Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 162 of 373
Found at i:54160331 original size:49 final size:49
Alignment explanation
Indices: 54160275--54160506 Score: 230
Period size: 49 Copynumber: 4.7 Consensus size: 49
54160265 CTGGCACGCA
*
54160275 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** *** * *
54160324 TAGTAGCCTGCACTTAGGACTACACACATGACCTAACCGTCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * * *
54160374 TAGTAGCCTGCACTTAGTACTACATACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* * * * *
54160425 TAATAGCCTACACTTAGTACTACACATGCGACCAATTTTTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * *
54160474 TAATAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
54160507 TCACAATAGA
Statistics
Matches: 147, Mismatches: 33, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 69 0.47
50 44 0.30
51 34 0.23
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:54160786 original size:27 final size:27
Alignment explanation
Indices: 54160756--54160809 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
54160746 TCATACAACC
* *
54160756 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
54160783 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
54160810 TCACCTGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:54161697 original size:31 final size:31
Alignment explanation
Indices: 54161662--54161721 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
54161652 AAAAATTTAT
* *
54161662 GGAATACCGGTATGATTTATAGATCTTGTTA
1 GGAATACCGATATGATTTACAGATCTTGTTA
54161693 GGAATACCGATATGATTTACAGATCTTGT
1 GGAATACCGATATGATTTACAGATCTTGT
54161722 CAGACATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.37
Consensus pattern (31 bp):
GGAATACCGATATGATTTACAGATCTTGTTA
Found at i:54162728 original size:30 final size:30
Alignment explanation
Indices: 54162693--54162749 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
54162683 GAAAACCGAG
* *
54162693 TAAAGAAATCCAAGATAGAGAAACCCAGAA
1 TAAAGAAATCCAAAATAAAGAAACCCAGAA
54162723 TAAAGAAATCCAAAATAAAGAAACCCA
1 TAAAGAAATCCAAAATAAAGAAACCCA
54162750 AGATACAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.60, C:0.18, G:0.12, T:0.11
Consensus pattern (30 bp):
TAAAGAAATCCAAAATAAAGAAACCCAGAA
Found at i:54162729 original size:15 final size:14
Alignment explanation
Indices: 54162693--54162750 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
54162683 GAAAACCGAG
*
54162693 TAAAGAAATCCAAGA
1 TAAAGAAACCCAA-A
*
54162708 TAGAGAAACCCAGAA
1 TAAAGAAACCCA-AA
*
54162723 TAAAGAAATCCAAAA
1 TAAAGAAA-CCCAAA
54162738 TAAAGAAACCCAA
1 TAAAGAAACCCAA
54162751 GATACAATAC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.11
15 28 0.78
16 4 0.11
ACGTcount: A:0.60, C:0.17, G:0.12, T:0.10
Consensus pattern (14 bp):
TAAAGAAACCCAAA
Found at i:54165952 original size:49 final size:49
Alignment explanation
Indices: 54165867--54166111 Score: 294
Period size: 49 Copynumber: 4.9 Consensus size: 49
54165857 TAGCCAAGGC
** * * *
54165867 TATCTGGTATGCATAGTAGCCTACACTTTGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
54165916 TATCGGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
*** * *
54165966 CGCCTGATACA-AGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACA-TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * *
54166017 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
54166066 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
54166112 TCACAATAGA
Statistics
Matches: 162, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
49 82 0.51
50 44 0.27
51 35 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:54166053 original size:101 final size:98
Alignment explanation
Indices: 54165878--54166111 Score: 299
Period size: 100 Copynumber: 2.4 Consensus size: 98
54165868 ATCTGGTATG
* * * * *
54165878 CATAGTAGCCTACACTTTGTACTACACATGTGACCAATTATCGGGTACACGTAGTAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACT
* *
54165943 TAGTACTACACACGTGACCTAACCGCCTGATACA
66 TAGTACTACACACGCGACC-AACCACCTGATACA
* *
54165977 -AGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGC
1 CA-TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTAGCCTGC
* ** * *
54166041 ACTTAGTACTACACATGCGACCAATTATCTGGTACA
63 ACTTAGTACTACACACGCGACCAACCACCTGATACA
54166077 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
54166112 TCACAATAGA
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
98 1 0.01
99 29 0.25
100 43 0.37
101 43 0.37
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGCCTGCACT
TAGTACTACACACGCGACCAACCACCTGATACA
Found at i:54176074 original size:42 final size:43
Alignment explanation
Indices: 54176005--54176093 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 43
54175995 GATTTACGTA
** *
54176005 TAAGACCATGTCTGGGACATCGACATCG-TATCTG-ATTTCATG
1 TAAGACCATGTCTGGGACAGAGACATCGATA-CTGAATTACATG
* * *
54176047 TAAGACCCTGTCTGGGATAGAGGCATCGATACTGAATTACATG
1 TAAGACCATGTCTGGGACAGAGACATCGATACTGAATTACATG
54176090 TAAG
1 TAAG
54176094 GCCACGTCCG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
42 26 0.67
43 13 0.33
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGAGACATCGATACTGAATTACATG
Found at i:54189740 original size:47 final size:47
Alignment explanation
Indices: 54189687--54189816 Score: 188
Period size: 47 Copynumber: 2.8 Consensus size: 47
54189677 GTACGCATAA
* * *
54189687 TACCTTGATTTGGCTACGGGTCATGGTATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
* * *
54189734 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
* *
54189781 TACCTTGATTTGGCTATGGGGCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
54189817 TATCGATTGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:54191990 original size:49 final size:50
Alignment explanation
Indices: 54191758--54191982 Score: 215
Period size: 49 Copynumber: 4.5 Consensus size: 50
54191748 TGTGGTCATG
* * * * *
54191758 TGTGTAGTACTTAGTACAGGCTACTACGTGTACCGAATTATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
* * * * *
54191807 TGTGTAGTACTAAGAGCAGGCTACT-CTGTGTACCTGATAACTTCGATCACT
1 TGTGTAGTACTAAGTGCAGGCTACTAC-GTGTACCGGATAA-TTAGGTCACA
* *** ** *
54191858 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
*
54191908 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT-GGT-AGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCA-CA
* *
54191957 TGTGTAGTACTAAGTGTAGGCCACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
54191983 TGCGTACCAT
Statistics
Matches: 141, Mismatches: 30, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
48 2 0.01
49 59 0.42
50 44 0.31
51 35 0.25
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACA
Found at i:54202611 original size:13 final size:13
Alignment explanation
Indices: 54202593--54202619 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54202583 GAAGTAATAG
54202593 CACACGGGCGTGT
1 CACACGGGCGTGT
54202606 CACACGGGCGTGT
1 CACACGGGCGTGT
54202619 C
1 C
54202620 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:54207840 original size:47 final size:47
Alignment explanation
Indices: 54207771--54207902 Score: 147
Period size: 47 Copynumber: 2.8 Consensus size: 47
54207761 GTGTGAATAA
* * *
54207771 TACCTTGATTTGGCTGTGGGCCATGGTATAGGTATTTAGAGAGGAGT
1 TACCTTGATTTGGCTATAGGCCATGGTATAGGTATTTAGAGAGAAGT
* * * ** * *
54207818 TACCTTAATTTTGCTATAGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTATAGGCCATGGTATAGGTATTTAGAGAGAAGT
* * *
54207865 TACCTTGATTTGGCTACAAGCCATGATATAGGTATTTA
1 TACCTTGATTTGGCTATAGGCCATGGTATAGGTATTTA
54207903 TCGATTATGA
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTATAGGCCATGGTATAGGTATTTAGAGAGAAGT
Found at i:54213622 original size:40 final size:40
Alignment explanation
Indices: 54213522--54213786 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
54213512 GCTCCTCGTT
* * * *
54213522 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
54213562 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
54213601 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
54213641 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
54213681 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
54213721 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
54213762 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
54213787 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:54213746 original size:80 final size:80
Alignment explanation
Indices: 54213489--54213786 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
54213479 AAATCACGTA
* ** * * *
54213489 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
54213551 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
54213567 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
54213630 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
54213647 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
54213711 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
54213727 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
54213787 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:54213795 original size:41 final size:41
Alignment explanation
Indices: 54213718--54213795 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
54213708 TTTGTATCTC
* * *
54213718 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
54213759 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
54213796 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:54220551 original size:40 final size:40
Alignment explanation
Indices: 54220451--54220715 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
54220441 GCTCCTCGTT
* * * *
54220451 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
54220491 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
54220530 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
54220570 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
54220610 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
54220650 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
54220691 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
54220716 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:54220675 original size:80 final size:80
Alignment explanation
Indices: 54220418--54220715 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
54220408 AAATCACGTA
* ** * * *
54220418 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
54220480 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
54220496 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
54220559 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
54220576 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
54220640 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
54220656 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
54220716 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:54220724 original size:41 final size:41
Alignment explanation
Indices: 54220647--54220724 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
54220637 TTTGTATCTC
* * *
