Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 98 of 295
Found at i:31532735 original size:6 final size:5
Alignment explanation
Indices: 31532724--31532781 Score: 50
Period size: 5 Copynumber: 11.6 Consensus size: 5
31532714 ATGTCGTCTG
* *
31532724 CTTCT CCTTCT CTTCT TTTCTT CTTCT CTTCT -TTCT TTTCTT CTTCT
1 CTTCT -CTTCT CTTCT CTTC-T CTTCT CTTCT CTTCT CTTC-T CTTCT
31532771 CTT-T CTT-T CTT
1 CTTCT CTTCT CTT
31532782 TCCAAAATGA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
4 12 0.26
5 21 0.46
6 13 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (5 bp):
CTTCT
Found at i:31532783 original size:20 final size:20
Alignment explanation
Indices: 31532724--31532782 Score: 91
Period size: 20 Copynumber: 2.8 Consensus size: 20
31532714 ATGTCGTCTG
31532724 CTTCTCCTTCTCTTCTTTTCTT
1 CTTCT-CTTCT-TTCTTTTCTT
31532746 CTTCTCTTCTTTCTTTTCTT
1 CTTCTCTTCTTTCTTTTCTT
31532766 CTTCTCTTTCTTTCTTT
1 CTTCTC-TTCTTTCTTT
31532783 CCAAAATGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 16 0.44
21 15 0.42
22 5 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (20 bp):
CTTCTCTTCTTTCTTTTCTT
Found at i:31532783 original size:25 final size:25
Alignment explanation
Indices: 31532731--31532783 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
31532721 CTGCTTCTCC
31532731 TTCTCTTCTTTTCTTCTTCTCTTCT
1 TTCTCTTCTTTTCTTCTTCTCTTCT
*
31532756 TTCTTTTCTTCTTC-TCTT-TCTTTCT
1 TTCTCTTCTT-TTCTTCTTCTC-TTCT
31532781 TTC
1 TTC
31532784 CAAAATGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 2 0.08
25 20 0.80
26 3 0.12
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (25 bp):
TTCTCTTCTTTTCTTCTTCTCTTCT
Found at i:31540656 original size:19 final size:18
Alignment explanation
Indices: 31540634--31540684 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
31540624 AAAAATCTAA
* *
31540634 AAATATTATAAAAATTATT
1 AAATATT-TAAAAAGTATG
31540653 AAATAATTTAAAAAGTATG
1 AAAT-ATTTAAAAAGTATG
31540672 AAA-ATTCTAAAAA
1 AAATATT-TAAAAA
31540685 AATATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 3 0.11
18 6 0.21
19 16 0.57
20 3 0.11
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (18 bp):
AAATATTTAAAAAGTATG
Found at i:31541297 original size:52 final size:52
Alignment explanation
Indices: 31541235--31541338 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
31541225 AGACTAAATC
31541235 AAGCGATGAGAATATGTATATTATTTAAATAAAGTTTTTAGTTCAAGTTTTT
1 AAGCGATGAGAATATGTATATTATTTAAATAAAGTTTTTAGTTCAAGTTTTT
31541287 AAGCGATGAGAATATGTATATTATTTAAATAAAGTTTTTAGTTCAAGTTTTT
1 AAGCGATGAGAATATGTATATTATTTAAATAAAGTTTTTAGTTCAAGTTTTT
31541339 GAGATAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (52 bp):
AAGCGATGAGAATATGTATATTATTTAAATAAAGTTTTTAGTTCAAGTTTTT
Found at i:31541564 original size:24 final size:25
Alignment explanation
Indices: 31541519--31541581 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
31541509 CGCGCTTAAT
31541519 TTTTAATTAATTTTTAAATAATATCTTA
1 TTTTAATTAA-TTTT--ATAATATCTTA
* *
31541547 TTTTAATTAATTTT-TAATTTGTTA
1 TTTTAATTAATTTTATAATATCTTA
31541571 TTTTAA-TAATT
1 TTTTAATTAATT
31541582 AAATATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 5 0.15
24 14 0.42
27 4 0.12
28 10 0.30
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTAATTAATTTTATAATATCTTA
Found at i:31541681 original size:19 final size:19
Alignment explanation
Indices: 31541657--31541694 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
31541647 ATATTAAAAA
31541657 TTAAT-ATATCAATAAAATT
1 TTAATAATATCAA-AAAATT
*
31541676 TTAATAATATTAAAAAATT
1 TTAATAATATCAAAAAATT
31541695 AAATCATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAATAATATCAAAAAATT
Found at i:31542014 original size:45 final size:45
Alignment explanation
Indices: 31541931--31542016 Score: 104
Period size: 45 Copynumber: 1.9 Consensus size: 45
31541921 GTAATAATTA
**
31541931 TAAATTAAATTATATTTTTAAATGAATAGGTACCACAATTTCTAT
1 TAAATTAAATTATATTTTTAAATGAATAAATACCACAATTTCTAT
**
31541976 TAAATTATAATTAT-TTTTTAAAT-ATATAAATATTACAATTT
1 TAAATTA-AATTATATTTTTAAATGA-ATAAATACCACAATTT
31542017 AATTAATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
44 1 0.03
45 28 0.80
46 6 0.17
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (45 bp):
TAAATTAAATTATATTTTTAAATGAATAAATACCACAATTTCTAT
Found at i:31545139 original size:19 final size:21
Alignment explanation
Indices: 31545105--31545144 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
31545095 AGTTGTAAGT
31545105 ATATATATGTGAATTAATTTG
1 ATATATATGTGAATTAATTTG
*
31545126 ATAT-TATGTG-ATTATTTTG
1 ATATATATGTGAATTAATTTG
31545145 GTGATATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (21 bp):
ATATATATGTGAATTAATTTG
Found at i:31545582 original size:50 final size:50
Alignment explanation
Indices: 31545507--31545742 Score: 276
Period size: 50 Copynumber: 4.7 Consensus size: 50
31545497 GTGAGTTACG
* * *
31545507 TGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATTGAGAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
* * * * * * *
31545557 TGTGTAGTACTAAGTGCTGGCTACTATGCGTACCAG-TTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAGGTCGCA
* * * * * * * *
31545608 TGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
31545658 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
*
31545708 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
31545743 AAGAGCTTTG
Statistics
Matches: 153, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 3 0.02
50 114 0.75
51 35 0.23
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCGCA
Found at i:31545680 original size:101 final size:100
Alignment explanation
Indices: 31545504--31545742 Score: 291
Period size: 101 Copynumber: 2.4 Consensus size: 100
31545494 GTTGTGAGTT
* * * *
31545504 ACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATTGAGAGGTCGCATGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGAGAAGTCACATGTGTAGTACTA
* *
31545569 AGTGCTGGCTACTATGCGTACCAG-TTAACTTCGATC
66 AGTGCAGGCTACTATGCGTACCAGATTAA--TAGATC
* * ** *
31545605 ACGTGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGAGAAGTCACATGTGTAGTACTA
* * *
31545670 AGTGCAGGCTACTATGTGTACCAGATTGATAGGTC
66 AGTGCAGGCTACTATGCGTACCAGATTAATAGATC
* * * *
31545705 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
31545743 AAGAGCTTTG
Statistics
Matches: 117, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
100 36 0.31
101 78 0.67
102 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (100 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGAGAAGTCACATGTGTAGTACTA
AGTGCAGGCTACTATGCGTACCAGATTAATAGATC
Found at i:31548852 original size:43 final size:43
Alignment explanation
Indices: 31548791--31548902 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
31548781 CCGACATTAC
*
31548791 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
31548834 GCCTGCTGGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
31548877 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
31548903 TAATACCAGC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.29, C:0.33, G:0.28, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:31548943 original size:38 final size:38
Alignment explanation
Indices: 31548895--31549002 Score: 144
Period size: 38 Copynumber: 2.8 Consensus size: 38
31548885 GGCACGAAGG
* * *
31548895 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
31548933 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
* **
31548971 CCCGAAAATTTTACCAGCACGAAGCCTGCGGG
1 CCCGAATATAATACCAGCACGAAGCCTGCGGG
31549003 TCTTTAAGCT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:31553400 original size:29 final size:29
Alignment explanation
Indices: 31553367--31553440 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
31553357 GTTGTGAGAT
* *
31553367 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
31553396 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
31553425 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
31553441 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:31557583 original size:43 final size:43
Alignment explanation
Indices: 31557522--31557676 Score: 247
Period size: 43 Copynumber: 3.6 Consensus size: 43
31557512 CTGGCATTAC
** *
31557522 GCCTGCTAGGCACGAAGGCTTGAATACACATTACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
31557565 GCCTGTTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
31557608 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
31557651 GCCTACTAGGCACGAAGGCTCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
31557677 TAATACCAGC
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:31557725 original size:38 final size:38
Alignment explanation
Indices: 31557669--31557774 Score: 140
Period size: 38 Copynumber: 2.8 Consensus size: 38
31557659 GGCACGAAGG
* * * * *
31557669 CTCGAATATAATACCAGCACTAGGCCTGTGGGATTTAT
1 CTCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
31557707 CTCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CTCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* **
31557745 CCCGGATATTTTACCAGCACGAAGCCTGCG
1 CTCGGATATAATACCAGCACGAAGCCTGCG
31557775 AGTCTTTAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (38 bp):
CTCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:31567224 original size:93 final size:93
Alignment explanation
Indices: 31567114--31567284 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
31567104 GCCCCTAAGT
** * *
31567114 GAACTCGGACTCAACTCAATGAGCTC-GAGCGTTCTCATCCATAAATGAACTCGGACTCAAATCA
1 GAACTCGGACTCAACTCAACAAGCTCGGA-CATTCGCATCCATAAATGAACTCGGACTCAAATCA
31567178 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* ** *
31567207 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAAATCAA
31567272 CGAGTTCGGATGC
66 CGAGTTCGGATGC
31567285 TCAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
93 67 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAAATCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31571436 original size:27 final size:26
Alignment explanation
Indices: 31571347--31571447 Score: 103
Period size: 27 Copynumber: 3.8 Consensus size: 26
31571337 TTGGAGGAAG
* *
31571347 TACTATACTGGTGGCTCTGCCACAAT
1 TACTATACTGGTGGCTTTGCCACATT
* * * *
31571373 TACTGCTACCGGTGGCATTGCCACATA
1 TACT-ATACTGGTGGCTTTGCCACATT
31571400 TACTGATACTGGTGGCTTTGCCACATT
1 TACT-ATACTGGTGGCTTTGCCACATT
**
31571427 TACTATTACTGGCAGCTTTGC
1 TACTA-TACTGGTGGCTTTGC
31571448 TGCAATATTG
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
26 5 0.08
27 56 0.92
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (26 bp):
TACTATACTGGTGGCTTTGCCACATT
Found at i:31571601 original size:28 final size:28
Alignment explanation
Indices: 31571555--31571610 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
31571545 ATTTACACTG
*
31571555 TACTGATTCTGTATTGGGCTTAGGCCCA
1 TACTGATTCTGTATTGGGCTAAGGCCCA
*
31571583 TACTGTTTCTGT-TTAGGGCTAAGGCCCA
1 TACTGATTCTGTATT-GGGCTAAGGCCCA
31571611 GACAACACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (28 bp):
TACTGATTCTGTATTGGGCTAAGGCCCA
Found at i:31572715 original size:29 final size:30
Alignment explanation
Indices: 31572649--31572761 Score: 128
Period size: 29 Copynumber: 3.9 Consensus size: 30
31572639 TAAATACATG
* *
31572649 CATATGGCCCA-ATAGGCCCAA-TCTTATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
*
31572677 CAAATGGCCCATCT-GGCCCAATTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
