Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold791
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: 54153
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Found at i:7173 original size:32 final size:32
Alignment explanation
Indices: 7137--7198 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
7127 AGCTTTTGGT
7137 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
7169 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
7199 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:15381 original size:6 final size:6
Alignment explanation
Indices: 15370--15443 Score: 72
Period size: 6 Copynumber: 13.2 Consensus size: 6
15360 GGGATCACTA
15370 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
*
15413 A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
15444 GAATAGAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
4 3 0.05
5 22 0.38
6 27 0.47
8 6 0.10
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (6 bp):
ACTAAT
Found at i:15387 original size:5 final size:5
Alignment explanation
Indices: 15367--15428 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
15357 GCCGGGATCA
15367 CTAA- CTAAT ACTAAT CTAAT CTAA- CTAAT ACTAAT CTAAT ACTAAT
1 CTAAT CTAAT -CTAAT CTAAT CTAAT CTAAT -CTAAT CTAAT -CTAAT
**
15413 AGAAT ACTAAT CTAAT
1 CTAAT -CTAAT CTAAT
15429 ACTCTAATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
4 8 0.17
5 22 0.46
6 18 0.38
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.34
Consensus pattern (5 bp):
CTAAT
Found at i:15405 original size:11 final size:11
Alignment explanation
Indices: 15366--15442 Score: 94
Period size: 11 Copynumber: 7.5 Consensus size: 11
15356 AGCCGGGATC
15366 ACTAA-CTAAT
1 ACTAATCTAAT
15376 ACTAATCTAAT
1 ACTAATCTAAT
15387 -CTAA-CTAAT
1 ACTAATCTAAT
15396 ACTAATCTAAT
1 ACTAATCTAAT
**
15407 ACTAATAGAAT
1 ACTAATCTAAT
15418 ACTAATCTAAT
1 ACTAATCTAAT
15429 AC---TCTAAT
1 ACTAATCTAAT
15437 ACTAAT
1 ACTAAT
15443 AGAATAGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
8 8 0.14
9 5 0.09
10 13 0.23
11 31 0.54
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:15421 original size:22 final size:21
Alignment explanation
Indices: 15366--15442 Score: 108
Period size: 20 Copynumber: 3.8 Consensus size: 21
15356 AGCCGGGATC
15366 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
15387 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
15407 ACTAA-TAGAATACTAATCTAAT
1 ACTAACT--AATACTAATCTAAT
15429 ACT--CTAATACTAAT
1 ACTAACTAATACTAAT
15443 AGAATAGAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.17
20 21 0.40
21 5 0.10
22 17 0.33
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:15457 original size:14 final size:14
Alignment explanation
Indices: 15440--15467 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15430 CTCTAATACT
15440 AATAGAATAGAAAA
1 AATAGAATAGAAAA
15454 AATAGAATAGAAAA
1 AATAGAATAGAAAA
15468 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:23801 original size:18 final size:18
Alignment explanation
Indices: 23722--23815 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
23712 CAAGGTCACG
*
23722 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
23740 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
23758 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
23776 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
23794 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
23809 ATCAATA
1 ATCAATA
23816 AGAAAACCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:23802 original size:9 final size:9
