Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 249 of 311
Found at i:83339424 original size:18 final size:18
Alignment explanation
Indices: 83339401--83339442 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
83339391 TACACCCTAA
*
83339401 ATATATTATAA-TCTTAAT
1 ATATATTAGAAGT-TTAAT
83339419 ATATATTAGAAGTTTAAT
1 ATATATTAGAAGTTTAAT
83339437 ATATAT
1 ATATAT
83339443 ATATCAAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (18 bp):
ATATATTAGAAGTTTAAT
Found at i:83339794 original size:40 final size:40
Alignment explanation
Indices: 83339750--83339895 Score: 240
Period size: 40 Copynumber: 3.6 Consensus size: 40
83339740 TTACTTTTTT
*
83339750 GCGGCGTTTTCCCAAAGCGCCGCTAAAACATCGGCCTATA
1 GCGGCGTTTTTCCAAAGCGCCGCTAAAACATCGGCCTATA
*
83339790 GCGGCGTTTTTCCAAAGCGCTGCTAAAACATC-GCCTATA
1 GCGGCGTTTTTCCAAAGCGCCGCTAAAACATCGGCCTATA
* *
83339829 GCGGCGTTTTTCCAGAAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCA-AAGCGCCGCTAAAACATCGGCCTATA
83339870 GCGGCGTTTTTCCAAAGCGCCGCTAA
1 GCGGCGTTTTTCCAAAGCGCCGCTAA
83339896 TTGTTCAGTA
Statistics
Matches: 99, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
39 21 0.21
40 58 0.59
41 20 0.20
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.23
Consensus pattern (40 bp):
GCGGCGTTTTTCCAAAGCGCCGCTAAAACATCGGCCTATA
Found at i:83341104 original size:42 final size:41
Alignment explanation
Indices: 83341053--83341201 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 41
83341043 TGAAACAATA
*
83341053 GCGGCGCTTCTGGAAAAACGCCGATATAGGTCGAGGTTTTAG
1 GCGGCGCTTCTGGAAAAACGCCGCTATAGG-CGAGGTTTTAG
*
83341095 GCGGCGCTTCTGGAAAAACGCCGCTATAGGCGAATGTTTTAG
1 GCGGCGCTTCTGGAAAAACGCCGCTATAGGCG-AGGTTTTAG
* *
83341137 GCAGCGCTT-TCGGAAAAAACGCCGCTATAGGCCGATGTTTTTA-
1 GCGGCGCTTCT-GG-AAAAACGCCGCTATAGG-CGA-GGTTTTAG
*
83341180 GC-GCGCTTTTGG-AAAACGCCGC
1 GCGGCGCTTCTGGAAAAACGCCGC
83341202 AAAAAAGTAA
Statistics
Matches: 96, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
40 10 0.10
41 3 0.03
42 55 0.57
43 21 0.22
44 7 0.07
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTCTGGAAAAACGCCGCTATAGGCGAGGTTTTAG
Found at i:83341999 original size:15 final size:15
Alignment explanation
Indices: 83341979--83342010 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
83341969 TTTAATGTAG
*
83341979 AAGATAAATGTATAT
1 AAGATAAATATATAT
83341994 AAGATAAATATATAT
1 AAGATAAATATATAT
83342009 AA
1 AA
83342011 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:83346129 original size:18 final size:20
Alignment explanation
Indices: 83346103--83346144 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
83346093 CAAATTAATT
*
83346103 TTAAATA-T-TTGGTTCAAC
1 TTAAATATTATTGATTCAAC
*
83346121 TTAATTATTATTGATTCAAC
1 TTAAATATTATTGATTCAAC
83346141 TTAA
1 TTAA
83346145 GTATGAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 1 0.05
20 13 0.65
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (20 bp):
TTAAATATTATTGATTCAAC
Found at i:83346970 original size:366 final size:369
Alignment explanation
Indices: 83346201--83347091 Score: 1454
Period size: 366 Copynumber: 2.4 Consensus size: 369
83346191 CATTAAATTA
* * *
83346201 AACAAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCTAAGTATATATGCT
1 AACAAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCT
83346266 GGAAACCTGACGGGTTG-CTTATATCGAGCTGCAAGATATAATGGATCCTCCCCTAGGTGTAAC-
66 GGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGAT-CT-CCCTAGGTGTAACA
83346329 ACGCCACGTAATGAATGAATCTT-AAAATTCACAAAAGACTTGAAAAAAGTTCTATCGAGCTCAT
129 ACGCCACGT-ATG-ATGAATCTTAAAAATTCACAAAAGACTTGAAAAAAGTTCTATCGAGCTCA-
83346393 TTTACTATTGAATATTATATAACCTTAATTTAATTCCAATTTACTTAATAAAACTTAAACTACGA
191 TTTACTATTGAATATTATATAACCTTAATTTAATTCCAATTTACTTAAT-AAACTTAAACTACGA
* *
83346458 TTCTTTTTTGAACATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAATA
255 TTCTTTTTTGAACATTATTATATTCAAATTACTATTTTTAATATTAATAATGTTTAATTTTAATA
*
83346523 TTTATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTTATCAAAAT
320 TTTATACTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTTATCAAAAT
* *
83346573 TACAAAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCCAAGTATATAGGC
1 AAC-AAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGC
83346638 TGGAAACCTGAC-GGTTGCCTTATAATCGAGCTGCAAGATATAATGGATCTCCCTAAGGTGTAAC
65 TGGAAACCTGACGGGTTGCCTTAT-ATCGAGCTGCAAGATATAATGGATCTCCCT-AGGTGTAAC
83346702 AACGCCACGTATGATGAATCTTAAAAATTCA-AAAAGACTTGAAAAAAGTTCTATCGAGCTCA-T
128 AACGCCACGTATGATGAATCTTAAAAATTCACAAAAGACTTGAAAAAAGTTCTATCGAGCTCATT
*
83346765 TACTATTGAATATTATATAACCTTAATTTATTTCCAATTTAC-T-AT-AA-TTAAACTACGATTC
193 TACTATTGAATATTATATAACCTTAATTTAATTCCAATTTACTTAATAAACTTAAACTACGATTC
83346826 TTTTTTTG-ACATTATTATATTCAAATTAACTATTTTTAATATTAATAATGTTTAATTTTAATAT
258 -TTTTTTGAACATTATTATATTCAAATT-ACTATTTTTAATATTAATAATGTTTAATTTTAATA-
83346890 TTTAATACTTTTAAATTTCTTTAAAAGTTATAACTAC-TTTTT-TCAAAAT
320 TTT-ATACTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTTATCAAAAT
83346939 CAACAAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGC
1 -AACAAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGC
83347004 TGGAAACCTGAACGGGTTGCCTTATATCG-GCTGCAAGATATAATGGATC-CCCTAGGTGTAACA
65 TGGAAACCTG-ACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCTCCCTAGGTGTAACA
83347067 ACGCCACGTATGATGAA-CTTAAAAA
129 ACGCCACGTATGATGAATCTTAAAAA
83347092 ATTTTGTATG
Statistics
Matches: 496, Mismatches: 10, Indels: 35
0.92 0.02 0.06
Matches are distributed among these distances:
363 8 0.02
364 27 0.05
365 37 0.07
366 139 0.28
367 16 0.03
368 45 0.09
369 1 0.00
370 42 0.08
372 51 0.10
373 97 0.20
374 33 0.07
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (369 bp):
AACAAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCT
GGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCTCCCTAGGTGTAACAAC
GCCACGTATGATGAATCTTAAAAATTCACAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTAC
TATTGAATATTATATAACCTTAATTTAATTCCAATTTACTTAATAAACTTAAACTACGATTCTTT
TTTGAACATTATTATATTCAAATTACTATTTTTAATATTAATAATGTTTAATTTTAATATTTATA
CTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTTATCAAAAT
Found at i:83347258 original size:24 final size:24
Alignment explanation
Indices: 83347202--83347247 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
83347192 TATTCTCTCG
83347202 TCCGTTTTATCACAAATATTATTC
1 TCCGTTTTATCACAAATATTATTC
83347226 TCCGTTTTATCACAAATATTAT
1 TCCGTTTTATCACAAATATTAT
83347248 CGTCTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.04, T:0.46
Consensus pattern (24 bp):
TCCGTTTTATCACAAATATTATTC
Found at i:83347483 original size:15 final size:15
Alignment explanation
Indices: 83347442--83347483 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
83347432 CATGTAATAT
*
83347442 TAATTAATTTTAAAA
1 TAATTAATTATAAAA
*
83347457 TAATT-TTTATAAAA
1 TAATTAATTATAAAA
*
83347471 TTATTAATTATAA
1 TAATTAATTATAA
83347484 TATATTATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTAATTATAAAA
Found at i:83347606 original size:9 final size:9
Alignment explanation
Indices: 83347594--83347703 Score: 109
Period size: 9 Copynumber: 12.6 Consensus size: 9
83347584 TATTTGATAT
*
83347594 CATAATTTA
1 CATAACTTA
83347603 CATAACTTA
1 CATAACTTA
*
83347612 TATAAC-TA
1 CATAACTTA
*
83347620 TATAACTTA
1 CATAACTTA
83347629 CATAACTTA
1 CATAACTTA
* *
83347638 TATAACATA
1 CATAACTTA
83347647 CATAACTTA
1 CATAACTTA
*
83347656 TATAACTTA
1 CATAACTTA
* *
83347665 TATAACTCA
1 CATAACTTA
*
83347674 GATAA--TA
1 CATAACTTA
*
83347681 TATAACTTA
1 CATAACTTA
83347690 CATAACTTA
1 CATAACTTA
83347699 CATAA
1 CATAA
83347704 TACTTAAATA
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
7 5 0.06
8 8 0.09
9 72 0.85
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:83347616 original size:18 final size:18
Alignment explanation
Indices: 83347594--83347818 Score: 124
Period size: 18 Copynumber: 12.3 Consensus size: 18
83347584 TATTTGATAT
* *
83347594 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
*
83347612 TATAAC-TATATAACTTA
1 CATAACTTATATAACTTA
*
83347629 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
83347647 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
83347665 TATAACTCAGATAA--TA
1 CATAACTTATATAACTTA
* *
83347681 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
*
83347699 CATAATACTTAAATATATTATTTATA
1 CAT-A-ACTT--ATATA--A-CT-TA
* *
83347725 TCATAATTTTACATAACTTA
1 -CATAA-CTTATATAACTTA
83347745 -ATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
83347762 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
*
83347779 CATAA-ATATAT-ACATATA
1 CATAACTTATATAAC-T-TA
* *
83347797 -ATAAATTACATAACTTA
1 CATAACTTATATAACTTA
83347814 CATAA
1 CATAA
83347819 TACTTAAATA
Statistics
Matches: 163, Mismatches: 25, Indels: 38
0.72 0.11 0.17
Matches are distributed among these distances:
16 15 0.09
17 53 0.33
18 65 0.40
19 3 0.02
20 6 0.04
21 1 0.01
22 5 0.03
24 5 0.03
25 2 0.01
26 5 0.03
27 3 0.02
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:83347660 original size:27 final size:27
Alignment explanation
Indices: 83347594--83347818 Score: 123
Period size: 26 Copynumber: 8.5 Consensus size: 27
83347584 TATTTGATAT
*
83347594 CATAATTTACATAACTTATATAAC-TA
1 CATAACTTACATAACTTATATAACATA
*
83347620 TATAACTTACATAACTTATATAACATA
1 CATAACTTACATAACTTATATAACATA
*
83347647 CATAACTTATATAACTTATATAAC-TCA
1 CATAACTTACATAACTTATATAACAT-A
* * * *
83347674 GATAA--TATATAACTTACATAACTTA
1 CATAACTTACATAACTTATATAACATA
* * *
83347699 CATAATACTTAAATATA-TTAT-TTATAT-
1 CAT-A-ACTTACATA-ACTTATATAACATA
* *
83347726 CATAATTTTACATAACTTA-ATAACTTA
1 CATAA-CTTACATAACTTATATAACATA
* * * **
83347753 TATAACTTAGATAA-ATATATAATTTA
1 CATAACTTACATAACTTATATAACATA
* * *
83347779 CATAA-ATATAT-ACATATAATAA-ATTA
1 CATAACTTACATAACTTAT-ATAACA-TA
83347805 CATAACTTACATAA
1 CATAACTTACATAA
83347819 TACTTAAATA
Statistics
Matches: 153, Mismatches: 28, Indels: 34
0.71 0.13 0.16
Matches are distributed among these distances:
24 1 0.01
25 31 0.20
26 67 0.44
27 41 0.27
28 4 0.03
29 8 0.05
