Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 175 of 325
Found at i:54823844 original size:38 final size:38
Alignment explanation
Indices: 54823800--54823919 Score: 159
Period size: 38 Copynumber: 3.2 Consensus size: 38
54823790 TTTAAGCTCA
* *
54823800 GATATAATACCAACACTAGGCCTGCGAGATTTAACCCG
1 GATATAATACCAGCACTAGGCCTGTGAGATTTAACCCG
* *
54823838 TATATAATACCAGCACTAGGCCTTTGAGATTTAACCCG
1 GATATAATACCAGCACTAGGCCTGTGAGATTTAACCCG
* * * * *
54823876 GATATAATACTAGCACGAAGCCTGTGGGATTTAACCCC
1 GATATAATACCAGCACTAGGCCTGTGAGATTTAACCCG
54823914 GATATA
1 GATATA
54823920 TTTCCAGTAT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 71 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (38 bp):
GATATAATACCAGCACTAGGCCTGTGAGATTTAACCCG
Found at i:54825906 original size:25 final size:25
Alignment explanation
Indices: 54825856--54825906 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
54825846 CCCTTATAAT
* *
54825856 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
*
54825881 GTGAAAATGACCATTATACCCTTAG
1 GTGAAAATGACCATTATACCCCTAG
54825906 G
1 G
54825907 GATGTGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:54826043 original size:25 final size:24
Alignment explanation
Indices: 54826008--54826077 Score: 122
Period size: 25 Copynumber: 2.9 Consensus size: 24
54825998 GGAGGAAGTG
54826008 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAC
*
54826032 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAC
54826057 CAAAAGGGCTTTGCCCCAGTT
1 CAAAAGGGCTTTGCCCCAGTT
54826078 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
24 21 0.48
25 23 0.52
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAC
Found at i:54826066 original size:24 final size:24
Alignment explanation
Indices: 54826008--54826090 Score: 123
Period size: 24 Copynumber: 3.4 Consensus size: 24
54825998 GGAGGAAGTG
*
54826008 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
54826032 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
54826057 CAAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
54826080 TAAAAGAGGCT
1 CAAAAG-GGCT
54826091 AGGCCTCCAG
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 9 0.16
24 23 0.42
25 23 0.42
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:54826101 original size:49 final size:49
Alignment explanation
Indices: 54826008--54826102 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
54825998 GGAGGAAGTG
**
54826008 CAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTAT
**
54826057 CAAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
54826103 ATATGATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 5 0.12
48 10 0.25
49 25 0.62
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (49 bp):
CAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTAT
Found at i:54834467 original size:40 final size:38
Alignment explanation
Indices: 54834423--54834554 Score: 158
Period size: 38 Copynumber: 3.4 Consensus size: 38
54834413 CAGCACAAAA
*** *
54834423 CCTGCGGGACTTTAAGCTCAGAA-ATAATACTGGCACTAGG
1 CCTGCGGGA-TTTAA-C-CAGAATATAATACCAACACTAAG
*
54834463 CCTGCGGGATTTAACCCGAATATAATACCAACACTAAG
1 CCTGCGGGATTTAACCAGAATATAATACCAACACTAAG
* * *
54834501 CCTGCGGGATTTAACCCGGATATAATACCAACACGAAG
1 CCTGCGGGATTTAACCAGAATATAATACCAACACTAAG
54834539 CCTGCGGGATTTAACC
1 CCTGCGGGATTTAACC
54834555 CGGATATATT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
37 4 0.05
38 66 0.79
39 5 0.06
40 9 0.11
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCTGCGGGATTTAACCAGAATATAATACCAACACTAAG
Found at i:54834584 original size:38 final size:38
Alignment explanation
Indices: 54834456--54834562 Score: 187
Period size: 38 Copynumber: 2.8 Consensus size: 38
54834446 ATAATACTGG
* *
54834456 CACTAGGCCTGCGGGATTTAACCCGAATATAATACCAA
1 CACTAAGCCTGCGGGATTTAACCCGGATATAATACCAA
54834494 CACTAAGCCTGCGGGATTTAACCCGGATATAATACCAA
1 CACTAAGCCTGCGGGATTTAACCCGGATATAATACCAA
*
54834532 CACGAAGCCTGCGGGATTTAACCCGGATATA
1 CACTAAGCCTGCGGGATTTAACCCGGATATA
54834563 TTTCCAGCAT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 66 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CACTAAGCCTGCGGGATTTAACCCGGATATAATACCAA
Found at i:54837053 original size:26 final size:26
Alignment explanation
Indices: 54837017--54837068 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
54837007 CACCACTGAA
* *
54837017 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
54837043 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
54837069 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:54837145 original size:70 final size:71
Alignment explanation
Indices: 54837029--54837179 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
54837019 GGGGAATCAT
*
54837029 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
54837093 ATATCG
66 ATATCG
* ***
54837099 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
54837164 GATATCG
65 GATATCG
54837171 CACTTAGCA
1 CACTTAGCA
54837180 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:54837222 original size:104 final size:104
Alignment explanation
Indices: 54837098--54837321 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
54837088 AATGGATATC
54837098 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
54837163 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
54837202 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
54837267 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
54837306 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
54837322 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:54837683 original size:29 final size:29
Alignment explanation
Indices: 54837650--54837713 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
54837640 TAATCCACCA
54837650 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
54837679 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
54837709 CCCAA
1 CCCAA
54837714 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:54837687 original size:30 final size:30
Alignment explanation
Indices: 54837657--54837713 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
54837647 CCACCCAACT
54837657 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
54837686 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
54837714 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:55043892 original size:26 final size:26
Alignment explanation
Indices: 55043856--55043907 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
55043846 GAAATGTGAA
*
55043856 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
55043882 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
55043908 GTTCATTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:55043937 original size:102 final size:103
Alignment explanation
Indices: 55043781--55044001 Score: 358
Period size: 102 Copynumber: 2.2 Consensus size: 103
55043771 TGTATATAAA
** * *
55043781 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
55043846 GAAATGTGAAA-GGGGTTGCTATGTGCTGATT-CCCCG
66 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
55043882 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCG-TGATCCACCATATCT
55043946 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
55043986 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
55044002 GATATTCCAT
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
101 27 0.24
102 42 0.38
103 21 0.19
104 21 0.19
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:55044046 original size:71 final size:70
Alignment explanation
Indices: 55043920--55044069 Score: 230
Period size: 71 Copynumber: 2.1 Consensus size: 70
55043910 TCATTGGTGG
*
55043920 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAA-GTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
55043985 GAGGGGT
64 GAGGGGT
***
55043992 TGCTAAGTGCGATATTCCATTGTATATTTGAAA-TGAAAGGGGGTTGCTATGTGCTGATTCCCCG
1 TGCTAAGTGCGATA-TCCACCATATATTTGAAAGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
55044056 AGGGGT
65 AGGGGT
55044062 TGCTAAGT
1 TGCTAAGT
55044070 TGATGTTCCC
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
70 19 0.26
71 26 0.36
72 14 0.19
73 14 0.19
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (70 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAAGTGAAAGGGGGTTGCTATGTGCTGATTCCCCGA
GGGGT
Found at i:55044078 original size:26 final size:26
Alignment explanation
Indices: 55044031--55044082 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
55044021 GAAATGAAAG
* *
55044031 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
55044057 GGGGTTGCTAAGTTGATG-TTCCCCGA
1 GGGGTTGCTAAG-TGATGATTCCCCGA
55044083 TTCAGTGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.13, C:0.21, G:0.35, T:0.31
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:55051298 original size:29 final size:29
Alignment explanation
Indices: 55051256--55051314 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
55051246 TTATGGCTAG
55051256 ATCTGACGTGTCACATGGACTTACGACTT
1 ATCTGACGTGTCACATGGACTTACGACTT
*
55051285 ATCTGGCGTGTCACATGGACTTACGACTT
1 ATCTGACGTGTCACATGGACTTACGACTT
55051314 A
1 A
55051315 GTATGCATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (29 bp):
ATCTGACGTGTCACATGGACTTACGACTT
Found at i:55061268 original size:68 final size:67
Alignment explanation
Indices: 55061196--55061345 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
55061186 CATCATGTGT
* * * *
55061196 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
55061258 ATGTAG
62 ATGTAG
** * *
55061264 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
55061329 AG
66 AG
55061331 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
55061346 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:55061301 original size:64 final size:64
Alignment explanation
Indices: 55061220--55061403 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
55061210 AGACATTATG
* *