31572706 CTTATGGCCCA-CTAGGCCCAATTCACATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
31572735 CATATGGCCCAT-TAGGCCTAAATCATA
1 CATATGGCCCATCTAGGCCCAATTCATA
31572762 ATATATTCAT
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
28 19 0.27
29 52 0.73
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.27
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATTCATATT
Found at i:31572761 original size:58 final size:57
Alignment explanation
Indices: 31572651--31572761 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 57
31572641 AATACATGCA
** *
31572651 TATGGCCCAATAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAATTCATATTCT
1 TATGGCCCAATAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTCT
* * *
31572708 TATGGCCCACTAGGCCCAATTCACATTCATATGGCCCAT-TAGGCCTAAATCATA
1 TATGGCCCAATAGGCCCAA-TCACATTCAAATGGCCCATCT-GGCCCAAATCATA
31572762 ATATATTCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 19 0.41
58 27 0.59
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (57 bp):
TATGGCCCAATAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTCT
Found at i:31575070 original size:43 final size:43
Alignment explanation
Indices: 31575022--31575219 Score: 324
Period size: 43 Copynumber: 4.6 Consensus size: 43
31575012 CCGGCATTAC
31575022 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* ** *
31575065 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCAACACGAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
31575108 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
31575151 GCCTGCTAGGAAAGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
31575194 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
31575220 TAATACCAGC
Statistics
Matches: 142, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 142 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:31575263 original size:129 final size:128
Alignment explanation
Indices: 31575009--31575240 Score: 360
Period size: 129 Copynumber: 1.8 Consensus size: 128
31574999 ACATATCATT
* * * *
31575009 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGAAAGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
*
31575074 GCACGAAGGCCCGAATACACATCATCAACACGAGGCCTGCTAGGCACGAAGGCCCGAATACACA
66 GCACGAAGGCCCGAATACACATCACCAACACGAGGCCTGC-AGGCACGAAGGCCCGAATACACA
*
31575138 TCACCGGCACTAAGCCTGCTAGGAAAGAAGGCCCGAATACACATCACCGGCACTAAGCCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGAAAGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
* * *
31575203 GCACGAAGGCCCGAATATA-AT-ACCAGCACTAGGCCTGC
66 GCACGAAGGCCCGAATACACATCACCAACACGAGGCCTGC
31575241 GGGATTTATC
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
127 14 0.15
128 2 0.02
129 78 0.83
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (128 bp):
TCACCGGCACTAAGCCTGCTAGGAAAGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
GCACGAAGGCCCGAATACACATCACCAACACGAGGCCTGCAGGCACGAAGGCCCGAATACACA
Found at i:31575266 original size:38 final size:38
Alignment explanation
Indices: 31575212--31575295 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
31575202 GGCACGAAGG
* *
31575212 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAT
* * *
31575250 CCCGGATATAATACCAGCACGAAGCTTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAT
*
31575288 CCTGAATA
1 CCCGAATA
31575296 CACATCAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAT
Found at i:31578708 original size:16 final size:16
Alignment explanation
Indices: 31578687--31578718 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
31578677 GAAAAATTCA
31578687 AGATTTCGGGATTTTT
1 AGATTTCGGGATTTTT
31578703 AGATTTCGGGATTTTT
1 AGATTTCGGGATTTTT
31578719 GGGACGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (16 bp):
AGATTTCGGGATTTTT
Found at i:31580805 original size:24 final size:26
Alignment explanation
Indices: 31580760--31580807 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
31580750 CTTAATTCAC
**
31580760 ATTCTATCAATCTCATTTAATTATCA
1 ATTCTATCAATCTCATCAAATTATCA
31580786 ATTC-ATCAAT-TCATCAAATTAT
1 ATTCTATCAATCTCATCAAATTAT
31580808 ACAACACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 6 0.30
26 4 0.20
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (26 bp):
ATTCTATCAATCTCATCAAATTATCA
Found at i:31584699 original size:39 final size:41
Alignment explanation
Indices: 31584598--31584862 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 41
31584588 TTGAATGATG
* * *
31584598 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGA-T-ACTAATA
* *
31584638 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAATA
31584678 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAATA
31584717 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAATA
* * *
31584757 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAATA
* *
31584797 TCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGATACTAATA
* * *
31584837 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
31584863 AATGAGTAGC
Statistics
Matches: 200, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
39 68 0.34
40 95 0.47
41 36 0.18
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:31586860 original size:16 final size:16
Alignment explanation
Indices: 31586839--31586870 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31586829 CTGAAATTTT
*
31586839 ATGCACGTTTGTGTGA
1 ATGCACGCTTGTGTGA
31586855 ATGCACGCTTGTGTGA
1 ATGCACGCTTGTGTGA
31586871 TATTGTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (16 bp):
ATGCACGCTTGTGTGA
Found at i:31593776 original size:16 final size:17
Alignment explanation
Indices: 31593747--31593779 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
31593737 AAACCTTAAA
*
31593747 ACTATATGTTCTGTTAG
1 ACTATATGTACTGTTAG
31593764 ACTA-ATGTACTGTTAG
1 ACTATATGTACTGTTAG
31593780 GAGCTTACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (17 bp):
ACTATATGTACTGTTAG
Found at i:31600155 original size:50 final size:46
Alignment explanation
Indices: 31599987--31600313 Score: 211
Period size: 46 Copynumber: 6.9 Consensus size: 46
31599977 TGGGTTAGAA
* *
31599987 TGCCGATGCCATGTCCCAGACATGGTCTTACATTAGCTCATATCTCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATC-CG
* * * * *
31600034 AGTCGATGCCATGTCCCAGACATTGTCTTACACTAACT-ATCGTCATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATC--CG
* * *
31600082 AGGCCGACGCCATGTCCCTGACATGGTCTTACACTAGCTCTCACATATCCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CT--CATATCCG
* * *
31600133 TGCCGATGCCATGTCTCAGACATGGTCTTACACT-GACACAT-CCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATATCCG
* * **
31600178 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATC-CG
* * * * * *
31600224 AGGCTGATG-AATGTCCTAGACAT-GTCTTACACTAGCTC-TCGTCTCAA
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATC-C-G
* * * *
31600271 TGTCGATGCTATGTCCCAAACATGGTCTTACACTGGCTCATAT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATAT
31600314 TAACCCATAC
Statistics
Matches: 220, Mismatches: 42, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
44 12 0.05
45 19 0.09
46 55 0.25
47 46 0.21
48 18 0.08
49 32 0.15
50 30 0.14
51 4 0.02
53 2 0.01
54 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCCG
Found at i:31600184 original size:96 final size:96
Alignment explanation
Indices: 31599988--31600313 Score: 267
Period size: 96 Copynumber: 3.4 Consensus size: 96
31599978 GGGTTAGAAT
* *
31599988 GCCGATGCCATGTCCCAGACATGGTCTTACATTAGCTCATATCTCAAGTCGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAG
* * *
31600053 ACATTGTCTTACACTAACTATCGTCATCGAG
66 ACATGGTCTTACACTAACTATCATCACCGAG
* * **
31600084 GCCGACGCCATGTCCCTGACATGGTCTTACACTAGCTCTCACATATC-CGTGCCGATGCCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CT--CATATCTCAAGCCGATGCCATGTC
* *
31600148 TCAGACATGGTCTTACACTGAC-A-CATC-CCGTA-
62 CCAGACATGGTCTTACACTAACTATCATCACCG-AG
* * ** * * * *
31600180 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCTGATG-AATGTCCTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTC-AAGCCGATGCCATGTCCCA
* * * * * *
31600242 GACAT-GTCTTACACTAGCTCTCGTC-TCAAT
65 GACATGGTCTTACACTAACTATCATCACCGAG
* * * *
31600272 GTCGATGCTATGTCCCAAACATGGTCTTACACTGGCTCATAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATAT
31600314 TAACCCATAC
Statistics
Matches: 183, Mismatches: 35, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
90 14 0.08
91 13 0.07
92 18 0.10
93 12 0.07
94 27 0.15
95 13 0.07
96 40 0.22
97 4 0.02
98 3 0.02
99 33 0.18
100 6 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAACTATCATCACCGAG
Found at i:31600295 original size:138 final size:144
Alignment explanation
Indices: 31599985--31600305 Score: 354
Period size: 138 Copynumber: 2.3 Consensus size: 144
31599975 CATGGGTTAG
* * * * * * *
31599985 AATGCCGATGCCATGTCCCAGACATGGTCTTACATTAGCTCATATCTC-AAGTCGATGCCATGTC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATCCCGTAGCCGATGCCATGTC
*
31600049 CCAGACATTGTCTTACACTAACTATCGTCATCGAGGCCGACGCCATGTCCCTGACATGGTCTTAC
64 CCAGACATTGTCTTACACTAACTATCGTCATCGAGGCCGACGCAATGTCCCTGACATGGTCTTAC
31600114 ACTAGCTCTCACATATC
129 ACTAGCTCT-ACATATC
** * *
31600131 CGTGCCGATGCCATGTCTCAGACATGGTCTTACACTGACACATCCCGTAGCCGATG-CATGTCCC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACATCCCGTAGCCGATGCCATGTCCC
** * *
31600195 AGACA-TGTCTTACACTGGCT-TACGTC-TCGAGGCTGATG-AATGT-CCTAGACAT-GTCTTAC
66 AGACATTGTCTTACACTAACTAT-CGTCATCGAGGCCGACGCAATGTCCCT-GACATGGTCTTAC
* *
31600254 ACTAGCTCT-CGTCTC
129 ACTAGCTCTACATATC
* *
31600269 AATGTCGATGCTATGTCCCAAACATGGTCTTACACTG
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTG
31600306 GCTCATATTA
Statistics
Matches: 150, Mismatches: 22, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
138 35 0.23
140 19 0.13
141 9 0.06
142 11 0.07
143 17 0.11
144 19 0.13
145 8 0.05
146 32 0.21
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (144 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACATCCCGTAGCCGATGCCATGTCCC
AGACATTGTCTTACACTAACTATCGTCATCGAGGCCGACGCAATGTCCCTGACATGGTCTTACAC
TAGCTCTACATATC
Found at i:31607656 original size:38 final size:38
Alignment explanation
Indices: 31607601--31607891 Score: 123
Period size: 38 Copynumber: 6.9 Consensus size: 38
31607591 GAAAAAAAAT
*
31607601 GTGGTGCTAAGTAGATATACCACGGTTATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
* *
31607639 GTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAT
1 GTGGTGCTAAGTGGATATACCACG---------GTT-ATACATGTAAC
* * * * *
31607687 GTGGTGCTAAGCGGATATGCCACGATTACATATATTGATTCATTAAT
1 GTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------TAAC
*
31607734 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
* * * * *
31607772 ATGGTGCTAAGTGGATATGCTACGGTTACATATATTGATTCATTAAT
1 GTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------TAAC
* * * *
31607819 GTGGTGCTAAGTGAAAATACCACAGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
* * * * *
31607857 ATGGGGCTAAATGGATATGCCATGGTTATACATGT
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGT
31607892 TAATTTGAAA
Statistics
Matches: 189, Mismatches: 37, Indels: 54
0.68 0.13 0.19
Matches are distributed among these distances:
38 79 0.42
39 3 0.02
40 7 0.04
41 4 0.02
44 4 0.02
45 6 0.03
47 54 0.29
48 32 0.17
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
Found at i:31607703 original size:48 final size:48
Alignment explanation
Indices: 31607628--31607841 Score: 209
Period size: 48 Copynumber: 4.7 Consensus size: 48
