Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold443
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: 318098
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
File 1 of 3
Found at i:2147 original size:161 final size:161
Alignment explanation
Indices: 1858--2515 Score: 532
Period size: 173 Copynumber: 3.9 Consensus size: 161
1848 GTTTATAAGC
* * ** *
1858 CCGCTCGTTGATGCAGCCAACATCCTAGTTCCGGAGTGGATCACTTGCCAAAGTTACATCAGTAG
1 CCGCTCATTGATGCAGCCAACATCCTAGTTCCGAAGTGGATCGGTTGCCAAAGTTGCATCAGTAG
* * * *
1923 ATTTCGAACATAACATAAAAAAACCTGCATGAAAGATGTAA-TCAATAGATCTTTTCCTCTGTCA
66 ATTTCAAACATAACAT-AAAAAACCTGCATGAAAGATGTAATTCAACAGATCATTTCTTCTGTCA
*
1987 GAGAAGTTATGACAACAATCCCGTTTATCAAT
130 GAGAAGTTATGATAACAATCCCGTTTATCAAT
* * * *
2019 CAGCTCATTGATGCAGCCAACATCCCAGTTCCGGAGTGGATCGGTTGCCAAAGTTGCATCAGTAT
1 CCGCTCATTGATGCAGCCAACATCCTAGTTCCGAAGTGGATCGGTTGCCAAAGTTGCATCAGTAG
* * *
2084 ATTTCAAACATAGCGTAAAATACCTGCATGAAAGATGTAATTCAACAGATCATTTCTTCTGTCAG
66 ATTTCAAACATAACATAAAAAACCTGCATGAAAGATGTAATTCAACAGATCATTTCTTCTGTCAG
* * * **
2149 AGAAGTTACGATGACAATCCCGTTTTTTGTGTGTTTTATGAGG
131 AGAAGTTATGATAACAATCCC-----------G-TTTATCAAT
** * * *
2192 CCGCTCATTGATGCAGCTGACATCCTGGTTCCAAAGTGGATCGGTTGCCAAAGTTGCATCAGTAT
1 CCGCTCATTGATGCAGCCAACATCCTAGTTCCGAAGTGGATCGGTTGCCAAAGTTGCATCAGTAG
* * * * * *
2257 ATTTTGAACATAACCAAAAAAAAAAAAAAAAAACTACATGAAAGATGTAATTCGACAGATCATTT
66 A-TTT---CA-AA-C----ATAACATAAAAAACCTGCATGAAAGATGTAATTCAACAGATCATTT
* *
2322 CTTCTGTCATAGAAGTTATGATAACAATCCCGTTTTTCGTATGTTTTAT
121 CTTCTGTCAGAGAAGTTATGATAACAATCCCGTTTATC--A------AT
* * * *
2371 GAGCCCGCTCATTGATACAGCCAAACAT-CT-GTGCTCCGAAGTGGACCTGTTGCCACAGTTGCA
1 ----CCGCTCATTGATGCAGCC-AACATCCTAGT--TCCGAAGTGGATCGGTTGCCAAAGTTGCA
* * * * * *
2434 TCTGCAGATTTCAAACATATC-GAAATAACCTGCATGAAAGATGTAATTCAACGGATCATTTCTT
59 TCAGTAGATTTCAAACATAACATAAAAAACCTGCATGAAAGATGTAATTCAACAGATCATTTCTT
*
2498 CTGTCACAGAAGTTATGA
124 CTGTCAGAGAAGTTATGA
2516 GGACAAGTAA
Statistics
Matches: 396, Mismatches: 63, Indels: 64
0.76 0.12 0.12
Matches are distributed among these distances:
160 23 0.06
161 110 0.28
171 4 0.01
172 2 0.01
173 120 0.30
174 5 0.01
177 2 0.01
178 3 0.01
179 3 0.01
180 2 0.01
182 2 0.01
183 86 0.22
184 34 0.09
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (161 bp):
CCGCTCATTGATGCAGCCAACATCCTAGTTCCGAAGTGGATCGGTTGCCAAAGTTGCATCAGTAG
ATTTCAAACATAACATAAAAAACCTGCATGAAAGATGTAATTCAACAGATCATTTCTTCTGTCAG
AGAAGTTATGATAACAATCCCGTTTATCAAT
Found at i:8533 original size:19 final size:19
Alignment explanation
Indices: 8488--8533 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
8478 ATATGTAAGA
*
8488 ATAAAATATTTATATATTT
1 ATAAAATTTTTATATATTT
**
8507 ATTTAATTTTTATATATTT
1 ATAAAATTTTTATATATTT
8526 ATAAAATT
1 ATAAAATT
8534 ATATTTTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATAAAATTTTTATATATTT
Found at i:8538 original size:14 final size:14
Alignment explanation
Indices: 8519--8560 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
8509 TTAATTTTTA
8519 TATATTTATAAAAT
1 TATATTTATAAAAT
* *
8533 TATATTTTTAAATT
1 TATATTTATAAAAT
*
8547 TATATTTAAAAAAT
1 TATATTTATAAAAT
8561 ATAGTGAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATTTATAAAAT
Found at i:8594 original size:16 final size:16
Alignment explanation
Indices: 8573--8603 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8563 AGTGAATACA
*
8573 ATTTTAAAATATAAAT
1 ATTTTAAAAAATAAAT
8589 ATTTTAAAAAATAAA
1 ATTTTAAAAAATAAA
8604 AATTAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTTTAAAAAATAAAT
Found at i:8621 original size:15 final size:15
Alignment explanation
Indices: 8592--8628 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8582 TATAAATATT
8592 TTAAAA-AATAAAAA
1 TTAAAATAATAAAAA
*
8606 TTAAAATAATATAAA
1 TTAAAATAATAAAAA
8621 TTAAAATA
1 TTAAAATA
8629 TGATATTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TTAAAATAATAAAAA
Found at i:9731 original size:25 final size:24
Alignment explanation
Indices: 9703--9756 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
9693 AAATTTATTT
*
9703 TATTTTTAAAAATATTTATAATTAA
1 TATTTTTAAAAATAATTATAA-TAA
* *
9728 TATTTTTTAAATTAATTATAATAA
1 TATTTTTAAAAATAATTATAATAA
9752 TATTT
1 TATTT
9757 ATTATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTTTTAAAAATAATTATAATAA
Found at i:9767 original size:6 final size:6
Alignment explanation
Indices: 9740--9823 Score: 51
Period size: 6 Copynumber: 15.3 Consensus size: 6
9730 TTTTTTAAAT
* *
9740 TAATTA TAATAA T-ATT- T-ATTA TATTTA TAATTA TAA-TA -AA-TA
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA
* * *
9782 TAA-TA TAACTA AAAATA T-ATCTA TAATTA TAATT- TAATTA TA
1 TAATTA TAATTA TAATTA TAAT-TA TAATTA TAATTA TAATTA TA
9824 TCTCACTGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
4 8 0.13
5 18 0.29
6 35 0.56
7 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (6 bp):
TAATTA
Found at i:9773 original size:15 final size:15
Alignment explanation
Indices: 9714--9773 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
9704 ATTTTTAAAA
*
9714 ATATTTATAATTAAT
1 ATATTTATAATTATT
*
9729 AT-TTTTTAAATTAATT
1 ATATTTAT-AATT-ATT
* * *
9745 ATAATAATATTTATT
1 ATATTTATAATTATT
9760 ATATTTATAATTAT
1 ATATTTATAATTAT
9774 AATAAATATA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
14 4 0.12
15 20 0.61
16 7 0.21
17 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATTTATAATTATT
Found at i:9775 original size:24 final size:24
Alignment explanation
Indices: 9714--9777 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
9704 ATTTTTAAAA
*
9714 ATATTTATAA-T-TAATATTTTTT
1 ATATTTATAATTATAATATTTATT
* * * *
9736 AAATTAATTATAATAATATTTATT
1 ATATTTATAATTATAATATTTATT
9760 ATATTTATAATTATAATA
1 ATATTTATAATTATAATA
9778 AATATAATAT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 7 0.23
24 24 0.77
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATTTATAATTATAATATTTATT
Found at i:10911 original size:17 final size:17
Alignment explanation
Indices: 10882--10917 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
10872 AGTTACTATT
10882 AAAAATATCAATATGAAA
1 AAAAATATCAATAT-AAA
10900 AAAAATAT-AATATAAA
1 AAAAATATCAATATAAA
10916 AA
1 AA
10918 TGTAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 5 0.28
18 8 0.44
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (17 bp):
AAAAATATCAATATAAA
Found at i:13091 original size:21 final size:21
Alignment explanation
Indices: 13035--13092 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
13025 AAAAATAGAA
13035 GTAACGATAAAATTAATTATT
1 GTAACGATAAAATTAATTATT
* * * *
13056 ATTACGATGAGATTAATTATT
1 GTAACGATAAAATTAATTATT
* *
13077 GTAACAATAATATTAA
1 GTAACGATAAAATTAA
13093 AATCAATAAT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
GTAACGATAAAATTAATTATT
Found at i:14063 original size:2 final size:2
Alignment explanation
Indices: 14056--14085 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14046 GTACATATTC
*
14056 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14086 TCTTTAGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15450 original size:23 final size:21
Alignment explanation
Indices: 15424--15477 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
15414 AATAAAGCAA
15424 TTAAAAATAT-AATTTAATATAAT
1 TTAAAAATATAAATTT--T-TAAT
15447 TTAAATAATTATAAATTTTTAAT
1 TTAAA-AA-TATAAATTTTTAAT
15470 TTAAAAAT
1 TTAAAAAT
15478 CAAAATCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
21 1 0.04
22 2 0.07
23 14 0.50
24 3 0.11
25 3 0.11
26 5 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTAAAAATATAAATTTTTAAT
Found at i:16081 original size:16 final size:16
Alignment explanation
Indices: 16060--16106 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
16050 TATATAAATT
16060 TTAATATATTTTTATA
1 TTAATATATTTTTATA
*
16076 TTAATATTATATTTATA
1 TTAATA-TATTTTTATA
16093 TTATATCATATTTT
1 TTA-AT-ATATTTT
16107 AATTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 6 0.23
17 12 0.46
