Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 17 of 199
Found at i:7084728 original size:9 final size:9
Alignment explanation
Indices: 7084714--7084763 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
7084704 CTGAAAGTTT
7084714 TAAAAATAA
1 TAAAAATAA
7084723 TAAAAATAA
1 TAAAAATAA
7084732 T-AAAATATA
1 TAAAAATA-A
* *
7084741 TAACAAT-T
1 TAAAAATAA
*
7084749 TAAAAACAA
1 TAAAAATAA
7084758 TAAAAA
1 TAAAAA
7084764 AAAATAGGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
8 11 0.33
9 18 0.55
10 4 0.12
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAAAATAA
Found at i:7090866 original size:32 final size:32
Alignment explanation
Indices: 7090830--7090890 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
7090820 TGGTGGTTGT
*
7090830 CATTATTGATTGTCTCCCATTAATGTTAATGC
1 CATTATTAATTGTCTCCCATTAATGTTAATGC
*
7090862 CATTATTAATTGTCTTCCATTAATGTTAA
1 CATTATTAATTGTCTCCCATTAATGTTAA
7090891 CAATCTCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (32 bp):
CATTATTAATTGTCTCCCATTAATGTTAATGC
Found at i:7092820 original size:21 final size:21
Alignment explanation
Indices: 7092794--7092834 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7092784 ATCTGCTCAA
* *
7092794 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
7092815 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
7092835 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:7107252 original size:17 final size:18
Alignment explanation
Indices: 7107218--7107263 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
7107208 CCGTTATGTC
7107218 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
7107233 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
7107250 CGCGACCGCGACCG
1 CGCGACCGCGACCG
7107264 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:7125291 original size:24 final size:23
Alignment explanation
Indices: 7125259--7125304 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7125249 AAATTGAAAT
* *
7125259 AAATCATTAATTATTATATTTTTA
1 AAATAATT-ATTATTAAATTTTTA
*
7125283 AAATAATTATTTTTAAATTTTT
1 AAATAATTATTATTAAATTTTT
7125305 TGAACTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
AAATAATTATTATTAAATTTTTA
Found at i:7129376 original size:13 final size:13
Alignment explanation
Indices: 7129358--7129383 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7129348 ACAGTATTAA
7129358 AAGTAACTTGGGT
1 AAGTAACTTGGGT
7129371 AAGTAACTTGGGT
1 AAGTAACTTGGGT
7129384 TATAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
AAGTAACTTGGGT
Found at i:7138588 original size:20 final size:21
Alignment explanation
Indices: 7138551--7138589 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7138541 GAAAAAAATA
*
7138551 TGTAAAAATCAATGAAATTTT
1 TGTAAAAATCAATAAAATTTT
*
7138572 TGTAAAAAT-GATAAAATT
1 TGTAAAAATCAATAAAATT
7138590 AAGGCATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (21 bp):
TGTAAAAATCAATAAAATTTT
Found at i:7144170 original size:33 final size:32
Alignment explanation
Indices: 7144133--7144194 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
7144123 ATTGATGTTG
*
7144133 TAGCAAAATAGTGATAAAACAATAA-AAAAATAA
1 TAGCAAAACAGT-A-AAAACAATAAGAAAAATAA
*
7144166 TAGCAAAACAGTAAAAAGAATAAGAAAAA
1 TAGCAAAACAGTAAAAACAATAAGAAAAA
7144195 GCAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 9 0.35
32 6 0.23
33 11 0.42
ACGTcount: A:0.68, C:0.06, G:0.11, T:0.15
Consensus pattern (32 bp):
TAGCAAAACAGTAAAAACAATAAGAAAAATAA
Found at i:7148330 original size:14 final size:14
Alignment explanation
Indices: 7148311--7148350 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7148301 TTGATTAGCA
7148311 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
7148325 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
7148339 GGAAAATGTTTT
1 GTAAAATGTTTT
7148351 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:7148363 original size:34 final size:35
Alignment explanation
