGCCATAAAAGTAGACAAA
1 ACCGTGCTATAAAAGTAGACATA
58011818 ACC
1 ACC
58011821 ATTGGAAGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.19
Consensus pattern (23 bp):
ACCGTGCTATAAAAGTAGACATA
Found at i:58020553 original size:50 final size:49
Alignment explanation
Indices: 58020478--58020572 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 49
58020468 CTGGTATGCA
*
58020478 TAGTAGCCTGCACTTAGTACTACACATGTGACCTCACCATCTAATAAACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCA-CATCTAATAAACG
*
58020528 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACATGTAATA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACATCTAATA
58020573 TCCTGATTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
49 8 0.19
50 35 0.81
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACATCTAATAAACG
Found at i:58021911 original size:46 final size:46
Alignment explanation
Indices: 58021861--58022036 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
58021851 TGTTTGGACA
58021861 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
*
58021907 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAA-T--G
* * *
58021952 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
58022000 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58022037 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 6, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
45 1 0.01
46 64 0.57
47 27 0.24
48 1 0.01
49 1 0.01
50 5 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:58022018 original size:93 final size:93
Alignment explanation
Indices: 58021859--58022028 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
58021849 GATGTTTGGA
* * *
58021859 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
58021924 GAGTCCGAGTTCGAGAGATGTAACTAGG
66 GAGTCCGAGTTCGAGAGATGTAACTAGG
* *
58021952 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
58022017 GAGTCCGAGTTC
66 GAGTCCGAGTTC
58022029 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGAGAGATGTAACTAGG
Found at i:58034465 original size:32 final size:32
Alignment explanation
Indices: 58034425--58034489 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
58034415 ATATTTGTAT
58034425 TTAAATTAATTAATTTCAAAATACTAAATTTA
1 TTAAATTAATTAATTTCAAAATACTAAATTTA
58034457 TTAAATTAATTAATTTCAAAATACTAAATTTA
1 TTAAATTAATTAATTTCAAAATACTAAATTTA
58034489 T
1 T
58034490 CTTTATTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (32 bp):
TTAAATTAATTAATTTCAAAATACTAAATTTA
Found at i:58038241 original size:46 final size:46
Alignment explanation
Indices: 58038186--58038360 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
58038176 GGTTGAGCAT
* *
58038186 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * *
58038232 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
* * *
58038277 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * *
58038325 CTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58038361 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 58 0.55
47 27 0.25
48 5 0.05
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:58038341 original size:93 final size:93
Alignment explanation
Indices: 58038182--58038353 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
58038172 GGATGGTTGA
* * *
58038182 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
58038247 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
58038275 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
58038340 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
58038354 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58043918 original size:40 final size:40
Alignment explanation
Indices: 58043856--58044073 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
58043846 AAGCCAAGTA
* * *
58043856 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
58043895 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58043935 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58043975 CCTTCGGGACTTAGCCTGGATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
58044015 CCTTCGAGACTTAGCCC-AAAACTAGTAATTAG-AGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA-CAAATG
58044055 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58044074 TTATCGTCCG
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
39 15 0.10
40 140 0.90
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58051071 original size:40 final size:40
Alignment explanation
Indices: 58051010--58051223 Score: 272
Period size: 40 Copynumber: 5.4 Consensus size: 40
58051000 AAGCCAAGTA
* * *
58051010 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