18 7 0.27
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATATATTTTTATA
Found at i:16093 original size:27 final size:28
Alignment explanation
Indices: 16024--16128 Score: 67
Period size: 27 Copynumber: 3.8 Consensus size: 28
16014 ATATTTTTAT
* *
16024 ATATTATATTTA-AAATATTTAATATTT
1 ATATTATATTTATATATATTTAATATTA
* *
16051 ATA-TAAATTT-TAATATATTTTTATATTA
1 ATATTATATTTAT-ATATA-TTTAATATTA
* *
16079 ATATTATATTTATAT-TATATCATATT-
1 ATATTATATTTATATATATTTAATATTA
* *
16105 TTAATTATTTTTATATCATATTTA
1 AT-ATTATATTTATAT-ATATTTA
16129 CATCACTTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
26 7 0.12
27 26 0.44
28 13 0.22
29 12 0.20
30 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (28 bp):
ATATTATATTTATATATATTTAATATTA
Found at i:16111 original size:16 final size:17
Alignment explanation
Indices: 16069--16112 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
16059 TTTAATATAT
*
16069 TTTTATATTAATATTATA
1 TTTTATATT-ATATCATA
16087 -TTTATATTATATCATA
1 TTTTATATTATATCATA
16103 TTTTA-ATTAT
1 TTTTATATTAT
16113 TTTTATATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATATTATATCATA
Found at i:16121 original size:22 final size:22
Alignment explanation
Indices: 16048--16127 Score: 83
Period size: 22 Copynumber: 3.6 Consensus size: 22
16038 ATATTTAATA
*
16048 TTTATAT-AAATTTTAATATATT
1 TTTATATCATATTTTAAT-TATT
* * *
16070 TTTATATTAATATTATATTTA-T
1 TTTATA-TCATATTTTAATTATT
*
16092 ATTATATCATATTTTAATTATT
1 TTTATATCATATTTTAATTATT
16114 TTTATATCATATTT
1 TTTATATCATATTT
16128 ACATCACTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 11 0.23
22 26 0.55
23 3 0.06
24 7 0.15
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTATATCATATTTTAATTATT
Found at i:16464 original size:28 final size:29
Alignment explanation
Indices: 16405--16468 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
16395 AAGTTGAAAC
16405 TATTTAAATTAATATTTAATAATTAAAAA
1 TATTTAAATTAATATTTAATAATTAAAAA
* *
16434 TATTTTAATTAA-ATTTAATTA-T-AAAA
1 TATTTAAATTAATATTTAATAATTAAAAA
*
16460 TATATAAAT
1 TATTTAAAT
16469 ATTAATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 11 0.35
27 1 0.03
28 8 0.26
29 11 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
TATTTAAATTAATATTTAATAATTAAAAA
Found at i:16483 original size:22 final size:21
Alignment explanation
Indices: 16443--16484 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16433 ATATTTTAAT
16443 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
16464 TAAATATTAA-TATAATAATAT
1 TAAAT-TTAATTATAA-AATAT
16485 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:19358 original size:24 final size:21
Alignment explanation
Indices: 19326--19404 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 21
19316 AAAGCTAACC
19326 TTATTTTTTTCTACTTCTTTGTTT
1 TTATTTTTTTCT-CTT-TTT-TTT
19350 TTATTTTTTCTCTCTTTTTCTTT
1 TTATTTTTT-TCTCTTTTT-TTT
**
19373 TTCCTTTTTTCTCTTTTTTTT
1 TTATTTTTTTCTCTTTTTTTT
*
19394 CTTTTTTTTTT
1 -TTATTTTTTT
19405 AGGTGAACCT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
21 3 0.06
22 17 0.35
23 13 0.27
24 12 0.25
25 3 0.06
ACGTcount: A:0.04, C:0.15, G:0.01, T:0.80
Consensus pattern (21 bp):
TTATTTTTTTCTCTTTTTTTT
Found at i:19373 original size:22 final size:22
Alignment explanation
Indices: 19329--19404 Score: 75
Period size: 24 Copynumber: 3.3 Consensus size: 22
19319 GCTAACCTTA
19329 TTTTTTTCTACTTCTTTGTT-TTT
1 TTTTTTTCT-CTTCTTT-TTCTTT
*
19352 ATTTTTTCTC-TCTTTTTCTTTT
1 TTTTTTTCTCTTCTTTTTC-TTT
*
19374 TCCTTTTTTCTCTTTTTTTTCTTT
1 T--TTTTTTCTCTTCTTTTTCTTT
19398 TTTTTTT
1 TTTTTTT
19405 AGGTGAACCT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
20 2 0.04
21 5 0.11
22 10 0.22
23 8 0.18
24 13 0.29
25 7 0.16
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.80
Consensus pattern (22 bp):
TTTTTTTCTCTTCTTTTTCTTT
Found at i:19404 original size:11 final size:11
Alignment explanation
Indices: 19329--19403 Score: 55
Period size: 11 Copynumber: 6.6 Consensus size: 11
19319 GCTAACCTTA
19329 TTTTTTTCTACT
1 TTTTTTTCT-CT
* *
19341 TCTTTGTTTTTAT
1 T-TTT-TTTCTCT
*
19354 TTTTTCTCTCT
1 TTTTTTTCTCT
*
19365 TTTTCTTTTTC-
1 TTTT-TTTCTCT
*
19376 CTTTTTTCTCT
1 TTTTTTTCTCT
19387 TTTTTTTCT-T
1 TTTTTTTCTCT
19397 TTTTTTT
1 TTTTTTT
19404 TAGGTGAACC
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
10 13 0.27
11 19 0.39
12 8 0.16
13 5 0.10
14 4 0.08
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.80
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:19757 original size:10 final size:10
Alignment explanation
Indices: 19716--19740 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19706 CAAAATGAAC
19716 AAATTAAAAT
1 AAATTAAAAT
19726 AAATTAAAAT
1 AAATTAAAAT
19736 AAATT
1 AAATT
19741 CTAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:19758 original size:24 final size:24
Alignment explanation
Indices: 19731--19784 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
19721 AAAATAAATT
*
19731 AAAATAAATTCTAAAAATTAT-AAA
1 AAAATAAAAT-TAAAAATTATCAAA
* *
19755 AAAATAAAATTAATATTTATCAAA
1 AAAATAAAATTAAAAATTATCAAA
19779 AAAATA
1 AAAATA
19785 TTTTAGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAATAAAATTAAAAATTATCAAA
Found at i:20145 original size:166 final size:166
Alignment explanation
Indices: 19982--20296 Score: 376
Period size: 167 Copynumber: 1.9 Consensus size: 166
19972 TAAACTGAAA
* * ** * * *
19982 AAAAAAATCC-CTCCAAAAAAATTTACGTAGAAGAAAACTTGA-TTTTTTTTGAAAAAA-A-GAT
1 AAAAAAATCCACTCAAAAAAAATTTACGGAGAAGAAAAC---ACCGTATTTCGAAAAAAGAGGAA
*
20043 TTTCAA-AAAAAATTC-AAAACTCATG-AAATGAATTAATTTTTTAAAACTGAATTAATATG-AA
63 TTTCAAGAAAAAA-TCAAAAACTCATGAAAATGAATGAATTTTTTAAAACTGAATTAATATGAAA
* *
20104 TCAAATGATGATGTTTGATGAATTTTAAAAATTGAAAACTG
127 T-AAATGATAATATTTGATGAATTTTAAAAATTGAAAACTG
* * **
20145 AGAAAAATCCACTTAAAAAAAATTTACGGAGTTGAAAACACCGTATTTCGAAAAAAGAGGAATTT
1 AAAAAAATCCACTCAAAAAAAATTTACGGAGAAGAAAACACCGTATTTCGAAAAAAGAGGAATTT
*
20210 GAAGGAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTTAAAACTGAATTAATATGAAATAA
66 CAA-GAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTTAAAACTGAATTAATATGAAATAA
*
20275 ATGATAATATTTGATTAATTTT
130 ATGATAATATTTGATGAATTTT
20297 GATATTTGAA
Statistics
Matches: 127, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
161 1 0.01
162 11 0.09
163 10 0.08
164 30 0.24
165 2 0.02
166 16 0.13
167 54 0.43
168 3 0.02
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (166 bp):
AAAAAAATCCACTCAAAAAAAATTTACGGAGAAGAAAACACCGTATTTCGAAAAAAGAGGAATTT
CAAGAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTTAAAACTGAATTAATATGAAATAAA
TGATAATATTTGATGAATTTTAAAAATTGAAAACTG
Found at i:20774 original size:19 final size:19
Alignment explanation
Indices: 20750--20817 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
20740 AATTCAACAG
20750 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
20769 TTTGTATTGATAC--AA--
1 TTTGTATCGATACATAAGT
20784 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
20801 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
20818 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:20788 original size:32 final size:32
Alignment explanation
Indices: 20752--20814 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
20742 TTCAACAGTT
* *
20752 TGTATCGATACATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
20784 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
20815 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:20875 original size:13 final size:13
Alignment explanation
Indices: 20857--20882 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20847 CATTTTTCTG
20857 TGTATCGATACAT
1 TGTATCGATACAT
20870 TGTATCGATACAT
1 TGTATCGATACAT
20883 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:20894 original size:33 final size:33
Alignment explanation
Indices: 20837--20899 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
20827 GCCAAGGAAA
***
20837 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