54220647 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
54220688 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
54220725 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:54227051 original size:15 final size:15
Alignment explanation
Indices: 54227031--54227069 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
54227021 AATGAGCACC
*
54227031 AGAGGTACTCGTGGA
1 AGAGGTACACGTGGA
54227046 AGAGGTACACGTGGA
1 AGAGGTACACGTGGA
54227061 AGAGGTACA
1 AGAGGTACA
54227070 AGAGGCTGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.38, T:0.15
Consensus pattern (15 bp):
AGAGGTACACGTGGA
Found at i:54233760 original size:44 final size:45
Alignment explanation
Indices: 54233702--54233864 Score: 150
Period size: 46 Copynumber: 3.6 Consensus size: 45
54233692 CCGTGCTGAT
* *
54233702 GCATGTCCCAGACATGTCTTACACTAGC-ACATCTCGTA-GTCGGC
1 GCATGTCCCAGACATGTCTTACACTAGCAACATCTCG-AGGCCGAC
* * * *
54233746 GCATGTCCTAGACATGTCTGACACTGGCTAACATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-AACATCTCGAGGCCGAC
* ** * * * *
54233792 GCTTGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAG-CAACATCTCGAGGCCGAC
54233838 GCCATGTCCCAGACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
54233865 GGCACACAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
44 25 0.26
45 1 0.01
46 47 0.48
47 14 0.14
48 10 0.10
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTAGCAACATCTCGAGGCCGAC
Found at i:54239515 original size:28 final size:28
Alignment explanation
Indices: 54239483--54239585 Score: 145
Period size: 28 Copynumber: 3.7 Consensus size: 28
54239473 ATTGCATGAC
54239483 TATGAATGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
54239511 TATGAAAGTGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
54239539 TATGAATGTGATTGTG-CTCGATGGACCA
1 TATGAATGTGATTGGGCCT-GATGGGCCA
*
54239567 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
54239586 AAAGGGGCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
27 2 0.03
28 61 0.94
29 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:54239549 original size:56 final size:57
Alignment explanation
Indices: 54239483--54239602 Score: 163
Period size: 56 Copynumber: 2.1 Consensus size: 57
54239473 ATTGCATGAC
* * *
54239483 TATGAATGTGATTGGGC-CTGATGGGCCATATGAAAGTGATTGGGCCT-AATGGGCCA
1 TATGAATGTGATTGGGCTC-GATGGACCATATGAAAGAGATTGGGCCTAAAGGGGCCA
* *
54239539 TATGAATGTGATTGTGCTCGATGGACCATATGAATGAGATTGGGCCTAAAGGGGCCA
1 TATGAATGTGATTGGGCTCGATGGACCATATGAAAGAGATTGGGCCTAAAGGGGCCA
*
54239596 AATGAAT
1 TATGAAT
54239603 AAGTATGGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 41 0.73
57 15 0.27
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (57 bp):
TATGAATGTGATTGGGCTCGATGGACCATATGAAAGAGATTGGGCCTAAAGGGGCCA
Found at i:54246714 original size:47 final size:47
Alignment explanation
Indices: 54246663--54247102 Score: 565
Period size: 47 Copynumber: 9.1 Consensus size: 47
54246653 TTAGGATTTT
* *
54246663 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
54246710 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
54246761 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
54246808 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
** *
54246859 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
54246912 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
54246959 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
54247006 ATGTAATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
54247053 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
54247100 ATG
1 ATG
54247103 CGAAACGTGT
Statistics
Matches: 353, Mismatches: 29, Indels: 22
0.87 0.07 0.05
Matches are distributed among these distances:
47 216 0.61
49 3 0.01
50 2 0.01
51 85 0.24
52 1 0.00
53 46 0.13
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:54246939 original size:23 final size:23
Alignment explanation
Indices: 54246912--54246986 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
54246902 CGAATGGCCA
54246912 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* **
54246935 ATGTG-TGATAAGGCTG-A-ATGGCCA
1 ATGTGATG--AATG-TGAACAT-GCGT
54246959 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
54246982 ATGTG
1 ATGTG
54246987 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 4 0.10
23 18 0.46
24 13 0.33
25 4 0.10
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.29
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:54246952 original size:25 final size:25
Alignment explanation
Indices: 54246924--54246995 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 25
54246914 GTGATGAATG
54246924 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
* * *
54246949 TG-A-ATG-GCCA-ATGTGATGAATG-
1 TGAACATGCG-TATGTGTGAT-AAGGC
54246971 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
54246996 CGAATGGCCA
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
22 9 0.26
23 8 0.24
24 8 0.24
25 9 0.26
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (25 bp):
TGAACATGCGTATGTGTGATAAGGC
Found at i:54247165 original size:46 final size:46
Alignment explanation
Indices: 54247076--54247166 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
54247066 GAACATGAAT
* * * *
54247076 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
54247122 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
54247167 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:54247173 original size:141 final size:140
Alignment explanation
Indices: 54246674--54247149 Score: 438
Period size: 151 Copynumber: 3.3 Consensus size: 140
54246664 TGTGATGGAT
* * * **
54246674 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATAT
1 GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTAATGAATGTGAA--C--ATGCATAT
* * ** * *
54246739 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATG
62 ATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATG
* *
54246804 GCCAATGTGATGAAT
127 GCCAATGCGA-GAAC
*** * * * **
54246819 GTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATAT
1 GTGAA--C--ATGCGTATGTGTGATAAAGCCAAATGGCCAATGTAATGAATGTGAA-C---ATGC
* ** *
54246884 ATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGC
58 ATATAT--GAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGC
* * *
54246949 TGAATGGCCAATGTGATGAAT
121 CGAATGGCCAATGCGA-GAAC
* *
54246970 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTAATGAATGTGAACATGCATATATGA
1 GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTAATGAATGTGAACATGCATATATGA
* *
54247035 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
66 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCA
54247100 ATGCGA-AAC
131 ATGCGAGAAC
* *
54247109 GTGTATGAGATG-GATATGTG-G-TAAAGCCAAATGGCTAATGT
1 GTG-A--ACATGCG-TATGTGTGATAAAGCCAAATGGCCAATGT
54247150 GAGATATGTA
Statistics
Matches: 295, Mismatches: 25, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
139 5 0.02
140 18 0.06
141 67 0.23
142 10 0.03
143 8 0.03
145 5 0.02
146 1 0.00
147 43 0.15
148 2 0.01
149 55 0.19
151 81 0.27
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (140 bp):
GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTAATGAATGTGAACATGCATATATGA
GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCA
ATGCGAGAAC
Found at i:54247454 original size:37 final size:37
Alignment explanation
Indices: 54247309--54247453 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
54247299 GGAAATATAT
54247309 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
54247346 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
54247383 TCCGGGTAAGACCCGATGACTACGCGTGGGGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
54247420 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
54247454 TCGTCTGAGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:54248966 original size:40 final size:40
Alignment explanation
Indices: 54248723--54248954 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
54248713 GAGAATTGAG
*
54248723 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
54248763 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
54248803 AGTGATATATCCGAGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
54248843 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** *
54248883 AGTGATATATCCGTGCTAAACCCCGAAGAGTATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
54248923 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
54248955 ATCATGCTGG
Statistics
Matches: 174, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 174 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:54249285 original size:56 final size:56
Alignment explanation
Indices: 54249148--54249299 Score: 150
Period size: 57 Copynumber: 2.7 Consensus size: 56
54249138 ATATGGGCAT
* * * *
54249148 TATGTGTGCGAAT-GATTAG-AGGCACTGTGTGTGCAAATTCTTTTAACCGAGCAC
1 TATGTGTGCGAATCGATAAGTGGGCACTGTGTGTGCAAATTCTTTCAACCAAGCAC
* * * * *
54249202 TATGTGTGCAAATCGGTAATTGAGGCACTGTGTGTGCGAGTTC-TTCAACCAAGCAC
1 TATGTGTGCGAATCGATAAGTG-GGCACTGTGTGTGCAAATTCTTTCAACCAAGCAC
*
54249258 TATGTGTGCGAGATCGATCAGTGGGCACTAAGTGTGTG-AAAT
1 TATGTGTGCGA-ATCGATAAGTGGGCACT--GTGTGTGCAAAT
54249300 GAGATTCATG
Statistics
Matches: 77, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
54 12 0.16
55 3 0.04
56 27 0.35
57 28 0.36
58 7 0.09
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (56 bp):
TATGTGTGCGAATCGATAAGTGGGCACTGTGTGTGCAAATTCTTTCAACCAAGCAC
Found at i:54253055 original size:47 final size:47
Alignment explanation
Indices: 54253004--54253438 Score: 575
Period size: 47 Copynumber: 9.1 Consensus size: 47
54252994 TTAGGATTTT
* * *
54253004 ATGTGATGGATGTAAACATGCGTATGTCTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
54253051 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
54253098 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
54253149 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
54253196 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCC-AATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
54253248 ATGTGATGAATGTGAACATGCGTATGTGTGGTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
54253295 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * * *
54253342 ATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* ** * * *
54253389 ATATGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
54253436 ATG
1 ATG
54253439 CGAAACGTGT
Statistics
Matches: 345, Mismatches: 32, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
46 16 0.05
47 242 0.70
48 1 0.00
49 2 0.01
51 43 0.12
52 24 0.07
53 17 0.05
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:54253153 original size:24 final size:24
Alignment explanation
Indices: 54253125--54253200 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
54253115 CCGTATATAT
54253125 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
54253149 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
54253172 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
