Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 140 of 311
Found at i:47385633 original size:30 final size:30
Alignment explanation
Indices: 47385599--47385658 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47385589 ATTTAATACG
47385599 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47385629 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47385659 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47394724 original size:25 final size:26
Alignment explanation
Indices: 47394683--47394733 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
47394673 AGTTGTAGAG
*
47394683 AGAAAATTCTCTAAAGAGATTATTCT
1 AGAAAATTCTCTAAAGACATTATTCT
*
47394709 AGAAAATT-TCTAAAGACATTTTTCT
1 AGAAAATTCTCTAAAGACATTATTCT
47394734 GATTTACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGACATTATTCT
Found at i:47407091 original size:42 final size:42
Alignment explanation
Indices: 47407045--47407129 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
47407035 CTCATCTAAG
*
47407045 ACTAATGACATGATGTATTGTTGTGAGACTAACTTGATGACT
1 ACTAATGACATGATGTATTGTTGTAAGACTAACTTGATGACT
*
47407087 ACTAATGACATGATGTATTGTTGTAAGACTAACTTGCTGACT
1 ACTAATGACATGATGTATTGTTGTAAGACTAACTTGATGACT
47407129 A
1 A
47407130 AGTGTATTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (42 bp):
ACTAATGACATGATGTATTGTTGTAAGACTAACTTGATGACT
Found at i:47408292 original size:20 final size:20
Alignment explanation
Indices: 47408243--47408295 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
47408233 ACAGGTGGGA
*
47408243 CACACGGGCATGTCCCTAAG
1 CACACGGGCGTGTCCCTAAG
*
47408263 TACACGGGCGTGTCCCTAAG
1 CACACGGGCGTGTCCCTAAG
47408283 CACACGGGCGTGT
1 CACACGGGCGTGT
47408296 GCTTCGCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.17
Consensus pattern (20 bp):
CACACGGGCGTGTCCCTAAG
Found at i:47409699 original size:49 final size:47
Alignment explanation
Indices: 47409642--47409763 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 47
47409632 TGTGTCAGTA
* * *
47409642 TAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGAT-AGTCAGCG
1 TAAGACCATGTCTGGGACATGGCATC-GACTCGA--TCGATGAGCCAGCG
* * *
47409691 TAAGACCATGTTTGGGACATGGCATCGACTTGATGGATGAGCCAGCG
1 TAAGACCATGTCTGGGACATGGCATCGACTCGATCGATGAGCCAGCG
* *
47409738 TAAGGCCATGTCTGAGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
47409764 AGCATTACAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 4 0.06
47 30 0.48
48 5 0.08
49 24 0.38
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGACTCGATCGATGAGCCAGCG
Found at i:47416372 original size:26 final size:26
Alignment explanation
Indices: 47416343--47416424 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
47416333 GATAAAAAAT
*
47416343 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47416369 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47416395 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47416421 TGAT
1 TGAT
47416425 GGAAATTTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:47418080 original size:27 final size:27
Alignment explanation
Indices: 47418031--47418168 Score: 174
Period size: 27 Copynumber: 5.1 Consensus size: 27
47418021 AGGAAGCGTC
47418031 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTATGCCACATA-TATCTGAT
* * *
47418058 CTGGTGGCTCTGCAACATATATCTGTT
1 CTGGTGGCTATGCCACATATATCTGAT
47418085 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTATGCCAC-ATATATCTGAT
* *
47418112 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACATATATCTGAT
*
47418139 CTGGTGGCTTTGCCACA-ATATCTGTAT
1 CTGGTGGCTATGCCACATATATCTG-AT
47418166 CTG
1 CTG
47418169 ATGACTTCGT
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
26 9 0.09
27 85 0.88
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTATGCCACATATATCTGAT
Found at i:47418113 original size:54 final size:53
Alignment explanation
Indices: 47418031--47418168 Score: 222
Period size: 54 Copynumber: 2.5 Consensus size: 53
47418021 AGGAAGCGTC
47418031 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCAACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCAACATATATCTGTT
*
47418085 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCAACATATATCTGTT
* *
47418139 CTGGTGGCTTTGCCACAATATCTGTATCTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTG
47418169 ATGACTTCGT
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 72 0.91
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCAACATATATCTGTT
Found at i:47418182 original size:27 final size:26
Alignment explanation
Indices: 47418123--47418189 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
47418113 TGGTGGCTCT
* * *
47418123 GCCACATATATCTGTTCTGGTGGCTTT
1 GCCACA-ATATCTGTTCTGATGACTTC
47418150 GCCACAATATCTGTATCTGATGACTTC
1 GCCACAATATCTGT-TCTGATGACTTC
*
47418177 GTCACAATATCTG
1 GCCACAATATCTG
47418190 GCAGCTTCGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 8 0.23
27 27 0.77
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (26 bp):
GCCACAATATCTGTTCTGATGACTTC
Found at i:47419659 original size:33 final size:33
Alignment explanation
Indices: 47419622--47419687 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
47419612 ATGTTTCCAA
47419622 GGCTTCTTAGGACTTCTACACGCCACGTTCTAT
1 GGCTTCTTAGGACTTCTACACGCCACGTTCTAT
47419655 GGCTTCTTAGGACTTCTACACGCCACGTTCTAT
1 GGCTTCTTAGGACTTCTACACGCCACGTTCTAT
47419688 CTTTTCTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.33
Consensus pattern (33 bp):
GGCTTCTTAGGACTTCTACACGCCACGTTCTAT
Found at i:47422709 original size:3 final size:3
Alignment explanation
Indices: 47422701--47422748 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
47422691 TGAATGACCT
47422701 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47422749 AATTTTGTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:47423486 original size:13 final size:13
Alignment explanation
Indices: 47423468--47423504 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
47423458 TTTGGATTGT
*
47423468 AAAGCACTTTTTA
1 AAAGCACTTTTCA
47423481 AAAGCACTTTTCA
1 AAAGCACTTTTCA
47423494 AAAGCACTTTT
1 AAAGCACTTTT
47423505 AACTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (13 bp):
AAAGCACTTTTCA
Found at i:47431778 original size:43 final size:43
Alignment explanation
Indices: 47431730--47431908 Score: 148
Period size: 43 Copynumber: 4.2 Consensus size: 43
47431720 AAAACTTGGT
* * *
47431730 GGCGTTTATTTAAAAAATGCCGCTAAAAGCCAT-GACTTTTAGC
1 GGCGTTTATTAAAAAAACGCCGCTAAAAGTCATAG-CTTTTAGC
* * *
47431773 GGCGTTTGA--AAAAAAAGCGCCGCTAAAAGTTATAGTTTTTAGT
1 GGCGTTT-ATTAAAAAAA-CGCCGCTAAAAGTCATAGCTTTTAGC
* * *
47431816 GGCGTTTGTTGAAAAAGCGCCGCTAAAAGTCATAGCTTTTAGC
1 GGCGTTTATTAAAAAAACGCCGCTAAAAGTCATAGCTTTTAGC
* *** * * * *
47431859 GGCGTTTGTTGGGAAAGCGTCGCTAAAAGACATGGCTTTTAGC
1 GGCGTTTATTAAAAAAACGCCGCTAAAAGTCATAGCTTTTAGC
*
47431902 AGCGTTT
1 GGCGTTT
47431909 TTCCCACAAA
Statistics
Matches: 113, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
42 6 0.05
43 100 0.88
44 7 0.06
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (43 bp):
GGCGTTTATTAAAAAAACGCCGCTAAAAGTCATAGCTTTTAGC
Found at i:47431899 original size:86 final size:86
Alignment explanation
Indices: 47431728--47431900 Score: 195
Period size: 86 Copynumber: 2.0 Consensus size: 86
47431718 GCAAAACTTG
* *
47431728 GTGGCGTTTATTTAAAAAATGCCGCTAAAAGCCATGACTTTTAGCGGCGTTTGAAAAAAAAGCGC
1 GTGGCGTTTATTGAAAAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGTTTGAAAAAAAAGCGC
** *
47431793 CGCTAAAAGTTATAGTTTTTA
66 CGCTAAAAGACATAGCTTTTA
* * * *****
47431814 GTGGCGTTTGTTGAAAAAGCGCCGCTAAAAGTCAT-AGCTTTTAGCGGCGTTTGTTGGGAAAGCG
1 GTGGCGTTTATTGAAAAAACGCCGCTAAAAGCCATGA-CTTTTAGCGGCGTTTGAAAAAAAAGCG
* *
47431878 TCGCTAAAAGACATGGCTTTTA
65 CCGCTAAAAGACATAGCTTTTA
47431900 G
1 G
47431901 CAGCGTTTTT
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
85 1 0.01
86 70 0.99
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (86 bp):
GTGGCGTTTATTGAAAAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGTTTGAAAAAAAAGCGC
CGCTAAAAGACATAGCTTTTA
Found at i:47431926 original size:43 final size:43
Alignment explanation
Indices: 47431785--47431927 Score: 110
Period size: 43 Copynumber: 3.3 Consensus size: 43
47431775 CGTTTGAAAA
** * ** **
47431785 AAAAGCGCCGCTAAAAGTTATAGTTTTTAGTGGCGTTTGTT-GA
1 AAAA-CGCCGCTAAAAGACATAGCTTTTAGCAGCGTTTGTTCCC
* * ***
47431828 AAAAGCGCCGCTAAAAGTCATAGCTTTTAGCGGCGTTTGTTGGG
1 AAAA-CGCCGCTAAAAGACATAGCTTTTAGCAGCGTTTGTTCCC
* * *
47431872 AAAGCGTCGCTAAAAGACATGGCTTTTAGCAGCGTTT-TTCCC
1 AAAACGCCGCTAAAAGACATAGCTTTTAGCAGCGTTTGTTCCC
47431914 ACAAACGCCGCTAA
1 A-AAACGCCGCTAA
47431928 TTTTGGCAGA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 3 0.04
43 77 0.92
44 4 0.05
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
AAAACGCCGCTAAAAGACATAGCTTTTAGCAGCGTTTGTTCCC
Found at i:47432040 original size:31 final size:32
Alignment explanation
Indices: 47431999--47432061 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
47431989 ACCAATCCAA
*
47431999 CAAATATAGCAT-AAAATACAGCCAAAAACAG
1 CAAATATAGCATAAAAATACAACCAAAAACAG
*
47432030 CAAATTTAGCATAAAAAATACAACCAAAAACA
1 CAAATATAGCAT-AAAAATACAACCAAAAACA
47432062 TTAATTCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 11 0.39
33 17 0.61
ACGTcount: A:0.60, C:0.19, G:0.06, T:0.14
Consensus pattern (32 bp):
CAAATATAGCATAAAAATACAACCAAAAACAG
Found at i:47432320 original size:21 final size:21
Alignment explanation
Indices: 47432296--47432352 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
47432286 ACTGCCATCG
*
47432296 CTGCTGCCTCTGCCTCCCTCA
1 CTGCTGCCGCTGCCTCCCTCA
* *
47432317 CTGCTACCGCTGCCTCCCTCG
1 CTGCTGCCGCTGCCTCCCTCA
47432338 CTGCTGCCGCTGCCT
1 CTGCTGCCGCTGCCT
47432353 AAGTTGTTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.04, C:0.51, G:0.19, T:0.26
Consensus pattern (21 bp):
CTGCTGCCGCTGCCTCCCTCA
Found at i:47438013 original size:9 final size:9
Alignment explanation
Indices: 47437999--47438272 Score: 207
Period size: 9 Copynumber: 30.0 Consensus size: 9
47437989 TATATATATC
47437999 TAAGTTATG
1 TAAGTTATG
47438008 TAAGTTATG
1 TAAGTTATG
47438017 TAAGTTATG
1 TAAGTTATG
*
47438026 TAAATTATG