20870 TGTATCGATACATGGATCTTTGTATCGATA
1 TGTATCGATACATGGATCTGTGTATCGATA
20900 TATTTGGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:23281 original size:51 final size:54
Alignment explanation
Indices: 23217--23347 Score: 155
Period size: 50 Copynumber: 2.5 Consensus size: 54
23207 AGTTTCTCAA
* * * * *
23217 TTCTCCACAATCGGGGATATTCCAACTCC-GATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCAAATTTTATTTCCAAAAACACCAAT
*
23268 TT-TTCTATAATC-GGGATACTCCAACTCCAAATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCAAATTTTATTTCC-AAAAACACCAAT
23322 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
23348 CACGTTAATC
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
50 17 0.26
51 17 0.26
53 9 0.14
54 7 0.11
55 16 0.24
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (54 bp):
TTCTTCACAATCGGGGATACTCCAACTCCAAATTTTATTTCCAAAAACACCAAT
Found at i:23361 original size:27 final size:27
Alignment explanation
Indices: 23331--23408 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
23321 TTTCTTCACA
23331 ATCGGGGATACTCCAACCACGTTAATC
1 ATCGGGGATACTCCAACCACGTTAATC
**
23358 ATCGGGGATACTCCAACCTTGTTAATC
1 ATCGGGGATACTCCAACCACGTTAATC
*
23385 ATCGGGGATACTCCAACCCCGTTA
1 ATCGGGGATACTCCAACCACGTTA
23409 TTTCCGAGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCACGTTAATC
Found at i:23544 original size:104 final size:104
Alignment explanation
Indices: 23416--23638 Score: 270
Period size: 104 Copynumber: 2.1 Consensus size: 104
23406 TTATTTCCGA
* *** *
23416 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTC-ATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
* * * *
23480 CCCCGGTTTTA-TTGCTAAAACACTAATTTTTTTTACAATC
66 CCCCGATTTTATTTGCAAAAACACCAA--TTTTTCACAATC
** * *
23520 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
* *
23585 CTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATC
66 CCCCGATTTTATTTGCAAAAACACCAATTTTTCACAATC
*
23624 GAGGATACTCCAACC
1 GGGGATACTCCAACC
23639 TCGTTATTTC
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
104 62 0.61
105 27 0.27
106 12 0.12
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (104 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
CCCCGATTTTATTTGCAAAAACACCAATTTTTCACAATC
Found at i:23595 original size:52 final size:52
Alignment explanation
Indices: 23416--23638 Score: 236
Period size: 53 Copynumber: 4.3 Consensus size: 52
23406 TTATTTCCGA
* * * ***
23416 GGGGATACTCCAACCCCGACTTTA-TTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCATAATC
* * * * * *
23467 GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTTTTACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAA--TTTTTCATAATC
* * *
23520 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTC-ATAATC
* *
23572 GGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCATAATC
*
23624 GAGGATACTCCAACC
1 GGGGATACTCCAACC
23639 TCGTTATTTC
Statistics
Matches: 145, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
51 36 0.25
52 48 0.33
53 58 0.40
54 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCATAATC
Found at i:23657 original size:28 final size:28
Alignment explanation
Indices: 23621--23697 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
23611 ATTTTTCACA
* * * *
23621 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTCACTTC
23649 ATCGGGGATACTCCAACCCCGTCACTTC
1 ATCGGGGATACTCCAACCCCGTCACTTC
***
23677 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
23698 GCTTTTTTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTCACTTC
Found at i:23771 original size:28 final size:29
Alignment explanation
Indices: 23731--23785 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
23721 TCTCATAATT
23731 GGGGATACTCCAACCCCG-TTATTTTTGA
1 GGGGATACTCCAACCCCGATTATTTTTGA
* *
23759 GGGGATACTCCAATCCCGATTTTTTTT
1 GGGGATACTCCAACCCCGATTATTTTT
23786 CTAATCATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGATTATTTTTGA
Found at i:23783 original size:79 final size:78
Alignment explanation
Indices: 23651--23884 Score: 247
Period size: 78 Copynumber: 3.0 Consensus size: 78
23641 GTTATTTCAT
* * ** *
23651 CGGGGATACTCCAACCCCGTCACTTCCGAGGGGATACTCCAACCCCGGCTTTTTTCTCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCC-GTTTTTTTCTCAAAATAT
*
23716 TGATTTCTCATAAT
65 TGATTTCTCATAAC
* * *
23730 TGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAATCCCGATTTTTTT-TC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCG-TTTTTTTCTCAAAAT-A
* *
23793 TCGATTTCTCACAAC
64 TTGATTTCTCATAAC
* * * * * *
23808 CGGAGATACTCCAGCCCCGTTATTTTTAAGGGAATACTCCAACCCCGTTATTATCTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGTTTTTTTCT-CAAAATAT
*
23873 TAAATTTCTCAT
65 T-GATTTCTCAT
23885 CGAGAAATAT
Statistics
Matches: 126, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
77 8 0.06
78 58 0.46
79 49 0.39
80 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGTTTTTTTCTCAAAATATT
GATTTCTCATAAC
Found at i:26751 original size:52 final size:52
Alignment explanation
Indices: 26682--26813 Score: 178
Period size: 52 Copynumber: 2.5 Consensus size: 52
26672 CAAAATATTG
*
26682 ATTTTTCATAATCGGGGATACTCCAACCCCTG-TTTTATTTTC-AAAACACCA
1 ATTTTCCATAATCGGGGATACTCCAACCCC-GATTTTATTTTCAAAAACACCA
* *
26733 ATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCA
1 ATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCA
* * *
26786 ATTTTTCACAATCGAGGATACTCCAACC
1 ATTTTCCATAATCGGGGATACTCCAACC
26814 TCGTTATTTC
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
51 7 0.10
52 48 0.69
53 15 0.21
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (52 bp):
ATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCA
Found at i:26832 original size:28 final size:28
Alignment explanation
Indices: 26796--26872 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
26786 ATTTTTCACA
* *
26796 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
*
26824 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
***
26852 CGAGGGGATACTCCAACCTCG
1 ATCGGGGATACTCCAACCTCG
26873 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACTTC
Found at i:27005 original size:77 final size:77
Alignment explanation
Indices: 26826--27026 Score: 217
Period size: 77 Copynumber: 2.6 Consensus size: 77
26816 GTTATTTCAT
* * *
26826 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCTCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC-C-GATTTATTCCCAAAATAT
* * *
26891 TGATTTCTCATAAT
64 CGATTTCTCACAAC
** ** *
26905 TAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTT-TTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCGATTTATTCCCAAAAT-AT
26968 CGATTTCTCACAAC
64 CGATTTCTCACAAC
* * * *
26982 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
27027 CGTTATTATC
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
76 6 0.06
77 52 0.50
78 4 0.04
79 39 0.38
80 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (77 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCGATTTATTCCCAAAATATCG
ATTTCTCACAAC
Found at i:28625 original size:19 final size:21
Alignment explanation
Indices: 28598--28643 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
28588 AATGATTAAT
* *
28598 ATATTAAAA-TTTATATA-AA
1 ATATAAAAATTTTAAATACAA
28617 ATATAAAAATTTTAAATACAA
1 ATATAAAAATTTTAAATACAA
28638 ATATAA
1 ATATAA
28644 CATGCCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 8 0.35
20 7 0.30
21 8 0.35
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
ATATAAAAATTTTAAATACAA
Found at i:28801 original size:10 final size:10
Alignment explanation
Indices: 28786--28817 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
28776 AAAATCAATT
28786 TAAAGTAAAA
1 TAAAGTAAAA
28796 TAAAGTAAAA
1 TAAAGTAAAA
28806 TAAAGTAAAA
1 TAAAGTAAAA
28816 TA
1 TA
28818 TAAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (10 bp):
TAAAGTAAAA
Found at i:30083 original size:17 final size:18
Alignment explanation
Indices: 30063--30106 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