Alignment explanation
Indices: 23722--23802 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
23712 CAAGGTCACG
*
23722 ATCAATAGC
1 ATCAATATC
* *
23731 GTCACTATC
1 ATCAATATC
*
23740 ATCAATAGC
1 ATCAATATC
* * *
23749 GTCACTAGC
1 ATCAATATC
23758 ATCAATATC
1 ATCAATATC
* * *
23767 GTCACTAGC
1 ATCAATATC
23776 ATCAATATC
1 ATCAATATC
* *
23785 GTCACTATC
1 ATCAATATC
23794 ATCAATATC
1 ATCAATATC
23803 GATATCATCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
ATCAATATC
Found at i:26205 original size:21 final size:21
Alignment explanation
Indices: 26175--26263 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
26165 CTCACAAAGA
* *
26175 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
26195 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
26216 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
26237 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
26261 AAA
1 AAA
26264 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:26256 original size:24 final size:21
Alignment explanation
Indices: 26175--26243 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
26165 CTCACAAAGA
* * *
26175 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
26195 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
26216 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
26237 AAAAAGA
1 AAAAAGA
26244 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:30420 original size:14 final size:14
Alignment explanation
Indices: 30401--30429 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30391 TACAATATAT
30401 ATAAGAATTATACG
1 ATAAGAATTATACG
30415 ATAAGAATTATACG
1 ATAAGAATTATACG
30429 A
1 A
30430 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:32845 original size:29 final size:29
Alignment explanation
Indices: 32803--32860 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
32793 TATCTTCTAT
*
32803 TAGGAATAGCGTTTTAATATGATAATAAA
1 TAGGAATAGCGTTTCAATATGATAATAAA
* *
32832 TAGGAATAGCGTTTCGATATGATACTAAA
1 TAGGAATAGCGTTTCAATATGATAATAAA
32861 AATGGGTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (29 bp):
TAGGAATAGCGTTTCAATATGATAATAAA
Found at i:36150 original size:16 final size:16
Alignment explanation
Indices: 36125--36157 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36115 ACGGTATTCT
*
36125 ATATTTTATAGTAGCA
1 ATATTCTATAGTAGCA
36141 ATATTCTATAGTAGCA
1 ATATTCTATAGTAGCA
36157 A
1 A
36158 AGGAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (16 bp):
ATATTCTATAGTAGCA
Found at i:36656 original size:15 final size:15
Alignment explanation
Indices: 36623--36656 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
36613 AGTTATGTCT
*
36623 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
*
36638 ATGTATGGAATTAGC
1 ATGTATGGAATTAGA
36653 ATGT
1 ATGT
36657 CAAAAAGATC
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:0.03, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:37679 original size:19 final size:19
Alignment explanation
Indices: 37657--37695 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
37647 TTAAACTTTT
* *
37657 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
37676 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
37695 A
1 A
37696 AAAAAAAATA
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:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:39400 original size:14 final size:14
Alignment explanation
Indices: 39381--39409 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39371 CTTTTTACTT
39381 TGTTATATAGATTA
1 TGTTATATAGATTA
39395 TGTTATATAGATTA