31607618 TACCACGGTT
*
31607628 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAATGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * *
31607676 ATACATGTAATGTGGTGCTAAGCGGATATGCCACGATTACATATATTG
1 ATACATGTAATGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* *
31607724 ATTCAT-TAATGTGGTGCTAAGTGGATATACCACG-GT-----TA---
1 ATACATGTAATGTGGTGCTAAGTGGATATACCACGATTACACATATTG
** * * * *
31607762 A-ACATGTAACATGGTGCTAAGTGGATATGCTACGGTTACATATATTG
1 ATACATGTAATGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * *
31607809 ATTCAT-TAATGTGGTGCTAAGTGAAAATACCAC
1 ATACATGTAATGTGGTGCTAAGTGGATATACCAC
31607842 AGTTAAACAT
Statistics
Matches: 134, Mismatches: 21, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
37 3 0.02
38 25 0.19
39 1 0.01
41 2 0.01
44 2 0.01
46 1 0.01
47 48 0.36
48 52 0.39
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (48 bp):
ATACATGTAATGTGGTGCTAAGTGGATATACCACGATTACACATATTG
Found at i:31607757 original size:47 final size:47
Alignment explanation
Indices: 31607639--31607841 Score: 219
Period size: 47 Copynumber: 4.5 Consensus size: 47
31607629 TACATGTAAC
* *
31607639 GTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCAT-TAAT
* *
31607687 GTGGTGCTAAGCGGATATGCCACGATTACATATATTGATTCATTAAT
1 GTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCATTAAT
* *
31607734 GTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG--T-A--ACA-
1 GTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCATTA-AT
* * *
31607773 -TGGTGCTAAGTGGATATGCTACGGTTACATATATTGATTCATTAAT
1 GTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCATTAAT
* *
31607819 GTGGTGCTAAGTGAAAATACCAC
1 GTGGTGCTAAGTGGATATACCAC
31607842 AGTTAAACAT
Statistics
Matches: 129, Mismatches: 15, Indels: 23
0.77 0.09 0.14
Matches are distributed among these distances:
38 25 0.19
39 2 0.02
40 3 0.02
41 3 0.02
42 1 0.01
43 1 0.01
44 3 0.02
45 3 0.02
46 2 0.02
47 47 0.36
48 39 0.30
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (47 bp):
GTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCATTAAT
Found at i:31607788 original size:85 final size:85
Alignment explanation
Indices: 31607678--31607878 Score: 312
Period size: 85 Copynumber: 2.4 Consensus size: 85
31607668 ACATATTGAT
** *
31607678 ACATGTAATGTGGTGCTAAGCGGATATGCCACGATTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACATGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAATGTGGTGCTA
* * *
31607743 AGTGGATATACCACGGTTAA
66 AGTGAAAATACCACAGTTAA
* *
31607763 ACATGTAACATGGTGCTAAGTGGATATGCTACGGTTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACATGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAATGTGGTGCTA
31607828 AGTGAAAATACCACAGTTAA
66 AGTGAAAATACCACAGTTAA
* *
31607848 ACATGTAACATGGGGCTAAATGGATATGCCA
1 ACATGTAACATGGTGCTAAGTGGATATGCCA
31607879 TGGTTATACA
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 105 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (85 bp):
ACATGTAACATGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCATTAATGTGGTGCTA
AGTGAAAATACCACAGTTAA
Found at i:31611157 original size:15 final size:15
Alignment explanation
Indices: 31611131--31611172 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
31611121 GCTATAAATG
*
31611131 GGATTCCCTTATCAT
1 GGATTTCCTTATCAT
* *
31611146 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
31611161 GGATTTCCTTAT
1 GGATTTCCTTAT
31611173 TCTGGGCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:31613537 original size:47 final size:47
Alignment explanation
Indices: 31613414--31613624 Score: 233
Period size: 47 Copynumber: 4.7 Consensus size: 47
31613404 GAATGAAAAA
* * * *
31613414 AACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-T
* *
31613462 AACGTGGTGCTAAGCGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
* * *
31613509 AACGTGGTGCTAAGTGGAAATACGACGGTTA-A-ACA-TG------T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
* * *
31613547 AATGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
*
31613594 AACGTGGTGCTAAGTGGATATACCATGGTTA
1 AACGTGGTGCTAAGTGGATATACCACGGTTA
31613625 AACATGTAAC
Statistics
Matches: 133, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
38 27 0.20
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 56 0.42
48 40 0.30
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
Found at i:31613599 original size:85 final size:85
Alignment explanation
Indices: 31613456--31613662 Score: 342
Period size: 85 Copynumber: 2.4 Consensus size: 85
31613446 ACATATTGAT
* *
31613456 ACATGTAACGTGGTGCTAAGCGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
*
31613521 AGTGGAAATACGACGGTTAA
66 AGTGGAAATACCACGGTTAA
*
31613541 ACATGTAATGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
* *
31613606 AGTGGATATACCATGGTTAA
66 AGTGGAAATACCACGGTTAA
* *
31613626 ACATGTAACGTGGTACTAAGTGGATATGCCACTGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTA
31613663 TACATGTTAA
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 113 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGAAATACCACGGTTAA
Found at i:31613645 original size:38 final size:38
Alignment explanation
Indices: 31613593--31613669 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
31613583 ATTGATTCAT
*
31613593 TAACGTGGTGCTAAGTGGATATACCA-TGGTTAAACATG
1 TAACGTGGTACTAAGTGGATATACCACT-GTTAAACATG
* *
31613631 TAACGTGGTACTAAGTGGATATGCCACTGTTATACATG
1 TAACGTGGTACTAAGTGGATATACCACTGTTAAACATG
31613669 T
1 T
31613670 TAATTTGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 34 0.97
39 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (38 bp):
TAACGTGGTACTAAGTGGATATACCACTGTTAAACATG
Found at i:31618792 original size:46 final size:46
Alignment explanation
Indices: 31618725--31618896 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
31618715 AACCCGCCCC
* *
31618725 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
* * *
31618771 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG--G-C-ATTTGCA-TCCA
* * * *
31618822 -CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
31618864 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG
31618897 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 57 0.55
47 26 0.25
48 1 0.01
49 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
Found at i:31618838 original size:93 final size:93
Alignment explanation
Indices: 31618731--31618900 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
31618721 CCCCTAAGTG
* *
31618731 AACTCGGACTCAACTCAACGAGCTCGGGCATTTGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
31618796 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
*
31618824 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
31618889 GAGTTCGGATGC
66 GAGTTCGGATGC
31618901 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:31624438 original size:20 final size:20
Alignment explanation
Indices: 31624391--31624457 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
31624381 GGTGCCTCTA
*
31624391 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCAGTGCCCCTG
* * *
31624411 TATACACTTCAGTGTCCCTG
1 TTTGCACTTCAGTGCCCCTG
* *
31624431 TTTGCAC-TAAGGTGCCCCTA
1 TTTGCACTTCA-GTGCCCCTG
31624451 TTTGCAC
1 TTTGCAC
31624458 ATTCGTGTCC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
19 2 0.05
20 35 0.95
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.34
Consensus pattern (20 bp):
TTTGCACTTCAGTGCCCCTG
Found at i:31628402 original size:20 final size:20
Alignment explanation
Indices: 31628377--31628420 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
31628367 TAATAAAAGT
31628377 AATTTATCTATATCAACAGC
1 AATTTATCTATATCAACAGC
* *
31628397 AATTTATCTGTATCAACAGT
1 AATTTATCTATATCAACAGC
31628417 AATT
1 AATT
31628421 CATTCATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (20 bp):
AATTTATCTATATCAACAGC
Found at i:31628678 original size:23 final size:23
Alignment explanation
Indices: 31628616--31628739 Score: 67
Period size: 23 Copynumber: 5.3 Consensus size: 23
31628606 AAGATCTATT
* *
31628616 GAGCTGAAACGGTAAGCTC-TATC
1 GAGCTGAATCAGTAAGCTCATA-C
* * *
31628639 AAGCTAAAT-AGCAAGCTCATAC
1 GAGCTGAATCAGTAAGCTCATAC
*
31628661 GAGCTGAATCAGTAAGCTCCA-AT
1 GAGCTGAATCAGTAAGCT-CATAC
* * *
31628684 GAGGTGAAAACAGTAAGCTCTTAC
1 GAGCTG-AATCAGTAAGCTCATAC
*
31628708 GAGTTGATAT-ATTGGTAAGCTCATAC
1 GAGCTGA-ATCA---GTAAGCTCATAC
31628734 GAGCTG
1 GAGCTG
31628740 TGGTGAGTCA
Statistics
Matches: 75, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
22 15 0.20
23 24 0.32
24 20 0.27
26 16 0.21
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (23 bp):
GAGCTGAATCAGTAAGCTCATAC
Found at i:31629992 original size:41 final size:41
Alignment explanation
Indices: 31629935--31630032 Score: 196
Period size: 41 Copynumber: 2.4 Consensus size: 41
31629925 ATTCAAAATT
31629935 CAAATAACACCTTTTAGGACCCTCACTTTAAAATCCAAGGC
1 CAAATAACACCTTTTAGGACCCTCACTTTAAAATCCAAGGC
31629976 CAAATAACACCTTTTAGGACCCTCACTTTAAAATCCAAGGC
1 CAAATAACACCTTTTAGGACCCTCACTTTAAAATCCAAGGC
31630017 CAAATAACACCTTTTA
1 CAAATAACACCTTTTA
31630033 CTAAAAGCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.38, C:0.29, G:0.08, T:0.26
Consensus pattern (41 bp):
CAAATAACACCTTTTAGGACCCTCACTTTAAAATCCAAGGC
Found at i:31634125 original size:21 final size:21
Alignment explanation
Indices: 31634089--31634133 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
31634079 ATATGTAAAA
* *
31634089 AAAATACGAAATATAGGAGGAG
1 AAAATACGAAAAATA-GAGAAG
31634111 AAAATA-GAAAAATAGAGAAG
1 AAAATACGAAAAATAGAGAAG
31634131 AAA
1 AAA
31634134 GGTGGAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 7 0.33
22 6 0.29
ACGTcount: A:0.64, C:0.02, G:0.22, T:0.11
Consensus pattern (21 bp):
AAAATACGAAAAATAGAGAAG
Found at i:31636014 original size:17 final size:18
Alignment explanation
Indices: 31635982--31636016 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31635972 TGGGCCACAA
31635982 AATGGGCCGAATAGGCCC
1 AATGGGCCGAATAGGCCC
*
31636000 AATGGGCC-TATAGGCCC
1 AATGGGCCGAATAGGCCC
31636017 GCTTGTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.29, G:0.31, T:0.14
Consensus pattern (18 bp):
AATGGGCCGAATAGGCCC
Found at i:31636140 original size:17 final size:18
Alignment explanation
Indices: 31636109--31636142 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31636099 TGGGCCAGAC
*
31636109 TGGGTCTTGTGGGCCCAA
1 TGGGTCTTGTAGGCCCAA
31636127 TGGG-CTTGTAGGCCCA
1 TGGGTCTTGTAGGCCCA
31636143 CGCGAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.12, C:0.24, G:0.38, T:0.26
Consensus pattern (18 bp):
TGGGTCTTGTAGGCCCAA
Found at i:31636685 original size:27 final size:27
Alignment explanation
Indices: 31636589--31636728 Score: 120
Period size: 27 Copynumber: 5.2 Consensus size: 27
31636579 GTCGTTAAGA
* *
31636589 CCCTAACTTGTAAAATTTCTAAAATAC
1 CCCTAACTTGTAAAATTACTGAAATAC
* ** * *
31636616 CCCCAGGTTATAAAATTACCGAAATAC
1 CCCTAACTTGTAAAATTACTGAAATAC
* * * * *
31636643 CCTTGATTTCTGAAATTACTGAAATAC
1 CCCTAACTTGTAAAATTACTGAAATAC
*
31636670 CCCTAACTTGTAAAATTACTTAAATAC
1 CCCTAACTTGTAAAATTACTGAAATAC
* * *
31636697 CCTTGTA-GTGTAAAATTACTGAAATAC
1 CCCT-AACTTGTAAAATTACTGAAATAC
31636724 CCCTA
1 CCCTA
31636729 TAAGGTAAAA
Statistics
Matches: 85, Mismatches: 27, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
27 84 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
CCCTAACTTGTAAAATTACTGAAATAC
Found at i:31636727 original size:54 final size:54
Alignment explanation