55061220 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
55061284 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
55061349 AA
63 AA
* * * *
55061351 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
55061404 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55065666 original size:68 final size:67
Alignment explanation
Indices: 55065594--55065779 Score: 177
Period size: 67 Copynumber: 2.8 Consensus size: 67
55065584 CATCATGTGT
* * *
55065594 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACC
55065656 ATGTAG
62 ATGTAG
** * * *
55065662 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
55065727 AG
66 AG
* * *
55065729 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGG-TACTAAGTG
1 ACAAGAGAGCTACGACATATA-TGTAGCTAGGTCGCATGGGTGGATAC-AAGTG
55065780 TTCACCATGT
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
64 20 0.20
65 9 0.09
66 25 0.25
67 31 0.31
68 15 0.15
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:55065699 original size:64 final size:64
Alignment explanation
Indices: 55065618--55065801 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
55065608 AGACATTATG
* *
55065618 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
55065682 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
55065747 AA
63 AA
* * * *
55065749 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
55065802 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55070227 original size:64 final size:64
Alignment explanation
Indices: 55070024--55070245 Score: 232
Period size: 64 Copynumber: 3.4 Consensus size: 64
55070014 CATAATTTTG
* * * * *
55070024 GCTCTCTTGTAC-ACATGGTGAACACTTACTACCACCCATGTGACCTAGCCAC-TTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCAACATTTATCTCGTA
* * * * * * *
55070087 GCTCTCTTGTTTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCAACATTTATCTCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCAACATTTATCTCG
55070152 TA
63 TA
* * * * *
55070154 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATATATCCCATA
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCAACATTTATCTCGTA
55070218 GCTCTCTTGTCTACATGGTGTACTACAT
1 GCTCTCTTGTCTACATGGTGTAC-ACAT
55070246 GGGATACACA
Statistics
Matches: 131, Mismatches: 22, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
63 18 0.14
64 56 0.43
65 4 0.03
66 23 0.18
67 30 0.23
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCAACATTTATCTCGTA
Found at i:55073724 original size:41 final size:40
Alignment explanation
Indices: 55073662--55073847 Score: 230
Period size: 41 Copynumber: 4.6 Consensus size: 40
55073652 TACTCGAATG
* *
55073662 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
** *
55073703 ATATCCGGGCTAAGTCTTGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
55073744 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
55073784 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
55073824 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
55073848 CTTGTGCGAG
Statistics
Matches: 130, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 62 0.48
41 66 0.51
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:55073806 original size:81 final size:82
Alignment explanation
Indices: 55073664--55073817 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 82
55073654 CTCGAATGAT
* * ** *
55073664 ATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCTTGAAGGCTT
1 ATCCGGACTAAGTCCTGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
55073729 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
55073746 ATCCGGACTAAGATCC-GAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCTGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
55073809 TTTATGCTA
65 TTTATGCTA
55073818 GTGACCATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 37 0.57
82 25 0.38
83 3 0.05
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (82 bp):
ATCCGGACTAAGTCCTGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:55081787 original size:40 final size:41
Alignment explanation
Indices: 55081652--55081837 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
55081642 TACTCGAATG
55081652 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
55081693 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
* * *
55081734 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACT
* * * *
55081774 ATATCCGGGCTAAGTCCCGAAGGCCTTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
* * *
55081814 ATATCCGGGTTAAGACCTGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
55081838 CTTGTGCGAG
Statistics
Matches: 131, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 60 0.46
41 69 0.53
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
Found at i:55081794 original size:81 final size:82
Alignment explanation
Indices: 55081654--55081807 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 82
55081644 CTCGAATGAT
* * *
55081654 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCCT
*
55081719 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
55081736 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCC
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCC
55081799 TTTATGCTA
65 TTTATGCTA
55081808 GTGACCATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 39 0.58
82 27 0.40
83 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCCT
TTATGCTAAGCGACTAC
Found at i:55086906 original size:6 final size:6
Alignment explanation
Indices: 55086869--55086999 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
55086859 TTGCATTCAC
* * * *
55086869 ATTCTC ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
55086918 -TCACCTA ATTTTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
55086968 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
55087000 AATGTTTCTT
Statistics
Matches: 95, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
5 5 0.05
6 78 0.82
7 9 0.09
8 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:55086916 original size:31 final size:31
Alignment explanation
Indices: 55086881--55086978 Score: 115
Period size: 31 Copynumber: 3.0 Consensus size: 31
55086871 TCTCATTTTG
* *
55086881 ATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGTCACCTGATTCTGATTCTGATTCTA
*
55086912 ATTCTGTCACCTAATTTTGATTCTGATTCTGATTCTG
1 ATTCTGTCACC------TGATTCTGATTCTGATTCTA
55086949 ATTCTGTCACCTGATTCTGATTCTGATTCT
1 ATTCTGTCACCTGATTCTGATTCTGATTCT
55086979 CATTTTGATT
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
31 29 0.50
37 29 0.50
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGTCACCTGATTCTGATTCTGATTCTA
Found at i:55086988 original size:37 final size:37
Alignment explanation
Indices: 55086869--55086990 Score: 148
Period size: 37 Copynumber: 3.5 Consensus size: 37
55086859 TTGCATTCAC
* *
55086869 ATTCTCATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCTCATTTTGATTCTGTCACCTGATTCTGATTCTG
* *
55086906 ATTCT-A-----ATTCTGTCACCTAATTTTGATTCTG
1 ATTCTCATTTTGATTCTGTCACCTGATTCTGATTCTG
* *
55086937 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTCATTTTGATTCTGTCACCTGATTCTGATTCTG
55086974 ATTCTCATTTTGATTCT
1 ATTCTCATTTTGATTCT
55086991 AGTTCTGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
31 26 0.37
32 1 0.01
36 1 0.01
37 43 0.61
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.49
Consensus pattern (37 bp):
ATTCTCATTTTGATTCTGTCACCTGATTCTGATTCTG
Found at i:55090889 original size:38 final size:38
Alignment explanation
Indices: 55090838--55091109 Score: 332
Period size: 38 Copynumber: 7.1 Consensus size: 38
55090828 GTAGGCTATA
* * *
55090838 TGCTGGAATTATATCCGGGTTAAATCCCACAAGCTTTG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
55090876 TGCTGCTAA-TATATCTGGGTTAAATCCCGCAGGCTTCG
1 TGCTG-GAATTATATCCGGGTTAAATCCCGCAGGCTTCG
55090914 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
55090952 TGTTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
55090990 TGCTGGAATTATATCCGGGTTAAATCCTGCAGGCTTCA
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
55091028 TGCTGGAATTATATCCGGGTTAAATCTCGTAGGCCTAG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * * * *
55091066 TGTTGGTATTATATCTGAGCTTAAAGTCTCGCAGGCTTAG
1 TGCTGGAATTATATCCG-GGTTAAA-TCCCGCAGGCTTCG
55091106 TGCT
1 TGCT
55091110 AGTGACTGGA
Statistics
Matches: 204, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
37 4 0.02
38 175 0.86
39 10 0.05
40 15 0.07
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:55091242 original size:19 final size:20
Alignment explanation
Indices: 55091217--55091261 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
55091207 TGTATGATAC
55091217 ATTATGATGGCCAGGTACGT
1 ATTATGATGGCCAGGTACGT
55091237 -TTATGATGGCCAGGTACGT
1 ATTATGATGGCCAGGTACGT
55091256 ATTATG
1 ATTATG
55091262 TACTCGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.33
Consensus pattern (20 bp):
ATTATGATGGCCAGGTACGT
Found at i:55098205 original size:46 final size:47
Alignment explanation
Indices: 55098102--55098214 Score: 138
Period size: 46 Copynumber: 2.4 Consensus size: 47
55098092 CTTCGACATT
** * *
55098102 GACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAATATG
1 GACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAATATG
* *
55098152 GGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGATATG
1 GACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAATATG
55098198 GACTTACATGGCTCATT
1 GACTTACATGGCTCATT
55098215 TTTGTCTTGT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 29 0.52
50 27 0.48
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (47 bp):
GACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAATATG
Found at i:55100605 original size:38 final size:38
Alignment explanation
Indices: 55100524--55100824 Score: 354
Period size: 38 Copynumber: 7.8 Consensus size: 38
55100514 ATTTGATGTG
* * *
55100524 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGTTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