30 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (27 bp):
CATAACTTACATAACTTATATAACATA
Found at i:83347806 original size:115 final size:116
Alignment explanation
Indices: 83347621--83347828 Score: 305
Period size: 115 Copynumber: 1.8 Consensus size: 116
83347611 ATATAACTAT
* * *
83347621 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTCAGATAATATATAA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATCAGATAATATATAA
*
83347686 CTTACATAACTTACATAATACTTAAATATATTATTTATATCATAATTTTAC
66 ATTACATAACTTACATAATACTTAAATATATTATTTATATCATAATTTTAC
* * * *
83347737 ATAACTTA-ATAACTTATATAACTTAGATAA-ATATATAATTTACATAAAT-ATATACATATAAT
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATCAGATA-ATAT-AT
83347799 AAATTACATAACTTACATAATACTTAAATA
64 AAATTACATAACTTACATAATACTTAAATA
83347829 ATATAATCAT
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
113 4 0.05
114 19 0.23
115 51 0.62
116 8 0.10
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.38
Consensus pattern (116 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATCAGATAATATATAA
ATTACATAACTTACATAATACTTAAATATATTATTTATATCATAATTTTAC
Found at i:83351043 original size:17 final size:18
Alignment explanation
Indices: 83351023--83351058 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
83351013 AATTCTTTCA
83351023 AATATT-AATAACTTTTT
1 AATATTAAATAACTTTTT
*
83351040 AATATTAAATAATTTTTT
1 AATATTAAATAACTTTTT
83351058 A
1 A
83351059 CTACTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATTAAATAACTTTTT
Found at i:83354863 original size:3 final size:3
Alignment explanation
Indices: 83354857--83354905 Score: 53
Period size: 3 Copynumber: 15.3 Consensus size: 3
83354847 ATACAAGAGG
* *
83354857 TAA TAA TAAA TAGA TAA TAGA TAA TAA TAA AAA TAG TAA TAA TAA TAA
1 TAA TAA T-AA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
83354905 T
1 T
83354906 GGCACAAACG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 30 0.77
4 9 0.23
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:83354898 original size:18 final size:21
Alignment explanation
Indices: 83354857--83354905 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
83354847 ATACAAGAGG
83354857 TAATAATAAATAGATAATAGA
1 TAATAATAAATAGATAATAGA
83354878 TAATAATAAAAATAG-TAATA-A
1 TAATAAT--AAATAGATAATAGA
83354899 TAATAAT
1 TAATAAT
83354906 GGCACAAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 15 0.58
22 5 0.19
23 6 0.23
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
TAATAATAAATAGATAATAGA
Found at i:83358150 original size:27 final size:27
Alignment explanation
Indices: 83358108--83358159 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
83358098 GAAATGTGAA
*
83358108 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
83358135 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
83358160 GTTCATGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:83358159 original size:102 final size:103
Alignment explanation
Indices: 83357932--83358286 Score: 547
Period size: 103 Copynumber: 3.6 Consensus size: 103
83357922 TGTATATAAA
** *
83357932 GGGTTGCTGTGTGCTGATT-CCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCTTT
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTT
83357995 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCGAG
65 GAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCCGAG
83358035 GGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTG
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTG
83358099 AAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCGAG
66 AAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCGAG
83358137 GGGTTGCTAAGTGCTGATTCCCCG-TTCA----TGGTGCTAAGTGCGATAT---CCATATCTTTG
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTG
*
83358194 AAATG-AAAAGGGGTTGCTATGTGCTGATT-CCCCGAG
66 AAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCGAG
* *
83358230 GGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
83358287 ATAACGGTTA
Statistics
Matches: 237, Mismatches: 5, Indels: 22
0.90 0.02 0.08
Matches are distributed among these distances:
93 31 0.13
94 27 0.11
95 16 0.07
98 35 0.15
101 3 0.01
102 56 0.24
103 64 0.27
104 5 0.02
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (103 bp):
GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTG
AAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCGAG
Found at i:83358238 original size:26 final size:26
Alignment explanation
Indices: 83358202--83358254 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
83358192 TGAAATGAAA
*
83358202 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
83358228 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
83358254 A
1 A
83358255 TTCAGTGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:83365659 original size:104 final size:103
Alignment explanation
Indices: 83365481--83365844 Score: 594
Period size: 104 Copynumber: 3.6 Consensus size: 103
83365471 TTGTATATAA
** *
83365481 AGGGGTTGCTGTGTGCTGATTCCCCGATT--TTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGT-ATCCACCATATCTT
83365544 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
83365583 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TATCCACCATATCTT
83365648 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
**
83365687 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGTATCCA-TGTATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCATATCTTT
*
83365750 GAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
83365787 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCA
83365845 ATAACGGCTA
Statistics
Matches: 246, Mismatches: 11, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
100 56 0.23
101 39 0.16
102 32 0.13
103 22 0.09
104 96 0.39
105 1 0.00
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:83375438 original size:40 final size:40
Alignment explanation
Indices: 83375337--83375438 Score: 168
Period size: 40 Copynumber: 2.5 Consensus size: 40
83375327 TTGGCTCGGA
* * *
83375337 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCTTTCGGGACTTAACCCGGT
*
83375377 TATAATAACCCGCACAAATGCTTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCTTTCGGGACTTAACCCGGT
83375417 TATAATAACCCGCACGAATGCT
1 TATAATAACCCGCACGAATGCT
83375439 ATGCACATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCTTTCGGGACTTAACCCGGT
Found at i:83380704 original size:20 final size:21
Alignment explanation
Indices: 83380654--83380704 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
83380644 TAGGAGAGAG
*
83380654 AAAAGAACGAG-AAACAGGCC
1 AAAAGTACGAGAAAACAGGCC
* *
83380674 AAAAATA-GAGAAAATAGGCC
1 AAAAGTACGAGAAAACAGGCC
83380694 -AAAGTACGAGA
1 AAAAGTACGAGA
83380705 TCAACACGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.57, C:0.14, G:0.24, T:0.06
Consensus pattern (21 bp):
AAAAGTACGAGAAAACAGGCC
Found at i:83385982 original size:43 final size:43
Alignment explanation
Indices: 83385934--83386088 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 43
83385924 GTTACTGAGA
*
83385934 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
**
83385977 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCAT-TA-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
* *** * * * *
83386020 TATGATTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
83386062 ATGTGATAACATGTAAGACCATATCTG
1 -TGTGATTACATGTAAGACCATGTCTG
83386089 AGATATGACA
Statistics
Matches: 90, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
43 86 0.96
44 2 0.02
45 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:83387135 original size:25 final size:23
Alignment explanation
Indices: 83387106--83387170 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
83387096 AAATAAAAAC
*
83387106 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
83387131 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
83387152 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
83387171 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:83387169 original size:19 final size:20
Alignment explanation
Indices: 83387132--83387170 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
83387122 TCAAATACAT
83387132 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
83387152 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
83387171 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:83390029 original size:24 final size:24
Alignment explanation
Indices: 83390002--83390059 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 24
83389992 TATTTTGGAG
83390002 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGATTTTTTTTGAGATTCA
83390026 AGAAGAGA---TTTTTGAGATTCA
1 AGAAGAGATTTTTTTTGAGATTCA
* *
83390047 AGAGGGGATTTTT
1 AGAAGAGATTTTT
83390060 CTTTTTTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 19 0.66
24 10 0.34
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (24 bp):
AGAAGAGATTTTTTTTGAGATTCA
Found at i:83390536 original size:3 final size:3
Alignment explanation
Indices: 83390528--83390558 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
83390518 TTTCTGCATT
83390528 TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
83390559 GTGTGTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:83390661 original size:3 final size:3
Alignment explanation
Indices: 83390653--83390682 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
83390643 TGTATTTCTA
83390653 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
83390683 ATGGTAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:83390807 original size:16 final size:15
Alignment explanation
Indices: 83390776--83390818 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
83390766 CCTTCATTCC
*
83390776 ATTATTATTATTACT
1 ATTATTATTTTTACT
83390791 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
83390807 ATCATTATTTTT
1 ATTATTATTTTT
83390819 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:83390942 original size:16 final size:16
Alignment explanation
Indices: 83390921--83390952 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
83390911 CTATTGTTAC