Indices: 31636597--31636728 Score: 149
Period size: 54 Copynumber: 2.4 Consensus size: 54
31636587 GACCCTAACT
* * * ** *
31636597 TGTAAAATTTCTAAAATACCCCCAGGTTATAAAATTACCGAAATACCCTTGATT
1 TGTAAAATTACTGAAATACCCCTAACTTATAAAATTACCGAAATACCCTTGATG
* * * **
31636651 TCTGAAATTACTGAAATACCCCTAACTTGTAAAATTACTTAAATACCCTTG-TAG
1 TGTAAAATTACTGAAATACCCCTAACTTATAAAATTACCGAAATACCCTTGAT-G
31636705 TGTAAAATTACTGAAATACCCCTA
1 TGTAAAATTACTGAAATACCCCTA
31636729 TAAGGTAAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 1 0.02
54 63 0.98
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TGTAAAATTACTGAAATACCCCTAACTTATAAAATTACCGAAATACCCTTGATG
Found at i:31636736 original size:27 final size:27
Alignment explanation
Indices: 31636655--31636739 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
31636645 TTGATTTCTG
**
31636655 AAATTACTGAAATACCCCTA-ACTTGTA
1 AAATTACTGAAATACCCCTATA-AGGTA
* * *
31636682 AAATTACTTAAATACCCTTGT-AGTGTA
1 AAATTACTGAAATACCCCTATAAG-GTA
31636709 AAATTACTGAAATACCCCTATAAGGTA
1 AAATTACTGAAATACCCCTATAAGGTA
31636736 AAAT
1 AAAT
31636740 GAATGTTTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
27 45 0.96
28 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCCTATAAGGTA
Found at i:31637295 original size:32 final size:31
Alignment explanation
Indices: 31637200--31637295 Score: 84
Period size: 32 Copynumber: 3.0 Consensus size: 31
31637190 CCCAAGGTTG
* * * *
31637200 TGTGCAAATTATATTACCGCCACTGATGGCTA
1 TGTGCCAATTATAATA-CGCTACTGATGGCTT
** * *
31637232 TGTGCCAAACATAATACAGTTACCGATGGCTT
1 TGTGCCAATTATAATAC-GCTACTGATGGCTT
*
31637264 TGTGCCAATTATAATATCGCTACTGAAGGCTT
1 TGTGCCAATTATAATA-CGCTACTGATGGCTT
31637296 AGAGCCGCAT
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
31 1 0.02
32 47 0.96
33 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (31 bp):
TGTGCCAATTATAATACGCTACTGATGGCTT
Found at i:31638649 original size:27 final size:27
Alignment explanation
Indices: 31638619--31638790 Score: 209
Period size: 27 Copynumber: 6.4 Consensus size: 27
31638609 GGATAAGTTA
*
31638619 TAGAATTACCAAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
**
31638646 TAGAATTATTGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * *
31638673 TAGAATTACTGAAATAACCCTGTAGGA
1 TAGAATTACCGAAATACCCCTGTAGGG
* *
31638700 TAGAATTACCAAAATACCCTTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
**
31638727 TAGAAACACCGAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * * *
31638754 TAGAATTACCGAGATACCCTTCTGGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
31638781 TAAAATTACC
1 TAGAATTACC
31638791 ATTTTGCCCC
Statistics
Matches: 123, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGG
Found at i:31639483 original size:27 final size:26
Alignment explanation
Indices: 31639439--31639490 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
31639429 CTCGCTGCAA
*
31639439 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
31639466 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
31639491 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:31639528 original size:67 final size:67
Alignment explanation
Indices: 31639420--31639595 Score: 307
Period size: 67 Copynumber: 2.6 Consensus size: 67
31639410 GAGGAAGCGT
*
31639420 TCTGGAAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
31639485 TA
66 TA
*
31639487 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATTTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
31639552 TA
66 TA
* * *
31639554 TCTGGCAGCCTCGCTACAATCTGGTGGCTTCACCACATATAT
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATAT
31639596 ATATCTGTTT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 104 1.00
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:31639641 original size:98 final size:98
Alignment explanation
Indices: 31639508--31639693 Score: 284
Period size: 98 Copynumber: 1.9 Consensus size: 98
31639498 CGCTGCAATC
* * * *
31639508 TGGTGGCCTCGCCACATATATTTGTTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTACAA
1 TGGTGGCCTAGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTACAA
*
31639573 TCTGGTGGCTTCACCACATATATATATCTGTTT
66 TCTGGTGGCCTCACCACATATATATATCTGTTT
*
31639606 TGGTGGCCTAGCCACA-ATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCA
1 TGGTGGCCTAGCCACATATATCTAT-TCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTACA
* *
31639670 ATCTGGTGGCCTCGCCATATATAT
65 ATCTGGTGGCCTCACCACATATAT
31639694 CTATTCTGGT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
97 6 0.08
98 73 0.92
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (98 bp):
TGGTGGCCTAGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTACAA
TCTGGTGGCCTCACCACATATATATATCTGTTT
Found at i:31639713 original size:165 final size:165
Alignment explanation
Indices: 31639441--31639747 Score: 508
Period size: 165 Copynumber: 1.9 Consensus size: 165
31639431 CGCTGCAATC
* * *
31639441 TGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
1 TGGTGGCCTAGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCAA
* *
31639506 TCTGGTGGCCTCGCCACATATATTTGTTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTAC
66 TCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTAC
31639571 AATCTGGTGGCTTCACCACATATATATATCTGTTT
131 AATCTGGTGGCTTCACCACATATATATATCTGTTT
31639606 TGGTGGCCTAGCCACA-ATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCA
1 TGGTGGCCTAGCCACATATATCTAT-TCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCA
* * * * *
31639670 ATCTGGTGGCCTCGCCATATATATCTATTCTGGTGACTTCGTCATAATATCTGGCAGTCTCGTTG
65 ATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTA
31639735 CAATCTGGTGGCT
130 CAATCTGGTGGCT
31639748 AATTTCTATA
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
164 7 0.05
165 124 0.95
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (165 bp):
TGGTGGCCTAGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCAA
TCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTAC
AATCTGGTGGCTTCACCACATATATATATCTGTTT
Found at i:31639715 original size:27 final size:26
Alignment explanation
Indices: 31639671--31639721 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
31639661 CTCACTGCAA
*
31639671 TCTGGTGGCCTCGCCATATATATCTAT
1 TCTGGTGACCTCGCCATA-ATATCTAT
* *
31639698 TCTGGTGACTTCGTCATAATATCT
1 TCTGGTGACCTCGCCATAATATCT
31639722 GGCAGTCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.39
Consensus pattern (26 bp):
TCTGGTGACCTCGCCATAATATCTAT
Found at i:31639719 original size:67 final size:67
Alignment explanation
Indices: 31639606--31639746 Score: 212
Period size: 67 Copynumber: 2.1 Consensus size: 67
31639596 ATATCTGTTT
31639606 TGGTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCAA
1 TGGTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCAA
31639671 TC
66 TC
* * * * **
31639673 TGGTGGCCTCGCCATATATATCTAT-TCTGGTGACTTCGTCATAATATCTGGCAGTCTCGTTGCA
1 TGGTGGCCTAGCCACA-ATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCA
31639737 ATC
65 ATC
31639740 TGGTGGC
1 TGGTGGC
31639747 TAATTTCTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 59 0.88
68 8 0.12
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.32
Consensus pattern (67 bp):
TGGTGGCCTAGCCACAATATCTATATCTGGTGACTTCGTCACAATATCTGGCAGCCTCACTGCAA
TC
Found at i:31646208 original size:27 final size:27
Alignment explanation
Indices: 31646178--31646377 Score: 267
Period size: 27 Copynumber: 7.4 Consensus size: 27
31646168 TGGATAAGTT
* *
31646178 GTAGAATTACCAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
31646205 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
31646232 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
31646259 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
31646286 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
31646313 GTAGAAATATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
31646340 GTA-AAGTTACCGAGATACCCTTGTGGG
1 GTAGAA-TTACCGAAATACCCCTGTAGG
*
31646367 GTAAAATTACC
1 GTAGAATTACC
31646378 ATTTTACCCC
Statistics
Matches: 152, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 148 0.97
28 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:31647118 original size:67 final size:67
Alignment explanation
Indices: 31647010--31647185 Score: 280
Period size: 67 Copynumber: 2.6 Consensus size: 67
31647000 GAGGAAGCGC
* * * *
31647010 TCTGGCAGCGTCGCTGCAATCTGGTGGCCTCGCGACATATATCTATTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACTTCGACACAA
31647075 TA
66 TA
*
31647077 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTGTTCTGGTGACTTCGACACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACTTCGACACAA
31647142 TA
66 TA
* * *
31647144 TCTGGCAGCCTCGCTGCAATCAGGTGGCTTTACCACATATAT
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATAT
31647186 ATATCTGTTC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 101 1.00
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.29
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTATTCTGGTGACTTCGACACAA
TA
Found at i:31651044 original size:31 final size:31
Alignment explanation
Indices: 31651006--31651066 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
31650996 TATTAAGAAC
31651006 AAAACATAGCTAGGCAATCCATTCAACTCAT
1 AAAACATAGCTAGGCAATCCATTCAACTCAT
31651037 AAAACATAGCTAGGCAATCCATTCAACTCA
1 AAAACATAGCTAGGCAATCCATTCAACTCA
31651067 AATCTTGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.21
Consensus pattern (31 bp):
AAAACATAGCTAGGCAATCCATTCAACTCAT
Found at i:31666622 original size:15 final size:15
Alignment explanation
Indices: 31666566--31666645 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 15
31666556 TAAAGATAAC
*
31666566 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
31666580 AAGAAATTCA-AGATA
1 AAGAAATCCAGA-ATA
*
31666595 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
31666610 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
31666625 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
31666640 AAGAAA
1 AAGAAA
31666646 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
14 12 0.23
15 36 0.68
16 5 0.09
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:31666641 original size:30 final size:30
Alignment explanation
Indices: 31666575--31666654 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
31666565 CAAGAAAACC
*
31666575 GAATAAAGAAATTCAAGATAGAAAAACCCA
1 GAATAAAGAAATCCAAGATAGAAAAACCCA
*
31666605 GAATAAAGAAATCC-AGAATA-AAAAGATCCA
1 GAATAAAGAAATCCAAG-ATAGAAAA-ACCCA
* *
31666635 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
31666655 CGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 6 0.14
30 35 0.81
31 2 0.05
ACGTcount: A:0.59, C:0.14, G:0.15, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAGAAAAACCCA
Found at i:31666654 original size:15 final size:15
Alignment explanation
Indices: 31666577--31666654 Score: 56
Period size: 15 Copynumber: 5.2 Consensus size: 15
31666567 AGAAAACCGA
*
31666577 ATAAAGAAATTCAAG
1 ATAAAGAAATCCAAG
*
31666592 ATAGAA-AAA-CCCAG
1 ATA-AAGAAATCCAAG
31666606 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
31666621 AATAAA-AAGATCCAGG
1 -ATAAAGAA-ATCCAAG
*
31666637 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31666652 ATA
1 ATA
31666655 CGATACTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 7 0.14
15 37 0.73
16 7 0.14
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31671698 original size:15 final size:15
Alignment explanation