54253196 ATGTG
1 ATGTG
54253201 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:54253322 original size:23 final size:23
Alignment explanation
Indices: 54253248--54253322 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
54253238 CCAATGGCCA
54253248 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
54253271 ATGTG-TGGTAAGGCCG-A-ATGGCCA
1 ATGTGAT-G-AATG-TGAACAT-GCGT
54253295 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
54253318 ATGTG
1 ATGTG
54253323 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 2 0.05
23 19 0.51
24 14 0.38
25 2 0.05
ACGTcount: A:0.28, C:0.11, G:0.33, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:54253501 original size:46 final size:46
Alignment explanation
Indices: 54253412--54253502 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
54253402 GAACATGAAT
* * * *
54253412 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
54253458 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
54253503 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:54253509 original size:141 final size:139
Alignment explanation
Indices: 54253018--54253487 Score: 489
Period size: 146 Copynumber: 3.3 Consensus size: 139
54253008 GATGGATGTA
* * * * * *
54253018 AACATGCGTATGTCTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
1 AACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGAT
* * **
54253083 AAGGACGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCC
66 AA-GACCAATGGCCAATATGATGAATGTGAACATG-A-ATATATGTG-G-TAAGGCCGAATGGCC
* *
54253148 AATGTGATGAATGTG
126 AATGCGA-GAACGTG
* * **
54253163 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATG
1 AACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAA-C---ATGCATATAT-
* * * ** *
54253228 CGTGATAAGGCCAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGGTAAGGCCGAATGGC
61 -GAGATAAGACCAATGGCCAATATGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGC
* *
54253293 CAATGTGATGAATGTG
125 CAATGCGA-GAACGTG
* *
54253309 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGAGAT
1 AACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGAT
*
54253374 AAGACCGAATGGCCAATATGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
66 AAGACC-AATGGCCAATATGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCCAATG
54253439 CGA-AACGTG
130 CGAGAACGTG
* *
54253448 TATGAGATG-GATATGTG-G-TAAAGCCAAATGGCTAATGTGA
1 -A--ACATGCG-TATGTGTGATAAAGCCAAATGGCCAATGTGA
54253488 GATATGTACG
Statistics
Matches: 287, Mismatches: 27, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
139 5 0.02
140 29 0.10
141 57 0.20
142 18 0.06
145 49 0.17
146 80 0.28
147 1 0.00
148 7 0.02
149 6 0.02
150 28 0.10
151 7 0.02
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (139 bp):
AACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGAGAT
AAGACCAATGGCCAATATGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCCAATGC
GAGAACGTG
Found at i:54253697 original size:37 final size:37
Alignment explanation
Indices: 54253647--54253796 Score: 237
Period size: 37 Copynumber: 4.1 Consensus size: 37
54253637 GGAAATATAT
54253647 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
54253684 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
54253721 TCCGGGTAAGACCCGATGACTACGCGTGGGGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
54253758 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
54253795 TC
1 TC
54253797 TGAGCTAAAG
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:54257830 original size:20 final size:20
Alignment explanation
Indices: 54257805--54257845 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
54257795 ATCACTTACA
54257805 ATCAAGGCTTAAAAGTGTTG
1 ATCAAGGCTTAAAAGTGTTG
*
54257825 ATCAAGGCTTCAAAGTGTTG
1 ATCAAGGCTTAAAAGTGTTG
54257845 A
1 A
54257846 AACCCTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (20 bp):
ATCAAGGCTTAAAAGTGTTG
Found at i:54258670 original size:27 final size:27
Alignment explanation
Indices: 54258617--54258674 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
54258607 ACCCTCTAAT
* **
54258617 TGATAAAATGATTGTTATGCCCCTATG
1 TGATAAAATGACTGTTATAACCCTATG
* *
54258644 TGATAAAATGACTGTTTTAACCTTATG
1 TGATAAAATGACTGTTATAACCCTATG
54258671 TGAT
1 TGAT
54258675 GTATGATTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (27 bp):
TGATAAAATGACTGTTATAACCCTATG
Found at i:54260518 original size:38 final size:38
Alignment explanation
Indices: 54260469--54260777 Score: 422
Period size: 38 Copynumber: 8.1 Consensus size: 38
54260459 TTAAGCTCGA
**
54260469 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATAAAACCCGG
* ** *
54260507 ATATAATACCAGCACTAAGCCCGCGGGATTTAACCAGG
1 ATATAATACCAGCACTAAGCCTGCGGGATAAAACCCGG
**
54260545 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATAAAACCCGG
** *
54260583 ATATAATACCAGCACTAAGCCCACGGGATAAAACCCGA
1 ATATAATACCAGCACTAAGCCTGCGGGATAAAACCCGG
54260621 ATATAATACCAGCA-TGAAGCCTGCGGGATAAAACCCGG
1 ATATAATACCAGCACT-AAGCCTGCGGGATAAAACCCGG
* * *
54260659 ATATAATACCAGCACGAAGCCTGTGGGATAAAACACGG
1 ATATAATACCAGCACTAAGCCTGCGGGATAAAACCCGG
* *
54260697 ATATAATACCAGCACGAAGCCTACGGGATAAAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATAAAACCCGG
* ** *
54260735 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACTAAGCCTGCGGGATAAAACCCGG
54260773 ATATA
1 ATATA
54260778 CATCAAATAT
Statistics
Matches: 247, Mismatches: 22, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
37 1 0.00
38 246 1.00
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (38 bp):
ATATAATACCAGCACTAAGCCTGCGGGATAAAACCCGG
Found at i:54264374 original size:27 final size:28
Alignment explanation
Indices: 54264290--54264387 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
54264280 CATGAGATTG
* * * *
54264290 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
54264319 GCACTAAGTTTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54264347 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
54264374 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
54264388 GACTTAATAC
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:54278240 original size:40 final size:40
Alignment explanation
Indices: 54278196--54278419 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
54278186 AAGTGAATAT
* * * * **
54278196 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
54278236 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
54278276 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
54278316 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
54278356 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
54278395 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
54278420 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:54278257 original size:80 final size:80
Alignment explanation
Indices: 54278164--54278419 Score: 286
Period size: 80 Copynumber: 3.2 Consensus size: 80
54278154 GCTGTCCGGC
* * * *
54278164 TAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCTTTGTGC
1 TAAGTCCCGAAGGCATTCGTGC-AAGTTG-ATAAATCCGGATTAAG-TCCCGAAGGCATTCGTGC
54278226 GAGATACTAAATCCGGGT
63 GAGATACTAAATCCGGGT
* * *
54278244 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TAAGTCCCGAAGGCATTCGTGCAAGTTGATAAATCCGGATTAAGTCCCGAAGGCATTCGTGCGAG
* **
54278309 TTGTTAAATCCGGGT
66 ATACTAAATCCGGGT
* * * * *
54278324 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAG
1 TAAGTCCCGAAGGCATTCGTGCAAGTTGATAAATCCGGATTAAGTCCCGAAGGCATTCGTGCGAG
* * *
54278388 TTACTAAAACCGGGC
66 ATACTAAATCCGGGT
*
54278403 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
54278420 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
79 34 0.22
80 114 0.73
81 8 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTCGTGCAAGTTGATAAATCCGGATTAAGTCCCGAAGGCATTCGTGCGAG
ATACTAAATCCGGGT
Found at i:54278377 original size:120 final size:119
Alignment explanation
Indices: 54278161--54278419 Score: 308
Period size: 120 Copynumber: 2.2 Consensus size: 119
54278151 AATGCTGTCC
* * * * * *
54278161 GGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGATCCGAAGGCCTTTGT
1 GGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGATTAAGATCCGAAGGCATTCGT
** *
54278224 GCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCG
64 GCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCG
* *
54278281 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAG-TCCCGAAGGCATTCGTG
1 GGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGATTAAGAT-CCGAAGGCATTCGTG
* ** * *
54278345 CGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCG
65 CGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCG
*
54278400 GGCTATGTCCCGAAGGCATT
1 GGCTAAGTCCCGAAGGCATT
54278420 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 18, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
119 34 0.29
120 76 0.64
121 8 0.07
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (119 bp):
GGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGATTAAGATCCGAAGGCATTCGTGC
GAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCG
Found at i:54286297 original size:39 final size:40
Alignment explanation
Indices: 54286093--54286315 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
54286083 TTGAATGCTG
* * * * * *
54286093 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
54286133 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
54286173 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
54286213 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
54286253 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
54286292 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54286316 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:54286335 original size:79 final size:80
Alignment explanation
Indices: 54286168--54286350 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
54286158 GTGCGAGATA
** * *
54286168 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
54286233 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
54286248 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
54286312 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
54286327 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
54286351 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:54292867 original size:59 final size:58
Alignment explanation
Indices: 54292801--54292924 Score: 139
Period size: 59 Copynumber: 2.1 Consensus size: 58
54292791 TTCCTTTTAC
* *
54292801 AATTTTCTATAACTTTTAAATAGTTTTTATATTTTTTGAA-AA-TTTT-AAATAACTTTAA-T
1 AATTTTCTAT-ACTTTTAAA-A-TTTTTAGAGTTTTT-AACAATTTTTAAAATAA-TTTAATT
*
54292860 AATTTTCTATATTTTTAAAATTTTTAGAGTTTTTAATCAATTTTTAAAATAATTTAATT
1 AATTTTCTATACTTTTAAAATTTTTAGAGTTTTTAA-CAATTTTTAAAATAATTTAATT
54292919 AATTTT
1 AATTTT
54292925 GAAAAAAAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
55 2 0.04
56 12 0.21
57 3 0.05
58 17 0.30
59 23 0.40
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (58 bp):
AATTTTCTATACTTTTAAAATTTTTAGAGTTTTTAACAATTTTTAAAATAATTTAATT