1 TAAGTTATG
* *
47438035 ATATAAAATATATT
1 ---T-AAGT-TATG
47438049 TAAGTATTATG
1 TAAG--TTATG
47438060 TAAGTTATG
1 TAAGTTATG
47438069 TAAGTTATG
1 TAAGTTATG
* * *
47438078 ATATGATATA
1 -TAAGTTATG
*
47438088 T-ATTTATG
1 TAAGTTATG
*
47438096 TAAGTTATA
1 TAAGTTATG
47438105 T-A-TATATG
1 TAAGT-TATG
*
47438113 TAAGTTATA
1 TAAGTTATG
47438122 TAAGTTATG
1 TAAGTTATG
47438131 TAAGTTATG
1 TAAGTTATG
**
47438140 TAAGTTACA
1 TAAGTTATG
* *
47438149 T-ATTTATC
1 TAAGTTATG
*
47438157 TAAGTTATA
1 TAAGTTATG
*
47438166 TAAGTTATA
1 TAAGTTATG
47438175 TAAGTTATG
1 TAAGTTATG
* *
47438184 TATGTTATA
1 TAAGTTATG
47438193 TAAGTTATG
1 TAAGTTATG
*
47438202 TAAGTTATA
1 TAAGTTATG
*
47438211 TAAGTTATA
1 TAAGTTATG
* *
47438220 T-ATTTATC
1 TAAGTTATG
**
47438228 TAAGTTACA
1 TAAGTTATG
47438237 TAAGTTATG
1 TAAGTTATG
*
47438246 TAAGTTTTG
1 TAAGTTATG
47438255 TAAGTTATG
1 TAAGTTATG
*
47438264 TAAATTATG
1 TAAGTTATG
47438273 ATATCAAATA
Statistics
Matches: 212, Mismatches: 39, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
7 1 0.00
8 20 0.09
9 165 0.78
10 9 0.04
11 8 0.04
12 2 0.01
13 4 0.02
14 3 0.01
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:47438060 original size:43 final size:43
Alignment explanation
Indices: 47438012--47438093 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
47438002 GTTATGTAAG
47438012 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTA
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTA
* * *
47438055 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTA
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTA
47438094 TGTAAGTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.46
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTA
Found at i:47438137 original size:71 final size:70
Alignment explanation
Indices: 47438055--47438272 Score: 251
Period size: 71 Copynumber: 3.1 Consensus size: 70
47438045 TATTTAAGTA
* *
47438055 TTATGTAAGTTATGTAAGTTATGATATGATATAT-ATTTATGTAAGTTATATATA-TATGTAAGT
1 TTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTATATAAGTTATATA-AGTATGTAAGT
47438118 TATATAAG
63 TATATAAG
* * * *
47438126 TTATGTAAGTTATGTAAGTTACATATTTATCTAAGTTATATAAGTTATATAAGTTATGTATGTTA
1 TTATGTAAGTTATGTAAGTTATATATATATATAAGTTATATAAGTTATATAAG-TATGTAAGTTA
47438191 TATAAG
65 TATAAG
* * * * * *
47438197 TTATGTAAGTTATATAAGTTATATATTTATCTAAGTTACATAAGTTATGTAAGTTTTGTAAGTTA
1 TTATGTAAGTTATGTAAGTTATATATATATATAAGTTATATAAGTTATATAAG-TATGTAAGTTA
* *
47438262 TGTAAA
65 TATAAG
47438268 TTATG
1 TTATG
47438273 ATATCAAATA
Statistics
Matches: 130, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
69 5 0.04
70 20 0.15
71 105 0.81
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.47
Consensus pattern (70 bp):
TTATGTAAGTTATGTAAGTTATATATATATATAAGTTATATAAGTTATATAAGTATGTAAGTTAT
ATAAG
Found at i:47438139 original size:44 final size:44
Alignment explanation
Indices: 47438060--47438272 Score: 216
Period size: 44 Copynumber: 4.8 Consensus size: 44
47438050 AAGTATTATG
* * * *
47438060 TAAGTTATGTAAGTTATGATATGATATAT-ATTTATGTAAGTTATA
1 TAAG-TATGTAAGTTAT-ATAAGTTATATAAGTTATGTAAGTTACA
*
47438105 TATA-TATGTAAGTTATATAAGTTATGTAAGTTATGTAAGTTACA
1 TA-AGTATGTAAGTTATATAAGTTATATAAGTTATGTAAGTTACA
** * * *
47438149 TATTTATCTAAGTTATATAAGTTATATAAGTTATGTATGTTATA
1 TAAGTATGTAAGTTATATAAGTTATATAAGTTATGTAAGTTACA
* *
47438193 TAAGTTATGTAAGTTATATAAGTTATAT-ATTTATCTAAGTTACA
1 TAAG-TATGTAAGTTATATAAGTTATATAAGTTATGTAAGTTACA
* * * *
47438237 TAAGTTATGTAAGTTTTGTAAGTTATGTAAATTATG
1 TAAG-TATGTAAGTTATATAAGTTATATAAGTTATG
47438273 ATATCAAATA
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
43 8 0.06
44 103 0.73
45 29 0.21
46 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (44 bp):
TAAGTATGTAAGTTATATAAGTTATATAAGTTATGTAAGTTACA
Found at i:47438397 original size:15 final size:15
Alignment explanation
Indices: 47438377--47438461 Score: 81
Period size: 15 Copynumber: 5.8 Consensus size: 15
47438367 AAGTTGCGGG
47438377 ATTAAATAATATTTA
1 ATTAAATAATATTTA
47438392 ATTAAATAATATTT-
1 ATTAAATAATATTTA
47438406 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
47438421 ATTAAATAATATTGA
1 ATTAAATAATATTTA
**
47438436 A--AAATTTTATTTTA
1 ATTAAATAATA-TTTA
47438450 ATTAAATAATAT
1 ATTAAATAATAT
47438462 ACATGTCGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
12 2 0.04
13 12 0.21
14 8 0.14
15 20 0.36
16 12 0.21
17 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:47438425 original size:29 final size:29
Alignment explanation
Indices: 47438380--47438461 Score: 114
Period size: 29 Copynumber: 2.9 Consensus size: 29
47438370 TTGCGGGATT
* *
47438380 AAATAATA-TTTAATTAAATAATATTTATA
1 AAATATTATTTTAATTAAATAATATTGA-A
47438409 AAA-ATTATTTTAATTAAATAATATTGAA
1 AAATATTATTTTAATTAAATAATATTGAA
*
47438437 AAATTTTATTTTAATTAAATAATAT
1 AAATATTATTTTAATTAAATAATAT
47438462 ACATGTCGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
28 7 0.15
29 41 0.85
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (29 bp):
AAATATTATTTTAATTAAATAATATTGAA
Found at i:47438807 original size:64 final size:64
Alignment explanation
Indices: 47438705--47438838 Score: 241
Period size: 64 Copynumber: 2.1 Consensus size: 64
47438695 ATATTTTATT
* *
47438705 AAATATTTGCATATTAGATGGGACATATTATATTAATAAATAAATTTATTAAAACTCGTGATAG
1 AAATATTTGCATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
*
47438769 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGCATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
47438833 AAATAT
1 AAATAT
47438839 AGAAATATTA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (64 bp):
AAATATTTGCATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
Found at i:47441299 original size:46 final size:46
Alignment explanation
Indices: 47441249--47441421 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
47441239 TGGTTGAGCA
*
47441249 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
47441295 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
47441342 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
47441388 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
47441422 GGGACGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.07
46 56 0.53
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:47441405 original size:93 final size:93
Alignment explanation
Indices: 47441246--47441416 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
47441236 GGATGGTTGA
* *
47441246 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCATTGAGT
47441311 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
47441339 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCATTGAG
47441403 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
47441417 ACTTAGGGAC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47444206 original size:18 final size:17
Alignment explanation
Indices: 47444183--47444217 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
47444173 TTAAATTATT
47444183 TAATATATAAATAAAAAA
1 TAATATA-AAATAAAAAA
*
47444201 TAATATAAATTAAAAAA
1 TAATATAAAATAAAAAA
47444218 ATAAGTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAATATAAAATAAAAAA
Found at i:47444351 original size:16 final size:16
Alignment explanation
Indices: 47444330--47444383 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
47444320 AGAGCTGCAT
47444330 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
47444346 AAAA-TT---A--TTG
1 AAAATTTGAAATCTTG
47444356 AAAATTTGAAATCATT-
1 AAAATTTGAAATC-TTG
47444372 AAAATTTGAAAT
1 AAAATTTGAAAT
47444384 TATGTAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 14
0.69 0.00 0.31
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
12 1 0.03
14 1 0.03
15 2 0.06
16 16 0.52
17 2 0.06
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Found at i:47444588 original size:7 final size:7
Alignment explanation
Indices: 47444576--47444668 Score: 51
Period size: 7 Copynumber: 12.9 Consensus size: 7
47444566 AATTTGAACA
47444576 CTAAACC
1 CTAAACC
47444583 CTAAACC
1 CTAAACC
* ***
47444590 ATGTCCC
1 CTAAACC
*
47444597 CTTAACCC
1 CTAAAC-C
47444605 CTAAACCC
1 CTAAA-CC
*
47444613 CTCAACC
1 CTAAACC
*
47444620 TTAAACC
1 CTAAACC
*
47444627 ATAAACC
1 CTAAACC
*
47444634 CTTAATCC
1 C-TAAACC
*
47444642 CTAAACT
1 CTAAACC
* *
47444649 TTAAACA
1 CTAAACC
47444656 CTAAACC
1 CTAAACC
47444663 CTAAAC
1 CTAAAC
47444669 TATATCCCTT
Statistics
Matches: 62, Mismatches: 21, Indels: 6
0.70 0.24 0.07
Matches are distributed among these distances:
7 45 0.73
8 16 0.26
9 1 0.02
ACGTcount: A:0.39, C:0.39, G:0.01, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:47444601 original size:80 final size:80
Alignment explanation
Indices: 47444495--47444686 Score: 285
Period size: 80 Copynumber: 2.4 Consensus size: 80
47444485 CACTATTATC
* *
47444495 CTAAACCCTTAACCCATGTCCCCTTAACCCCTAAACCCCTCAACCCTAAACCATTAACCCTTAAT
1 CTAAACCC-TAAACCATGTCCCCTTAACCCCTAAACCCCTCAACCCTAAACCATAAACCCTTAAT
** *
47444560 CTTTAAAATTTGAACA
65 CCCTAAAATTTAAACA
*
47444576 CTAAACCCTAAACCATGTCCCCTTAACCCCTAAACCCCTCAACCTTAAACCATAAACCCTTAATC
1 CTAAACCCTAAACCATGTCCCCTTAACCCCTAAACCCCTCAACCCTAAACCATAAACCCTTAATC
*
47444641 CCTAAACTTTAAACA
66 CCTAAAATTTAAACA
* * *
47444656 CTAAACCCTAAACTATATCCCTTTAACCCCT
1 CTAAACCCTAAACCATGTCCCCTTAACCCCT
47444687 TAACTCTTAA
Statistics
Matches: 101, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 93 0.92
81 8 0.08
ACGTcount: A:0.35, C:0.38, G:0.02, T:0.25
Consensus pattern (80 bp):
CTAAACCCTAAACCATGTCCCCTTAACCCCTAAACCCCTCAACCCTAAACCATAAACCCTTAATC
CCTAAAATTTAAACA
Found at i:47444635 original size:29 final size:29
Alignment explanation
Indices: 47444603--47444668 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
47444593 TCCCCTTAAC
*
47444603 CCCTAAACCCCTCAACCTTAAAC-CATAAA
1 CCCTAAACCCCTAAACCTTAAACAC-TAAA
* * *
47444632 CCCTTAATCCCTAAACTTTAAACACTAAA
1 CCCTAAACCCCTAAACCTTAAACACTAAA
47444661 CCCTAAAC
1 CCCTAAAC
47444669 TATATCCCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (29 bp):
CCCTAAACCCCTAAACCTTAAACACTAAA
Found at i:47444788 original size:7 final size:7
Alignment explanation
Indices: 47444776--47444811 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