* * * *
55100564 TATCCGGGTTAAATCCCCCAAGCTTTGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
55100602 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
55100640 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
55100678 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * *
55100716 TATCTGGGTTAAATCCTGCAGGCTTCATGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
** * * * *
55100754 TATCCGGGTTAAATCCCATAGGCCTAGTGTTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * * *
55100792 TATCTGAGCTTAAAGTCTCGCAGGCTTAGTGCT
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCT
55100825 AGTGACTGGA
Statistics
Matches: 227, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
37 3 0.01
38 190 0.84
39 13 0.06
40 21 0.09
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:55100957 original size:19 final size:20
Alignment explanation
Indices: 55100932--55100976 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
55100922 TGTATGATAC
55100932 ATTATGATGGCCAGGTACGT
1 ATTATGATGGCCAGGTACGT
55100952 -TTATGATGGCCAGGTACGT
1 ATTATGATGGCCAGGTACGT
55100971 ATTATG
1 ATTATG
55100977 TACTCGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.33
Consensus pattern (20 bp):
ATTATGATGGCCAGGTACGT
Found at i:55102877 original size:44 final size:46
Alignment explanation
Indices: 55102792--55102899 Score: 148
Period size: 44 Copynumber: 2.4 Consensus size: 46
55102782 AGCTATACCA
*
55102792 ATCTTGCACACTAAGTGCCAATATATATATAGCCGAAGCTATCTCG
1 ATCTTGCACACTAAGTGCCAATATATATATAGACGAAGCTATCTCG
* * * *
55102838 ATCTCGCACACTAAGTG-TAA-ATATATATAGATGAAGCTATCTTG
1 ATCTTGCACACTAAGTGCCAATATATATATAGACGAAGCTATCTCG
*
55102882 ATTTTGCACACTAAGTGC
1 ATCTTGCACACTAAGTGC
55102900 ACATAATTAG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 36 0.67
45 2 0.04
46 16 0.30
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (46 bp):
ATCTTGCACACTAAGTGCCAATATATATATAGACGAAGCTATCTCG
Found at i:55117276 original size:44 final size:44
Alignment explanation
Indices: 55117150--55117299 Score: 169
Period size: 44 Copynumber: 3.4 Consensus size: 44
55117140 ACTCAAAAAA
* * * *
55117150 CTCGCACACTTAGTGCGAAATA-A-ATATCTGAAGCTATATCAAT
1 CTCGCACACTAAGTGC-AAATATATATAGCTGAAGCTATCTCGAT
* * *
55117193 CTCACACACCAAGTGCCAATATATATATAGCCGAAGCTATCTCGAT
1 CTCGCACACTAAGTG-CAA-ATATATATAGCTGAAGCTATCTCGAT
* *
55117239 CTCGCACACTAAGTGCAAATATATATAGCTAAAGCTATCTTGAT
1 CTCGCACACTAAGTGCAAATATATATAGCTGAAGCTATCTCGAT
*
55117283 TTCGCACACTAAGTGCA
1 CTCGCACACTAAGTGCA
55117300 CATAATTAGC
Statistics
Matches: 90, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
43 14 0.16
44 43 0.48
45 4 0.04
46 29 0.32
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (44 bp):
CTCGCACACTAAGTGCAAATATATATAGCTGAAGCTATCTCGAT
Found at i:55121185 original size:41 final size:41
Alignment explanation
Indices: 55121139--55121271 Score: 169
Period size: 41 Copynumber: 3.2 Consensus size: 41
55121129 AGTATATTGG
* *
55121139 TTGCATGTAAGCATGTCACTGATTGTAACCGTACATACTGA
1 TTGCATGTAAGCATGCCACTAATTGTAACCGTACATACTGA
* *
55121180 TTGCATGTAAACATGCCATTAATTGTTAA-CGTACATACTGA
1 TTGCATGTAAGCATGCCACTAATTG-TAACCGTACATACTGA
* * * * *
55121221 TTGCATATAAGCATGCCACTAATTGTTACCATATATTCTGA
1 TTGCATGTAAGCATGCCACTAATTGTAACCGTACATACTGA
55121262 TTGCATGTAA
1 TTGCATGTAA
55121272 AGTATGACAC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.03
41 73 0.94
42 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (41 bp):
TTGCATGTAAGCATGCCACTAATTGTAACCGTACATACTGA
Found at i:55122138 original size:21 final size:22
Alignment explanation
Indices: 55122094--55122138 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
55122084 CAAATTGATG
*
55122094 AAATCAACTAATTTTTTTGACA
1 AAATCAACTAATTTTTTTCACA
* *
55122116 AAATCAACT-TTTTTTTTCTCA
1 AAATCAACTAATTTTTTTCACA
55122137 AA
1 AA
55122139 TGTCTTGACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATCAACTAATTTTTTTCACA
Found at i:55128389 original size:15 final size:16
Alignment explanation
Indices: 55128358--55128390 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
55128348 GTTTCTTTGT
*
55128358 TTCTTTAATTCTTTTA
1 TTCTTTAATTATTTTA
55128374 TTCTTT-ATTATTTTA
1 TTCTTTAATTATTTTA
55128389 TT
1 TT
55128391 AACATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCTTTAATTATTTTA
Found at i:55139279 original size:38 final size:39
Alignment explanation
Indices: 55139162--55139380 Score: 240
Period size: 40 Copynumber: 5.7 Consensus size: 39
55139152 TATCCTCGTT
* *
55139162 CAAATGCCTTCGGGACATAG-CCGGTTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGT-ATCTCGCA
* *
55139201 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTATCTCGCA
55139241 CAAATGCCTTCGGG-CTTAGCCCGGATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTATCTCGCA
*
55139279 CAAATGCCTTC-GG-CTTAG-TCGGATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTATCTCGCA
* * *
55139315 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGT-ATC-TCGCA
55139356 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55139381 CATCATTCAA
Statistics
Matches: 159, Mismatches: 11, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
36 30 0.19
37 7 0.04
38 28 0.18
39 34 0.21
40 47 0.30
41 13 0.08
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTATCTCGCA
Found at i:55147176 original size:79 final size:79
Alignment explanation
Indices: 55147074--55147291 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 79
55147064 GCTCCTCGTT
*
55147074 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACT-CG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCCG
55147138 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* *
55147154 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTT-AGTCC
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACTCC
*
55147216 GGATTTAGTATCTCGCA
63 GGATTTAGTAACTCGCA
* * * * *
55147233 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTA
55147292 GCCCGGACAT
Statistics
Matches: 118, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 8 0.07
79 62 0.53
80 35 0.30
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCCGGA
TTTAGTAACTCGCA
Found at i:55147259 original size:119 final size:120
Alignment explanation
Indices: 55147074--55147298 Score: 284
Period size: 119 Copynumber: 1.9 Consensus size: 120
55147064 GCTCCTCGTT
55147074 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCGG
* *
55147139 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
55147193 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTT-AG
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAAC
* *
55147253 TCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
62 T-CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
55147299 CATCATTCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
118 10 0.11
119 61 0.66
120 21 0.23
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:55147298 original size:40 final size:39
Alignment explanation
Indices: 55147074--55147298 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 39
55147064 GCTCCTCGTT
* *
55147074 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
* * * *
55147114 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
55147154 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAT-TCGCA
* *
55147193 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAT-TCGCA
* * *
55147233 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-A-TTCGCA
55147274 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55147299 CATCATTCAA
Statistics
Matches: 161, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
38 3 0.02
39 29 0.18
40 116 0.72
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTATTCGCA
Found at i:55154019 original size:6 final size:6
Alignment explanation
Indices: 55153998--55154037 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
55153988 GTTTAAGAAC
* *
55153998 TTTTTA TTTATTA TTTTTA TTTTTA CTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
55154038 ATCTTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:55159197 original size:13 final size:13
Alignment explanation
Indices: 55159179--55159203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55159169 TTTTCGCAAA
55159179 CTACACAGATTAC
1 CTACACAGATTAC
55159192 CTACACAGATTA
1 CTACACAGATTA
55159204 AACAGAAAAA
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
CTACACAGATTAC
Found at i:55166351 original size:22 final size:23
Alignment explanation
Indices: 55166321--55166400 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 23
55166311 GAGCTAATGG
55166321 ACAGTAAGCTCAT-TGAGCTGAA
1 ACAGTAAGCTCATATGAGCTGAA
* *
55166343 ACGGTAAGCT-TTGATGAGCTGAA
1 ACAGTAAGCTCAT-ATGAGCTGAA
* *
55166366 ACAGTAAGCTCATACGAGCTAAGA
1 ACAGTAAGCTCATATGAGCTGA-A
*
55166390 ACAATAAGCTC
1 ACAGTAAGCTC
55166401 TTACCATCTG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.02
22 9 0.19
23 25 0.53
24 12 0.26
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (23 bp):
ACAGTAAGCTCATATGAGCTGAA
Found at i:55166384 original size:23 final size:24
Alignment explanation
Indices: 55166321--55166436 Score: 69
Period size: 23 Copynumber: 4.9 Consensus size: 24
55166311 GAGCTAATGG
*
55166321 ACAGTAAGCTCAT-TGAGCTGA-A
1 ACAGTAAGCTCATACGAGCTGAGA
* * *
55166343 ACGGTAAGCT-TTGATGAGCTGA-A
1 ACAGTAAGCTCAT-ACGAGCTGAGA
*
55166366 ACAGTAAGCTCATACGAGCTAAGA
1 ACAGTAAGCTCATACGAGCTGAGA
* * * * *
55166390 ACAATAAGCTCTTACCATCTGATA
1 ACAGTAAGCTCATACGAGCTGAGA
**
55166414 TATTGGTAAGCTCATACGAGCTG
1 -A-CAGTAAGCTCATACGAGCTG
55166437 TGGTGAGTTT
Statistics
Matches: 70, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
21 1 0.01
22 9 0.13
23 25 0.36
24 20 0.29
25 1 0.01
26 14 0.20
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (24 bp):
ACAGTAAGCTCATACGAGCTGAGA
Found at i:55169465 original size:67 final size:66
Alignment explanation
Indices: 55169386--55169531 Score: 172