Found at i:54295970 original size:12 final size:11
Alignment explanation
Indices: 54295953--54295986 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
54295943 CCTGAACAGG
54295953 TCTTTTTTTCTT
1 TCTTTTTTT-TT
54295965 TCTTTTTTTTT
1 TCTTTTTTTTT
54295976 T-TTTTTTTTT
1 TCTTTTTTTTT
54295986 T
1 T
54295987 TACTCCAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.45
11 3 0.14
12 9 0.41
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:54300946 original size:20 final size:19
Alignment explanation
Indices: 54300923--54300966 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
54300913 AAAAAATAAT
54300923 ATTTACAATTAAAAAAGTTA
1 ATTTACAATTAAAAAAG-TA
** *
54300943 ATTTATTATTAAACAAGTA
1 ATTTACAATTAAAAAAGTA
54300962 ATTTA
1 ATTTA
54300967 ATTAAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
ATTTACAATTAAAAAAGTA
Found at i:54300970 original size:20 final size:20
Alignment explanation
Indices: 54300930--54300966 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
54300920 AATATTTACA
54300930 ATTAAAAAAGTTAATTTATT
1 ATTAAAAAAGTTAATTTATT
*
54300950 ATTAAACAAG-TAATTTA
1 ATTAAAAAAGTTAATTTA
54300967 ATTAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTAAAAAAGTTAATTTATT
Found at i:54300972 original size:17 final size:18
Alignment explanation
Indices: 54300929--54300972 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
54300919 TAATATTTAC
54300929 AATTAAAAAAGTTAATTT
1 AATTAAAAAAGTTAATTT
*
54300947 ATTATTAAACAAG-TAATTT
1 A--ATTAAAAAAGTTAATTT
54300966 AATTAAA
1 AATTAAA
54300973 TAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 7 0.30
20 9 0.39
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (18 bp):
AATTAAAAAAGTTAATTT
Found at i:54304076 original size:48 final size:48
Alignment explanation
Indices: 54303885--54304056 Score: 290
Period size: 48 Copynumber: 3.6 Consensus size: 48
54303875 ATGCCTCACA
*
54303885 CCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACGATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATG
* * *
54303933 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACGTAATGATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATG
* *
54303981 CCGATGCCATGTCCCAGGCATGGTCTTACACTGGCTCACACAACGATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATG
54304029 CCGATGCCATGTCCCAGACATGGTCTTA
1 CCGATGCCATGTCCCAGACATGGTCTTA
54304057 TACGGGATCA
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 114 1.00
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATG
Found at i:54304646 original size:20 final size:19
Alignment explanation
Indices: 54304604--54304647 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
54304594 GACAACCCAC
* *
54304604 ATTTTCCATTATTTCACAC
1 ATTTTCCACTATTTCACAA
*
54304623 ATTTTCCACCTATTTTACAA
1 ATTTTCCA-CTATTTCACAA
54304643 ATTTT
1 ATTTT
54304648 ACAAAATGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTCCACTATTTCACAA
Found at i:54306606 original size:56 final size:55
Alignment explanation
Indices: 54306526--54306701 Score: 264
Period size: 56 Copynumber: 3.2 Consensus size: 55
54306516 TTTGTGTACA
* *
54306526 AGTAAGACCACGTTTAATACGTTGGCATTGATATGTGATTCCGATATATGTGTGCG
1 AGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCCGATATATGTGTG-G
*
54306582 AGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCTGATATATGTGTGTG
1 AGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCCGATATATGTGTG-G
* * *
54306638 AGTAAGACTATGTTTAATATGTTGGCATCGATATGTGATT-CTATTATATGTGTGG
1 AGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCCGA-TATATGTGTGG
54306693 AGTAAGACC
1 AGTAAGACC
54306702 CTGTTTGAGA
Statistics
Matches: 110, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
55 10 0.09
56 100 0.91
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.36
Consensus pattern (55 bp):
AGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCCGATATATGTGTGG
Found at i:54306727 original size:55 final size:56
Alignment explanation
Indices: 54306526--54306732 Score: 197
Period size: 56 Copynumber: 3.7 Consensus size: 56
54306516 TTTGTGTACA
* * * * ** * *
54306526 AGTAAGACCACGTTTAATACGTTGGCATTGATATGTGATTCCGATATATGTGTGCG
1 AGTAAGACCATGTTTAACATGTTGGAATCAATATGTGATTCTGATATATGTGTGTG
* * * *
54306582 AGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATTCTGATATATGTGTGTG
1 AGTAAGACCATGTTTAACATGTTGGAATCAATATGTGATTCTGATATATGTGTGTG
* * * *
54306638 AGTAAGACTATGTTTAATATGTTGGCATCGATATGTGATTCT-ATTATATGTGTG-G
1 AGTAAGACCATGTTTAACATGTTGGAATCAATATGTGATTCTGA-TATATGTGTGTG
* *
54306693 AGTAAGACCCTGTTTGAGACA-G-TGGAATTAATATGTGATT
1 AGTAAGACCATGTTT-A-ACATGTTGGAATCAATATGTGATT
54306733 ACATGTAAGA
Statistics
Matches: 136, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
55 30 0.22
56 104 0.76
57 2 0.01
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.37
Consensus pattern (56 bp):
AGTAAGACCATGTTTAACATGTTGGAATCAATATGTGATTCTGATATATGTGTGTG
Found at i:54317162 original size:22 final size:22
Alignment explanation
Indices: 54317134--54317176 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
54317124 TTTTTGGTTA
54317134 GACCGATTCTTACTATCTCCCT
1 GACCGATTCTTACTATCTCCCT
*
54317156 GACCGATTCTTGCTATCTCCC
1 GACCGATTCTTACTATCTCCC
54317177 CTTCTCTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.37, G:0.12, T:0.35
Consensus pattern (22 bp):
GACCGATTCTTACTATCTCCCT
Found at i:54318709 original size:34 final size:35
Alignment explanation
Indices: 54318645--54318731 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 35
54318635 TATACTGAAT
* * * *
54318645 TGGGCTAAGGTCCACACTGCTACTGTTACCG-TAA
1 TGGGCTAAGGCCCAAACTGATACTGCTACCGATAA
* *
54318679 TGGGCTAAGGCCCATACTGATATTGCTACCGATAA
1 TGGGCTAAGGCCCAAACTGATACTGCTACCGATAA
* *
54318714 -GGGTTTAGGCCCAAACTG
1 TGGGCTAAGGCCCAAACTG
54318732 TTTACACTGC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 41 0.93
35 3 0.07
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (35 bp):
TGGGCTAAGGCCCAAACTGATACTGCTACCGATAA
Found at i:54319971 original size:35 final size:35
Alignment explanation
Indices: 54319932--54320041 Score: 86
Period size: 35 Copynumber: 3.1 Consensus size: 35
54319922 AAACGTATAT
54319932 ATACTACCACATTTCAAACATCAATTACCAATTCA
1 ATACTACCACATTTCAAACATCAATTACCAATTCA
* * ** * *
54319967 ATACTTACCA-A-ATCATACCAT-AGCTAGGTC-A-TAA
1 ATAC-TACCACATTTCA-AACATCAATTA--CCAATTCA
54320001 TATACTACCACATTTCAAACATCAATTACCAATTCA
1 -ATACTACCACATTTCAAACATCAATTACCAATTCA
54320037 ATACT
1 ATACT
54320042 TACAAAATCA
Statistics
Matches: 53, Mismatches: 12, Indels: 20
0.62 0.14 0.24
Matches are distributed among these distances:
34 14 0.26
35 25 0.47
36 14 0.26
ACGTcount: A:0.42, C:0.26, G:0.03, T:0.29
Consensus pattern (35 bp):
ATACTACCACATTTCAAACATCAATTACCAATTCA
Found at i:54320043 original size:70 final size:70
Alignment explanation
Indices: 54319930--54320071 Score: 266
Period size: 70 Copynumber: 2.0 Consensus size: 70
54319920 CTAAACGTAT
* *
54319930 ATATACTACCACATTTCAAACATCAATTACCAATTCAATACTTACCAAATCATACCATAGCTAGG
1 ATATACTACCACATTTCAAACATCAATTACCAATTCAATACTTACAAAATCATACCATAACTAGG
54319995 TCATA
66 TCATA
54320000 ATATACTACCACATTTCAAACATCAATTACCAATTCAATACTTACAAAATCATACCATAACTAGG
1 ATATACTACCACATTTCAAACATCAATTACCAATTCAATACTTACAAAATCATACCATAACTAGG
54320065 TCATA
66 TCATA
54320070 AT
1 AT
54320072 CATATTAATT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.43, C:0.25, G:0.04, T:0.29
Consensus pattern (70 bp):
ATATACTACCACATTTCAAACATCAATTACCAATTCAATACTTACAAAATCATACCATAACTAGG
TCATA
Found at i:54320570 original size:200 final size:197
Alignment explanation
Indices: 54320222--54320625 Score: 614
Period size: 200 Copynumber: 2.0 Consensus size: 197
54320212 TTCAACTAAA
* **
54320222 TACCATTACAAGTCCACCTGTACATGCTGTTATAACCTTGGCCAAAACATAAAAAACTACTGATA
1 TACCA-TACAAGTCCACCTATACATGCCATTATAACCTTGGCCAAAACATAAAAAACTACTGATA
* * * *
54320287 TATATGTTGGATAGTGTGATAAATCTCCGATGAGATTCCAAAGTGGTCAAGCTTCCGATACTCTA
65 TATATGCTGGATAGTGAGATAAATCTCCGACGAGATTCCAAAGTGGTCAAGCTTCCGATAATCTA
*
54320352 TAAAACATAGGAAAGAAACTATGTAAAGCAAATAATGCTTAGTAAGTTCATAGAAAATAAAACAT
130 TAAAACATAGGAAAGAAACTACGT-AAGCAAATAATGCTTAGTAAGTTCATAGAAAATAAAACAT
54320417 AACT
194 AACT
*
54320421 TACCATACAAGTCCACCTATACATGCCATTATAACCTTGGCCAAAACATATAAAACTA-TAGATA
1 TACCATACAAGTCCACCTATACATGCCATTATAACCTTGGCCAAAACATAAAAAACTACT-G--A
* * * *
54320485 TATATATGCTGGATAGTGAGATAGATCTCTGACGAGATTCTAAA-TCGGTCAAGCTTTCGATAAT
63 TATATATGCTGGATAGTGAGATAAATCTCCGACGAGATTCCAAAGT-GGTCAAGCTTCCGATAAT
*
54320549 CTATAAAACATAGGAAAGAAACTACGTAAGCAAATAATGCTTAGTAAGTTCGTAGAAAATAAAAC
127 CTATAAAACATAGGAAAGAAACTACGTAAGCAAATAATGCTTAGTAAGTTCATAGAAAATAAAAC
54320614 ATAACT
192 ATAACT
54320620 TACCAT
1 TACCAT
54320626 TTCATTTACA
Statistics
Matches: 187, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
197 1 0.01
198 50 0.27
199 55 0.29
200 81 0.43
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (197 bp):
TACCATACAAGTCCACCTATACATGCCATTATAACCTTGGCCAAAACATAAAAAACTACTGATAT
ATATGCTGGATAGTGAGATAAATCTCCGACGAGATTCCAAAGTGGTCAAGCTTCCGATAATCTAT
AAAACATAGGAAAGAAACTACGTAAGCAAATAATGCTTAGTAAGTTCATAGAAAATAAAACATAA
CT
Found at i:54322796 original size:28 final size:28
Alignment explanation
Indices: 54322756--54322825 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
54322746 ATAGTAAGTC
*
54322756 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
54322784 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
54322812 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54322826 CAATCTCATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:54323385 original size:101 final size:105
Alignment explanation
Indices: 54323209--54323503 Score: 490
Period size: 101 Copynumber: 2.8 Consensus size: 105
54323199 CTTCTTAAAC
* *
54323209 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAATATAATAAACAATTCAAGTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
54323274 TTAATCCATGCATATTGGTCAGCTACTTTCATC-T-TT-T
66 TTAATCCATGCATATTGGTCAGCTACTTTCATCTTATTAT
54323311 ATAATATATTAACATATATT-AAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
*
54323375 TTAATCCATGCATATTGGTCGGCTACTTTCATCTTTTATTAAAT
66 TTAATCCATGCATATTGGTCAGCTACTTTCATC--TTATT--AT
*
54323419 ATAATATATTAACATATATTAAAGTATACCACAATGCCATAAAACATAATAAATAATTCAAGTCA
1 ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
54323484 TTAATCCATGCATATTGGTC
66 TTAATCCATGCATATTGGTC
54323504 GGCCGTTAAT
Statistics
Matches: 181, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
101 74 0.41
102 20 0.11
104 1 0.01
105 2 0.01
108 21 0.12
109 63 0.35
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (105 bp):
ATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACATAATAAATAATTCAAGTCA
TTAATCCATGCATATTGGTCAGCTACTTTCATCTTATTAT
Found at i:54323468 original size:109 final size:107
Alignment explanation
Indices: 54323188--54323506 Score: 506
Period size: 109 Copynumber: 3.0 Consensus size: 107
54323178 GAAAGATGAA
* *
