Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold339
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: 1314099
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 1 of 9
Found at i:2066 original size:3 final size:3
Alignment explanation
Indices: 2060--2095 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2050 ATTTAAACCC
2060 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2096 GCATTAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3543 original size:2 final size:2
Alignment explanation
Indices: 3536--3570 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3526 TATTTGGGCT
3536 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 T
3571 TGAGATGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3812 original size:72 final size:72
Alignment explanation
Indices: 3695--3840 Score: 265
Period size: 72 Copynumber: 2.0 Consensus size: 72
3685 CTTATACATA
* *
3695 TGGAAACTTGTAAGGTTATAAGGGTATGAGTACGTAAGCAAGTGATAGGGATTGAGTGAGAATGG
1 TGGAAAATTGTAAGGTTATAAGGGTATGAGTACGTAAGCAAGTGATAGGGATTGAGAGAGAATGG
3760 CCATGGG
66 CCATGGG
*
3767 TGGAAAATTGTAAGGTTATAAGGGTGTGAGTACGTAAGCAAGTGATAGGGATTGAGAGAGAATGG
1 TGGAAAATTGTAAGGTTATAAGGGTATGAGTACGTAAGCAAGTGATAGGGATTGAGAGAGAATGG
3832 CCATGGG
66 CCATGGG
3839 TG
1 TG
3841 TAAATATAAG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.32, C:0.06, G:0.37, T:0.25
Consensus pattern (72 bp):
TGGAAAATTGTAAGGTTATAAGGGTATGAGTACGTAAGCAAGTGATAGGGATTGAGAGAGAATGG
CCATGGG
Found at i:4555 original size:2 final size:2
Alignment explanation
Indices: 4548--4582 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4538 TGATCAAATC
4548 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 T
4583 GACTAATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6207 original size:23 final size:23
Alignment explanation
Indices: 6159--6209 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
6149 ACTTCTCATC
* *
6159 AAATATTAAAAATTTTTATAATT
1 AAATATTAAAAAATTTAATAATT
*
6182 AAATTTTAAAAAATTTAATTAA-T
1 AAATATTAAAAAATTTAA-TAATT
6205 AAATA
1 AAATA
6210 ATAATTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATATTAAAAAATTTAATAATT
Found at i:7106 original size:429 final size:429
Alignment explanation
Indices: 6461--7314 Score: 1681
Period size: 429 Copynumber: 2.0 Consensus size: 429
6451 AAACATGGTT
6461 AAATAAGAGAAAAACTTTTTGAGGCAAAGTAGATTTGTCAATTCTGATCTAAATTAAAAAATTTA
1 AAATAAGAGAAAAACTTTTTGAGGCAAAGTAGATTTGTCAATTCTGATCTAAATTAAAAAATTTA
6526 ATTAATTAATTTAAATTCAAATCTAATCTAATTCGAGTTGATAAAAAAATTCAATAACCTGAAAC
66 ATTAATTAATTTAAATTCAAATCTAATCTAATTCGAGTTGATAAAAAAATTCAATAACCTGAAAC
6591 CGATCGATCCAAACTTGAAAAAGACTTGAACCCGAAATAATCTGAACAATTAATCTAAAATGACA
131 CGATCGATCCAAACTTGAAAAAGACTTGAACCCGAAATAATCTGAACAATTAATCTAAAATGACA
6656 TGAACTTAAATTTAAATATTATTTTATTTAAAAAATATTAAGTTAATAAAAATAATACTTATAAG
196 TGAACTTAAATTTAAATATTATTTTATTTAAAAAATATTAAGTTAATAAAAATAATACTTATAAG
6721 TTATAACATAAATTATTAATTTATTTTATTTTACTATTTATAATTATATTAGATTATGATAAAGT
261 TTATAACATAAATTATTAATTTATTTTATTTTACTATTTATAATTATATTAGATTATGATAAAGT
*
6786 ATACAAATAGCATTAGGAATGCATAAATTGATTATATTTCTATTTTTGTTCTTTTATCTCTATGT
326 ATACAAATAACATTAGGAATGCATAAATTGATTATATTTCTATTTTTGTTCTTTTATCTCTATGT
6851 AAAATAATATAGTAATGATATATGTGCTTATTATATGTA
391 AAAATAATATAGTAATGATATATGTGCTTATTATATGTA
6890 AAATAAGAGAAAAACTTTTTGAGGCAAAGTAGATTTGTCAATTCTGATCTAAATTAAAAAATTTA
1 AAATAAGAGAAAAACTTTTTGAGGCAAAGTAGATTTGTCAATTCTGATCTAAATTAAAAAATTTA
6955 ATTAATTAATTTAAATTCAAATCTAATCTAATTCGAGTTGATAAAAAAATTCAATAACCTGAAAC
66 ATTAATTAATTTAAATTCAAATCTAATCTAATTCGAGTTGATAAAAAAATTCAATAACCTGAAAC
*
7020 CGATCGATCCAAACTTGAAAAAGACTTGAACCCGAAATGATCTGAACAATTAATCTAAAATGACA
131 CGATCGATCCAAACTTGAAAAAGACTTGAACCCGAAATAATCTGAACAATTAATCTAAAATGACA
7085 TGAACTTAAATTTAAATATTATTTTATTTAAAAAATATTAAGTTAATAAAAATAATACTTATAAG
196 TGAACTTAAATTTAAATATTATTTTATTTAAAAAATATTAAGTTAATAAAAATAATACTTATAAG
*
7150 TTATAACATAAATTATTAATTTATTTTATTTTACTATTTATAATTATATTGGATTATGATAAAGT
261 TTATAACATAAATTATTAATTTATTTTATTTTACTATTTATAATTATATTAGATTATGATAAAGT
7215 ATACAAATAACATTAGGAATGCATAAATTGATTATATTTCTATTTTTGTTCTTTTATCTCTATGT
326 ATACAAATAACATTAGGAATGCATAAATTGATTATATTTCTATTTTTGTTCTTTTATCTCTATGT
7280 AAAATAATATAGTAATGATATATGTGCTTATTATA
391 AAAATAATATAGTAATGATATATGTGCTTATTATA
7315 GTGATTTTTA
Statistics
Matches: 422, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
429 422 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (429 bp):
AAATAAGAGAAAAACTTTTTGAGGCAAAGTAGATTTGTCAATTCTGATCTAAATTAAAAAATTTA
ATTAATTAATTTAAATTCAAATCTAATCTAATTCGAGTTGATAAAAAAATTCAATAACCTGAAAC
CGATCGATCCAAACTTGAAAAAGACTTGAACCCGAAATAATCTGAACAATTAATCTAAAATGACA
TGAACTTAAATTTAAATATTATTTTATTTAAAAAATATTAAGTTAATAAAAATAATACTTATAAG
TTATAACATAAATTATTAATTTATTTTATTTTACTATTTATAATTATATTAGATTATGATAAAGT
ATACAAATAACATTAGGAATGCATAAATTGATTATATTTCTATTTTTGTTCTTTTATCTCTATGT
AAAATAATATAGTAATGATATATGTGCTTATTATATGTA
Found at i:18798 original size:28 final size:28
Alignment explanation
Indices: 18767--18824 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
18757 TAGTATTTTT
* *
18767 AAATTTTTAATATTA-ATTTTAAAAAATA
1 AAATATTT-ATATTATATTATAAAAAATA
*
18795 AAATATTTATTTTATATTATAAAAAATA
1 AAATATTTATATTATATTATAAAAAATA
18823 AA
1 AA
18825 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AAATATTTATATTATATTATAAAAAATA
Found at i:19153 original size:35 final size:34
Alignment explanation
Indices: 19063--19161 Score: 96
Period size: 35 Copynumber: 2.9 Consensus size: 34
19053 ATTAATTAGA
* *
19063 TATAAATTA-ATAAA-AATATTATTTAAATTTAAT
1 TATAAAATATATAAATAATAATA-TTAAATTTAAT
*
19096 TATAAAATATATAAATATTAATATTAAATTTAATT
1 TATAAAATATATAAATAATAATATTAAATTTAA-T
* * *
19131 TTTAATAAT-TTTAAATAATAATATAAAATTT
1 TATAA-AATATATAAATAATAATATTAAATTT
19162 TAAAATTGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
33 8 0.15
34 15 0.27
35 29 0.53
36 3 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (34 bp):
TATAAAATATATAAATAATAATATTAAATTTAAT
Found at i:19407 original size:20 final size:22
Alignment explanation
Indices: 19361--19413 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
19351 TATTAAATTT
* *
19361 TATTATAAAATATATCAAATAC
1 TATTATAATATATATAAAATAC
*
19383 GATTATAATATA-ATAAAATA-
1 TATTATAATATATATAAAATAC
*
19403 TATTAAAATAT
1 TATTATAATAT
19414 GATACAGATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 9 0.35
21 7 0.27
22 10 0.38
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
TATTATAATATATATAAAATAC
Found at i:20260 original size:20 final size:19
Alignment explanation
Indices: 20221--20273 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
20211 AATTGATACC
*
20221 ATAAATTAATAAGATATTA
1 ATAAATTAATAAAATATTA
*
20240 ATTAAATTAATAAAATTTTA
1 A-TAAATTAATAAAATATTA
* *
20260 AAAAATAAATAAAA
1 ATAAATTAATAAAA
20274 ATAAACTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAAATTAATAAAATATTA
Found at i:20754 original size:11 final size:11
Alignment explanation
Indices: 20733--20804 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 11
20723 AATATCTAGT
20733 ATAAAAA-ATA
1 ATAAAAATATA
20743 ATAAAAATATAAA
1 ATAAAAATAT--A
20756 ATAAAATATGATA
1 ATAAAA-AT-ATA
* *
20769 TTTAAAAT-TA
1 ATAAAAATATA
*
20779 ATATAAATATA
1 ATAAAAATATA
*
20790 ATATAAATAT-
1 ATAAAAATATA
20800 ATAAA
1 ATAAA
20805 TATTTTAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 18 0.36
11 14 0.28
12 2 0.04
13 12 0.24
14 2 0.04
15 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (11 bp):
ATAAAAATATA
Found at i:20788 original size:19 final size:18
Alignment explanation
Indices: 20766--20824 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
20756 ATAAAATATG
20766 ATATTTAAAATTAATATAA
1 ATATTTAAAATT-ATATAA
*
20785 ATATAATATAAA-TATATAA
1 ATAT-TTA-AAATTATATAA
20804 ATATTTTAAAAATTATATAA
1 ATA-TTT-AAAATTATATAA
20824 A
1 A
20825 ACTATTTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
19 17 0.52
20 13 0.39
21 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATTTAAAATTATATAA
Found at i:20823 original size:39 final size:36
Alignment explanation
Indices: 20736--20824 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 36
20726 ATCTAGTATA
* * *
20736 AAAAATAATAAAAATATAAAATAAAATATGATATTT
1 AAAAATTATATAAATATAAAATAAAATATAATATTT
*
20772 -AAAATTAATATAAATATAATATAAATATATAAATATTTT
1 AAAAATT-ATATAAATATAAAATAAA-ATAT-AATA-TTT
20811 AAAAATTATATAAA
1 AAAAATTATATAAA
20825 ACTATTTACT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
35 5 0.11
36 16 0.36
37 4 0.09
38 3 0.07
39 10 0.23
40 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (36 bp):
AAAAATTATATAAATATAAAATAAAATATAATATTT
Found at i:20872 original size:14 final size:15