Indices: 7148319--7148385 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
7148309 CAGTAAAATG
* *
7148319 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
7148353 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
7148386 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:7148372 original size:20 final size:20
Alignment explanation
Indices: 7148334--7148373 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7148324 CGTAAAATGA
**
7148334 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
7148354 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
7148374 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:7149934 original size:13 final size:13
Alignment explanation
Indices: 7149916--7149941 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7149906 CCAGAAATTG
7149916 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
7149929 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
7149942 TACCCATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:7153236 original size:21 final size:21
Alignment explanation
Indices: 7153205--7153304 Score: 75
Period size: 21 Copynumber: 4.9 Consensus size: 21
7153195 TTAAAATTAA
7153205 TATAAAT-TTATAAAAAAACT
1 TATAAATATTATAAAAAAACT
* *
7153225 TATAAATATTATACAAATACT
1 TATAAATATTATAAAAAAACT
* *
7153246 AATAAATTATT-TTAAAAAA-T
1 TATAAA-TATTATAAAAAAACT
* *
7153266 TATAAA-ATTAATAAAACACATT
1 TATAAATATT-ATAAAA-AAACT
*
7153288 TA-AAATTTTATAAAAAA
1 TATAAATATTATAAAAAA
7153305 TCACCAAAAC
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
18 3 0.05
20 18 0.29
21 32 0.52
22 9 0.15
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
TATAAATATTATAAAAAAACT
Found at i:7154840 original size:17 final size:18
Alignment explanation
Indices: 7154795--7154841 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
7154785 TATATAGGCA
7154795 ACATTTTTATTATTATTT
1 ACATTTTTATTATTATTT
7154813 ACATTAATTTATTA-TATATT
1 ACATT--TTTATTATTAT-TT
7154833 A-ATTTTTAT
1 ACATTTTTAT
7154842 GTTTTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 6 0.23
20 10 0.38
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
ACATTTTTATTATTATTT
Found at i:7157607 original size:20 final size:21
Alignment explanation
Indices: 7157582--7157621 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7157572 TTTAATAATT
*
7157582 TAAATATAA-TATTTTTTAAG
1 TAAATAAAAGTATTTTTTAAG
7157602 TAAATAAAAGTATTTTTTAA
1 TAAATAAAAGTATTTTTTAA
7157622 AACTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
TAAATAAAAGTATTTTTTAAG
Found at i:7166585 original size:55 final size:55
Alignment explanation
Indices: 7166476--7166585 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 55
7166466 TCGTCTTAAT
* * * * ** *
7166476 TGTTGGAATATTGCTTCTTTTGAATATATTTTTTATACGCTTAAATCGATTGTTA
1 TGTTAGAATATTGCTTCTTTTGAATAGATTGTTTATACACTTAAATAAACTGTTA
* * *
7166531 TGTTAGAATATTGCTTCTTTTGAATCGATTGTTTATATATTTAAATAAACTGTTA
1 TGTTAGAATATTGCTTCTTTTGAATAGATTGTTTATACACTTAAATAAACTGTTA
7166586 CATAATAGTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (55 bp):
TGTTAGAATATTGCTTCTTTTGAATAGATTGTTTATACACTTAAATAAACTGTTA
Found at i:7168396 original size:40 final size:39
Alignment explanation
Indices: 7168336--7168464 Score: 95
Period size: 40 Copynumber: 3.3 Consensus size: 39
7168326 AACACACTAG
* *
7168336 TTTGGCACCCAAG-GCCTCATCAGATAATTCGAAGTAATAA
1 TTTGACACCC-AGTGCCTCATC-GATAATCCGAAGTAATAA
* *
7168376 TTTGACACCCAGTGCCTCATCGGTTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATC-GATAATCCGAAGTAATAA
* * * * *
7168414 -TTGGCACTCAATGCCTCATCGAATTAATGCGAAGTAGTAA
1 TTTGACACCCAGTGCCTCATCG-A-TAATCCGAAGTAATAA
*
7168454 ATTGACACCCA
1 TTTGACACCCA
7168465 ATATCTCATC
Statistics
Matches: 69, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
36 1 0.01
37 17 0.25
38 11 0.16
39 3 0.04
40 29 0.42
41 8 0.12
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (39 bp):