Indices: 31671642--31671721 Score: 69
Period size: 15 Copynumber: 5.4 Consensus size: 15
31671632 TAAAGATAAC
*
31671642 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
31671656 AAGAAATTCA-AGATA
1 AAGAAATCCAGA-ATA
*
31671671 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
31671686 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
31671701 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
31671716 AAGAAA
1 AAGAAA
31671722 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
14 12 0.23
15 36 0.68
16 5 0.09
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:31671717 original size:30 final size:30
Alignment explanation
Indices: 31671651--31671730 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
31671641 CAAGAAAACC
*
31671651 GAATAAAGAAATTCAAGATAGAAAAACCCA
1 GAATAAAGAAATCCAAGATAGAAAAACCCA
*
31671681 GAATAAAGAAATCC-AGAATA-AAAAGATCCA
1 GAATAAAGAAATCCAAG-ATAGAAAA-ACCCA
* *
31671711 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
31671731 CGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 6 0.14
30 35 0.81
31 2 0.05
ACGTcount: A:0.59, C:0.14, G:0.15, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAGAAAAACCCA
Found at i:31671730 original size:15 final size:15
Alignment explanation
Indices: 31671653--31671730 Score: 56
Period size: 15 Copynumber: 5.2 Consensus size: 15
31671643 AGAAAACCGA
*
31671653 ATAAAGAAATTCAAG
1 ATAAAGAAATCCAAG
*
31671668 ATAGAA-AAA-CCCAG
1 ATA-AAGAAATCCAAG
31671682 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
31671697 AATAAA-AAGATCCAGG
1 -ATAAAGAA-ATCCAAG
*
31671713 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31671728 ATA
1 ATA
31671731 CGATACTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 7 0.14
15 37 0.73
16 7 0.14
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31676571 original size:22 final size:25
Alignment explanation
Indices: 31676559--31676607 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
31676549 GATAACAAGA
31676559 AAACC-GAATAAAGAAATCAAGATAG
1 AAACCAGAATAAAGAAATCAAGA-AG
*
31676584 AAACCAGAATAAAGAAATCCAGAA
1 AAACCAGAATAAAGAAATCAAGAA
31676608 TAAAAGATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.61, C:0.14, G:0.14, T:0.10
Consensus pattern (25 bp):
AAACCAGAATAAAGAAATCAAGAAG
Found at i:31679701 original size:93 final size:93
Alignment explanation
Indices: 31679567--31679739 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
31679557 CGCCCATAAG
* *
31679567 CGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGTATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCA
31679632 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * * *
31679660 CGAACTTGGACTCAACTCAATGAGTTC-AGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCAGACTCAACTC
*
31679724 AACGAGTTCGGATGCC
65 AACGAGCTCGGATGCC
31679740 CAAATATCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:31679732 original size:46 final size:46
Alignment explanation
Indices: 31679560--31679729 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 46
31679550 TGTAACCCGC
* *
31679560 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGA-CATTCGCAT
* * * *
31679606 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC--A-GAC-A-TTCGCAT
* * * *
31679656 -C-TCA-CGAACTTGGACTCAACTCAATGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
*
31679699 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
31679730 TTCGGATGCC
Statistics
Matches: 96, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 53 0.55
47 22 0.23
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCAT
Found at i:31684704 original size:29 final size:29
Alignment explanation
Indices: 31684670--31684743 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
31684660 TAATCAACCG
*
31684670 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
31684699 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
31684728 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
31684744 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:31692831 original size:29 final size:29
Alignment explanation
Indices: 31692797--31692870 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
31692787 TAATCAACCG
*
31692797 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
31692826 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
31692855 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
31692871 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:31702249 original size:42 final size:41
Alignment explanation
Indices: 31702154--31702260 Score: 155
Period size: 41 Copynumber: 2.6 Consensus size: 41
31702144 TAACTCACAC
*
31702154 AATGCCTTCGGGACATAACCCGGATTTAACAAACACGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAAACACGCACG
*
31702195 AATGCCTTCGGGA-TTAACGCCGGATTTAAC-AACTCGCACG
1 AATGCCTTCGGGACTTAAC-CCGGATTTAACAAACACGCACG
31702235 AAAATGCCTTCGGGACTTAACCCGGA
1 --AATGCCTTCGGGACTTAACCCGGA
31702261 ATTTTAGTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
40 13 0.22
41 24 0.40
42 18 0.30
43 5 0.08
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (41 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAAACACGCACG
Found at i:31702305 original size:47 final size:40
Alignment explanation
Indices: 31702236--31702376 Score: 160
Period size: 46 Copynumber: 3.3 Consensus size: 40
31702226 ACTCGCACGA
31702236 AAATGCCTTCGGGACTTAACCCGGAATTTTAGTATCTTCGCAC
1 AAATGCCTTCGGG-CTTAACCCGGAA-TTT-GTATCTTCGCAC
*
31702279 AAAGGCCTTCGGGTTTTTCTTAACCCGGAATTTGGTAT-TTCGCAAC
1 AAATGCCTTCGGG-----CTTAACCCGGAATTT-GTATCTTCGC-AC
31702325 AAATGCCTTCGGGCTGTAACCCGGAATTTGTATC-TCGCAC
1 AAATGCCTTCGGGCT-TAACCCGGAATTTGTATCTTCGCAC
31702365 AAATGCCTTCGG
1 AAATGCCTTCGG
31702377 ATCTTAGTCC
Statistics
Matches: 87, Mismatches: 4, Indels: 17
0.81 0.04 0.16
Matches are distributed among these distances:
40 14 0.16
41 10 0.11
42 13 0.15
43 12 0.14
45 5 0.06
46 21 0.24
47 12 0.14
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (40 bp):
AAATGCCTTCGGGCTTAACCCGGAATTTGTATCTTCGCAC
Found at i:31710124 original size:27 final size:27
Alignment explanation
Indices: 31710094--31710298 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
31710084 ATATTGAGTC
* * * *
31710094 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31710121 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31710148 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31710176 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31710203 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31710230 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31710257 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31710284 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31710299 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31712131 original size:13 final size:13
Alignment explanation
Indices: 31712113--31712137 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31712103 AAGTAATCAC
31712113 ACACGGGTGTGTA
1 ACACGGGTGTGTA
31712126 ACACGGGTGTGT
1 ACACGGGTGTGT
31712138 CCCTATTGAG
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:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (13 bp):
ACACGGGTGTGTA
Found at i:31713141 original size:29 final size:30
Alignment explanation
Indices: 31713101--31713167 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 30
31713091 TTATCGTGAT
*
31713101 AATAGTTAGTTTCAAGAATGATTCATTATA
1 AATATTTAGTTTCAAGAATGATTCATTATA
31713131 AAT-TTTAGTTTCAAGAATGATTCATTATA
1 AATATTTAGTTTCAAGAATGATTCATTATA
31713160 AATATTTA
1 AATATTTA
31713168 AAACCTGTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 28 0.80
30 7 0.20
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.43
Consensus pattern (30 bp):
AATATTTAGTTTCAAGAATGATTCATTATA
Found at i:31714867 original size:6 final size:6
Alignment explanation
Indices: 31714856--31714957 Score: 95
Period size: 6 Copynumber: 16.8 Consensus size: 6
31714846 AACCAAAATG
*
31714856 AGAATC AGAATC AGAATC AGTAAT- AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
31714904 AGTAA-C AGAATC AAAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
31714953 AGAAT
1 AGAAT
31714958 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
5 7 0.09
6 64 0.81
7 6 0.08
8 2 0.03
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:31714890 original size:30 final size:30
Alignment explanation
Indices: 31714856--31714957 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
31714846 AACCAAAATG
* *
31714856 AGAATCAGAATCAGAATCAGTAATAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
31714886 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
* *
31714916 AAAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
31714947 AGAATCAGAAT
1 AGAATCAGAAT
31714958 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.02
30 42 0.66
31 21 0.33
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:31715112 original size:27 final size:26
Alignment explanation
Indices: 31715075--31715161 Score: 102
Period size: 27 Copynumber: 3.3 Consensus size: 26
31715065 AGCATGGCTG
*
31715075 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
31715101 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
* * *
31715128 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TCGTGACAGAGCCA
31715155 CCAGAAC
1 CCAGAAC
31715162 GCTTCATCCG
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 12 0.22
27 43 0.78
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:31715390 original size:27 final size:27
Alignment explanation
Indices: 31715360--31715555 Score: 223
Period size: 27 Copynumber: 7.3 Consensus size: 27
31715350 GGGGCAAAAT
* *
31715360 GGTAATTTTAACCC-ACAAGGGTATCTC
1 GGTAATTCT-ACCCTACAAGGGTATTTC
* *
31715387 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31715414 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31715441 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31715468 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31715495 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31715522 GGAAACTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31715549 AGTAATT
1 GGTAATT
31715556 TCACAATCAA
Statistics
Matches: 142, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 4 0.03
27 138 0.97
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31715590 original size:27 final size:27
Alignment explanation
Indices: 31715560--31716094 Score: 542
Period size: 27 Copynumber: 19.8 Consensus size: 27
31715550 GTAATTTCAC
* *
31715560 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
31715587 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31715614 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* ** * **
31715641 AATCAAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31715668 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31715695 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
31715722 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
31715749 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31715776 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
31715803 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31715830 AA-CTGAGGGTAAAACAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
31715857 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31715884 AA-CTGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
31715911 AACCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