Period size: 67 Copynumber: 2.2 Consensus size: 66
55169376 GTTTATCTCA
* * *
55169386 TAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCT-A-CAT-ATA
1 TAGCTCTCTTGTCTACACGGTG---TACA-CTAGAACCACCCATGCGACCTAGCTAATCATAATA
55169448 TCCCG
62 TCCCG
* * *
55169453 TAGCTCTCTTGTCTACACGGTGTACACTAGTATCACCCATGCGACCTAGCTACATCATAATATCT
1 TAGCTCTCTTGTCTACACGGTGTACACTAGAACCACCCATGCGACCTAGCTA-ATCATAATATCC
55169518 CG
65 CG
55169520 TAGCTCTCTTGT
1 TAGCTCTCTTGT
55169532 ACACATGATG
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
63 22 0.32
64 3 0.04
65 1 0.01
66 3 0.04
67 40 0.58
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.31
Consensus pattern (66 bp):
TAGCTCTCTTGTCTACACGGTGTACACTAGAACCACCCATGCGACCTAGCTAATCATAATATCCC
G
Found at i:55170074 original size:30 final size:30
Alignment explanation
Indices: 55170040--55170100 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
55170030 TCATTAACTC
55170040 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
55170070 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
55170100 A
1 A
55170101 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:55178936 original size:51 final size:51
Alignment explanation
Indices: 55178857--55178960 Score: 147
Period size: 51 Copynumber: 2.0 Consensus size: 51
55178847 TAGCAAATAA
*
55178857 GGAGAGAGAGAATGACAGTGGTGAGGGAGGTCTGGTGGAGGG-AGGGGAAAG
1 GGAGAGAGAAAATGACAGTGGTGAGGGAGGTCTGGTGG-GGGAAGGGGAAAG
** * *
55178908 GGAGAGAGAAAATGATGGTGGTGGGGGAGGTTTGGTGGGGGAAGGGGAAAG
1 GGAGAGAGAAAATGACAGTGGTGAGGGAGGTCTGGTGGGGGAAGGGGAAAG
55178959 GG
1 GG
55178961 GTGAGGGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 3 0.06
51 44 0.94
ACGTcount: A:0.28, C:0.02, G:0.57, T:0.13
Consensus pattern (51 bp):
GGAGAGAGAAAATGACAGTGGTGAGGGAGGTCTGGTGGGGGAAGGGGAAAG
Found at i:55179059 original size:20 final size:20
Alignment explanation
Indices: 55179015--55179061 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
55179005 TATAAAATTT
* * *
55179015 AAATTTATTATTATATTTTT
1 AAATTTTTTAATATATTTTA
*
55179035 GAATTTTTTAATATATTTTA
1 AAATTTTTTAATATATTTTA
55179055 AAATTTT
1 AAATTTT
55179062 ATATATTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
AAATTTTTTAATATATTTTA
Found at i:55179067 original size:19 final size:19
Alignment explanation
Indices: 55179012--55179072 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
55179002 TGGTATAAAA
*
55179012 TTTAAATTTATTAT-TATAT
1 TTTAAAATT-TTATATATAT
** *
55179031 TTTTGAATTTTTTAATATAT
1 TTTAAAATTTTAT-ATATAT
55179051 TTTAAAATTTTATATATTAT
1 TTTAAAATTTTATATA-TAT
55179071 TT
1 TT
55179073 CTTATCAACA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
18 3 0.09
19 9 0.28
20 20 0.62
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTAAAATTTTATATATAT
Found at i:55179116 original size:22 final size:23
Alignment explanation
Indices: 55179091--55179134 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
55179081 CAATATTTTA
*
55179091 TATTTTTATATTTTTT-AAAATT
1 TATTATTATATTTTTTGAAAATT
55179113 TATTATTATATTTTTTGAAAAT
1 TATTATTATATTTTTTGAAAAT
55179135 ATTTATGTAT
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:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTTTTGAAAATT
Found at i:55179120 original size:51 final size:53
Alignment explanation
Indices: 55179039--55179156 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 53
55179029 ATTTTTGAAT
55179039 TTTTTAATATATTTTAAAATTTTATATATTAT-TTCTTATCAACAATATTT-TATA
1 TTTTT-ATATATTTTAAAATTTTATATATTATATT-TTATCAA-AATATTTATATA
* * * *
55179093 TTTTTATATTTTTTAAAA-TTTAT-TATTATATTTTTTGAAAATATTTATGTA
1 TTTTTATATATTTTAAAATTTTATATATTATATTTTATCAAAATATTTATATA
55179144 TTTTTATATATTT
1 TTTTTATATATTT
55179157 GTTAGAATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
50 7 0.12
51 26 0.46
52 7 0.12
53 12 0.21
54 5 0.09
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (53 bp):
TTTTTATATATTTTAAAATTTTATATATTATATTTTATCAAAATATTTATATA
Found at i:55179140 original size:22 final size:21
Alignment explanation
Indices: 55179090--55179148 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
55179080 ACAATATTTT
55179090 ATATTT-TTATATTTTTTAAA
1 ATATTTATTATATTTTTTAAA
*
55179110 ATTTATTATTATATTTTTTGAAA
1 ATAT-TTATTATATTTTTT-AAA
*
55179133 ATATTTA-TGTATTTTT
1 ATATTTATTATATTTTT
55179149 ATATATTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 3 0.09
21 10 0.30
22 14 0.42
23 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
ATATTTATTATATTTTTTAAA
Found at i:55180081 original size:23 final size:23
Alignment explanation
Indices: 55180038--55180081 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
55180028 TCGAATACTC
*
55180038 ACCCCTAATTACAGATCACTAAA
1 ACCCCTAATTACAGATAACTAAA
55180061 ACCCTCTAATTACA-ATAACTA
1 ACCC-CTAATTACAGATAACTA
55180082 TCCAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.25
Consensus pattern (23 bp):
ACCCCTAATTACAGATAACTAAA
Found at i:55181903 original size:23 final size:23
Alignment explanation
Indices: 55181877--55181925 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
55181867 TATTATACAT
*
55181877 TTTCTAACAGAAAATCAATTCTC
1 TTTCTAACACAAAATCAATTCTC
55181900 TTTCTAACACAAAATCAATTCTC
1 TTTCTAACACAAAATCAATTCTC
55181923 TTT
1 TTT
55181926 AATAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (23 bp):
TTTCTAACACAAAATCAATTCTC
Found at i:55181970 original size:10 final size:10
Alignment explanation
Indices: 55181957--55181995 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
55181947 AGTGTTGATT
55181957 AATTAAATAA
1 AATTAAATAA
55181967 AATTAAGATAAA
1 AATTAA-AT-AA
55181979 AATTAAATAA
1 AATTAAATAA
*
55181989 TATTAAA
1 AATTAAA
55181996 AATTAGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 14 0.54
11 4 0.15
12 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (10 bp):
AATTAAATAA
Found at i:55182064 original size:15 final size:15
Alignment explanation
Indices: 55182044--55182073 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55182034 AATTAAATTT
55182044 AAATTTAAAATTTTA
1 AAATTTAAAATTTTA
*
55182059 AAATTTATAATTTTA
1 AAATTTAAAATTTTA
55182074 GGGAAAGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATTTAAAATTTTA
Found at i:55182429 original size:13 final size:14
Alignment explanation
Indices: 55182411--55182440 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
55182401 TCTGTAATTA
55182411 TAAAAAATTAA-AT
1 TAAAAAATTAATAT
55182424 TAAAAAATTAATAT
1 TAAAAAATTAATAT
55182438 TAA
1 TAA
55182441 GTAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAAAATTAATAT
Found at i:55184040 original size:83 final size:84
Alignment explanation
Indices: 55183890--55184057 Score: 320
Period size: 84 Copynumber: 2.0 Consensus size: 84
55183880 TAAAAATATG
55183890 TTTTTTTGTATGTTATTAATTTTTATTATATTGATTCTGATATATTTATTTATGTTATATAATTG
1 TTTTTTTGTATGTTATTAATTTTTATTATATTGATTCTGATATATTTATTTATGTTATATAATTG
55183955 TGTCAAATATTGTCAAATA
66 TGTCAAATATTGTCAAATA
*
55183974 TTTTTTTGTATGTTATTAATTTTTATTATATTGATTTTGATAT-TTTATTTATGTTATATAATTG
1 TTTTTTTGTATGTTATTAATTTTTATTATATTGATTCTGATATATTTATTTATGTTATATAATTG
55184038 TGTCAAATATTGTCAAATA
66 TGTCAAATATTGTCAAATA
55184057 T
1 T
55184058 ACAATTTATT
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
83 41 0.49
84 42 0.51
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (84 bp):
TTTTTTTGTATGTTATTAATTTTTATTATATTGATTCTGATATATTTATTTATGTTATATAATTG
TGTCAAATATTGTCAAATA
Found at i:55184066 original size:41 final size:41
Alignment explanation
Indices: 55183929--55184057 Score: 138
Period size: 42 Copynumber: 3.1 Consensus size: 41
55183919 ATTGATTCTG
55183929 ATATATTTATTTATGTTATATAATTGTGTCAAATATTGTCAA
1 ATAT-TTTATTTATGTTATATAATTGTGTCAAATATTGTCAA
* * * ***
55183971 ATATTTTTTTGTATGTTAT-TAATT-T-TTATTATATTGATTTTG
1 ATATTTTATT-TATGTTATATAATTGTGTCA-AATATTG--TCAA
55184013 ATATTTTATTTATGTTATATAATTGTGTCAAATATTGTCAA
1 ATATTTTATTTATGTTATATAATTGTGTCAAATATTGTCAA
55184054 ATAT
1 ATAT
55184058 ACAATTTATT
Statistics
Matches: 68, Mismatches: 12, Indels: 15
0.72 0.13 0.16
Matches are distributed among these distances:
39 2 0.03
40 7 0.10
41 23 0.34
42 27 0.40
43 7 0.10
44 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (41 bp):
ATATTTTATTTATGTTATATAATTGTGTCAAATATTGTCAA
Found at i:55186738 original size:574 final size:562
Alignment explanation
Indices: 55185279--55186739 Score: 1550
Period size: 574 Copynumber: 2.6 Consensus size: 562
55185269 TAACTCAGTT
* * * ***
55185279 AGGGTCTTAAATAATAGTATAAATATGTATATAACAATTGTTTAAATTATTT-TTAAAAAATAAT
1 AGGGACTT-AATAATAATATAGATATGTATATAACAATTGTTTAAATT-TTTATTTTTAAATAAT
* ** *
55185343 TTAAAATTATTAAATATAATATTTATATAAATATTTGTTGGCTAATAGATAAAATAATTAAGTAT
64 TTAAAA-TATTAAATATAATATTTATATAAATATTTTTTGATTAATAGATAAAAGAATTAAGTAT
* * *
55185408 TATATCAAATGAT-TTTTCATATTCATTTTCTTACAATCTATGTAATTATTTTTTAATTAATAAA
128 TATATAAAATGATATTTT-GTATTCATTTTCTTACAATTTATGTAA-TA-TTTTTAATTAATAAA
* * **
55185472 AATGAACAAATCCTTGAAATAAATAAACCTTTGAGCCAAACATAGTAAAGCAAAAATGCAAGTTA
190 AAT-TACAAATCCTTGAAATAAATAAACCTTTGAGCCAAACGTAACAAAGCAAAAATG-AAGTTA
* * * *
55185537 ACAATTGTTGATAT-AAGTTTTGGTGTTAAGAGGTTTAAGACAGATCATACGCGATGTTGAGAGC
253 ATAATTGTTGAT-TCAAGTTTTGGTGTTAAGAGGTTTAAGACAGTTCACACGAGATGTTGAGAGC
* ** * * *
55185601 TATTAATGGTGGTGTGAGATGTTTGAAGAGGTATGAAGATAGTTTGACTGACAGTTTTGGTAATC
317 CATTAACCGTGGTGTGAGATGTTTGAAGAGGTACGAAGATACTTTGAC-GAAAGTTTTGGTAATC
* * * *
55185666 TTTAGATTGCTTGGCTGTTATTGGAGATGCAAGGGTTTTACATATAGTATTCACGTCAATTTTTT
381 CTTAGATTGCTTCGCTCTTATTGGAGATGCAA--G---TA-ATATAGTATTCACATCAATTTTTT
* * * *
55185731 TTATTTTTAAGTATAAATATTAAAATATCTTCAAAAAATATAATTTATTTTGATTATGAAATGAT
440 TTATTTTTAAG-ATAAAGATTAAAATATCTTCAAAAAATATAATTTATTTTAATTACGAAATGAC
* * * *
55185796 ATTTTTGTAATTTCTTTAATTGAGTTGGTATTCAATTGATTCCTGAAATTAATTTAATT
504 ATTTTCGTAATTTCTTTAACTGAATTGGTATTCAATTGATTCCTGAAATTAATTTAATC
*
55185855 AGGGACTTAATTAATAATATAGATATGTATATAACAATTGTTT-AA--TTTA-ATTT-AA-AA--