83390921 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
83390937 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
83390953 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:83391188 original size:3 final size:3
Alignment explanation
Indices: 83391039--83391169 Score: 92
Period size: 3 Copynumber: 44.0 Consensus size: 3
83391029 AACTTAATAG
83391039 ATT ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * * *
83391086 -TA ATAT ATT ATT TTT ACT ATT ATC GTC A-T ATT GTT ACT ATT ACT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
83391130 ATT A-T ATT ATT ACGTT ATT A-T ATCT TTT ACT ATT ATT ATT
1 ATT ATT ATT ATT A--TT ATT ATT AT-T ATT ATT ATT ATT ATT
83391170 GTTGTATTTT
Statistics
Matches: 99, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
2 8 0.08
3 84 0.85
4 4 0.04
5 3 0.03
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:83391199 original size:22 final size:23
Alignment explanation
Indices: 83391134--83391201 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 23
83391124 ATTACTATTA
83391134 TATTATTACGTTATTATATCTTTTAC
1 TATTATT--GTTATTATAT-TTTTAC
* * *
83391160 TATTATTATTGTTGTATTTTT-C
1 TATTATTGTTATTATATTTTTAC
83391182 TATTATTGTTATTATATTTT
1 TATTATTGTTATTATATTTT
83391202 CCTTTACTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 18 0.50
23 4 0.11
24 7 0.19
26 7 0.19
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (23 bp):
TATTATTGTTATTATATTTTTAC
Found at i:83392197 original size:28 final size:28
Alignment explanation
Indices: 83392157--83392213 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
83392147 GTACATAACC
83392157 GACTCCCGAACCCGTTCTTTTACTTCGT
1 GACTCCCGAACCCGTTCTTTTACTTCGT
83392185 GACTCCCGAACCCGTTCTTTTACTTCGT
1 GACTCCCGAACCCGTTCTTTTACTTCGT
83392213 G
1 G
83392214 GACCAAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.35, G:0.16, T:0.35
Consensus pattern (28 bp):
GACTCCCGAACCCGTTCTTTTACTTCGT
Found at i:83395155 original size:15 final size:15
Alignment explanation
Indices: 83395135--83395165 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
83395125 TTTACTTTCC
83395135 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
83395150 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
83395165 A
1 A
83395166 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:83404011 original size:24 final size:24
Alignment explanation
Indices: 83403984--83404041 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 24
83403974 TATTTTGGAG
83403984 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGATTTTTTTTGAGATTCA
83404008 AGAAGAGA---TTTTTGAGATTCA
1 AGAAGAGATTTTTTTTGAGATTCA
* *
83404029 AGAGGGGATTTTT
1 AGAAGAGATTTTT
83404042 CTTTTTTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 19 0.66
24 10 0.34
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (24 bp):
AGAAGAGATTTTTTTTGAGATTCA
Found at i:83404643 original size:3 final size:3
Alignment explanation
Indices: 83404635--83404669 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
83404625 TGTATTTCTA
83404635 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
83404670 ATGGTAGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:83404795 original size:16 final size:15
Alignment explanation
Indices: 83404764--83404806 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
83404754 CCGTCATTCC
*
83404764 ATTATTATTATTACT
1 ATTATTATTTTTACT
83404779 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
83404795 ATCATTATTTTT
1 ATTATTATTTTT
83404807 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:83404931 original size:16 final size:15
Alignment explanation
Indices: 83404908--83404949 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
83404898 TACTATTGTT
83404908 ACTGTTATTATCATC
1 ACTGTTATTATCATC
*
83404923 ACTTGTTATTCTCATC
1 AC-TGTTATTATCATC
83404939 ACTGTTATTAT
1 ACTGTTATTAT
83404950 AATTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.24, C:0.19, G:0.07, T:0.50
Consensus pattern (15 bp):
ACTGTTATTATCATC
Found at i:83405038 original size:3 final size:3
Alignment explanation
Indices: 83405030--83405091 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
83405020 AACTTAATAG
* *
83405030 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT -TA ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
* *
83405075 ATT ATT TTT ACT ATT AT
1 ATT ATT ATT ATT ATT AT
83405092 CGTCATATTG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 1 0.02
3 46 0.94
4 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:83407256 original size:19 final size:19
Alignment explanation
Indices: 83407219--83407254 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
83407209 GTTTGAGTTT
*
83407219 ATATTATTTTAGTAAAAAG
1 ATATTATTTTAATAAAAAG
83407238 ATATTA-TTTAATAAAAA
1 ATATTATTTTAATAAAAA
83407255 AGCAAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (19 bp):
ATATTATTTTAATAAAAAG
Found at i:83408265 original size:178 final size:178
Alignment explanation
Indices: 83407966--83408322 Score: 660
Period size: 178 Copynumber: 2.0 Consensus size: 178
83407956 TTCCTGGTTG
*
83407966 TTTTGAGTTTGCAAAATATTGGGAAGCTATGTTTTTCAGTCGAATAGAAGAATGAAAAAGGCTTC
1 TTTTGAGTTTGCAAAATATTGGGAAGCTATGTTTTTCAGTCGAATAAAAGAATGAAAAAGGCTTC
83408031 TTCTTTTTGGGTCCCAAAAAGAATGTTGCGGTCCGAAAGATGCTTTTTCTCCCTTCTTCCATTTC
66 TTCTTTTTGGGTCCCAAAAAGAATGTTGCGGTCCGAAAGATGCTTTTTCTCCCTTCTTCCATTTC
*
83408096 ACAACAATTTCTTTGCCATTAATCAAGATGTTTATTTATGCCTGCTGA
131 ACAACAATTTCTTTGCCATTAATCAAGATGTTTAGTTATGCCTGCTGA
* *
83408144 TTTTGAGTTTGCAAAATATTGGGAAGCTATGTTTTTCAGTGGAGTAAAAGAATGAAAAAGGCTTC
1 TTTTGAGTTTGCAAAATATTGGGAAGCTATGTTTTTCAGTCGAATAAAAGAATGAAAAAGGCTTC
*
83408209 TTCTTTTTGGGTCCCAAAAAGAATGTTGCGGTCCGAAAGATGTTTTTTCTCCCTTCTTCCATTTC
66 TTCTTTTTGGGTCCCAAAAAGAATGTTGCGGTCCGAAAGATGCTTTTTCTCCCTTCTTCCATTTC
*
83408274 ACAACAATTTCTTTGCTATTAATCAAGATGTTTAGTTATGCCTGCTGA
131 ACAACAATTTCTTTGCCATTAATCAAGATGTTTAGTTATGCCTGCTGA
83408322 T
1 T
83408323 GTCAGATCGT
Statistics
Matches: 173, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
178 173 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (178 bp):
TTTTGAGTTTGCAAAATATTGGGAAGCTATGTTTTTCAGTCGAATAAAAGAATGAAAAAGGCTTC
TTCTTTTTGGGTCCCAAAAAGAATGTTGCGGTCCGAAAGATGCTTTTTCTCCCTTCTTCCATTTC
ACAACAATTTCTTTGCCATTAATCAAGATGTTTAGTTATGCCTGCTGA
Found at i:83410919 original size:21 final size:21
Alignment explanation
Indices: 83410895--83410946 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
83410885 GGAATTAGGG
83410895 ATGCTTATGCTTTTATGCTTA
1 ATGCTTATGCTTTTATGCTTA
83410916 ATGCTTATGCTTTTATGCTTA
1 ATGCTTATGCTTTTATGCTTA
83410937 ATGCTTATGC
1 ATGCTTATGC
83410947 ATTAATGGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (21 bp):
ATGCTTATGCTTTTATGCTTA
Found at i:83410921 original size:7 final size:6
Alignment explanation
Indices: 83410895--83410946 Score: 50
Period size: 6 Copynumber: 7.7 Consensus size: 6
83410885 GGAATTAGGG
83410895 ATGCTT ATGCTTTT ATGCTT AATGCTT ATGCTTTT ATGCTT AATGCTT
1 ATGCTT ATGC--TT ATGCTT -ATGCTT ATGC--TT ATGCTT -ATGCTT
83410943 ATGC
1 ATGC
83410947 ATTAATGGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
6 16 0.40
7 12 0.30
8 12 0.30
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
ATGCTT
Found at i:83410951 original size:14 final size:13
Alignment explanation
Indices: 83410895--83410953 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 13
83410885 GGAATTAGGG
*
83410895 ATGCTTATGCTTTT
1 ATGCTTATGC-TTA
83410909 ATGCTTAATGCTT-
1 ATGCTT-ATGCTTA
83410922 ATGCTTTTATGCTTA
1 ATGC--TTATGCTTA
83410937 ATGCTTATGCATTA
1 ATGCTTATGC-TTA
83410951 ATG
1 ATG
83410954 GTGCCATCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
13 10 0.25
14 20 0.50
15 10 0.25
ACGTcount: A:0.22, C:0.14, G:0.15, T:0.49
Consensus pattern (13 bp):
ATGCTTATGCTTA
Found at i:83424713 original size:24 final size:24
Alignment explanation
Indices: 83424685--83424744 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
83424675 AACCGTACTT
* * *
83424685 GCACACATAGTGCTA-ATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
83424709 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
83424733 GCACACATAGTG
1 GCACACATAGTG
83424745 TATTGGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:83432298 original size:44 final size:44
Alignment explanation
Indices: 83432235--83432325 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
83432225 ATCGGTAGGG
*
83432235 CTAAAAAGACAATAAGTTTTACACAACTTTGAGATATTATTATT
1 CTAAAAAGAAAATAAGTTTTACACAACTTTGAGATATTATTATT
83432279 CTAAAAAGAAAATAAGTTTTACACAACTTTGAGATATTATTATT
1 CTAAAAAGAAAATAAGTTTTACACAACTTTGAGATATTATTATT
83432323 CTA
1 CTA
83432326 CTCAAACATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (44 bp):
CTAAAAAGAAAATAAGTTTTACACAACTTTGAGATATTATTATT
Found at i:83436166 original size:15 final size:15
Alignment explanation
Indices: 83436148--83436178 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
83436138 ACTTAGTATG
83436148 TTCATACGTTTCAAT
1 TTCATACGTTTCAAT
83436163 TTCATACGTTTCAAT
1 TTCATACGTTTCAAT
83436178 T
1 T
83436179 CACTAACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (15 bp):
TTCATACGTTTCAAT
Found at i:83439902 original size:15 final size:15
Alignment explanation
Indices: 83439878--83439908 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
83439868 GATGTTTTAG
*
83439878 AAACTGGACTCAAAT
1 AAACTAGACTCAAAT
83439893 AAACTAGACTCAAAT
1 AAACTAGACTCAAAT
83439908 A
1 A
83439909 TATTTCTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (15 bp):
AAACTAGACTCAAAT
Found at i:83444375 original size:4 final size:4
Alignment explanation
Indices: 83444362--83444392 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
83444352 TGGTTTTTCA
83444362 AATT -ATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
83444393 GAAGTTGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
AATT
Found at i:83444420 original size:28 final size:27
Alignment explanation
Indices: 83444400--83444456 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 27
83444390 ATTGAAGTTG