47444766 TTAGCCCTTG
47444776 AACCATA
1 AACCATA
47444783 AACCATA
1 AACCATA
47444790 AACCATA
1 AACCATA
47444797 AACCATA
1 AACCATA
47444804 AACCATA
1 AACCATA
47444811 A
1 A
47444812 TCCCTAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.58, C:0.28, G:0.00, T:0.14
Consensus pattern (7 bp):
AACCATA
Found at i:47444819 original size:14 final size:14
Alignment explanation
Indices: 47444776--47444819 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
47444766 TTAGCCCTTG
*
47444776 AACCATAAACCATA
1 AACCATAAACCCTA
*
47444790 AACCATAAACCATA
1 AACCATAAACCCTA
*
47444804 AACCATAATCCCTA
1 AACCATAAACCCTA
47444818 AA
1 AA
47444820 TCCACAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.16
Consensus pattern (14 bp):
AACCATAAACCCTA
Found at i:47444819 original size:21 final size:21
Alignment explanation
Indices: 47444776--47444872 Score: 76
Period size: 21 Copynumber: 4.7 Consensus size: 21
47444766 TTAGCCCTTG
*
47444776 AACCATAAACCATAAACCATA
1 AACCATAAACCATAATCCATA
*
47444797 AACCATAAACCATAATCCCTA
1 AACCATAAACCATAATCCATA
* * * *
47444818 AATCCACAATCAATTATCCATA
1 AA-CCATAAACCATAATCCATA
*
47444840 AACCTTAAA--ATAAT--ATTA
1 AACCATAAACCATAATCCA-TA
*
47444858 ACCCATAAACCATAA
1 AACCATAAACCATAA
47444873 ACCCCTAAAC
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
17 1 0.02
18 9 0.15
19 4 0.07
20 4 0.07
21 25 0.42
22 16 0.27
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCATAAACCATAATCCATA
Found at i:47444922 original size:74 final size:75
Alignment explanation
Indices: 47444785--47444925 Score: 200
Period size: 74 Copynumber: 1.9 Consensus size: 75
47444775 GAACCATAAA
*
47444785 CCATAAACCATAAACCATAAACCATAATCCCTAAATCCACAATCAATTATCCATAAACCTTAAAA
1 CCATAAACCATAAACCATAAACCATAATCCCTAAATCCACAATCAATAATCCATAAACCTTAAAA
47444850 TAATATTAAC
66 TAATATTAAC
* *
47444860 CCATAAACCATAAACCCCTAAACCCATAATCCCTAGA-CC-C-ATGC-ATAATCCATAAACCTTA
1 CCATAAACCATAAA-CCATAAA-CCATAATCCCTAAATCCACAAT-CAATAATCCATAAACCTTA
47444921 AAATA
63 AAATA
47444926 TTAACTCGTC
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
74 23 0.38
75 16 0.27
76 8 0.13
77 13 0.22
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (75 bp):
CCATAAACCATAAACCATAAACCATAATCCCTAAATCCACAATCAATAATCCATAAACCTTAAAA
TAATATTAAC
Found at i:47444939 original size:74 final size:74
Alignment explanation
Indices: 47444785--47444956 Score: 194
Period size: 74 Copynumber: 2.3 Consensus size: 74
47444775 GAACCATAAA
*
47444785 CCATAAACCATAAACCATAAACCATAATCCCTAAATCCACAATCAATTATCCATAAACCTTAAAA
1 CCATAAACCATAAACCATAAACCATAATCCCTAAATCCACAATCAATAATCCATAAACCTT-AAA
47444850 TAATATTAAC
65 TAATATTAAC
* *
47444860 CCATAAACCATAAACCCCTAAACCCATAATCCCTAGA-CC-C-ATGC-ATAATCCATAAACCTT-
1 CCATAAACCATAAA-CCATAAA-CCATAATCCCTAAATCCACAAT-CAATAATCCATAAACCTTA
47444920 AA-AATATTAAC
63 AATAATATTAAC
* *
47444931 TCGTCATAATCCATAAATCATAAACC
1 -C--CATAAACCATAAACCATAAACC
47444957 CTAAACCATA
Statistics
Matches: 85, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
71 9 0.11
72 5 0.06
73 5 0.06
74 29 0.34
75 16 0.19
76 8 0.09
77 13 0.15
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.23
Consensus pattern (74 bp):
CCATAAACCATAAACCATAAACCATAATCCCTAAATCCACAATCAATAATCCATAAACCTTAAAT
AATATTAAC
Found at i:47445907 original size:40 final size:41
Alignment explanation
Indices: 47445776--47445916 Score: 194
Period size: 41 Copynumber: 3.4 Consensus size: 41
47445766 AATAGTTTAG
*
47445776 ATCTATAGCGGCGTTTTTCCAAAAAGCGCCACTAAAACTCAA
1 ATCTATAGCGGCGTTTTT-TAAAAAGCGCCACTAAAACTCAA
* *
47445818 ATCTATTGCGGCGTTTTTTGAAAAGCGCCACTAAAACTCAA
1 ATCTATAGCGGCGTTTTTTAAAAAGCGCCACTAAAACTCAA
* ** * *
47445859 ATCCATAGCGATGTTTTTTAAAAAGCGCCGCTAATACTC-A
1 ATCTATAGCGGCGTTTTTTAAAAAGCGCCACTAAAACTCAA
47445899 ATCTATAGCGGCGTTTTT
1 ATCTATAGCGGCGTTTTT
47445917 GAGGAAGCGC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 16 0.19
41 53 0.62
42 17 0.20
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (41 bp):
ATCTATAGCGGCGTTTTTTAAAAAGCGCCACTAAAACTCAA
Found at i:47450135 original size:13 final size:14
Alignment explanation
Indices: 47450112--47450142 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
47450102 TCTAAAAATA
47450112 TAAAAATATATTTT
1 TAAAAATATATTTT
47450126 TAAAAA-ATATTTT
1 TAAAAATATATTTT
47450139 TAAA
1 TAAA
47450143 TATTCCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAAAATATATTTT
Found at i:47451129 original size:23 final size:23
Alignment explanation
Indices: 47451097--47451150 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
47451087 ATATTTAGTT
*
47451097 TAAAAA-AATTAAATAA-CTAAA
1 TAAAAATAATTAAATAACCAAAA
*
47451118 TAAATAATAATTAAGTAACCAAAA
1 TAAA-AATAATTAAATAACCAAAA
47451142 TAAAAATAA
1 TAAAAATAA
47451151 AGACATAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.14
22 2 0.07
23 14 0.50
24 8 0.29
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (23 bp):
TAAAAATAATTAAATAACCAAAA
Found at i:47461418 original size:41 final size:41
Alignment explanation
Indices: 47461361--47461448 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
47461351 TACCTGGTAC
* * * * *
47461361 AATACATTGGCACGAAGATTGCCAGGCTCAAAGCCTGATAT
1 AATACAGTGGCACGAAGACTACCAGGCACAAAGCCTAATAT
* * *
47461402 AATACAGTGGTACGAAGCCTACTAGGCACAAAGCCTAATAT
1 AATACAGTGGCACGAAGACTACCAGGCACAAAGCCTAATAT
47461443 AATACA
1 AATACA
47461449 CCGGAATGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (41 bp):
AATACAGTGGCACGAAGACTACCAGGCACAAAGCCTAATAT
Found at i:47461460 original size:41 final size:41
Alignment explanation
Indices: 47461384--47461518 Score: 135
Period size: 41 Copynumber: 3.3 Consensus size: 41
47461374 GAAGATTGCC
* ** *
47461384 AGGCTCAAAGCCTGATATAATACAGTGGTACGAAGCCTACT
1 AGGCACAAAGCCTGATATAATACACCGGAACGAAGCCTACT
* *
47461425 AGGCACAAAGCCTAATATAATACACCGGAATGAAGCCTACT
1 AGGCACAAAGCCTGATATAATACACCGGAACGAAGCCTACT
** ** * * * *
47461466 AAACACAAAGTTTGATATAATACACCGGCACAAAGCTTGCT
1 AGGCACAAAGCCTGATATAATACACCGGAACGAAGCCTACT
*
47461507 AGGCACAGAGCC
1 AGGCACAAAGCC
47461519 CGAGTATCAC
Statistics
Matches: 73, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (41 bp):
AGGCACAAAGCCTGATATAATACACCGGAACGAAGCCTACT
Found at i:47461547 original size:38 final size:38
Alignment explanation
Indices: 47461484--47461638 Score: 186
Period size: 38 Copynumber: 4.1 Consensus size: 38
47461474 AGTTTGATAT
* * *
47461484 AATA-CACCGGCACAAAGCTTGCTAGGCACAGAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCA
* ** * *
47461521 AGTATCACCAACACAAAGCCTACTAGGTACAAAGCCCA
1 AATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCA
* * *
47461559 AATATCACCGGCACGAAGCCTGCTAGGCAGAGAGCCCA
1 AATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCA
* *
47461597 AATATCACCGGCATAAAGCCTGCTAGACACAAAGCCCA
1 AATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCA
47461635 AATA
1 AATA
47461639 ACGTTACGTT
Statistics
Matches: 96, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
37 3 0.03
38 93 0.97
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.12
Consensus pattern (38 bp):
AATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCA
Found at i:47466437 original size:25 final size:25
Alignment explanation
Indices: 47466406--47466489 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 25
47466396 ATAATATTAT
47466406 TTTAATAGTTTAATATTAAATTTAA
1 TTTAATAGTTTAATATTAAATTTAA
* *
47466431 TTTAATA-CTT-ATCTTAATAATTT--
1 TTTAATAGTTTAATATT-A-AATTTAA
* *
47466454 TTTAATTGTTTAATATTAAATTAAA
1 TTTAATAGTTTAATATTAAATTTAA
47466479 TTTAAT-GTTTA
1 TTTAATAGTTTA
47466490 TCTATTAGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
23 14 0.30
24 11 0.23
25 22 0.47
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTAATAGTTTAATATTAAATTTAA
Found at i:47467140 original size:68 final size:68
Alignment explanation
Indices: 47466994--47467254 Score: 253
Period size: 68 Copynumber: 3.8 Consensus size: 68
47466984 ATAGCTCAAC
* * * *
47466994 TATAGTCTTACACAATATGATGTCATGTTTTACTGTCCTGACGAACTTCATATGTTACAATAACC
1 TATAGTCTTACACAATATGATGCCATG-TTTACTGTTCTGACGGACTTCATATGTTGCAATAACC
*
47467059 CAGC
65 CAGA
* * * * * * ** *
47467063 TGTGGTCTTACATAATATGATACCATGTTTATTGTTCTGATGGACTTCATATGTTGTTATAGCCC
1 TATAGTCTTACACAATATGATGCCATGTTTACTGTTCTGACGGACTTCATATGTTGCAATAACCC
47467128 AGA
66 AGA
47467131 TATAGTCTTACACAATATGATGCCATGTTTACTG-TCTTGACGGACTTCATATGTTGGC-ATAAC
1 TATAGTCTTACACAATATGATGCCATGTTTACTGTTC-TGACGGACTTCATATGTT-GCAATAAC
47467194 CCA-A
64 CCAGA
* * ** * *
47467198 CTAT-GATATTGCACAATATGATATCATGTTTACTG-TCTTGGCGGACTTCATAGGTTG
1 -TATAG-TCTTACACAATATGATGCCATGTTTACTGTTC-TGACGGACTTCATATGTTG
47467255 TCGTAGTCTA
Statistics
Matches: 160, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
67 5 0.03
68 132 0.82
69 23 0.14
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.37
Consensus pattern (68 bp):
TATAGTCTTACACAATATGATGCCATGTTTACTGTTCTGACGGACTTCATATGTTGCAATAACCC
AGA
Found at i:47467229 original size:136 final size:136
Alignment explanation
Indices: 47466981--47467296 Score: 368
Period size: 136 Copynumber: 2.3 Consensus size: 136
47466971 TTTTCCAACA
*
47466981 GTCATAGCTCA-ACTATAGTCTTACACAATATGATGTCATGTTTTACTGTCCTGACGAACTTCAT
1 GTCATAGCCCAGA-TATAGTCTTACACAATATGATGTCATG-TTTACTGTCCTGACGAACTTCAT
* * * * * * *
47467045 ATGTTACAATAACCCAGCTGTGGTCTTACATAATATGATACCATGTTTATTGT-TCTGATGGACT
64 ATGTTACAATAACCCAACTATGATATTACACAATATGATACCATGTTTACTGTCT-TGACGGACT
*
47467109 TCATATGTT
128 TCATAGGTT
* * * *
47467118 GTTATAGCCCAGATATAGTCTTACACAATATGATGCCATGTTTACTGTCTTGACGGACTTCATAT
1 GTCATAGCCCAGATATAGTCTTACACAATATGATGTCATGTTTACTGTCCTGACGAACTTCATAT
* * * *
47467183 GTTGGC-ATAACCCAACTATGATATTGCACAATATGATATCATGTTTACTGTCTTGGCGGACTTC
66 GTT-ACAATAACCCAACTATGATATTACACAATATGATACCATGTTTACTGTCTTGACGGACTTC
47467247 ATAGGTT
130 ATAGGTT
* * * * * *
47467254 GTCGTAGTCTAGCTATGGTCTTACACAGTATGATGTCATGTTT
1 GTCATAGCCCAGATATAGTCTTACACAATATGATGTCATGTTT
47467297 TCCCATAGAC
Statistics
Matches: 151, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
136 113 0.75
137 37 0.25
138 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (136 bp):