Alignment explanation
Indices: 20847--20877 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
20837 TGACTTTTAT
20847 TTTATATAAATATAA
1 TTTATATAAATATAA
20862 TTTAT-TAAATATAA
1 TTTATATAAATATAA
20876 TT
1 TT
20878 ATAATATACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTATATAAATATAA
Found at i:24173 original size:10 final size:10
Alignment explanation
Indices: 24151--24215 Score: 57
Period size: 10 Copynumber: 6.8 Consensus size: 10
24141 ACCCAATGTT
*
24151 ATTTTTTT-T
1 ATTTTTTTAA
24160 ATTTTTTTAA
1 ATTTTTTTAA
*
24170 ATTTTTTCAA
1 ATTTTTTTAA
24180 A--TTTTT-A
1 ATTTTTTTAA
*
24187 GTTTTTTTATA
1 ATTTTTTTA-A
*
24198 ATTTATTTAA
1 ATTTTTTTAA
24208 ATTTTTTT
1 ATTTTTTT
24216 CTAGGAGGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
7 1 0.02
8 4 0.09
9 13 0.30
10 18 0.41
11 8 0.18
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:24174 original size:9 final size:9
Alignment explanation
Indices: 24162--24214 Score: 54
Period size: 9 Copynumber: 5.7 Consensus size: 9
24152 TTTTTTTTAT
24162 TTTTTTAAA
1 TTTTTTAAA
24171 TTTTTTCAAA
1 TTTTTT-AAA
**
24181 -TTTTTAGT
1 TTTTTTAAA
24189 TTTTTTATAA
1 TTTTTTA-AA
24199 TTTATTTAAA
1 TTT-TTTAAA
24209 TTTTTT
1 TTTTTT
24215 TCTAGGAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.03
9 20 0.56
10 11 0.31
11 4 0.11
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:24506 original size:19 final size:20
Alignment explanation
Indices: 24492--24528 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
24482 TTTTTTTGGT
*
24492 TTTTTTTAAA-ATTTTTTAA
1 TTTTTTTAAATATTTTTGAA
24511 TTTTTTTAAATATTTTTG
1 TTTTTTTAAATATTTTTG
24529 TTGGGATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTTTTAAATATTTTTGAA
Found at i:25015 original size:183 final size:183
Alignment explanation
Indices: 24733--25072 Score: 608
Period size: 183 Copynumber: 1.9 Consensus size: 183
24723 AAAAAAAAAT
*
24733 TTCGGGTTATACAAAAATTTTAAAGGTATGTTTTATTTTTATTTCTATAAGTATTGTTATAATCT
1 TTCGGGTTATACAAAAATTTTAAAGGTATGTTTTATTTTTATTTCTATAAGTATTATTATAATCT
*
24798 TGAAATATAATTCGTTTTGTAATTTATTGTTATGATTAAATTTAATTTTATTGTAATTAAGTTTT
66 TGAAATATAATTCATTTTGTAATTTATTGTTATGATTAAATTTAATTTTATTGTAATTAAGTTTT
* *
24863 TTGTTATTGTTGACTAAGGTATAATTAATTTGTGTTGTTATATAAAACTTTTA
131 TTGTTATTGTTGACTAAGATAAAATTAATTTGTGTTGTTATATAAAACTTTTA
* * *
24916 TTCGGGTTATATAAAAATTTTGAAGGTATGTTTTATTTTTATTTTTATAAGTATTATTATAATCT
1 TTCGGGTTATACAAAAATTTTAAAGGTATGTTTTATTTTTATTTCTATAAGTATTATTATAATCT
*
24981 TGAAATATATTTCATTTTGTAATTTATTGTTATGATTAAATTTAATTTTATTGTAATTAAGTTTT
66 TGAAATATAATTCATTTTGTAATTTATTGTTATGATTAAATTTAATTTTATTGTAATTAAGTTTT
25046 TTGTTATTGTTGACTAAGATAAAATTA
131 TTGTTATTGTTGACTAAGATAAAATTA
25073 GTTTTATTTT
Statistics
Matches: 149, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 149 1.00
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (183 bp):
TTCGGGTTATACAAAAATTTTAAAGGTATGTTTTATTTTTATTTCTATAAGTATTATTATAATCT
TGAAATATAATTCATTTTGTAATTTATTGTTATGATTAAATTTAATTTTATTGTAATTAAGTTTT
TTGTTATTGTTGACTAAGATAAAATTAATTTGTGTTGTTATATAAAACTTTTA
Found at i:25211 original size:67 final size:69
Alignment explanation
Indices: 25114--25285 Score: 244
Period size: 67 Copynumber: 2.5 Consensus size: 69
25104 TGTATTTTTT
* *
25114 TATTTTTTTTAAGATATGAAGTTG-GAAACTCGTCAATTGCTAAATTTTTTCATGACTT-TTTTC
1 TATTTTTTTAAAGTTATGAAGTTGAG-AACTCGTCAATTGCTAAATTTTTTCATGACTTCTTTTC
25177 AT-GG
65 ATGGG
*
25181 -ATTTTTTTAAAAGTTATAAAGTTGAGAACTCGTCAATTGCTAAATTTTTTCATGACTTCTTTTC
1 TATTTTTTT-AAAGTTATGAAGTTGAGAACTCGTCAATTGCTAAATTTTTTCATGACTTCTTTTC
25245 ATGGG
65 ATGGG
* *
25250 TTTTTTTTTTAAAGTTATGAAGTTGAGAACTTGTCA
1 -TATTTTTTTAAAGTTATGAAGTTGAGAACTCGTCA
25286 CCTACGGTAG
Statistics
Matches: 93, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
66 8 0.09
67 44 0.47
68 8 0.09
69 2 0.02
70 24 0.26
71 7 0.08
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (69 bp):
TATTTTTTTAAAGTTATGAAGTTGAGAACTCGTCAATTGCTAAATTTTTTCATGACTTCTTTTCA
TGGG
Found at i:28348 original size:15 final size:16
Alignment explanation
Indices: 28328--28376 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
28318 TGTTGCAGAT
*
28328 GAAGCCATCT-AGGAA
1 GAAGCCATCTCAAGAA
28343 GAAGCCA-CTCAAGAA
1 GAAGCCATCTCAAGAA
*
28358 GAAGCCAT-TCATGAA
1 GAAGCCATCTCAAGAA
28373 GAAG
1 GAAG
28377 TACCACTGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 2 0.07
15 28 0.93
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.12
Consensus pattern (16 bp):
GAAGCCATCTCAAGAA
Found at i:30452 original size:19 final size:20
Alignment explanation
Indices: 30428--30474 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
30418 ACACTTAACG
30428 AAAAAATAATA-CAAAAC-TA
1 AAAAAATAA-AGCAAAACATA
*
30447 AAAAAATAAAGTAAAACATA
1 AAAAAATAAAGCAAAACATA
30467 AAAAAATA
1 AAAAAATA
30475 TTATAAGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 14 0.56
20 10 0.40
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (20 bp):
AAAAAATAAAGCAAAACATA
Found at i:32532 original size:20 final size:20
Alignment explanation
Indices: 32469--32533 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
32459 ACATAATTTT
*
32469 TGTGAAAATTTTTTTGTTGCTA
1 TGTG-AAATTTTATTG-TGCTA
** *
32491 TAAGAAATTTTATTATGCTA
1 TGTGAAATTTTATTGTGCTA
32511 TGTGAAATTTTATTGTGCTA
1 TGTGAAATTTTATTGTGCTA
32531 TGT
1 TGT
32534 AGACTTTTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 25 0.69
21 9 0.25
22 2 0.06
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.51
Consensus pattern (20 bp):
TGTGAAATTTTATTGTGCTA
Found at i:37213 original size:2 final size:2
Alignment explanation
Indices: 37206--37245 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
37196 TTTTATAAAT
* *
37206 TC TC TC TC TC TA TT TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
37246 CCTTTATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.03, C:0.45, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:39454 original size:37 final size:37
Alignment explanation
Indices: 39413--39483 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
39403 CACTCACGTC
39413 ACTCTTCCATTCACAAGTTCTT-TTAATAGAGAAGGTT
1 ACTCTTCCATTCACAAGTT-TTCTTAATAGAGAAGGTT
*
39450 ACTCTTTCATTCACAAGTTTTCTTAATAGAGAAG
1 ACTCTTCCATTCACAAGTTTTCTTAATAGAGAAG
39484 TAGATTGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 2 0.06
37 30 0.94
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (37 bp):
ACTCTTCCATTCACAAGTTTTCTTAATAGAGAAGGTT
Found at i:44842 original size:2 final size:2
Alignment explanation
Indices: 44837--44865 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44827 GACGTGTGTG
44837 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 T
44866 TCTAAACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:54356 original size:2 final size:2
Alignment explanation
Indices: 54349--54383 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
54339 CATAATTAGC
54349 AT AT AT AT 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 AT AT AT AT A
54384 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:60185 original size:20 final size:20
Alignment explanation
Indices: 60162--60200 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60152 ATAATAAAGA
*
60162 ATAAAAATGAATATATATAC
1 ATAAAAATAAATATATATAC
*
60182 ATAAACATAAATATATATA
1 ATAAAAATAAATATATATA
60201 TATATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (20 bp):
ATAAAAATAAATATATATAC
Found at i:60431 original size:23 final size:22
Alignment explanation
Indices: 60400--60461 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 22
60390 TTGATTTTAT
*
60400 TTATTTATTTTTAAATAATATAA
1 TTATATATTTTTAAATAATA-AA
**
60423 TTATATATTTAAAAATAATAAA
1 TTATATATTTTTAAATAATAAA
60445 TTATATAATTTTTAAAT
1 TTATAT-ATTTTTAAAT
60462 GTCAGATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 8 0.24
23 25 0.76
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATATATTTTTAAATAATAAA
Found at i:61116 original size:36 final size:36
Alignment explanation
Indices: 61075--61165 Score: 97
Period size: 32 Copynumber: 2.7 Consensus size: 36
61065 AATAATTAAA
*
61075 AATA-AAATATA-AAATATGA-TATAATTTAAAAAAT
1 AATATAAATATATAAATAT-ATTAAAATTTAAAAAAT
*
61109 AATATAAATATATAAATATATTAAAATTT--ATAA-
1 AATATAAATATATAAATATATTAAAATTTAAAAAAT
*
61142 AATATAAAT-TATTAATATATTAAA
1 AATATAAATATATAAATATATTAAA
61166 TTAATATAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
32 14 0.27
33 9 0.18
34 7 0.14
35 8 0.16
36 13 0.25
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (36 bp):
AATATAAATATATAAATATATTAAAATTTAAAAAAT
Found at i:61133 original size:9 final size:9
Alignment explanation
Indices: 61113--61220 Score: 56