83444400 GAAAATGAAATTAAATTAATTGGTCATA
1 GAAAATGAAATTAAATTAATTGGT-ATA
83444428 GAAAATGAAATTAAATTAATTGGTCATA
1 GAAAATGAAATTAAATTAATTGGT-ATA
83444456 G
1 G
83444457 TGAATCCGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.32
Consensus pattern (27 bp):
GAAAATGAAATTAAATTAATTGGTATA
Found at i:83457190 original size:199 final size:200
Alignment explanation
Indices: 83456843--83457210 Score: 519
Period size: 199 Copynumber: 1.8 Consensus size: 200
83456833 AGGTTTACCC
* *
83456843 CTTGTTTTGATCCAATCATGAACATCACCAATTATATCAATAGATAAGTGATTCTTACTAACTCT
1 CTTGTTTTGATCCAATCATGAACATCACCAAGTATATCAATAGATAAGTGATTCTTACTAACTCC
* * *
83456908 TTCTCAAGGTTAAAGTGGCCTATCATCATTAGACTGATCATTGACTAGATCAGTAACTTGAACAT
66 TACTAAAGGTTAAAGTGGCCTATCATCATTAGACTGATCATTGACTAGATCAATAACTTGAACAT
*
83456973 CTTGACTTTTTACTTCTAACT-TTTCTTTAAACTTAGTAATGCTAACGGGAGAGGGCACTTCCTT
131 CTTGACTTTCTACTTCTAACTATTTCTTTAAACTTAGTAATGCTAACGGGAGAGGGCACTTCCTT
83457037 TGCCT
196 TGCCT
* * * *
83457042 CTTGTTTTGATCCTATCATGATA-ATCACCAAGTATATCAGTAGGTGAGTGATTCTT-CTGAACT
1 CTTGTTTTGATCCAATCATGA-ACATCACCAAGTATATCAATAGATAAGTGATTCTTACT-AACT
* * * *
83457105 CCTACTAAAGTTTGAAGTGG-CTCATCATCATTATACTGATCATTGACTAGATTAATAACTTGAA
64 CCTACTAAAGGTTAAAGTGGCCT-ATCATCATTAGACTGATCATTGACTAGATCAATAACTTGAA
* * * *
83457169 CATCTTGACTTTCTGCTTCTAATTATTTTTTTAGACTTAGTA
128 CATCTTGACTTTCTACTTCTAACTATTTCTTTAAACTTAGTA
83457211 GTGCCAAGAG
Statistics
Matches: 147, Mismatches: 18, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
198 4 0.03
199 127 0.86
200 16 0.11
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (200 bp):
CTTGTTTTGATCCAATCATGAACATCACCAAGTATATCAATAGATAAGTGATTCTTACTAACTCC
TACTAAAGGTTAAAGTGGCCTATCATCATTAGACTGATCATTGACTAGATCAATAACTTGAACAT
CTTGACTTTCTACTTCTAACTATTTCTTTAAACTTAGTAATGCTAACGGGAGAGGGCACTTCCTT
TGCCT
Found at i:83459489 original size:40 final size:40
Alignment explanation
Indices: 83459444--83459635 Score: 210
Period size: 40 Copynumber: 4.8 Consensus size: 40
83459434 ATAACCACAA
* *
83459444 GCACAATTGCCTTCGGGTCTTAACCC-GAGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TATAGCAACTC
*
83459484 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
83459524 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * * *
83459564 GCATAAATGCCTTCGGGACTTAGCCCAGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
83459604 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
83459636 CATTCAAATG
Statistics
Matches: 140, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
39 1 0.01
40 133 0.95
41 6 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:83469982 original size:9 final size:9
Alignment explanation
Indices: 83469968--83470193 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
83469958 TATTTAAGTA
83469968 TTATGTAAG
1 TTATGTAAG
*
83469977 TTATGTAAT
1 TTATGTAAG
*
83469986 TTATGATATG
1 TTATG-TAAG
* * *
83469996 ATATAT-AT
1 TTATGTAAG
*
83470004 TTATGTAAA
1 TTATGTAAG
* *
83470013 TTATAT-AT
1 TTATGTAAG
*
83470021 TTATCTAAG
1 TTATGTAAG
*
83470030 TTATATAAG
1 TTATGTAAG
83470039 TTATGTAAG
1 TTATGTAAG
*
83470048 TTATGTAAA
1 TTATGTAAG
*
83470057 TTATGATATAAAA
1 TTATG---T-AAG
*
83470070 TATATTTAAG
1 T-TATGTAAG
83470080 TATTATGTAAG
1 --TTATGTAAG
83470091 TTATGTAAG
1 TTATGTAAG
* *
83470100 TTATAT-AT
1 TTATGTAAG
*
83470108 TTATCTAAG
1 TTATGTAAG
*
83470117 TTATATAAG
1 TTATGTAAG
*
83470126 TTATATAAG
1 TTATGTAAG
*
83470135 TTATGTATG
1 TTATGTAAG
*
83470144 TTATATAAG
1 TTATGTAAG
83470153 TTATGTAAG
1 TTATGTAAG
* *
83470162 TTATATATG
1 TTATGTAAG
*
83470171 TTATATAAG
1 TTATGTAAG
*
83470180 TTATGTAAA
1 TTATGTAAG
83470189 TTATG
1 TTATG
83470194 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:83470047 original size:18 final size:18
Alignment explanation
Indices: 83469968--83470193 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
83469958 TATTTAAGTA
* *
83469968 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
83469986 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
83470004 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
83470021 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
83470039 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
83470057 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
83470080 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
83470100 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
83470117 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
83470135 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
83470153 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
83470171 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
83470189 TTATG
1 TTATG
83470194 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:83470060 original size:27 final size:27
Alignment explanation
Indices: 83470021--83470193 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
83470011 AATTATATAT
*
83470021 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
83470048 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
83470080 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
83470108 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
83470135 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
83470162 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
83470189 TTATG
1 TTATG
83470194 ATATCAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 59 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:83470078 original size:114 final size:114
Alignment explanation
Indices: 83469944--83470165 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
83469934 ACTAGTTATG
* * * *
83469944 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
83470008 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
83470058 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
83470123 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
83470166 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:83470318 original size:15 final size:15
Alignment explanation
Indices: 83470298--83470353 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
83470288 AAGTAGCGGG
83470298 ATTAAATAATATTTA
1 ATTAAATAATATTTA
83470313 ATTAAATAATATTT-
1 ATTAAATAATATTTA
83470327 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
83470342 ATTAAATAATAT
1 ATTAAATAATAT
83470354 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:83470592 original size:24 final size:24
Alignment explanation
Indices: 83470529--83470595 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
83470519 ACTTAAATGG
83470529 TAAAAC-GACGATAATATTTGTGA
1 TAAAACGGACGATAATATTTGTGA
83470552 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTGA
*
83470576 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
83470596 CAAAATAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
23 7 0.17
24 32 0.80
25 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTGA
Found at i:83471528 original size:370 final size:370
Alignment explanation
Indices: 83470686--83471590 Score: 1769
Period size: 370 Copynumber: 2.4 Consensus size: 370
83470676 GAAACATACA
83470686 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
83470751 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
83470816 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
83470881 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAATA
196 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAATA
83470946 ATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATA
261 ATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATA
83471011 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
326 TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
83471056 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
83471121 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
83471186 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
83471251 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAATA
196 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAAT-
83471316 ATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAA
260 A-ATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAA
83471381 TATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTC-TTTTG
324 TATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
83471427 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
83471492 TCGATATAAGGCAACCCGTCAGGTTTCCAG-CTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
*
83471556 AGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTT
83471591 AATGGACAAG
Statistics
Matches: 532, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
370 327 0.61
371 101 0.19
372 104 0.20
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (370 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAATAGTAATTTGAATATAATA
ATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATA
TTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
Found at i:83475829 original size:15 final size:15
Alignment explanation
Indices: 83475809--83475840 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
83475799 AAATAATAAT
*
83475809 TTATATATATTTATC
1 TTATATACATTTATC
83475824 TTATATACATTTATC
1 TTATATACATTTATC
83475839 TT
1 TT
83475841 CTACATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:83476283 original size:18 final size:18
Alignment explanation
Indices: 83476260--83476308 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
83476250 TTACACCCTA
83476260 AATATATATTATAA-TCTT
1 AATATATATTATAAGT-TT
*
83476278 AATATATATTAGAAGTTT
1 AATATATATTATAAGTTT
83476296 AATATATA-TATAA
1 AATATATATTATAA
83476309 CAAGGGACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 23 0.82
19 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
AATATATATTATAAGTTT
Found at i:83476659 original size:41 final size:41
Alignment explanation
Indices: 83476614--83476762 Score: 226
Period size: 41 Copynumber: 3.6 Consensus size: 41
83476604 TTACTTTTTT
*
83476614 GCGGCGTTTTCCCAAAAGCGCCGCTAAAACATCGGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
* * *