GTCATAGCCCAGATATAGTCTTACACAATATGATGTCATGTTTACTGTCCTGACGAACTTCATAT
GTTACAATAACCCAACTATGATATTACACAATATGATACCATGTTTACTGTCTTGACGGACTTCA
TAGGTT
Found at i:47467270 original size:68 final size:68
Alignment explanation
Indices: 47467001--47467296 Score: 231
Period size: 68 Copynumber: 4.3 Consensus size: 68
47466991 AACTATAGTC
* * * * * *
47467001 TTACACAATATGATGTCATGTTTTACTGTCCTGACGAACTTCATATGTT-ACAATAACCCAGCTG
1 TTACACAATATGATGTCATG-TTTACTGTCTTGACGGACTTCATAGGTTGGC-ATAACCCAACTA
* *
47467065 TGGTC
64 TGATA
* ** * * * ** *
47467070 TTACATAATATGATACCATGTTTATTGT-TCTGATGGACTTCATATGTTGTTATAGCCCAGA-TA
1 TTACACAATATGATGTCATGTTTACTGTCT-TGACGGACTTCATAGGTTGGCATAACCCA-ACTA
*
47467133 T-AGTC
64 TGA-TA
* *
47467138 TTACACAATATGATGCCATGTTTACTGTCTTGACGGACTTCATATGTTGGCATAACCCAACTATG
1 TTACACAATATGATGTCATGTTTACTGTCTTGACGGACTTCATAGGTTGGCATAACCCAACTATG
47467203 ATA
66 ATA
* * * * * ** * *
47467206 TTGCACAATATGATATCATGTTTACTGTCTTGGCGGACTTCATAGGTTGTCGTAGTCTAGCTATG
1 TTACACAATATGATGTCATGTTTACTGTCTTGACGGACTTCATAGGTTGGCATAACCCAACTATG
* *
47467271 GTC
66 ATA
*
47467274 TTACACAGTATGATGTCATGTTT
1 TTACACAATATGATGTCATGTTT
47467297 TCCCATAGAC
Statistics
Matches: 183, Mismatches: 37, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
67 1 0.01
68 163 0.89
69 19 0.10
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (68 bp):
TTACACAATATGATGTCATGTTTACTGTCTTGACGGACTTCATAGGTTGGCATAACCCAACTATG
ATA
Found at i:47469808 original size:31 final size:31
Alignment explanation
Indices: 47469773--47469842 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
47469763 TTTAGATCGG
47469773 ATTAAAATTTTAA-AATTTGAAAAACATAAAA
1 ATTAAAATTTTAAGAATTT-AAAAACATAAAA
*
47469804 ATTAAAA--TTAATGAATTTAAAAATATAAAA
1 ATTAAAATTTTAA-GAATTTAAAAACATAAAA
*
47469834 ACTAAAATT
1 ATTAAAATT
47469843 AAATAAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
29 4 0.12
30 17 0.52
31 12 0.36
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (31 bp):
ATTAAAATTTTAAGAATTTAAAAACATAAAA
Found at i:47469832 original size:30 final size:31
Alignment explanation
Indices: 47469786--47469844 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
47469776 AAAATTTTAA
*
47469786 AATTTGAAAAACATAAAAATTAAAATTAATG
1 AATTTGAAAAACATAAAAACTAAAATTAATG
*
47469817 AATTT-AAAAATATAAAAACTAAAATTAA
1 AATTTGAAAAACATAAAAACTAAAATTAA
47469845 ATAAATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (31 bp):
AATTTGAAAAACATAAAAACTAAAATTAATG
Found at i:47477249 original size:8 final size:9
Alignment explanation
Indices: 47477225--47477254 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
47477215 ATTCTGTACC
47477225 TTTAAAAAT
1 TTTAAAAAT
47477234 TTTAAAAAT
1 TTTAAAAAT
47477243 TTTAAAAAT
1 TTTAAAAAT
47477252 TTT
1 TTT
47477255 CAAACTGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:47492941 original size:27 final size:27
Alignment explanation
Indices: 47492899--47492950 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
47492889 GAAATGTGAA
*
47492899 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
47492926 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
47492951 GATTCAGCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:47492963 original size:103 final size:105
Alignment explanation
Indices: 47492613--47492984 Score: 642
Period size: 105 Copynumber: 3.6 Consensus size: 105
47492603 TTGTATATAA
** *
47492613 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
47492678 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
47492718 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
47492783 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
47492823 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
47492887 TTGAAATGTG-AAA-GGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
47492926 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
47492985 ATAACGGTTA
Statistics
Matches: 257, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
103 80 0.31
104 3 0.01
105 173 0.67
106 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:47499992 original size:44 final size:44
Alignment explanation
Indices: 47499903--47499997 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
47499893 AAAATGGATA
* * * *
47499903 ATAA-ATAAAATATTTTAAAATAAATAAATAGAGTTTAATATAT
1 ATAATATAAAACAATTTAAAATAAATAAATAGAGCTTAAAATAT
*
47499946 AT-ATATAAAACAATTTAAAATAAAATATAA-ATAGCTTAAAATAT
1 ATAATATAAAACAATTTAAAAT-AAATA-AATAGAGCTTAAAATAT
47499990 ATAATATA
1 ATAATATA
47499998 TAAAAGGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
42 1 0.02
43 17 0.40
44 18 0.42
45 7 0.16
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (44 bp):
ATAATATAAAACAATTTAAAATAAATAAATAGAGCTTAAAATAT
Found at i:47502340 original size:39 final size:39
Alignment explanation
Indices: 47502281--47502500 Score: 259
Period size: 39 Copynumber: 5.5 Consensus size: 39
47502271 ACCCAAGTAT
* * *
47502281 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGATATAGCAACTAGCACAAATGC
* **
47502320 CTTCGGGTCTTAGCCCGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGATATAG-CAACTAGCACAAATGC
47502359 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCC-GATATAG-CAACTAGCACAAATGC
*
47502399 CTTCGGGACTTAGCCCGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGATATAGCAACTA---GCACAAATGC
* *
47502441 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCC-GATATAGCAACTAGCACAAATGC
47502481 CTTC--GACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCC-GATAT
47502501 CATCCGAATA
Statistics
Matches: 161, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
38 17 0.11
39 56 0.35
40 52 0.32
42 26 0.16
43 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGATATAGCAACTAGCACAAATGC
Found at i:47502391 original size:40 final size:40
Alignment explanation
Indices: 47502281--47502500 Score: 283
Period size: 40 Copynumber: 5.5 Consensus size: 40
47502271 ACCCAAGTAT
* *
47502281 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
47502320 CTTCGGGTCTTAGCCC-GATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
47502359 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
47502399 CTTCGGGACTTAGCCCGG-TATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
47502441 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
47502481 CTTC--GACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
47502501 CATCCGAATA
Statistics
Matches: 162, Mismatches: 10, Indels: 19
0.85 0.05 0.10
Matches are distributed among these distances:
38 17 0.10
39 53 0.33
40 56 0.35
42 28 0.17
43 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:47502475 original size:82 final size:79
Alignment explanation
Indices: 47502281--47502496 Score: 287
Period size: 82 Copynumber: 2.7 Consensus size: 79
47502271 ACCCAAGTAT
* * * * *
47502281 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGATATAGTC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTC
**
47502345 ACTAGCATGAATGC
66 ACTAGCACAAATGC
*
47502359 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAG-C
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTC
47502423 AACTACTCGCACAAATGC
66 -ACTA---GCACAAATGC
*
47502441 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC--GACTTAGCCCGG
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
47502497 ATATCATCCG
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
78 13 0.11
79 48 0.39
80 12 0.10
82 50 0.41
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTC
ACTAGCACAAATGC
Found at i:47508608 original size:40 final size:40
Alignment explanation
Indices: 47508547--47508753 Score: 287
Period size: 40 Copynumber: 5.2 Consensus size: 40
47508537 CCTTTGGAAT
* *
47508547 TTAG-CCGGATATAACT-ACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGTAACTCGCACAAATGCCTTCGGGAC
*
47508586 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
47508626 TTAGCCCGGATATAGTAACTTGCCCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
47508666 TTAGCCCGGATATAGTAACTCGCACGAATGCCTTCAGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
47508705 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
47508745 TTAGCCCGG
1 TTAGCCCGG
47508754 TTATCATCCA
Statistics
Matches: 150, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 39 0.26
40 110 0.73
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:47513888 original size:40 final size:40
Alignment explanation
Indices: 47513810--47513993 Score: 221
Period size: 40 Copynumber: 4.5 Consensus size: 40
47513800 ACCCAAGTAT
* *
47513810 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* **
47513849 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
* *
47513889 CTTCGGGACTTAGCCTGGATATAGTC-ACTAGGACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
47513929 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
*
47513972 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
47513994 CATCCGAAGA
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
39 12 0.10
40 82 0.66
41 1 0.01
43 29 0.23
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:47516701 original size:44 final size:44
Alignment explanation
Indices: 47516653--47516797 Score: 134
Period size: 44 Copynumber: 3.3 Consensus size: 44
47516643 TCTCTATTGC
* * *
47516653 AATTTCAGGGAGAAGAGATTTGTATCTTCGATCCACTCCACTAG-
1 AATTTCAAGGAGAAGAGATTTGTATCTTCGATCAACTCCAAT-GT
* * ** * *
47516697 AATTTCAAGGAGATGAGAATTGTGGCTACGAACAACTCCAATGT
1 AATTTCAAGGAGAAGAGATTTGTATCTTCGATCAACTCCAATGT
* * *
47516741 AGTTTCAAGGAGAAGAGATTTGTAGT-TTCGATCTACTCCAATGGA
1 AATTTCAAGGAGAAGAGATTTGTA-TCTTCGATCAACTCCAAT-GT
47516786 AATTT-AAGGAGA
1 AATTTCAAGGAGA
47516798 TAAAAGCTGA
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
43 1 0.01
44 73 0.92
45 5 0.06
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (44 bp):
AATTTCAAGGAGAAGAGATTTGTATCTTCGATCAACTCCAATGT
Found at i:47517286 original size:132 final size:133
Alignment explanation
Indices: 47516910--47517287 Score: 478
Period size: 132 Copynumber: 2.9 Consensus size: 133
47516900 TTTCGATCTG
* * * * *
47516910 CTCCACTGCTACTCATGGAGACAAGGCTAGTGGCTTAAATCTGCTCCATTGCTACCTCAGGGTGA
