Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 34 of 352
Found at i:10984256 original size:39 final size:39
Alignment explanation
Indices: 10984213--10984315 Score: 97
Period size: 38 Copynumber: 2.7 Consensus size: 39
10984203 TACTAGCATG
* *
10984213 AGCCTGCGGGTCCTTAA-CCCGGATATTTTTCCAGCACT-T
1 AGCCTGCGGGACCTTAAGCCCGGAT-TTATTCCAGCA-TAT
* *
10984252 AGCCTGC-GGACTTTAAGTCCGGATTTATTCCAGCATAT
1 AGCCTGCGGGACCTTAAGCCCGGATTTATTCCAGCATAT
* * *
10984290 AGCCTGC-GGACTTTAAGTCAGGATTT
1 AGCCTGCGGGACCTTAAGCCCGGATTT
10984316 CTTCTTTTAC
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
37 1 0.02
38 43 0.75
39 13 0.23
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.31
Consensus pattern (39 bp):
AGCCTGCGGGACCTTAAGCCCGGATTTATTCCAGCATAT
Found at i:10984293 original size:38 final size:38
Alignment explanation
Indices: 10984231--10984315 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 38
10984221 GGTCCTTAAC
*
10984231 CCGGATATTTTTCCAGCACTTAGCCTGCGGACTTTAAGT
1 CCGGAT-TTATTCCAGCACTTAGCCTGCGGACTTTAAGT
10984270 CCGGATTTATTCCAGCA-TATAGCCTGCGGACTTTAAGT
1 CCGGATTTATTCCAGCACT-TAGCCTGCGGACTTTAAGT
*
10984308 CAGGATTT
1 CCGGATTT
10984316 CTTCTTTTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 1 0.02
38 36 0.84
39 6 0.14
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (38 bp):
CCGGATTTATTCCAGCACTTAGCCTGCGGACTTTAAGT
Found at i:10988692 original size:60 final size:61
Alignment explanation
Indices: 10988628--10988753 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 61
10988618 TTTTTGAAAA
* * * * * * *
10988628 TTTTAGAA-TTATAATTAAATTGACAAATTTTATAAATGTTGAGTGTTAAATTTATT-AATT
1 TTTTAGAACTTA-AACTAAAATAACAAATTTTATAAATATTAAGAGCTAAATTTATTAAATT
* *
10988688 TTTTAGAACTTAAACTAAAATAATAAATTTTGTAAATATTAAGAGCTAAATTTATTAAATT
1 TTTTAGAACTTAAACTAAAATAACAAATTTTATAAATATTAAGAGCTAAATTTATTAAATT
10988749 TTTTA
1 TTTTA
10988754 CATTTAAAGT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
60 43 0.78
61 12 0.22
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (61 bp):
TTTTAGAACTTAAACTAAAATAACAAATTTTATAAATATTAAGAGCTAAATTTATTAAATT
Found at i:10994623 original size:29 final size:30
Alignment explanation
Indices: 10994569--10994686 Score: 111
Period size: 29 Copynumber: 3.9 Consensus size: 30
10994559 ATTTTTAAAA
10994569 TTTAAAAATTTAAAAAAT-ATAAAAATTATT
1 TTTAAAAATTT-AAAAATCATAAAAATTATT
* * *
10994599 TTTAAAAA-TTAGAAGTCATTAAAATTA--
1 TTTAAAAATTTAAAAATCATAAAAATTATT
*
10994626 TTTAAAAATTTTAAAAATCATAAAAAATATT
1 TTTAAAAA-TTTAAAAATCATAAAAATTATT
*
10994657 TTTAAATATTTTTAAAAGATCA-AAAAATTA
1 TTTAAA-A-ATTTAAAA-ATCATAAAAATTA
10994687 ATTAAATAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
27 8 0.11
28 4 0.06
29 26 0.37
30 8 0.11
31 6 0.08
32 15 0.21
33 4 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (30 bp):
TTTAAAAATTTAAAAATCATAAAAATTATT
Found at i:10994684 original size:31 final size:30
Alignment explanation
Indices: 10994569--10994683 Score: 94
Period size: 32 Copynumber: 3.8 Consensus size: 30
10994559 ATTTTTAAAA
* *
10994569 TTTAAAAATTTAAAAAAT-ATAAAAATTATT
1 TTTAAAAATTTTAAAAATCA-AAAAAATATT
* * ** *
10994599 TTTAAAAA--TTAGAAGTCATTAAAAT-TA
1 TTTAAAAATTTTAAAAATCAAAAAAATATT
10994626 TTTAAAAATTTTAAAAATCATAAAAAATATT
1 TTTAAAAATTTTAAAAATCA-AAAAAATATT
*
10994657 TTTAAATATTTTTAAAAGATCAAAAAA
1 TTTAAA-AATTTTAAAA-ATCAAAAAA
10994684 TTAATTAAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
27 9 0.14
28 9 0.14
29 9 0.14
30 13 0.20
31 7 0.11
32 14 0.22
33 4 0.06
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (30 bp):
TTTAAAAATTTTAAAAATCAAAAAAATATT
Found at i:10994692 original size:30 final size:30
Alignment explanation
Indices: 10994619--10994696 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
10994609 AGAAGTCATT
10994619 AAAATTATTTAAA-AATTTTAAAAATCATAA
1 AAAATTATTTAAATAATTTTAAAAATCA-AA
* *
10994649 AAAATATTTTTAAATATTTTTAAAAGATC-AA
1 AAAAT-TATTTAAATAATTTTAAAA-ATCAAA
*
10994680 AAAATTAATTAAATAAT
1 AAAATTATTTAAATAAT
10994697 GAGGTGTCCG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 14 0.35
31 14 0.35
32 9 0.22
33 3 0.08
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (30 bp):
AAAATTATTTAAATAATTTTAAAAATCAAA
Found at i:10997014 original size:181 final size:174
Alignment explanation
Indices: 10996704--10997054 Score: 472
Period size: 181 Copynumber: 2.0 Consensus size: 174
10996694 TCTATATAGA
* *
10996704 TTTATCTATTTAACCAGCTTTCTGCTACTAATATTTTTTTCAGTTTGCACATGTGTCTTGTGAGC
1 TTTATCTATTTAACCAGCTTTCTGCAACTAATATTTTTTTCAGTTTGCACACGTGTCTTGTGAGC
* * * * *
10996769 ACTTGAATTCATCAAAAGACATTACAGAAGAAATTCTTTTATCATGTTCTTGGTTGCGTCACCTA
66 ACATGAATTCATCAAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCACCTA
* * * *
10996834 TTAAGGAAACATATATTTCCTTAGTATGTCTCTCAATAAGGCATTTCT
131 TTAA-G-AA-A-ACATTTCATTAGCATGTCTCTCAATAAAGCATTTCT
*
10996882 TTTATCTATTTAACCAGCTTTCTGCAAGTAA-ATTTTTCCTTCA-TCTTGCAGGCACGTGTCTTG
1 TTTATCTATTTAACCAGCTTTCTGCAACTAATATTTTT--TTCAGT-TTGCA--CACGTGTCTTG
* * *
10996945 TGTGTACATGAATTCATCTAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATC
61 TGAGCACATGAATTCATCAAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATC
10997010 ACCTATTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCAT
126 ACCTATTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCAT
10997055 CTTTTTTTGG
Statistics
Matches: 153, Mismatches: 15, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
177 34 0.22
178 31 0.20
179 11 0.07
180 1 0.01
181 76 0.50
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (174 bp):
TTTATCTATTTAACCAGCTTTCTGCAACTAATATTTTTTTCAGTTTGCACACGTGTCTTGTGAGC
ACATGAATTCATCAAAAGACATTACAAAAGAAATTCTTTTATCATGTTCTCGGTAGCATCACCTA
TTAAGAAAACATTTCATTAGCATGTCTCTCAATAAAGCATTTCT
Found at i:11003536 original size:15 final size:15
Alignment explanation
Indices: 11003512--11003545 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11003502 GATCTTTTTA
* *
11003512 ACATTTTAATTCTGT
1 ACATTATAATTCTAT
11003527 ACATTATAATTCTAT
1 ACATTATAATTCTAT
11003542 ACAT
1 ACAT
11003546 AGACATTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.47
Consensus pattern (15 bp):
ACATTATAATTCTAT
Found at i:11007676 original size:13 final size:13
Alignment explanation
Indices: 11007660--11007699 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
11007650 TTTAAATCAA
11007660 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
*
11007673 ACTTTTTCAAAA-C
1 AC-TTTTCAAAAGT
11007686 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
11007699 A
1 A
11007700 TTACCAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 9 0.39
13 5 0.22
14 9 0.39
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:11008653 original size:18 final size:18
Alignment explanation
Indices: 11008622--11008662 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
11008612 TAAATTATAT
*
11008622 TTTTATTAAATAATAATA
1 TTTTAATAAATAATAATA
*
11008640 TTTTAATAAGTAATAATA
1 TTTTAATAAATAATAATA
11008658 TTTTA
1 TTTTA
11008663 TTAATTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTTAATAAATAATAATA
Found at i:11009649 original size:30 final size:31
Alignment explanation
Indices: 11009604--11009675 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
11009594 AAAAAATAGT
* * * *
11009604 AATTTTACTTTTTTTTAAATATTGATG-GTCA
1 AATTTAACTATTTTTAAAATATTGA-GAATCA
*
11009635 AATTTAACTATTTTTAAAATGTTGAGAATCA
1 AATTTAACTATTTTTAAAATATTGAGAATCA
11009666 AATTTAACTA
1 AATTTAACTA
11009676 AAAAAAACCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 1 0.03
31 34 0.97
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (31 bp):
AATTTAACTATTTTTAAAATATTGAGAATCA
Found at i:11010471 original size:20 final size:20
Alignment explanation
Indices: 11010446--11010491 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
11010436 CTGAAAATGA
11010446 TTTCTGCAAAATGATTTACT
1 TTTCTGCAAAATGATTTACT
*
11010466 TTTCTG-GAAATGATTTACT
1 TTTCTGCAAAATGATTTACT
11010485 TTTCTGC
1 TTTCTGC
11010492 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (20 bp):
TTTCTGCAAAATGATTTACT
Found at i:11010897 original size:29 final size:29
Alignment explanation
Indices: 11010855--11010911 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
11010845 AATAACAACA
11010855 ACATTGTCCAAGTGCATAACTAATATTAG
1 ACATTGTCCAAGTGCATAACTAATATTAG
11010884 ACATTGTCCAAGTGCATAACTAATATTA
1 ACATTGTCCAAGTGCATAACTAATATTA
11010912 CACCACATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (29 bp):
ACATTGTCCAAGTGCATAACTAATATTAG
Found at i:11011915 original size:32 final size:32
Alignment explanation
Indices: 11011874--11011966 Score: 159
Period size: 32 Copynumber: 2.9 Consensus size: 32
11011864 TGTCAATCAT
* *
11011874 TTCAATATCCAACAAGTTTAAAATATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
11011906 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
11011938 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
11011967 CAATATCCAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:11011973 original size:27 final size:30
Alignment explanation
Indices: 11011874--11011979 Score: 128
Period size: 32 Copynumber: 3.5 Consensus size: 30
11011864 TGTCAATCAT
* *
11011874 TTCAATATCCAACAAGTTTAAAATATAATAAA
1 TTCAATATCCAACAAGCTT-AAA-ACAATAAA
11011906 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAAC--AATAAA
*
11011938 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCCAACAAGCTTAAAACAATAAA
11011966 -TCAATATCCAACAA
1 TTCAATATCCAACAA