31715938 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
31715965 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
31715992 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
31716019 AATCGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
31716046 AATCGAGTGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
31716073 AATCGAGGGTAAAACAGTAATT
1 AATCGAGGGTAAAACGGTAATT
31716095 GGTAAACTAA
Statistics
Matches: 430, Mismatches: 66, Indels: 24
0.83 0.13 0.05
Matches are distributed among these distances:
26 6 0.01
27 418 0.97
28 6 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:31715671 original size:81 final size:81
Alignment explanation
Indices: 31715560--31716087 Score: 636
Period size: 81 Copynumber: 6.5 Consensus size: 81
31715550 GTAATTTCAC
* ** *
31715560 AATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGATAATTTTGTAAACTGAGGGTA
1 AATCAAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
* *
31715625 AACCAGTAATTCTGTA
66 AAACAGTAATTCTATA
*
31715641 AATCAAGGGTAAAATAGTAATTTTACAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
1 AATCAAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
* *
31715706 AACCAGTAATTCTGTA
66 AAACAGTAATTCTATA
** *
31715722 AATCAAGGGTAAAACAGTAATTTTACAAATCGAGGGTAAAATGATAATTTTGTAAACTGAGGGTA
1 AATCAAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
* *
31715787 AACCAGTAATTCTGTA
66 AAACAGTAATTCTATA
** *
31715803 AATCAAGGGTAAAACAGTAATTCTGTA-AACT-GAGGGTAAAAC-AGTAATTTTGTAAA-TCGAG
1 AATCAAGGGTAAAATGGTAATT-T-TACAAATCGAGGGTAAAACGA-TAATTTTGTAAACT-GAG
*
31715864 GGTAAAACGGTAATTCTATA
62 GGTAAAACAGTAATTCTATA
* * * * * *
31715884 AA-CTGAGGGTAAAATGGTAATTCTATAAACCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGT
1 AATC-AAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGT
*
31715948 AAAACGGTAATTCTATA
65 AAAACAGTAATTCTATA
* * * * *
31715965 AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAA-TCGAGGGT
1 AATCAAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGATAATTTTGTAAACT-GAGGGT
* *
31716029 AAAACAGTAATTTTACA
65 AAAACAGTAATTCTATA
* * * *
31716046 AATCGAGTGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
1 AATCAAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAAC
31716088 AGTAATTGGT
Statistics
Matches: 404, Mismatches: 32, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
79 2 0.00
80 6 0.01
81 388 0.96
82 6 0.01
83 2 0.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (81 bp):
AATCAAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
AAACAGTAATTCTATA
Found at i:31719139 original size:5 final size:5
Alignment explanation
Indices: 31719129--31719197 Score: 57
Period size: 5 Copynumber: 12.4 Consensus size: 5
31719119 ACACCTATTA
* *
31719129 TTTAT TTTAT TTTATT TTTATT TCTATAT TTTGAA ATTAT ATTTAT TTTAT
1 TTTAT TTTAT TTTA-T TTTA-T T-T-TAT TTT-AT TTTAT -TTTAT TTTAT
31719180 TTTAT TTTATT TTTAT TT
1 TTTAT TTTA-T TTTAT TT
31719198 CCTTTTAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
5 28 0.52
6 21 0.39
7 3 0.06
8 2 0.04
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:31721133 original size:13 final size:13
Alignment explanation
Indices: 31721115--31721141 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31721105 GAAGTAATCG
31721115 CACACGGGCGTGT
1 CACACGGGCGTGT
31721128 CACACGGGCGTGT
1 CACACGGGCGTGT
31721141 C
1 C
31721142 CTTACCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:31722836 original size:24 final size:24
Alignment explanation
Indices: 31722808--31722884 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
31722798 TCTTTTAACT
31722808 CTATCAGAGTCATTCTGTACGAAG
1 CTATCAGAGTCATTCTGTACGAAG
* * * **
31722832 CTATC-GATATCGACTCTTTTA--ACT
1 CTATCAGA-GTC-ATTC-TGTACGAAG
31722856 CTATCAGAGTCATTCTGTACGAAG
1 CTATCAGAGTCATTCTGTACGAAG
31722880 CTATC
1 CTATC
31722885 GATATCGACA
Statistics
Matches: 37, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
22 3 0.08
23 5 0.14
24 21 0.57
25 5 0.14
26 3 0.08
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (24 bp):
CTATCAGAGTCATTCTGTACGAAG
Found at i:31722854 original size:48 final size:48
Alignment explanation
Indices: 31722798--31722893 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
31722788 AGCTTTTAAT
31722798 TCTTTTAACTCTATCAGAGTCATTCTGTACGAAGCTATCGATATCGAC
1 TCTTTTAACTCTATCAGAGTCATTCTGTACGAAGCTATCGATATCGAC
31722846 TCTTTTAACTCTATCAGAGTCATTCTGTACGAAGCTATCGATATCGAC
1 TCTTTTAACTCTATCAGAGTCATTCTGTACGAAGCTATCGATATCGAC
31722894 ATTGTACCTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
TCTTTTAACTCTATCAGAGTCATTCTGTACGAAGCTATCGATATCGAC
Found at i:31727018 original size:89 final size:90
Alignment explanation
Indices: 31726850--31727023 Score: 199
Period size: 89 Copynumber: 1.9 Consensus size: 90
31726840 GGCTGATGAT
* ** * * * *
31726850 TTAAATCTGCTCCATTTTCGATACATGGAGATAAGATTCACCATTTGGTATTTTCTCTGCTGCAA
1 TTAAATCTACTCCATTACCGATACATGGAGATAAGATTCACCATTTCGTATCTACTCCGCTGCAA
* *
31726915 CTTTAGGGAAAT-AAATCTTGGAGC
66 CTTCAGAGAAATAAAATCTTGGAGC
** * *
31726939 TTAAATCTACTCCATTACCGATACATGGAGATAAGATTTGCCTCTTTCG-ATCTACTCCGCTGTA
1 TTAAATCTACTCCATTACCGATACATGGAGATAAGATTCACC-ATTTCGTATCTACTCCGCTGCA
*
31727003 ACTTCAGAGAGATAAAATCTT
65 ACTTCAGAGAAATAAAATCTT
31727024 CAATCTTTAG
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
89 58 0.84
90 11 0.16
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (90 bp):
TTAAATCTACTCCATTACCGATACATGGAGATAAGATTCACCATTTCGTATCTACTCCGCTGCAA
CTTCAGAGAAATAAAATCTTGGAGC
Found at i:31727055 original size:45 final size:43
Alignment explanation
Indices: 31727006--31727105 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
31726996 CGCTGTAACT
* **
31727006 TCAGAGAGATAAAATCTTCAATCTTTAGTCTACT-TCCTTGCTACC
1 TCAGAGAGATAAAA-C-TCAATCTTCAACCTACTCT-CTTGCTACC
* * * *
31727051 TCAGAAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTACC
1 TCAGAGAGATAAAACTCAATCTTCAACCTACTCTCTTGCTACC
31727094 TCAGAGAGATAA
1 TCAGAGAGATAA
31727106 GGCTGGTGGC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
43 32 0.70
44 2 0.04
45 12 0.26
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (43 bp):
TCAGAGAGATAAAACTCAATCTTCAACCTACTCTCTTGCTACC
Found at i:31727095 original size:43 final size:43
Alignment explanation
Indices: 31727042--31727283 Score: 161
Period size: 43 Copynumber: 5.5 Consensus size: 43
31727032 AGTCTACTTC
* *
31727042 CTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCT
1 CTTGCTACCTCAGAGAGATAAGACTCATTCTTCAATCTGCTCT
* ** * * *
31727085 CTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGATC-
1 CTTGCTACCTCAGAGAGATAAGACTCAT-TCTTCAATCTGCTCT
* * * * * **
31727128 CACTGCCA-ATACATG-GAGATAAGATTCACCATCTTCGGTCTGCTC-
1 C-TTGCTACCT-CA-GAGAGATAAGACTCA--TTCTTCAATCTGCTCT
* * * * *
31727173 CGCTGCAACTTCAGAGAGATAAGATCTTCCA-TCTTCAGTCTGCTTT
1 C-TTGCTACCTCAGAGAGATAAGA-C-T-CATTCTTCAATCTGCTCT
* *
31727219 CTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCTGCTCT
1 CTTGCTACCTCAGAGAGATAAGACTCATTCTTCAATCTGCTCT
31727262 CTTGCTACCTCAGAGAGATAAG
1 CTTGCTACCTCAGAGAGATAAG
31727284 GCTGGTGGCT
Statistics
Matches: 151, Mismatches: 35, Indels: 26
0.71 0.17 0.12
Matches are distributed among these distances:
42 2 0.01
43 60 0.40
44 27 0.18
45 57 0.38
46 2 0.01
47 1 0.01
48 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (43 bp):
CTTGCTACCTCAGAGAGATAAGACTCATTCTTCAATCTGCTCT
Found at i:31727176 original size:177 final size:177
Alignment explanation
Indices: 31726937--31727902 Score: 1132
Period size: 177 Copynumber: 5.5 Consensus size: 177
31726927 AAATCTTGGA
* ** *
31726937 GCTTAAATCTACTCCATTACCGATACATGGAGATAAGATTTGCC-TCTTTCGATCTACTCCGCTG
1 GCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACCATC-TTCGATCTGCTCCGCTG
* * *
31727001 TAACTTCAGAGAGATAAAATCTTCAATCTTTAGTCTACTTCCTTGCTACCTCAGAAAGATAAGAC
65 TAACTTCAGAGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGAC
*
31727066 TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTG
130 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTG
* * * * * *
31727114 GCTTAAATCTGATCCACTGCCAATACATGGAGATAAGATTCACCATCTTCGGTCTGCTCCGCTGC
1 GCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTGT
* *
31727179 AACTTCAGAGAGATAAGATCTTCCATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACT
66 AACTTCAGAGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACT
*
31727244 CATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTG
131 CAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTG
* * * *
31727291 GCTTAAATCTGCTCCATTATCGATACATGGAGAGAAGGTTCACCATCTTCGATCTGCTCCAC--T
1 GCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTGT
* * * * * * *
31727354 -ACTGCTTG-GTAGCTTAGATCTTCCATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGA
66 AACTTC-AGAG-AGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGA
* ** * *
31727417 CTCAATATTCAAATTGCTCTCTTGCTACCTC--AGAGATAAGG-TAGTA
129 CTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTG
* ** * * *
31727463 GCTTAAATCTGCTCCATTGCTAATACATGGAAATAAGATT-AGCCATTTTCGATCTGCTCTGCTG
1 GCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCA-CCATCTTCGATCTGCTCCGCTG
* * * * *
31727527 TAACTTTAGGGAGATAAGACCTTCAATCTTCAATTTGCTTCCTTGCTACC-CTATG-AAGATAAG
65 TAACTTCAGAGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTC-A-GAAAGATAAG
* * *
31727590 ACTCAATCTTCAACCTGCTGTCTTGCTACCTTAGAGAGATAAGGCTGGAG
128 ACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTG
* * * ** * *
31727640 GCTAAAATCTGCTCCATTACCGATACATAGAGATAAGGTTTGCCATCTTCGATCTGCTCCACTAC
1 GCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCT-G
* * * * *
31727705 T-GCTT-AGAGAGATAAGATCTTTAATCCTT-AGTTTGCTTCCTTGCTACCTTAGGAAGATAAGA
65 TAACTTCAGAGAGATAAGATCTTCAAT-CTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGA
* *
31727767 CTTCAATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAAGCTGGTG
129 C-TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTG
* * ** * * *
31727817 GCTTAAATTTGCTCCATTGCCGATACACAGAGATAAGATTCGCCATCTTCGATCTGCTCTGCTGC
1 GCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTGT
*
31727882 AACTTCAGGGAGATAAGATCT
66 AACTTCAGAGAGATAAGATCT
31727903 GACTTCACCC
Statistics
Matches: 669, Mismatches: 99, Indels: 41
0.83 0.12 0.05
Matches are distributed among these distances:
171 1 0.00
172 53 0.08
173 10 0.01
174 76 0.11
175 82 0.12
176 56 0.08
177 374 0.56
178 17 0.03
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (177 bp):
GCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTGT
AACTTCAGAGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACT
CAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTG
Found at i:31727588 original size:349 final size:349
Alignment explanation
Indices: 31726933--31727899 Score: 1203
Period size: 349 Copynumber: 2.7 Consensus size: 349
31726923 AAATAAATCT
* * * * * ** *
31726933 TGGA-GCTTAAATCTACTCCATTACCGATACATGGAGATAAGATTTGCC-TCTTTCGATCTACTC
1 TGGAGGCTAAAATCTGCTCCATTACCGATACATAGAGAGAAGGTTCACCATC-TTCGATCTGCTC
* * * * * * *
31726996 CGCT-GTAACTTCAGAGAGATAAAATCTTCAATCTTTAGTCTACTTCCTTGCTACCTCAGAAAGA
65 CACTACT-GCTT-AGAGAGATAAGATCTTCAATC-TTAGTCTGCTTCCTTGCTACCTTAGGAAGA
*
31727060 TAAGACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTG
127 TAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTC--AGAGATAAGG-TGGTGGCTTAAATCTG
* * * * *
31727125 ATCCACTGCCAATACATGGAGATAAGATTCA-CCATCTTCGGTCTGCTCCGCTGCAACTTCAGAG