54323188 TACTTTCCTCTCTTCTTAAACATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
1 TACTTTCATCT-TT-TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
* * *
54323253 TATAATAAACAATTCAAGTCATTAATCCATGCATATTGGTCAGC
64 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
54323297 TACTTTCATC--TTT---TATAATATATTAACATATATT-AAGTATACCATAATGCCATAAAACA
1 TACTTTCATCTTTTTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACA
54323356 TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
66 TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
*
54323398 TACTTTCATCTTTTATTAAATATAATATATTAACATATATTAAAGTATACCACAATGCCATAAAA
1 TACTTTCATC-TTT-TTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAA
54323463 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
64 CATAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
54323507 CGTTAATTCC
Statistics
Matches: 196, Mismatches: 6, Indels: 16
0.90 0.03 0.07
Matches are distributed among these distances:
101 74 0.38
102 20 0.10
104 1 0.01
105 4 0.02
106 1 0.01
108 21 0.11
109 75 0.38
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (107 bp):
TACTTTCATCTTTTTAAATATAATATATTAACATATATTAAAGTATACCATAATGCCATAAAACA
TAATAAATAATTCAAGTCATTAATCCATGCATATTGGTCGGC
Found at i:54325983 original size:47 final size:47
Alignment explanation
Indices: 54325920--54326221 Score: 442
Period size: 47 Copynumber: 6.4 Consensus size: 47
54325910 CCCTTCGGGA
* * *
54325920 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
54325967 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54326014 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
54326061 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54326108 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
54326155 CCTATCACATATATATACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
54326202 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
54326222 GTACATCAAT
Statistics
Matches: 237, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 237 1.00
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:54331924 original size:19 final size:19
Alignment explanation
Indices: 54331900--54331937 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
54331890 GTATGCAAAA
54331900 ACGATTTTCAAACTAAGTC
1 ACGATTTTCAAACTAAGTC
54331919 ACGATTTTCAAACTAAGTC
1 ACGATTTTCAAACTAAGTC
54331938 TTCTTTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (19 bp):
ACGATTTTCAAACTAAGTC
Found at i:54335988 original size:52 final size:50
Alignment explanation
Indices: 54335905--54336063 Score: 182
Period size: 50 Copynumber: 3.1 Consensus size: 50
54335895 AAATGCATGG
* *
54335905 TTTAA-GATGCAAAC-TAAATGAACAT-ATGAGTTACTTAATGCATGACTTAA
1 TTTAATGATGCAAACTTAACT-AACATGA-GAGTTACATAATGCATGACTT-A
* * *
54335955 TTTAATTATGCAAACTTTAACTAACATGAGAGTTACATAAAGCATGTCATTA
1 TTTAATGATGCAAAC-TTAACTAACATGAGAGTTACATAATGCATGAC-TTA
*
54336007 TTT-ATGATGCAAACTTAACTAACATGAGAGTTACATAATGCGTGACTTTA
1 TTTAATGATGCAAACTTAACTAACATGAGAGTTACATAATGCATGAC-TTA
54336057 TTTAATG
1 TTTAATG
54336064 CAAAACACAT
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
50 40 0.43
51 21 0.23
52 25 0.27
53 7 0.08
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (50 bp):
TTTAATGATGCAAACTTAACTAACATGAGAGTTACATAATGCATGACTTA
Found at i:54338700 original size:46 final size:45
Alignment explanation
Indices: 54338633--54338808 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
54338623 TGTAACCCGC
* * *
54338633 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGGGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGATTAG-AT
* * ** *
54338679 CCATAAATGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-GATTAGAT
* *** * * *
54338725 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGTAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGAGATTAG-AT
*
54338772 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
54338809 TGCCCAAACA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 70 0.67
47 35 0.33
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGATTAGAT
Found at i:54338748 original size:93 final size:93
Alignment explanation
Indices: 54338641--54338812 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
54338631 GCCCATAAGT
***
54338641 GAACTCGGACTCAACTCAACGAGCTCGGGGGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
54338706 CAAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* * * *
54338734 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
* *
54338799 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
54338813 CAAACATCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:54340563 original size:19 final size:18
Alignment explanation
Indices: 54340515--54340563 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
54340505 TTCAGTCTCC
* *
54340515 TTTTCAAACTTTCTTTCT
1 TTTTGAAACTTTCTTTAT
*
54340533 TTTTGCACACTTTCTTTTAT
1 TTTTG-AAACTTTC-TTTAT
54340553 TTTTGAAACTT
1 TTTTGAAACTT
54340564 CACTCTCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 4 0.16
19 12 0.48
20 9 0.36
ACGTcount: A:0.18, C:0.18, G:0.04, T:0.59
Consensus pattern (18 bp):
TTTTGAAACTTTCTTTAT
Found at i:54340787 original size:18 final size:18
Alignment explanation
Indices: 54340753--54340825 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
54340743 TTTCTTTCTC
**
54340753 TTTTCTTTCAAGCTCTTT
1 TTTTCTTTCAATTTCTTT
54340771 TTTTCTTTCAATTTC--T
1 TTTTCTTTCAATTTCTTT
*
54340787 TTTTCTCTC-ATTTCTTT
1 TTTTCTTTCAATTTCTTT
54340804 TTTTCTTCTCTCAATTTCTTT
1 TTTTC-T-T-TCAATTTCTTT
54340825 T
1 T
54340826 ATTTTTCGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
15 5 0.11
16 9 0.20
17 6 0.13
18 14 0.31
20 2 0.04
21 9 0.20
ACGTcount: A:0.10, C:0.22, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTTCTTTCAATTTCTTT
Found at i:54340806 original size:16 final size:17
Alignment explanation
Indices: 54340769--54340825 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 17
54340759 TTCAAGCTCT
*
54340769 TTTTTTCTTTCAATTTC
1 TTTTTTCTCTCAATTTC
54340786 -TTTTTCTCTC-ATTTC
1 TTTTTTCTCTCAATTTC
54340801 TTTTTTTCTTCTCTCAATTTC
1 ---TTTT-TTCTCTCAATTTC
54340822 TTTT
1 TTTT
54340826 ATTTTTCGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
15 5 0.15
16 9 0.27
18 4 0.12
19 3 0.09
20 7 0.21
21 5 0.15
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTTCTCTCAATTTC
Found at i:54340814 original size:20 final size:20
Alignment explanation
Indices: 54340786--54340840 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
54340776 TTTCAATTTC
54340786 TTTTTCTCTCATTTCTTTT-
1 TTTTTCTCTCATTTCTTTTA
54340805 TTTCTTCTCTCAATTTCTTTTA
1 TTT-TTCTCTC-ATTTCTTTTA
*
54340827 TTTTTCGCTCATTT
1 TTTTTCTCTCATTT
54340841 TCTCTCATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.09
20 11 0.34
21 15 0.47
22 3 0.09
ACGTcount: A:0.09, C:0.22, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTCTCTCATTTCTTTTA
Found at i:54343008 original size:50 final size:48
Alignment explanation
Indices: 54342954--54343058 Score: 120
Period size: 52 Copynumber: 2.1 Consensus size: 48
54342944 AAATGAACAG
* * * *
54342954 ATGAGTTACTTAATGCATGGCTTAATTTAATTATGCAAACTTTAACTAAC
1 ATGAGTTACATAAAGCATGGCATAATTT-ATGATGCAAAC-TTAACTAAC
* *
54343004 ATGAGAGTTACATAAAGCATGTCATAATTTATGATGCAAACTTAATTAAC
1 AT--GAGTTACATAAAGCATGGCATAATTTATGATGCAAACTTAACTAAC
54343054 ATGAG
1 ATGAG
54343059 AGTTATACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
48 3 0.06
50 12 0.26
51 10 0.21
52 22 0.47
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (48 bp):
ATGAGTTACATAAAGCATGGCATAATTTATGATGCAAACTTAACTAAC
Found at i:54343024 original size:52 final size:51
Alignment explanation
Indices: 54342929--54343087 Score: 164
Period size: 50 Copynumber: 3.1 Consensus size: 51
54342919 AAATGCATGG
* * *
54342929 TTTAA-GATGCAAAC-TAAATGAACA-GATGAGTTACTTAATGCATGGCTTAA
1 TTTAATGATGCAAACTTAACT-AACATGA-GAGTTACATAATGCATGACTTAA
* * * *
54342979 TTTAATTATGCAAACTTTAACTAACATGAGAGTTACATAAAGCATGTCATAA
1 TTTAATGATGCAAAC-TTAACTAACATGAGAGTTACATAATGCATGACTTAA
* * * *
54343031 TTT-ATGATGCAAACTTAATTAACATGAGAGTTATACAATGCATGACTTTA
1 TTTAATGATGCAAACTTAACTAACATGAGAGTTACATAATGCATGACTTAA
54343081 TTTAATG
1 TTTAATG
54343088 CAAAACACAT
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
50 37 0.41
51 21 0.23
52 26 0.29
53 6 0.07
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (51 bp):
TTTAATGATGCAAACTTAACTAACATGAGAGTTACATAATGCATGACTTAA
Found at i:54356815 original size:40 final size:40
Alignment explanation
Indices: 54356725--54356893 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
54356715 CCTCGTTCAC
* * * * * *
54356725 ATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-C
1 ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGA
* *
54356764 ATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACGA
1 ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGA
*
54356804 ATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGA
1 ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGA
* * * *
54356844 ATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACAA
1 ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGA
*
54356884 AGGCCTTCGG
1 ATGCCTTCGG
54356894 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGA
Found at i:54364719 original size:40 final size:40
Alignment explanation
Indices: 54364629--54364797 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
54364619 CCTCGTTCAC
* * * * * *
54364629 ATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-C
1 ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGA
* *
54364668 ATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACGA
1 ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGA
*
54364708 ATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGA
1 ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGA
* * * *
54364748 ATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACAA
1 ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGA
*
54364788 AGGCCTTCGG
1 ATGCCTTCGG
54364798 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGA
Found at i:54372388 original size:41 final size:40
Alignment explanation
Indices: 54372236--54372405 Score: 152
Period size: 41 Copynumber: 4.2 Consensus size: 40
54372226 GCTAATCGGG
*
54372236 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* * *
54372277 G-CTAATAACCGAACTTAGTTTTGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
54372320 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
54372360 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
54372401 G-CTAA
1 GTCTAA
54372406 GAGTCGGACT
Statistics
Matches: 105, Mismatches: 12, Indels: 26
0.73 0.08 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 49 0.47
42 22 0.21
43 9 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:54384401 original size:23 final size:23
Alignment explanation
Indices: 54384371--54384418 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
54384361 GATGTGATGA
54384371 ATGTGAAAGTGTATATATATGTG