11011980 ATCCAAGACA
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
27 13 0.19
28 2 0.03
29 2 0.03
30 1 0.01
31 3 0.04
32 47 0.69
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (30 bp):
TTCAATATCCAACAAGCTTAAAACAATAAA
Found at i:11014168 original size:16 final size:17
Alignment explanation
Indices: 11014137--11014170 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11014127 GATAAAAAAT
*
11014137 GAATACTACGATATAAA
1 GAATAATACGATATAAA
11014154 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
11014170 G
1 G
11014171 CAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:11014764 original size:19 final size:19
Alignment explanation
Indices: 11014725--11014765 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11014715 GATATATAAT
*
11014725 ATATAAAAAATAATAAGTA
1 ATATAAAAAATAATAACTA
11014744 ATATAAAAAATAA-AACCTA
1 ATATAAAAAATAATAA-CTA
11014763 ATA
1 ATA
11014766 AATGCTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (19 bp):
ATATAAAAAATAATAACTA
Found at i:11016727 original size:119 final size:119
Alignment explanation
Indices: 11016516--11016830 Score: 497
Period size: 119 Copynumber: 2.6 Consensus size: 119
11016506 TTGAGTCTGT
* * * * * *
11016516 TTTGAGAACATTCAAGAGTCATATCTGCTACGTCCTCGATTTGTTCCTTGTAAGTACAAGGATGC
1 TTTGAGAACTTTTAAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
*
11016581 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
11016635 TTTGAGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAGGCACAAGGATGC
1 TTTGAGAACTTTTAAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
11016700 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
11016754 TCTGAGAA-TGTCTAAGAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATG
1 TTTGAGAACT-TTTAAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATG
*
11016818 CCAAACCCTCTTG
65 CCAAACCATCTTG
11016831 AATTTGTTTA
Statistics
Matches: 180, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
118 1 0.01
119 179 0.99
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (119 bp):
TTTGAGAACTTTTAAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:11016991 original size:202 final size:202
Alignment explanation
Indices: 11016639--11017024 Score: 558
Period size: 202 Copynumber: 1.9 Consensus size: 202
11016629 GCTATATTTG
* * ** * *
11016639 AGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAGGCACAAGGATGCCAAA
1 AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
* * *
11016704 CCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAATGTCTAA
66 CCATCTTGGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTGCTACATCTAAGAATGTCTAA
* * *
11016769 GAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCCTCTTGAAT
131 GAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAACCCTCTTGAAT
11016834 TTGTTTA
196 TTGTTTA
* *
11016841 AGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAA
1 AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
* * * * *
11016906 TCATCTTGGATCTGCTTCAATATAAATATCTGAAGGTTAGATCTGCTACATTTAAGAACT-TTTG
66 CCATCTTGGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTGCTACATCTAAGAA-TGTCTA
* * *
11016970 AGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAA
130 AGAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
11017025 TCATCTTGGA
Statistics
Matches: 161, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
202 160 0.99
203 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (202 bp):
AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
CCATCTTGGATCTGCTTCAATATAAACATCTGAAGGTTAGATCTGCTACATCTAAGAATGTCTAA
GAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAACCCTCTTGAAT
TTGTTTA
Found at i:11017143 original size:118 final size:118
Alignment explanation
Indices: 11016837--11017189 Score: 571
Period size: 118 Copynumber: 3.0 Consensus size: 118
11016827 CTTGAATTTG
*
11016837 TTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
11016902 CAAATCATCTTGGATCTGCTTCAATATAAATATCTGAAGGTTAGATCTGCTACA
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAA-GTTAGATCTGCTACA
*
11016956 TTTAAGAACTTTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
11017021 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGTTAGATCTGCTACA
* * * * *
11017074 TTTGAGAACATATGAGAGTCAAATCTGCTATGTCCTCAATTTGTTCCTTGTAAACACAAGAAAAC
1 TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
11017139 CAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAACTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGT-TAGATCTGCT
11017190 GTCTTCAATT
Statistics
Matches: 218, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
118 109 0.50
119 109 0.50
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (118 bp):
TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGTTAGATCTGCTACA
Found at i:11028568 original size:16 final size:17
Alignment explanation
Indices: 11028537--11028570 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11028527 AGATAAAAAT
*
11028537 GAATACTACGATATAAA
1 GAATAATACGATATAAA
11028554 GAATAATAC-ATATAAA
1 GAATAATACGATATAAA
11028570 G
1 G
11028571 CAAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATAATACGATATAAA
Found at i:11029162 original size:19 final size:19
Alignment explanation
Indices: 11029123--11029163 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11029113 GATATATAAT
*
11029123 ATATAAAAAATAATAAGTA
1 ATATAAAAAATAATAACTA
11029142 ATATAAAAAATAA-AACCTA
1 ATATAAAAAATAATAA-CTA
11029161 ATA
1 ATA
11029164 AATGCTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (19 bp):
ATATAAAAAATAATAACTA
Found at i:11033709 original size:17 final size:17
Alignment explanation
Indices: 11033687--11033719 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11033677 CAGACTGATA
11033687 CAAAATCCAAACAGATG
1 CAAAATCCAAACAGATG
*
11033704 CAAAATCCAAATAGAT
1 CAAAATCCAAACAGAT
11033720 TCTTCAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.21, G:0.09, T:0.15
Consensus pattern (17 bp):
CAAAATCCAAACAGATG
Found at i:11038404 original size:11 final size:11
Alignment explanation
Indices: 11038390--11038417 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11038380 TAGATAAGAA
11038390 ATACAAAGATT
1 ATACAAAGATT
11038401 ATACAAAGATT
1 ATACAAAGATT
11038412 ATACAA
1 ATACAA
11038418 TCTTCATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (11 bp):
ATACAAAGATT
Found at i:11043755 original size:27 final size:27
Alignment explanation
Indices: 11043699--11043766 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
11043689 ATTTAACATG
* *
11043699 AATAAGATATAAAGCAATTCGAAATAA
1 AATAATATTTAAAGCAATTCGAAATAA
11043726 AATAATATTTAAAGCAAATTTC-AAAT-A
1 AATAATATTTAAAGC-AA-TTCGAAATAA
11043753 AATAATATGTTAAA
1 AATAATAT-TTAAA
11043767 TAAGTTAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 22 0.61
28 11 0.31
29 3 0.08
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.29
Consensus pattern (27 bp):
AATAATATTTAAAGCAATTCGAAATAA
Found at i:11044317 original size:3 final size:3
Alignment explanation
Indices: 11044309--11044343 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11044299 TTGCTCAAAG
11044309 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11044344 GTAAATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11044434 original size:3 final size:3
Alignment explanation
Indices: 11044428--11044557 Score: 101
Period size: 3 Copynumber: 43.7 Consensus size: 3
11044418 TAACAATAGA
* * * *
11044428 AAT AAT -AT AAT AAT AA- AGT AGAA AAT AAT AGT AAT AAT ACGTT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT A--AT AAT
* * *
11044474 AAC AAT AAT AAT AAT -AT ATT AAT AAT AAC AAT AAT AGA- AAGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T AAT
*
11044519 GAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11044558 AGAATAGTGC
Statistics
Matches: 100, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
2 10 0.10
3 84 0.84
4 4 0.04
5 2 0.02
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11044480 original size:26 final size:26
Alignment explanation
Indices: 11044470--11044557 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 26
11044460 AATAATACGT
*
11044470 TAATAACAATAATAATAATATATTAA
1 TAATAACAATAATAGTAATATATTAA
*
11044496 TAATAACAATAATAGAAAGTA-ATGATAA
1 TAATAACAATAATAGTAA-TATAT--TAA
* *
11044524 -AATAATAATAATAATAATA-A-TAA
1 TAATAACAATAATAGTAATATATTAA
11044547 TAATAA-AATAA
1 TAATAACAATAA
11044558 AGAATAGTGC
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
23 8 0.15
24 5 0.09
26 21 0.40
27 16 0.30
28 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (26 bp):
TAATAACAATAATAGTAATATATTAA
Found at i:11044485 original size:23 final size:23
Alignment explanation
Indices: 11044454--11044552 Score: 73
Period size: 23 Copynumber: 4.5 Consensus size: 23
11044444 AGTAGAAAAT
* *
11044454 AATAGTAATAATACGTTAATAAC
1 AATAATAATAATACATTAATAAC
* *
11044477 AATAATAATAATATATTAATAAT
1 AATAATAATAATACATTAATAAC
* * * *
11044500 AACAATAATAGA-A-AGTAATGAT
1 AATAATAATA-ATACATTAATAAC
*
11044522 AA-AATAATAATA-A-TAATAAT
1 AATAATAATAATACATTAATAAC
11044542 AATAATAATAA
1 AATAATAATAA
11044553 AATAAAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.14
21 17 0.26
22 9 0.14
23 29 0.45
24 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (23 bp):
AATAATAATAATACATTAATAAC
Found at i:11044621 original size:18 final size:20
Alignment explanation
Indices: 11044598--11044649 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