Period size: 9 Copynumber: 12.6 Consensus size: 9
61103 AAAAATAATA
61113 TAAATATA-
1 TAAATATAT
61121 TAAATATAT
1 TAAATATAT
61130 TAAA-AT-T
1 TAAATATAT
*
61137 TATAAAATA-
1 TA-AATATAT
61146 TAAAT-TAT
1 TAAATATAT
61154 T-AATATAT
1 TAAATATAT
*
61162 TAAAT-TAA
1 TAAATATAT
61170 TATAATATA-
1 TA-AATATAT
61179 T-AATATTAT
1 TAAATA-TAT
61188 T-AATATAAT
1 TAAATAT-AT
*
61197 TATAATACAT
1 TA-AATATAT
* *
61207 AAAAAATAT
1 TAAATATAT
61216 TAAAT
1 TAAAT
61221 CGATAAATTT
Statistics
Matches: 78, Mismatches: 8, Indels: 27
0.69 0.07 0.24
Matches are distributed among these distances:
7 12 0.15
8 26 0.33
9 31 0.40
10 5 0.06
11 4 0.05
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (9 bp):
TAAATATAT
Found at i:61140 original size:18 final size:17
Alignment explanation
Indices: 61113--61179 Score: 68
Period size: 18 Copynumber: 4.0 Consensus size: 17
61103 AAAAATAATA
*
61113 TAAATATATAAATATAT
1 TAAATTTATAAATATAT
61130 TAAAATTTATAAA-ATA-
1 T-AAATTTATAAATATAT
*
61146 TAAA-TTATTAATATAT
1 TAAATTTATAAATATAT
*
61162 TAAATTAATATAATATAT
1 TAAATTTATA-AATATAT
61180 AATATTATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
14 6 0.15
15 6 0.15
16 5 0.12
17 7 0.17
18 17 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTTATAAATATAT
Found at i:61146 original size:19 final size:18
Alignment explanation
Indices: 61082--61147 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
61072 AAAAATAAAA
*
61082 TATAAAATATGATATAATT
1 TATAAAATAT-ATAAAATT
* *
61101 TAAAAAATA-ATATAAATA
1 TATAAAATATATA-AAATT
61119 TAT-AAATATATTAAAATT
1 TATAAAATATA-TAAAATT
61137 TATAAAATATA
1 TATAAAATATA
61148 AATTATTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
17 8 0.21
18 13 0.34
19 17 0.45
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TATAAAATATATAAAATT
Found at i:61191 original size:21 final size:20
Alignment explanation
Indices: 61165--61203 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
61155 AATATATTAA
61165 ATTAATATAATATATAATATT
1 ATTAATATAAT-TATAATATT
61186 ATTAATATAATTATAATA
1 ATTAATATAATTATAATA
61204 CATAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTAATATAATTATAATATT
Found at i:62076 original size:30 final size:32
Alignment explanation
Indices: 62016--62098 Score: 125
Period size: 30 Copynumber: 2.6 Consensus size: 32
62006 CCAAATCAAC
62016 TTAAATAATAATAATATTTATTATTTTTATAT
1 TTAAATAATAATAATATTTATTATTTTTATAT
*
62048 TTAAATAATAAT-ATTTTTATTA-TTTTATAT
1 TTAAATAATAATAATATTTATTATTTTTATAT
*
62078 TTAAATAATAATTAAAATTTA
1 TTAAATAATAA-TAATATTTA
62099 ATCAAATCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
30 19 0.41
31 10 0.22
32 17 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
TTAAATAATAATAATATTTATTATTTTTATAT
Found at i:63327 original size:84 final size:84
Alignment explanation
Indices: 63185--63348 Score: 258
Period size: 84 Copynumber: 2.0 Consensus size: 84
63175 TCAAATCTTG
* *
63185 GATAAAGTTTATAAATTTATATCGACCCAAACATGAATTATTATTTAATAATAGAAAGAAAATCA
1 GATAAAATTTATAAATTTATATCGACCCAAACATGAATTATTATTTAATAATAGAAAGAAAATAA
*
63250 TGAAAAAAAACTTAAGCTTA
66 CG-AAAAAAACTTAAGCTTA
* * *
63270 GATAAAATTTGTAAATTTATATCGACTC-AACTTGAATTATTATTTAATAATAGAAAGAAAATAA
1 GATAAAATTTATAAATTTATATCGACCCAAACATGAATTATTATTTAATAATAGAAAGAAAATAA
63334 CGAAAAAAACTTAAG
66 CGAAAAAAACTTAAG
63349 TAATTTTAAC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
83 13 0.18
84 35 0.48
85 25 0.34
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.31
Consensus pattern (84 bp):
GATAAAATTTATAAATTTATATCGACCCAAACATGAATTATTATTTAATAATAGAAAGAAAATAA
CGAAAAAAACTTAAGCTTA
Found at i:64615 original size:21 final size:23
Alignment explanation
Indices: 64585--64638 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 23
64575 TTGATGAAAA
*
64585 TAATCATTATTATTTTAAA-ATTT
1 TAAT-ATTATTATTGTAAATATTT
64608 TAA-ATTATTATTGTAAATTATTT
1 TAATATTATTATTGTAAA-TATTT
64631 TAATATTA
1 TAATATTA
64639 ATAAGACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 13 0.48
23 10 0.37
24 4 0.15
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
TAATATTATTATTGTAAATATTT
Found at i:65115 original size:17 final size:14
Alignment explanation
Indices: 65074--65104 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
65064 TTTACTATAC
65074 TTATAAAT-TTTTA
1 TTATAAATATTTTA
65087 TTATAAATATTTTA
1 TTATAAATATTTTA
65101 TTAT
1 TTAT
65105 TAATGATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATAAATATTTTA
Found at i:65469 original size:29 final size:29
Alignment explanation
Indices: 65436--65522 Score: 79
Period size: 31 Copynumber: 2.9 Consensus size: 29
65426 AAAAAGTAAA
65436 TTATTAAATTATTATTTTTAAGTA-AATT-T
1 TTATTAAATT-TTATTTTTAA-TATAATTAT
* *
65465 TTATTATAATATGTTCTTTTTAATATATTTAT
1 TTATTA-AAT-T-TTATTTTTAATATAATTAT
*
65497 TTATTAAATTTTATATTTATATATAA
1 TTATTAAATTTTATTTTTA-ATATAA
65523 AATTAATTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
29 13 0.28
30 11 0.23
31 16 0.34
32 7 0.15
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (29 bp):
TTATTAAATTTTATTTTTAATATAATTAT
Found at i:65513 original size:20 final size:20
Alignment explanation
Indices: 65488--65526 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
65478 TTCTTTTTAA
* *
65488 TATATTTATTTATTAAATTT
1 TATATTTATATATAAAATTT
65508 TATATTTATATATAAAATT
1 TATATTTATATATAAAATT
65527 AATTTGTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATTTATATATAAAATTT
Found at i:65830 original size:2 final size:2
Alignment explanation
Indices: 65823--65847 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
65813 TTTATCCTTA
65823 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 A
65848 CACTTAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65928 original size:60 final size:61
Alignment explanation
Indices: 65853--65983 Score: 187
Period size: 61 Copynumber: 2.2 Consensus size: 61
65843 ATATACACTT
* *
65853 AAAACCCAAAACCTAATTTTTT-CC-TT-GTAGTCACAACTCTTATTTTTCTTAGCATCAGTA
1 AAAACTCAAAACCTAATTTTTTACCTTTGGTAGTCACAACTCTT-TTTTT-TTAGAATCAGTA
* *
65913 AAAATTCAAAACCTAATTTTTTACCTTTGGTAGTCGCAACTCTTTTTTTTTAGAATCAGTA
1 AAAACTCAAAACCTAATTTTTTACCTTTGGTAGTCACAACTCTTTTTTTTTAGAATCAGTA
65974 AAAACTCAAA
1 AAAACTCAAA
65984 TTTACTTTGA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
60 20 0.32
61 22 0.35
62 7 0.11
63 14 0.22
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (61 bp):
AAAACTCAAAACCTAATTTTTTACCTTTGGTAGTCACAACTCTTTTTTTTTAGAATCAGTA
Found at i:66796 original size:2 final size:2
Alignment explanation
Indices: 66791--66865 Score: 59
Period size: 2 Copynumber: 39.5 Consensus size: 2
66781 AAAACTTTTT
* * * * * *
66791 TA TA TA TG TG TA TA TA TA TA TA TA TG TG TG TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
66833 TG TA TA TA TA TA -A TA TA -A TA TA -A TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
66866 GTTATAAAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
1 4 0.06
2 59 0.94
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (2 bp):
TA
Found at i:66810 original size:14 final size:14
Alignment explanation
Indices: 66807--66844 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
66797 TGTGTATATA
*
66807 TATATATATGTGTG
1 TATATATATATGTG
66821 TATATATATATGTG
1 TATATATATATGTG
66835 TATATATATA
1 TATATATATA
66845 ATATAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (14 bp):
TATATATATATGTG
Found at i:66812 original size:16 final size:16
Alignment explanation
Indices: 66791--66844 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
66781 AAAACTTTTT
* *
66791 TATATATGTGTATATA
1 TATATATATGTGTATA
*
66807 TATATATATGTGTGTA
1 TATATATATGTGTATA
66823 TATATATATGTGTATA
1 TATATATATGTGTATA
66839 TATATA
1 TATATA
66845 ATATAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (16 bp):
TATATATATGTGTATA
Found at i:66814 original size:18 final size:18
Alignment explanation
Indices: 66791--66848 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
66781 AAAACTTTTT
66791 TATATATGTGTATATATA
1 TATATATGTGTATATATA
*
66809 TATATATGTG--TGTATA
1 TATATATGTGTATATATA
66825 TATATATGTGTATATATA
1 TATATATGTGTATATATA
66843 TA-ATAT
1 TATATAT
66849 AATATAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
16 15 0.42
17 4 0.11
18 17 0.47
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (18 bp):
TATATATGTGTATATATA
Found at i:66844 original size:20 final size:20
Alignment explanation
Indices: 66791--66831 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
66781 AAAACTTTTT
66791 TATATATGTGTATATATATA
1 TATATATGTGTATATATATA
*
66811 TATATGTGTGTATATATATA
1 TATATATGTGTATATATATA
66831 T
1 T
66832 GTGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (20 bp):