1 TGTTATATAGATTA
39409 T
1 T
39410 TATTTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TGTTATATAGATTA
Found at i:39558 original size:21 final size:21
Alignment explanation
Indices: 39534--39573 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39524 TTTATCAGTA
*
39534 ATTCCATTTCATTTATATTCT
1 ATTCCATATCATTTATATTCT
*
39555 ATTCTATATCATTTATATT
1 ATTCCATATCATTTATATT
39574 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTCT
Found at i:40182 original size:11 final size:11
Alignment explanation
Indices: 40166--40190 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
40156 CTTTATATTT
40166 ATATACAATAA
1 ATATACAATAA
40177 ATATACAATAA
1 ATATACAATAA
40188 ATA
1 ATA
40191 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:41200 original size:21 final size:22
Alignment explanation
Indices: 41173--41230 Score: 93
Period size: 21 Copynumber: 2.7 Consensus size: 22
41163 TTTAGTTTTT
41173 CCAACCAAGAGAAAAGAAAAAA
1 CCAACCAAGAGAAAAGAAAAAA
41195 -CAACCAAGAGAAAAGAAAAAA
1 CCAACCAAGAGAAAAGAAAAAA
41216 CCGAA-CAAGAGAAAA
1 CC-AACCAAGAGAAAA
41231 AAAGTCAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 21 0.62
22 11 0.32
23 2 0.06
ACGTcount: A:0.67, C:0.17, G:0.16, T:0.00
Consensus pattern (22 bp):
CCAACCAAGAGAAAAGAAAAAA
Found at i:47544 original size:215 final size:214
Alignment explanation
Indices: 47112--47722 Score: 907
Period size: 215 Copynumber: 2.8 Consensus size: 214
47102 TTAGGTTAGA
* * *
47112 TATATAGTTGTTAGAAACATATCTTTGCTATAAAATCTTATAAATAGGACT--AAGATTTCCAAG
1 TATATAGTTGTTAGAAACATATCTTCGCTATAAAATCTCATAAATAGGACTCAAAGATTTGCAAG
* *
47175 AAAATGT-CC-C-T-CAA-TACAGAGGGAAACAAACAATC-GAAAAAATAAATAAAACAGATAAC
66 AAAATGTCCCTCATACAATTACAGAGGGAAACAAACAACCAGAAAAAA-AAATAAAACACATAAC
*
47234 AGGTGATAAACTATCAAAAAAATGACGACATCACAAGATTTAAAAAGACGAATATAAGCAGTGTT
130 AGGCGATAAACTATCAAAAAAAT---GACATCACAAGATTTAAAAAGACG-A-ATAAGCAGTGTT
*
47299 TCATTAGGGTTTTAGGGTAGATACT
190 TCATAAGGGTTTTAGGGTAGATACT
* * *
47324 TATATAGTTATTATAAACATATCTTCGCTATAAAATCTCATAAATAGGACTCAAAGATTTGCAAA
1 TATATAGTTGTTAGAAACATATCTTCGCTATAAAATCTCATAAATAGGACTCAAAGATTTGCAAG
*
47389 AAAATGTCCCTCAATACATATTACAGCGGGAAACAAACAA-CAGAAAAAAAAATAAAACACATAA
66 AAAATGTCCCTC-ATACA-ATTACAGAGGGAAACAAACAACCAGAAAAAAAAATAAAACACATAA
47453 CAGGCGATAAACTATCAAAAAAATGACATCACAAGATTTAAAAAGACGAATAAGCAGTGTTTCAT
129 CAGGCGATAAACTATCAAAAAAATGACATCACAAGATTTAAAAAGACGAATAAGCAGTGTTTCAT
47518 AAGGGTTTTAGGGTAGATACT
194 AAGGGTTTTAGGGTAGATACT
*
47539 TATATAGTTGTTAGAAATATATCTTCGCTATAAAATCTCATAAATAGGACTCAAAGATTTGCAAG
1 TATATAGTTGTTAGAAACATATCTTCGCTATAAAATCTCATAAATAGGACTCAAAGATTTGCAAG
* * *
47604 AAAATGTCCCTCGATACAGATTACAGAGGGAAAAAAACAACCGACAAAAAAAAAAAAAAACACAT
66 AAAATGTCCCTC-ATACA-ATTACAGAGGGAAACAAACAACC-A-GAAAAAAAAATAAAACACAT
*
47669 AACAGGCGATAAACTATCAAAAAAATGACACCACAAGATTTAAAAAGACGAATA
127 AACAGGCGATAAACTATCAAAAAAATGACATCACAAGATTTAAAAAGACGAATA
47723 TAAGCATAAA
Statistics
Matches: 365, Mismatches: 21, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
212 47 0.13
214 17 0.05
215 135 0.37
216 3 0.01
217 25 0.07
218 72 0.20
219 2 0.01
220 39 0.11
221 25 0.07
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (214 bp):
TATATAGTTGTTAGAAACATATCTTCGCTATAAAATCTCATAAATAGGACTCAAAGATTTGCAAG
AAAATGTCCCTCATACAATTACAGAGGGAAACAAACAACCAGAAAAAAAAATAAAACACATAACA
GGCGATAAACTATCAAAAAAATGACATCACAAGATTTAAAAAGACGAATAAGCAGTGTTTCATAA
GGGTTTTAGGGTAGATACT
Found at i:49359 original size:4 final size:4
Alignment explanation
Indices: 49342--49375 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