30053 TTATTTTATT
* *
30063 TTTTTATTTTTTAAA-TA
1 TTTTTAATTTTAAAATTA
30080 TTTTTAATTTTAAAATTA
1 TTTTTAATTTTAAAATTA
30098 TTTTTAATT
1 TTTTTAATT
30107 ACTATCAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTAATTTTAAAATTA
Found at i:30089 original size:18 final size:19
Alignment explanation
Indices: 30062--30106 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
30052 TTTATTTTAT
* *
30062 TTTTTTATTTTTTAAA-TA
1 TTTTTAATTTTTAAAATTA
30080 TTTTTAA-TTTTAAAATTA
1 TTTTTAATTTTTAAAATTA
30098 TTTTTAATT
1 TTTTTAATT
30107 ACTATCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 15 0.65
19 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTAATTTTTAAAATTA
Found at i:47672 original size:28 final size:28
Alignment explanation
Indices: 47640--47697 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
47630 TCAAAATGGA
*
47640 CATAGTTTATATTTCTATATTAGAAGTC
1 CATAGTTTATATTTCCATATTAGAAGTC
*
47668 CATAGTTTATATTTCCATATTAGATGTC
1 CATAGTTTATATTTCCATATTAGAAGTC
47696 CA
1 CA
47698 AAATGCGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (28 bp):
CATAGTTTATATTTCCATATTAGAAGTC
Found at i:52735 original size:12 final size:12
Alignment explanation
Indices: 52687--52745 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 12
52677 TTTGAGATTC
*
52687 AATATTATTAAA
1 AATATTATAAAA
* **
52699 AATAATAATATTA
1 AAT-ATTATAAAA
52712 AATATTATAAAA
1 AATATTATAAAA
*
52724 AATAAT-TAAAA
1 AATATTATAAAA
52735 AATA-TATAAAA
1 AATATTATAAAA
52746 CAAGTTACAA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
10 1 0.03
11 14 0.38
12 14 0.38
13 8 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATATTATAAAA
Found at i:52741 original size:25 final size:25
Alignment explanation
Indices: 52687--52745 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
52677 TTTGAGATTC
* *
52687 AATATTATTAAAAATAATAATATTA
1 AATATTATAAAAAATAATAATATAA
*
52712 AATATTATAAAAAATAAT--TAAAA
1 AATATTATAAAAAATAATAATATAA
52735 AATA-TATAAAA
1 AATATTATAAAA
52746 CAAGTTACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.23
23 7 0.23
25 17 0.55
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
AATATTATAAAAAATAATAATATAA
Found at i:52800 original size:32 final size:31
Alignment explanation
Indices: 52764--52837 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 31
52754 AACATAAAAA
52764 ATAATATTA-TATGAATATATTTTAAATTTTAT
1 ATAATATTATTATGAATATA--TTAAATTTTAT
* *
52796 ATAATATAAATTATTAATATATTAAATTTTAT
1 ATAATAT-TATTATGAATATATTAAATTTTAT
52828 ATAATTATTA
1 ATAA-TATTA
52838 AATCTAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 23 0.64
33 4 0.11
34 9 0.25
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (31 bp):
ATAATATTATTATGAATATATTAAATTTTAT
Found at i:52805 original size:16 final size:17
Alignment explanation
Indices: 52785--52840 Score: 73
Period size: 16 Copynumber: 3.4 Consensus size: 17
52775 TGAATATATT
52785 TTAAATTTTATATAATA
1 TTAAATTTTATATAATA
52802 -TAAATTATTA-AT-ATA
1 TTAAATT-TTATATAATA
52817 TTAAATTTTATATAATTA
1 TTAAATTTTATATAA-TA
52835 TTAAAT
1 TTAAAT
52841 CTAAATATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.18
16 16 0.47
17 4 0.12
18 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATTTTATATAATA
Found at i:52827 original size:18 final size:18
Alignment explanation
Indices: 52785--52840 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
52775 TGAATATATT
52785 TTAAATTTTATATAA-TA
1 TTAAATTTTATATAATTA
52802 -TAAA--TTAT-TAATATA
1 TTAAATTTTATATAAT-TA
52817 TTAAATTTTATATAATTA
1 TTAAATTTTATATAATTA
52835 TTAAAT
1 TTAAAT
52841 CTAAATATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.09
14 4 0.12
15 2 0.06
16 8 0.24
18 12 0.36
19 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTAAATTTTATATAATTA
Found at i:52853 original size:34 final size:32
Alignment explanation
Indices: 52780--52853 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
52770 TTATATGAAT
52780 ATATT-TTAAATTTTATATAATATAAATTATTA
1 ATATTATTAAATTTTATATAATATAAATTA-TA
52812 ATA-TATTAAATTTTATATAATTATTAAATCTA-A
1 ATATTATTAAATTTTATATAA-TA-TAAAT-TATA
52845 ATATTATTA
1 ATATTATTA
52854 TTTAAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
31 1 0.03
32 18 0.49
33 6 0.16
34 10 0.27
35 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (32 bp):
ATATTATTAAATTTTATATAATATAAATTATA
Found at i:52854 original size:27 final size:27
Alignment explanation
Indices: 52799--52875 Score: 65
Period size: 26 Copynumber: 2.9 Consensus size: 27
52789 ATTTTATATA
*
52799 ATATAAATTATTAATATATTAAATTTT
1 ATATAAATTATTAATATATAAAATTTT
*
52826 ATAT-AATTATTAA-ATCTAAATATTATT
1 ATATAAATTATTAATATATAAA-ATT-TT
*
52853 ATTTAAA--A-TAATACTATAAAATT
1 ATATAAATTATTAATA-TATAAAATT
52876 ATTTTTATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
25 8 0.20
26 17 0.41
27 14 0.34
28 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (27 bp):
ATATAAATTATTAATATATAAAATTTT
Found at i:52887 original size:25 final size:25
Alignment explanation
Indices: 52842--52997 Score: 77
Period size: 25 Copynumber: 6.0 Consensus size: 25
52832 TTATTAAATC
*
52842 TAAATATTATTATTTAAAATAATACTA
1 TAAA-ATTATT-TTTATAATAATACTA
*
52869 TAAAATTATTTTTATAATAA-AATA
1 TAAAATTATTTTTATAATAATACTA
** ** * * *
52893 TATAAA-TACAATACATAAATTATTAAATT
1 TA-AAATTA-TTTTTAT-AA-TAAT-ACTA
*
52922 TAAATATTATTATTTAAAATAATACTA
1 TAAA-ATTATT-TTTATAATAATACTA
*
52949 TAAAATTATTTTTATAATAA-A-AA
1 TAAAATTATTTTTATAATAATACTA
*
52972 TAAAATTTTATTTTATAAATAATACT
1 TAAAATTAT-TTTTAT-AATAATACT
52998 TTCAGCTAAT
Statistics
Matches: 96, Mismatches: 20, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
23 9 0.09
24 14 0.15
25 29 0.30
26 15 0.16
27 12 0.12
28 5 0.05
29 8 0.08
30 4 0.04
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (25 bp):
TAAAATTATTTTTATAATAATACTA
Found at i:52920 original size:80 final size:78
Alignment explanation
Indices: 52830--52977 Score: 269
Period size: 80 Copynumber: 1.9 Consensus size: 78
52820 AATTTTATAT
52830 AATTATTAAATCTAAATATTATTATTTAAAATAATACTATAAAATTATTTTTATAATAAAATATA
1 AATTATTAAATCTAAATATTATTATTTAAAATAATACTATAAAATTATTTTTATAATAAAA-ATA
52895 TAAATACAATACATA
65 -AAATACAATACATA
*
52910 AATTATTAAATTTAAATATTATTATTTAAAATAATACTATAAAATTATTTTTATAATAAAAATAA
1 AATTATTAAATCTAAATATTATTATTTAAAATAATACTATAAAATTATTTTTATAATAAAAATAA
52975 AAT
66 AAT
52978 TTTATTTTAT
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
78 4 0.06
79 3 0.04
80 60 0.90
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (78 bp):
AATTATTAAATCTAAATATTATTATTTAAAATAATACTATAAAATTATTTTTATAATAAAAATAA
AATACAATACATA
Found at i:53691 original size:21 final size:24
Alignment explanation
Indices: 53662--53707 Score: 71
Period size: 21 Copynumber: 2.0 Consensus size: 24
53652 TAAATAGATT
53662 TAATGTTTAATTAT-T-TAAATAA
1 TAATGTTTAATTATCTATAAATAA
53684 TAAT-TTTAATTATCTATAAATAA
1 TAATGTTTAATTATCTATAAATAA
53707 T
1 T
53708 CATTAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 5 0.23
23 8 0.36
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TAATGTTTAATTATCTATAAATAA
Found at i:55092 original size:23 final size:23
Alignment explanation
Indices: 55047--55092 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
55037 CATTTAATAT
*
55047 TTTTTAAATTTTTTAAAATTTAA
1 TTTTTAAATTTTTGAAAATTTAA
*
55070 TTTTTATA-TTTTGAAAATATTAA
1 TTTTTAAATTTTTGAAAAT-TTAA
55093 AATATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTTAAATTTTTGAAAATTTAA
Found at i:55151 original size:19 final size:19
Alignment explanation
Indices: 55115--55152 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
55105 ATAATTAAAT
*
55115 TTAAATAAAAATTTTTTTA
1 TTAAATAAAAATTATTTTA
55134 TTAAATAAATAA-TATTTTA
1 TTAAATAAA-AATTATTTTA
55153 AATAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAAATAAAAATTATTTTA
Found at i:55232 original size:25 final size:25
Alignment explanation
Indices: 55204--55252 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
55194 GAGCCAACCT
55204 ATATGATATT-TTCAATAAATTTATC