1 AGGGACTTAA-TAATAATATAGATATGTATATAACAATTGTTTAAATTTTTATTTTTAAATAATT
*
55185912 T----TATTAAATATAATATTTATATAAATGTTCTTTTGATTAATAGATAAAAAGAATTAAGTAT
65 TAAAATATTAAATATAATATTTATATAAATATT-TTTTGATTAATAGAT-AAAAGAATTAAGTAT
* *
55185973 TATATAAAATTATA-TTTGTATTCATTTTCTTACAACTTATGT-AT-TTTTTAATTAATAAAAAT
128 TATATAAAATGATATTTTGTATTCATTTTCTTACAATTTATGTAATATTTTTAATTAATAAAAAT
* * *
55186035 TA-ATAACTCCTTGAATTAAATAAACCTTGGAGCCAAACGT-ACCAAGCAAAAATGAAGGTTAAT
193 TACA-AA-TCCTTGAAATAAATAAACCTTTGAGCCAAACGTAACAAAGCAAAAATGAA-GTTAAT
* * * * * *
55186098 AATTGTTGATACAAGTTTTGGTGTTAAAAGGTTTAAGACAATTCACATGAGACGCTGAGAGCCAT
255 AATTGTTGATTCAAGTTTTGGTGTTAAGAGGTTTAAGACAGTTCACACGAGATGTTGAGAGCCAT
*
55186163 TAACCGTGGTGTGAGAATGTTTGGAGAGGTACGAAGATACTTTGAC-AAAGTTTTGGTAATCCTT
320 TAACCGTGGTGTGAG-ATGTTTGAAGAGGTACGAAGATACTTTGACGAAAGTTTTGGTAATCCTT
*
55186227 AGATTGCTTCGCTCTTCTTGGAGATGC-A-T-ATATAGTA-TCTACATCAAATTTTCTATTGT-T
384 AGATTGCTTCGCTCTTATTGGAGATGCAAGTAATATAGTATTC-ACATC-AATTTT-T-TT-TAT
* * *
55186287 TTTTAAG-TAAAGATTGAAATAT-TCTCAAATAATATAATTTATTTTAATTACGGAATGACATTT
444 TTTTAAGATAAAGATTAAAATATCT-TCAAAAAATATAATTTATTTTAATTACGAAATGACATTT
* * * *
55186350 TCGTAATTTTTTTAACTGAATTGGTGTTCGATTAACTTGTGACATTTC-GATTAACTTGTGATTT
508 TCGTAATTTCTTTAACTGAATTGGTATTC----AA--T-TG--ATTCCTGA--AA--T-T-AATT
55186414 TAACTC
558 TAA-TC
** *
55186420 A-GGACTTGAATAATAATATAGATACATATATAATAATTGTTTAAATTTTTTATTTTTAAATAAT
1 AGGGACTT-AATAATAATATAGATATGTATATAACAATTGTTTAAA-TTTTTATTTTTAAATAAT
* * *
55186484 TTAAAATATTAAATATAATATTTATGT-AATATTTTTTGTTTAATAGATAAAA-ATTTAAGTATT
64 TTAAAATATTAAATATAATATTTATATAAATATTTTTTGATTAATAGATAAAAGAATTAAGTATT
*
55186547 ATATAAAATGATATTTTGTATTCA-TTTCTTACAATTTATATAATATTTTTAATTAATAAAAATT
129 ATATAAAATGATATTTTGTATTCATTTTCTTACAATTTATGTAATATTTTTAATTAATAAAAATT
* * * * *
55186611 ACAAATCCTTAAAATAAATAAAGCTTTGAGCCAAATGTAACAAAGTAAAAACGAAGTTAATAATT
194 ACAAATCCTTGAAATAAATAAACCTTTGAGCCAAACGTAACAAAGCAAAAATGAAGTTAATAATT
** * *
55186676 GTCAATTCAAGTTTTCGTGTTAAGAGGTTTAAGATAGTTCACACGAGATGTTG-GATGCCATTAA
259 GTTGATTCAAGTTTTGGTGTTAAGAGGTTTAAGACAGTTCACACGAGATGTTGAGA-GCCATTAA
55186740 TGCTGGCCAC
Statistics
Matches: 743, Mismatches: 90, Indels: 106
0.79 0.10 0.11
Matches are distributed among these distances:
548 2 0.00
549 13 0.02
550 77 0.10
551 2 0.00
552 10 0.01
553 1 0.00
554 2 0.00
556 1 0.00
557 3 0.00
558 45 0.06
559 90 0.12
560 77 0.10
562 2 0.00
563 29 0.04
564 75 0.10
565 34 0.05
568 5 0.01
569 3 0.00
570 4 0.01
571 4 0.01
572 3 0.00
573 40 0.05
574 105 0.14
575 53 0.07
576 43 0.06
577 20 0.03
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.40
Consensus pattern (562 bp):
AGGGACTTAATAATAATATAGATATGTATATAACAATTGTTTAAATTTTTATTTTTAAATAATTT
AAAATATTAAATATAATATTTATATAAATATTTTTTGATTAATAGATAAAAGAATTAAGTATTAT
ATAAAATGATATTTTGTATTCATTTTCTTACAATTTATGTAATATTTTTAATTAATAAAAATTAC
AAATCCTTGAAATAAATAAACCTTTGAGCCAAACGTAACAAAGCAAAAATGAAGTTAATAATTGT
TGATTCAAGTTTTGGTGTTAAGAGGTTTAAGACAGTTCACACGAGATGTTGAGAGCCATTAACCG
TGGTGTGAGATGTTTGAAGAGGTACGAAGATACTTTGACGAAAGTTTTGGTAATCCTTAGATTGC
TTCGCTCTTATTGGAGATGCAAGTAATATAGTATTCACATCAATTTTTTTTATTTTTAAGATAAA
GATTAAAATATCTTCAAAAAATATAATTTATTTTAATTACGAAATGACATTTTCGTAATTTCTTT
AACTGAATTGGTATTCAATTGATTCCTGAAATTAATTTAATC
Found at i:55191533 original size:15 final size:16
Alignment explanation
Indices: 55191509--55191539 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
55191499 AAAAGAGTGT
55191509 GAAAGAAAAAAGAAAA
1 GAAAGAAAAAAGAAAA
55191525 GAAAG-AAAAAGAAAA
1 GAAAGAAAAAAGAAAA
55191540 AGACTATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAAAGAAAA
Found at i:55191540 original size:16 final size:16
Alignment explanation
Indices: 55191509--55191559 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
55191499 AAAAGAGTGT
55191509 GAAAGAAAAA-AGAAAA
1 GAAAGAAAAAGA-AAAA
55191525 GAAAGAAAAAGAAAAA
1 GAAAGAAAAAGAAAAA
*
55191541 GACTATGAAAAAGAAAAA
1 GA--AAGAAAAAGAAAAA
55191559 G
1 G
55191560 GGGATGAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 16 0.52
17 1 0.03
18 14 0.45
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (16 bp):
GAAAGAAAAAGAAAAA
Found at i:55191566 original size:18 final size:18
Alignment explanation
Indices: 55191529--55191598 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
55191519 AGAAAAGAAA
*
55191529 GAAAAAGAAAAA-GACTAT
1 GAAAAAGAAAAAGGA-GAT
*
55191547 GAAAAAGAAAAAGGGGAT
1 GAAAAAGAAAAAGGAGAT
* *
55191565 GAGAAAAATAAAAATGAGATT
1 --GAAAAAGAAAAAGGAGA-T
55191586 GAAAAAGAAAAAG
1 GAAAAAGAAAAAG
55191599 AACTTGGTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
18 14 0.34
19 12 0.29
20 14 0.34
21 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.23, T:0.10
Consensus pattern (18 bp):
GAAAAAGAAAAAGGAGAT
Found at i:55191572 original size:20 final size:19
Alignment explanation
Indices: 55191528--55191598 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
55191518 AAGAAAAGAA
*
55191528 AGAAAAAGAAAAA-GA-CT
1 AGAAAAAGAAAAAGGAGAT
*
55191545 ATGAAAAAGAAAAAGGGGAT
1 A-GAAAAAGAAAAAGGAGAT
* *
55191565 GAGAAAAATAAAAATGAGAT
1 -AGAAAAAGAAAAAGGAGAT
*
55191585 TGAAAAAGAAAAAG
1 AGAAAAAGAAAAAG
55191599 AACTTGGTCT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 1 0.02
18 12 0.29
19 12 0.29
20 16 0.38
21 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.23, T:0.10
Consensus pattern (19 bp):
AGAAAAAGAAAAAGGAGAT
Found at i:55195458 original size:51 final size:51
Alignment explanation
Indices: 55195379--55195482 Score: 147
Period size: 51 Copynumber: 2.0 Consensus size: 51
55195369 TAGCAAATAA
*
55195379 GGAGAGAGAGAATGACAGTGGTGAGGGAGGTCTGGTGGAGGG-AGGGGAAAG
1 GGAGAGAGAAAATGACAGTGGTGAGGGAGGTCTGGTGG-GGGAAGGGGAAAG
** * *
55195430 GGAGAGAGAAAATGATGGTGGTGGGGGAGGTTTGGTGGGGGAAGGGGAAAG
1 GGAGAGAGAAAATGACAGTGGTGAGGGAGGTCTGGTGGGGGAAGGGGAAAG
55195481 GG
1 GG
55195483 GTGAGGGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 3 0.06
51 44 0.94
ACGTcount: A:0.28, C:0.02, G:0.57, T:0.13
Consensus pattern (51 bp):
GGAGAGAGAAAATGACAGTGGTGAGGGAGGTCTGGTGGGGGAAGGGGAAAG
Found at i:55195581 original size:20 final size:20
Alignment explanation
Indices: 55195537--55195583 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
55195527 TATAAAATTT
* * *
55195537 AAATTTATTATTATATTTTT
1 AAATTTTTTAATATATTTTA
*
55195557 GAATTTTTTAATATATTTTA
1 AAATTTTTTAATATATTTTA
55195577 AAATTTT
1 AAATTTT
55195584 ATATATTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
AAATTTTTTAATATATTTTA
Found at i:55195589 original size:19 final size:19
Alignment explanation
Indices: 55195534--55195594 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
55195524 TGGTATAAAA
*
55195534 TTTAAATTTATTAT-TATAT
1 TTTAAAATT-TTATATATAT
** *
55195553 TTTTGAATTTTTTAATATAT
1 TTTAAAATTTTAT-ATATAT
55195573 TTTAAAATTTTATATATTAT
1 TTTAAAATTTTATATA-TAT
55195593 TT
1 TT
55195595 CTTATCAACA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
18 3 0.09
19 9 0.28
20 20 0.62
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTAAAATTTTATATATAT
Found at i:55195638 original size:22 final size:23
Alignment explanation
Indices: 55195613--55195656 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
55195603 CAATATTTTA
*
55195613 TATTTTTATATTTTTT-AAAATT
1 TATTATTATATTTTTTGAAAATT
55195635 TATTATTATATTTTTTGAAAAT
1 TATTATTATATTTTTTGAAAAT
55195657 ATTTATGTAT
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:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTTTTGAAAATT
Found at i:55195642 original size:51 final size:52
Alignment explanation
Indices: 55195561--55195685 Score: 139
Period size: 51 Copynumber: 2.4 Consensus size: 52
55195551 ATTTTTGAAT
*
55195561 TTTTTAATATATTTTAAAATTTTATATATTAT-TTCTTATCAACAATATTT-TATA
1 TTTTT-ATATTTTTTAAAA-TTTATATATTATATT-TTATCAA-AATATTTATATA
* * *
55195615 TTTTTATATTTTTTAAAATTTAT-TATTATATTTTTTGAAAATATTTATGTA
1 TTTTTATATTTTTTAAAATTTATATATTATATTTTATCAAAATATTTATATA
* *
55195666 TTTTTATATTTGTTAGAATT
1 TTTTTATATTTTTTAAAATT
55195686 AGAATCAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
50 7 0.11
51 32 0.51
52 7 0.11
53 12 0.19
54 5 0.08
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (52 bp):
TTTTTATATTTTTTAAAATTTATATATTATATTTTATCAAAATATTTATATA
Found at i:55195662 original size:22 final size:21
Alignment explanation
Indices: 55195612--55195670 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
55195602 ACAATATTTT
55195612 ATATTT-TTATATTTTTTAAA
1 ATATTTATTATATTTTTTAAA
*
55195632 ATTTATTATTATATTTTTTGAAA
1 ATAT-TTATTATATTTTTT-AAA
*
55195655 ATATTTA-TGTATTTTT
1 ATATTTATTATATTTTT
55195671 ATATTTGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 3 0.09
21 10 0.30
22 14 0.42
23 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
ATATTTATTATATTTTTTAAA
Found at i:55196601 original size:23 final size:23
Alignment explanation
Indices: 55196558--55196601 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
55196548 TCGAATACTC
*
55196558 ACCCCTAATTACAGATCACTAAA
1 ACCCCTAATTACAGATAACTAAA
55196581 ACCCTCTAATTACA-ATAACTA
1 ACCC-CTAATTACAGATAACTA
55196602 TCCAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.25
Consensus pattern (23 bp):
ACCCCTAATTACAGATAACTAAA
Found at i:55198423 original size:23 final size:23
Alignment explanation
Indices: 55198397--55198445 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
55198387 TATTATACAT
*
55198397 TTTCTAACAGAAAATCAATTCTC
1 TTTCTAACACAAAATCAATTCTC
55198420 TTTCTAACACAAAATCAATTCTC
1 TTTCTAACACAAAATCAATTCTC
55198443 TTT
1 TTT
55198446 AATAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (23 bp):
TTTCTAACACAAAATCAATTCTC
Found at i:55198490 original size:10 final size:10
Alignment explanation
Indices: 55198477--55198515 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
55198467 AGTGTTGATT
55198477 AATTAAATAA
1 AATTAAATAA
55198487 AATTAAGATAAA
1 AATTAA-AT-AA
55198499 AATTAAATAA
1 AATTAAATAA
*