83476655 GCGGCGTTTTTCCGAAAGCGCTGCTAAAACATCCGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
* * *
83476696 GCGGCGTTTTTCCAGAAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
*
83476737 GCGGCGTTTTTCCAGAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
83476763 TTGTTCAGTT
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.22
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
Found at i:83476812 original size:41 final size:40
Alignment explanation
Indices: 83476735--83476826 Score: 132
Period size: 41 Copynumber: 2.3 Consensus size: 40
83476725 CCTCGACCTA
* *
83476735 TAGCGGCGTTTTTCCAGAAGCGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTTTCCAGAAACGCCGCTATTGGTCAGTTTT
*
83476775 TAGCGGCGTTTTTGGCCA-AAACGTCGCTATTGGTCAGTTTT
1 TAGCGGCGTTTTT--CCAGAAACGCCGCTATTGGTCAGTTTT
83476816 TAGCGGCGTTT
1 TAGCGGCGTTT
83476827 GGATCAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
40 13 0.28
41 31 0.66
42 3 0.06
ACGTcount: A:0.15, C:0.21, G:0.27, T:0.37
Consensus pattern (40 bp):
TAGCGGCGTTTTTCCAGAAACGCCGCTATTGGTCAGTTTT
Found at i:83476837 original size:41 final size:40
Alignment explanation
Indices: 83476735--83476847 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 40
83476725 CCTCGACCTA
** * * *
83476735 TAGCGGCGTTTTTCCAGAAGCGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTTGGCAAAAACGCCGCTATTGGTCAGTTTT
* *
83476775 TAGCGGCGTTTTTGGCCAAAACGTCGCTATTGGTCAGTTTT
1 TAGCGGCG-TTTTGGCAAAAACGCCGCTATTGGTCAGTTTT
*
83476816 TAGCGGCG-TTTGGATCAAAAACGCCCCTATTG
1 TAGCGGCGTTTTGG--CAAAAACGCCGCTATTG
83476848 CTCTATTTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
39 5 0.08
40 8 0.13
41 47 0.78
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.34
Consensus pattern (40 bp):
TAGCGGCGTTTTGGCAAAAACGCCGCTATTGGTCAGTTTT
Found at i:83481857 original size:13 final size:13
Alignment explanation
Indices: 83481839--83481870 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
83481829 ATAGTTTAAT
83481839 AATAAAATAAAGA
1 AATAAAATAAAGA
83481852 AATAAAATAAAGA
1 AATAAAATAAAGA
83481865 AATAAA
1 AATAAA
83481871 TGAAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (13 bp):
AATAAAATAAAGA
Found at i:83483180 original size:15 final size:15
Alignment explanation
Indices: 83483157--83483204 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
83483147 TATCAAATTT
83483157 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
83483172 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
83483187 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
83483201 ATAT
1 ATAT
83483205 ATTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:83483860 original size:18 final size:19
Alignment explanation
Indices: 83483839--83483879 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
83483829 AATGAAATGA
83483839 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
83483857 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
83483876 GAAA
1 GAAA
83483880 ACATGAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:83488379 original size:20 final size:20
Alignment explanation
Indices: 83488336--83488384 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
83488326 AATTATTAAT
* * *
83488336 AATATGTTATAGATTAATCG
1 AATATATTAGAGATTAATCC
*
83488356 AATATATTAGAGATTAGTCC
1 AATATATTAGAGATTAATCC
*
83488376 AATACATTA
1 AATATATTA
83488385 TATAAGCCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (20 bp):
AATATATTAGAGATTAATCC
Found at i:83490095 original size:3 final size:3
Alignment explanation
Indices: 83490087--83490127 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
83490077 ACTTGTGCCT
83490087 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
83490128 TAAATCATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:83491469 original size:23 final size:23
Alignment explanation
Indices: 83491439--83491485 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
83491429 GCCTCTTAGA
*
83491439 CTTCCTTCTCTTCACAGCAATCC
1 CTTCCTTCTCTTCACAACAATCC
83491462 CTTCCTTCTCTTCACAACAATCC
1 CTTCCTTCTCTTCACAACAATCC
83491485 C
1 C
83491486 AACCCTACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.45, G:0.02, T:0.34
Consensus pattern (23 bp):
CTTCCTTCTCTTCACAACAATCC
Found at i:83515243 original size:5 final size:5
Alignment explanation
Indices: 83515233--83515268 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
83515223 GGTTTTATTA
83515233 TTTAT TTTA- TTTATT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT T
83515269 AATTTAGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:83515261 original size:16 final size:16
Alignment explanation
Indices: 83515225--83515265 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
83515215 GATATTTTGG
83515225 TTTTATTATTTATTTTA
1 TTTTATT-TTTATTTTA
83515242 -TTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
83515257 TTTTATTTT
1 TTTTATTTT
83515266 ATTAATTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:83516898 original size:21 final size:21
Alignment explanation
Indices: 83516874--83516971 Score: 53
Period size: 21 Copynumber: 4.7 Consensus size: 21
83516864 AAACTTTTTA
83516874 TTTATTATTTTTATTTTCAC-
1 TTTATTATTTTTATTTTCACT
*
83516894 -TT-TTATCTTTATTTATCACAT
1 TTTATTATTTTTATTT-TCAC-T
* * * *
83516915 TTAAGTACTTTT-TTTTCATT
1 TTTATTATTTTTATTTTCACT
* *
83516935 TATTATTATTTTAATTTT-AGTT
1 T-TTATTATTTTTATTTTCA-CT
*
83516957 TTTATAATTTTTATT
1 TTTATTATTTTTATT
83516972 GAATAATTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
18 11 0.19
19 6 0.10
20 2 0.03
21 23 0.40
22 11 0.19
23 5 0.09
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATTATTTTTATTTTCACT
Found at i:83516899 original size:18 final size:19
Alignment explanation
Indices: 83516878--83516917 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
83516868 TTTTTATTTA
* *
83516878 TTATTTTTATTT-TCACTT
1 TTATCTTTATTTATCACAT
83516896 TTATCTTTATTTATCACAT
1 TTATCTTTATTTATCACAT
83516915 TTA
1 TTA
83516918 AGTACTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATCTTTATTTATCACAT
Found at i:83520693 original size:39 final size:39
Alignment explanation
Indices: 83520632--83520711 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
83520622 TTAAGCATAT
83520632 GATAATTATATGATTGTTCTATATTTATTTTGAAAGGTG
1 GATAATTATATGATTGTTCTATATTTATTTTGAAAGGTG
83520671 GATAATTATATGATT-TTCCTATATTTATTTTGAAAGGTG
1 GATAATTATATGATTGTT-CTATATTTATTTTGAAAGGTG
83520710 GA
1 GA
83520712 GGGATTGACA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 2 0.05
39 38 0.95
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.47
Consensus pattern (39 bp):
GATAATTATATGATTGTTCTATATTTATTTTGAAAGGTG
Found at i:83524771 original size:47 final size:48
Alignment explanation
Indices: 83524717--83524812 Score: 185
Period size: 47 Copynumber: 2.0 Consensus size: 48
83524707 GGTACTCTAA
83524717 TATTGTAATATTTTAACTTCACAAGTAGAGTTATAAATTTATC-TGTG
1 TATTGTAATATTTTAACTTCACAAGTAGAGTTATAAATTTATCGTGTG
83524764 TATTGTAATATTTTAACTTCACAAGTAGAGTTATAAATTTATCGTGTG
1 TATTGTAATATTTTAACTTCACAAGTAGAGTTATAAATTTATCGTGTG
83524812 T
1 T
83524813 CTCATTTTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 43 0.90
48 5 0.10
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (48 bp):
TATTGTAATATTTTAACTTCACAAGTAGAGTTATAAATTTATCGTGTG
Found at i:83526877 original size:21 final size:21
Alignment explanation
Indices: 83526828--83526877 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
83526818 GACTGGACAA
* *
83526828 ACTAAACACTACAAAAGTGTGG
1 ACTAAA-ACCACAAAAGTGTAG
**
83526850 AAAAAAACCACAAAAGTGTAG
1 ACTAAAACCACAAAAGTGTAG
83526871 ACTAAAA
1 ACTAAAA
83526878 TTAAATAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.56, C:0.16, G:0.14, T:0.14
Consensus pattern (21 bp):
ACTAAAACCACAAAAGTGTAG
Found at i:83529921 original size:20 final size:22
Alignment explanation
Indices: 83529886--83529933 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
83529876 ATGTAAAGTA
83529886 TATAAAAAGATAAAA-TTATTT
1 TATAAAAAGATAAAATTTATTT
* *
83529907 T-TAAAATGATCAAATTTATTT
1 TATAAAAAGATAAAATTTATTT
83529928 TATAAA
1 TATAAA
83529934 GTAATGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 11 0.48
21 8 0.35
22 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (22 bp):
TATAAAAAGATAAAATTTATTT
Found at i:83529927 original size:21 final size:21
Alignment explanation
Indices: 83529886--83529933 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
83529876 ATGTAAAGTA
83529886 TATAAAAAGATAAAATTATTT
1 TATAAAAAGATAAAATTATTT
* *
83529907 T-TAAAATGATCAAATTTATTT
1 TATAAAAAGAT-AAAATTATTT
83529928 TATAAA
1 TATAAA
83529934 GTAATGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 11 0.48
22 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
TATAAAAAGATAAAATTATTT
Found at i:83533661 original size:2 final size:2
Alignment explanation
Indices: 83533654--83533679 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
83533644 ACATAAAATC
83533654 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
83533680 GATAGATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:83533787 original size:2 final size:2
Alignment explanation
Indices: 83533782--83533808 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
83533772 AAAAAAAAAA
83533782 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
83533809 ACAGTAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:83534343 original size:6 final size:6
Alignment explanation
Indices: 83534332--83534370 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
83534322 CCCTCATGTG
* *
83534332 CCTGAC CCTGAC CCTGAC CCTGAC CCTCAC CCTCAC CCT
1 CCTGAC CCTGAC CCTGAC CCTGAC CCTGAC CCTGAC CCT
83534371 CACTCCATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.15, C:0.56, G:0.10, T:0.18
Consensus pattern (6 bp):
CCTGAC
Found at i:83536635 original size:30 final size:30
Alignment explanation
Indices: 83536601--83536660 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
83536591 TGCATAAGAT
83536601 TTATAAAAATAAAAAATATAAATAAATACC
1 TTATAAAAATAAAAAATATAAATAAATACC