1 CTCCACTGCTGCTCAGGGAAACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGGAGA
* * * * ** *
47516975 TAAGATTCGTCGTCTTCGGTTTGTTCTACTGCT-GGTCA-GGAAGATAAGATCTACAATCTTTAG
66 TAAGATTCGCCGTCTTCGATCTGTTCTATTGCTACCTCATGG-AGATAAGATCTACAATCTTCAG
47517038 CCTC
130 CCTC
*
47517042 CTCTACTGCTGCTCAGGGAAACAAGGCTAGTGGCTTAAATCTGCTCCCTT-CTACC-CAGGGAGA
1 CTCCACTGCTGCTCAGGGAAACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGGAGA
* * *
47517105 TAAGATTCACCGTCTTCGATCTGCTCTATTGTTACCTCATGGAGATAAGATCTAC-ATCTTCAGC
66 TAAGATTCGCCGTCTTCGATCTGTTCTATTGCTACCTCATGGAGATAAGATCTACAATCTTCAGC
*
47517169 CTG
131 CTC
* * * * * *
47517172 CTCCACTGTTGCTTAGGGAAATAAGGCTAGTAGCTTAAATCTGCTCCCTTGCTACCTTAGGGAAA
1 CTCCACTGCTGCTCAGGGAAACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGGAGA
* * *
47517237 TAAGATTCGCCGTCTTCGATCTATTCCATTGCTACCTCATAGAGATAAGAT
66 TAAGATTCGCCGTCTTCGATCTGTTCTATTGCTACCTCATGGAGATAAGAT
47517288 TTGTGAATTC
Statistics
Matches: 212, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
130 88 0.42
131 26 0.12
132 98 0.46
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (133 bp):
CTCCACTGCTGCTCAGGGAAACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGGAGA
TAAGATTCGCCGTCTTCGATCTGTTCTATTGCTACCTCATGGAGATAAGATCTACAATCTTCAGC
CTC
Found at i:47518575 original size:23 final size:23
Alignment explanation
Indices: 47518547--47518617 Score: 88
Period size: 23 Copynumber: 2.9 Consensus size: 23
47518537 TTCTTTCTTC
47518547 TTTTTTTGATTGATTTTTTTTTA
1 TTTTTTTGATTGATTTTTTTTTA
47518570 TTTTTTTGATTGATTTATTATTATTA
1 TTTTTTTGATTGATTT-TT-TT-TTA
**
47518596 TTTTTTATTTTTGATTTTTTTT
1 TTTTTT-TGATTGATTTTTTTT
47518618 AGTCTCAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 16 0.38
24 3 0.07
25 4 0.10
26 11 0.26
27 8 0.19
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.77
Consensus pattern (23 bp):
TTTTTTTGATTGATTTTTTTTTA
Found at i:47524386 original size:20 final size:18
Alignment explanation
Indices: 47524347--47524434 Score: 61
Period size: 20 Copynumber: 4.6 Consensus size: 18
47524337 CTTAAAATGA
* *
47524347 AAAAGAAATAAAATATTTT
1 AAAATAAATAAAA-AGTTT
47524366 AAAATAAATAAATAGAGTTT
1 AAAATAAATAAA-A-AGTTT
* * *
47524386 AATATATATAACAA-TTT
1 AAAATAAATAAAAAGTTT
47524403 AAAATAAAATATAAATAGTTT
1 AAAAT-AAATA-AAA-AGTTT
*
47524424 AAAATATATAA
1 AAAATAAATAA
47524435 TATATAAAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
17 7 0.13
18 5 0.09
19 15 0.28
20 19 0.35
21 8 0.15
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAATAAATAAAAAGTTT
Found at i:47524423 original size:38 final size:37
Alignment explanation
Indices: 47524363--47524434 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
47524353 AATAAAATAT
*
47524363 TTTAAAATAAATAAATAGAGTTTAATATATATAACAA
1 TTTAAAATAAATAAATAGAGTTTAAAATATATAACAA
*
47524400 TTTAAAATAAAATATAA-ATAGTTTAAAATATATAA
1 TTTAAAAT-AAATA-AATAGAGTTTAAAATATATAA
47524435 TATATAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
37 8 0.26
38 21 0.68
39 2 0.06
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (37 bp):
TTTAAAATAAATAAATAGAGTTTAAAATATATAACAA
Found at i:47524442 original size:16 final size:16
Alignment explanation
Indices: 47524406--47524443 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
47524396 ACAATTTAAA
47524406 ATAAAATATAAATAGT
1 ATAAAATATAAATAGT
*
47524422 TTAAAATATATAATA-T
1 ATAAAATATA-AATAGT
47524438 ATAAAA
1 ATAAAA
47524444 GGAAATCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
ATAAAATATAAATAGT
Found at i:47524584 original size:22 final size:22
Alignment explanation
Indices: 47524549--47524612 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
47524539 ATGTAAAAGT
*
47524549 TTAAAATAATAATATACAAAAAAC
1 TTAAAA-AA-AATATAAAAAAAAC
* * *
47524573 TTACAACAAATAATAAAAAAAAT
1 TTAAAAAAAAT-ATAAAAAAAAC
47524596 TTAAAAAAAATATAAAA
1 TTAAAAAAAATATAAAA
47524613 TATTTAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 9 0.27
23 19 0.58
24 5 0.15
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (22 bp):
TTAAAAAAAATATAAAAAAAAC
Found at i:47524607 original size:20 final size:21
Alignment explanation
Indices: 47524543--47524621 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
47524533 ATATACATGT
*
47524543 AAAAGTTTAAAATAATAATATACA
1 AAAAATTTAAAA-AATAATA-A-A
*
47524567 AAAAACTTACAACAAATAATAAA
1 AAAAATTTA-AA-AAATAATAAA
*
47524590 AAAAATTTAAAAAA-AATATA
1 AAAAATTTAAAAAATAATAAA
*
47524610 AAATATTTAAAA
1 AAAAATTTAAAA
47524622 CAAATAATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
20 16 0.33
21 3 0.06
22 2 0.04
23 9 0.19
24 8 0.17
25 9 0.19
26 1 0.02
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.25
Consensus pattern (21 bp):
AAAAATTTAAAAAATAATAAA
Found at i:47525225 original size:18 final size:18
Alignment explanation
Indices: 47525202--47525236 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47525192 GTTATAAAAA
47525202 CCATTT-TTTTGTTTTTTG
1 CCATTTGTTTT-TTTTTTG
47525220 CCATTTGTTTTTTTTTT
1 CCATTTGTTTTTTTTTT
47525237 AATTCAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.06, C:0.11, G:0.09, T:0.74
Consensus pattern (18 bp):
CCATTTGTTTTTTTTTTG
Found at i:47527043 original size:30 final size:30
Alignment explanation
Indices: 47526994--47527050 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47526984 ACCCTAGAGG
*
47526994 GCACACGGCCATGTAACATGACCGTGTGTC
1 GCACACGGCCAAGTAACATGACCGTGTGTC
*
47527024 GCACACGGCCAAG-ACACATGCCCGTGT
1 GCACACGGCCAAGTA-ACATGACCGTGT
47527051 CTCTGCTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (30 bp):
GCACACGGCCAAGTAACATGACCGTGTGTC
Found at i:47555022 original size:36 final size:35
Alignment explanation
Indices: 47554982--47555064 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
47554972 AATCCCTCCA
* * * *
47554982 AAACACGCCATATGCTCCCAAGATCTGGTCCAACCG
1 AAACACGCCA-ATGCTCACAAGAGCTAGTCAAACCG
* *
47555018 AAACATGCCAATGCTCATAAGAGCTAGTCAAACCG
1 AAACACGCCAATGCTCACAAGAGCTAGTCAAACCG
*
47555053 AAACACGTCAAT
1 AAACACGCCAAT
47555065 TAGATAGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 30 0.77
36 9 0.23
ACGTcount: A:0.37, C:0.30, G:0.16, T:0.17
Consensus pattern (35 bp):
AAACACGCCAATGCTCACAAGAGCTAGTCAAACCG
Found at i:47558548 original size:16 final size:15
Alignment explanation
Indices: 47558527--47558557 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
47558517 AAAATATATA
47558527 TTTTTAATTTTTAATT
1 TTTTTAA-TTTTAATT
47558543 TTTTTAATTTTAATT
1 TTTTTAATTTTAATT
47558558 AATTAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTAATTTTAATT
Found at i:47562350 original size:5 final size:5
Alignment explanation
Indices: 47562340--47562373 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
47562330 CCCACTTGTG
47562340 AAAAT AAAAT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAA
47562374 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:47568271 original size:53 final size:54
Alignment explanation
Indices: 47568203--47568381 Score: 218
Period size: 55 Copynumber: 3.3 Consensus size: 54
47568193 TTTCCTTTTT
* * * *
47568203 GAACTTACCATTGCCATGTCTTAACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
47568256 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * *
47568310 GTAACTCACTAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
47568365 GAACTTATCAATGCCAT
1 GAACTCACCAATGCCAT
47568382 CTTTATCTTA
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 43 0.41
54 14 0.13
55 45 0.42
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:47568571 original size:45 final size:46
Alignment explanation
Indices: 47568409--47568572 Score: 145
Period size: 47 Copynumber: 3.5 Consensus size: 46
47568399 CCATATTCCA
* **
47568409 AACATGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGCCACATCTT
1 AACATGGTCTTACATGGTATCCTTGACTTA--GCCAATGCCATGTCTT
* ** * *
47568457 CATGTGGTCTTACATGGTATCCTT-AATTAATGCCGATGCCATGTCTT
1 AACATGGTCTTACATGGTATCCTTGACTT-A-GCCAATGCCATGTCTT
* * * * *
47568504 GACTTGGCCTTACGTAGG-ATCCTTGCCTTA-CCAATGCCATGTCTT
1 AACATGGTCTTACAT-GGTATCCTTGACTTAGCCAATGCCATGTCTT
47568549 AACATGGTCTTACATGGTATCCTT
1 AACATGGTCTTACATGGTATCCTT
47568573 AACCGTCAAT
Statistics
Matches: 92, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
44 2 0.02
45 31 0.34
47 33 0.36
48 26 0.28
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (46 bp):
AACATGGTCTTACATGGTATCCTTGACTTAGCCAATGCCATGTCTT
Found at i:47573661 original size:20 final size:20
Alignment explanation
Indices: 47573636--47573677 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
47573626 AGAACATAGC
47573636 ATTCGGTCTTTAACTCACTG
1 ATTCGGTCTTTAACTCACTG
47573656 ATTCGGTCTTTAACTCACTG
1 ATTCGGTCTTTAACTCACTG
47573676 AT
1 AT
47573678 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (20 bp):
ATTCGGTCTTTAACTCACTG
Found at i:47575797 original size:47 final size:47
Alignment explanation
Indices: 47575727--47576068 Score: 549
Period size: 47 Copynumber: 7.3 Consensus size: 47
47575717 CCTTTCGAGA
* *
47575727 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * ** * *
47575774 CTTATCACATATATACACATTCACATCCATCACATCAGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
47575821 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
47575868 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
47575915 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
47575962 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
47576009 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
47576056 CTTATCACATATA
1 CTTATCACATATA
47576069 CATATCTTGT
Statistics
Matches: 269, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 269 1.00
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:47580925 original size:28 final size:28
Alignment explanation
Indices: 47580885--47580941 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
47580875 GTGAAAGAAG
*
47580885 TAAGCTTATAAAGCTTAGTAACTTCACA
1 TAAGCTTATAAAGATTAGTAACTTCACA
47580913 TAAGCTTATAAAGATTAGTAACTTCACA
1 TAAGCTTATAAAGATTAGTAACTTCACA
47580941 T
1 T
47580942 GTAAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (28 bp):
TAAGCTTATAAAGATTAGTAACTTCACA
Found at i:47581476 original size:55 final size:53