1 ATAT-ATATTATTCAATAAATTTATC
*
55229 ATATATATTATTTAATAAATTTAT
1 ATATATATTATTCAATAAATTTAT
55253 TTAAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (25 bp):
ATATATATTATTCAATAAATTTATC
Found at i:55317 original size:20 final size:19
Alignment explanation
Indices: 55292--55380 Score: 71
Period size: 20 Copynumber: 4.6 Consensus size: 19
55282 AAGTAAGATA
55292 AATTTAAAGTTATTTTTATT
1 AATTTAAA-TTATTTTTATT
*
55312 AATTTAAATTA---AT-TT
1 AATTTAAATTATTTTTATT
55327 AATTTAAATTATTATTTATT
1 AATTTAAATTATT-TTTATT
*
55347 AATTAAAATAATATTTTTATTT
1 AATTTAAAT--TATTTTTA-TT
55369 AAATTT-AATTAT
1 -AATTTAAATTAT
55381 AAAAATATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
15 13 0.23
16 1 0.02
19 4 0.07
20 21 0.38
21 4 0.07
22 9 0.16
23 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (19 bp):
AATTTAAATTATTTTTATT
Found at i:55347 original size:25 final size:25
Alignment explanation
Indices: 55319--55383 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
55309 ATTAATTTAA
55319 ATTAATTTAATTTAAATTATTATTT
1 ATTAATTTAATTTAAATTATTATTT
** *
55344 ATTAA-TTAAAATAATATTTTTATTT
1 ATTAATTTAATTTAA-ATTATTATTT
55369 A--AATTTAATTATAAA
1 ATTAATTTAATT-TAAA
55384 AATATATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
23 2 0.06
24 12 0.38
25 18 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTAATTTAATTTAAATTATTATTT
Found at i:63879 original size:15 final size:16
Alignment explanation
Indices: 63861--63916 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 16
63851 TAATTATAAC
63861 ATAAATTTATAT-AAT
1 ATAAATTTATATAAAT
*
63876 ATAAATTAATAATAAATT
1 ATAAATTTAT-ATAAA-T
63894 AATAATATTTATATAAAT
1 -ATAA-ATTTATATAAAT
63912 ATAAA
1 ATAAA
63917 ATATTTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 9 0.26
16 3 0.09
17 6 0.18
18 2 0.06
19 9 0.26
20 5 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAAATTTATATAAAT
Found at i:63892 original size:11 final size:11
Alignment explanation
Indices: 63872--63900 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
63862 TAAATTTATA
63872 TAAT-ATAAAT
1 TAATAATAAAT
63882 TAATAATAAAT
1 TAATAATAAAT
63893 TAATAATA
1 TAATAATA
63901 TTTATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAATAAAT
Found at i:63974 original size:20 final size:20
Alignment explanation
Indices: 63949--63991 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
63939 TATTATAAAA
*
63949 TATATAATTATATTATATTTAT
1 TATAT-ATTA-ATAATATTTAT
63971 TATATATTAATAATATTTAT
1 TATATATTAATAATATTTAT
63991 T
1 T
63992 TTTGATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 4 0.20
22 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATATATTAATAATATTTAT
Found at i:66308 original size:11 final size:11
Alignment explanation
Indices: 66292--66323 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
66282 TTTTTATTTT
66292 TTAAAATTAAA
1 TTAAAATTAAA
66303 TTAAAATTAAA
1 TTAAAATTAAA
*
66314 TTAAATTTAA
1 TTAAAATTAA
66324 TATATTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TTAAAATTAAA
Found at i:66825 original size:12 final size:12
Alignment explanation
Indices: 66779--66825 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
66769 TATTGTGTTA
*
66779 TCATTTATAATG
1 TCATTTTTAATG
66791 TCATATTTTAAT-
1 TCAT-TTTTAATG
66803 T-ATTTTT-ATG
1 TCATTTTTAATG
66813 TCATTTTTAATG
1 TCATTTTTAATG
66825 T
1 T
66826 TTTTATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
9 2 0.07
10 5 0.17
11 8 0.27
12 9 0.30
13 6 0.20
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (12 bp):
TCATTTTTAATG
Found at i:66828 original size:20 final size:22
Alignment explanation
Indices: 66788--66831 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
66778 ATCATTTATA
66788 ATGTCATATTTTAATTATTTTT
1 ATGTCATATTTTAATTATTTTT
*
66810 ATGTCAT-TTTTAA-TGTTTTT
1 ATGTCATATTTTAATTATTTTT
66830 AT
1 AT
66832 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (22 bp):
ATGTCATATTTTAATTATTTTT
Found at i:68556 original size:18 final size:17
Alignment explanation
Indices: 68535--68575 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
68525 AAAAATTTAT
*
68535 ATAATATTAAAAAGTATA
1 ATAATATTAAAAA-TAAA
68553 ATAA-A-TAAAAATAAA
1 ATAATATTAAAAATAAA
68568 ATAATATT
1 ATAATATT
68576 TATTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 7 0.35
16 7 0.35
17 2 0.10
18 4 0.20
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
ATAATATTAAAAATAAA
Found at i:68631 original size:31 final size:32
Alignment explanation
Indices: 68556--68633 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 32
68546 AAGTATAATA
* *
68556 AATAAAAATA-AAATAATATTTATTTAAAATT
1 AATAAAAATATAATTAATATTTAATTAAAATT
* *
68587 -A-AAAATTATTAATTAATA-TTAATTAAATTT
1 AATAAAAATA-TAATTAATATTTAATTAAAATT
68617 AATAAAAATATAATTAA
1 AATAAAAATATAATTAA
68634 AATAAGATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
29 6 0.16
30 11 0.29
31 15 0.39
32 6 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
AATAAAAATATAATTAATATTTAATTAAAATT
Found at i:69414 original size:25 final size:25
Alignment explanation
Indices: 69367--69433 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
69357 AATAAATAAA
*
69367 AAATCAAACTGATAATTTT-TATATT
1 AAAT-AAACTAATAATTTTATATATT
69392 AAATAAACTAATAATTTTATATATT
1 AAATAAACTAATAATTTTATATATT
69417 -AATAAA--AA-AATTTTATA
1 AAATAAACTAATAATTTTATA
69434 AATAAAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 9 0.22
22 2 0.05
24 19 0.47
25 10 0.25
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (25 bp):
AAATAAACTAATAATTTTATATATT
Found at i:69585 original size:20 final size:17
Alignment explanation
Indices: 69547--69585 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 17
69537 TATATTATCA
69547 TATTATTATTAAATAAT
1 TATTATTATTAAATAAT
69564 TATTATATATTATAAGTAAT
1 TATTAT-TATTA-AA-TAAT
69584 TA
1 TA
69586 ATAAAGTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 5 0.26
19 2 0.11
20 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TATTATTATTAAATAAT
Found at i:73146 original size:21 final size:21
Alignment explanation
Indices: 73122--73189 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
73112 GAGTAGGGCC
73122 TGATATTGGTCTTCATGTCAT
1 TGATATTGGTCTTCATGTCAT
* * **
73143 TGATA-T--TCATCATTTTTT
1 TGATATTGGTCTTCATGTCAT
73161 CTGATATTGGTCTTCATGTCAT
1 -TGATATTGGTCTTCATGTCAT
73183 TGATATT
1 TGATATT
73190 CATCTTTTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 8 0.23
19 5 0.14
20 2 0.06
21 12 0.34
22 8 0.23
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (21 bp):
TGATATTGGTCTTCATGTCAT
Found at i:73165 original size:40 final size:39
Alignment explanation
Indices: 73121--73203 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 39
73111 AGAGTAGGGC
73121 CTGATATTGGTCTTCATGTCATTGATATTCATCATTTTTT
1 CTGATATTGGTCTTCATGTCATTGATATTCATC-TTTTTT
73161 CTGATATTGGTCTTCATGTCATTGATATTCATCTTTTTT
1 CTGATATTGGTCTTCATGTCATTGATATTCATCTTTTTT
73200 CTGA
1 CTGA
73204 ATTCTTTTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 10 0.23
40 33 0.77
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (39 bp):
CTGATATTGGTCTTCATGTCATTGATATTCATCTTTTTT
Found at i:74916 original size:20 final size:21
Alignment explanation
Indices: 74890--74946 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
74880 ATATTTATAC
74890 ATAAATATAAAATATAATTTT
1 ATAAATATAAAATATAATTTT
*
74911 -TAAATATATAAA-AAAATTTT
1 ATAAATATA-AAATATAATTTT
* *
74931 AAAAATATTAAATATA
1 ATAAATATAAAATATA
74947 TTCACATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAAATATAAAATATAATTTT
Found at i:75442 original size:12 final size:13
Alignment explanation
Indices: 75427--75480 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 13
75417 ATTTTAATTT
75427 AATTTT-TTTAAA
1 AATTTTATTTAAA
75439 AATTTTATTT-AA
1 AATTTTATTTAAA
* *
75451 AA-TTAAATTAAA
1 AATTTTATTTAAA
75463 TTAATTTTATTTAAA
1 --AATTTTATTTAAA
75478 AAT
1 AAT
75481 GTAAATTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
11 5 0.15