11044588 ATAGAAAAGC
*
11044598 AATAATAGAA-ACT-GTAAT
1 AATAATAGAAGAATGGTAAT
*
11044616 AATAATAAAAGTAATGGTAAT
1 AATAATAGAAG-AATGGTAAT
11044637 AATAATAG-AGAAT
1 AATAATAGAAGAAT
11044650 AGCAGTACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 9 0.32
19 3 0.11
20 4 0.14
21 12 0.43
ACGTcount: A:0.58, C:0.02, G:0.13, T:0.27
Consensus pattern (20 bp):
AATAATAGAAGAATGGTAAT
Found at i:11044622 original size:21 final size:21
Alignment explanation
Indices: 11044598--11044643 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
11044588 ATAGAAAAGC
*
11044598 AATAATAGAAACT-GTAATAAT
1 AATAAAAGAAA-TGGTAATAAT
*
11044619 AATAAAAGTAATGGTAATAAT
1 AATAAAAGAAATGGTAATAAT
11044640 AATA
1 AATA
11044644 GAGAATAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.28
Consensus pattern (21 bp):
AATAAAAGAAATGGTAATAAT
Found at i:11044714 original size:3 final size:3
Alignment explanation
Indices: 11044708--11044770 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
11044698 AAAGAGAGAC
* * * *
11044708 AAT AAT -AT ACT AAT AAA AAT AAT AAT AGGTT AAT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT
*
11044754 AAA AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
11044771 AATGAAATAA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
2 2 0.04
3 43 0.91
5 2 0.04
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11048493 original size:21 final size:21
Alignment explanation
Indices: 11048467--11048507 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11048457 AGACGAGCAA
* *
11048467 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11048488 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11048508 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11051991 original size:26 final size:27
Alignment explanation
Indices: 11051961--11052013 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
11051951 CACCGCTGAA
*
11051961 TCGGG-GAATCAGCACTTAGCAACCCC
1 TCGGGAGAATCAGCACATAGCAACCCC
11051987 TCGGGAGAATCAGCACATAGCAACCCC
1 TCGGGAGAATCAGCACATAGCAACCCC
11052014 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.30, C:0.34, G:0.23, T:0.13
Consensus pattern (27 bp):
TCGGGAGAATCAGCACATAGCAACCCC
Found at i:11052109 original size:104 final size:104
Alignment explanation
Indices: 11051929--11052299 Score: 629
Period size: 104 Copynumber: 3.6 Consensus size: 104
11051919 TTGCCGTTAT
* ** * *
11051929 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGAG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
11051994 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
11052033 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
11052098 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
11052137 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
11052201 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* * **
11052241 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
11052300 TTATATACAA
Statistics
Matches: 256, Mismatches: 9, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
103 25 0.10
104 230 0.90
105 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:11052200 original size:26 final size:26
Alignment explanation
Indices: 11052170--11052220 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
11052160 ACCAATGAAC
*
11052170 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
11052196 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
11052221 CTTTTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:11052660 original size:29 final size:29
Alignment explanation
Indices: 11052627--11052690 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11052617 TAATCCACCA
11052627 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
11052656 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
11052686 CCCAA
1 CCCAA
11052691 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:11052664 original size:30 final size:30
Alignment explanation
Indices: 11052634--11052690 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11052624 CCACCCAACT
11052634 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
11052663 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
11052691 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:11057648 original size:6 final size:6
Alignment explanation
Indices: 11057637--11057780 Score: 288
Period size: 6 Copynumber: 24.0 Consensus size: 6
11057627 ATTGCATGAA
11057637 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
11057685 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
11057733 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
11057781 TTGCCTTTAT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 138 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:11058521 original size:43 final size:43
Alignment explanation
Indices: 11058473--11058558 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
11058463 GTTCTATGCC
*
11058473 TTTGATGTTGTATAAGTGTGTGAGGGATTAACGTTGACCAAGG
1 TTTGATGTTGTATAAGTGTGTGAGGAATTAACGTTGACCAAGG
**
11058516 TTTGATGTTGTATAAGTGTGTGAGGAATTATGGTTGACCAAGG
1 TTTGATGTTGTATAAGTGTGTGAGGAATTAACGTTGACCAAGG
11058559 CTTGGAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.06, G:0.33, T:0.36
Consensus pattern (43 bp):
TTTGATGTTGTATAAGTGTGTGAGGAATTAACGTTGACCAAGG
Found at i:11059189 original size:49 final size:47
Alignment explanation
Indices: 11059065--11059194 Score: 170
Period size: 47 Copynumber: 2.7 Consensus size: 47
11059055 AGAACTTGTA
* * *
11059065 CATTCTATCATCCTGGGTGGCCCAACAATGATGACTTTCACTATTTG
1 CATTCTATCATCCTGAGTGGCCCGACAATGATGGCTTTCACTATTTG
* *
11059112 CATTCTATCATCCCGAGTGGCCCGACAATGATGGCTTTCACTGTTTG
1 CATTCTATCATCCTGAGTGGCCCGACAATGATGGCTTTCACTATTTG
* **
11059159 CATATTTTATCATCCTGAGTGGCTTGACAATGATGG
1 C--ATTCTATCATCCTGAGTGGCCCGACAATGATGG
11059195 TTTTAAATTA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 43 0.60
49 29 0.40
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (47 bp):
CATTCTATCATCCTGAGTGGCCCGACAATGATGGCTTTCACTATTTG
Found at i:11063370 original size:2 final size:2
Alignment explanation
Indices: 11063365--11063399 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11063355 TATATATATA
11063365 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
11063400 AAGAAATTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:11072082 original size:7 final size:7
Alignment explanation
Indices: 11072062--11072100 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
11072052 TTTTCTTTTA
11072062 TTTATAT
1 TTTATAT
11072069 ATTTATAT
1 -TTTATAT
11072077 TTTATAT
1 TTTATAT
11072084 TTTATAT
1 TTTATAT
11072091 TTTATAT
1 TTTATAT
11072098 TTT
1 TTT
11072101 TAGTGTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATAT
Found at i:11073661 original size:46 final size:46
Alignment explanation
Indices: 11073599--11073734 Score: 159
Period size: 46 Copynumber: 3.0 Consensus size: 46
11073589 TTATCTTTGA
* *
11073599 CATGATGCCATAGTATCTTTCAACTC-TAGTCTTACTCGTTTTC-TAT
1 CATGTTGCCATAGTATCTTTCAAC-CATAGTCTTACTC-ATTTCATAT
* * * *
11073645 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATAGTATCTTTCAACCATAGTCTTACTCATTTCATAT
* * *
11073691 CACGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATAGTATCTTTCAACCATAGTCTTACTCATTTCAT
11073735 TTCAGAGAGC
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 5 0.06
46 73 0.94
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATAGTATCTTTCAACCATAGTCTTACTCATTTCATAT
Found at i:11074221 original size:23 final size:24
Alignment explanation
Indices: 11074173--11074240 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
11074163 GATAGCCATA
* *
11074173 TATCGGGAAGTTCAAG-CGAGCAC
1 TATCGGGAAGCTCAAGAAGAGCAC
*
11074196 TATCGGGAGGCTCACA-AAGAGC-C
1 TATCGGGAAGCTCA-AGAAGAGCAC
*
11074219 TATTGGGAAGCTCAAGAAGAGC
1 TATCGGGAAGCTCAAGAAGAGC
11074241 TGTATTTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
22 1 0.03
23 31 0.84
24 5 0.14
ACGTcount: A:0.32, C:0.21, G:0.31, T:0.16
Consensus pattern (24 bp):
TATCGGGAAGCTCAAGAAGAGCAC
Found at i:11076349 original size:21 final size:22
Alignment explanation
Indices: 11076325--11076365 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11076315 AAAATTATTT
*
11076325 AATTAATAACTATCT-TTTATA
1 AATTAATAAATATCTATTTATA
11076346 AATTAATAAATATCTATTTA
1 AATTAATAAATATCTATTTA
11076366 ATATCTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTAATAAATATCTATTTATA
Found at i:11080711 original size:13 final size:13
Alignment explanation
Indices: 11080690--11080732 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
11080680 CATAAATACT
11080690 AAAATATATATAAA
1 AAAATATATA-AAA
11080704 AAAA-ATATAAAA
1 AAAATATATAAAA
* *
11080716 CAAATATTTAAAA
1 AAAATATATAAAA
11080729 AAAA
1 AAAA
11080733 AAGAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 6 0.24
13 15 0.60
14 4 0.16
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATATATAAAA
Found at i:11081257 original size:161 final size:161
Alignment explanation
Indices: 11080992--11081305 Score: 592
Period size: 161 Copynumber: 2.0 Consensus size: 161
11080982 CGTCCGACCC
*
11080992 GACCCGCCTCAGGATCCGCGTGTTTTTGTTCGAATGGGCTATTTATGTGCGCAGTCCTTCCGCTT
1 GACCCGCCTCAGGATCCGCGTGTTTTTGTTCGAATGGGCTATTTATGCGCGCAGTCCTTCCGCTT
11081057 TTCTGGGGCTTTACAATCAAGTTTTCTTATTTTCAATTTGGCCCCATAATTTTTAGTGTTTTTTC
66 TTCTGGGGCTTTACAATCAAGTTTTCTTATTTTCAATTTGGCCCCATAATTTTTAGTGTTTTTTC
11081122 AATTGGGTCCCCTGTACTGCGCAGCGTTTTT
131 AATTGGGTCCCCTGTACTGCGCAGCGTTTTT