189 CTCCATTGCCAATACATGGAGATAAGATT-AGCCATCTTCGATCTGCTCTGCTGCAACTTCAGGG
* * * * *
31727189 AGATAAGATCTTCCATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAA
253 AGATAAGACCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAA
31727254 CCTGCTCTCTTGCTACCTCAGAGAGATAAGGC
318 CCTGCTCTCTTGCTACCTCAGAGAGATAAGGC
* * * *
31727286 TGGTGGCTTAAATCTGCTCCATTATCGATACATGGAGAGAAGGTTCACCATCTTCGATCTGCTCC
1 TGGAGGCTAAAATCTGCTCCATTACCGATACATAGAGAGAAGGTTCACCATCTTCGATCTGCTCC
* * *
31727351 ACTACTGCTT-G-GTAGCTTAGATCTTCCATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATA
66 ACTACTGCTTAGAG-AGATAAGATCTTCAATCTT-AGTCTGCTTCCTTGCTACCTTAGGAAGATA
* ** * *
31727414 AGACTCAATATTCAAATTGCTCTCTTGCTACCTCAGAGATAAGGTAGTAGCTTAAATCTGCTCCA
129 AGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGATAAGGTGGTGGCTTAAATCTGCTCCA
* * * * *
31727479 TTGCTAATACATGGAAATAAGATTAGCCATTTTCGATCTGCTCTGCTGTAACTTTAGGGAGATAA
194 TTGCCAATACATGGAGATAAGATTAGCCATCTTCGATCTGCTCTGCTGCAACTTCAGGGAGATAA
*
31727544 GACCTTCAATCTTCAATTTGCTTCCTTGCTACC-CTATG-AAGATAAGACTCAATCTTCAACCTG
259 GACCTTCAATCTTCAATCTGCTTCCTTGCTACCTC-A-GAAAGATAAGACTCAATCTTCAACCTG
* *
31727607 CTGTCTTGCTACCTTAGAGAGATAAGGC
322 CTCTCTTGCTACCTCAGAGAGATAAGGC
* **
31727635 TGGAGGCTAAAATCTGCTCCATTACCGATACATAGAGATAAGGTTTGCCATCTTCGATCTGCTCC
1 TGGAGGCTAAAATCTGCTCCATTACCGATACATAGAGAGAAGGTTCACCATCTTCGATCTGCTCC
* *
31727700 ACTACTGCTTAGAGAGATAAGATCTTTAATCCTTAGTTTGCTTCCTTGCTACCTTAGGAAGATAA
66 ACTACTGCTTAGAGAGATAAGATCTTCAAT-CTTAGTCTGCTTCCTTGCTACCTTAGGAAGATAA
* * *
31727765 GACTTCAATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAAGCTGGTGGCTTAAATTTGCT
130 GAC-TCAATCTTCAACCTGCTCTCTTGCTACC-T-CAGAGAT-AAGGTGGTGGCTTAAATCTGCT
* ** *
31727830 CCATTGCCGATACACAGAGATAAGATTCGCCATCTTCGATCTGCTCTGCTGCAACTTCAGGGAGA
191 CCATTGCCAATACATGGAGATAAGATTAGCCATCTTCGATCTGCTCTGCTGCAACTTCAGGGAGA
31727895 TAAGA
256 TAAGA
31727900 TCTGACTTCA
Statistics
Matches: 528, Mismatches: 71, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
348 2 0.00
349 219 0.41
350 57 0.11
351 32 0.06
352 72 0.14
353 9 0.02
354 134 0.25
355 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (349 bp):
TGGAGGCTAAAATCTGCTCCATTACCGATACATAGAGAGAAGGTTCACCATCTTCGATCTGCTCC
ACTACTGCTTAGAGAGATAAGATCTTCAATCTTAGTCTGCTTCCTTGCTACCTTAGGAAGATAAG
ACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGATAAGGTGGTGGCTTAAATCTGCTCCATT
GCCAATACATGGAGATAAGATTAGCCATCTTCGATCTGCTCTGCTGCAACTTCAGGGAGATAAGA
CCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCT
CTTGCTACCTCAGAGAGATAAGGC
Found at i:31727601 original size:43 final size:45
Alignment explanation
Indices: 31727537--31727632 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 45
31727527 TAACTTTAGG
**
31727537 GAGATAAGACCTTCAATCTTCAATTTGCT-TCCTTGCTACCCTATGA
1 GAGATAAGACCTTCAATCTTCAACCTGCTGT-CTTGCTACCCTA-GA
*
31727583 -AGATAAGA-C-TCAATCTTCAACCTGCTGTCTTGCTACCTTAGA
1 GAGATAAGACCTTCAATCTTCAACCTGCTGTCTTGCTACCCTAGA
31727625 GAGATAAG
1 GAGATAAG
31727633 GCTGGAGGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
42 2 0.04
43 33 0.73
44 2 0.04
45 8 0.18
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (45 bp):
GAGATAAGACCTTCAATCTTCAACCTGCTGTCTTGCTACCCTAGA
Found at i:31730769 original size:40 final size:40
Alignment explanation
Indices: 31730386--31730769 Score: 500
Period size: 40 Copynumber: 9.6 Consensus size: 40
31730376 GCTACTCATT
* * *
31730386 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATTAGTATCTCGCA
* *
31730426 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATTAGTATCTCGCA
*
31730466 CAAATGCCTTCGGATCTTAGTCCGGATATTAGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATTAGTATCTCGCA
*
31730507 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATATTAGTATCTCGCA
*
31730546 CAAATGCCTTCGGATCTTAGTCCGGATATTAGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATTAGTATCTCGCA
31730587 CAAATGCCTTCGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATATTAGTATCTCGCA
*
31730625 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATATTAGTATCTCGCA
*
31730664 CAAATGCCTTCGGATCTTAGTCCGGAT-TTAGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATTAGTATCTCGCA
* * *
31730704 CAAATGCCTTCGGATCTTAGTCCGGATA-TGGTCA-CTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATTAGT-ATC-TCGCA
31730745 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
31730770 CATCATTCAA
Statistics
Matches: 316, Mismatches: 16, Indels: 24
0.89 0.04 0.07
Matches are distributed among these distances:
38 27 0.09
39 78 0.25
40 147 0.47
41 64 0.20
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGACTTAGCCCGGATATTAGTATCTCGCA
Found at i:31753539 original size:24 final size:24
Alignment explanation
Indices: 31753512--31753561 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
31753502 AATTAAATAT
31753512 ATATGATGAAAAAGATGGTGCACA
1 ATATGATGAAAAAGATGGTGCACA
*
31753536 ATATGATGAAGAAGATGGTGCACA
1 ATATGATGAAAAAGATGGTGCACA
31753560 AT
1 AT
31753562 CTTGACGCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.26, T:0.22
Consensus pattern (24 bp):
ATATGATGAAAAAGATGGTGCACA
Found at i:31759167 original size:40 final size:40
Alignment explanation
Indices: 31759073--31759217 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
31759063 TACTCGAATG
*
31759073 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
31759114 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
31759154 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
31759194 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
31759218 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:31760845 original size:40 final size:40
Alignment explanation
Indices: 31760786--31761018 Score: 299
Period size: 40 Copynumber: 5.8 Consensus size: 40
31760776 TTCGGATGAT
*
31760786 AACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTATTAC
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAC
* *
31760826 AACCGAGCTAAGTCTCGAAGGCATTTGTGCGAGTTATTAC
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAC
*
31760866 AACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTAC
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAC
* * ** * *
31760906 ATCCGGGCTGAGTCCCGAAGGCATTTGTGCGAACTACTAT
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAC
* * * *
31760946 ATCCGGGCTAAATCCCGAAGGCATTGGTGCGAGTTACTA-
1 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAC
* *
31760985 AATCCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 AA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
31761019 AGCTATATCC
Statistics
Matches: 169, Mismatches: 23, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
39 9 0.05
40 160 0.95
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAC
Found at i:31768241 original size:16 final size:16
Alignment explanation
Indices: 31768220--31768250 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31768210 TTGTAACGCC
31768220 CCAAAAATCCCGAAAG
1 CCAAAAATCCCGAAAG
*
31768236 CCAAAAATCCTGAAA
1 CCAAAAATCCCGAAA
31768251 TCTCAAACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.29, G:0.10, T:0.10
Consensus pattern (16 bp):
CCAAAAATCCCGAAAG
Found at i:31771776 original size:28 final size:28
Alignment explanation
Indices: 31771678--31771790 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 28
31771668 ACTTGTAATA
* *
31771678 GGGCTACGACCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAATACTGATAT
** *
31771706 GGGCT-AGGCCCAGTATACTCTGTTACTG-TAAG
1 GGGCTAAGGCCCAG---A-T-TAATACTGAT-AT
* *
31771738 GGGTTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAATACTGATAT
*
31771766 GGGCTAAGGCCCAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAATACTGAT
31771791 TTTTGAATAG
Statistics
Matches: 64, Mismatches: 13, Indels: 17
0.68 0.14 0.18
Matches are distributed among these distances:
27 16 0.25
28 24 0.38
29 2 0.03
30 2 0.03
31 2 0.03
32 11 0.17
33 7 0.11
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAATACTGATAT
Found at i:31774810 original size:27 final size:27
Alignment explanation
Indices: 31774769--31774822 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
31774759 TGTCATGTGA
31774769 AATTGAATGGCAAATTA-TTATTACATG
1 AATTGAATGGCAAATTACTT-TTACATG
**
31774796 AATTGAATGTTAAATTACTTTTACATG
1 AATTGAATGGCAAATTACTTTTACATG
31774823 GGTTGTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTTTTACATG
Found at i:31775148 original size:49 final size:50
Alignment explanation
Indices: 31775068--31775300 Score: 263
Period size: 49 Copynumber: 4.7 Consensus size: 50
31775058 ATCTATTGTG
* * *
31775068 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACGACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
31775118 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
31775168 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
31775218 AGGTCACGTGTGTAGTACTAAGTGCAGGATGCTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
31775268 -GGTCGCATGTATAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
31775301 TGCGTACCAG
Statistics
Matches: 151, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 68 0.45
50 45 0.30
51 38 0.25
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:31778037 original size:13 final size:13
Alignment explanation
Indices: 31778021--31778047 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31778011 TATCTATATA
31778021 TGGCATGTATAGT
1 TGGCATGTATAGT
31778034 TGGCATGTATAGT
1 TGGCATGTATAGT
31778047 T
1 T
31778048 AGACTCTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.30, T:0.41
Consensus pattern (13 bp):
TGGCATGTATAGT
Found at i:31784399 original size:87 final size:87
Alignment explanation
Indices: 31784229--31784392 Score: 256
Period size: 87 Copynumber: 1.9 Consensus size: 87
31784219 AAATACCATC
* * **
31784229 CCTCACTCCCTCATTTCATCATTCCCCATTCATCCATCTTTCTCTCTTTTCTCTCTTTACTTTCC
1 CCTCACTCCCTCATCTCATCATTCCACATTCATCCATCTTTCAATCTTTTCTCTCTTTACTTTCC
*
31784294 CTTCCTATTTTCCAAGTGATTT
66 CTTCCCATTTTCCAAGTGATTT
* * *
31784316 CCTCACTCTCTTATCTCATCATTCCACATTCATCCTTCTTTCAATCTTTTCTCTCTTTACTTTCC
1 CCTCACTCCCTCATCTCATCATTCCACATTCATCCATCTTTCAATCTTTTCTCTCTTTACTTTCC
31784381 CTTCCCATTTTC
66 CTTCCCATTTTC
31784393 TGAGTGAGTT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.14, C:0.37, G:0.01, T:0.48
Consensus pattern (87 bp):
CCTCACTCCCTCATCTCATCATTCCACATTCATCCATCTTTCAATCTTTTCTCTCTTTACTTTCC
CTTCCCATTTTCCAAGTGATTT
Found at i:31791635 original size:20 final size:20
Alignment explanation
Indices: 31791610--31791648 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
31791600 AATCAATCGA
31791610 TGATAATTA-ATTATTTAATT
1 TGATAATTAGA-TATTTAATT
31791630 TGATAATTAGATATTTAAT
1 TGATAATTAGATATTTAAT
31791649 CGATCATAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
TGATAATTAGATATTTAATT
Found at i:31792401 original size:35 final size:36
Alignment explanation
Indices: 31792337--31792408 Score: 128
Period size: 35 Copynumber: 2.0 Consensus size: 36
31792327 GAAAGAAAGA
31792337 TTTCAAGGTGGTTCATTATTTTTTTCTCTCTGATTT
1 TTTCAAGGTGGTTCATTATTTTTTTCTCTCTGATTT
*
31792373 TTTCAAGGTGGTTCA-TCTTTTTTTCTCTCTGATTT
1 TTTCAAGGTGGTTCATTATTTTTTTCTCTCTGATTT
31792408 T
1 T
31792409 CCTCTTTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 20 0.57
36 15 0.43
ACGTcount: A:0.12, C:0.15, G:0.14, T:0.58
Consensus pattern (36 bp):
TTTCAAGGTGGTTCATTATTTTTTTCTCTCTGATTT
Found at i:31794456 original size:132 final size:131
Alignment explanation
Indices: 31794123--31794578 Score: 670