83536631 TTATAAAAATAAAAAATATAAATAAATACC
1 TTATAAAAATAAAAAATATAAATAAATACC
83536661 CAATTTTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (30 bp):
TTATAAAAATAAAAAATATAAATAAATACC
Found at i:83537201 original size:16 final size:17
Alignment explanation
Indices: 83537170--83537207 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
83537160 TTATTTTTCT
83537170 TAAATTGTTTTATTT-A
1 TAAATTGTTTTATTTAA
83537186 TAAATT-TTTTATTTTAA
1 TAAATTGTTTTA-TTTAA
83537203 TAAAT
1 TAAAT
83537208 AATGTCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 9 0.45
17 6 0.30
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TAAATTGTTTTATTTAA
Found at i:83537207 original size:17 final size:16
Alignment explanation
Indices: 83537170--83537199 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
83537160 TTATTTTTCT
83537170 TAAATTGTTTTATTTA
1 TAAATTGTTTTATTTA
83537186 TAAATT-TTTTATTT
1 TAAATTGTTTTATTT
83537200 TAATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TAAATTGTTTTATTTA
Found at i:83541667 original size:40 final size:40
Alignment explanation
Indices: 83541569--83541819 Score: 305
Period size: 40 Copynumber: 6.3 Consensus size: 40
83541559 CATTTGAATG
* *
83541569 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
83541609 ATA-CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
83541648 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-TAGTGATT
* * *
83541688 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
83541728 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
83541768 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
83541808 ATATCC-GGCTAA
1 ATATCCGGGCTAA
83541820 ATTCCGAAGA
Statistics
Matches: 179, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.01
39 42 0.23
40 129 0.72
41 6 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:83541734 original size:80 final size:79
Alignment explanation
Indices: 83541570--83541819 Score: 412
Period size: 80 Copynumber: 3.2 Consensus size: 79
83541560 ATTTGAATGA
83541570 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCGGGTTAAGACCCGAAGGCAAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCGGGTTAAGACCCGAAGGCAAT
83541635 TGTGCTAGTGATTT
66 TGTGCTAGTGATTT
*
83541649 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-CCGGGTTAAGACCCGAAGGCAA
83541714 TTGTGCTAGTGATTT
65 TTGTGCTAGTGATTT
* * *
83541729 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-CCGGGTTAAGACCCGAAGGCAA
* * *
83541794 TTGTGCTTGTGGTTA
65 TTGTGCTAGTGATTT
83541809 TATCC-GGCTAA
1 TATCCGGGCTAA
83541820 ATTCCGAAGA
Statistics
Matches: 161, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
79 47 0.29
80 114 0.71
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCGGGTTAAGACCCGAAGGCAAT
TGTGCTAGTGATTT
Found at i:83545930 original size:80 final size:80
Alignment explanation
Indices: 83545797--83546047 Score: 407
Period size: 80 Copynumber: 3.1 Consensus size: 80
83545787 ATTTGAATGA
83545797 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGCTATACCCGGGTTAAGACCCGAAGGCA
83545861 ATTGTGCTAGTGATTT
65 ATTGTGCTAGTGATTT
83545877 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
83545942 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
* * * * *
83545957 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
* * *
83546022 TTGTGCTTGTGGTTA
66 TTGTGCTAGTGATTT
83546037 TATCC-GGCTAA
1 TATCCGGGCTAA
83546048 ATTCCGAAGA
Statistics
Matches: 162, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
79 6 0.04
80 154 0.95
81 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
TTGTGCTAGTGATTT
Found at i:83546039 original size:40 final size:40
Alignment explanation
Indices: 83545796--83546047 Score: 308
Period size: 40 Copynumber: 6.3 Consensus size: 40
83545786 CATTTGAATG
* * *
83545796 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
* * * *
83545836 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
* * * * *
83545876 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
* * * *
83545916 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
* * * *
83545956 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
*
83545996 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
83546036 ATATCC-GGCTAA
1 ATATCCGGGCTAA
83546048 ATTCCGAAGA
Statistics
Matches: 174, Mismatches: 38, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
39 6 0.03
40 168 0.97
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTT
Found at i:83548910 original size:83 final size:82
Alignment explanation
Indices: 83548675--83549075 Score: 299
Period size: 83 Copynumber: 4.8 Consensus size: 82
83548665 TTTTGACAAA
** * ** *
83548675 CAGAAATTTCAAATACCTCAGC-GTGTCATGATGCTCAACTCACCTCTCGCAATATGAGTTGA-T
1 CAGAAATTGAAAATACCTCAGCTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
**** *
83548738 TTAAAAACAGACATTAAAA-
66 TTTTTGA-A-A-TTTAAAAG
* * * * *
83548757 CAGAAATTGAAAATAGCTCAG-TACGTGAGCCAAGGCTCAACTCACCTCTCGCCATATGAGTTGG
1 CAGAAATTGAAAATACCTCAGCT--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
83548821 TCTTTTTGAAATTTAAAAG
64 TTTTTTTGAAATTTAAAAG
** *
83548840 CAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA
1 CAGAAATTGAAAATACCTCAG-C-TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
83548904 TTTTTTTTTGAAAAATAAAAATTGAAAAA
64 --TTTTTTTG--AAAT-----TT-AAAAG
83548933 CAGAAATTGAAAATACCTCAGC-GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 CAGAAATTGAAAATACCTCAGCTGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
83548995 -CTTTT----TTCAAAAG
65 TTTTTTGAAATTTAAAAG
* *
83549008 CAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTCG-AGATATGAGTTGA
1 CAGAAATTGAAAATACCTCAGC-TGTGACCCGAGGCTCAACTCACCTCTCGCA-ATATGAGTTGA
83549072 TTTT
64 TTTT
83549076 GGAAAAGTAG
Statistics
Matches: 257, Mismatches: 36, Indels: 55
0.74 0.10 0.16
Matches are distributed among these distances:
75 26 0.10
76 2 0.01
77 33 0.13
78 2 0.01
79 1 0.00
81 1 0.00
82 25 0.10
83 52 0.20
84 33 0.13
85 11 0.04
87 8 0.03
90 3 0.01
91 35 0.14
92 2 0.01
93 22 0.09
94 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (82 bp):
CAGAAATTGAAAATACCTCAGCTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTGAAATTTAAAAG
Found at i:83548930 original size:14 final size:14
Alignment explanation
Indices: 83548911--83548945 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
83548901 TGATTTTTTT
*
83548911 TTGAAAAATAAAAA
1 TTGAAAAACAAAAA
*
83548925 TTGAAAAACAGAAA
1 TTGAAAAACAAAAA
83548939 TTGAAAA
1 TTGAAAA
83548946 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAAAAA
Found at i:83549066 original size:77 final size:74
Alignment explanation
Indices: 83548928--83549075 Score: 210
Period size: 77 Copynumber: 2.0 Consensus size: 74
83548918 ATAAAAATTG
*
83548928 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
83548993 GACTTTTTTC
66 GA-TTTTTTC
* *
83549003 AAAAGCAGAAATTGAAAATACCTCAGCGTGTGAGCC-AAGGCTCAACTCACCTCTCG-AGATATG
1 AAAAACAGAAATTGAAAATACCTCAGC--GTG-CCCTAAGGCTCAACTCACCTCTCGCA-ATATG
83549066 AGTTGATTTT
62 AGTTGATTTT
83549076 GGAAAAGTAG
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
75 26 0.39
76 5 0.08
77 33 0.50
78 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (74 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTC
Found at i:83549082 original size:75 final size:74
Alignment explanation
Indices: 83548927--83549095 Score: 209
Period size: 75 Copynumber: 2.3 Consensus size: 74
83548917 AATAAAAATT
* *
83548927 GAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 GAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
*
83548992 TGACTTTTTT
66 TGAC-TTTTG
* *
83549002 CAAAAGCAGAAATTGAAAATACCTCAGCGTGTGAGCC-AAGGCTCAACTCACCTCTCG-AGATAT
1 GAAAAGCAGAAATTGAAAATACCTCAGC--GTG-CCCTAAGGCTCAACTCACCTCTCGCA-ATAT
83549065 GAGTTGA-TTTTG
62 GAGTTGACTTTTG
* *
83549077 GAAAAGTAGAAATTAAAAA
1 GAAAAGCAGAAATTGAAAA
83549096 CAGAATTTGA
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
75 46 0.56
76 1 0.01
77 33 0.40
78 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (74 bp):
GAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
TGACTTTTG
Found at i:83549111 original size:14 final size:14
Alignment explanation
Indices: 83549094--83549120 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
83549084 AGAAATTAAA
83549094 AACAGAATTTGAAC
1 AACAGAATTTGAAC
83549108 AACAGAATTTGAA
1 AACAGAATTTGAA
83549121 AATATCTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (14 bp):
AACAGAATTTGAAC
Found at i:83549244 original size:77 final size:78
Alignment explanation
Indices: 83549116--83549262 Score: 233
Period size: 77 Copynumber: 1.9 Consensus size: 78
83549106 ACAACAGAAT
* * * *
83549116 TTGAAAATATCTCGGCATGTAACCCGAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTTT-
1 TTGAAAATACCTCAGCATGTAACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
83549180 AAAAGTATAAAAA
66 AAAAGTATAAAAA
* *
83549193 TTGAAAATACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
1 TTGAAAATACCTCAGCATGTAACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
83549258 AAAAG
66 AAAAG
83549263 CAAAGATTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
77 58 0.92
78 5 0.08
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (78 bp):
TTGAAAATACCTCAGCATGTAACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
AAAAGTATAAAAA
Found at i:83549288 original size:13 final size:14
Alignment explanation
Indices: 83549256--83549288 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
83549246 GTTGATTTTT
*
83549256 TGAAAAGCAAAGAT
1 TGAAAAGCAAAGAA
83549270 TGAAAAGCAAA-AA
1 TGAAAAGCAAAGAA
83549283 TGAAAA
1 TGAAAA
83549289 TTCCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.64, C:0.06, G:0.18, T:0.12
Consensus pattern (14 bp):
TGAAAAGCAAAGAA
Found at i:83549416 original size:88 final size:85
Alignment explanation
Indices: 83549189--83549449 Score: 310
Period size: 88 Copynumber: 3.0 Consensus size: 85
83549179 TAAAAGTATA
* * *
83549189 AAAATTGAAAATACCTCAGCATGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AAAATTGAAAATACCTCAG--TGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-AAT