1 ATGTGAAAGTGTATATATATGTG
54384394 ATGTGAAAGTGTATATATATGTG
1 ATGTGAAAGTGTATATATATGTG
54384417 AT
1 AT
54384419 AAGGCCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (23 bp):
ATGTGAAAGTGTATATATATGTG
Found at i:54384436 original size:72 final size:70
Alignment explanation
Indices: 54384324--54384467 Score: 261
Period size: 72 Copynumber: 2.0 Consensus size: 70
54384314 TATGTGATGA
54384324 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
54384389 ATGTG
66 ATGTG
*
54384394 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
54384459 ATATGTG
64 ATATGTG
54384466 AT
1 AT
54384468 AAGGCCTAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
70 11 0.15
72 60 0.85
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (70 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTG
Found at i:54384522 original size:96 final size:94
Alignment explanation
Indices: 54384394--54384993 Score: 1011
Period size: 96 Copynumber: 6.3 Consensus size: 94
54384384 TATATATGTG
*
54384394 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
54384459 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
54384492 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
54384557 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
54384588 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
54384653 GTGATAAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
54384682 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
54384747 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
54384780 ATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
54384845 GTGATAAGGCCAAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
54384874 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * *
54384939 GTGACAGGGCCGAGTGGCCAACGTGATGG
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
54384968 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
54384994 TCCCGAAGGG
Statistics
Matches: 486, Mismatches: 12, Indels: 12
0.95 0.02 0.02
Matches are distributed among these distances:
94 193 0.40
96 236 0.49
98 57 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:54384525 original size:47 final size:47
Alignment explanation
Indices: 54384394--54384993 Score: 1011
Period size: 47 Copynumber: 12.6 Consensus size: 47
54384384 TATATATGTG
*
54384394 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
54384443 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
54384492 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
54384539 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
54384588 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
54384635 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
54384682 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
54384731 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
54384780 ATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
54384827 ATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
54384874 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
54384921 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
54384968 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
54384994 TCCCGAAGGG
Statistics
Matches: 532, Mismatches: 15, Indels: 10
0.96 0.03 0.02
Matches are distributed among these distances:
47 331 0.62
49 201 0.38
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:54384797 original size:239 final size:240
Alignment explanation
Indices: 54384394--54384993 Score: 1034
Period size: 239 Copynumber: 2.5 Consensus size: 240
54384384 TATATATGTG
*
54384394 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
54384459 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCT
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
*
54384522 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
129 AATGGCCGATGTGATGAATATGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54384587 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
193 AATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCGATGTGATGA
54384635 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
54384700 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
54384765 TGGCCGATGTGATGAATATGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
131 TGGCCGATGTGATGAATATGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
54384829 GTGAAAGTGTATATATGTGATAAGGCCAAATGGCCGATGTGATGA
196 GTGAAAGTGTATATATGTGATAAGGCCAAATGGCCGATGTGATGA
54384874 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * *
54384937 ATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
54384994 TCCCGAAGGG
Statistics
Matches: 347, Mismatches: 10, Indels: 10
0.95 0.03 0.03
Matches are distributed among these distances:
235 10 0.03
236 1 0.00
237 44 0.13
239 235 0.68
241 57 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (240 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
TGGCCGATGTGATGAATATGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
GTGAAAGTGTATATATGTGATAAGGCCAAATGGCCGATGTGATGA
Found at i:54385168 original size:37 final size:37
Alignment explanation
Indices: 54385112--54385190 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
54385102 CCGAGCTCTA
* * *
54385112 AAGACCCGATGACTACGTGTGGGGATTTTGTCCAAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAAGT
* **
54385149 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAAGT
54385186 AAGAC
1 AAGAC
54385191 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCAAGT
Found at i:54397088 original size:50 final size:49
Alignment explanation
Indices: 54396967--54397152 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 49
54396957 TGAGGTCGCA
* * * *
54396967 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
54397018 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
54397068 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
54397117 TGTGTAGTACTAAGTGCA-GCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
54397153 TAGTTTCGGC
Statistics
Matches: 118, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
47 1 0.01
48 20 0.17
49 23 0.19
50 43 0.36
51 31 0.26
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:54397172 original size:101 final size:100
Alignment explanation
Indices: 54396967--54397153 Score: 236
Period size: 101 Copynumber: 1.9 Consensus size: 100
54396957 TGAGGTCGCA
* *
54396967 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCC-AAAACTGTGATCACATGTGTAGTACTAAG
* ** *
54397032 TGCAGGCTACTACGTGTATTAGATGGTGAGGTCACG
65 TGCAGGCTACTACGCGTACCAGATGGTGAGGTCAAG
* * * *
54397068 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AGACTGTTGGTCGCATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTG-TGATCACATGTGTAGTACTAAG
*
54397131 TGCA-GCTACTATGCGTACCAGAT
65 TGCAGGCTACTACGCGTACCAGAT
54397154 AGTTTCGGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
98 20 0.27
99 23 0.31
100 2 0.03
101 30 0.40
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCAAAACTGTGATCACATGTGTAGTACTAAGT
GCAGGCTACTACGCGTACCAGATGGTGAGGTCAAG
Found at i:54402984 original size:39 final size:40
Alignment explanation
Indices: 54402768--54402974 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
54402758 CGATTGATAC
* *
54402768 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
54402808 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54402847 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54402887 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54402927 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
54402967 CC-GGCTAA
1 CCGGGCTAA
54402975 ACTCCGAAGG
Statistics
Matches: 156, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 42 0.27
40 114 0.73
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54410949 original size:40 final size:40
Alignment explanation
Indices: 54410797--54410942 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
54410787 TCGAATGATG
* * * *
54410797 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
54410837 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54410877 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54410918 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54410943 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 80 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54410949 original size:80 final size:80
Alignment explanation
Indices: 54410797--54410975 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
54410787 TCGAATGATG
* * *
54410797 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATTCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
54410862 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
54410877 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
54410940 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
54410957 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
54410976 TACGTGATTC
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 59 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:54417171 original size:79 final size:78
Alignment explanation
Indices: 54416987--54417225 Score: 297
Period size: 79 Copynumber: 3.1 Consensus size: 78
54416977 CGGATGATAA
* * **
54416987 CCGGGCTAAGTCCGAAGGCATT--TGCCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCGAAGGCATTGGTG-CGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
54417050 TGCAAGTTATTACAT
65 TGCGAG-TACTATAT
* *
54417065 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGT-CCGAAGGCATTTGT
1 CCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTGT
54417129 GCGAGCTACTATAT
66 GCGAG-TACTATAT
* *
54417143 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTG
1 CCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTG
*
54417207 AGCGAGTAGCTATAT
65 TGCGAGTA-CTATAT
54417222 CCGG
1 CCGG
54417226 TTAAATCCCA
Statistics
Matches: 142, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
78 59 0.42
79 72 0.51
80 11 0.08
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTACTATAT
Found at i:54417223 original size:39 final size:40
Alignment explanation
Indices: 54416987--54417225 Score: 303
Period size: 39 Copynumber: 6.1 Consensus size: 40
54416977 CGGATGATAA
* * *
54416987 CCGGGCTAAGT-CCGAAGGCATTTG-CCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* * *
54417025 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54417065 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54417104 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54417143 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54417183 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
54417222 CCGG
1 CCGG
54417226 TTAAATCCCA
Statistics
Matches: 182, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
38 13 0.07
39 104 0.57
40 65 0.36
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54417225 original size:118 final size:117
Alignment explanation
Indices: 54416987--54417213 Score: 316
Period size: 118 Copynumber: 1.9 Consensus size: 117