TTTGACACCCAGTGCCTCATCGATAATCCGAAGTAATAA
Found at i:7169745 original size:7 final size:7
Alignment explanation
Indices: 7169735--7169761 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7169725 TTATTATTCA
7169735 TTATTAG
1 TTATTAG
7169742 TTATTAG
1 TTATTAG
7169749 TTATTAG
1 TTATTAG
7169756 TTATTA
1 TTATTA
7169762 TTAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (7 bp):
TTATTAG
Found at i:7169745 original size:14 final size:13
Alignment explanation
Indices: 7169728--7169764 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
7169718 AAGATATTTA
7169728 TTATTCATTATTAG
1 TTATT-ATTATTAG
7169742 TTATTAGTTATTAG
1 TTATTA-TTATTAG
7169756 TTATTATTA
1 TTATTATTA
7169765 AATTAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (13 bp):
TTATTATTATTAG
Found at i:7170067 original size:14 final size:14
Alignment explanation
Indices: 7170045--7170101 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
7170035 AATAATTAAT
7170045 TAAACATAAAAGAAA
1 TAAA-ATAAAAGAAA
*
7170060 TAAAATAAAGGAAA
1 TAAAATAAAAGAAA
* *
7170074 TAAAGT-AAAGTAAGT
1 TAAAATAAAAG-AA-A
7170089 TAAAATAAAAGAA
1 TAAAATAAAAGAA
7170102 TAGAAGGAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.09
14 16 0.47
15 11 0.32
16 4 0.12
ACGTcount: A:0.68, C:0.02, G:0.12, T:0.18
Consensus pattern (14 bp):
TAAAATAAAAGAAA
Found at i:7170160 original size:11 final size:11
Alignment explanation
Indices: 7170144--7170169 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7170134 TAGAAGAGAC
7170144 GAAACAGGGGA
1 GAAACAGGGGA
7170155 GAAACAGGGGA
1 GAAACAGGGGA
7170166 GAAA
1 GAAA
7170170 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:7170837 original size:12 final size:12
Alignment explanation
Indices: 7170820--7170862 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
7170810 ATGTGAAGTA
7170820 AGTATTAATATT
1 AGTATTAATATT
*
7170832 AGTATTAATATA
1 AGTATTAATATT
* *
7170844 ATTATTAGTATT
1 AGTATTAATATT
*
7170856 ATTATTA
1 AGTATTA
7170863 TTATGAGTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (12 bp):
AGTATTAATATT
Found at i:7170851 original size:18 final size:18
Alignment explanation
Indices: 7170828--7170866 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7170818 TAAGTATTAA
7170828 TATTAGTATTAATATAAT
1 TATTAGTATTAATATAAT
* *
7170846 TATTAGTATTATTATTAT
1 TATTAGTATTAATATAAT
7170864 TAT
1 TAT
7170867 GAGTGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TATTAGTATTAATATAAT
Found at i:7171280 original size:37 final size:38
Alignment explanation
Indices: 7171221--7171316 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 38
7171211 CGGATAGATT
* * *
7171221 CGATGAGCTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGC-ACTGGGTGCCAACTATTGCTTCGAACTAT-C
*
7171258 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAG-CACTGGGTGCCAACTATTGCTTCGAACTATC
7171297 CGATGAGGCACTGGGTGCCA
1 CGATGA-GCACTGGGTGCCA
7171317 TTCTGGTGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
37 19 0.39
38 3 0.06
39 23 0.47
40 4 0.08
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (38 bp):
CGATGAGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:7172367 original size:4 final size:4
Alignment explanation
Indices: 7172360--7172411 Score: 52
Period size: 4 Copynumber: 12.2 Consensus size: 4
7172350 CTCCTTCCTA
*
7172360 TCTT TCTT T-TT TCTTT TTTT TCTT TCTT TCTATT TCGTT TCTT TCTT
1 TCTT TCTT TCTT TC-TT TCTT TCTT TCTT TC--TT TC-TT TCTT TCTT
7172407 TCTT T
1 TCTT T
7172412 TTATTTATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
3 3 0.07
4 27 0.66
5 7 0.17
6 4 0.10
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (4 bp):
TCTT
Found at i:7172402 original size:19 final size:17
Alignment explanation
Indices: 7172362--7172412 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 17
7172352 CCTTCCTATC
*
7172362 TTTCTTT-TTTCTTTTT
1 TTTCTTTCTTTCTTTTG
7172378 TTTCTTTCTTTCTATTTCG