* *
11081153 GACCCGCCTCAGGATCTGCGTGTTTTTGTTCGAATGGGTTATTTATGCGCGCAGTCCTTCCGCTT
1 GACCCGCCTCAGGATCCGCGTGTTTTTGTTCGAATGGGCTATTTATGCGCGCAGTCCTTCCGCTT
*
11081218 TTCTTGGGCTTTACAATCAAGTTTTCTTATTTTCAATTTGGCCCCATAATTTTTAGTGTTTTTTC
66 TTCTGGGGCTTTACAATCAAGTTTTCTTATTTTCAATTTGGCCCCATAATTTTTAGTGTTTTTTC
11081283 AATTGGGTCCCCTGTACTGCGCA
131 AATTGGGTCCCCTGTACTGCGCA
11081306 ACTGTAACGA
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
161 149 1.00
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (161 bp):
GACCCGCCTCAGGATCCGCGTGTTTTTGTTCGAATGGGCTATTTATGCGCGCAGTCCTTCCGCTT
TTCTGGGGCTTTACAATCAAGTTTTCTTATTTTCAATTTGGCCCCATAATTTTTAGTGTTTTTTC
AATTGGGTCCCCTGTACTGCGCAGCGTTTTT
Found at i:11081518 original size:2 final size:2
Alignment explanation
Indices: 11081513--11081540 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11081503 AATATATATA
11081513 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
11081541 AATGAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:11081714 original size:15 final size:15
Alignment explanation
Indices: 11081696--11081752 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
11081686 TATATGTTTT
11081696 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
11081711 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
11081726 ATTGAATTTATATTG
1 ATTGAATTTATATTG
11081741 ATTGAA-TTATAT
1 ATTGAATTTATAT
11081753 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:11081731 original size:30 final size:28
Alignment explanation
Indices: 11081692--11081750 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
11081682 TGAATATATG
11081692 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
11081721 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
11081750 T
1 T
11081751 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:11082184 original size:44 final size:41
Alignment explanation
Indices: 11082118--11082203 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 41
11082108 TTGCCGGCTT
* *
11082118 TATCGATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTG
1 TATCGATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTG
*
11082161 TATCGTATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTG
1 TATCG-ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTG
11082203 T
1 T
11082204 GTCATTTTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
42 15 0.38
43 5 0.13
44 19 0.49
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (41 bp):
TATCGATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTG
Found at i:11082204 original size:21 final size:21
Alignment explanation
Indices: 11082136--11082206 Score: 115
Period size: 21 Copynumber: 3.3 Consensus size: 21
11082126 AGGCACTTTA
11082136 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
*
11082159 TGTATCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
11082180 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
11082201 TGTGTC
1 TGTGTC
11082207 ATTTTAGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 38 0.83
23 8 0.17
ACGTcount: A:0.14, C:0.27, G:0.27, T:0.32
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:11082215 original size:21 final size:21
Alignment explanation
Indices: 11082147--11082217 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
11082137 GTGTCGTATT
* *
11082147 TCAGGCACCTCGTGTATCGTA
1 TCAGGCACCTCGTGTGTCATA
*
11082168 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCATA
*
11082189 TCAGGCACCTCGTGTGTCATT
1 TCAGGCACCTCGTGTGTCATA
*
11082210 TTAGGCAC
1 TCAGGCAC
11082218 TTTATGTGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.30
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCATA
Found at i:11082216 original size:42 final size:42
Alignment explanation
Indices: 11082123--11082231 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
11082113 GGCTTTATCG
* * *
11082123 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTATCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTATCAT
* *
11082167 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCAT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTATCAT
* * * *
11082209 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
11082232 ACTAATCAGG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 36 0.65
44 19 0.35
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTATCAT
Found at i:11082414 original size:18 final size:19
Alignment explanation
Indices: 11082393--11082433 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11082383 AATGAAATGA
11082393 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
11082411 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
11082430 GAAA
1 GAAA
11082434 ACATGAACCA
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:11085699 original size:20 final size:20
Alignment explanation
Indices: 11085674--11085711 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11085664 TGCAAATCAG
11085674 ACGAAAAAA-ACAACAAAAGA
1 ACGAAAAAAGA-AACAAAAGA
11085694 ACGAAAAAAGAAACAAAA
1 ACGAAAAAAGAAACAAAA
11085712 ATGTTGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.76, C:0.13, G:0.11, T:0.00
Consensus pattern (20 bp):
ACGAAAAAAGAAACAAAAGA
Found at i:11086106 original size:39 final size:39
Alignment explanation
Indices: 11086063--11086143 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
11086053 GACTGTGGTG
11086063 CCGTCGCTAGCGACCGGCGGCCGCCACAGTGGTCTGGCA
1 CCGTCGCTAGCGACCGGCGGCCGCCACAGTGGTCTGGCA
*
11086102 CCGTCGCTGGCGACCGGCGGCCGCCACAGTGGTCTGGCA
1 CCGTCGCTAGCGACCGGCGGCCGCCACAGTGGTCTGGCA
11086141 CCG
1 CCG
11086144 GAGCCATGGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.11, C:0.40, G:0.37, T:0.12
Consensus pattern (39 bp):
CCGTCGCTAGCGACCGGCGGCCGCCACAGTGGTCTGGCA
Found at i:11091825 original size:12 final size:12
Alignment explanation
Indices: 11091794--11091825 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
11091784 ATATGAAGGG
11091794 TTTTTTTTCTTT
1 TTTTTTTTCTTT
*
11091806 TTCTTTTTCTTT
1 TTTTTTTTCTTT
11091818 TTTTTTTT
1 TTTTTTTT
11091826 GGCTGCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:11091916 original size:17 final size:17
Alignment explanation
Indices: 11091894--11091926 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11091884 CATTTTCTTC
*
11091894 AAAGAATTTTTAATTAG
1 AAAGAAATTTTAATTAG
11091911 AAAGAAATTTTAATTA
1 AAAGAAATTTTAATTA
11091927 ATCAAACTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
AAAGAAATTTTAATTAG
Found at i:11092776 original size:140 final size:141
Alignment explanation
Indices: 11092611--11092894 Score: 561
Period size: 141 Copynumber: 2.0 Consensus size: 141
11092601 CTTCATTATG
11092611 AGCATTTTAACTACTTTTA-TTTTTTTTTCCTGAGACCCATAAACACTACTGATCAAGAAGGGAC
1 AGCATTTTAACTACTTTTATTTTTTTTTTCCTGAGACCCATAAACACTACTGATCAAGAAGGGAC
11092675 AACAGGAATTCCTTCATCCCAAAACTTGCTTCGCATCATCAAACTTGTGAAAGCTGAAGATATGG
66 AACAGGAATTCCTTCATCCCAAAACTTGCTTCGCATCATCAAACTTGTGAAAGCTGAAGATATGG
11092740 GTAGTTCTTCA
131 GTAGTTCTTCA
11092751 AGCATTTTAACTACTTTTATTTTTTTTTTCCTGAGACCCATAAACACTACTGATCAAGAAGGGAC
1 AGCATTTTAACTACTTTTATTTTTTTTTTCCTGAGACCCATAAACACTACTGATCAAGAAGGGAC
11092816 AACAGGAATTCCTTCATCCCAAAACTTGCTTCGCATCATCAAACTTGTGAAAGCTGAAGATATGG
66 AACAGGAATTCCTTCATCCCAAAACTTGCTTCGCATCATCAAACTTGTGAAAGCTGAAGATATGG
11092881 GTAGTTCTTCA
131 GTAGTTCTTCA
11092892 AGC
1 AGC
11092895 TCATCAAAGA
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
140 19 0.13
141 124 0.87
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.32
Consensus pattern (141 bp):
AGCATTTTAACTACTTTTATTTTTTTTTTCCTGAGACCCATAAACACTACTGATCAAGAAGGGAC
AACAGGAATTCCTTCATCCCAAAACTTGCTTCGCATCATCAAACTTGTGAAAGCTGAAGATATGG
GTAGTTCTTCA
Found at i:11104320 original size:22 final size:22
Alignment explanation
Indices: 11104278--11104321 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11104268 AATTATTTAC
* *
11104278 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
11104300 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
11104322 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:11104622 original size:40 final size:40
Alignment explanation
Indices: 11104548--11104809 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
11104538 AACCCAAGTA
* * *
11104548 CCTTCGGGATTTAG-CCGGATATA-ACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
11104587 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
11104627 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
11104667 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
11104707 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
11104747 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
11104787 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
11104810 CATTCGAATA
Statistics
Matches: 210, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 12 0.06
40 195 0.93
41 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:11113175 original size:2 final size:2
Alignment explanation
Indices: 11113168--11113197 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11113158 ACCTCATTTT
11113168 TA TA 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 TA TA
11113198 ATAAATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11113952 original size:15 final size:16
Alignment explanation
Indices: 11113932--11113961 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11113922 TTATATTAAC
11113932 TAATTTAA-TTAAAAT
1 TAATTTAAGTTAAAAT