54416977 CGGATGATAA
* *
54416987 CCGGGCTAAGTCCGAAGGCATTTGCCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 CCGGGCTAAGTCCGAAGGCATTTGCCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGTG
* * *
54417052 CAAGTTATTACATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTATTACAT
66 CAAGTTACTACATCCGGGCTAAGTCCGAAGGCATTTGAGCGAGTTACTACAT
*
54417104 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGCT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAGTCCGAAGGCATTTG-CCGAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
* * *
54417167 GTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
63 GTGCAAGTTACTACATCCGGGCTAAGT-CCGAAGGCATTTGAGCGAGT
54417214 AGCTATATCC
Statistics
Matches: 98, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
117 25 0.26
118 63 0.64
119 10 0.10
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (117 bp):
CCGGGCTAAGTCCGAAGGCATTTGCCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGTG
CAAGTTACTACATCCGGGCTAAGTCCGAAGGCATTTGAGCGAGTTACTACAT
Found at i:54431276 original size:39 final size:40
Alignment explanation
Indices: 54431191--54431374 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
54431181 NNNACTAGCT
* *
54431191 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
54431231 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
54431270 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* ** * *
54431310 CGAATGCCTTCGGGACTTAGCCCGGA-ATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
*
54431350 CAAATG-CTCTCGGGACTTACCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
54431375 TTATCATCCA
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 40 0.31
40 89 0.69
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:54439288 original size:40 final size:39
Alignment explanation
Indices: 54439244--54439467 Score: 290
Period size: 40 Copynumber: 5.7 Consensus size: 39
54439234 GCCACTAGCT
*
54439244 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
54439284 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
54439323 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* *
54439363 CAAATGCCTTCGGGACTTAGCCC-GAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* ** * *
54439402 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
54439442 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
54439468 TATCATCCGA
Statistics
Matches: 170, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 79 0.46
40 91 0.54
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:54439342 original size:79 final size:80
Alignment explanation
Indices: 54439244--54439467 Score: 312
Period size: 79 Copynumber: 2.8 Consensus size: 80
54439234 GCCACTAGCT
* *
54439244 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
54439308 GTA-TAATAACTCGCA
65 GTATTAATAACTCGCA
* *
54439323 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCC-G
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
54439387 AATTAGTAGCTCGCA
66 TATTAATAACTCGCA
** *
54439402 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCT-TCGGGACTTAGCCCG
54439466 GT
65 GT
54439468 TATCATCCGA
Statistics
Matches: 129, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
78 4 0.03
79 123 0.95
80 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
TATTAATAACTCGCA
Found at i:54449187 original size:26 final size:25
Alignment explanation
Indices: 54449151--54449266 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
54449141 CAACCCACAT
**
54449151 CTTGTGAGAGCATATTGATTTATCAG
1 CTTGTGAGAGCATACCGATTTAT-AG
54449177 CTTGTGAGAGCATACCGATTTATAG
1 CTTGTGAGAGCATACCGATTTATAG
** * * * * *
54449202 CTCATGCGAGTATTCTGATTTACAG
1 CTTGTGAGAGCATACCGATTTATAG
* * * * *
54449227 CTCGAGTGAGCATACCGATTCAAAG
1 CTTGTGAGAGCATACCGATTTATAG
54449252 CTTGT-ATGAGCATAC
1 CTTGTGA-GAGCATAC
54449267 ATGTACAGGA
Statistics
Matches: 69, Mismatches: 20, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
25 48 0.70
26 21 0.30
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (25 bp):
CTTGTGAGAGCATACCGATTTATAG
Found at i:54451827 original size:19 final size:18
Alignment explanation
Indices: 54451803--54451920 Score: 110
Period size: 19 Copynumber: 6.2 Consensus size: 18
54451793 TGTACGAGTT
*
54451803 TATGCATTTCGTGTGCCAG
1 TATGCATTT-GTGTGCTAG
* *
54451822 TATGCATTTCATATGCTAG
1 TATGCATTT-GTGTGCTAG
*
54451841 GATGCACTTTGTGTGCTAG
1 TATGCA-TTTGTGTGCTAG
*
54451860 TATGCCCTTTGTGTGCTAG
1 TATG-CATTTGTGTGCTAG
*
54451879 TATGCACTTTGTGTGTTAG
1 TATGCA-TTTGTGTGCTAG
* *
54451898 GATGCACTTCGTGTGCTAG
1 TATGCA-TTTGTGTGCTAG
54451917 TATG
1 TATG
54451921 TGTACCACCC
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
18 1 0.01
19 77 0.94
20 4 0.05
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.40
Consensus pattern (18 bp):
TATGCATTTGTGTGCTAG
Found at i:54451881 original size:57 final size:57
Alignment explanation
Indices: 54451813--54451920 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
54451803 TATGCATTTC
*
54451813 GTGTGCCAGTATGCA-TTTCATATGCTAGGATGCACTTTGTGTGCTAGTATGCCCTTT
1 GTGTGCCAGTATGCACTTT-ATATGCTAGGATGCACTTCGTGTGCTAGTATGCCCTTT
* * * *
54451870 GTGTGCTAGTATGCACTTTGTGTGTTAGGATGCACTTCGTGTGCTAGTATG
1 GTGTGCCAGTATGCACTTTATATGCTAGGATGCACTTCGTGTGCTAGTATG
54451921 TGTACCACCC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
57 42 0.93
58 3 0.07
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.39
Consensus pattern (57 bp):
GTGTGCCAGTATGCACTTTATATGCTAGGATGCACTTCGTGTGCTAGTATGCCCTTT
Found at i:54451917 original size:38 final size:38
Alignment explanation
Indices: 54451803--54451920 Score: 130
Period size: 38 Copynumber: 3.1 Consensus size: 38
54451793 TGTACGAGTT
* * * * *
54451803 TATGCA-TTTCGTGTGCCAGTATGCATTTCATATGCTAG
1 TATGCACTTT-GTGTGCTAGGATGCACTTCGTGTGCTAG
* * * *
54451841 GATGCACTTTGTGTGCTAGTATGCCCTTTGTGTGCTAG
1 TATGCACTTTGTGTGCTAGGATGCACTTCGTGTGCTAG
*
54451879 TATGCACTTTGTGTGTTAGGATGCACTTCGTGTGCTAG
1 TATGCACTTTGTGTGCTAGGATGCACTTCGTGTGCTAG
54451917 TATG
1 TATG
54451921 TGTACCACCC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 64 0.96
39 3 0.04
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.40
Consensus pattern (38 bp):
TATGCACTTTGTGTGCTAGGATGCACTTCGTGTGCTAG
Found at i:54454428 original size:21 final size:22
Alignment explanation
Indices: 54454399--54454451 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
54454389 TAAGTTTTAT
* * *
54454399 GAAGTTTGATGA-TAGTATCTG
1 GAAGCTTGATGATTAGTATATA
*
54454420 GAAGCTTGAT-ATTGGTATATA
1 GAAGCTTGATGATTAGTATATA
54454441 GAAGCTTGATG
1 GAAGCTTGATG
54454452 CTGGCTTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.36
Consensus pattern (22 bp):
GAAGCTTGATGATTAGTATATA
Found at i:54457778 original size:28 final size:28
Alignment explanation
Indices: 54457721--54457897 Score: 288
Period size: 28 Copynumber: 6.4 Consensus size: 28
54457711 TAAATTGTGC
*
54457721 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
54457748 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
54457776 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
54457804 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
54457831 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
54457859 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
54457886 AGCACTGAGTGT
1 AGCACTAAGTGT
54457898 CGGACTTAAT
Statistics
Matches: 144, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 63 0.44
28 81 0.56
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:54457786 original size:55 final size:55
Alignment explanation
Indices: 54457721--54457897 Score: 293
Period size: 55 Copynumber: 3.2 Consensus size: 55
54457711 TAAATTGTGC
*
54457721 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
54457776 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * *
54457831 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
54457886 AGCACTGAGTGT
1 AGCACTAAGTGT
54457898 CGGACTTAAT
Statistics
Matches: 116, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 89 0.77
56 27 0.23
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:54457836 original size:83 final size:82
Alignment explanation
Indices: 54457721--54457897 Score: 300
Period size: 83 Copynumber: 2.1 Consensus size: 82
54457711 TAAATTGTGC
54457721 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
54457786 GTGCGAGTTTGACTATGT
66 GTGCGAG-TTGACTATAT
* *
54457804 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
54457869 GTGCGAGTTGATTATAT
66 GTGCGAGTTGACTATAT
*
54457886 AGCACTGAGTGT
1 AGCACTAAGTGT
54457898 CGGACTTAAT
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 19 0.21
83 70 0.79
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:54465806 original size:28 final size:27
Alignment explanation
Indices: 54465749--54465900 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
54465739 TAAATTGTGC
*
54465749 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
54465776 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
54465804 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
54465831 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
54465859 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
54465886 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54465901 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:54465814 original size:55 final size:55
Alignment explanation
Indices: 54465749--54465900 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
54465739 TAAATTGTGC
*
54465749 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
54465804 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
54465859 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
54465901 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:54470957 original size:40 final size:40
Alignment explanation
Indices: 54470847--54471023 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
54470837 CGGATGATAA
* * *
54470847 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
54470887 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54470926 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
54470966 CCGGGCTAAGTCCCTAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54471006 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54471024 TACTTGGTTT
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 49 0.40
40 72 0.60
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54471012 original size:79 final size:79
Alignment explanation
Indices: 54470847--54471023 Score: 216
Period size: 79 Copynumber: 2.2 Consensus size: 79
54470837 CGGATGATAA
* * * * *
54470847 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
*
54470912 GCGAGTTACTATAT
66 GCAAGTTACTATAT
* *
54470926 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTACT-ATAACCGGGCTAAGTCCCTAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTT
54470990 GAGCAAG-TAGCTATAT
64 GAGCAAGTTA-CTATAT
* *