Alignment explanation
Indices: 47581350--47581484 Score: 155
Period size: 53 Copynumber: 2.5 Consensus size: 53
47581340 AACTTACTAT
* * * *
47581350 TGCCATGTCTTGACATGGTCTTGCGTGGTATCCTTGCCTTAAGAACTCACCAA
1 TGCCATGTCTTGGCATGGTCTTACATGGGATCCTTGCCTTAAGAACTCACCAA
* * * *
47581403 TGCCATGCCTTAGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTGACTCATCAA
1 TGCCATGTCTTGGCATGGTCTTACATGGGATCC-TTGCCTTA-AG-AACTCACCAA
*
47581458 TGTCATGTCTTGGCATGGTCTTACATG
1 TGCCATGTCTTGGCATGGTCTTACATG
47581485 ATTTCTTTGC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
52 2 0.03
53 32 0.47
54 2 0.03
55 32 0.47
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.34
Consensus pattern (53 bp):
TGCCATGTCTTGGCATGGTCTTACATGGGATCCTTGCCTTAAGAACTCACCAA
Found at i:47581493 original size:55 final size:54
Alignment explanation
Indices: 47581350--47581517 Score: 176
Period size: 55 Copynumber: 3.1 Consensus size: 54
47581340 AACTTACTAT
* * * *
47581350 TGCCATGTCTTGACATGGTCTTGCGTGGTATCCTTGCCTTA-AGAACTCACCAA
1 TGCCATGTCTTGGCATGGTCTTACATGGTATCTTTGCCTTATAGAACTCACCAA
* * * * * *
47581403 TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGTGACTCATCAA
1 TGCCATGTCTTGGCATGGTCTTACATGGTATCTTTGCCTTATAG-AACTCACCAA
* * * * * *
47581458 TGTCATGTCTTGGCATGGTCTTACATGATTTCTTTGCCTTATAAAACTTATCAA
1 TGCCATGTCTTGGCATGGTCTTACATGGTATCTTTGCCTTATAGAACTCACCAA
47581512 TGCCAT
1 TGCCAT
47581518 CCTTATCTTA
Statistics
Matches: 92, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
53 33 0.36
54 15 0.16
55 44 0.48
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCCATGTCTTGGCATGGTCTTACATGGTATCTTTGCCTTATAGAACTCACCAA
Found at i:47581574 original size:47 final size:47
Alignment explanation
Indices: 47581516--47581621 Score: 176
Period size: 47 Copynumber: 2.3 Consensus size: 47
47581506 TATCAATGCC
* * *
47581516 ATCCTTATCTTACCAAATGCCATGTTCCAAACATTGTCTTACATGGT
1 ATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTGACATGGT
47581563 ATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTGACATGGT
1 ATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTGACATGGT
*
47581610 ATCTTTGTCTTA
1 ATCCTTGTCTTA
47581622 GTGGCAATGC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (47 bp):
ATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTGACATGGT
Found at i:47593697 original size:30 final size:30
Alignment explanation
Indices: 47593663--47593721 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
47593653 ATCAAAATGT
47593663 AAACATACTTT-TCCATAAGATAATGAATAA
1 AAACATACTTTCT-CATAAGATAATGAATAA
* *
47593693 AAACATACTTTCTCATAATATAATTAATA
1 AAACATACTTTCTCATAAGATAATGAATA
47593722 TAAGAATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (30 bp):
AAACATACTTTCTCATAAGATAATGAATAA
Found at i:47595142 original size:11 final size:11
Alignment explanation
Indices: 47595113--47595147 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
47595103 ATTAAAAAAA
47595113 ACATATTAAAC
1 ACATATTAAAC
47595124 ACAT-TTAAAC
1 ACATATTAAAC
*
47595134 ACTTATTAAAC
1 ACATATTAAAC
47595145 ACA
1 ACA
47595148 AAACACATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (11 bp):
ACATATTAAAC
Found at i:47595162 original size:9 final size:9
Alignment explanation
Indices: 47595111--47595166 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
47595101 ACATTAAAAA
*
47595111 AAACATATT
1 AAACACATT
47595120 AAACACATTT
1 AAACACA-TT
47595130 AAACACTTATT
1 AAACAC--ATT
47595141 AAACACA--
1 AAACACATT
47595148 AAACACATT
1 AAACACATT
47595157 AAACAC-TT
1 AAACACATT
47595165 AA
1 AA
47595167 CTTAAATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
7 7 0.17
8 4 0.10
9 13 0.32
10 8 0.20
11 8 0.20
12 1 0.02
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (9 bp):
AAACACATT
Found at i:47597314 original size:18 final size:19
Alignment explanation
Indices: 47597291--47597329 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47597281 TTTCCTTTTC
*
47597291 TTTTTCT-TCCATGTCTTT
1 TTTTTCTCTCAATGTCTTT
*
47597309 TTTTTCTCTCAATTTCTTT
1 TTTTTCTCTCAATGTCTTT
47597328 TT
1 TT
47597330 CTTAGTTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.08, C:0.21, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTCTCTCAATGTCTTT
Found at i:47599496 original size:11 final size:11
Alignment explanation
Indices: 47599449--47599501 Score: 56
Period size: 10 Copynumber: 4.8 Consensus size: 11
47599439 ACACCTGTAG
47599449 TTAAACACAT-
1 TTAAACACATA
*
47599459 TAAAACAAACATA
1 TTAAAC--ACATA
47599472 TTAAACACAT-
1 TTAAACACATA
*
47599482 TTAAACACTTA
1 TTAAACACATA
47599493 TTAAACACA
1 TTAAACACA
47599502 AAACACATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 14 0.40
11 12 0.34
12 4 0.11
13 5 0.14
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (11 bp):
TTAAACACATA
Found at i:47599496 original size:21 final size:22
Alignment explanation
Indices: 47599449--47599501 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
47599439 ACACCTGTAG
47599449 TTAAACACATTAAAACAAACATA
1 TTAAACACATTAAAAC-AACATA
* *
47599472 TTAAACACATTTAAAC-ACTTA
1 TTAAACACATTAAAACAACATA
47599493 TTAAACACA
1 TTAAACACA
47599502 AAACACATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 13 0.46
23 15 0.54
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAACACATTAAAACAACATA
Found at i:47599516 original size:9 final size:9
Alignment explanation
Indices: 47599449--47599520 Score: 59
Period size: 9 Copynumber: 8.4 Consensus size: 9
47599439 ACACCTGTAG
47599449 TTAAACACA
1 TTAAACACA
47599458 TTAAA-AC-
1 TTAAACACA
*
47599465 --AAACATA
1 TTAAACACA
47599472 TTAAACACA
1 TTAAACACA
47599481 TTTAAACACTTA
1 -TTAAACAC--A
47599493 TTAAACACA
1 TTAAACACA
47599502 --AAACACA
1 TTAAACACA
47599509 TTAAACAC-
1 TTAAACACA
47599517 TTAA
1 TTAA
47599521 CTTAAATAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 19
0.71 0.03 0.26
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 7 0.13
8 6 0.12
9 18 0.35
10 8 0.15
11 8 0.15
12 1 0.02
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (9 bp):
TTAAACACA
Found at i:47599707 original size:19 final size:20
Alignment explanation
Indices: 47599668--47599708 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
47599658 ATGAGTTATT
**
47599668 TAATGCAAGACTTAATTTAA
1 TAATGCAAGACTTAAACTAA
47599688 TAATGC-AGACTTAAACTAA
1 TAATGCAAGACTTAAACTAA
47599707 TA
1 TA
47599709 TAGGAGTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (20 bp):
TAATGCAAGACTTAAACTAA
Found at i:47599772 original size:50 final size:52
Alignment explanation
Indices: 47599668--47599776 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 52
47599658 ATGAGTTATT
* *
47599668 TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAATATAGGAGTTACA
1 TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAACATAAGAGTTACA
* * * *
47599720 TAATGCAAGTCATT-ATTT-ATGATGCATACTT-AACTAACATAAGAGTTGCA
1 TAATGCAAGAC-TTAATTTAATAATGCAGACTTAAACTAACATAAGAGTTACA
47599770 TAATGCA
1 TAATGCA
47599777 TTTCTTTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 23 0.46
51 11 0.22
52 14 0.28
53 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (52 bp):
TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAACATAAGAGTTACA
Found at i:47600572 original size:15 final size:14
Alignment explanation
Indices: 47600546--47600581 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
47600536 AAAATAAAAG
*
47600546 AAAAACATTAAATT
1 AAAAATATTAAATT
47600560 AATAAATATTAAATT
1 AA-AAATATTAAATT
47600575 AAAAATA
1 AAAAATA
47600582 ACATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAATATTAAATT
Found at i:47601030 original size:21 final size:21
Alignment explanation
Indices: 47601004--47601049 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
47600994 GTTAAATAAC
**
47601004 TTTAAAATTTTAAGAAA-AAAT
1 TTTAAAAAATTAA-AAATAAAT
47601025 TTTAAAAAATTAAAAATAAAT
1 TTTAAAAAATTAAAAATAAAT
47601046 TTTA
1 TTTA
47601050 TACCTTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TTTAAAAAATTAAAAATAAAT
Found at i:47606546 original size:34 final size:34
Alignment explanation
Indices: 47606438--47606569 Score: 108
Period size: 33 Copynumber: 3.9 Consensus size: 34
47606428 TACACATTAC
* * *
47606438 CAGAAACATATGTCAGATCGAAATGTCATATTTC
1 CAGAAACATATATCAGATCAAAATGTCATATTTT
* ** * *
47606472 CA-AAACATATTTC-GAATTGAAATATCATATTGT
1 CAGAAACATATATCAG-ATCAAAATGTCATATTTT
* *
47606505 CATAAACATATATCAGA-CTAAAATGTCATGTTTT
1 CAGAAACATATATCAGATC-AAAATGTCATATTTT
*
47606539 CAGAAACACATATATCATATCAAAATGTCAT
1 CAG-AA-ACATATATCAGATCAAAATGTCAT
47606570 GTTAGACCAA
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
32 1 0.01
33 26 0.33
34 26 0.33
35 3 0.04
36 21 0.27
37 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (34 bp):
CAGAAACATATATCAGATCAAAATGTCATATTTT
Found at i:47607083 original size:32 final size:32
Alignment explanation
Indices: 47607047--47607107 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
47607037 AGCATGATAA
47607047 AATAATTGTGTGAAAATTTCGTTAATAAATAG
1 AATAATTGTGTGAAAATTTCGTTAATAAATAG
47607079 AATAATTGTGTGAAAATTTCGTTAATAAA
1 AATAATTGTGTGAAAATTTCGTTAATAAA
47607108 ATTTATCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (32 bp):
AATAATTGTGTGAAAATTTCGTTAATAAATAG
Found at i:47620517 original size:13 final size:12
Alignment explanation
Indices: 47620462--47620530 Score: 51
Period size: 11 Copynumber: 6.2 Consensus size: 12
47620452 TAGAATAAAG
47620462 TAAA-AAAAAAA
1 TAAACAAAAAAA
*
47620473 TAAA-AAAACAA
1 TAAACAAAAAAA
*
47620484 -AAAC-AATAAA
1 TAAACAAAAAAA
*
47620494 -AAACAATAAAA
1 TAAACAAAAAAA
47620505 TAATACAAAAAAA
1 TAA-ACAAAAAAA
*
47620518 -GAACAAAAAAA
1 TAAACAAAAAAA
47620529 TA
1 TA
47620531 GCTAAAACCC
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
10 11 0.24
11 23 0.51
12 3 0.07
13 8 0.18
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.10
Consensus pattern (12 bp):
TAAACAAAAAAA
Found at i:47620522 original size:24 final size:23
Alignment explanation
Indices: 47620464--47620530 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
47620454 GAATAAAGTA
* * *
47620464 AAAAAAAAATAAAAAAACAAAAAC
1 AAAAAAAAACAAAAAAA-TAATAC
* *