*
83549253 TTTTGAAAAGCA-AAGATTGAAAAGC
62 TTTTGAAAA-CATAA-ATTGAAAAAC
* * *
83549278 AAAAATGAAAATTCCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
1 AAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
83549343 GACAAACATAAATTTGAAAAAC
66 GA-AAACATAAA-TTGAAAAAC
** * *
83549365 AGATTTTGAAAATACCTCAGTGTGCCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTT
1 A-AAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
*
83549430 TGAAAAATATAAATTGAAAA
65 TG-AAAACATAAATTGAAAA
83549450 TACCTCAGCG
Statistics
Matches: 151, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
86 13 0.09
87 54 0.36
88 66 0.44
89 18 0.12
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (85 bp):
AAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
GAAAACATAAATTGAAAAAC
Found at i:83550357 original size:41 final size:43
Alignment explanation
Indices: 83550305--83550385 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
83550295 TGTGTTAATC
83550305 AAGACGCCC-TTTTCAGGTTTTCACCTTGA-TCCCTTTTTTTT
1 AAGACGCCCTTTTTCAGGTTTTCACCTTGATTCCCTTTTTTTT
* * * *
83550346 AAGATGCCCTTTTTCGGGTTTTCATCTTGATTTCCTTTTT
1 AAGACGCCCTTTTTCAGGTTTTCACCTTGATTCCCTTTTT
83550386 CTTCAAGCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 8 0.24
42 18 0.53
43 8 0.24
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (43 bp):
AAGACGCCCTTTTTCAGGTTTTCACCTTGATTCCCTTTTTTTT
Found at i:83568280 original size:23 final size:22
Alignment explanation
Indices: 83568238--83568285 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 22
83568228 CTTTTAAGTT
*
83568238 AAAAGAGATGGAGAATGAAG-G
1 AAAAGAGAGGGAGAATGAAGAG
*
83568259 AAAATAGAGGGAGAAGTAGAAGAG
1 AAAAGAGAGGGAGAA-T-GAAGAG
83568283 AAA
1 AAA
83568286 GGAAAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 13 0.59
22 1 0.05
23 4 0.18
24 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.35, T:0.08
Consensus pattern (22 bp):
AAAAGAGAGGGAGAATGAAGAG
Found at i:83580908 original size:129 final size:129
Alignment explanation
Indices: 83580646--83580976 Score: 388
Period size: 129 Copynumber: 2.6 Consensus size: 129
83580636 AGTCCAATGA
* * * * * * *
83580646 GAAAATCGAAACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAGATATCGAACATTGCCTT
1 GAAAATTGAAACCCAGCACGA-TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTT
* * * * *
83580710 -ATTTT-AGAA-TTCAGAAAACATGAGTGAAATTCTAAAGGGATATTCGATCATTTTGAACAAAC
65 CGTTTTAAAAATTTTA-AAGACATGAGTGAAATTCCAAAGGGATATTCGATCATTTTGAACAAAC
83580772 G
129 G
*
83580773 GAAAATTGAAACCCAGCACGATAGTGCACGATTCCCC-AAGTTGCCAAACATCGAACATTACCTT
1 GAAAATTGAAACCCAGCACGATAGGGCACGATTCCCCGAA-TTGCCAAACATCGAACATTACCTT
* * *
83580837 CGTTTTAAAAATTTTAAAGACATGGGTGAAATTCCAAA-GGATTATTCGATTATTTTGAATAAAC
65 CGTTTTAAAAATTTTAAAGACATGAGTGAAATTCCAAAGGGA-TATTCGATCATTTTGAACAAAC
83580901 AG
129 -G
* * * *
83580903 G-AAATTGCAACCCAGTACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACGTTGCCTTC
1 GAAAATTGAAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTC
83580967 GTTTTAAAAA
66 GTTTTAAAAA
83580977 AAAATTTAAT
Statistics
Matches: 175, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
126 2 0.01
127 51 0.29
128 8 0.05
129 107 0.61
130 7 0.04
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (129 bp):
GAAAATTGAAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTC
GTTTTAAAAATTTTAAAGACATGAGTGAAATTCCAAAGGGATATTCGATCATTTTGAACAAACG
Found at i:83590159 original size:92 final size:92
Alignment explanation
Indices: 83590043--83590315 Score: 413
Period size: 92 Copynumber: 3.0 Consensus size: 92
83590033 TTTGACATGA
* * *
83590043 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGTCATGGTATCTTTCAAC
1 TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
83590108 CATGGTCTTATTCATTTCATATCACGT
66 CATGGTCTTATTCATTTCATATCACGT
* * * * *
83590135 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTAACTTTCAAC
1 TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
83590200 CATGGTCTTATTCATTTCATATCACGT
66 CATGGTCTTATTCATTTCATATCACGT
* * *
83590227 TGCCATGGTGTCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
1 TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
**
83590291 CCATGGTCTTACACATTTCATATCA
65 CCATGGTCTTATTCATTTCATATCA
83590316 GAGAGCACAC
Statistics
Matches: 162, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
91 3 0.02
92 159 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (92 bp):
TGCCATGGTGTCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCACGT
Found at i:83590316 original size:46 final size:46
Alignment explanation
Indices: 83590043--83590315 Score: 368
Period size: 46 Copynumber: 5.9 Consensus size: 46
83590033 TTTGACATGA
* * * * *
83590043 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* *
83590089 TGTCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *** *
83590135 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
83590181 TGCCATGGTAACTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
83590227 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
83590273 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
83590316 GAGAGCACAC
Statistics
Matches: 203, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 199 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:83592492 original size:30 final size:30
Alignment explanation
Indices: 83592425--83592492 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
83592415 CACCCTTACA
* * *
83592425 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
83592455 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
83592484 AGTATTTAC
1 A-TATTTAC
83592493 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:83592877 original size:33 final size:33
Alignment explanation
Indices: 83592840--83592913 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
83592830 TCAGAGAGTT
* *
83592840 ACACGGGCAAGGCCCACGGCCATGTGTTCAGAC
1 ACACGGGCAAGGCACACGGCCATGTGTTCAAAC
*
83592873 ACACGGGCAAGGCACACGGCCGTGTGTTCAAAC
1 ACACGGGCAAGGCACACGGCCATGTGTTCAAAC
83592906 ACACGGGC
1 ACACGGGC
83592914 GTGTGGTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.26, C:0.32, G:0.31, T:0.11
Consensus pattern (33 bp):
ACACGGGCAAGGCACACGGCCATGTGTTCAAAC
Found at i:83593547 original size:6 final size:6
Alignment explanation
Indices: 83593528--83593574 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
83593518 AGTCCCTTTA
* * *
83593528 TTTATT TATTATT TTTATT TTTA-T TTAAAT TTTATT TTGATT TTTAT
1 TTTATT T-TTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTAT
83593575 CTATTTTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
5 4 0.12
6 24 0.71
7 6 0.18
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:83593554 original size:23 final size:22
Alignment explanation
Indices: 83593524--83593582 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
83593514 TTTGAGTCCC
*
83593524 TTTATTTATTTATTATTTTTATT
1 TTTATTTATTT-TTATTTTGATT
*
83593547 TTTATTTAAATTTTATTTTGATT
1 TTTATTT-ATTTTTATTTTGATT
*
83593570 TTTATCTATTTTT
1 TTTATTTATTTTT
83593583 GAAGACTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 5 0.16
23 23 0.74
24 3 0.10
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTATTTATTTTTATTTTGATT
Found at i:83599268 original size:30 final size:30
Alignment explanation
Indices: 83599234--83599294 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
83599224 CCTTTAATAC
83599234 AAACTTTTGAAAAATTAC-CATTTTGCCCCT
1 AAACTTTTGAAAAATTACAC-TTTTGCCCCT
*
83599264 AAACTTTTGCAAAATTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACACTTTTGCCCCT
83599294 A
1 A
83599295 GCCTTGGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.36
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACACTTTTGCCCCT
Found at i:83603028 original size:27 final size:27
Alignment explanation
Indices: 83602975--83603150 Score: 82
Period size: 27 Copynumber: 6.6 Consensus size: 27
83602965 CAACAATATT
83602975 AAAATAAATAATATACAAAGCAATTTA
1 AAAATAAATAATATACAAAGCAATTTA
* * *
83603002 AAAATAAATGATATA-TAAGACACTTT-
1 AAAATAAATAATATACAAAG-CAATTTA
* * *
83603028 AAAAT-GA-CATATA-AAAG-AGTTT-
1 AAAATAAATAATATACAAAGCAATTTA
* *
83603050 AAAATAAATAATATGTAAAAGAGAAATTT-
1 AAAATAAATAATA--TACAA-AGCAATTTA
* * *
83603079 AAAATAAATAATGTACAAAAACAGTTTA
1 AAAATAAATAATATAC-AAAGCAATTTA
* * * *
83603107 AATAAAAAATATATATATAAAG-ATAATTC
1 AA-AATAAATA-ATATACAAAGCA-ATTTA
83603136 AAAATAAATAATATA
1 AAAATAAATAATATA
83603151 TATAAAAGTT
Statistics
Matches: 113, Mismatches: 23, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
22 9 0.08
23 1 0.01
24 11 0.10
25 1 0.01
26 10 0.09
27 33 0.29
28 14 0.12
29 30 0.27
30 4 0.04
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATAAATAATATACAAAGCAATTTA
Found at i:83603050 original size:22 final size:22
Alignment explanation
Indices: 83603007--83603054 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
83602997 ATTTAAAAAT
* *
83603007 AAATGATATATAAGACACTTTA
1 AAATGACATATAAAACACTTTA
* *
83603029 AAATGACATATAAAAGAGTTTA
1 AAATGACATATAAAACACTTTA
83603051 AAAT
1 AAAT
83603055 AAATAATATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.29
Consensus pattern (22 bp):
AAATGACATATAAAACACTTTA
Found at i:83603108 original size:56 final size:57
Alignment explanation
Indices: 83603040--83603165 Score: 143
Period size: 57 Copynumber: 2.2 Consensus size: 57
83603030 AATGACATAT
* * * * *
83603040 AAAAGAGTTTAAAATAAATAATATGTA-A-AAGAGA-AATTTAAAATAAATAATGTAC
1 AAAAAAGTTTAAAATAAAAAATATATATATAA-AGATAATTCAAAATAAATAATATAC
*
83603095 AAAAACAGTTT-AAATAAAAAATATATATATAAAGATAATTCAAAATAAATAATATAT
1 AAAAA-AGTTTAAAATAAAAAATATATATATAAAGATAATTCAAAATAAATAATATAC
*
83603152 ATAAAAGTTTAAAA
1 AAAAAAGTTTAAAA
83603166 AATTTAAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
55 18 0.31
56 14 0.24
57 27 0.46
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (57 bp):
AAAAAAGTTTAAAATAAAAAATATATATATAAAGATAATTCAAAATAAATAATATAC
Found at i:83604961 original size:44 final size:44
Alignment explanation