54471006 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54471024 TACTTGGTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.02
79 58 0.68
80 25 0.29
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
GCAAGTTACTATAT
Found at i:54474748 original size:80 final size:79
Alignment explanation
Indices: 54474599--54474821 Score: 232
Period size: 80 Copynumber: 2.8 Consensus size: 79
54474589 TTGAATGCTG
* * * ** * * * * *
54474599 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAGCCGGGCTAAG-TCCCGAAGGCATT
*
54474663 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* *
54474679 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGGCATTC
* **
54474744 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * *
54474759 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGGCATT
54474822 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 35 0.29
80 81 0.68
81 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:54474802 original size:39 final size:40
Alignment explanation
Indices: 54474652--54474821 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
54474642 GGACTAAGAT
* * *
54474652 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* *
54474692 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
54474732 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
54474772 CCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
54474811 CCGAAGGCATT
1 CCGAAGGCATT
54474822 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 35 0.30
40 83 0.70
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:54474841 original size:79 final size:80
Alignment explanation
Indices: 54474674--54474856 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
54474664 GTGCGAGATA
* *
54474674 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
** **
54474739 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
54474754 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
*
54474818 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
54474833 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
54474857 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAGCCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:54480052 original size:29 final size:29
Alignment explanation
Indices: 54480017--54480088 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
54480007 GTTGTGAGAT
* *
54480017 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
54480046 TGGCACTAAATGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
54480075 TGGCACTAAGTGTG
1 TGGCACTAAGTGTG
54480089 TGTGGTTGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 5 0.14
29 32 0.86
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:54485366 original size:40 final size:40
Alignment explanation
Indices: 54485261--54485437 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
54485251 CGGATGATAA
* * *
54485261 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
54485301 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54485340 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
54485380 CCGGGCTAAGTCCAGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54485420 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54485438 TACTTGGTTT
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 48 0.40
40 73 0.60
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54485426 original size:79 final size:79
Alignment explanation
Indices: 54485264--54485437 Score: 219
Period size: 79 Copynumber: 2.2 Consensus size: 79
54485254 ATGATAACCG
* * * * * *
54485264 GGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCAGAAGGCATTTGAGCA
54485329 AGTTACTATATCCA
66 AGTTACTATATCCA
*
54485343 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCAGAAGGCATTTGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCAGAAGGCATTTGAG
54485407 CAAG-TAGCTATATCC-
64 CAAGTTA-CTATATCCA
* *
54485422 GGCTAAATTCCGAAGG
1 GGCTAAGTCCCGAAGG
54485438 TACTTGGTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 2 0.02
79 56 0.67
80 25 0.30
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCAGAAGGCATTTGAGCA
AGTTACTATATCCA
Found at i:54487027 original size:39 final size:40
Alignment explanation
Indices: 54486981--54487153 Score: 169
Period size: 40 Copynumber: 4.3 Consensus size: 40
54486971 AACATCAGTA
*
54486981 TCGCACACTTAGTGCCTCATATAGCCAAAGCTATTCCATT
1 TCGCACACTTAGTGCCTCATATAGCCAAAGCTATTTCATT
* * **
54487021 TC-CACACTTAGTG-CT-ATTTATAACCGCAA-CTATTTCAAA
1 TCGCACACTTAGTGCCTCA--TATAGCC-AAAGCTATTTCATT
*
54487060 TCGCAAACTTAGTGCCTCATATAGCCAAAGCTATTTCATT
1 TCGCACACTTAGTGCCTCATATAGCCAAAGCTATTTCATT
* * **
54487100 TCGCACACTTAGTG-CT-ATTTATAACCAAAACTATTTCAAA
1 TCGCACACTTAGTGCCTCA--TATAGCCAAAGCTATTTCATT
54487140 TCGCACACTTAGTG
1 TCGCACACTTAGTG
54487154 TTGTATACCT
Statistics
Matches: 109, Mismatches: 15, Indels: 18
0.77 0.11 0.13
Matches are distributed among these distances:
37 1 0.01
38 3 0.03
39 30 0.28
40 72 0.66
41 2 0.02
42 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (40 bp):
TCGCACACTTAGTGCCTCATATAGCCAAAGCTATTTCATT
Found at i:54487071 original size:79 final size:80
Alignment explanation
Indices: 54486980--54487153 Score: 305
Period size: 80 Copynumber: 2.2 Consensus size: 80
54486970 CAACATCAGT
54486980 ATCGCACACTTAGTGCCTCATATAGCCAAAGCTATTCCATTTC-CACACTTAGTGCTATTTATAA
1 ATCGCACACTTAGTGCCTCATATAGCCAAAGCTATTCCATTTCGCACACTTAGTGCTATTTATAA
**
54487044 CCGCAACTATTTCAA
66 CCAAAACTATTTCAA
* *
54487059 ATCGCAAACTTAGTGCCTCATATAGCCAAAGCTATTTCATTTCGCACACTTAGTGCTATTTATAA
1 ATCGCACACTTAGTGCCTCATATAGCCAAAGCTATTCCATTTCGCACACTTAGTGCTATTTATAA
54487124 CCAAAACTATTTCAA
66 CCAAAACTATTTCAA
54487139 ATCGCACACTTAGTG
1 ATCGCACACTTAGTG
54487154 TTGTATACCT
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 41 0.46
80 48 0.54
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (80 bp):
ATCGCACACTTAGTGCCTCATATAGCCAAAGCTATTCCATTTCGCACACTTAGTGCTATTTATAA
CCAAAACTATTTCAA
Found at i:54496632 original size:40 final size:40
Alignment explanation
Indices: 54496536--54496715 Score: 231
Period size: 40 Copynumber: 4.5 Consensus size: 40
54496526 TATTCGGATG
54496536 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
* *
54496579 ATACCCGGGCTAAGTCCAGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
54496619 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
54496659 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
54496699 ATATCC-GGCTAAATCCC
1 ATATCCGGGCTAAGTCCC
54496716 AAAGATACTT
Statistics
Matches: 123, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
39 11 0.09
40 80 0.65
41 2 0.02
43 30 0.24
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:54502017 original size:40 final size:40
Alignment explanation
Indices: 54501816--54502003 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
54501806 TATTCGGATG
* * *
54501816 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
54501856 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
54501895 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
54501935 ATAACCGGGCTAAGTCCCGAGGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
54501975 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
54502004 AGCAAGTAGC
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 34 0.25
40 100 0.75
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:54502017 original size:80 final size:79
Alignment explanation
Indices: 54501816--54502026 Score: 277
Period size: 80 Copynumber: 2.7 Consensus size: 79
54501806 TATTCGGATG
* *
54501816 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAGCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-TCCGGGCTAAGCCCGAAGGC
54501879 ATTTGTACGAGTTACT
64 ATTTGTACGAGTTACT
* * * * *
54501895 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAGGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGCTAAG-CCCGAAGGC
*
54501959 ATTTGTGCGAGTTACT
64 ATTTGTACGAGTTACT
*
54501975 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAA
54502027 ATTCCGAAGG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
79 52 0.45
80 63 0.55
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGCCCGAAGGCAT
TTGTACGAGTTACT
Found at i:54502034 original size:119 final size:119
Alignment explanation
Indices: 54501816--54502036 Score: 297
Period size: 119 Copynumber: 1.9 Consensus size: 119
54501806 TATTCGGATG
* *
54501816 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * *
54501881 TTGTACGAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGTACAAGTTACTATATCTCGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
* * *
54501935 ATAACCGGGCTAAGTCCCGAGGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
54501999 ATTTG-AGCAAG-TAGCTATATC-CGGCTAAATTCCGAAGG
64 ATTTGTA-CAAGTTA-CTATATCTCGGCTAAATCCCGAAGG
54502037 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
118 2 0.02
119 63 0.71
120 24 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGTACAAGTTACTATATCTCGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:54509989 original size:40 final size:40
Alignment explanation
Indices: 54509884--54510100 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
54509874 CGGATGATAA
* *
54509884 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
54509924 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54509963 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54510003 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54510043 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54510083 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54510101 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 51 0.31
40 115 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54510098 original size:119 final size:119
Alignment explanation
Indices: 54509880--54510100 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 119
54509870 TATTCGGATG
* *
54509880 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * *
54509945 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
54509999 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
54510063 ATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
64 ATTTGAGCAAGTTA-CTATATCCGGGCTAAATCCCGAAGG
54510101 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 2 0.02
119 64 0.70
120 26 0.28
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:54517001 original size:56 final size:56
Alignment explanation
Indices: 54516937--54517073 Score: 206
Period size: 56 Copynumber: 2.4 Consensus size: 56
54516927 GACCATGGCA
54516937 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA-T
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* *
54516992 TCTGATATATGTGTGTGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATT
1 TC-GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* *
54517049 TCGATTTATATGT-CTGAGTAAGACC
1 TCGATATATGTGTGC-GAGTAAGACC
54517074 CTGTCTGGGA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
55 2 0.03
56 69 0.93
57 3 0.04
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
Done.