TATATATGTGTATATATATA
Found at i:66850 original size:5 final size:5
Alignment explanation
Indices: 66835--66864 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
66825 TATATATGTG
66835 TATATA TATAA TATAA TATAA TATAA TATA
1 TATA-A TATAA TATAA TATAA TATAA TATA
66865 TGTTATAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:69481 original size:20 final size:21
Alignment explanation
Indices: 69443--69481 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
69433 TTACCATATT
69443 ATTTTATTATACTATTACTAG
1 ATTTTATTATACTATTACTAG
69464 ATTTTAATTAT-C-ATTACT
1 ATTTT-ATTATACTATTACT
69482 TGAAATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (21 bp):
ATTTTATTATACTATTACTAG
Found at i:69694 original size:22 final size:22
Alignment explanation
Indices: 69644--69685 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
69634 AGTGCATGAC
*
69644 ATAATTTACTTTTTGATAAAAT
1 ATAATTTACTTTTTAATAAAAT
69666 ATAATTTACTTTTTAATAAA
1 ATAATTTACTTTTTAATAAA
69686 TTACTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (22 bp):
ATAATTTACTTTTTAATAAAAT
Found at i:69986 original size:14 final size:15
Alignment explanation
Indices: 69955--69988 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
69945 TTCAAGGTCA
*
69955 TTTTGAGTTTAAATT
1 TTTTGAGTTCAAATT
*
69970 TTTTGAGTTCGAATT
1 TTTTGAGTTCAAATT
69985 TTTT
1 TTTT
69989 AACTTTTTGA
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:0.21, C:0.03, G:0.15, T:0.62
Consensus pattern (15 bp):
TTTTGAGTTCAAATT
Found at i:72320 original size:18 final size:17
Alignment explanation
Indices: 72307--72375 Score: 53
Period size: 18 Copynumber: 4.4 Consensus size: 17
72297 AATTATTAAT
72307 ATATCAAAATTTATATAA
1 ATAT-AAAATTTATATAA
* *
72325 ATATAAAATATCT-TAA
1 ATATAAAATTTATATAA
72341 ATAT--AA-TTAT-T--
1 ATATAAAATTTATATAA
72352 ATATAATAATTTATATAA
1 ATATAA-AATTTATATAA
72370 ATATAA
1 ATATAA
72376 TACAAATTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
11 4 0.10
13 3 0.08
14 4 0.10
15 4 0.10
16 8 0.20
17 7 0.17
18 10 0.25
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATAAAATTTATATAA
Found at i:72374 original size:20 final size:20
Alignment explanation
Indices: 72304--72374 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 20
72294 ACGAATTATT
72304 AATATATCAA-AATTTATATA
1 AATATAT-AATAATTTATATA
*
72324 AATATAAAAT-ATCTTAAATATA
1 AATATATAATAAT-TT--ATATA
72346 ATTATTATATAATAATTTATATA
1 A--A-TATATAATAATTTATATA
72369 AATATA
1 AATATA
72375 ATACAAATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
19 4 0.10
20 12 0.29
21 1 0.02
22 6 0.15
23 6 0.15
24 1 0.02
25 9 0.22
26 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATATATAATAATTTATATA
Found at i:72425 original size:20 final size:20
Alignment explanation
Indices: 72400--72441 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
72390 TTAGTAGATG
72400 TACTAAAATTTAATACTTGT
1 TACTAAAATTTAATACTTGT
72420 TACTAAAATTTAATACTTGT
1 TACTAAAATTTAATACTTGT
72440 TA
1 TA
72442 ATGTGCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
TACTAAAATTTAATACTTGT
Found at i:72683 original size:14 final size:14
Alignment explanation
Indices: 72664--72691 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
72654 TAATACTCTA
72664 TTTATATTATATTT
1 TTTATATTATATTT
72678 TTTATATTATATTT
1 TTTATATTATATTT
72692 AAATTATCGT
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATATTATATTT
Found at i:73468 original size:17 final size:17
Alignment explanation
Indices: 73446--73483 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
73436 TTCAAGTTTG
73446 AATTATTTTTAAATTCA
1 AATTATTTTTAAATTCA
*
73463 AATTATTTTTAAATTCG
1 AATTATTTTTAAATTCA
73480 AATT
1 AATT
73484 GATACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTATTTTTAAATTCA
Found at i:73964 original size:10 final size:10
Alignment explanation
Indices: 73928--74012 Score: 52
Period size: 10 Copynumber: 8.8 Consensus size: 10
73918 ATGCTAATTA
73928 ATATA-TTTT
1 ATATATTTTT
*
73937 ATATTATATTT
1 ATA-TATTTTT
*
73948 ATGTATTTTT
1 ATATATTTTT
* *
73958 ATATATTATA
1 ATATATTTTT
73968 AT-TATTTTT
1 ATATATTTTT
*
73977 A-ATA-TATT
1 ATATATTTTT
* *
73985 ATTTATTTAT
1 ATATATTTTT
* *
73995 ATAAATTTTA
1 ATATATTTTT
74005 ATATATTT
1 ATATATTT
74013 ATAATTTTAA
Statistics
Matches: 54, Mismatches: 17, Indels: 9
0.68 0.21 0.11
Matches are distributed among these distances:
8 4 0.07
9 13 0.24
10 32 0.59
11 5 0.09
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (10 bp):
ATATATTTTT
Found at i:73986 original size:27 final size:27
Alignment explanation
Indices: 73956--74015 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
73946 TTATGTATTT
* *
73956 TTATATA-TTATAATTATTTTTAATATA
1 TTATATATTTAT-ATAAATTTTAATATA
*
73983 TTATTTATTTATATAAATTTTAATATA
1 TTATATATTTATATAAATTTTAATATA
74010 TT-TATA
1 TTATATA
74016 ATTTTAACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.11
27 21 0.75
28 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTATATATTTATATAAATTTTAATATA
Found at i:74241 original size:18 final size:16
Alignment explanation
Indices: 74220--74276 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 16
74210 TGTTTTTTAA
74220 ATTAATTATTAAAATAAT
1 ATTAATT-TTAAAAT-AT
74238 ATT-ATTTTAAAATAT
1 ATTAATTTTAAAATAT
74253 ATT-A--TTAAAATATT
1 ATTAATTTTAAAATA-T
*
74267 ATTATTTTTA
1 ATTAATTTTA
74277 TCACTTAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
13 8 0.24
14 4 0.12
15 6 0.18
16 7 0.21
17 6 0.18
18 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTAATTTTAAAATAT
Found at i:74251 original size:13 final size:14
Alignment explanation
Indices: 74224--74272 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
74214 TTTTAAATTA
*
74224 ATTATTAAAATAAT
1 ATTATTAAAATATT
74238 ATTATTTTAAAATA-T
1 ATTA--TTAAAATATT
74253 ATTATTAAAATATT
1 ATTATTAAAATATT
74267 ATTATT
1 ATTATT
74273 TTTATCACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.25
14 11 0.34
15 5 0.16
16 8 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTATTAAAATATT
Found at i:74256 original size:29 final size:29
Alignment explanation
Indices: 74200--74274 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
74190 CACTTTGATC
* *
74200 AAAATAATATTGTTTTTTAAATTAATTATT
1 AAAATAATATT-ATTTTAAAATTAATTATT
74230 AAAATAATATTATTTTAAAA-TATATTATT
1 AAAATAATATTATTTTAAAATTA-ATTATT
*
74259 AAAATATTATTATTTT
1 AAAATAATATTATTTT
74275 TATCACTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 2 0.05
29 28 0.68
30 11 0.27
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (29 bp):
AAAATAATATTATTTTAAAATTAATTATT
Found at i:74471 original size:14 final size:14
Alignment explanation
Indices: 74452--74498 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
74442 AATGACAAAA
74452 ATAATAATATTTTG
1 ATAATAATATTTTG
*
74466 ATAAT-ATATTTTAA
1 ATAATAATATTTT-G
74480 ATTAATAATATTTTG
1 A-TAATAATATTTTG
74495 ATAA
1 ATAA
74499 AACAACTCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 7 0.25
14 9 0.32
15 5 0.18
16 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (14 bp):
ATAATAATATTTTG
Found at i:74702 original size:16 final size:16
Alignment explanation
Indices: 74656--74746 Score: 103
Period size: 16 Copynumber: 5.7 Consensus size: 16
74646 ATAAAAAATT
*
74656 AATAATTTAAATATAA
1 AATAATTTAAATTTAA
* *
74672 AATGATTCAAATTTAA
1 AATAATTTAAATTTAA
*
74688 AATAATTTAATTTTAA
1 AATAATTTAAATTTAA
*
74704 AATAA-TTAGATTATAA
1 AATAATTTAAATT-TAA
*
74720 ATTAATTTAAATTTAA
1 AATAATTTAAATTTAA
*
74736 AATAAATTAAA
1 AATAATTTAAA
74747 ATATTTAAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
15 5 0.08
16 50 0.82
17 6 0.10
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (16 bp):
AATAATTTAAATTTAA
Found at i:75945 original size:16 final size:16
Alignment explanation
Indices: 75924--75966 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
75914 ACTTAGAATT
75924 ATTATTTATAATAAAA
1 ATTATTTATAATAAAA
* *
75940 ATTATTTTTATTAAAA
1 ATTATTTATAATAAAA
* *
75956 TTTAATTATAA
1 ATTATTTATAA
75967 AAATATTAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTATTTATAATAAAA
Found at i:76545 original size:30 final size:30
Alignment explanation
Indices: 76510--76594 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
76500 TCATTTTATT
*
76510 TAAATAAATTTTTAAATTTTTTATTATAC-C
1 TAAATAAATTTTTAAATTTTTAATT-TACAC
*
76540 TAAATAAATTATT-AATTTTTAATTTACAC
1 TAAATAAATTTTTAAATTTTTAATTTACAC
**
76569 TCAAATAAAACTTTAAA-TTTTAATTT
1 T-AAATAAATTTTTAAATTTTTAATTT
76595 GTTTCAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
28 3 0.06
29 12 0.26
30 30 0.64
31 2 0.04
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (30 bp):