Period size: 132 Copynumber: 3.5 Consensus size: 131
31794113 TGAAGATTCA
*
31794123 CTAAAACAAAGGTAATGTTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTC
1 CTAAAAC-AAGGCAATGTTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTC
* *
31794188 GATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAAAATTTTACTCGTGTTTTTTTTCCAAA
65 GATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAAAAATTTACTCGTGTTTTTTTTCCAAA
*
31794253 CT
130 CG
31794255 CTAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCG
1 CTAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCG
* *
31794320 ATTTCCCGCTTGTTCAAAATAATCGAGTATTCCTTTAAAAATTTACTCGTGTTTTTTTTTCCAAA
66 ATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAAAAATTTACTCGTG-TTTTTTTTCCAAA
31794385 CG
130 CG
* * *
31794387 CTAAAACAAGGCAATGTTCGATGTTTGAAAATTTGGGGAATAGTGCCCTCTCGTGCTGGGTTTCG
1 CTAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCG
** *
31794452 ATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTT-GGAATTTCACTCGTG----TTTTCTAAA
66 ATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAAAAATTT-ACTCGTGTTTTTTTTCCAAA
*
31794512 TG
130 CG
* * * * * * *
31794514 CTAAAGCGAGGCAATGTTCAATGTTCGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTCG
1 CTAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCG
31794579 GTTTTTCATT
Statistics
Matches: 297, Mismatches: 25, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
127 64 0.22
131 109 0.37
132 124 0.42
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (131 bp):
CTAAAACAAGGCAATGTTCGATGTTTGGAAATTCGGGGAATAGTGCCCTATCGTGCTGGGTTTCG
ATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAAAAATTTACTCGTGTTTTTTTTCCAAAC
G
Found at i:31798614 original size:36 final size:36
Alignment explanation
Indices: 31798542--31798618 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
31798532 TTATTACGAA
* *
31798542 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATC-G
* *
31798579 GTCTTACCTGGACAAAATC-CCACACGTAGTCATCG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
31798614 GTCTT
1 GTCTT
31798619 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 6 0.17
36 13 0.36
37 17 0.47
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (36 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCG
Found at i:31798887 original size:47 final size:47
Alignment explanation
Indices: 31798737--31799395 Score: 988
Period size: 47 Copynumber: 14.1 Consensus size: 47
31798727 CCCTTCGGGA
** * * * * * *
31798737 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31798784 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31798830 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31798877 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
31798924 CTTATCAC-CTATATACACTTTCACATTCCGCACATCGGCTATTAGGC
1 CTTATCACAC-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31798971 CTTATCAC-CTATATACACTTTCACATTCGTCACATCGGCTATTAGGC
1 CTTATCACAC-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31799018 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31799065 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31799112 CTTATCAC-CTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACAC-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31799159 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31799206 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31799253 CTTAT--CACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31799298 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31799345 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
31799392 CTTA
1 CTTA
31799396 CTATCATTTC
Statistics
Matches: 574, Mismatches: 31, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
45 45 0.08
46 41 0.07
47 486 0.85
48 2 0.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31799261 original size:22 final size:22
Alignment explanation
Indices: 31799234--31799306 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
31799224 TTTCACATTC
31799234 ATCACATCGGCTATTAGGCCTT
1 ATCACATCGGCTATTAGGCCTT
*** *** *
31799256 ATCACATATAC-ACTTTCACATT
1 ATCACATCGGCTA-TTAGGCCTT
31799278 CATCACATCGGCTATTAGGCCTT
1 -ATCACATCGGCTATTAGGCCTT
31799301 ATCACA
1 ATCACA
31799307 CATATACACT
Statistics
Matches: 34, Mismatches: 14, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
21 1 0.03
22 19 0.56
23 13 0.38
24 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATCGGCTATTAGGCCTT
Found at i:31803601 original size:9 final size:9
Alignment explanation
Indices: 31803584--31803625 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
31803574 TTAAAATTTC
*
31803584 AAAAGTATA
1 AAAATTATA
31803593 AAAATTATAA
1 AAAATTAT-A
*
31803603 AAAAGTATA
1 AAAATTATA
31803612 AAAATTATA
1 AAAATTATA
31803621 AAAAT
1 AAAAT
31803626 CTTTTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (9 bp):
AAAATTATA
Found at i:31803608 original size:19 final size:19
Alignment explanation
Indices: 31803584--31803624 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
31803574 TTAAAATTTC
31803584 AAAAGTATAAAAATTATAA
1 AAAAGTATAAAAATTATAA
31803603 AAAAGTATAAAAATTATAA
1 AAAAGTATAAAAATTATAA
31803622 AAA
1 AAA
31803625 TCTTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAAGTATAAAAATTATAA
Found at i:31806134 original size:34 final size:34
Alignment explanation
Indices: 31806087--31806200 Score: 102
Period size: 34 Copynumber: 3.4 Consensus size: 34
31806077 TGCACTAATT
* * *
31806087 TGTTATAAGCATATTAATTGCCACTATATTGATC
1 TGTTATAACCATATTAATTGCTACCATATTGATC
* * * * * *
31806121 TGTTATGACCATATTATTTGTTACCACATCGAAC
1 TGTTATAACCATATTAATTGCTACCATATTGATC
* * * * *
31806155 TTTTATGAGCATATTAATTGCTACCATATTTATA
1 TGTTATAACCATATTAATTGCTACCATATTGATC
31806189 TGTTATAACCAT
1 TGTTATAACCAT
31806201 GTCATATAGC
Statistics
Matches: 59, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (34 bp):
TGTTATAACCATATTAATTGCTACCATATTGATC
Found at i:31808752 original size:46 final size:46
Alignment explanation
Indices: 31808582--31808790 Score: 124
Period size: 46 Copynumber: 4.5 Consensus size: 46
31808572 TGTGTGAGCT
* * * * *
31808582 AGTGTAAGACATGTCTAGGACACGTATCGGCCAC-ATTATGAAAGCC
1 AGTGTAAGACATGTCTAGGACATGTATCGGCCTCGA-GACGTAAGCC
* * * * * * * *
31808628 AGTGTAAGACTATGTTTAAGACATGGCATCAGCATTGAGAC-TAGTGCT
1 AGTGTAAGAC-ATGTCTAGGACAT-GTATCGGCCTCGAGACGTA-AGCC
** *
31808676 AGTGTAAGACATAACTGGGACATGCT-TCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTAGGACATG-TATCGGCCTCGAGACGTAAGCC
* * * * *
31808722 AGTGTAAGACATGTTTGGGACATGTATCGG-CTATGAGATGT--GTC
1 AGTGTAAGACATGTCTAGGACATGTATCGGCCT-CGAGACGTAAGCC
31808766 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTAGGACATG
31808791 GCATCGGCAC
Statistics
Matches: 122, Mismatches: 32, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
44 11 0.09
45 16 0.13
46 54 0.44
47 21 0.17
48 19 0.16
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGTATCGGCCTCGAGACGTAAGCC
Found at i:31815629 original size:40 final size:39
Alignment explanation
Indices: 31815554--31815646 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 39
31815544 AACTATGTTC
*
31815554 GACACTAAGTGTGCGATTCAAATAGCTTCGGCTATAAAT-A
1 GACACTAAGTGTGCGATTCAAATAGCTTCAGCTAT--ATGA
** *
31815594 G-CACTAAGTGTGCGAATTGGAATAGCTTTAGCTATATGA
1 GACACTAAGTGTGCG-ATTCAAATAGCTTCAGCTATATGA
31815633 GACACTAAGTGTGC
1 GACACTAAGTGTGC
31815647 AAGATTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.04
39 15 0.33
40 29 0.63
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (39 bp):
GACACTAAGTGTGCGATTCAAATAGCTTCAGCTATATGA
Found at i:31821529 original size:33 final size:34
Alignment explanation
Indices: 31821456--31821535 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
31821446 TCAGTTAGGA
* *
31821456 GCCTTAGCCCCTTTTCAGTAACAATAGCAGTCTGG
1 GCCTTAG-CCCATTTCAGTAACAAAAGCAGTCTGG
* *
31821491 GCCTTAGCCCATTTCAGTGATAAAAGCAG-CTGG
1 GCCTTAGCCCATTTCAGTAACAAAAGCAGTCTGG
31821524 GCCTTAGCCCAT
1 GCCTTAGCCCAT
31821536 ATCACTATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 16 0.39
34 18 0.44
35 7 0.17
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (34 bp):
GCCTTAGCCCATTTCAGTAACAAAAGCAGTCTGG
Found at i:31833369 original size:48 final size:49
Alignment explanation
Indices: 31833298--31833613 Score: 369
Period size: 48 Copynumber: 6.6 Consensus size: 49
31833288 TAAAGTACCA
* * * *
31833298 ATGCCATGTCCCCGACATGGTCTTACA-TGAATC-CACATATCATTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTG-AGCACACATATCATCGCCG
* *
31833346 ATGCCATGTCCCAGACATGGTCTTACACT-AGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAGCACACATATCATCGCCG
* * *
31833394 ATGCCTTGTCCCAAACATGGTCTTACACT-AGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAGCACACATATCATCGCCG
* * * **
31833442 ATGCCATGTCCTAGACATGGTCTTACACTG-GCACATATACCATCGTAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAGCACACATATCATCGCCG
* *
31833490 ATGCCATGTCCCAGACATGGTCTTACACTG-GCACATATATCATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAGCACACATATCATCGCCG
* * *
31833538 ATGTCATGTCCCAGACATGGTCTTACACTGAAACATACAT-T-ATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTG-AGCACACATATCATCGCCG
* *
31833586 TTGCCACGTCCCAGACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
31833614 GAAATCTCAT
Statistics
Matches: 235, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
47 2 0.01
48 226 0.96
49 2 0.01
50 5 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGAGCACACATATCATCGCCG
Found at i:31833558 original size:144 final size:143
Alignment explanation
Indices: 31833298--31833613 Score: 422
Period size: 144 Copynumber: 2.2 Consensus size: 143
31833288 TAAAGTACCA
* * *
31833298 ATGCCATGTCCCCGACATGGTCTTACA-TGAATCCACATATCATTGTCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTG-A-CCACATATCATCGTAGATGCCATGTCCCAGAC
* *
31833362 ATGGTCTTACACTAGCACATATATCATCACCGATGCCTTGTCCCAAACATGGTCTTACACT-AGC
64 ATGGTCTTACACTAGCACATATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACTGA-A
*
31833426 ACATATATCATCGCCG
128 ACATACATCATCGCCG
* *
31833442 ATGCCATGTCCTAGACATGGTCTTACACTG-GCACATATACCATCGTAGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGACCACATAT--CATCGTAGATGCCATGTCCCAGAC
* ** * *
31833506 ATGGTCTTACACTGGCACATATATCATTGCCGATGTCATGTCCCAGACATGGTCTTACACTGAAA
64 ATGGTCTTACACTAGCACATATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACTGAAA
*
31833571 CATACATTATCGCCG
129 CATACATCATCGCCG
* *
31833586 TTGCCACGTCCCAGACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
31833614 GAAATCTCAT
Statistics
Matches: 151, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
142 7 0.05
144 141 0.93
145 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (143 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACCACATATCATCGTAGATGCCATGTCCCAGACAT
GGTCTTACACTAGCACATATATCATCACCGATGCCATGTCCCAAACATGGTCTTACACTGAAACA
TACATCATCGCCG
Found at i:31835100 original size:28 final size:29
Alignment explanation
Indices: 31835069--31835123 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
31835059 GAATTTTAAG
*
31835069 AAGGG-CTAAATTGTAAAA-ATAATAAATT
1 AAGGGACTAAAATGTAAAATA-AATAAATT
31835097 AAGGGACTAAAATGTAAAATAAATAAA
1 AAGGGACTAAAATGTAAAATAAATAAA
31835124 ATGTATGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 5 0.21
29 18 0.75
30 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.15, T:0.24
Consensus pattern (29 bp):
AAGGGACTAAAATGTAAAATAAATAAATT
Done.