58051049 CCTTCGGGTCATAGCCCGGATATAGTAACTAGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58051089 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58051129 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
58051169 CCTTTGGGACTTAGCCCGGA-ACTAGTAATTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
58051209 CCTTCGGGACATAGC
1 CCTTCGGGACTTAGC
58051224 TCGGTTATCG
Statistics
Matches: 153, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 12 0.08
40 141 0.92
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58059328 original size:40 final size:40
Alignment explanation
Indices: 58059111--58059324 Score: 290
Period size: 40 Copynumber: 5.4 Consensus size: 40
58059101 AAGCCAAGTA
* * *
58059111 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
58059150 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58059190 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58059230 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
58059270 CCTTCGGGACTTAGCTCGGA-ACTAGTAATTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
58059310 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
58059325 TCGGTTATCG
Statistics
Matches: 157, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 144 0.92
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58061677 original size:28 final size:28
Alignment explanation
Indices: 58061644--58061737 Score: 179
Period size: 28 Copynumber: 3.4 Consensus size: 28
58061634 GTGTCCATGA
*
58061644 CCCGTGTCTCCCACACGGCCATGACTAG
1 CCCGTGTCTCCCACATGGCCATGACTAG
58061672 CCCGTGTCTCCCACATGGCCATGACTAG
1 CCCGTGTCTCCCACATGGCCATGACTAG
58061700 CCCGTGTCTCCCACATGGCCATGACTAG
1 CCCGTGTCTCCCACATGGCCATGACTAG
58061728 CCCGTGTCTC
1 CCCGTGTCTC
58061738 AGCTCGTGTG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.16, C:0.41, G:0.21, T:0.21
Consensus pattern (28 bp):
CCCGTGTCTCCCACATGGCCATGACTAG
Found at i:58062824 original size:48 final size:48
Alignment explanation
Indices: 58062762--58063045 Score: 268
Period size: 48 Copynumber: 5.9 Consensus size: 48
58062752 GGTGAATTAT
* * * * *
58062762 CGATGCCATCTTCCAAACATGGTCTTACATTGGCTCACATGTCGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGC
* * ** * * *
58062810 CGATGGCATGTTCCAAACATGGTCTTACACTAGCTTTCGTCTCAATAC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGC
* * * * *
58062858 TGATGCCATG-TCACAGACATAGTCTTACACTAGCCCACATATCAATGC
1 CGATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATATCAATGC
* * * *
58062906 CGATGCCATGTCCCAAACATGGTCTTACACTGGATCTCAT-TACATTGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAT-CAATGC
* * * *
58062954 CAATGCCATGTTCCAAACATGGTCTTACACTGGTTCTCATATC-GTGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAT-GC
* * *
58063002 CGATGCCATGTTCCAAATATGGTCTTACAGTGGCACACATATCA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCA
58063046 CCCAAATGTC
Statistics
Matches: 190, Mismatches: 40, Indels: 11
0.79 0.17 0.05
Matches are distributed among these distances:
47 4 0.02
48 184 0.97
49 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGC
Found at i:58063027 original size:144 final size:144
Alignment explanation
Indices: 58062762--58063045 Score: 308
Period size: 144 Copynumber: 2.0 Consensus size: 144
58062752 GGTGAATTAT
* * * * *
58062762 CGATGCCATCTTCCAAACATGGTCTTACATTGGCTCACATGTCGAGGCCGATGGCATGTTCCAAA
1 CGATGCCATCTCCCAAACATGGTCTTACACTGGATCACATGTCGAGGCCAATGCCATGTTCCAAA
* * * *
58062827 CATGGTCTTACACTAGCTTTCGTCTCAATACTGATGCCATGTCACAGACATAGTCTTACACTAGC
66 CATGGTCTTACACTAGCTTTCATATCAATACCGATGCCATGTCACAAACATAGTCTTACACTAGC
*
58062892 CCACATATCAATGC
131 ACACATATCAATGC
* * *
58062906 CGATGCCATGTCCCAAACATGGTCTTACACTGGATCTCAT-TAC-ATTGCCAATGCCATGTTCCA
1 CGATGCCATCTCCCAAACATGGTCTTACACTGGATCACATGT-CGA-GGCCAATGCCATGTTCCA
* * * * *
58062969 AACATGGTCTTACACT-GGTTCTCATATC-GTGGCCGATGCCATGTTC-CAAATATGGTCTTACA
64 AACATGGTCTTACACTAGCTT-TCATATCAAT-ACCGATGCCATG-TCACAAACATAGTCTTACA
* *
58063031 GTGGCACACATATCA
126 CTAGCACACATATCA
58063046 CCCAAATGTC
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
143 6 0.05
144 107 0.93
145 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (144 bp):
CGATGCCATCTCCCAAACATGGTCTTACACTGGATCACATGTCGAGGCCAATGCCATGTTCCAAA
CATGGTCTTACACTAGCTTTCATATCAATACCGATGCCATGTCACAAACATAGTCTTACACTAGC
ACACATATCAATGC
Found at i:58088174 original size:40 final size:40
Alignment explanation
Indices: 58088073--58088224 Score: 182
Period size: 40 Copynumber: 3.8 Consensus size: 40
58088063 TACTCGAATG
* * *
58088073 ATATCCGAGCTAAGTCCCGAAGGCTTTTGTGCTAAACGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACC
* * *
58088114 AGATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACC
* *
58088154 ATATCCGGGCTAAGTCCCGAAGGCATTTTTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACC
* *
58088194 ATATCCGGGTTAAGACCCGAAGGCA-TTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
58088225 GAGTGGTTAT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 6 0.06
40 61 0.64
41 27 0.28
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACC
Found at i:58094901 original size:38 final size:38
Alignment explanation
Indices: 58094858--58094933 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
58094848 TTCATCCTTT
58094858 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
58094896 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
58094934 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:58096217 original size:40 final size:40
Alignment explanation
Indices: 58096123--58096267 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
58096113 TACTCGAATG
*
58096123 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
58096164 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
58096204 ATATCCGGGCTAAGTCCCGAAGGCATTTTTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
58096244 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
58096268 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:58100399 original size:5 final size:5
Alignment explanation
Indices: 58100376--58100426 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
58100366 ATTTTTGAGA
* * *
58100376 AAATT AAATT TAATC AAATT AAATT AAATT -AATC AAATT -AATT AAAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT -AAATT
58100425 AA
1 AA
58100427 TATGATATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 7 0.19
5 26 0.70
6 4 0.11
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:58100409 original size:19 final size:19
Alignment explanation
Indices: 58100376--58100427 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
58100366 ATTTTTGAGA
58100376 AAATTAAATTTAATCAAATT
1 AAATTAAA-TTAATCAAATT
58100396 AAATTAAATTAATCAAATT
1 AAATTAAATTAATCAAATT
58100415 -AATTAAAATTAAT
1 AAATT-AAATTAAT
58100428 ATGATATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.13
19 19 0.61
20 8 0.26
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTAAATTAATCAAATT
Found at i:58100911 original size:62 final size:59
Alignment explanation
Indices: 58100841--58100957 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
58100831 AGTGATTATC
* * * *
58100841 TTAATATTAAATTTAATTTCATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGAT
58100903 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
58100958 TTAAAATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 23 0.45
60 1 0.02
61 1 0.02
62 26 0.51
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:58101109 original size:25 final size:25
Alignment explanation
Indices: 58101065--58101114 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
58101055 AGTTATAGAG
58101065 AGAAAATTCTCTAAAGATATTATTTC
1 AGAAAATTCTCTAAAGATATT-TTTC
* *
58101091 AGAAAATT-TCTAGATATATTTTTC
1 AGAAAATTCTCTAAAGATATTTTTC
58101115 TTAATTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (25 bp):
AGAAAATTCTCTAAAGATATTTTTC
Found at i:58109998 original size:33 final size:32
Alignment explanation
Indices: 58109945--58110041 Score: 97
Period size: 34 Copynumber: 2.9 Consensus size: 32
58109935 TTGATTGCAT
* * *
58109945 ACTGTACTATTACTGTAATGGGCTTAGGTCCC-
1 ACTGTACTGTTACTGAAATGGGCTCAGG-CCCA
58109977 ACTGATACTGTTACTGAAATGGGCTCAGGCCCA
1 ACTG-TACTGTTACTGAAATGGGCTCAGGCCCA
** *
58110010 GACTGCTACTGTTACTGGTATGGGCTAAGGCC
1 -ACTG-TACTGTTACTGAAATGGGCTCAGGCC
58110042 TTAACTGAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 7 0.13
33 21 0.38
34 27 0.49
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (32 bp):
ACTGTACTGTTACTGAAATGGGCTCAGGCCCA
Found at i:58116999 original size:18 final size:17
Alignment explanation
Indices: 58116973--58117006 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
58116963 CATATAGCGG
58116973 GCCCATGTGGGCCCACAT
1 GCCCATGT-GGCCCACAT
*
58116991 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
58117007 CGGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.41, G:0.29, T:0.15
Consensus pattern (17 bp):
GCCCATGTGGCCCACAT
Found at i:58117012 original size:18 final size:18
Alignment explanation
Indices: 58116972--58117013 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
58116962 CCATATAGCG
58116972 GGCCCATGTGGGCCCACA
1 GGCCCATGTGGGCCCACA
* *
58116990 TGCCCGTGT-GGCCCACA
1 GGCCCATGTGGGCCCACA
58117007 CGGCCCA
1 -GGCCCA