11113947 TAATTTAAGTTAAAA
1 TAATTTAAGTTAAAA
11113962 AAATAATAGA
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:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TAATTTAAGTTAAAAT
Found at i:11115772 original size:20 final size:20
Alignment explanation
Indices: 11115747--11115784 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11115737 GTGAAATTTG
11115747 TATGAA-AATATAAAATTAAT
1 TATGAAGAATA-AAAATTAAT
11115767 TATGAAGAATAAAAATTA
1 TATGAAGAATAAAAATTA
11115785 GTCTCGACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (20 bp):
TATGAAGAATAAAAATTAAT
Found at i:11117894 original size:14 final size:14
Alignment explanation
Indices: 11117875--11117905 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
11117865 TCTACCTAAC
11117875 CACTAAGCTACTTA
1 CACTAAGCTACTTA
11117889 CACTAAGCTACTTA
1 CACTAAGCTACTTA
11117903 CAC
1 CAC
11117906 ATTAATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.32, G:0.06, T:0.26
Consensus pattern (14 bp):
CACTAAGCTACTTA
Found at i:11122640 original size:13 final size:13
Alignment explanation
Indices: 11122624--11122663 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
11122614 CAATCTCATA
11122624 TCTCAATTTCAAT
1 TCTCAATTTCAAT
11122637 TCTCAA-TTCAAT
1 TCTCAATTTCAAT
11122649 ATCTC-ATTTC-AT
1 -TCTCAATTTCAAT
11122661 TCT
1 TCT
11122664 AATAGCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 3 0.12
12 9 0.36
13 13 0.52
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (13 bp):
TCTCAATTTCAAT
Found at i:11122650 original size:26 final size:24
Alignment explanation
Indices: 11122613--11122663 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 24
11122603 GTTCATGTTT
11122613 TCAATCTCATATCTCAATTTCAATTC
1 TCAATCTCATATCTC-ATTTC-ATTC
11122639 TCAAT-TCAATATCTCATTTCATTC
1 TCAATCTC-ATATCTCATTTCATTC
11122663 T
1 T
11122664 AATAGCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.45
Consensus pattern (24 bp):
TCAATCTCATATCTCATTTCATTC
Found at i:11123312 original size:15 final size:15
Alignment explanation
Indices: 11123288--11123340 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
11123278 ATATATATAT
*
11123288 TATAATTTCAATCAA
1 TATAAATTCAATCAA
11123303 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
11123318 AATGATTTCAATCAA
1 TATAAATTCAATCAA
11123333 TATAAATT
1 TATAAATT
11123341 TGATAAATTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:11124209 original size:19 final size:19
Alignment explanation
Indices: 11124185--11124223 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11124175 AATACTTATT
*
11124185 TATTATTTATACATGTGTA
1 TATTATTAATACATGTGTA
11124204 TATTATTAATACATGTGTA
1 TATTATTAATACATGTGTA
11124223 T
1 T
11124224 CTATTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAATACATGTGTA
Found at i:11124231 original size:19 final size:19
Alignment explanation
Indices: 11124188--11124231 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11124178 ACTTATTTAT
11124188 TATTT-ATACATGTGTATA
1 TATTTAATACATGTGTATA
*
11124206 T-TATTAATACATGTGTATC
1 TAT-TTAATACATGTGTATA
11124225 TATTTAA
1 TATTTAA
11124232 AACCATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.05
18 3 0.14
19 17 0.77
20 1 0.05
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (19 bp):
TATTTAATACATGTGTATA
Found at i:11125912 original size:20 final size:20
Alignment explanation
Indices: 11125887--11125944 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
11125877 GCCCATTAAG
11125887 CCCCCCCAAAAAAAACCTAA
1 CCCCCCCAAAAAAAACCTAA
11125907 CCCCCCCAAAAAAAACCTAA
1 CCCCCCCAAAAAAAACCTAA
*
11125927 CCCTCCCAAAAATAAACC
1 CCCCCCCAAAAA-AAACC
11125945 AAGAAACCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 31 0.86
21 5 0.14
ACGTcount: A:0.48, C:0.45, G:0.00, T:0.07
Consensus pattern (20 bp):
CCCCCCCAAAAAAAACCTAA
Found at i:11128442 original size:12 final size:12
Alignment explanation
Indices: 11128425--11128460 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
11128415 ATTCATTTGA
11128425 CATTCATGCATT
1 CATTCATGCATT
11128437 CATTCATGCATT
1 CATTCATGCATT
*
11128449 CATTCATACATT
1 CATTCATGCATT
11128461 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:11136888 original size:69 final size:67
Alignment explanation
Indices: 11136734--11136904 Score: 193
Period size: 69 Copynumber: 2.5 Consensus size: 67
11136724 TTTTCAAGGG
* *
11136734 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTAAGACACTTGAGGTATTTTAATTTTTGTT
1 AAATC-ACTCATATTGCGAGAAG-TGAGTTGAGCCTAAGACACCTGAGGTATTTTAATTTATGTT
11136798 TTCA
64 TTCA
** * *
11136802 AAATCACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATGT
1 AAATCACTCATATTGCGAGAAGTGAGTTGAGCCT-AAGACAC-CTGAGGTA-TTTTAATTTATGT
11136867 TTT-A
63 TTTCA
* * * *
11136871 AATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCACTCATATTGCGAGAAGTGAGTTGAGCCT
11136905 TTTAATTTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
67 26 0.29
68 11 0.12
69 38 0.43
70 14 0.16
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (67 bp):
AAATCACTCATATTGCGAGAAGTGAGTTGAGCCTAAGACACCTGAGGTATTTTAATTTATGTTTT
CA
Found at i:11137025 original size:72 final size:71
Alignment explanation
Indices: 11136904--11137069 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 71
11136894 GAGTTAAGCC
** * *
11136904 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTAAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGC
11136968 TGAGGTA
65 TGAGGTA
* *
11136975 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGC
11137040 TGAGGTA
65 TGAGGTA
* *
11137047 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
11137070 ACGTTGTTTA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
71 12 0.14
72 69 0.81
73 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:11137357 original size:140 final size:140
Alignment explanation
Indices: 11137002--11137770 Score: 1398
Period size: 140 Copynumber: 5.5 Consensus size: 140
11136992 TTAATTTCAA
11137002 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
11137067 TTTACGTTGTTTAAGAATCAACTCATATTGCGAGAGGTGGGTTTGAACCTTTTAATTTCTACTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGG-TTGAACCTTTTAATTTCTACTTT
11137132 TTCAAAATCAG
130 TTCAAAATCAG
11137143 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
11137208 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
*
11137273 TCAAAATCAA
131 TCAAAATCAG
*
11137283 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
11137348 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
11137413 TCAAAATCAG
131 TCAAAATCAG
11137423 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTG-TTTTCA
*
11137488 ATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGT-GGTTGAACCTTTTAATTTCTACTTT
65 ATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTT
11137552 TTCAAAATCAG
130 TTCAAAATCAG
11137563 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
11137628 TTTATGTTGTTCAAGAATCAACTCATATTACGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
11137693 TCAAAATCAG
131 TCAAAATCAG
*
11137703 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GATTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GTCAC--GCTGAGGTATTTTCAATTTCTGT-TT
11137767 TCAA
62 TCAA
11137771 AAAAAAAATT
Statistics
Matches: 612, Mismatches: 10, Indels: 10
0.97 0.02 0.02
Matches are distributed among these distances:
139 43 0.07
140 390 0.64
141 150 0.25
142 23 0.04
143 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:11137626 original size:13 final size:13
Alignment explanation
Indices: 11137608--11137641 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
11137598 CGCTGAGGTA
*
11137608 TTTTCAATTTCTG
1 TTTTCAATTTATG
11137621 TTTTCAATTTATG
1 TTTTCAATTTATG
11137634 TTGTTCAA
1 TT-TTCAA
11137642 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:11138029 original size:78 final size:74
Alignment explanation
Indices: 11137695--11138222 Score: 551
Period size: 72 Copynumber: 7.0 Consensus size: 74
11137685 CTACTTTTTC
* ** ** *
11137695 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGATTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-A-AGACACGCTGAGGTATTTTCAATTT
*
11137760 CTGTCTTTCAAAAAA
64 CT-TTTTTC---AAA
* *
11137775 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
11137840 TGTTTTC--A
65 TTTTTTCAAA
* * *
11137848 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
**
11137913 GCTTTC--A
66 TTTTTCAAA
* * *
11137920 AAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
11137985 ATTTTTCAAAAAA
66 -TTTTTC---AAA
* * *
11137998 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCTTCAAGACATGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
11138063 GTTTTTCAAA
66 -TTTTTCAAA
** * * *
11138073 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
* **
11138138 GTTGCCAAA
66 TTTTTCAAA
* * *** * * *
11138147 AAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTT
*
11138212 CCGTTTTTCAA
64 -CTTTTTTCAA
11138223 TTTCTGCCTT
Statistics
Matches: 393, Mismatches: 45, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
72 128 0.33
73 8 0.02
74 42 0.11
75 60 0.15
76 20 0.05
77 6 0.02
78 72 0.18
79 22 0.06
80 5 0.01
81 30 0.08
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
TTTTTCAAA
Found at i:11138127 original size:225 final size:223
Alignment explanation
Indices: 11137691--11138598 Score: 727
Period size: 244 Copynumber: 3.9 Consensus size: 223
11137681 ATTTCTACTT
* **
11137691 TTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGATTCACATGCTGAGGTATTTTCA
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A-AGACATGCTGAGGTATTTTCA
* * *
11137756 ATTTCTGTCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
64 ATTTCTATTTTTCAAAAAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCTTCAAGACACG
* * * **
11137821 TTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC
128 CTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
11137883 TCAAGACACGTTGAGGTAATTTCAATTTCTG
193 TCAAGACACGCTAAGGTAATTTCAATTTCTG
** *
11137914 CTTTCAAAATTCAACTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
1 -TTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
* *
11137979 ATTTCTATTTTTCAAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCTTCAAGACATGC
64 ATTTCTATTTTTCAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCTTCAAGACACGC
11138044 TGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
129 TGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
11138109 CAGGACACGCTAAGGTAATTTCAATTTCTG
194 CAAGACACGCTAAGGTAATTTCAATTTCTG
* * * * * * * *
11138139 TTGCCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATT
1 TT-TC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACATGCTGAGGTATT
**
11138204 TTCAATTTCCGTTTTTCAATTTCTGCCTTTC-AAAAAAAAATCAACTCATATTGCGAGAGGTGAG
60 TTCAATTT-C-----T--A--T-T---TTTCAAAAAAAAAATCAACTCATATTGCGAGAAATGAG
** * * *
11138268 TTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATAT
111 TTGAG-CTT--CAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATAT
* * * * * * * * *
11138332 TGCAAGAGGTGAGTTGAGCTTTAGATCACACACTGAGGTATTTTTTCAATTTATATT
173 TGCGAGAGGTGAGTTGAGCCTCA-A-GACACGCTAAGGTA--ATTTCAA-TT-TCTG
* * **
11138389 TTTCAAAGAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATT
1 TTTC--A-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACATGCT-GAGGTATT
** * *** *
11138453 TTCAAAATCTGTTTTTCAGATTCTGCTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
60 TTCAATTTCTATTTTTCA-A-------AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAG-
* * *
11138518 CTT--GGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATAT
116 CTTCAAG-ACAC--GCTGAGGTATTTTCAATTTCTG----TTTTTCAAAAAAA-TCAACTCATAT
11138581 TGCGAGAGGTGAG-TGAGC
173 TGCGAGAGGTGAGTTGAGC
11138599 TTTTAATTTC
Statistics
Matches: 560, Mismatches: 72, Indels: 80
0.79 0.10 0.11
Matches are distributed among these distances:
222 57 0.10
223 45 0.08
224 11 0.02
225 91 0.16
227 28 0.05
228 4 0.01
229 21 0.04
230 1 0.00
235 5 0.01
237 2 0.00
238 1 0.00
239 2 0.00
240 1 0.00
242 37 0.07
243 8 0.01
244 125 0.22
245 1 0.00
246 11 0.02
248 27 0.05
249 78 0.14
250 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (223 bp):
TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAAT
TTCTATTTTTCAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCTTCAAGACACGCTG
AGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
AGACACGCTAAGGTAATTTCAATTTCTG
Found at i:11138297 original size:93 final size:93
Alignment explanation
Indices: 11138144--11138315 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
11138134 TTCTGTTGCC
* * *
11138144 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGCTATTTTCAA
*
11138209 TTTCCGTTTTTCAATTTCTGCCTTTCAA
66 TTTCCGTCTTTCAATTTCTGCCTTTCAA
* * *
11138237 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTTAGG-TCACACGCCGAGCTATTTTCA
*
11138301 ATTTCTGTCTTTCAA
65 ATTTCCGTCTTTCAA
11138316 AAAAATCAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (93 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGCTATTTTCAA
TTTCCGTCTTTCAATTTCTGCCTTTCAA
Found at i:11138345 original size:77 final size:77
Alignment explanation
Indices: 11138216--11138808 Score: 374
Period size: 88 Copynumber: 7.2 Consensus size: 77
11138206 CAATTTCCGT
**
11138216 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
*
11138281 CACGCGCTGAGCTA
64 CACACGCTGAGCTA
* * * * *
11138295 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTTAGATCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
* *
11138360 CACACTGAGGTA
66 CACGCTGAGCTA
* * * * * * *
11138372 TTTTTTCAATTTATATTTTTCAAAGAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
* *
11138437 CACATG-TCGAGGTA
64 CACACGCT-GAGCTA
** *
11138451 TTTTCAAAATCTGTTTTTCAGATTCTGCTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTGTTTTTCA-A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
**
11138516 GCCTTGGCTCACGTGCTGAGCTA
55 GCCTTGGCTCACACGCTGAGCTA
*
11138539 TTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAG-TGAGCTTTT
1 TTTTCAATTTCTG----TTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CT
** * * *
11138603 AATTTCTGCGAGA-GTTGAGTTGA
59 --TGGCT-C-ACACGCTGAGCT-A
* * * *
11138626 GTCTTTTAATTTCTGTTTTTC--AAAAATCAACTTATATTGCGAGAGGTGAGTTGAACCTTCAG-
1 -T-TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGC
** *
11138688 TCACA-TATCGAGGTA
63 TCACACGCT-GAGCTA
*
11138703 TTTTCAAAATCTGCTTTTCAAGTTAAGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTC--AA------TTTC-TGTT---TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
**
11138767 AGCCTTGGCTCACGTGCTGAGCTA
54 AGCCTTGGCTCACACGCTGAGCTA
11138791 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
11138809 AATGTCTGTT
Statistics
Matches: 405, Mismatches: 62, Indels: 97
0.72 0.11 0.17
Matches are distributed among these distances:
75 3 0.01
76 4 0.01
77 73 0.18
78 7 0.02
79 85 0.21
80 4 0.01
81 11 0.03
82 46 0.11
83 14 0.03
84 3 0.01
85 9 0.02
86 9 0.02
87 7 0.02
88 109 0.27
89 13 0.03
91 1 0.00
92 7 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (77 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
CACGCTGAGCTA
Found at i:11138378 original size:79 final size:78
Alignment explanation
Indices: 11138215--11138598 Score: 283
Period size: 79 Copynumber: 4.7 Consensus size: 78
11138205 TCAATTTCCG
* * *
11138215 TTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
1 TTTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGA
* *
11138280 TCACGCGCTGAGCTA
64 TCACACACTGAGCTA
* *
11138295 -TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTTAGATC
1 TTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATC
*
11138359 ACACACTGAGGTA
66 ACACACTGAGCTA
* * * * * * ** *
11138372 TTTTTTCAATTTATATTTTTCAAAGAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 -TTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGAT
** *
11138437 CACA-TGTCGAGGTA
65 CACACACT-GAGCTA
** * *
11138451 -TTTTCAAAATCTGTTTTTCAGATTCTGCTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTG
1 TTTTTCAATTTCTGTCTTTCA-A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * ***
11138515 AGCCTTGGCTCACGTGCTGAGCTA
55 AGCCTTAGATCACACACTGAGCTA
*
11138539 -TTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAG-TGAGC
1 TTTTTCAATTTCTG----TCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
11138599 TTTTAATTTC
Statistics
Matches: 247, Mismatches: 37, Indels: 39
0.76 0.11 0.12
Matches are distributed among these distances:
77 67 0.27
78 2 0.01
79 80 0.32
81 10 0.04
82 23 0.09
88 56 0.23
89 1 0.00
91 1 0.00
92 7 0.03
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (78 bp):
TTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATC
ACACACTGAGCTA
Found at i:11138489 original size:244 final size:241
Alignment explanation
Indices: 11137996--11138808 Score: 887
Period size: 252 Copynumber: 3.3 Consensus size: 241
11137986 TTTTTCAAAA
* ** ** * *
11137996 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAG-CTT--CAAGACATGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTATTTTCAA
* * * * *
11138058 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTA
65 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCACACACTG
* * ** * * * *
11138121 AGGTA-ATTTCAATTTCTGTTGCCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTTA
130 AGGTATTTTTCAATTTCTTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TC
* * ** * *
11138185 GGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
193 GGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTG-CTTTC
*
11138235 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTC
1 ---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTC
* *
11138300 AATTTCTGTCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTTAGATCACACAC
63 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCACACAC
* * *
11138365 TGAGGTATTTTTTCAATTTATATTTTTCAAAGAAATCAACTCACATTGCGAGATGTGAGTTGAGC
128 TGAGGTA-TTTTTCAATTTCT-TTTTTCAAA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGC
11138430 CTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTC-AGATTCTGCTTTC
190 CTC-GGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAG-TTCTGCTTTC
*
11138483 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
11138547 TTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAG-TGAGCTTTTA-ATTTCT
66 TTCTG----TTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC-TTTAGA--TC-
* * * * *
11138610 GCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTTATATTGCGAGAGGT
122 AC-ACA-CTGAGGT-A-T-TTTTCAATTTCT-TTTTTCAAAAAATCAACTCATATTGCGAGAGGT
* * * * **
11138673 GAGTTGAACCTTCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAG-TTTC
181 GAGTTGAGCC-TCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTGCTTTC
11138734 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
11138799 TTCTGTTTTT
66 TTCTGTTTTT
11138809 AATGTCTGTT
Statistics
Matches: 491, Mismatches: 53, Indels: 48
0.83 0.09 0.08