55198509 TATTAAA
1 AATTAAA
55198516 AATTAGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 14 0.54
11 4 0.15
12 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (10 bp):
AATTAAATAA
Found at i:55198584 original size:15 final size:15
Alignment explanation
Indices: 55198564--55198593 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55198554 AATTAAATTT
55198564 AAATTTAAAATTTTA
1 AAATTTAAAATTTTA
*
55198579 AAATTTATAATTTTA
1 AAATTTAAAATTTTA
55198594 GGGAAAGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATTTAAAATTTTA
Found at i:55198950 original size:13 final size:14
Alignment explanation
Indices: 55198932--55198961 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
55198922 TCTGTAATTA
55198932 TAAAAAATTAA-AT
1 TAAAAAATTAATAT
55198945 TAAAAAATTAATAT
1 TAAAAAATTAATAT
55198959 TAA
1 TAA
55198962 GTAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAAAATTAATAT
Found at i:55200560 original size:83 final size:84
Alignment explanation
Indices: 55200410--55200577 Score: 320
Period size: 84 Copynumber: 2.0 Consensus size: 84
55200400 TAAAAATATG
55200410 TTTTTTTGTATGTTATTAATTTTTATTATATTGATTCTGATATATTTATTTATGTTATATAATTG
1 TTTTTTTGTATGTTATTAATTTTTATTATATTGATTCTGATATATTTATTTATGTTATATAATTG
55200475 TGTCAAATATTGTCAAATA
66 TGTCAAATATTGTCAAATA
*
55200494 TTTTTTTGTATGTTATTAATTTTTATTATATTGATTTTGATAT-TTTATTTATGTTATATAATTG
1 TTTTTTTGTATGTTATTAATTTTTATTATATTGATTCTGATATATTTATTTATGTTATATAATTG
55200558 TGTCAAATATTGTCAAATA
66 TGTCAAATATTGTCAAATA
55200577 T
1 T
55200578 ACAATTTATT
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
83 41 0.49
84 42 0.51
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (84 bp):
TTTTTTTGTATGTTATTAATTTTTATTATATTGATTCTGATATATTTATTTATGTTATATAATTG
TGTCAAATATTGTCAAATA
Found at i:55200586 original size:41 final size:41
Alignment explanation
Indices: 55200449--55200577 Score: 138
Period size: 42 Copynumber: 3.1 Consensus size: 41
55200439 ATTGATTCTG
55200449 ATATATTTATTTATGTTATATAATTGTGTCAAATATTGTCAA
1 ATAT-TTTATTTATGTTATATAATTGTGTCAAATATTGTCAA
* * * ***
55200491 ATATTTTTTTGTATGTTAT-TAATT-T-TTATTATATTGATTTTG
1 ATATTTTATT-TATGTTATATAATTGTGTCA-AATATTG--TCAA
55200533 ATATTTTATTTATGTTATATAATTGTGTCAAATATTGTCAA
1 ATATTTTATTTATGTTATATAATTGTGTCAAATATTGTCAA
55200574 ATAT
1 ATAT
55200578 ACAATTTATT
Statistics
Matches: 68, Mismatches: 12, Indels: 15
0.72 0.13 0.16
Matches are distributed among these distances:
39 2 0.03
40 7 0.10
41 23 0.34
42 27 0.40
43 7 0.10
44 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (41 bp):
ATATTTTATTTATGTTATATAATTGTGTCAAATATTGTCAA
Found at i:55205213 original size:9 final size:10
Alignment explanation
Indices: 55205199--55205238 Score: 59
Period size: 9 Copynumber: 4.3 Consensus size: 10
55205189 TGATCTGTTT
55205199 TTAG-TTAAA
1 TTAGTTTAAA
55205208 TTAG-TTAAA
1 TTAGTTTAAA
55205217 TTAGTTTAAA
1 TTAGTTTAAA
55205227 TT-GTTTAAA
1 TTAGTTTAAA
55205236 TTA
1 TTA
55205239 ATTACTAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (10 bp):
TTAGTTTAAA
Found at i:55205227 original size:19 final size:18
Alignment explanation
Indices: 55205199--55205238 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
55205189 TGATCTGTTT
55205199 TTAG-TTAAATTAGTTAAA
1 TTAGTTTAAATT-GTTAAA
55205217 TTAGTTTAAATTGTTTAAA
1 TTAGTTTAAATTG-TTAAA
55205236 TTA
1 TTA
55205239 ATTACTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (18 bp):
TTAGTTTAAATTGTTAAA
Found at i:55206660 original size:10 final size:10
Alignment explanation
Indices: 55206645--55206674 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
55206635 CATTTTACCA
*
55206645 AAAAAAATTG
1 AAAAAAATTC
55206655 AAAAAAATTC
1 AAAAAAATTC
55206665 AAAAAAATTC
1 AAAAAAATTC
55206675 GTGTAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:55207856 original size:18 final size:18
Alignment explanation
Indices: 55207819--55207888 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
55207809 AGAAAAGAAA
*
55207819 GAAAAAGAAAAA-GACTAT
1 GAAAAAGAAAAAGGA-GAT
*
55207837 GAAAAAGAAAAAGGGGAT
1 GAAAAAGAAAAAGGAGAT
* *
55207855 GAGAAAAATAAAAATGAGATT
1 --GAAAAAGAAAAAGGAGA-T
55207876 GAAAAAGAAAAAG
1 GAAAAAGAAAAAG
55207889 AACTTGGTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
18 14 0.34
19 12 0.29
20 14 0.34
21 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.23, T:0.10
Consensus pattern (18 bp):
GAAAAAGAAAAAGGAGAT
Found at i:55207862 original size:20 final size:19
Alignment explanation
Indices: 55207818--55207888 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
55207808 AAGAAAAGAA
*
55207818 AGAAAAAGAAAAA-GA-CT
1 AGAAAAAGAAAAAGGAGAT
*
55207835 ATGAAAAAGAAAAAGGGGAT
1 A-GAAAAAGAAAAAGGAGAT
* *
55207855 GAGAAAAATAAAAATGAGAT
1 -AGAAAAAGAAAAAGGAGAT
*
55207875 TGAAAAAGAAAAAG
1 AGAAAAAGAAAAAG
55207889 AACTTGGTCT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 1 0.02
18 12 0.29
19 12 0.29
20 16 0.38
21 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.23, T:0.10
Consensus pattern (19 bp):
AGAAAAAGAAAAAGGAGAT
Found at i:55210371 original size:44 final size:44
Alignment explanation
Indices: 55210306--55210392 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
55210296 TTGATATCTC
* *
55210306 AAAGTCCATGGTTGTACCATGGCAATTAAAGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAAGAAGAATTGACGGA
* * *
55210350 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGACGG
1 AAAGTCCATGGTT-ATAACATGGCAATTAAAGAAGAATTGACGG
55210393 TTAAGGATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.08
44 34 0.92
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAAGAAGAATTGACGGA
Found at i:55210601 original size:54 final size:54
Alignment explanation
Indices: 55210537--55210730 Score: 191
Period size: 54 Copynumber: 3.6 Consensus size: 54
55210527 TTGGTAAGAT
*
55210537 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGA
* * ** * *
55210591 AAGGAAATCATGTAAGACCGTGTTAAGACATGGCATTGATGAG-T-TACAAGTCA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAG-GA
* * * *
55210644 AAGG-T-CCTATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATATC-ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGA
* * ** *
55210696 AACGATACCACATAAGACCATGTCAAGACATGGCA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCA
55210731 ATGGTAAGTT
Statistics
Matches: 112, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
51 1 0.01
52 37 0.33
53 34 0.30
54 40 0.36
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGA
Found at i:55215725 original size:30 final size:31
Alignment explanation
Indices: 55215644--55215715 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
55215634 TCAATCTCAA
* *
55215644 CATAT-ACTAGGCCGAAGCCTT-TGCATTATT
1 CATATCACTGGGCCAAAGCCTTAT-CATTATT
*
55215674 CATGTCACTGGGCCAAAGCCTTATCATTA-T
1 CATATCACTGGGCCAAAGCCTTATCATTATT
55215704 CATATCACTGGG
1 CATATCACTGGG
55215716 TCGATGCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 16 0.44
31 19 0.53
32 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTATCATTATT
Found at i:55215975 original size:25 final size:25
Alignment explanation
Indices: 55215947--55216016 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
55215937 CTCTTTTAAT
*
55215947 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
55215972 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
55215997 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
55216017 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:55223791 original size:30 final size:31
Alignment explanation
Indices: 55223717--55223799 Score: 125
Period size: 30 Copynumber: 2.7 Consensus size: 31
55223707 TCAATCTCAA
55223717 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* *
55223747 CATGTCACTGGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
*
55223777 CATATCACTAGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
55223800 ATTGTAAACG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 26 0.54
31 22 0.46
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:55224054 original size:25 final size:25
Alignment explanation
Indices: 55224020--55224114 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
55224010 CTCTTTTAAT
* *
55224020 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
55224045 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
55224070 AACTGGGGCAAAGCCCTTCTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
55224095 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
55224115 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:55228052 original size:30 final size:30
Alignment explanation
Indices: 55228018--55228076 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
55228008 CGATTTTCGA
* * *
55228018 GCCTAGAGG-CAAAATTGTTATTTTGCCAAG
1 GCCTA-AGGACAAAATGGTCATTTTACCAAG
55228048 GCCTAAGGACAAAATGGTCATTTTACCAA
1 GCCTAAGGACAAAATGGTCATTTTACCAA
55228077 ATATGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (30 bp):
GCCTAAGGACAAAATGGTCATTTTACCAAG
Found at i:55228452 original size:46 final size:47
Alignment explanation
Indices: 55228399--55228618 Score: 191
Period size: 46 Copynumber: 4.7 Consensus size: 47
55228389 ACTTGTGTGT
* *
55228399 GCTAGTGTAAGACATGTCTGGGACATGTATCGGCCAC-ATTATGGA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGGAGA
* *** ** * * *
55228445 GCTAGTGTAAGACCATGTCTGGGACATGGAAAATGTAATGAGA-CGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGATGGAGA
* *
55228493 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGGAGA
* * * *
55228539 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGAT-GATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGGAGA
55228585 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCG
55228619 ACTTGAGATA
Statistics
Matches: 137, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
45 1 0.01
46 68 0.50
47 45 0.33
48 22 0.16
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGGAGA
Found at i:55228627 original size:47 final size:45
Alignment explanation
Indices: 55228496--55228656 Score: 177
Period size: 46 Copynumber: 3.5 Consensus size: 45
55228486 GACGAGTGCT
*
55228496 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACTCGAGATGAT-AGCC
*
55228542 AGTGTAAGACATGTCTGGGACATGCATC-AGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CT-CGAGATGATAGCC
*
55228588 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATACGA-A-CC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGAT--GATAGCC
*
55228635 AGTGTAAGACTATGTCTAGGAC
1 AGTGTAAGAC-ATGTCTGGGAC
55228657 TTGGCATTGG
Statistics
Matches: 101, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
45 2 0.02
46 48 0.48
47 40 0.40
48 8 0.08
49 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATGATAGCC
Found at i:55231294 original size:28 final size:28
Alignment explanation
Indices: 55231229--55231379 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
55231219 GAGATTGGCG
* * * *
55231229 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
55231258 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
55231286 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
55231314 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
55231342 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
55231369 CTGAGTGTGCG
1 CTAAGTGTGCG
55231380 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.21
28 74 0.65
29 15 0.13
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:55239268 original size:28 final size:28
Alignment explanation
Indices: 55239203--55239354 Score: 216
Period size: 28 Copynumber: 5.4 Consensus size: 28
55239193 GAGATTGGCG
* * * *
55239203 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
55239232 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
55239260 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
55239288 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
55239316 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
55239343 CTGAGTGTGCGA
1 CTAAGTGTGCGA
55239355 ACTTAATATA
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 25 0.22
28 74 0.65
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:55248076 original size:40 final size:40
Alignment explanation
Indices: 55248032--55248161 Score: 206
Period size: 40 Copynumber: 3.2 Consensus size: 40
55248022 GCTCTCGATA
55248032 TAATATATATACGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATACGGGTTAAATCCCGCAGGCTTCGTGCTGG
* *
55248072 TAATATATATCCGGGTTAAATCCCGCAGGTTTCGTGCTGG
1 TAATATATATACGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
55248112 TAATATATATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGG
1 TAATATATATA-C-GGGTTAAATCCCGCAGGCTTCGTGCTGG
*
55248154 TACTATAT
1 TAATATAT
55248162 CCGGACTTAG
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 48 0.59
41 1 0.01
42 33 0.40
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (40 bp):
TAATATATATACGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:55248120 original size:42 final size:42
Alignment explanation
Indices: 55248034--55248161 Score: 197
Period size: 42 Copynumber: 3.1 Consensus size: 42
55248024 TCTCGATATA
*
55248034 ATATATATACGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
55248074 ATATATATCCGGGTTAAATCCCGCAGGTTTCGTGCTGGTAAT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
55248116 ATATATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTACT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
55248158 ATAT
1 ATAT
55248162 CCGGACTTAG
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 37 0.46
41 1 0.01
42 42 0.52
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (42 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:55250061 original size:45 final size:45
Alignment explanation
Indices: 55249992--55250093 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 45
55249982 TTTGAGCTCA
* * *
55249992 TTGATTTGGTCCTAGTTCGTGATATATGTG-AGAAATCCGAACTTG
1 TTGAGTTGGTCCAAGGTCGTGATATATGTGAAG-AATCCGAACTTG
* *
55250037 TTGAGTTGGTCCAAGGTCGTGATATATGTGAAGCATCCGAGCTTG
1 TTGAGTTGGTCCAAGGTCGTGATATATGTGAAGAATCCGAACTTG
55250082 TTGAGTTGGTCC
1 TTGAGTTGGTCC
55250094 GAGTTCATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 49 0.96
46 2 0.04
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (45 bp):
TTGAGTTGGTCCAAGGTCGTGATATATGTGAAGAATCCGAACTTG
Found at i:55251629 original size:20 final size:20
Alignment explanation
Indices: 55251606--55251651 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
55251596 TGAGACACAG
*
55251606 GCGTGTCCCAAAGTACACGA
1 GCGTGTCCCAAAGCACACGA
* *
55251626 GCGTGTCCCGAAGCACACGG
1 GCGTGTCCCAAAGCACACGA
55251646 GCGTGT
1 GCGTGT
55251652 GCATTGCCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.33, T:0.15
Consensus pattern (20 bp):
GCGTGTCCCAAAGCACACGA
Found at i:55253713 original size:99 final size:101
Alignment explanation
Indices: 55253532--55253713 Score: 278
Period size: 99 Copynumber: 1.8 Consensus size: 101
55253522 TGAGGTCGCA
* *
55253532 TATGTACTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TATGTACTACTAAGTGCACGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
55253597 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
* * * * *
55253633 TATGTAGTACTAAGTGCACGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTAAG
1 TATGTACTACTAAGTGCACGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
*
55253696 TGCAGGCTACTATGTGTA
66 TGCAGGCTACTACGTGTA
55253714 CCGAATAATT
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 38 0.52
100 1 0.01
101 34 0.47
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
TATGTACTACTAAGTGCACGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
Found at i:55253757 original size:49 final size:49
Alignment explanation
Indices: 55253534--55253764 Score: 268
Period size: 49 Copynumber: 4.7 Consensus size: 49
55253524 AGGTCGCATA
* * *
55253534 TGTACTACTAAGTGCAGGCTACTATGCGTACCCGAA-AACTGTGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGTGTA-CCGAATAA-T-TGGTCACGTG
* * ** *
55253585 TGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTTAGGTCACGTA
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACCGA-ATAATT-GGTCACGTG
* * *
55253635 TGTAGTACTAAGTGCACGCTACTACGTGTACCGGATAATTGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCACGTG
*
55253684 TGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCACATG
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCACGTG
* * *
55253733 TGTTGTACTATGTGCAGGCTACTATGCGTACC
1 TGTAGTACTAAGTGCAGGCTACTATGTGTACC
55253765 AGATAGCTTT
Statistics
Matches: 155, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
49 84 0.54
50 44 0.28
51 27 0.17
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCACGTG
Found at i:55256783 original size:15 final size:15
Alignment explanation
Indices: 55256763--55256827 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
55256753 GTATCTTGGG
55256763 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
55256778 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
55256793 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
55256808 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
55256822 TTTCTT
1 TTTCTT
55256828 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:55256793 original size:30 final size:31
Alignment explanation
Indices: 55256759--55256827 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
55256749 TATCGTATCT
55256759 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
55256789 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
55256819 -GGTTTTCTT
1 TGGGTTTCTT
55256828 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:55259134 original size:49 final size:49
Alignment explanation
Indices: 55258965--55259200 Score: 301
Period size: 49 Copynumber: 4.8 Consensus size: 49
55258955 AGGTCGCATA
* * * * * *
55258965 TGTACTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACGTG
* **
55259016 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACGTG
*
55259066 TGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTG
* * *
55259115 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCTCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTG
* * *
55259164 TGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
55259201 GCTTTGGCTA
Statistics
Matches: 163, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 88 0.54
50 45 0.28
51 30 0.18
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTG
Found at i:55259135 original size:99 final size:100
Alignment explanation
Indices: 55258956--55259200 Score: 323
Period size: 99 Copynumber: 2.5 Consensus size: 100
55258946 TCTATTGTGA
* * * * *
55258956 GGTCGCATATGTACTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTAG
* **
55259021 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
55259056 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTA
*
55259119 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
55259155 GGTCTCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
55259201 GCTTTGGCTA
Statistics
Matches: 124, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 40 0.32
99 45 0.36
100 1 0.01
101 38 0.31
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:55264109 original size:20 final size:21
Alignment explanation
Indices: 55264072--55264110 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
55264062 CAATTATGAT
*
55264072 TAAAAAATTAGCTAAAATACA
1 TAAAAAAATAGCTAAAATACA
*
55264093 TAAAAAAAT-GCTGAAATA
1 TAAAAAAATAGCTAAAATA
55264111 TAAAAACGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (21 bp):
TAAAAAAATAGCTAAAATACA
Found at i:55272995 original size:45 final size:45
Alignment explanation
Indices: 55272846--55272963 Score: 209
Period size: 45 Copynumber: 2.6 Consensus size: 45
55272836 GAGCTCGTTG
*
55272846 AGTTGGTCCGAGTTCGTGATATATGTGAGAAATCCAAACTTGTTA