12 12 0.36
13 6 0.18
14 2 0.06
15 8 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTTATTTAAA
Found at i:75491 original size:26 final size:25
Alignment explanation
Indices: 75439--75492 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
75429 TTTTTTTAAA
75439 AATTTTATTTAAAATTAAATTAAATT
1 AATTTTATTTAAAATTAAATT-AATT
75465 AATTTTATTTAAAAATGTAAATT-ATT
1 AATTTTATTT-AAAAT-TAAATTAATT
75491 AA
1 AA
75493 CTATAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 15 0.58
27 5 0.19
28 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
AATTTTATTTAAAATTAAATTAATT
Found at i:78715 original size:2 final size:2
Alignment explanation
Indices: 78708--78748 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
78698 GCTTGGTAAG
78708 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
78749 TTCTTAAGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:80757 original size:14 final size:14
Alignment explanation
Indices: 80712--80759 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 14
80702 TATTTATTCG
80712 ATTTATA-ATTAA-
1 ATTTATATATTAAT
*
80724 ATTTAT-T-TAAAT
1 ATTTATATATTAAT
80736 ATTT-TATATTAAT
1 ATTTATATATTAAT
80749 ATTTATATATT
1 ATTTATATATT
80760 TTTATAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 4 0.14
12 11 0.38
13 8 0.28
14 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTATATATTAAT
Found at i:82503 original size:28 final size:26
Alignment explanation
Indices: 82453--82529 Score: 66
Period size: 28 Copynumber: 2.7 Consensus size: 26
82443 AAAATGAATC
*
82453 AATATTGAAATAT-ATATAGATTTATATA
1 AATATT-AAATATAAAATAGATTT-T-TA
*
82481 AATATTAAATATAAAATATATTTTTA
1 AATATTAAATATAAAATAGATTTTTA
82507 ATATTATTTAAATAATAAAATAG
1 A-A-TA-TTAAAT-ATAAAATAG
82530 GCAGTTAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
26 3 0.07
27 8 0.20
28 16 0.39
29 6 0.15
30 8 0.20
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (26 bp):
AATATTAAATATAAAATAGATTTTTA
Found at i:84472 original size:18 final size:18
Alignment explanation
Indices: 84449--84570 Score: 62
Period size: 17 Copynumber: 6.7 Consensus size: 18
84439 TAAAATTTTA
84449 TATTATATTTATATATTT
1 TATTATATTTATATATTT
84467 TATTATA-TTATA-ATTAT
1 TATTATATTTATATATT-T
* **
84484 AAAAATATTT-TATA-TT
1 TATTATATTTATATATTT
84500 TATATATATTATAATATATTAAT
1 TAT-TATATT-T-ATATATT--T
* *
84523 AATTTATATTATATAAATTT
1 TA-TTATATT-TATATATTT
84543 TA-TAT-TTTGAT-TATTT
1 TATTATATTT-ATATATTT
84559 T-TTATATTTATA
1 TATTATATTTATA
84571 AAATCATATA
Statistics
Matches: 79, Mismatches: 10, Indels: 31
0.66 0.08 0.26
Matches are distributed among these distances:
16 16 0.20
17 25 0.32
18 14 0.18
20 6 0.08
21 1 0.01
22 6 0.08
23 10 0.13
24 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (18 bp):
TATTATATTTATATATTT
Found at i:84491 original size:27 final size:28
Alignment explanation
Indices: 84461--84513 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
84451 TTATATTTAT
84461 ATATTTTAT-TATAT-TATAATTATAAAA
1 ATATTTTATATATATATAT-ATTATAAAA
*
84488 ATATTTTATATTTATATATATTATAA
1 ATATTTTATATATATATATATTATAA
84514 TATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 9 0.39
28 11 0.48
29 3 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
ATATTTTATATATATATATATTATAAAA
Found at i:89837 original size:18 final size:19
Alignment explanation
Indices: 89798--89838 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
89788 CCAATGCCCG
*
89798 TATTTTTTTTATGTTTTAA
1 TATTTTTTTTATGATTTAA
89817 TATTTTTTTT-TGCATTT-A
1 TATTTTTTTTATG-ATTTAA
89835 TATT
1 TATT
89839 ATATGATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (19 bp):
TATTTTTTTTATGATTTAA
Found at i:90581 original size:16 final size:16
Alignment explanation
Indices: 90560--90590 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90550 TTCAGCTTAT
90560 TTTCGAGTTTAGATTG
1 TTTCGAGTTTAGATTG
*
90576 TTTCGATTTTAGATT
1 TTTCGAGTTTAGATT
90591 ATTTTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (16 bp):
TTTCGAGTTTAGATTG
Found at i:90813 original size:16 final size:16
Alignment explanation
Indices: 90794--90846 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
90784 AATTTGGATC
*
90794 ATTTTAGATTTGAATT
1 ATTTTAGATTTAAATT
* * *
90810 ATTTT-GAGTTCAAGTC
1 ATTTTAGA-TTTAAATT
90826 ATTTTAGATTTAAATT
1 ATTTTAGATTTAAATT
90842 ATTTT
1 ATTTT
90847 TGAGTTTAGG
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
15 2 0.07
16 24 0.86
17 2 0.07
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.55
Consensus pattern (16 bp):
ATTTTAGATTTAAATT
Found at i:92498 original size:23 final size:24
Alignment explanation
Indices: 92474--92559 Score: 67
Period size: 24 Copynumber: 3.8 Consensus size: 24
92464 AATTTAATTT
* *
92474 AATTTAAATTTTATTTATTTTTTA
1 AATTAAAATTTAATTTATTTTTTA
** **
92498 AATTAAAATTTAATTTATGATAAA
1 AATTAAAATTTAATTTATTTTTTA
*
92522 AATT-AAA-TT-A-TTAATTTTTA
1 AATTAAAATTTAATTTATTTTTTA
92542 AATT-AAATTT-ATTTATTT
1 AATTAAAATTTAATTTATTT
92560 AATAAAAATT
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
20 12 0.25
21 4 0.08
22 7 0.15
23 3 0.06
24 22 0.46
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (24 bp):
AATTAAAATTTAATTTATTTTTTA
Found at i:92501 original size:24 final size:23
Alignment explanation
Indices: 92474--92559 Score: 72
Period size: 23 Copynumber: 3.8 Consensus size: 23
92464 AATTTAATTT
92474 AATTTAAATTTTATTTATTTTTTA
1 AATTTAAA-TTTATTTATTTTTTA
* ** *
92498 AATTAAAATTTAATTTA-TGATAA
1 AATTTAAATTT-ATTTATTTTTTA
* *
92521 AAATTAAA-TTA-TTAATTTTTA
1 AATTTAAATTTATTTATTTTTTA
92542 AA-TTAAATTTATTTATTT
1 AATTTAAATTTATTTATTT
92560 AATAAAAATT
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
20 8 0.17
21 9 0.19
22 7 0.15
23 12 0.25
24 12 0.25
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (23 bp):
AATTTAAATTTATTTATTTTTTA
Found at i:92565 original size:44 final size:44
Alignment explanation
Indices: 92492--92578 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
92482 TTTTATTTAT
*
92492 TTTTTAAATTAAAATTTAATTTATGATAAAAATTAAATTATTAA
1 TTTTTAAATTAAAATTTAATTTATAATAAAAATTAAATTATTAA
**
92536 TTTTTAAATT-AAATTT-ATTTATTTAATAAAAATTTGATTATTA
1 TTTTTAAATTAAAATTTAATTTA--TAATAAAAATTAAATTATTA
92579 TTAAGCTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 5 0.13
43 6 0.16
44 27 0.71
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (44 bp):
TTTTTAAATTAAAATTTAATTTATAATAAAAATTAAATTATTAA
Found at i:92600 original size:20 final size:20
Alignment explanation
Indices: 92532--92615 Score: 66
Period size: 19 Copynumber: 4.2 Consensus size: 20
92522 AATTAAATTA
*
92532 TTAATT-TTTAA-ATTAAAT
1 TTAATTATTTAAGTTTAAAT
* **
92550 TTATTTATTTAA-TAAAAAT
1 TTAATTATTTAAGTTTAAAT
*
92569 TTGATTATTATTAAGCTTTAAAT
1 TTAATTA-T-TTAAG-TTTAAAT
*
92592 TTAATTATTTATGTTTAAAT
1 TTAATTATTTAAGTTTAAAT
92612 TTAA
1 TTAA
92616 ACTTAAATTT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
18 5 0.10
19 14 0.27
20 12 0.24
21 8 0.16
22 1 0.02
23 11 0.22
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (20 bp):
TTAATTATTTAAGTTTAAAT
Found at i:92634 original size:5 final size:6
Alignment explanation
Indices: 92585--92636 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
92575 ATTATTAAGC
** *
92585 TTTAAA TTTAATTA TTTATG TTTAAA TTTAAA CTTAAA TTTAAA -TTAAA
1 TTTAAA TTTAA--A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
92634 TTT
1 TTT
92637 TATAATACTA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 5 0.14
6 27 0.73
8 5 0.14
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:93437 original size:2 final size:2
Alignment explanation
Indices: 93430--93472 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
93420 GGGTTATAAT
*
93430 TA TA TA TA CA TA 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 TA TA TA TA TA TA
93472 T
1 T
93473 TTTCATGTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:93995 original size:51 final size:51
Alignment explanation
Indices: 93919--94021 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