Matches are distributed among these distances:
242 32 0.07
243 3 0.01
244 134 0.27
245 1 0.00
246 11 0.02
248 43 0.09
249 95 0.19
250 2 0.00
251 5 0.01
252 136 0.28
253 11 0.02
254 14 0.03
255 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (241 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCACACACTGA
GGTATTTTTCAATTTCTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGT
CACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTCTGCTTTC
Found at i:11138621 original size:28 final size:30
Alignment explanation
Indices: 11138581--11138640 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
11138571 CAACTCATAT
11138581 TGCGAGAGGTGAG-TGAG-CTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
*
11138609 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
11138639 TG
1 TG
11138641 TTTTTCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.41
29 4 0.14
30 13 0.45
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.40
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:11139490 original size:20 final size:21
Alignment explanation
Indices: 11139467--11139516 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
11139457 GCCCCCATCC
11139467 AAAAAAAACCTAA-CCCAAAA
1 AAAAAAAACCTAACCCCAAAA
**
11139487 AAAAAAAA-CTAACCCCCCAA
1 AAAAAAAACCTAACCCCAAAA
11139507 AAAAAAAACC
1 AAAAAAAACC
11139517 AAGAAACCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 21 0.81
21 1 0.04
ACGTcount: A:0.68, C:0.28, G:0.00, T:0.04
Consensus pattern (21 bp):
AAAAAAAACCTAACCCCAAAA
Found at i:11139491 original size:19 final size:20
Alignment explanation
Indices: 11139467--11139516 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
11139457 GCCCCCATCC
11139467 AAAAAAAACCTAA-CCCAAA
1 AAAAAAAACCTAACCCCAAA
* *
11139486 AAAAAAAAACTAACCCCCCAA
1 AAAAAAAACCTAA-CCCCAAA
11139507 AAAAAAAACC
1 AAAAAAAACC
11139517 AAGAAACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 12 0.46
21 14 0.54
ACGTcount: A:0.68, C:0.28, G:0.00, T:0.04
Consensus pattern (20 bp):
AAAAAAAACCTAACCCCAAA
Found at i:11140347 original size:21 final size:19
Alignment explanation
Indices: 11140296--11140363 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 19
11140286 TTATTGTAGA
*
11140296 TATTATTATTAT-TACATACT
1 TATTATT-TTATGCACATA-T
* *
11140316 T-TTATTATATGCATATAT
1 TATTATTTTATGCACATAT
*
11140334 ATATGTATTTTATGTACATAT
1 -TAT-TATTTTATGCACATAT
11140355 TATTATTTT
1 TATTATTTT
11140364 TATATTATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 4 0.11
19 16 0.42
20 5 0.13
21 13 0.34
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (19 bp):
TATTATTTTATGCACATAT
Found at i:11140361 original size:19 final size:19
Alignment explanation
Indices: 11140284--11140363 Score: 60
Period size: 21 Copynumber: 4.2 Consensus size: 19
11140274 TAATATTTTC
*
11140284 TTTTATTGTAGATATTATTA
1 TTTTA-TGTACATATTATTA
11140304 --TTAT-TACATACTT-TTA
1 TTTTATGTACATA-TTATTA
* * *
11140320 TTATATGCATATATATATGTA
1 TTTTATGTACATAT-TAT-TA
11140341 TTTTATGTACATATTATTA
1 TTTTATGTACATATTATTA
11140360 TTTT
1 TTTT
11140364 TATATTATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 15
0.68 0.10 0.22
Matches are distributed among these distances:
16 8 0.17
17 3 0.07
18 7 0.15
19 11 0.24
20 4 0.09
21 13 0.28
ACGTcount: A:0.31, C:0.05, G:0.06, T:0.57
Consensus pattern (19 bp):
TTTTATGTACATATTATTA
Found at i:11144462 original size:13 final size:13
Alignment explanation
Indices: 11144446--11144485 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
11144436 CAATCTCATA
11144446 TCTCAATTTCAAT
1 TCTCAATTTCAAT
11144459 TCTCAA-TTCAATT
1 TCTCAATTTCAA-T
11144472 TCTC-ATTTC-AT
1 TCTCAATTTCAAT
11144483 TCT
1 TCT
11144486 AATAGCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 14 0.56
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (13 bp):
TCTCAATTTCAAT
Found at i:11144471 original size:18 final size:19
Alignment explanation
Indices: 11144433--11144473 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
11144423 TGGTTCATGT
11144433 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
11144452 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
11144470 TTTC
1 TTTC
11144474 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:11145138 original size:15 final size:15
Alignment explanation
Indices: 11145118--11145164 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
11145108 ATATATTAAT
11145118 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
11145133 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
11145148 TTCAATCAATATAAA
1 TTCAATCAATATAAA
11145163 TT
1 TT
11145165 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:11146030 original size:19 final size:19
Alignment explanation
Indices: 11146006--11146044 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11145996 AATACTTATT
* *
11146006 TATTATTTATACATGTGTA
1 TATTATTAATACACGTGTA
11146025 TATTATTAATACACGTGTA
1 TATTATTAATACACGTGTA
11146044 T
1 T
11146045 CTATTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (19 bp):
TATTATTAATACACGTGTA
Found at i:11148868 original size:118 final size:118
Alignment explanation
Indices: 11148726--11148938 Score: 390
Period size: 118 Copynumber: 1.8 Consensus size: 118
11148716 ATTTACCCAA
11148726 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
* *
11148791 TCAGTCACGATTTGAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
66 TCAGTCACGATCTAAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
11148844 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
**
11148909 TCAGTCACGATCTAAGCTGTACTCATAACC
66 TCAGTCACGATCTAAGCCATACTCATAACC
11148939 ATGGAAAAAA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 91 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (118 bp):
CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
TCAGTCACGATCTAAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
Found at i:11149917 original size:6 final size:6
Alignment explanation
Indices: 11149901--11149958 Score: 88
Period size: 6 Copynumber: 10.3 Consensus size: 6
11149891 ATATTTAACT
11149901 AAAAT- AAAATA AAAATA AAAATA AAAAT- --AATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
11149945 AAAATA AAAATA AA
1 AAAATA AAAATA AA
11149959 GATTGGGTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.06
5 5 0.10
6 41 0.84
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:11149934 original size:21 final size:21
Alignment explanation
Indices: 11149908--11149951 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
11149898 ACTAAAATAA
11149908 AATAAAAATAAAAATAAAAAT
1 AATAAAAATAAAAATAAAAAT
11149929 AATAAAAATAAAAATAAAAAT
1 AATAAAAATAAAAATAAAAAT
11149950 AA
1 AA
11149952 AAATAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (21 bp):
AATAAAAATAAAAATAAAAAT
Found at i:11149939 original size:27 final size:27
Alignment explanation
Indices: 11149906--11149957 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
11149896 TAACTAAAAT
11149906 AAAATAAAAATAAAAATAAAAATAATA
1 AAAATAAAAATAAAAATAAAAATAATA
11149933 AAAATAAAAATAAAAATAAAAATAA
1 AAAATAAAAATAAAAATAAAAATAA
11149958 AGATTGGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (27 bp):
AAAATAAAAATAAAAATAAAAATAATA
Found at i:11157490 original size:14 final size:14
Alignment explanation
Indices: 11157471--11157501 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11157461 TCTGCCTAAC
11157471 CACTAAGCTACTTA
1 CACTAAGCTACTTA
*
11157485 CACTAAGCTAGTTA
1 CACTAAGCTACTTA
11157499 CAC
1 CAC
11157502 ATTAATCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.29, G:0.10, T:0.26
Consensus pattern (14 bp):
CACTAAGCTACTTA
Found at i:11167102 original size:18 final size:17
Alignment explanation
Indices: 11167081--11167115 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
11167071 ATTTTCTACA
11167081 TTTTTTTACATTTTAAAT
1 TTTTTTTA-ATTTTAAAT
11167099 TTTTTTTAATTTTAAAT
1 TTTTTTTAATTTTAAAT
11167116 GATTTTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTTTAATTTTAAAT
Found at i:11167121 original size:17 final size:18
Alignment explanation
Indices: 11167083--11167122 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
11167073 TTTCTACATT
**
11167083 TTTTTACATTTTAAATTT
1 TTTTTACATTTTAAATGA
11167101 TTTTTA-ATTTTAAATGA
1 TTTTTACATTTTAAATGA
11167118 TTTTT
1 TTTTT
11167123 TGCTTGATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTTACATTTTAAATGA
Found at i:11167121 original size:18 final size:18
Alignment explanation
Indices: 11167082--11167123 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
11167072 TTTTCTACAT
*
11167082 TTTTTTACATTTTAAATT
1 TTTTTTACATTTTAAATA
11167100 TTTTTTA-ATTTTAAATGA
1 TTTTTTACATTTTAAAT-A
11167118 TTTTTT
1 TTTTTT
11167124 GCTTGATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTTACATTTTAAATA
Found at i:11177149 original size:17 final size:17
Alignment explanation
Indices: 11177127--11177160 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11177117 ATCCACTAAT
*
11177127 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
11177144 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
11177161 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:11181788 original size:17 final size:17
Alignment explanation
Indices: 11181766--11181799 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11181756 ATCCACTAAT
*
11181766 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
11181783 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