1 AGTTGGTCCAAGTTCGTGATATATGTGAGAAATCCAAACTTGTTA
* *
55272891 AGTTGGTCCAAGTTCATGATATATGTGAGAAATTCAAACTTGTTA
1 AGTTGGTCCAAGTTCGTGATATATGTGAGAAATCCAAACTTGTTA
55272936 AGTTGGTCCAAGTTCGTGATATATGTGA
1 AGTTGGTCCAAGTTCGTGATATATGTGA
55272964 AGCATCCGAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.35
Consensus pattern (45 bp):
AGTTGGTCCAAGTTCGTGATATATGTGAGAAATCCAAACTTGTTA
Found at i:55273025 original size:44 final size:45
Alignment explanation
Indices: 55272964--55273101 Score: 145
Period size: 44 Copynumber: 2.9 Consensus size: 45
55272954 ATATATGTGA
*
55272964 AGCATCCGAGCTTGTTGAGTTGGTTCGAGTTCATTATGGATGC-G
1 AGCATCCGAGCTCGTTGAGTTGGTTCGAGTTCATTATGGATGCAG
* *
55273008 AGCATCTGAGCTCGTTGAGTT-GATCTGAGTTCATCATGGATGTGATGCATG
1 AGCATCCGAGCTCGTTGAGTTGGTTC-GAGTTCAT--T--ATG-GATGCA-G
* *
55273059 TGACATCCGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATG
1 AG-CATCCGAGCTCGTTGAGTTGGTTCGAGTTCATTATGGATG
55273102 TATACATGTT
Statistics
Matches: 77, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
43 3 0.04
44 27 0.35
46 1 0.01
47 4 0.05
48 6 0.08
49 5 0.06
50 1 0.01
51 2 0.03
52 26 0.34
53 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (45 bp):
AGCATCCGAGCTCGTTGAGTTGGTTCGAGTTCATTATGGATGCAG
Found at i:55273076 original size:52 final size:51
Alignment explanation
Indices: 55273010--55273110 Score: 148
Period size: 52 Copynumber: 2.0 Consensus size: 51
55273000 TGGATGCGAG
* * *
55273010 CATCTGAGCTCGTTGAGTTGATCTGAGTTCATCATGGATGTGATGCATGTGA
1 CATCCGAGCTCGTTGAGTTGATCCGAGTTCATCATGGATGT-ATACATGTGA
* *
55273062 CATCCGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGTATACATGT
1 CATCCGAGCTCGTTGAGTTGATCCGAGTTCATCATGGATGTATACATGT
55273111 TCTGAGGTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 7 0.16
52 37 0.84
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGTTGATCCGAGTTCATCATGGATGTATACATGTGA
Found at i:55276432 original size:27 final size:27
Alignment explanation
Indices: 55276395--55276661 Score: 189
Period size: 27 Copynumber: 10.0 Consensus size: 27
55276385 AAACATACAT
* * **
55276395 CACATAGGGGCAAAATAGTCATTTTGC
1 CACATAAGGGCAAAATCGTCATTTTAA
* *
55276422 CACATAAGGGCAAAA-CTGGCATTTTAT
1 CACATAAGGGCAAAATC-GTCATTTTAA
* * *
55276449 TATATAAAGGCAAAATCGTCATTTTAA
1 CACATAAGGGCAAAATCGTCATTTTAA
* * * *
55276476 CACATAAGGGAAAAACCTTCAATTTAA
1 CACATAAGGGCAAAATCGTCATTTTAA
* * * * **
55276503 CGCATAAAGGTAAAATAGTCATTTTCC
1 CACATAAGGGCAAAATCGTCATTTTAA
* *
55276530 CACATAAGGACAAAATCGTCATTTTAT
1 CACATAAGGGCAAAATCGTCATTTTAA
* * * *
55276557 CACGTAA-AGCAAAATCGTTATTTTGA
1 CACATAAGGGCAAAATCGTCATTTTAA
* * *
55276583 CACATAATGGCAAAACCGTCAATTTAA
1 CACATAAGGGCAAAATCGTCATTTTAA
** * * **
55276610 CGTA-AAGGGAAAAATAGTCATTTTGC
1 CACATAAGGGCAAAATCGTCATTTTAA
*
55276636 CACATAAGGGAAAAATCGTCATTTTA
1 CACATAAGGGCAAAATCGTCATTTTA
55276662 CCCTACAGGG
Statistics
Matches: 178, Mismatches: 58, Indels: 8
0.73 0.24 0.03
Matches are distributed among these distances:
26 37 0.21
27 140 0.79
28 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (27 bp):
CACATAAGGGCAAAATCGTCATTTTAA
Found at i:55276587 original size:53 final size:55
Alignment explanation
Indices: 55276393--55276661 Score: 248
Period size: 54 Copynumber: 5.0 Consensus size: 55
55276383 ATAAACATAC
** * *
55276393 ATCACATAGGGGCAAAATAGTCATTTTGCCACATAAGGG-CAAAACTGGCATTTT
1 ATCACATAAAGGCAAAATAGTCATTTTGCCACATAAGGGACAAAACCGTCATTTT
* * * ** * *
55276447 ATTATATAAAGGCAAAATCGTCATTTTAACACATAAGGGA-AAAACCTTCAATTT
1 ATCACATAAAGGCAAAATAGTCATTTTGCCACATAAGGGACAAAACCGTCATTTT
* * * * *
55276501 AACGCATAAAGGTAAAATAGTCATTTTCCCACATAA-GGACAAAATCGTCATTTT
1 ATCACATAAAGGCAAAATAGTCATTTTGCCACATAAGGGACAAAACCGTCATTTT
* * * * * *
55276555 ATCACGTAAA-GCAAAATCGTTATTTTGACACATAATGG-CAAAACCGTCAATTT
1 ATCACATAAAGGCAAAATAGTCATTTTGCCACATAAGGGACAAAACCGTCATTTT
* * *
55276608 A--ACGTAAAGGGAAAAATAGTCATTTTGCCACATAAGGGA-AAAATCGTCATTTT
1 ATCACATAAA-GGCAAAATAGTCATTTTGCCACATAAGGGACAAAACCGTCATTTT
55276661 A
1 A
55276662 CCCTACAGGG
Statistics
Matches: 170, Mismatches: 39, Indels: 13
0.77 0.18 0.06
Matches are distributed among these distances:
51 7 0.04
53 73 0.43
54 90 0.53
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.28
Consensus pattern (55 bp):
ATCACATAAAGGCAAAATAGTCATTTTGCCACATAAGGGACAAAACCGTCATTTT
Found at i:55286615 original size:21 final size:22
Alignment explanation
Indices: 55286570--55286615 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
55286560 GGGCTCACAT
**
55286570 GCCCGTGTGGTCCAAGGGACAC
1 GCCCGTGTGACCCAAGGGACAC
*
55286592 GCCCGTGTGACCCTAGGG-CAC
1 GCCCGTGTGACCCAAGGGACAC
55286613 GCC
1 GCC
55286616 TGTGCTGGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.15, C:0.37, G:0.35, T:0.13
Consensus pattern (22 bp):
GCCCGTGTGACCCAAGGGACAC
Found at i:55292324 original size:54 final size:54
Alignment explanation
Indices: 55292242--55292351 Score: 184
Period size: 54 Copynumber: 2.0 Consensus size: 54
55292232 AATATATATG
* *
55292242 ATTGATTCTCTACATGTTATATCTACATACACGTATGTTATTTTCTTGCATTAC
1 ATTGATTCTCAACATGTTATATCTACATACACATATGTTATTTTCTTGCATTAC
* *
55292296 ATTGATTCTCAACATGTTATTTCTACATACACATATGTTATTTTGTTGCATTAC
1 ATTGATTCTCAACATGTTATATCTACATACACATATGTTATTTTCTTGCATTAC
55292350 AT
1 AT
55292352 GAGATGGGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.27, C:0.17, G:0.09, T:0.46
Consensus pattern (54 bp):
ATTGATTCTCAACATGTTATATCTACATACACATATGTTATTTTCTTGCATTAC
Found at i:55308677 original size:67 final size:63
Alignment explanation
Indices: 55308571--55308722 Score: 196
Period size: 67 Copynumber: 2.3 Consensus size: 63
55308561 AACACTTAGT
* * * * *
55308571 ACCACCCATGTGACCTAGCCACTTTATCTCGTAGCTCTCTTGTCTACATGGTGTTCTTCACCCGG
1 ACCACACATGTGACCTAGCTACTTTATCTCGTAGCTCTCTTGTCTACATGGTATACAT--CCC-G
55308636 A
63 A
* *
55308637 ACCACACATGTGACCTAGCTACATTTATCTCGTAGCTCTCTTGTCTATATGGTATACATCCCGT
1 ACCACACATGTGACCTAGCTAC-TTTATCTCGTAGCTCTCTTGTCTACATGGTATACATCCCGA
*
55308701 ATCACACATGTGACCTAGCTAC
1 ACCACACATGTGACCTAGCTAC
55308723 CACATAGTAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
64 22 0.29
65 3 0.04
66 20 0.26
67 32 0.42
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (63 bp):
ACCACACATGTGACCTAGCTACTTTATCTCGTAGCTCTCTTGTCTACATGGTATACATCCCGA
Found at i:55312423 original size:15 final size:16
Alignment explanation
Indices: 55312403--55312432 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
55312393 TATTGGAGTT
55312403 TAAAAAT-CAAACATA
1 TAAAAATGCAAACATA
55312418 TAAAAATGCAAACAT
1 TAAAAATGCAAACAT
55312433 TTCATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.20
Consensus pattern (16 bp):
TAAAAATGCAAACATA
Found at i:55315402 original size:21 final size:22
Alignment explanation
Indices: 55315376--55315416 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
55315366 TGTATTTTTG
55315376 TGTTTAATGGTAGA-AAATGCA
1 TGTTTAATGGTAGAGAAATGCA
* *
55315397 TGTTTATTGTTAGAGAAATG
1 TGTTTAATGGTAGAGAAATG
55315417 ACTTTTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.39
Consensus pattern (22 bp):
TGTTTAATGGTAGAGAAATGCA
Found at i:55316043 original size:48 final size:48
Alignment explanation
Indices: 55315983--55316308 Score: 293
Period size: 48 Copynumber: 7.0 Consensus size: 48
55315973 CATTAGGGTT
* * *
55315983 ATATGCGATCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * *
55316031 ATATGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCT
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * *
55316079 ATAAGAGATCCCATGTAAGGCCATGTCTGGGACATGGCATTAGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * * * **
55316127 ATATGAGATCCCCTATAAGACCATATATGGGATATGGCATTGGCATTA
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* ** *
55316175 ATATGTGATTTCGTGTAAGACCATGTCTGGG--A---CA-TGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* *
55316217 ATATGAGA-CATCATGTAAGACTATAG-CTGGG-CTAT--CA---GCATCG
1 ATATGAGATC-CCATGTAAGACCAT-GTCTGGGAC-ATGGCATTGGCATCG
* *
55316260 ATATGTATGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 ATATG-A-GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
55316309 TTACTATGTG
Statistics
Matches: 224, Mismatches: 39, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
42 30 0.13
43 14 0.06
44 2 0.01
45 23 0.10
46 2 0.01
47 2 0.01
48 146 0.65
50 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Found at i:55316292 original size:45 final size:42
Alignment explanation
Indices: 55316188--55316293 Score: 108
Period size: 45 Copynumber: 2.5 Consensus size: 42
55316178 TGTGATTTCG
* * *
55316188 TGTAAGACCATGTCTGGGACATGGCATCGATATGAGACATCA
1 TGTAAGACCATATCTGGGACATAGCATCGATATGAGACACCA
* *
55316230 TGTAAGACTATAGCTGGG-CTATCAGCATCGATATGTATGATC-CCA
1 TGTAAGACCATATCTGGGAC-AT-AGCATCGATATG-A-GA-CACCA
55316275 TGTAAGACCATATCTGGGA
1 TGTAAGACCATATCTGGGA
55316294 TATGGCATTG
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 17 0.33
43 11 0.22
44 1 0.02
45 20 0.39
46 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACATAGCATCGATATGAGACACCA
Found at i:55322214 original size:48 final size:48
Alignment explanation
Indices: 55322143--55322374 Score: 295
Period size: 48 Copynumber: 4.8 Consensus size: 48
55322133 CATTAGGGTT
* *
55322143 ATATGAGATCCCATGTAAGACCATATTTGGGACATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * *
55322191 ATATGAGATCCAATGTAAGACCATGTCTGGGATATGACATTGGCATCT
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * *
55322239 ATATGAGATCCTATGTAAGACCATGTCCGGGACATGGCATTGGTATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
* * * * *
55322287 ATATGAGATCCCATGTAAGACCCTATCCGAGATATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
** *
55322335 ATAT-ATGATTTCGTGTAAGACCATGTCTGGGACATGGCAT
1 ATATGA-GATCCCATGTAAGACCATGTCTGGGACATGGCAT
55322375 CGATATGAGA
Statistics
Matches: 157, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
47 1 0.01
48 156 0.99
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCG
Done.