49332 GAATGATCAT
*
49342 AACA AA-A AAAA AACA AACA AACA AACA AACA AAC
1 AACA AACA AACA AACA AACA AACA AACA AACA AAC
49376 CAACCATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:50203 original size:27 final size:27
Alignment explanation
Indices: 50165--50216 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
50155 CGTGACACAC
*
50165 ACACATACAGATAGAAAGAATATATAT
1 ACACAAACAGATAGAAAGAATATATAT
50192 ACACAAACAGATAGAAAGAATATAT
1 ACACAAACAGATAGAAAGAATATAT
50217 CACAAGAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (27 bp):
ACACAAACAGATAGAAAGAATATATAT
Found at i:50278 original size:52 final size:52
Alignment explanation
Indices: 50210--50420 Score: 137
Period size: 52 Copynumber: 3.9 Consensus size: 52
50200 AGATAGAAAG
* ** *
50210 AATATATCACAAGAATATAAATAGATGCAAATTTCACTTACCGATGCATGCA
1 AATATATCACAAGAATATAAATACACACAAATTTCACTTACAGATGCATGCA
* *
50262 AATATATCA-AACGAATATATATACACACACATTTCACTTACAGATGCATGTAGCAA
1 AATATATCACAA-GAATATAAATACACACAAATTTCACTTACAGATGCA--T-GC-A
* * * * ** *
50318 AATTTATAACAGATAGAA-AGAAATATATACATGCAAATTTCACTTATGGATGCACGCA
1 AA--TATATCACA-AGAATA-TAA-ATACACA--CAAATTTCACTTACAGATGCATGCA
*
50376 AATATAT-AAAAGAATATATAA-ACACAC--ATTTCACTTACAGATGCA
1 AATATATCACAAGAATATA-AATACACACAAATTTCACTTACAGATGCA
50421 GGAAGCAAAA
Statistics
Matches: 124, Mismatches: 20, Indels: 33
0.70 0.11 0.19
Matches are distributed among these distances:
49 16 0.13
51 3 0.02
52 39 0.31
53 4 0.03
54 7 0.06
55 6 0.05
56 7 0.06
58 10 0.08
59 7 0.06
60 7 0.06
62 18 0.15
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (52 bp):
AATATATCACAAGAATATAAATACACACAAATTTCACTTACAGATGCATGCA
Found at i:50428 original size:111 final size:115
Alignment explanation
Indices: 50220--50436 Score: 334
Period size: 111 Copynumber: 1.9 Consensus size: 115
50210 AATATATCAC
* * *
50220 AAGAATATAAATAGATGCAAATTTCACTTACCGATGCATGCAAATATATCAAACGAATATATATA
1 AAGAATATAAATACATGCAAATTTCACTTACCGATGCACGCAAATATATCAAAAGAATATATATA
* *
50285 CACACACATTTCACTTACAGATGCATGTAGCAAAATTTATAACAGATAGA
66 CACACACATTTCACTTACAGATGCAGGAAGCAAAATTTATAACAGATAGA
* **
50335 AAGAA-ATATATACATGCAAATTTCACTTATGGATGCACGCAAATATAT-AAAAGAATATATA-A
1 AAGAATATAAATACATGCAAATTTCACTTACCGATGCACGCAAATATATCAAAAGAATATATATA
50397 -ACACACATTTCACTTACAGATGCAGGAAGCAAAATTTATA
66 CACACACATTTCACTTACAGATGCAGGAAGCAAAATTTATA
50437 TGGAATGTGC
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
111 38 0.40
112 1 0.01
113 12 0.13
114 38 0.40
115 5 0.05
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.27
Consensus pattern (115 bp):
AAGAATATAAATACATGCAAATTTCACTTACCGATGCACGCAAATATATCAAAAGAATATATATA
CACACACATTTCACTTACAGATGCAGGAAGCAAAATTTATAACAGATAGA
Found at i:50801 original size:10 final size:10
Alignment explanation
Indices: 50786--50829 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
50776 TGCAACACAA
50786 AACCACTTGT
1 AACCACTTGT
50796 AACCACTTGT
1 AACCACTTGT
*
50806 AACTACTTGT
1 AACCACTTGT
*
50816 AACTACTTTGT
1 AACCAC-TTGT
50827 AAC
1 AAC
50830 ATTCTTCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 25 0.78
11 7 0.22
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (10 bp):
AACCACTTGT
Found at i:52367 original size:24 final size:25
Alignment explanation
Indices: 52324--52372 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
52314 GAGACGTGGA
* *
52324 GAAATTTTGTGCCATGCAAAGTGCT
1 GAAATTTTGAGCCATACAAAGTGCT
52349 GAAATTTT-AGCCATACAAAGTGCT
1 GAAATTTTGAGCCATACAAAGTGCT
52373 CCATTATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (25 bp):
GAAATTTTGAGCCATACAAAGTGCT
Done.