93909 CAACTGTTTG
93919 AATACGGGTATGTTCAATCTTTTCTAAGTTTATTTTTATCGAATCTTTCAT
1 AATACGGGTATGTTCAATCTTTTCTAAGTTTATTTTTATCGAATCTTTCAT
93970 AATACGGGTATGTTCAATCTTTTCTAAGTTTATTTTTATCGAATCTTTCAT
1 AATACGGGTATGTTCAATCTTTTCTAAGTTTATTTTTATCGAATCTTTCAT
94021 A
1 A
94022 CTCATGTTCG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.49
Consensus pattern (51 bp):
AATACGGGTATGTTCAATCTTTTCTAAGTTTATTTTTATCGAATCTTTCAT
Found at i:94014 original size:26 final size:26
Alignment explanation
Indices: 93934--94017 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
93924 GGGTATGTTC
93934 AATCTTTTCTAAGTTTATTTTTATCG
1 AATCTTTTCTAAGTTTATTTTTATCG
** *
93960 AATC-TTTCATAATACGGGTA--TGT-TC-
1 AATCTTTTC-T-A-A-GTTTATTTTTATCG
93985 AATCTTTTCTAAGTTTATTTTTATCG
1 AATCTTTTCTAAGTTTATTTTTATCG
94011 AATCTTT
1 AATCTTT
94018 CATACTCATG
Statistics
Matches: 43, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
22 3 0.07
23 1 0.02
24 3 0.07
25 11 0.26
26 18 0.42
27 3 0.07
28 1 0.02
29 3 0.07
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.52
Consensus pattern (26 bp):
AATCTTTTCTAAGTTTATTTTTATCG
Found at i:95424 original size:12 final size:12
Alignment explanation
Indices: 95405--95433 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
95395 TATATTTATA
95405 TATA-TGATATT
1 TATACTGATATT
95416 TATACTGATATT
1 TATACTGATATT
95428 TATACT
1 TATACT
95434 CAAATCCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (12 bp):
TATACTGATATT
Found at i:95748 original size:16 final size:16
Alignment explanation
Indices: 95710--95760 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
95700 TGTCCGTATT
**
95710 ATATATTTTTTTAATT
1 ATATATTTTTTTAAAA
*
95726 TTA-ATTTTTTTAAAA
1 ATATATTTTTTTAAAA
95741 ATATATTTTTTT-AAA
1 ATATATTTTTTTAAAA
95756 ATATA
1 ATATA
95761 ATCTTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 20 0.67
16 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATATTTTTTTAAAA
Found at i:95749 original size:15 final size:15
Alignment explanation
Indices: 95731--95772 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
95721 TAATTTTAAT
95731 TTTTTTAAAAATATA
1 TTTTTTAAAAATATA
*
95746 TTTTTTTAAAATATA
1 TTTTTTAAAAATATA
* *
95761 ATCTTTAAAAAT
1 TTTTTTAAAAAT
95773 TTAATAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTTTAAAAATATA
Found at i:95777 original size:15 final size:15
Alignment explanation
Indices: 95734--95777 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
95724 TTTTAATTTT
* *
95734 TTTAAAAATATATTT
1 TTTAAAAATATAATC
*
95749 TTTTAAAATATAATC
1 TTTAAAAATATAATC
*
95764 TTTAAAAATTTAAT
1 TTTAAAAATATAAT
95778 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAAAAATATAATC
Found at i:96693 original size:6 final size:6
Alignment explanation
Indices: 96684--96721 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
96674 TTAAATTTTT
*
96684 TTTAAA TTTAAG TTTAAA TTTAAA TTT-AA TTT-AA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
96722 TATAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:96716 original size:11 final size:11
Alignment explanation
Indices: 96672--96721 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
96662 TCGAATTGTG
*
96672 ATTTAAATTTT
1 ATTTAAATTTA
*
96683 TTTTAAATTTA
1 ATTTAAATTTA
96694 AGTTTAAATTTAA
1 A-TTTAAATTT-A
96707 ATTT-AATTTA
1 ATTTAAATTTA
96717 ATTTA
1 ATTTA
96722 TATAATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 5 0.15
11 14 0.42
12 12 0.36
13 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:97224 original size:23 final size:21
Alignment explanation
Indices: 97182--97234 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
97172 TAATTAAATC
97182 TATTTAAATATTTTATATTAA
1 TATTTAAATATTTTATATTAA
*
97203 TATTTATATATATTTATAATTAA
1 TATTTAAATAT-TTTAT-ATTAA
97226 -ATTTAAATA
1 TATTTAAATA
97235 AATTATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.36
22 13 0.46
23 5 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTTAAATATTTTATATTAA
Found at i:97756 original size:2 final size:2
Alignment explanation
Indices: 97749--97775 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
97739 TTGGAATTTA
97749 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
97776 AATTACAGAA
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:99263 original size:173 final size:176
Alignment explanation
Indices: 99008--99349 Score: 394
Period size: 178 Copynumber: 1.9 Consensus size: 176
98998 AAATTAAAGG
* **
99008 TCATGCATTTCATTTTGTTTATTTTATAATATATTTAATCAAGATTTTAATCATTAATTATTGAC
1 TCATGCATATCATTTCATTTATTTTATAATATATTTAATCAAGATTTTAATCATTAATTATTGAC
* * * * *
99073 GTGTGTTCCTAAGATGAA-T-C-AATA-TTGAAATATATATGAATTTA-AATAAATATTAAATAT
66 ATGTGTTACTAAGATGAATTACTAAAATTTGAAAGATATA-G-ATTTATAA-AAACATTAAATAT
*
99133 AAAAATAAAAATTTTATTATTATTTAAATAATAAAATAGGTTGTCAAAA
128 AAAAATAAAAATTTTAATATTATTTAAATAATAAAATAGGTTGTCAAAA
* *
99182 TCATGCATATCATTTCATTTATTTT-TGATGTATTTAATCAA-ATTTTTAATCATTAATTA-TGA
1 TCATGCATATCATTTCATTTATTTTATAATATATTTAATCAAGA-TTTTAATCATTAATTATTGA
* * *
99244 TATGTGTTATTGGAGATGAATTAACATTAAAATTTGAAAGATATAGATTTATAAAAACATTAAAT
65 CATGTGTTACT-AAGATGAATT-AC--TAAAATTTGAAAGATATAGATTTATAAAAACATTAAAT
*** *
99309 ATAAAAATAATTTTTTTAATATTTTTTAAATAATAAAATAG
126 ATAAAAATAAAAATTTTAATATTATTTAAATAATAAAATAG
99350 ATCATTTTAT
Statistics
Matches: 140, Mismatches: 18, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
172 11 0.08
173 37 0.26
174 23 0.16
176 1 0.01
178 51 0.36
179 6 0.04
180 11 0.08
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (176 bp):
TCATGCATATCATTTCATTTATTTTATAATATATTTAATCAAGATTTTAATCATTAATTATTGAC
ATGTGTTACTAAGATGAATTACTAAAATTTGAAAGATATAGATTTATAAAAACATTAAATATAAA
AATAAAAATTTTAATATTATTTAAATAATAAAATAGGTTGTCAAAA
Found at i:100479 original size:22 final size:21
Alignment explanation
Indices: 100454--100566 Score: 77
Period size: 22 Copynumber: 5.0 Consensus size: 21
100444 AAAACAATGC
100454 AAAATTAAATTAATTTGAA-TTT
1 AAAA-TAAATTAATTT-AATTTT
* *
100476 AAAATAATATAAATTAAAATTTT
1 AAAATAA-ATTAATT-TAATTTT
100499 AATAATAAATTAATTTAATTTT
1 AA-AATAAATTAATTTAATTTT
* **
100521 AAATTTAAATTGAAAAT-ATTTT
1 AAA-ATAAATT-AATTTAATTTT
*
100543 AAATATAAAATAATTTAAATTTT
1 AAA-ATAAATTAATTT-AATTTT
100566 A
1 A
100567 TAATTTAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
21 7 0.10
22 40 0.56
23 20 0.28
24 5 0.07
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AAAATAAATTAATTTAATTTT
Found at i:100523 original size:16 final size:15
Alignment explanation
Indices: 100455--100563 Score: 59
Period size: 16 Copynumber: 7.3 Consensus size: 15
100445 AAACAATGCA
100455 AAATTAAATTAATTT
1 AAATTAAATTAATTT
* * *
100470 GAATTTAAAATAATAT
1 -AAATTAAATTAATTT
*
100486 AAATTAAA--ATTTT
1 AAATTAAATTAATTT
*
100499 AATAATAAATTAATTT
1 AA-ATTAAATTAATTT
100515 -AATT---TTAAATTT
1 AAATTAAATT-AATTT
* *
100527 AAATTGAAAATATTTT
1 AAATT-AAATTAATTT
*
100543 AAATATAAAATAATTT
1 AAAT-TAAATTAATTT
100559 AAATT
1 AAATT
100564 TTATAATTTA
Statistics
Matches: 71, Mismatches: 12, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
11 2 0.03
12 5 0.07
13 9 0.13
14 7 0.10
15 9 0.13
16 37 0.52
17 2 0.03
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
AAATTAAATTAATTT
Found at i:100589 original size:45 final size:45
Alignment explanation
Indices: 100494--100579 Score: 122
Period size: 44 Copynumber: 1.9 Consensus size: 45
100484 ATAAATTAAA
* *
100494 ATTTT-AATAATAAATTAATTTAATTTTAAATTTAAATTGAAAAT
1 ATTTTAAATAATAAAATAATTTAATTTTAAATTTAAAATGAAAAT
100538 ATTTTAAAT-ATAAAATAATTTAAATTTTATAATTTAAAATGA
1 ATTTTAAATAATAAAATAATTT-AATTTTA-AATTTAAAATGA
100580 TATGTTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 16 0.43
45 10 0.27
46 11 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (45 bp):
ATTTTAAATAATAAAATAATTTAATTTTAAATTTAAAATGAAAAT
Found at i:100848 original size:19 final size:17
Alignment explanation
Indices: 100814--100854 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