TAAATAAATTTTTAAATTTTTAATTTACAC
Found at i:76676 original size:19 final size:20
Alignment explanation
Indices: 76652--76694 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
76642 TATTTTATTT
*
76652 AAATTTAAATCAA-AAAATA
1 AAATTTAAATAAATAAAATA
*
76671 AAATTTAATTAAATAAAATA
1 AAATTTAAATAAATAAAATA
76691 AAAT
1 AAAT
76695 ATAATGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATTTAAATAAATAAAATA
Found at i:76690 original size:20 final size:19
Alignment explanation
Indices: 76652--76699 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
76642 TATTTTATTT
* *
76652 AAATTTAAATCAAAAAATA
1 AAATTTAATTAAAAAAATA
76671 AAATTTAATTAAATAAAATA
1 AAATTTAATTAAA-AAAATA
*
76691 AAATATAAT
1 AAATTTAAT
76700 GAATTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATTTAATTAAAAAAATA
Found at i:77948 original size:127 final size:128
Alignment explanation
Indices: 77721--77978 Score: 457
Period size: 127 Copynumber: 2.0 Consensus size: 128
77711 TAACATTAAA
77721 AAATAAATAATTTATTTGATAAATAAAAAAGAGTTAAAATCTAATATAAATTTTATTAATGAACA
1 AAATAAATAATTTATTTGATAAATAAAAAAGAGTTAAAATCTAATATAAATTTTATTAATGAACA
* *
77786 ATTTATTAATTTTATTTTTTGTAAAAATATATAACTATATGTTCAAAAATTAACAAAACAATG
66 ATTTATTAATTTTATTTGTTATAAAAATATATAACTATATGTTCAAAAATTAACAAAACAATG
77849 AAATAAATAATTTATTTGATAAAT-AAAAAGAGTTAAAA-CTTAATATAAATTTTATTAATGAAC
1 AAATAAATAATTTATTTGATAAATAAAAAAGAGTTAAAATC-TAATATAAATTTTATTAATGAAC
* *
77912 AATTTATTAATTTTATTTGTTATAAAAATATATAACTATATGTTCAAATATTAATAAAACAATG
65 AATTTATTAATTTTATTTGTTATAAAAATATATAACTATATGTTCAAAAATTAACAAAACAATG
77976 AAA
1 AAA
77979 ATTTGTGTGA
Statistics
Matches: 125, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
126 1 0.01
127 100 0.80
128 24 0.19
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.39
Consensus pattern (128 bp):
AAATAAATAATTTATTTGATAAATAAAAAAGAGTTAAAATCTAATATAAATTTTATTAATGAACA
ATTTATTAATTTTATTTGTTATAAAAATATATAACTATATGTTCAAAAATTAACAAAACAATG
Found at i:79450 original size:14 final size:13
Alignment explanation
Indices: 79432--79473 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
79422 TTATTAAAAA
*
79432 ATTTTAATATATT
1 ATTTTTATATATT
79445 ATTTTT-TATATT
1 ATTTTTATATATT
*
79457 AATATTTATATATT
1 -ATTTTTATATATT
79471 ATT
1 ATT
79474 ATAATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 6 0.25
13 12 0.50
14 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTTATATATT
Found at i:79568 original size:27 final size:27
Alignment explanation
Indices: 79497--79568 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 27
79487 AAATAAAAAA
*
79497 TATTTTTTATTAAT-TAAATAATAATT
1 TATTTATTATTAATATAAATAATAATT
*
79523 TAAATTTA-TATGAATTATAAA-AATAAATT
1 T--ATTTATTATTAA-TATAAATAAT-AATT
79552 TATTTATTATTAATATA
1 TATTTATTATTAATATA
79569 TTCGAATATG
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
26 1 0.03
27 14 0.38
28 13 0.35
29 9 0.24
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
TATTTATTATTAATATAAATAATAATT
Found at i:79793 original size:3 final size:3
Alignment explanation
Indices: 79785--79820 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
79775 TTAAGTTTCT
79785 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
79821 CATGGAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:82779 original size:33 final size:30
Alignment explanation
Indices: 82741--82810 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 30
82731 TCATTTTTTG
82741 TTTTAGTTATTTTGGATTAACTATTCAAGTCAA
1 TTTTAG-T-TTTTGGA-TAACTATTCAAGTCAA
* *
82774 TTTTAG--TTTGGATCACTATTTAAGTCAA
1 TTTTAGTTTTTGGATAACTATTCAAGTCAA
82802 TTTTAGTTT
1 TTTTAGTTT
82811 GGATCATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 20 0.61
29 6 0.18
30 1 0.03
33 6 0.18
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (30 bp):
TTTTAGTTTTTGGATAACTATTCAAGTCAA
Found at i:82798 original size:28 final size:28
Alignment explanation
Indices: 82751--82816 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
82741 TTTTAGTTAT
*
82751 TTTGGATTAACTATTCAAGTCAATTTTAG
1 TTTGGA-TCACTATTCAAGTCAATTTTAG
*
82780 TTTGGATCACTATTTAAGTCAATTTTAG
1 TTTGGATCACTATTCAAGTCAATTTTAG
82808 TTTGGATCA
1 TTTGGATCA
82817 TTTTGAGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 29 0.83
29 6 0.17
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (28 bp):
TTTGGATCACTATTCAAGTCAATTTTAG
Found at i:82852 original size:32 final size:32
Alignment explanation
Indices: 82801--82875 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
82791 ATTTAAGTCA
*
82801 ATTTTAG-TTTGGATCATTTTGAGTTCGAGTT
1 ATTTTAGATTTGGATCATTTTAAGTTCGAGTT
* *
82832 ATTTTAGATTTAGG-TCATTTTAAGTTTGTGTT
1 ATTTTAGATTT-GGATCATTTTAAGTTCGAGTT
82864 ATTTTTAGATTT
1 A-TTTTAGATTT
82876 TAATCGATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 7 0.18
32 19 0.50
33 12 0.32
ACGTcount: A:0.21, C:0.04, G:0.19, T:0.56
Consensus pattern (32 bp):
ATTTTAGATTTGGATCATTTTAAGTTCGAGTT
Found at i:84714 original size:23 final size:25
Alignment explanation
Indices: 84680--84749 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
84670 AATAAAAATT
84680 AGCCACCAA-TTTTGACAAACAACA
1 AGCCACCAATTTTTGACAAACAACA
*
84704 AGCCA-CAATTTTTGACAAACAAAA
1 AGCCACCAATTTTTGACAAACAACA
**
84728 AGAAACCACTATTTTTGACAAA
1 AGCCACCA--ATTTTTGACAAA
84750 TACAAAGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.08
24 22 0.56
25 2 0.05
27 12 0.31
ACGTcount: A:0.47, C:0.23, G:0.09, T:0.21
Consensus pattern (25 bp):
AGCCACCAATTTTTGACAAACAACA
Found at i:84744 original size:27 final size:26
Alignment explanation
Indices: 84689--84778 Score: 94
Period size: 27 Copynumber: 3.5 Consensus size: 26
84679 TAGCCACCAA
*
84689 TTTTGACAAACAACAAG--CCACAAT
1 TTTTGACAAACAAAAAGAACCACAAT
*
84713 TTTTGACAAACAAAAAGAAACCACTAT
1 TTTTGACAAACAAAAAG-AACCACAAT
* * *
84740 TTTTGACAAATACAAAGTAACCACCAT
1 TTTTGACAAACAAAAAG-AACCACAAT
*
84767 TGTTGACAAACA
1 TTTTGACAAACA
84779 CATGGTGGCT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
24 16 0.29
27 39 0.71
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (26 bp):
TTTTGACAAACAAAAAGAACCACAAT
Found at i:84797 original size:24 final size:25
Alignment explanation
Indices: 84766--84823 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
84756 GTAACCACCA
*
84766 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
84790 TTGTTGACAAACACAAAGGGTGGCTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
*
84816 TTATTGAC
1 TTGTTGAC
84824 TAGCCACCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 14 0.47
26 16 0.53
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:89311 original size:23 final size:25
Alignment explanation
Indices: 89277--89346 Score: 92
Period size: 24 Copynumber: 2.8 Consensus size: 25
89267 AATAAAAATT
89277 AGCCACCAA-TTTTGACAAACAAAA
1 AGCCACCAATTTTTGACAAACAAAA
89301 AGCCA-CAATTTTTGACAAACAAAA
1 AGCCACCAATTTTTGACAAACAAAA
89325 AGAAACCACC-ATTTTTGACAAA
1 AG---CCACCAATTTTTGACAAA
89347 TATAAAGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.07
24 22 0.54
27 15 0.37
28 1 0.02
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.20
Consensus pattern (25 bp):
AGCCACCAATTTTTGACAAACAAAA
Found at i:89341 original size:27 final size:26
Alignment explanation
Indices: 89279--89375 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
89269 TAAAAATTAG
*
89279 CCACCAATTTTGACAAACAAAAAG--
1 CCACCATTTTTGACAAACAAAAAGAA
*
89303 CCACAATTTTTGACAAACAAAAAGAAA
1 CCACCATTTTTGACAAACAAAAAG-AA
* *
89330 CCACCATTTTTGACAAATATAAAGTAA
1 CCACCATTTTTGACAAACAAAAAG-AA
*
89357 CCACCATTGTTGACAAACA
1 CCACCATTTTTGACAAACA
89376 CATGGTGGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
24 22 0.35
27 40 0.65
ACGTcount: A:0.47, C:0.23, G:0.08, T:0.22
Consensus pattern (26 bp):
CCACCATTTTTGACAAACAAAAAGAA
Found at i:89394 original size:24 final size:25
Alignment explanation
Indices: 89363--89420 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
89353 GTAACCACCA
*
89363 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
89387 TTGTTGACAAACACAAAGGGTGGCTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
89413 TTGTTGAC
1 TTGTTGAC
89421 TAGCCACCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:90095 original size:24 final size:21
Alignment explanation
Indices: 90068--90112 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
90058 TATTATTAAT
90068 AAATCAAATAATTTTACTTTATTA
1 AAAT-AAA-AATTTTA-TTTATTA
*
90092 AAATAAAATTTTTATTTATTA
1 AAATAAAAATTTTATTTATTA
90113 TTAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 6 0.30
23 3 0.15
24 4 0.20
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATAAAAATTTTATTTATTA
Found at i:90167 original size:24 final size:25
Alignment explanation
Indices: 90139--90192 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
90129 AAATAATATT
*
90139 ATATAATTTATTAAC-ATTGTAT-AA
1 ATATAATATATTAACGA-TGTATCAA
*
90163 ATAT-ATATATTATCGATGTATCAA
1 ATATAATATATTAACGATGTATCAA
90187 ATATAA
1 ATATAA
90193 ACTTTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 11 0.44
25 1 0.04
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (25 bp):
ATATAATATATTAACGATGTATCAA
Found at i:91671 original size:17 final size:16
Alignment explanation
Indices: 91648--91689 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
91638 ACAATGATTC
*
91648 ATATATTTACATTATA
1 ATATATTTAAATTATA
*
91664 ATTATATTTAAATTATT
1 A-TATATTTAAATTATA
91681 ATATATTTA
1 ATATATTTA
91690 TATAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATATTTAAATTATA
Found at i:91683 original size:20 final size:20
Alignment explanation
Indices: 91658--91725 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
91648 ATATATTTAC
*
91658 ATTATA-ATTATATTTAAATT
1 ATTATATATT-TATATAAATT
91678 ATTATATATTTATATAAATT
1 ATTATATATTTATATAAATT
* *
91698 -TTAATATATTAATAATTAA-T
1 ATT-ATATATTTAT-ATAAATT
91718 ATTATATA
1 ATTATATA
91726 AATTTTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.05
20 30 0.73
21 9 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATATATTTATATAAATT
Found at i:91870 original size:17 final size:17
Alignment explanation
Indices: 91848--91881 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
91838 ATTTAAATAA
91848 ATTTAATTTAAATTATT
1 ATTTAATTTAAATTATT
*
91865 ATTTAATTTTAATTATT
1 ATTTAATTTAAATTATT
91882 TGATGGATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTAATTTAAATTATT
Found at i:92036 original size:17 final size:16
Alignment explanation
Indices: 92023--92096 Score: 58
Period size: 15 Copynumber: 5.0 Consensus size: 16
92013 AATATTTACT
92023 TTATAATTATATTTAAA
1 TTATAA-TATATTTAAA
92040 TTATAATATATTT--A
1 TTATAATATATTTAAA
92054 -TATAA-AT-TTTAATA
1 TTATAATATATTTAA-A
92068 TTATAATA-A-TTAATA
1 TTATAATATATTTAA-A
92083 TTAT-ATAT-TTTAAA
1 TTATAATATATTTAAA
92097 ATATTTATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 19
0.72 0.00 0.28
Matches are distributed among these distances:
11 3 0.06
12 2 0.04
13 5 0.10
14 6 0.12
15 19 0.39
16 8 0.16
17 6 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATAATATATTTAAA
Found at i:92095 original size:15 final size:15
Alignment explanation
Indices: 92054--92109 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
92044 AATATATTTA
*
92054 TATAAATTTTAATAT
1 TATATATTTTAATAT
*
92069 TATA-ATAATTAATAT
1 TATATAT-TTTAATAT
92084 TATATATTTTAAAATATT
1 TATATATTTT--AATA-T
92102 TATATATT
1 TATATATT
92110 CGTGATACGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 2 0.06
15 17 0.50
16 2 0.06
17 4 0.12
18 9 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATATATTTTAATAT
Found at i:92301 original size:21 final size:21
Alignment explanation
Indices: 92276--92319 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
92266 TTAATTTTAT
92276 AAAT-ATATAAATATTAAAATA
1 AAATAATAT-AATATTAAAATA
*
92297 AAATAATATAATATTATAATA
1 AAATAATATAATATTAAAATA
92318 AA
1 AA
92320 TAGTGAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATAATATAATATTAAAATA
Found at i:92432 original size:23 final size:24
Alignment explanation
Indices: 92405--92457 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
92395 CAACTCATAA
*
92405 ATATTTACATTAT-TTT-TAATATT
1 ATATTTA-ATTATATTTAAAATATT
92428 ATATTTTAATTATATTTAAAATATT
1 ATA-TTTAATTATATTTAAAATATT
92453 ATATT
1 ATATT
92458 CGATTTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 8 0.31
24 9 0.35
25 9 0.35
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
ATATTTAATTATATTTAAAATATT
Found at i:93319 original size:31 final size:31
Alignment explanation
Indices: 93243--93320 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
93233 ATTTTGTAAA
93243 ATTTTTTTATTTTT-TCTAAATTAAAAAAAT
1 ATTTTTTTATTTTTATCTAAATTAAAAAAAT
* * *
93273 ATTTTTATTTCTTTTTAT-TGAATTAAAAAATT
1 A-TTTT-TTTATTTTTATCTAAATTAAAAAAAT
93305 ATTTTTTGTATTTTTA
1 ATTTTTT-TATTTTTA
93321 AAATATAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 3 0.08
31 15 0.38
32 21 0.52
33 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (31 bp):
ATTTTTTTATTTTTATCTAAATTAAAAAAAT
Found at i:94287 original size:22 final size:22
Alignment explanation
Indices: 94253--94297 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
94243 TTCTTATTTT
*
94253 TTATTATATTCTTGTGTTATTA
1 TTATTATAATCTTGTGTTATTA
* * *
94275 TTATTGTAATCTTTTTTTATTA
1 TTATTATAATCTTGTGTTATTA
94297 T
1 T
94298 GCCTAAACTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (22 bp):
TTATTATAATCTTGTGTTATTA
Found at i:95762 original size:2 final size:2
Alignment explanation
Indices: 95755--95786 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
95745 GCTTAGCCAA
95755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95787 GAACCCTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96632 original size:2 final size:2
Alignment explanation
Indices: 96625--96662 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
96615 TATTTATGTT
96625 TA TA TA 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
96663 ATAGGTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96964 original size:30 final size:30
Alignment explanation
Indices: 96928--96990 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
96918 GAAAATACTC
96928 TTACAAAATTAAAATCAT-TTTAATTATATA
1 TTACAAAATT-AAATCATGTTTAATTATATA
*
96958 TTACAAAATTGAATCATGTTTAATTATATA
1 TTACAAAATTAAATCATGTTTAATTATATA
96988 TTA
1 TTA
96991 TTTTATATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.44
Consensus pattern (30 bp):
TTACAAAATTAAATCATGTTTAATTATATA
Found at i:103261 original size:2 final size:2
Alignment explanation
Indices: 103254--103284 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
103244 ATAATTTTTC
103254 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 T
103285 GCTTCAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:107989 original size:176 final size:176
Alignment explanation
Indices: 107713--108126 Score: 484
Period size: 176 Copynumber: 2.4 Consensus size: 176
107703 AATTAACCTA
* * * * *
107713 ATAATTTTAAATATTTTGATAATAAAATGCATTTATAAAGTTAAAAAATTATGAAGTAATAGGTT
1 ATAATTTTAAATATTTTAATAATAAAATGTATTTATAAAGCTAAAAAATTATAAAGTAATAAGTT
107778 TTAAAGAAAAATATAATTTGCCACTTTCATATTAAAATAT-AATAGTTTCTTAAGCATAAAAAAT
66 TTAAAGAAAAATATAATTTGCCACTTTCATATTAAAATATGAAT-GTTTCTTAAGCAT-AAAAAT
107842 TCATTTTACATAATTTTAAAATTTGAA-AATGTTT-AAATATTTATGGG
129 TCATTTTACATAATTTT-AAATTTGAATAATGTTTAAAATATTTATGGG
* * * *
107889 ATAATTTTAGATATTTCAATAATAAAATATATTTACT-AGGCTAAAAAATTACTAAAG-AATAAG
1 ATAATTTTAAATATTTTAATAATAAAATGTATTTA-TAAAGCTAAAAAATTA-TAAAGTAATAAG
* * * * *
107952 TTTTAAAGAAAAATGT-ATGTTGGCATTTTCGTATTAAATTATGAATGTTTCTTAAGCATAAAAA
64 TTTTAAAGAAAAATATAAT-TTGCCACTTTCATATTAAAATATGAATGTTTCTTAAGCATAAAAA
* * * * * * *
108016 TTTATTTTATATAATTTTAGATTTTAATATTTTTTAAAATATTTATTGG
128 TTCATTTTACATAATTTTAAATTTGAATAATGTTTAAAATATTTATGGG
** *
108065 ATAATTTTTTATATTTTAATAAGTAAAATGTATTTATTAAA--TAAAAAATTATAAAATAATAA
1 ATAATTTTAAATATTTTAATAA-TAAAATGTATTTA-TAAAGCTAAAAAATTATAAAGTAATAA
108127 ATTAAAAAAA
Statistics
Matches: 201, Mismatches: 28, Indels: 18
0.81 0.11 0.07
Matches are distributed among these distances:
174 7 0.03
175 32 0.16
176 140 0.70
177 21 0.10
178 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (176 bp):
ATAATTTTAAATATTTTAATAATAAAATGTATTTATAAAGCTAAAAAATTATAAAGTAATAAGTT
TTAAAGAAAAATATAATTTGCCACTTTCATATTAAAATATGAATGTTTCTTAAGCATAAAAATTC
ATTTTACATAATTTTAAATTTGAATAATGTTTAAAATATTTATGGG
Found at i:108991 original size:2 final size:2
Alignment explanation
Indices: 108984--109015 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
108974 GTTTTATAAC
108984 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
109016 GAGGAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:109598 original size:16 final size:16
Alignment explanation
Indices: 109577--109618 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
109567 ATTAAAATTA
109577 AATAAAAGAAAATAAT
1 AATAAAAGAAAATAAT
*
109593 AATAAAA-CAAATAAT
1 AATAAAAGAAAATAAT
*
109608 AA-ATAAGAAAA
1 AATAAAAGAAAA
109619 ACTTAAGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 3 0.14
15 12 0.55
16 7 0.32
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (16 bp):
AATAAAAGAAAATAAT
Found at i:110539 original size:22 final size:21
Alignment explanation
Indices: 110505--110545 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