Indices: 83604864--83605570 Score: 507
Period size: 44 Copynumber: 15.6 Consensus size: 44
83604854 TTTAATTTGT
* * * *
83604864 TCCACTGTC-ACTTCAGGGAAATAAGATTTGCTATCTTCAGCCTGC
1 TCCACTG-CAACTTCAGGGAGATAAGACTTG-TAACTTCAACCTGC
* *
83604909 CCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTCC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
** * * * * *
83604953 TCCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
** * *
83604997 TTTACTACAACTTCAGGGAGATAAGATTTGTCATGGTTACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGT-A-----ACTTCAACCTGC
* * *
83605047 TCCACTGCAACTTCAGGGAGATAAGGTTTGTAATTTGTAGCTTCAATCC-GT
1 TCCACTGCAACTTCAGGGAGATAA-----G--ACTTGTAACTTCAA-CCTGC
* * **
83605098 TCCACTGCAACTTCAGGGAAATAAGA-TTCGTTACCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAACCTGC
* * *
83605143 TCCACTGTAACTTCAGAGAGATAAGACTTGTAACTTCAACCTGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
* * * * * *
83605187 TCTACTGCAACTTCAGGAAGATAAGGCTTGT-GCTTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAAC-TTCAACCTGC
* * * * *
83605231 TCCACTACAACTTCAGGGAGATAATATTTGCTTTAATGATTTTAATCCAT-C
1 TCCACTGCAACTTCAGGGAGATAAGACTTG---T-A--ACTTCAA-CC-TGC
* * **
83605282 -CCACTGCAACTTCAGATGA-ATAAGA-TTCGCTATTCTT-AGTCTGC
1 TCCACTGCAACTTCAG-GGAGATAAGACTT-G-TA-ACTTCAACCTGC
*
83605326 TTCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
* * *
83605370 TCCACTGCAACTTCAGGAAGATAAGGCTTGTAACTTCAACTTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
* * * *
83605414 TCCACTGTAACTTCAGGGAGATAAGGCTTGTGACTTCAACTTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
* * * *
83605458 TCCACTGTAACTTCAGGGAGATAAGGCTTGTGACTTCAACTTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
* * * ** * *
83605502 TCCACT-TAACCTCAGGGAGATAAGGCTTGTGGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
*
83605545 TCCATTGCAACTTCAGGGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
83605571 TTCGCCATGG
Statistics
Matches: 537, Mismatches: 88, Indels: 75
0.77 0.13 0.11
Matches are distributed among these distances:
43 44 0.08
44 302 0.56
45 80 0.15
46 7 0.01
47 2 0.00
48 1 0.00
49 2 0.00
50 54 0.10
51 34 0.06
52 3 0.01
55 1 0.00
56 1 0.00
57 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
Found at i:83605227 original size:234 final size:224
Alignment explanation
Indices: 83604862--83605482 Score: 659
Period size: 234 Copynumber: 2.7 Consensus size: 224
83604852 GCTTTAATTT
* *
83604862 GTTCCACTGTC-ACTTCAGGGAAATAAGATTTGCTATCTTCAGCCTGCCCCACTGCAACTTCAGG
1 GTTCCACTG-CAACTTCAGGGAAATAAGA-TTG-TAACTTCAGCCTGCTCCACTGCAACTTCA-G
* * *
83604926 GAGATAAGACTTGTAACTTCAACCTCCTCCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTA
62 GAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGT-GCTTTA
** * *
83604991 ATCTACTTTACTACAACTTCAGGGAGATAAGATTTG-TCATGGTTACTTCAA-CC-TGCTCCACT
126 ATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTTAATGATT--TT-AATCCAT-C-CCACT
* *
83605053 GCAACTTCAG-GGAGATAAGGTTTG-TAATT-TGTAGCTTCAATCC
186 GCAACTTCAGAGGA-ATAAGATTCGCT-ATTCT-TAG--TC--TCC
* * *
83605096 GTTCCACTGCAACTTCAGGGAAATAAGATTCGTTACCTTCAGTCTGCTCCACTGTAACTTCAGAG
1 GTTCCACTGCAACTTCAGGGAAATAAGATT-G-TAACTTCAGCCTGCTCCACTGCAACTTCAG-G
* * *
83605161 AGATAAGACTTGTAACTTCAACCTGATCTACTGCAACTTCAGGAAGATAAGGCTTGTGCTTTTAA
63 AGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTGC-TTTAA
* *
83605226 TCTGCTCCACTACAACTTCAGGGAGATAATATTTGCTTTAATGATTTTAATCCATCCCACTGCAA
127 TCTACTCCACTACAACTTCAGGGAGATAAGATTTG--TTAATGATTTTAATCCATCCCACTGCAA
* *
83605291 CTTCAGATGAATAAGATTCGCTATTCTTAGTCTGC
190 CTTCAGAGGAATAAGATTCGCTATTCTTAGTCTCC
* *
83605326 -TT-CACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGAA
1 GTTCCACTGCAACTTCAGGGAAATAAGA-TTGTAACTTCAGCCTGCTCCACTGCAACTTCAGG-A
* * * *
83605389 GATAAGGCTTGTAACTTCAACTTGCTCCACTGTAACTTCAGGGAGATAAGGCTTGTGACTTCAA-
64 GATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTG-CTTTAAT
* **
83605453 CTTGCTCCACTGTAACTTCAGGGAGATAAG
128 C-TACTCCACTACAACTTCAGGGAGATAAG
83605483 GCTTGTGACT
Statistics
Matches: 335, Mismatches: 36, Indels: 39
0.82 0.09 0.10
Matches are distributed among these distances:
226 2 0.01
227 107 0.32
228 25 0.07
229 4 0.01
230 2 0.01
232 2 0.01
233 6 0.02
234 171 0.51
235 9 0.03
236 1 0.00
237 6 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (224 bp):
GTTCCACTGCAACTTCAGGGAAATAAGATTGTAACTTCAGCCTGCTCCACTGCAACTTCAGGAGA
TAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTGCTTTAATCTA
CTCCACTACAACTTCAGGGAGATAAGATTTGTTAATGATTTTAATCCATCCCACTGCAACTTCAG
AGGAATAAGATTCGCTATTCTTAGTCTCC
Found at i:83605340 original size:183 final size:183
Alignment explanation
Indices: 83605099--83605437 Score: 506
Period size: 183 Copynumber: 1.9 Consensus size: 183
83605089 TCAATCCGTT
* *
83605099 CCACTGCAACTTCAGGGAAATAAGATTCGTTACCTTCAGTCTGCTCCACTGTAACTTCAGAGAGA
1 CCACTGCAACTTCAGGGAAATAAGATTCGCTACCTTCAGTCTGCTCCACTGCAACTTCAGAGAGA
* * *
83605164 TAAGACTTGTAACTTCAACCTGATCTACTGCAACTTCAGGAAGATAAGGCTTGT-GCTTTTAA-T
66 TAAGACTTGTAACTTCAACCTGATCCACTGCAACTTCAGGAAGATAAGGCTTGTAAC-TTCAACT
83605227 CTGCTCCACTACAACTTCAGGGAGATAATATTTGCTTTAATGATTTTAATCCATC
130 -TGCTCCACTACAACTTCAGGGAGATAATATTTGCTTTAATGATTTTAATCCATC
* * * *
83605282 CCACTGCAACTTCAGATG-AATAAGATTCGCTATTCTT-AGTCTGCTTCACTGCAACTTCAGGGA
1 CCACTGCAACTTCAG-GGAAATAAGATTCGCTA-CCTTCAGTCTGCTCCACTGCAACTTCAGAGA
*
83605345 GATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGAAGATAAGGCTTGTAACTTCAAC
64 GATAAGACTTGTAACTTCAACCTGATCCACTGCAACTTCAGGAAGATAAGGCTTGTAACTTCAAC
**
83605410 TTGCTCCACTGTAACTTCAGGGAGATAA
129 TTGCTCCACTACAACTTCAGGGAGATAA
83605438 GGCTTGTGAC
Statistics
Matches: 140, Mismatches: 12, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
183 134 0.96
184 6 0.04
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (183 bp):
CCACTGCAACTTCAGGGAAATAAGATTCGCTACCTTCAGTCTGCTCCACTGCAACTTCAGAGAGA
TAAGACTTGTAACTTCAACCTGATCCACTGCAACTTCAGGAAGATAAGGCTTGTAACTTCAACTT
GCTCCACTACAACTTCAGGGAGATAATATTTGCTTTAATGATTTTAATCCATC
Found at i:83605686 original size:46 final size:45
Alignment explanation
Indices: 83605632--83605728 Score: 158
Period size: 46 Copynumber: 2.1 Consensus size: 45
83605622 TTGTAATTTC
* *
83605632 TTTCATCCATCCCACTGCAACTCAGAGGTATAGGATTTGTATCAT
1 TTTCATCCATCCCACTACAACTCAAAGGTATAGGATTTGTATCAT
83605677 TTTCTATCCATCCCACTACAACTCAAAGGTATAGGATTTGTATCAT
1 TTTC-ATCCATCCCACTACAACTCAAAGGTATAGGATTTGTATCAT
*
83605723 CTTCAT
1 TTTCAT
83605729 TGATCTATTG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
45 6 0.12
46 42 0.88
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (45 bp):
TTTCATCCATCCCACTACAACTCAAAGGTATAGGATTTGTATCAT
Found at i:83611952 original size:27 final size:25
Alignment explanation
Indices: 83611920--83612099 Score: 98
Period size: 27 Copynumber: 6.7 Consensus size: 25
83611910 TGCAACAATA
83611920 TTAAAATAAATAATATACAAAGAAAT
1 TTAAAATAAATAATATA-AAAGAAAT
* * *
83611946 TTAAAAATAAATGATATATAAGACACT
1 TT-AAAATAAATAATATAAAAGA-AAT
* * *
83611973 TTAAAAT-GA-CATATAAAAG-AGT
1 TTAAAATAAATAATATAAAAGAAAT
83611995 TTAAAATAAATAATATGTAAAAGAGAAAT
1 TTAAAATAAATAATA--T-AAA-AGAAAT
*
83612024 TTAAAATAAATAATGTACAAA-AACAGT
1 TTAAAATAAATAATATA-AAAGAA-A-T
*
83612051 TTAAATAAAAAATATATCTATATAAAGATAAT
1 TT-AA-AATAAATA-A--TATA-AAAGA-AAT
*
83612083 TCAAAATAAATAATATA
1 TTAAAATAAATAATATA
83612100 TATAAAAGTT
Statistics
Matches: 119, Mismatches: 16, Indels: 37
0.69 0.09 0.22
Matches are distributed among these distances:
22 9 0.08
23 1 0.01
24 11 0.09
25 3 0.03
26 15 0.13
27 31 0.26
28 4 0.03
29 24 0.20
30 8 0.07
31 2 0.02
32 8 0.07
33 2 0.02
34 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (25 bp):
TTAAAATAAATAATATAAAAGAAAT
Found at i:83611997 original size:22 final size:22
Alignment explanation
Indices: 83611954--83612001 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
83611944 ATTTAAAAAT
* *
83611954 AAATGATATATAAGACACTTTA
1 AAATGACATATAAAACACTTTA
* *
83611976 AAATGACATATAAAAGAGTTTA
1 AAATGACATATAAAACACTTTA
83611998 AAAT
1 AAAT
83612002 AAATAATATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.29
Consensus pattern (22 bp):
AAATGACATATAAAACACTTTA
Found at i:83614917 original size:6 final size:6
Alignment explanation
Indices: 83614908--83614932 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
83614898 TTCAAATTTA
83614908 AATAAG AATAAG AATAAG AATAAG A
1 AATAAG AATAAG AATAAG AATAAG A
83614933 GAAAGGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AATAAG
Found at i:83617509 original size:21 final size:21
Alignment explanation
Indices: 83617483--83617525 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
83617473 TAAGGACGCT
83617483 CCTTACTCTCCTGGTGAAAGC
1 CCTTACTCTCCTGGTGAAAGC
83617504 CCTTACTCTCCTGGTGAAAGC
1 CCTTACTCTCCTGGTGAAAGC
83617525 C
1 C
83617526 AGATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.35, G:0.19, T:0.28
Consensus pattern (21 bp):
CCTTACTCTCCTGGTGAAAGC
Found at i:83621677 original size:3 final size:3
Alignment explanation
Indices: 83621669--83621700 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
83621659 CAGTAGTGGC
83621669 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
83621701 GGGCCTGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:83629468 original size:18 final size:17
Alignment explanation
Indices: 83629440--83629474 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
83629430 ATTTTTAAGA
*
83629440 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
83629457 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
83629475 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:83629750 original size:16 final size:16
Alignment explanation
Indices: 83629707--83629760 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
83629697 TTGATTTGCT
* *
83629707 ATTACACAGCTTTTCC
1 ATTACACATCTATTCC
83629723 ATTACACATCTATTCC
1 ATTACACATCTATTCC
* *
83629739 ATTACACCTCTAATCC
1 ATTACACATCTATTCC
*
83629755 AATACA
1 ATTACA
83629761 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.33
Consensus pattern (16 bp):
ATTACACATCTATTCC
Done.