100804 TCAATATTAA
100814 ATATTAATAATATTATT
1 ATATTAATAATATTATT
*
100831 ATATTATATAAATTTTATT
1 ATATTA-AT-AATATTATT
100850 ATATT
1 ATATT
100855 TATTTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 2 0.10
19 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTAATAATATTATT
Found at i:100850 original size:31 final size:32
Alignment explanation
Indices: 100815--100890 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 32
100805 CAATATTAAA
100815 TATTAATA-ATATTATTATATTAT-ATAAATTT
1 TATTAATATATATT-TTATATTATAATAAATTT
* * *
100846 TATT-ATATTTATTTTATATTTTAATTAATTT
1 TATTAATATATATTTTATATTATAATAAATTT
*
100877 TATTATATTTATAT
1 TATTA-ATATATAT
100891 AATCATATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
30 11 0.31
31 19 0.53
33 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (32 bp):
TATTAATATATATTTTATATTATAATAAATTT
Found at i:100888 original size:9 final size:10
Alignment explanation
Indices: 100826--100886 Score: 63
Period size: 10 Copynumber: 6.1 Consensus size: 10
100816 ATTAATAATA
100826 TTATTATATT
1 TTATTATATT
* *
100836 ATA-TAAATT
1 TTATTATATT
100845 TTATTATATT
1 TTATTATATT
*
100855 TATTTTATATT
1 T-TATTATATT
100866 TTAATTA-ATT
1 TT-ATTATATT
100876 TTATTATATT
1 TTATTATATT
100886 T
1 T
100887 ATATAATCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
9 11 0.27
10 18 0.44
11 12 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTATTATATT
Found at i:100987 original size:17 final size:16
Alignment explanation
Indices: 100965--101013 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
100955 TTTGGGGTAG
100965 AATTAATTATATAATTA
1 AATTAATTA-ATAATTA
*
100982 AATTAAATTAATATTTA
1 AATT-AATTAATAATTA
*
100999 TATTAATTAAATAAT
1 AATTAATT-AATAAT
101014 AATTTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.15
17 18 0.67
18 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAATTAATAATTA
Found at i:101008 original size:21 final size:23
Alignment explanation
Indices: 100965--101028 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 23
100955 TTTGGGGTAG
*
100965 AATTAAT-TATATAATTAAATTA
1 AATTAATATTTATAATTAAATTA
100987 AATTAATATTTAT-ATT-AATTA
1 AATTAATATTTATAATTAAATTA
*
101008 AA-TAATAATTTA-AATAAAATT
1 AATTAAT-ATTTATAATTAAATT
101029 CACCCGACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
20 4 0.11
21 14 0.39
22 14 0.39
23 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATTAATATTTATAATTAAATTA
Found at i:107994 original size:21 final size:20
Alignment explanation
Indices: 107956--107995 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
107946 CGAGAAACAA
* *
107956 AATGATTTAACTTTAAAATC
1 AATGATTTAAATTGAAAATC
107976 AATGATTTTAAATTGAAAAT
1 AATGA-TTTAAATTGAAAAT
107996 AAATTAACTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (20 bp):
AATGATTTAAATTGAAAATC
Found at i:108221 original size:25 final size:24
Alignment explanation
Indices: 108175--108222 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
108165 TTAGTTTATT
*
108175 TATTTTTTAAAATTTTAAAAAATA
1 TATTTTTTAAAATATTAAAAAATA
* *
108199 TATTTTTCTATAATATTATAAAAT
1 TATTTTT-TAAAATATTAAAAAAT
108223 TTTTCATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TATTTTTTAAAATATTAAAAAATA
Found at i:108233 original size:21 final size:19
Alignment explanation
Indices: 108200--108241 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
108190 TAAAAAATAT
108200 ATTTTTCTATAATATTATAAA
1 ATTTTTCTATAAT-TTA-AAA
108221 ATTTTTC-ATTAATTTAAAA
1 ATTTTTCTA-TAATTTAAAA
108240 AT
1 AT
108242 AAAATATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.25
20 4 0.20
21 11 0.55
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTTCTATAATTTAAAA
Found at i:108975 original size:12 final size:12
Alignment explanation
Indices: 108923--108977 Score: 65
Period size: 12 Copynumber: 4.4 Consensus size: 12
108913 AGGTTATATA
* *
108923 TTAATTTTTTTT
1 TTAAATTTTTAT
108935 TTAAATTTTTAT
1 TTAAATTTTTAT
108947 TTAAATTTTTGAGT
1 TTAAATTTTT-A-T
*
108961 TTAAATTATTAT
1 TTAAATTTTTAT
108973 TTAAA
1 TTAAA
108978 AATATTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 26 0.68
13 2 0.05
14 10 0.26
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (12 bp):
TTAAATTTTTAT
Found at i:111080 original size:4 final size:4
Alignment explanation
Indices: 111071--111112 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
111061 GTTATTTGTG
111071 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
111113 CATGCATGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:111618 original size:12 final size:12
Alignment explanation
Indices: 111599--111627 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
111589 TATATTTATA
111599 TATA-TGATATT
1 TATACTGATATT
111610 TATACTGATATT
1 TATACTGATATT
111622 TATACT
1 TATACT
111628 CAAATCCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (12 bp):
TATACTGATATT
Found at i:111942 original size:16 final size:16
Alignment explanation
Indices: 111904--111954 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
111894 TGTCCGTATT
**
111904 ATATATTTTTTTAATT
1 ATATATTTTTTTAAAA
*
111920 TTA-ATTTTTTTAAAA
1 ATATATTTTTTTAAAA
111935 ATATATTTTTTT-AAA
1 ATATATTTTTTTAAAA
111950 ATATA
1 ATATA
111955 ATCTTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 20 0.67
16 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATATTTTTTTAAAA
Found at i:111943 original size:15 final size:15
Alignment explanation
Indices: 111925--111966 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
111915 TAATTTTAAT
111925 TTTTTTAAAAATATA
1 TTTTTTAAAAATATA
*
111940 TTTTTTTAAAATATA
1 TTTTTTAAAAATATA
* *
111955 ATCTTTAAAAAT
1 TTTTTTAAAAAT
111967 TTAATAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTTTAAAAATATA
Found at i:111971 original size:15 final size:15
Alignment explanation
Indices: 111928--111971 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
111918 TTTTAATTTT
* *
111928 TTTAAAAATATATTT
1 TTTAAAAATATAATC
*
111943 TTTTAAAATATAATC
1 TTTAAAAATATAATC
*
111958 TTTAAAAATTTAAT
1 TTTAAAAATATAAT
111972 AATTTTTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAAAAATATAATC
Found at i:113414 original size:23 final size:21
Alignment explanation
Indices: 113372--113424 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
113362 TAATTAAATC
113372 TATTTAAATATTTTATATTAA
1 TATTTAAATATTTTATATTAA
*
113393 TATTTATATATATTTATAATTAA
1 TATTTAAATAT-TTTAT-ATTAA
113416 -ATTTAAATA
1 TATTTAAATA
113425 AATTATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.36
22 13 0.46
23 5 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTTAAATATTTTATATTAA
Found at i:116008 original size:22 final size:22
Alignment explanation
Indices: 115976--116020 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
115966 TAATCGGGAG
* *
115976 TATTTTTATTATATTTATTTTA
1 TATTTTAATTAAATTTATTTTA
115998 TATTTTAATTAAATTTATTTTA
1 TATTTTAATTAAATTTATTTTA
116020 T
1 T
116021 TTATATAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTAATTAAATTTATTTTA
Found at i:122247 original size:32 final size:33
Alignment explanation
Indices: 122211--122273 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
122201 CCAATTTGGA
*
122211 TCATTTTAGGTTTGAA-TTA-TTTTGAGTTTAAG
1 TCATTTTAGATTT-AAGTTATTTTTGAGTTTAAG
122243 TCATTTTAGATTTAAGTTATTTTTGAGTTTA
1 TCATTTTAGATTTAAGTTATTTTTGAGTTTA
122274 GGTTGGTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 2 0.07
32 15 0.54
33 11 0.39
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.56
Consensus pattern (33 bp):
TCATTTTAGATTTAAGTTATTTTTGAGTTTAAG
Found at i:122273 original size:17 final size:17
Alignment explanation
Indices: 122230--122273 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
122220 GTTTGAATTA
122230 TTTTGAGTTTAAGTCAT
1 TTTTGAGTTTAAGTCAT
* *
122247 TTTAGA-TTTAAGTTAT
1 TTTTGAGTTTAAGTCAT
122263 TTTTGAGTTTA
1 TTTTGAGTTTA
122274 GGTTGGTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.57
Consensus pattern (17 bp):
TTTTGAGTTTAAGTCAT
Done.