11181800 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:11196172 original size:5 final size:5
Alignment explanation
Indices: 11196162--11196186 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11196152 CTCCTTTAAA
11196162 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
11196187 CAAGCTACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:11200418 original size:25 final size:26
Alignment explanation
Indices: 11200380--11200433 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
11200370 TTCTTTTATT
* *
11200380 TAAAAAATACTAAAATTAATTCAA-AA
1 TAAAAAAGACTAAAATAAATT-AACAA
11200406 TAAAAAAGA-TAAAATAAATTAACAA
1 TAAAAAAGACTAAAATAAATTAACAA
11200431 TAA
1 TAA
11200434 CATTATTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.08
25 15 0.60
26 8 0.32
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (26 bp):
TAAAAAAGACTAAAATAAATTAACAA
Found at i:11208309 original size:14 final size:14
Alignment explanation
Indices: 11208285--11208329 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
11208275 GGTAAAATAT
*
11208285 TTTCCGAAAAATGA
1 TTTCTGAAAAATGA
* *
11208299 TTTTTGGAAAATGA
1 TTTCTGAAAAATGA
11208313 TTTCTGAAAAATGA
1 TTTCTGAAAAATGA
11208327 TTT
1 TTT
11208330 ACTTTTCTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.40
Consensus pattern (14 bp):
TTTCTGAAAAATGA
Found at i:11208484 original size:36 final size:38
Alignment explanation
Indices: 11208413--11208484 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
11208403 GGAGAAGCTG
*
11208413 TTTTTACATATATATTAATAAATTTATATTTTAAATTA
1 TTTTTACATATATATTAATAAATTTATATTATAAATTA
*
11208451 TTTTTACATATAT-TGTAAT-GATTTAT-TTATAAAT
1 TTTTTACATATATAT-TAATAAATTTATATTATAAAT
11208485 AAATTAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 7 0.23
38 17 0.55
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (38 bp):
TTTTTACATATATATTAATAAATTTATATTATAAATTA
Found at i:11210343 original size:18 final size:18
Alignment explanation
Indices: 11210317--11210380 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
11210307 ATTGAAACTT
*
11210317 CAACTTATAAATGAACAA
1 CAACATATAAATGAACAA
*
11210335 CAACATATAAATAAACAA
1 CAACATATAAATGAACAA
*
11210353 CAAC-TCCCTAAA-GAACAA
1 CAACAT--ATAAATGAACAA
11210371 CAACATATAA
1 CAACATATAA
11210381 CTTATTTCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 4 0.11
18 29 0.76
19 5 0.13
ACGTcount: A:0.58, C:0.22, G:0.03, T:0.17
Consensus pattern (18 bp):
CAACATATAAATGAACAA
Found at i:11211133 original size:48 final size:47
Alignment explanation
Indices: 11211062--11211155 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 47
11211052 TTCAGATCAG
11211062 TCAGGGAAAAGAAGAAGAAGAAGAAAAAGCCATACCCAAAAACCAATT
1 TCAGGGAAAAGAAGAAGAAGAAGAAAAAGCCATACCC-AAAACCAATT
*
11211110 TCAGGGAAAAGAAGAAGAAGAAGAAAAAGCCGTACCCAAAACCAAT
1 TCAGGGAAAAGAAGAAGAAGAAGAAAAAGCCATACCCAAAACCAAT
11211156 CTTACAGAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 9 0.20
48 36 0.80
ACGTcount: A:0.55, C:0.17, G:0.20, T:0.07
Consensus pattern (47 bp):
TCAGGGAAAAGAAGAAGAAGAAGAAAAAGCCATACCCAAAACCAATT
Found at i:11214243 original size:49 final size:50
Alignment explanation
Indices: 11214165--11214267 Score: 136
Period size: 49 Copynumber: 2.1 Consensus size: 50
11214155 AGTCGTATGT
* * *
11214165 TAGGCCATGTGGAGGCACACGGGCGTGTGCGATTACATGAGTAAATCAAG
1 TAGGCCATGTGGAGGCACACAGGCATGTGCAATTACATGAGTAAATCAAG
* * * *
11214215 TAGGCCGTGT-GAGGCACACATGCATGTGCAATTACATGGGTAAATCAGG
1 TAGGCCATGTGGAGGCACACAGGCATGTGCAATTACATGAGTAAATCAAG
11214264 TAGG
1 TAGG
11214268 TTGTGTAGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 37 0.80
50 9 0.20
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.21
Consensus pattern (50 bp):
TAGGCCATGTGGAGGCACACAGGCATGTGCAATTACATGAGTAAATCAAG
Found at i:11215829 original size:25 final size:25
Alignment explanation
Indices: 11215801--11215860 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
11215791 CCATATAATA
**
11215801 GGAAGCTCATGTAAGTTGTATAACG
1 GGAAGCTCATCCAAGTTGTATAACG
* *
11215826 GGAAGCTTATCCGAGTTGTATAACG
1 GGAAGCTCATCCAAGTTGTATAACG
*
11215851 GGGAGCTCAT
1 GGAAGCTCAT
11215861 AAGAGCTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (25 bp):
GGAAGCTCATCCAAGTTGTATAACG
Found at i:11216029 original size:26 final size:25
Alignment explanation
Indices: 11215998--11216076 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 25
11215988 CATTAATCAA
11215998 GAAGCTCACAAAGAGCCTTTTATCGG
1 GAAGCTCACAAAGAGCCTTTTATC-G
* *
11216024 GAAGCTC-CAAAGAGCCATATCATC-
1 GAAGCTCACAAAGAGCC-TTTTATCG
11216048 -ATA-CTCACAAAGAGCCTTTTATCG
1 GA-AGCTCACAAAGAGCCTTTTATCG
11216072 GAAGC
1 GAAGC
11216077 GAGCTCGGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
23 9 0.21
24 11 0.26
25 11 0.26
26 12 0.28
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (25 bp):
GAAGCTCACAAAGAGCCTTTTATCG
Found at i:11218545 original size:93 final size:93
Alignment explanation
Indices: 11218386--11218558 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
11218376 CGCCCATAAG
* *
11218386 CGAACTCGGACTCAACTTAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCA
11218451 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
11218479 CGAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCAGACTCAACTC
*
11218543 AACGAGTTCGGATGCC
65 AACGAGCTCGGATGCC
11218559 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:11218549 original size:46 final size:46
Alignment explanation
Indices: 11218379--11218554 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
11218369 TGTAACCCGC
* * *
11218379 CCATAAGCGAACTCGGACTCAACTTAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCAT
* *
11218425 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
11218471 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
11218518 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
11218555 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 65 0.61
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:11218573 original size:46 final size:44
Alignment explanation
Indices: 11218430--11218573 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
11218420 CGCATCCATA
* * *
11218430 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
11218479 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
11218522 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
11218569 AGTGA
1 AGTGA
11218574 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:11221116 original size:30 final size:30
Alignment explanation
Indices: 11221072--11221160 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
11221062 CAAAGATAAC
11221072 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
11221101 GAGAAACCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
11221131 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
11221161 CGATACCATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.21
30 35 0.73
31 3 0.06
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:11221120 original size:15 final size:15
Alignment explanation
Indices: 11221072--11221151 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
11221062 CAAAGATAAC
*
11221072 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
11221086 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
11221101 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
11221116 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
11221131 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
11221146 AAGAAA
1 AAGAAA
11221152 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:11221160 original size:15 final size:15
Alignment explanation
Indices: 11221083--11221160 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
11221073 AGAAAACCGA
*
11221083 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
11221098 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
11221112 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
11221127 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
11221143 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
11221158 ATA
1 ATA
11221161 CGATACCATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:11224162 original size:46 final size:46
Alignment explanation
Indices: 11224095--11224269 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
11224085 TGTAACCCGC
* *
11224095 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
11224141 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ***
11224191 CTC-T---TGAGCTCGGACTCAACTCAACGAGTTCAGATATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
11224234 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
11224270 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
46 61 0.58
47 26 0.25
48 1 0.01
49 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:11224289 original size:46 final size:45
Alignment explanation
Indices: 11224146--11224289 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
11224136 CGCATCCATA
* *
11224146 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATC-CT
* * *** *
11224195 --TGAGCTCGGACTCAACTCAACGAGTTCAGATATTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC-T
*
11224238 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCT
11224285 AGTGA
1 AGTGA
11224290 CATGTAACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
42 1 0.01
43 5 0.07
46 35 0.47
47 29 0.39
48 4 0.05
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCT
Done.