47620488 AATAAAAAACAATAAAATAATAC
1 AAAAAAAAACAAAAAAATAATAC
47620511 AAAAAAAGAACAAAAAAATA
1 AAAAAAA-AACAAAAAAATA
47620531 GCTAAAACCC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
23 10 0.29
24 25 0.71
ACGTcount: A:0.82, C:0.07, G:0.01, T:0.09
Consensus pattern (23 bp):
AAAAAAAAACAAAAAAATAATAC
Found at i:47620525 original size:21 final size:21
Alignment explanation
Indices: 47620491--47620530 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47620481 CAAAAACAAT
* *
47620491 AAAAAACAATAAAATAATACA
1 AAAAAACAACAAAAAAATACA
*
47620512 AAAAAAGAACAAAAAAATA
1 AAAAAACAACAAAAAAATA
47620531 GCTAAAACCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (21 bp):
AAAAAACAACAAAAAAATACA
Found at i:47621042 original size:84 final size:80
Alignment explanation
Indices: 47620947--47621118 Score: 188
Period size: 84 Copynumber: 2.1 Consensus size: 80
47620937 CGCTCCGCGA
*
47620947 GCCTTTGTGCGCGCTCACT-CC-TCCTGGCCTCCGCTACAGCCGGCCCCTTTGTGCGCGCTCTTC
1 GCCTTTGTGCGCGCTC-CTCCCTTCC-GGCCTCCG-TACAGCCGG-CCATTTGTGC-C-C-CTTC
47621010 CT-TCCGGGCTCCGTCCCGCCG
59 CTCTCCGGGCTCCGTCCCGCCG
* ** * *
47621031 GCCTTTGTGCGCGTTCCTCCCTTCCGGGTTCCGTCCCGCCGGCCATTTGTGCCCCTTCCTCTCCG
1 GCCTTTGTGCGCGCTCCTCCCTTCCGGCCTCCGTACAGCCGGCCATTTGTGCCCCTTCCTCTCCG
*
47621096 GGCTCTGTCCCGCCG
66 GGCTCCGTCCCGCCG
47621111 GCCCTTTG
1 G-CCTTTG
47621119 CCTGCGGCGC
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
79 6 0.08
80 20 0.26
81 7 0.09
82 9 0.12
83 9 0.12
84 23 0.30
85 3 0.04
ACGTcount: A:0.02, C:0.45, G:0.25, T:0.27
Consensus pattern (80 bp):
GCCTTTGTGCGCGCTCCTCCCTTCCGGCCTCCGTACAGCCGGCCATTTGTGCCCCTTCCTCTCCG
GGCTCCGTCCCGCCG
Found at i:47621064 original size:41 final size:40
Alignment explanation
Indices: 47620947--47621118 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
47620937 CGCTCCGCGA
* * * *
47620947 GCCTTTGTGCGCGCTCACTCC-TCCTGGCCTCCGCTACAGCCG
1 GCCTTTGTGCGCGTTC-CTCCTTCC-GGGCTCCG-TCCCGCCG
* *
47620989 GCCCCTTTGTGCGCGCTCTTCCTTCCGGGCTCCGTCCCGCCG
1 G--CCTTTGTGCGCGTTCCTCCTTCCGGGCTCCGTCCCGCCG
*
47621031 GCCTTTGTGCGCGTTCCTCCCTTCCGGGTTCCGTCCCGCCG
1 GCCTTTGTGCGCGTTCCT-CCTTCCGGGCTCCGTCCCGCCG
* * *
47621072 GCCATTTGTGCCCCTTCCT-C-TCCGGGCTCTGTCCCGCCG
1 GCC-TTTGTGCGCGTTCCTCCTTCCGGGCTCCGTCCCGCCG
47621111 GCCCTTTG
1 G-CCTTTG
47621119 CCTGCGGCGC
Statistics
Matches: 113, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
39 22 0.19
40 18 0.16
41 24 0.21
42 21 0.19
43 10 0.09
44 18 0.16
ACGTcount: A:0.02, C:0.45, G:0.25, T:0.27
Consensus pattern (40 bp):
GCCTTTGTGCGCGTTCCTCCTTCCGGGCTCCGTCCCGCCG
Found at i:47621107 original size:39 final size:38
Alignment explanation
Indices: 47620992--47621118 Score: 139
Period size: 39 Copynumber: 3.2 Consensus size: 38
47620982 ACAGCCGGCC
47620992 CCTTTGTGCGCGCTCTTCCT-TCCGGGCTCCGTCCCGCCGG
1 CCTTTGTGC-C-C-CTTCCTCTCCGGGCTCCGTCCCGCCGG
* * *
47621032 CCTTTGTGCGCGTTCCTCCCTTCCGGGTTCCGTCCCGCCGG
1 CCTTTGTGCCCCTTCCT--C-TCCGGGCTCCGTCCCGCCGG
*
47621073 CCATTTGTGCCCCTTCCTCTCCGGGCTCTGTCCCGCCGG
1 CC-TTTGTGCCCCTTCCTCTCCGGGCTCCGTCCCGCCGG
47621112 CCCTTTG
1 -CCTTTG
47621119 CCTGCGGCGC
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
37 5 0.07
38 1 0.01
39 22 0.30
40 12 0.16
41 21 0.28
42 13 0.18
ACGTcount: A:0.01, C:0.45, G:0.25, T:0.29
Consensus pattern (38 bp):
CCTTTGTGCCCCTTCCTCTCCGGGCTCCGTCCCGCCGG
Found at i:47629732 original size:68 final size:64
Alignment explanation
Indices: 47629622--47629839 Score: 167
Period size: 68 Copynumber: 3.3 Consensus size: 64
47629612 ATACAGATGG
* * * *
47629622 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAG-ACAAGAGAGCTAC--GACA
47629686 TTA
63 -TA
* * *
47629689 TGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTACGAGAT
1 T-ATGTAGCTAGGTCACATGGATGATACTGA-GTGCACACCATGTAGACAAGAGAGCTACGACAT
47629753 A
64 A
* * * ** * *
47629754 TATGTAGCTAGGTCGCATGCG-TGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAG
1 TATGTAGCTAGGTCACATG-GATGATACTGAGT---GCACACCATGTAGACAAGAGAGCTACGAC
47629818 ATA
62 ATA
*
47629821 AACTG--GCTAGGTCACATGG
1 TA-TGTAGCTAGGTCACATGG
47629840 GTGGTATTAA
Statistics
Matches: 128, Mismatches: 14, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
64 23 0.18
65 6 0.05
66 15 0.12
67 34 0.27
68 49 0.38
69 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAGACAAGAGAGCTACGACATA
Found at i:47638504 original size:47 final size:46
Alignment explanation
Indices: 47638431--47638554 Score: 139
Period size: 45 Copynumber: 2.7 Consensus size: 46
47638421 ATATTTGAGT
* * *
47638431 TCCGAACTCCTTGAGTTGAGTTCGAGTTC-GTGA-GATGT-AACTAGGC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGATGTGAAC-A--C
*
47638477 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGTGAACAC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGATGTGAACAC
*
47638524 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
47638555 TATGGGTGGG
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
45 30 0.43
47 28 0.41
48 2 0.03
49 6 0.09
50 3 0.04
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGATGTGAACAC
Found at i:47645922 original size:42 final size:42
Alignment explanation
Indices: 47645822--47645914 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
47645812 CAGGTCACAT
47645822 GCCCGTGTGAATAGGCCGTGTGCCATACACGGCATTAGACAC
1 GCCCGTGTGAATAGGCCGTGTGCCATACACGGCATTAGACAC
*
47645864 GCCCGTGTGAATAGGCCGTGTGCCATACATGGCATTAGACAC
1 GCCCGTGTGAATAGGCCGTGTGCCATACACGGCATTAGACAC
47645906 GCCCGTGTG
1 GCCCGTGTG
47645915 TCTAGGCCAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.22, C:0.28, G:0.30, T:0.20
Consensus pattern (42 bp):
GCCCGTGTGAATAGGCCGTGTGCCATACACGGCATTAGACAC
Found at i:47656272 original size:49 final size:49
Alignment explanation
Indices: 47656215--47656344 Score: 174
Period size: 49 Copynumber: 2.7 Consensus size: 49
47656205 GTTGTGTGTC
* *
47656215 AGTGTAAGACCTGTCTAGGAGATGGCATCGACACT-GATGGAT-AAGAGCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGAC-CTCGATAGATGAA-AGCT
* * * *
47656264 AGTGTAAGACTTGTCTAGGACATGGCATCGGCCTCGATATATGAAAGTT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGCT
47656313 AGTGTAAGACCTGTCTAGGACATGGCATCGAC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGAC
47656345 TTTGATGTGT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
48 2 0.03
49 67 0.94
50 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGCT
Found at i:47663764 original size:5 final size:5
Alignment explanation
Indices: 47663754--47663847 Score: 64
Period size: 6 Copynumber: 17.2 Consensus size: 5
47663744 TATGTCTTTC
* *
47663754 AAAAT AAAAT AATAAT AAAATT TAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AA-AAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
* *
47663805 AAAAA ATAAAG AAAAT AAAAAT AAGAAT -AAAT AAAAT AAAAT A
1 AAAAT A-AAAT AAAAT -AAAAT AA-AAT AAAAT AAAAT AAAAT A
47663848 GGAGGATTCA
Statistics
Matches: 72, Mismatches: 9, Indels: 16
0.74 0.09 0.16
Matches are distributed among these distances:
4 3 0.04
5 31 0.43
6 38 0.53
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:47663787 original size:17 final size:16
Alignment explanation
Indices: 47663767--47663826 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
47663757 ATAAAATAAT
*
47663767 AATAAAATTTAAATGAA
1 AATAAAAATTAAA-GAA
*
47663784 AATAAAAATCAAAAGAAA
1 AATAAAAAT-TAAAG-AA
*
47663802 AATAAAAAATAAAGAA
1 AATAAAAATTAAAGAA
47663818 AATAAAAAT
1 AATAAAAAT
47663827 AAGAATAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 10 0.28
17 13 0.36
18 13 0.36
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (16 bp):
AATAAAAATTAAAGAA
Found at i:47663819 original size:34 final size:34
Alignment explanation
Indices: 47663754--47663840 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 34
47663744 TATGTCTTTC
* * **
47663754 AAAATAAAATAATAATAAAATTTAAATGAAAATA
1 AAAATAAAAGAAAAATAAAAAATAAATGAAAATA
47663788 AAAATCAAAAGAAAAATAAAAAATAAA-GAAAATA
1 AAAAT-AAAAGAAAAATAAAAAATAAATGAAAATA
47663822 AAAAT--AAGAATAAATAAAA
1 AAAATAAAAGAA-AAATAAAA
47663841 TAAAATAGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
31 5 0.11
32 8 0.17
34 17 0.36
35 17 0.36
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (34 bp):
AAAATAAAAGAAAAATAAAAAATAAATGAAAATA
Found at i:47663833 original size:21 final size:22
Alignment explanation
Indices: 47663794--47663845 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
47663784 AATAAAAATC
*
47663794 AAAAGAAAAATAAAAAATAAAG
1 AAAATAAAAATAAAAAATAAAG
* *
47663816 AAAATAAAAAT-AAGAATAAAT
1 AAAATAAAAATAAAAAATAAAG
47663837 AAAATAAAA
1 AAAATAAAA
47663846 TAGGAGGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (22 bp):
AAAATAAAAATAAAAAATAAAG
Found at i:47663836 original size:16 final size:15
Alignment explanation
Indices: 47663782--47663840 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 15
47663772 AATTTAAATG
47663782 AAAATAAAAATCAAAAGA
1 AAAATAAAAAT---AAGA
47663800 AAAATAAAAAATAA-A
1 AAAAT-AAAAATAAGA
47663815 GAAAATAAAAATAAGA
1 -AAAATAAAAATAAGA
47663831 ATAAATAAAA
1 A-AAATAAAA
47663841 TAAAATAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
15 10 0.27
16 16 0.43
18 5 0.14
19 6 0.16
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (15 bp):
AAAATAAAAATAAGA
Found at i:47684487 original size:40 final size:40
Alignment explanation
Indices: 47684431--47684571 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
47684421 CATTTGAATG
*
47684431 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGA-T
* *
47684471 TTATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGAT
* * * *
47684511 ATATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGAT
* * *
47684551 ATACCCGGGTTAAGACCCGAA
1 ATATCCGGGCTAAGTCCCGAA
47684572 AGCAATTGTG
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 87 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTGAT
Found at i:47684594 original size:80 final size:80
Alignment explanation
Indices: 47684431--47684602 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
47684421 CATTTGAATG
* * * * * * *
47684431 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAAGCA
* *
47684496 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* * *