110495 ATTAAAATAT
110505 TATTTTGATATTAATATTTATA
1 TATTTTGATATTAA-ATTTATA
110527 TATTTT-ATGATTAAATTTA
1 TATTTTGAT-ATTAAATTTA
110546 ATTAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TATTTTGATATTAAATTTATA
Found at i:110905 original size:18 final size:18
Alignment explanation
Indices: 110873--110924 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
110863 ACTCATAAGC
*
110873 TAATATT-ACTATTAAAA
1 TAATATTAAATATTAAAA
110890 TAATATTAAATATTAAAA
1 TAATATTAAATATTAAAA
*
110908 AAATATTAATATATTAA
1 TAATATTAA-ATATTAA
110925 TATTTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.23
18 17 0.55
19 7 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATATTAAATATTAAAA
Found at i:110988 original size:19 final size:20
Alignment explanation
Indices: 110949--110986 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
110939 ATAATTAAAT
110949 TTAAATAAAATATAATTTTA
1 TTAAATAAAATATAATTTTA
110969 TTAAAT-AAATAATAATTT
1 TTAAATAAAAT-ATAATTT
110987 ATATCAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAATAAAATATAATTTTA
Found at i:110988 original size:48 final size:48
Alignment explanation
Indices: 110894--110989 Score: 108
Period size: 48 Copynumber: 2.0 Consensus size: 48
110884 TTAAAATAAT
** *
110894 ATTAAATATTAAAAAAATATTAATATATTAATATTTATATATTTTATA
1 ATTAAATATTAAAAAAATATTAATATATTAATAAATATATAATTTATA
*
110942 ATTAAAT-TTAAATAAAATA-TAATTTTATTAAATAAATA-ATAATTTATA
1 ATTAAATATTAAA-AAAATATTAA-TATATT-AATAAATATATAATTTATA
110990 TCAACTTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
47 8 0.20
48 27 0.66
49 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (48 bp):
ATTAAATATTAAAAAAATATTAATATATTAATAAATATATAATTTATA
Found at i:111432 original size:22 final size:21
Alignment explanation
Indices: 111374--111433 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 21
111364 TATATATATA
111374 TTTTATAATTAAATTTAAATAAT
1 TTTTA-AATT-AATTTAAATAAT
*
111397 TTTTTAATT-A-TTAAAT-AT
1 TTTTAAATTAATTTAAATAAT
111415 TAATTTAAATTAATTTAAA
1 T--TTTAAATTAATTTAAA
111434 CAAATTCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 3 0.10
19 6 0.19
20 8 0.26
21 1 0.03
22 9 0.29
23 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTAAATTAATTTAAATAAT
Found at i:111439 original size:20 final size:20
Alignment explanation
Indices: 111416--111453 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
111406 ATTAAATATT
* *
111416 AATTTAAATTAATTTAAACA
1 AATTCAAATTAATCTAAACA
111436 AATTCAAATTAATCTAAA
1 AATTCAAATTAATCTAAA
111454 ACTTACAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTCAAATTAATCTAAACA
Found at i:113327 original size:14 final size:13
Alignment explanation
Indices: 113308--113455 Score: 75
Period size: 14 Copynumber: 10.3 Consensus size: 13
113298 TTTTTTCGAT
113308 ATAAAATTAAAATA
1 ATAAAATTAAAA-A
113322 ATAAAATAATAAAATA
1 ATAAAAT--TAAAA-A
*
113338 ATAAAAATAAAAA
1 ATAAAATTAAAAA
*
113351 ATTCAAAATCAAAAAA
1 A-T-AAAAT-TAAAAA
*
113367 ATTAAATTAAGAAA
1 ATAAAATTAA-AAA
113381 ATAAAAATATTAAATCAA
1 AT--AAA-ATTAAA--AA
*
113399 A-AAAATAAAAAA
1 ATAAAATTAAAAA
* *
113411 ATTAAAAATCAATAA
1 A-T-AAAATTAAAAA
113426 A-AAAATTAAAAA
1 ATAAAATTAAAAA
*
113438 ATCAAAAATAAAAA
1 AT-AAAATTAAAAA
113452 ATAA
1 ATAA
113456 TCGAATATTG
Statistics
Matches: 106, Mismatches: 12, Indels: 33
0.70 0.08 0.22
Matches are distributed among these distances:
12 13 0.12
13 6 0.06
14 39 0.37
15 18 0.17
16 22 0.21
17 5 0.05
18 3 0.03
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.22
Consensus pattern (13 bp):
ATAAAATTAAAAA
Found at i:113328 original size:8 final size:8
Alignment explanation
Indices: 113315--113455 Score: 63
Period size: 8 Copynumber: 18.4 Consensus size: 8
113305 GATATAAAAT
113315 TAAAATAA
1 TAAAATAA
113323 TAAAATAA
1 TAAAATAA
113331 TAAAATAA
1 TAAAATAA
113339 T-AAA-AA
1 TAAAATAA
113345 TAAAA-AA
1 TAAAATAA
113352 TTCAAAATCAA
1 -T-AAAAT-AA
*
113363 -AAAA-AT
1 TAAAATAA
*
113369 TAAATTAA
1 TAAAATAA
*
113377 GAAAAT-A
1 TAAAATAA
113384 -AAAAT-A
1 TAAAATAA
*
113390 TTAAATCAA
1 TAAAAT-AA
*
113399 AAAAATAA
1 TAAAATAA
* *
113407 AAAAATTA
1 TAAAATAA
113415 -AAAATCAA
1 TAAAAT-AA
*
113423 TAAAAAAA
1 TAAAATAA
113431 TTAAAA-AA
1 -TAAAATAA
*
113439 TCAAA-AA
1 TAAAATAA
113446 TAAAA-AA
1 TAAAATAA
113453 TAA
1 TAA
113456 TCGAATATTG
Statistics
Matches: 107, Mismatches: 13, Indels: 27
0.73 0.09 0.18
Matches are distributed among these distances:
6 10 0.09
7 36 0.34
8 41 0.38
9 18 0.17
11 2 0.02
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.21
Consensus pattern (8 bp):
TAAAATAA
Found at i:113333 original size:22 final size:22
Alignment explanation
Indices: 113308--113452 Score: 81
Period size: 22 Copynumber: 6.6 Consensus size: 22
113298 TTTTTTCGAT
*
113308 ATAAAATTAAAATAATAAAATA
1 ATAAAATTAAAAAAATAAAATA
113330 ATAAAA-TAATAAAAATAAAA-A
1 ATAAAATTAA-AAAAATAAAATA
* *
113351 ATTCAAAATCAAAAAAATTAAATTA
1 A-T-AAAATTAAAAAAA-TAAAATA
* * *
113376 AGAAAA-TAAAAATATTAAATCA
1 ATAAAATTAAAAAAATAAAAT-A
* *
113398 A-AAAAATAAAAAAATTAAA-A
1 ATAAAATTAAAAAAATAAAATA
*
113418 AT-CAA-TAAAAAAATTAAAA-A
1 ATAAAATTAAAAAAA-TAAAATA
*
113438 ATCAAAAATAAAAAA
1 AT-AAAATTAAAAAA
113453 TAATCGAATA
Statistics
Matches: 98, Mismatches: 12, Indels: 25
0.73 0.09 0.19
Matches are distributed among these distances:
19 8 0.08
20 11 0.11
21 13 0.13
22 38 0.39
23 20 0.20
24 6 0.06
25 2 0.02
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.21
Consensus pattern (22 bp):
ATAAAATTAAAAAAATAAAATA
Found at i:113430 original size:20 final size:20
Alignment explanation
Indices: 113331--113451 Score: 74
Period size: 20 Copynumber: 6.0 Consensus size: 20
113321 AATAAAATAA
*
113331 TAAAATAATAAAAATAAAAAAT
1 TAAAA-AATCAAAA-AAAAAAT
*
113353 T-CAAAATCAAAAAAATTAAAT
1 TAAAAAATCAAAAAAA--AAAT
*
113374 TAAGAAAAT-AAAAATATTAAA-
1 TAA-AAAATCAAAAA-A-AAAAT
* *
113395 TCAAAAA--AATAAAAAAAT
1 TAAAAAATCAAAAAAAAAAT
*
113413 T-AAAAATCAATAAAAAAAT
1 TAAAAAATCAAAAAAAAAAT
113432 TAAAAAATCAAAAATAAAAA
1 TAAAAAATCAAAAA-AAAAA
113452 ATAATCGAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
17 8 0.10
18 2 0.03
19 19 0.24
20 22 0.28
21 14 0.17
22 9 0.11
23 6 0.08
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.21
Consensus pattern (20 bp):
TAAAAAATCAAAAAAAAAAT
Found at i:113868 original size:17 final size:18
Alignment explanation
Indices: 113848--113881 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
113838 CAACAATAGA
113848 GTGAAAGA-CAAAGCAAC
1 GTGAAAGAGCAAAGCAAC
*
113865 GTGAAATAGCAAAGCAA
1 GTGAAAGAGCAAAGCAA
113882 GTATTGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.15, G:0.24, T:0.09
Consensus pattern (18 bp):
GTGAAAGAGCAAAGCAAC
Found at i:114998 original size:18 final size:19
Alignment explanation
Indices: 114961--114998 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
114951 AAAGAAAAAA
*
114961 GAAAAAATAGAAAATATAG
1 GAAAAAATAGAAAAGATAG
*
114980 GAAAAAATA-AAAAGCTAG
1 GAAAAAATAGAAAAGATAG
114998 G
1 G
114999 CTAGTTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.66, C:0.03, G:0.18, T:0.13
Consensus pattern (19 bp):
GAAAAAATAGAAAAGATAG
Found at i:115271 original size:17 final size:17
Alignment explanation
Indices: 115249--115283 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
115239 GCTGGTCGAA
115249 TGTTTTAGGAAGATGAT
1 TGTTTTAGGAAGATGAT
115266 TGTTTTAGGAAGATGAT
1 TGTTTTAGGAAGATGAT
115283 T
1 T
115284 AGCATATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (17 bp):
TGTTTTAGGAAGATGAT
Found at i:119273 original size:58 final size:59
Alignment explanation
Indices: 119204--119315 Score: 190
Period size: 58 Copynumber: 1.9 Consensus size: 59
119194 GTATGAAATG
* *
119204 TTTATGCATGAAATGAACATATGCGTGCATGAAACATGAAAG-AAGTAAGCATGGAATA
1 TTTATGCATGAAATGAACATATGCATGCATGAAACATGAAAGAAAATAAGCATGGAATA
*
119262 TTTATGCATGAAATGAACATATGCATGCATGGAACATGAAAGAAAATAAGCATG
1 TTTATGCATGAAATGAACATATGCATGCATGAAACATGAAAGAAAATAAGCATG
119316 AAATTGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
58 40 0.80
59 10 0.20
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (59 bp):
TTTATGCATGAAATGAACATATGCATGCATGAAACATGAAAGAAAATAAGCATGGAATA
Found at i:119591 original size:19 final size:17
Alignment explanation
Indices: 119566--119610 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
119556 TTGTCGTATT
119566 AAATGAAAGTAATGTCATG
1 AAATGAAAGTAAT-T-ATG
* *
119585 GAATGAATGTAATTATG
1 AAATGAAAGTAATTATG
119602 AAATGAAAG
1 AAATGAAAG
119611 CATGAAATGC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 10 0.45
18 1 0.05
19 11 0.50
ACGTcount: A:0.49, C:0.02, G:0.22, T:0.27
Consensus pattern (17 bp):