1 TTTCTTTCTTTCT-TTT-G
7172397 TTTCTTTCTTTCTTTT
1 TTTCTTTCTTTCTTTT
7172413 TATTTATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 7 0.23
17 5 0.16
18 6 0.19
19 13 0.42
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTCTTTCTTTCTTTTG
Found at i:7172404 original size:23 final size:23
Alignment explanation
Indices: 7172360--7172417 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
7172350 CTCCTTCCTA
* * *
7172360 TCTTTCTTTTTTCTTTTTTTTCTT
1 TCTTTC-TATTTCGTTTCTTTCTT
7172384 TCTTTCTATTTCGTTTCTTTCTT
1 TCTTTCTATTTCGTTTCTTTCTT
*
7172407 TCTTTTTATTT
1 TCTTTCTATTT
7172418 ATTCTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (23 bp):
TCTTTCTATTTCGTTTCTTTCTT
Found at i:7172507 original size:5 final size:5
Alignment explanation
Indices: 7172497--7172525 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7172487 TATATATTAT
7172497 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
7172526 TACACTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:7172515 original size:57 final size:53
Alignment explanation
Indices: 7172408--7172510 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 53
7172398 TTCTTTCTTT
7172408 CTTTTTATTTATTCTTTATTTTTTTATTATAATATAATATAATATAATATATA
1 CTTTTTATTTATTCTTTATTTTTTTATTATAATATAATATAATATAATATATA
*
7172461 CTTTTTATTTATTCTTTA-TTTTTTATTAT-ATATTATTATAATATAATATA
1 CTTTTTATTTATTCTTTATTTTTTTATTATAATA-TAATATAATATAATATA
7172511 ATATAATATA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
51 3 0.06
52 27 0.56
53 18 0.38
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (53 bp):
CTTTTTATTTATTCTTTATTTTTTTATTATAATATAATATAATATAATATATA
Found at i:7180122 original size:14 final size:14
Alignment explanation
Indices: 7180093--7180121 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7180083 TATATTTTGA
7180093 TTAATTATTATATT
1 TTAATTATTATATT
7180107 TTAA-TATTATATT
1 TTAATTATTATATT
7180120 TT
1 TT
7180122 TCTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTAATTATTATATT
Found at i:7199693 original size:3 final size:3
Alignment explanation
Indices: 7199678--7199708 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7199668 GTGATTGTTA
*
7199678 TAT TAT TAG TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7199709 TTCTTTACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:7205555 original size:2 final size:2
Alignment explanation
Indices: 7205548--7205575 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7205538 AAGTGTCCTT
7205548 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
7205576 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7206020 original size:33 final size:33
Alignment explanation
Indices: 7205978--7206048 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
7205968 TTAATGAATT
7205978 ACAAGAGAAAAATAAAGTTTTCACAACAACGCG
1 ACAAGAGAAAAATAAAGTTTTCACAACAACGCG
7206011 ACAAGAGAAAAATAAAGTTTTCACAACAACGCG
1 ACAAGAGAAAAATAAAGTTTTCACAACAACGCG
7206044 ACAAG
1 ACAAG
7206049 TACAGTTGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.52, C:0.18, G:0.15, T:0.14
Consensus pattern (33 bp):
ACAAGAGAAAAATAAAGTTTTCACAACAACGCG
Found at i:7211400 original size:14 final size:15
Alignment explanation
Indices: 7211375--7211405 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
7211365 TTGACTTAAA
7211375 TTTAATTACTAAATT
1 TTTAATTACTAAATT
7211390 TTTAA-TACTAAATT
1 TTTAATTACTAAATT
7211404 TT
1 TT
7211406 ATAAGTGTTG
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:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAATTACTAAATT
Found at i:7215528 original size:29 final size:32
Alignment explanation
Indices: 7215486--7215549 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
7215476 TTAATCTCAC
* *
7215486 AAAAATTTCAATTAAAC-C-CAATTTTTTTAA
1 AAAAAATTCAATTAAACTCTAAATTTTTTTAA
7215516 AAAAAATTC-ATTAAACTTCTAAATTTTTTTAA
1 AAAAAATTCAATTAAAC-TCTAAATTTTTTTAA
7215548 AA
1 AA