47684511 ATATCCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAAGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAAGC
** *
47684575 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
47684591 ATATCC-GGCTAA
1 ATATCCGGGCTAA
47684603 ATTCTGAAGA
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 6 0.08
80 68 0.89
81 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAAGCA
ATTGTGCGAGTGGAT
Found at i:47690594 original size:43 final size:43
Alignment explanation
Indices: 47690529--47690774 Score: 228
Period size: 43 Copynumber: 5.7 Consensus size: 43
47690519 TACTTTGGTT
*
47690529 TATCCGATGATGCACTGTGTGTGCTAATATATTTGCTTCGATA
1 TATCCGATGATGCACTGTGTGTGCTAATATATTTGCTTTGATA
* * * * * * *
47690572 TATCCGATGATGCATTGCGTGTGCCAGTATATTT-TTTTTAGTT
1 TATCCGATGATGCACTGTGTGTGCTAATATATTTGCTTTGA-TA
* *
47690615 TATCCGATGATGCACTAGTGTGT-C-AATATATTTTCTTTGGTA
1 TATCCGATGATGCACT-GTGTGTGCTAATATATTTGCTTTGATA
* * * *
47690657 TATCTGATGATACACTGTGTGTGCTAGTATATTTGCTTTGGTA
1 TATCCGATGATGCACTGTGTGTGCTAATATATTTGCTTTGATA
* * * * * * * *
47690700 TATCCGATGATACACTATGTCTGCCAGTATATTTTCTTTGGTTT
1 TATCCGATGATGCACTGTGTGTGCTAATATATTTGCTTT-GATA
* *
47690744 TATCTGATGATGCACTGTGTGTGCTAGTATA
1 TATCCGATGATGCACTGTGTGTGCTAATATA
47690775 GTAGCTTCAA
Statistics
Matches: 166, Mismatches: 31, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
41 6 0.04
42 27 0.16
43 100 0.60
44 33 0.20
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.43
Consensus pattern (43 bp):
TATCCGATGATGCACTGTGTGTGCTAATATATTTGCTTTGATA
Found at i:47690659 original size:85 final size:85
Alignment explanation
Indices: 47690521--47690774 Score: 303
Period size: 85 Copynumber: 3.0 Consensus size: 85
47690511 ATAGGTTATA
* * * * *
47690521 CTTTGGTTTATCCGATGATGCACT-GTGTGTGCTAATATATTTGCTTCGATATATCCGATGATGC
1 CTTTAGTTTATCCGATGATGCACTAGTGTGT-C-AATATATTTTCTTTGGTATATCTGATGATGC
* * * *
47690585 ATTGCGTGTGCCAGTATATTTT
64 ACTGTGTGTGCTAGTATATTTG
* *
47690607 TTTTAGTTTATCCGATGATGCACTAGTGTGTCAATATATTTTCTTTGGTATATCTGATGATACAC
1 CTTTAGTTTATCCGATGATGCACTAGTGTGTCAATATATTTTCTTTGGTATATCTGATGATGCAC
47690672 TGTGTGTGCTAGTATATTTG
66 TGTGTGTGCTAGTATATTTG
* * * * * * *
47690692 CTTTGGTATATCCGATGATACACTATGTCTGCCAGTATATTTTCTTTGGTTTTATCTGATGATGC
1 CTTTAGTTTATCCGATGATGCACTA-GTGTGTCAATATATTTTCTTTGG-TATATCTGATGATGC
47690757 ACTGTGTGTGCTAGTATA
64 ACTGTGTGTGCTAGTATA
47690775 GTAGCTTCAA
Statistics
Matches: 145, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
85 65 0.45
86 43 0.30
87 37 0.26
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (85 bp):
CTTTAGTTTATCCGATGATGCACTAGTGTGTCAATATATTTTCTTTGGTATATCTGATGATGCAC
TGTGTGTGCTAGTATATTTG
Found at i:47690764 original size:128 final size:128
Alignment explanation
Indices: 47690521--47690765 Score: 348
Period size: 128 Copynumber: 1.9 Consensus size: 128
47690511 ATAGGTTATA
* * *
47690521 CTTTGGTTTATCCGATGATGCACTGTGTGTGCTAATATATTTGCTTCGATATATCCGATGATGCA
1 CTTTGGTATATCCGATGATACACTGTGTGTGCTAATATATTTGCTTCGATATATCCGATGATACA
* * * *
47690586 TTGCGTGTGCCAGTATATTTTTTTTAGTTTATCCGATGATGCACTAGTGTGTCAATATATTTT
66 CTACGTCTGCCAGTATATTTTCTTTAGTTTATCCGATGATGCACTAGTGTGTCAATATATTTT
* * * *
47690649 CTTTGGTATATCTGATGATACACTGTGTGTGCTAGTATATTTGCTTTGGTATATCCGATGATACA
1 CTTTGGTATATCCGATGATACACTGTGTGTGCTAATATATTTGCTTCGATATATCCGATGATACA
* * *
47690714 CTATGTCTGCCAGTATATTTTCTTTGGTTTTATCTGATGATGCACT-GTGTGT
66 CTACGTCTGCCAGTATATTTTCTTTAG-TTTATCCGATGATGCACTAGTGTGT
47690766 GCTAGTATAG
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 85 0.83
129 17 0.17
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (128 bp):
CTTTGGTATATCCGATGATACACTGTGTGTGCTAATATATTTGCTTCGATATATCCGATGATACA
CTACGTCTGCCAGTATATTTTCTTTAGTTTATCCGATGATGCACTAGTGTGTCAATATATTTT
Found at i:47690817 original size:87 final size:86
Alignment explanation
Indices: 47690615--47690785 Score: 218
Period size: 87 Copynumber: 2.0 Consensus size: 86
47690605 TTTTTTAGTT
* * * *
47690615 TATCCGATGATGCACTA-GTGTGTCAATATATTTTCTTTGGTATATCTGATGATACACTGTGTGT
1 TATCCGATGATACACTACGTCTGCCAGTATATTTTCTTTGGTATATCTGATGATACACTGTGTGT
* * ***
47690679 GCTAGTATATTTGCTTTGGTA
66 GCTAGTATAGTAGCTTCAATA
* * *
47690700 TATCCGATGATACACTATGTCTGCCAGTATATTTTCTTTGGTTTTATCTGATGATGCACTGTGTG
1 TATCCGATGATACACTACGTCTGCCAGTATATTTTCTTTGG-TATATCTGATGATACACTGTGTG
47690765 TGCTAGTATAGTAGCTTCAAT
65 TGCTAGTATAGTAGCTTCAAT
47690786 TTCATCTGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 16 0.22
86 20 0.27
87 37 0.51
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (86 bp):
TATCCGATGATACACTACGTCTGCCAGTATATTTTCTTTGGTATATCTGATGATACACTGTGTGT
GCTAGTATAGTAGCTTCAATA
Found at i:47692888 original size:27 final size:27
Alignment explanation
Indices: 47692858--47693101 Score: 344
Period size: 27 Copynumber: 9.0 Consensus size: 27
47692848 AAAGTACTCC
*
47692858 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
47692885 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
47692912 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
47692939 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
47692966 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
47692993 CAATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
47693020 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * ** *
47693047 CGATTTGTAAAATTACTATTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCT
47693074 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
47693101 C
1 C
47693102 AGGACATGTT
Statistics
Matches: 194, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 194 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:47696231 original size:14 final size:15
Alignment explanation
Indices: 47696195--47696231 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
47696185 CAAACATTTG
47696195 TCAACATTAATTATT
1 TCAACATTAATTATT
*
47696210 T-AATATTAATTATT
1 TCAACATTAATTATT
47696224 TCAA-ATTA
1 TCAACATTA
47696232 CATTTTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (15 bp):
TCAACATTAATTATT
Found at i:47696312 original size:61 final size:61
Alignment explanation
Indices: 47696246--47696433 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
47696236 TTATAGTATC
47696246 ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * ** * *
47696307 ATATATTTTAATTATAATATATTTA-ATAATAATTATGTTAA--ATT-A-TCTTTTA-TAGTATC
1 ATATATTATGATTTTAATAAATTCATATAAGAA-TA--TTAATTATTAAGAATTTTATTA-AATT
* * *
47696366 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
47696427 ATATATT
1 ATATATT
47696434 TTAATTATAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 30 0.32
60 14 0.15
61 39 0.41
62 2 0.02
63 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:47696328 original size:16 final size:16
Alignment explanation
Indices: 47696307--47696352 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
47696297 TTATTAAATT
47696307 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
47696323 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
47696338 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
47696353 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:47696419 original size:120 final size:120
Alignment explanation
Indices: 47696202--47696470 Score: 454
Period size: 120 Copynumber: 2.2 Consensus size: 120
47696192 TTGTCAACAT
* *
47696202 TAAT-TATTTAATATTAATTAT-TTCAAATTACATTTTATAGTATCATATATTATGATTTTAATA
1 TAATATATTTAATAATAATTATGTT-AAATTACATTTTATAGTATCATATATTATGATTTGAATA
47696265 AATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
65 AATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
*
47696321 TAATATATTTAATAATAATTATGTTAAATTATC-TTTTATAGTATCATATATTATGATTTGAGTA
1 TAATATATTTAATAATAATTATGTTAAATTA-CATTTTATAGTATCATATATTATGATTTGAATA
*
47696385 AATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTA
65 AATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
47696441 TAATATATTTAATAATAATTATGTTTAAAT
1 TAATATATTTAATAATAATTATG-TTAAAT
47696471 ATGATTAAAT
Statistics
Matches: 142, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
119 4 0.03
120 129 0.91
121 9 0.06
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
TAATATATTTAATAATAATTATGTTAAATTACATTTTATAGTATCATATATTATGATTTGAATAA
ATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
Found at i:47696430 original size:59 final size:58
Alignment explanation
Indices: 47696247--47696430 Score: 139
Period size: 57 Copynumber: 3.1 Consensus size: 58
47696237 TATAGTATCA
*
47696247 TATATTATGATTTTAATAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTAAATAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
* * * * *
47696306 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTA-TGTTAA-ATTATCTTT-TATAGTA
1 TATATTATGATTTAAATA-AAT-TCATATAAGAAT-ATTATTATTAAGA--AT-TTTAT-TA-AA
47696364 T
58 T
* *
47696365 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAATAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAAT
47696426 TATAT
1 TATAT
47696431 ATTTTAATTA
Statistics
Matches: 95, Mismatches: 12, Indels: 36
0.66 0.08 0.25
Matches are distributed among these distances:
55 1 0.01
56 11 0.12
57 15 0.16
58 12 0.13
59 11 0.12
61 6 0.06
62 12 0.13
63 15 0.16
64 11 0.12
65 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (58 bp):
TATATTATGATTTAAATAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAAT
Found at i:47696448 original size:16 final size:16
Alignment explanation
Indices: 47696427--47696468 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47696417 TTATTAAATT
*
47696427 ATATATTTTAATTATA
1 ATATATTTTAATAATA
47696443 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
47696458 AT-TATGTTTAA
1 ATATAT-TTTAA
47696469 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:47696453 original size:15 final size:15
Alignment explanation
Indices: 47696418--47696459 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47696408 TTAAGAATTT
*
47696418 TATTAAATTAT-ATA
1 TATTTAATTATAATA
47696432 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
47696446 TATTTAATAATAAT
1 TATTTAATTATAAT
47696460 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Done.