AAATGAAAGTAATTATG
Found at i:122852 original size:62 final size:59
Alignment explanation
Indices: 122723--122856 Score: 153
Period size: 62 Copynumber: 2.2 Consensus size: 59
122713 AAAAAGTGTT
* * *
122723 TTACTTTTTGAGGATTAAATAGTGCTACAACTTGTGTAGGTTTTAAAATTAAAAAACGTA
1 TTACTTTTTGAGGATTAAAAAATGCTACAACTTGTGTAGGTTTTAAAA-TAAAAAACATA
* * * *
122783 TTGCTTTTTGAGGATTAAAAAAATGCTACCAACTTGTGTAAGTTTTTAAAA-AGAAAAGCATC
1 TTACTTTTTGAGGATT-AAAAAATGCTA-CAACTTGTGT-AGGTTTTAAAATA-AAAAACATA
122845 TTACTTTTTGAG
1 TTACTTTTTGAG
122857 AAGTGTAACA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
60 15 0.24
61 10 0.16
62 27 0.44
63 10 0.16
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (59 bp):
TTACTTTTTGAGGATTAAAAAATGCTACAACTTGTGTAGGTTTTAAAATAAAAAACATA
Found at i:126694 original size:69 final size:66
Alignment explanation
Indices: 126603--126752 Score: 164
Period size: 69 Copynumber: 2.2 Consensus size: 66
126593 ACAGAACATA
* *
126603 TTTTTCTTTTTAAAGCTTACACA-AGCTGAT-GCACCACTTTTATCTTTTTTAGTCCAT-ATAGA
1 TTTTT-TTTTTAAAGCTCACACATA-CTGATGGCA-CA-TTTTATCTTTTTT-GT-CATCAAAGA
126665 GAAAGAC
60 GAAAGAC
* * *
126672 GTTTTTTTTTTAAAGCTCACACATACTGGTGGTACATTTTATCTTTTTTGTCATCAAAGAGCAAG
1 -TTTTTTTTTTAAAGCTCACACATACTGATGGCACATTTTATCTTTTTTGTCATCAAAGAGAAAG
126737 AC
65 AC
126739 -TTTTTTTTTAAAGC
1 TTTTTTTTTTAAAGC
126753 CCAAAGAAGT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
65 14 0.19
66 3 0.04
67 12 0.17
68 13 0.18
69 22 0.31
70 8 0.11
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (66 bp):
TTTTTTTTTTAAAGCTCACACATACTGATGGCACATTTTATCTTTTTTGTCATCAAAGAGAAAGA
C
Found at i:126774 original size:40 final size:42
Alignment explanation
Indices: 126730--126812 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 42
126720 TGTCATCAAA
*
126730 GAGCAAGAC-TTTTTT-TTTAAAGCCCAAAGAAGTTGGTGGC
1 GAGCAAAACTTTTTTTCTTTAAAGCCCAAAGAAGTTGGTGGC
* *
126770 GAGCAAAACTTTTTTTTCTTTAATGTCCAAAGAAGTTGGTGGC
1 GAGCAAAAC-TTTTTTTCTTTAAAGCCCAAAGAAGTTGGTGGC
126813 ACCTATTTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 8 0.22
42 6 0.16
43 23 0.62
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (42 bp):
GAGCAAAACTTTTTTTCTTTAAAGCCCAAAGAAGTTGGTGGC
Found at i:129484 original size:120 final size:120
Alignment explanation
Indices: 129360--129577 Score: 314
Period size: 120 Copynumber: 1.8 Consensus size: 120
129350 GACGAGGCTA
*
129360 GAGTATCCCCTCGAAAAACGGGGTTGGAGTATCCCCATAAATGA-TAATTTTGGTAAGTTTCAAA
1 GAGTATCCCCTCGAAAAACGGGGTTGGAGTATCCCCATAAATGACT-ATTTTAGTAAGTTTCAAA
* * * *
129424 ATTTGAATGAGGTTTGCAAAAGCA-AGGTTGGAGTTTTCTCTCAAAAGACAAGGTTG
65 ATTCGAATAAGGTTTACAAAAACAGA-GTTGGAGTTTTCTCTCAAAAGACAAGGTTG
* * * * *
129480 GAGTATCTCTTCGAAAGACGGGGTTGGAGTATCCCCGTAAATTACTATTTTAGTAAGTTTCAAAA
1 GAGTATCCCCTCGAAAAACGGGGTTGGAGTATCCCCATAAATGACTATTTTAGTAAGTTTCAAAA
129545 TTCGAATAAGGTTTACAAAAACAGAGTTGGAGT
66 TTCGAATAAGGTTTACAAAAACAGAGTTGGAGT
129578 ATCTCTTCGG
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
120 84 0.98
121 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (120 bp):
GAGTATCCCCTCGAAAAACGGGGTTGGAGTATCCCCATAAATGACTATTTTAGTAAGTTTCAAAA
TTCGAATAAGGTTTACAAAAACAGAGTTGGAGTTTTCTCTCAAAAGACAAGGTTG
Found at i:129510 original size:26 final size:27
Alignment explanation
Indices: 129440--129512 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 27
129430 ATGAGGTTTG
*
129440 CAAAAG-CAAGGTTGGAGT-TTTCTCT
1 CAAAAGACAAGGTTGGAGTATCTCTCT
129465 CAAAAGACAAGGTTGGAGTATCTCT-T
1 CAAAAGACAAGGTTGGAGTATCTCTCT
* **
129491 CGAAAGACGGGGTTGGAGTATC
1 CAAAAGACAAGGTTGGAGTATC
129513 CCCGTAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 6 0.14
26 32 0.76
27 4 0.10
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (27 bp):
CAAAAGACAAGGTTGGAGTATCTCTCT
Found at i:131281 original size:434 final size:431
Alignment explanation
Indices: 130008--131283 Score: 1867
Period size: 434 Copynumber: 2.9 Consensus size: 431
129998 TTGAAAAGTT
* *
130008 AACTCGATAAGAATCAATATAAAATTATTTTAAAAATCCTAAAAAAATTGTCTCTTAGGTGGAAA
1 AACTCGATAAGAATCAATATAAAATTATTTCAAAAATCTTAAAAAAATTGTCTCTTAGGTGGAAA
* * * * *
130073 TATTTTTCACATTAAGGACTGGTTCGACACTAACAGCATATGTAAGGGAAGTGTGGCAGCTGATT
66 TATTTTTCACATTAGGGACTGGTTCGACACTAATAGCATATGTAGGGGAAGTGGGGCAGCTGACT
130138 TTGAAAAATCATTCCAAACTCATGCAGAATCATTAAATCGCAAAAGATACCTTTATAAAAAGGGA
131 TTGAAAAATCATTCCAAACTCATGCAGAATCATTAAATCGCAAAAGATACCTTTATAAAAAGGGA
* * *
130203 ATTTCTTGAAATTTTTTTGAAAAATATTTGAAAAATCCAAAAAAATTTTGGTGGGCTGAATCGGC
196 ATTTCATGAAATTTTTATGAAAAATATTTGAAAAATCCAAAAAAA-TCTGGTGGGCTGAATCGGC
* *
130268 CCAAACAAAATATGACTCGTTGATTTTAGGGGTTTCGGATAGCAAAACTTC--AAAATCATAACT
260 CCAAACAAAATATGACTCGTTGATTCTAGGGGTTTCGGATAGCAAAACTTCAAAAAATCATAACA
*
130331 CCTTCATTCGGATTGA-TCTGAGCGCAAATAAGACATCATTGGAAAGGTGATTTGATGTCCTTAT
325 CCTT-ATTCGGATTGATTC-GAGCGCAAACAAGACATCATTGGAAAGGTGATTTGATG-CCTTAT
* * * **
130395 AGGGAAAATGT-TATAAAATTCGTGAAAATATTTTTTGCATTAAG
387 AGGAAAAATGTCAAAAAAATTCGTGAAAATATTTTTCACATTAAG
*
130439 AACTCGATAAGAATCAATATAAAATTATTTCAAAAATCTTTAAAAAATTGTCTCTTAGGTGGAAA
1 AACTCGATAAGAATCAATATAAAATTATTTCAAAAATCTTAAAAAAATTGTCTCTTAGGTGGAAA
* * *
130504 TATTTTTCACATTAGGGACTGGTTCGACACTAATAGCATATGTAGAGGAAGTGGGGTAGCTAACT
66 TATTTTTCACATTAGGGACTGGTTCGACACTAATAGCATATGTAGGGGAAGTGGGGCAGCTGACT
* * *
130569 TTGAAAAATCATTCCAAACTCATACAGAATCGTTAAATCACAAAAGATACCTTTATAAAAAGGGA
131 TTGAAAAATCATTCCAAACTCATGCAGAATCATTAAATCGCAAAAGATACCTTTATAAAAAGGGA
* *
130634 ATTTCATGAATTTTTTGTGAAAAATATTTGAAAAATCCAAAAAAATCTGGTGGGCTGAATCGGCC
196 ATTTCATGAAATTTTTATGAAAAATATTTGAAAAATCCAAAAAAATCTGGTGGGCTGAATCGGCC
* * *
130699 CAAACAAAATATGACTCATTGATTCTAGGAGTTTCGGATAGCAAAACTTCAAAAAATCGT-A-A-
261 CAAACAAAATATGACTCGTTGATTCTAGGGGTTTCGGATAGCAAAACTTCAAAAAATCATAACAC
* * *
130761 C---TTC---TTCATTCGAACGCAAACAAGACATCATTGAAAAGGTGATTTGATGCCCTTATAGG
326 CTTATTCGGATTGATTCGAGCGCAAACAAGACATCATTGGAAAGGTGATTTGATG-CCTTATA-G
130820 GAAAAATGTCAAAAAAAAGTCAAAAAATTCGTGAAAATATTTTTCACATTAAG
389 GAAAAATGTC-------A---AAAAAATTCGTGAAAATATTTTTCACATTAAG
*
130873 AACTCGATAAGAATCAATATAAAATTATTTCAAAAATATTAAAAAAATTGTCTCTTAGGTGGAAA
1 AACTCGATAAGAATCAATATAAAATTATTTCAAAAATCTTAAAAAAATTGTCTCTTAGGTGGAAA
* * *
130938 TATTTTTCGCATTAGGGACTGGTTCGACATTGATAGCATATGTAGGGGAAGTGGGGCAGCTGACT
66 TATTTTTCACATTAGGGACTGGTTCGACACTAATAGCATATGTAGGGGAAGTGGGGCAGCTGACT
* *
131003 TTGAAAAATCATTCCAAACTCATGCAGAATCATTAAATTGCAAAAGATACCTTTATAAAAAAGGA
131 TTGAAAAATCATTCCAAACTCATGCAGAATCATTAAATCGCAAAAGATACCTTTATAAAAAGGGA
* * *
131068 ATTTCATGAACTTTTTATGAAAAATATTTGAAAAATCCAAACAAATCTGATGGGCTGAATCGGCC
196 ATTTCATGAAATTTTTATGAAAAATATTTGAAAAATCCAAAAAAATCTGGTGGGCTGAATCGGCC
* * * *
131133 CAAAGAAAATATGACTTGCTGATTCAAGGGGTTTCGGATAGCAAAACTTCAAAAAATCATAACAC
261 CAAACAAAATATGACTCGTTGATTCTAGGGGTTTCGGATAGCAAAACTTCAAAAAATCATAACAC
*
131198 CTTTATTCGGATTGATTCGAGCGCAAACAAGACATCAGTGGAAAGGTGATTTGATGCCTTTATAG
326 C-TTATTCGGATTGATTCGAGCGCAAACAAGACATCATTGGAAAGGTGATTTGATGCC-TTATAG
131263 GAAAAAATGTCAAAAAAATTC
389 G-AAAAATGTCAAAAAAATTC
131284 ACGAAAAATT
Statistics
Matches: 757, Mismatches: 61, Indels: 51
0.87 0.07 0.06
Matches are distributed among these distances:
422 45 0.06
423 11 0.01
425 3 0.00
429 1 0.00
430 66 0.09
431 224 0.30
432 7 0.01
434 334 0.44
435 1 0.00
436 1 0.00
437 2 0.00
441 3 0.00
443 4 0.01
444 55 0.07
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (431 bp):
AACTCGATAAGAATCAATATAAAATTATTTCAAAAATCTTAAAAAAATTGTCTCTTAGGTGGAAA
TATTTTTCACATTAGGGACTGGTTCGACACTAATAGCATATGTAGGGGAAGTGGGGCAGCTGACT
TTGAAAAATCATTCCAAACTCATGCAGAATCATTAAATCGCAAAAGATACCTTTATAAAAAGGGA
ATTTCATGAAATTTTTATGAAAAATATTTGAAAAATCCAAAAAAATCTGGTGGGCTGAATCGGCC
CAAACAAAATATGACTCGTTGATTCTAGGGGTTTCGGATAGCAAAACTTCAAAAAATCATAACAC
CTTATTCGGATTGATTCGAGCGCAAACAAGACATCATTGGAAAGGTGATTTGATGCCTTATAGGA
AAAATGTCAAAAAAATTCGTGAAAATATTTTTCACATTAAG
Found at i:134165 original size:18 final size:17
Alignment explanation
Indices: 134142--134177 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
134132 TTGTGGTGAG
134142 AAAGAAGAAAGAAAAAAA
1 AAAGAA-AAAGAAAAAAA
*
134160 AAAGAATAAGAAAAAAA
1 AAAGAAAAAGAAAAAAA
134177 A
1 A
134178 TCAAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAGAAAAAGAAAAAAA
Found at i:138536 original size:20 final size:19
Alignment explanation
Indices: 138511--138585 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
138501 AAAAAGACAT
*
138511 AATGTATCAATACATTGAA
1 AATGTATCGATACATTGAA
* *
138530 GAATGTATTGATACATTCATA
1 -AATGTATCGATACATTGA-A
*
138551 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTG-AA
*
138571 AATATATCGATACAT
1 AATGTATCGATACAT
138586 CTAGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Done.