58117014 AAATAGCCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.14, C:0.43, G:0.31, T:0.12
Consensus pattern (18 bp):
GGCCCATGTGGGCCCACA
Found at i:58122367 original size:47 final size:47
Alignment explanation
Indices: 58122304--58122666 Score: 541
Period size: 47 Copynumber: 7.6 Consensus size: 47
58122294 CCCTTCGGGA
* * *
58122304 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
58122351 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
58122398 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
58122445 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
58122492 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
58122541 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
58122588 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
58122635 CTTATCACATATATATACACTTTCACATTCAT
1 CTTATCAC--ATATATACACTTTCACATTCAT
58122667 TCAAATATAC
Statistics
Matches: 293, Mismatches: 17, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 226 0.77
49 65 0.22
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:58122564 original size:143 final size:143
Alignment explanation
Indices: 58122304--58122666 Score: 545
Period size: 143 Copynumber: 2.6 Consensus size: 143
58122294 CCCTTCGGGA
** * * *
58122304 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
1 CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
* *
58122367 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACA
* *
58122432 TTGGCCATTCGGC
131 TCGGCCATTAGGC
58122445 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
1 CTTATCACACATACACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
58122509 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCA
65 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCA
* *
58122573 CATCGGCTATTAGGT
129 CATCGGCCATTAGGC
* * * *
58122588 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
58122653 ACTTTCACATTCAT
66 ACTTTCACATTCAT
58122667 TCAAATATAC
Statistics
Matches: 202, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
140 1 0.00
141 48 0.24
143 151 0.75
144 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (143 bp):
CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:58128666 original size:6 final size:6
Alignment explanation
Indices: 58128655--58128697 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
58128645 CGTTCATTCT
** *
58128655 CTTTTC CTTTTC CTTTTC CTTTTTC AGTTTC TTTTTC CTTTTC
1 CTTTTC CTTTTC CTTTTC C-TTTTC CTTTTC CTTTTC CTTTTC
58128698 AATTTCTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.67
Consensus pattern (6 bp):
CTTTTC
Found at i:58128708 original size:18 final size:19
Alignment explanation
Indices: 58128663--58128709 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
58128653 CTCTTTTCCT
* *
58128663 TTTCCTTTTCCTTTTTCAG
1 TTTCTTTTTCCTTTTTCAA
58128682 TTTCTTTTTCC-TTTTCAA
1 TTTCTTTTTCCTTTTTCAA
58128700 TTTCTTTTTC
1 TTTCTTTTTC
58128710 TCTCATTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.06, C:0.23, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTCTTTTTCCTTTTTCAA
Found at i:58128731 original size:21 final size:21
Alignment explanation
Indices: 58128694--58128744 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
58128684 TCTTTTTCCT
58128694 TTTCAATTTCTTTTTCTCTC-A
1 TTTC-ATTTCTTTTTCTCTCAA
*
58128715 TTTCATTTTTTTCTTCTCTCAA
1 TTTCATTTCTTT-TTCTCTCAA
58128737 TTTCATTT
1 TTTCATTT
58128745 AAGAGTCGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.26
21 11 0.41
22 9 0.33
ACGTcount: A:0.14, C:0.22, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTCATTTCTTTTTCTCTCAA
Found at i:58128742 original size:22 final size:20
Alignment explanation
Indices: 58128676--58128744 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 20
58128666 CCTTTTCCTT
58128676 TTTCAGTTTCTTTTTC-CT--
1 TTTCA-TTTCTTTTTCTCTCA
58128694 TTTCAATTTCTTTTTCTCTCA
1 TTTC-ATTTCTTTTTCTCTCA
*
58128715 TTTCATTTTTTTCTTCTCTCAA
1 TTTCATTTCTTT-TTCTCTC-A
58128737 TTTCATTT
1 TTTCATTT
58128745 AAGAGTCGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 14 0.32
19 3 0.07
20 7 0.16
21 11 0.25
22 9 0.20
ACGTcount: A:0.12, C:0.22, G:0.01, T:0.65
Consensus pattern (20 bp):
TTTCATTTCTTTTTCTCTCA
Found at i:58130600 original size:18 final size:18
Alignment explanation
Indices: 58130577--58130614 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
58130567 TAGCCCATTT
58130577 CAGTAACAGTAATCAATG
1 CAGTAACAGTAATCAATG
*
58130595 CAGTAACAGTAATCAGTG
1 CAGTAACAGTAATCAATG
58130613 CA
1 CA
58130615 ATATACAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (18 bp):
CAGTAACAGTAATCAATG
Done.