7215550 TTTTACTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.24
30 8 0.28
31 1 0.03
32 13 0.45
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (32 bp):
AAAAAATTCAATTAAACTCTAAATTTTTTTAA
Found at i:7216114 original size:20 final size:20
Alignment explanation
Indices: 7216077--7216115 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7216067 CTTTTGCCTT
* *
7216077 AAAAAAAAGGTCATATTTAA
1 AAAAAAAAAGTCAAATTTAA
*
7216097 AAAAAAAAATTCAAATTTA
1 AAAAAAAAAGTCAAATTTA
7216116 TTTTTCAAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAAAAAAAGTCAAATTTAA
Found at i:7220536 original size:95 final size:94
Alignment explanation
Indices: 7220410--7220711 Score: 254
Period size: 95 Copynumber: 3.2 Consensus size: 94
7220400 TAAATAAAGG
* * * * * *
7220410 ATTAGGGTTTAGGGTT-TTTCAATTAAATTAATTATAAATGTTTCAAAAT-TAGATTA-GTTTTC
1 ATTAGGGTTTAGGGTTACTT-AAGTAAATTAATTATAAAT-TTTAAAAATCAAG-TTAGGGTTTA
* ** * *
7220472 GTGTTTATTGTTTTTTAAGAAAAAATTAATTAA
63 GAG-TTAAAGTTTTTTAAGAAAAAATCAAATAA
* * *
7220505 GTTAGGGTTTAGGGTTACTTAAGTAATTTAATTAAAAAATTTTAAAAATCAAGTTAGGGTTTAGA
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATT-ATAAATTTTAAAAATCAAGTTAGGGTTTAGA
7220570 GTTAAAGTTTTTTAAGAAAAAATCAAATAA
65 GTTAAAGTTTTTTAAGAAAAAATCAAATAA
* * * * *
7220600 ATTAGCGTTCATGGTTACTTAAGTAAATTAATTATAATTTTTAATAAAT-TAGTTAAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTAA-AAATCAAGTT-AGGGTTTAG
* * * * *
7220664 TA-TTTAGGGTTTTTAAGTAAAAACTTAAATAA
64 -AGTTAAAGTTTTTTAAG-AAAAAATCAAATAA
* *
7220696 ATTAAGGTTTGGGGTT
1 ATTAGGGTTTAGGGTT
7220712 TAGGGTTACT
Statistics
Matches: 167, Mismatches: 32, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
94 13 0.08
95 115 0.69
96 39 0.23
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.42
Consensus pattern (94 bp):
ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTTAAAAATCAAGTTAGGGTTTAGAG
TTAAAGTTTTTTAAGAAAAAATCAAATAA
Found at i:7220919 original size:126 final size:126
Alignment explanation
Indices: 7220745--7221036 Score: 440
Period size: 126 Copynumber: 2.3 Consensus size: 126
7220735 TTGTTAATTT
* ** *
7220745 AAAGAAGCTCTCACGTGGACGCGCTTTTACTACAGTAGGTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCCCCTAAAAAAATAATTTCGAGTAGAC
* * * *
7220810 GTTTCTGAGTAAATAGTGTCAAAAATGCTTTAAGAAGGATGCTTTGTCAGTAGAAATACTG
66 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAATACTG
* *
7220871 AAAGAATCTCTCACGTGGACGCGCTTTTGCTACAGTATCCCCTAAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCCCCTAAAAAAATAATTTCGAGTAGAC
* * *
7220936 GTTTCTGAGCAAACATTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAATACTG
* **
7220997 AAAGAAGCTCCCACAAGGACGCGCTTTTGCTACAGTAGCC
1 AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCC
7221037 TTTGAAAAAA
Statistics
Matches: 148, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 148 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (126 bp):
AAAGAAGCTCTCACGTGGACGCGCTTTTGCTACAGTAGCCCCTAAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAATACTG
Found at i:7221049 original size:44 final size:44
Alignment explanation
Indices: 7220995--7221079 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
7220985 GCAGAAGTAC
*
7220995 TGAAAGAAGCTCCCACAAGGACGCGCTTTTGCTACAGTAGCCTT
1 TGAAAAAAGCTCCCACAAGGACGCGCTTTTGCTACAGTAGCCTT
**
7221039 TGAAAAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
1 TGAAAAAAGCTCCCACAAGGACGCGCTTTTGCTACAGTAGC
7221080 GCATTGCCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (44 bp):
TGAAAAAAGCTCCCACAAGGACGCGCTTTTGCTACAGTAGCCTT
Found at i:7225499 original size:46 final size:46
Alignment explanation
Indices: 7225442--7225673 Score: 340
Period size: 46 Copynumber: 5.0 Consensus size: 46
7225432 CCATGGCAAA
*
7225442 TTGTGAAAAGTAGGTATGGTGCTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * * *
7225488 TTGCGAAAAGTACGTATGGTATTTC-GATAAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAG-TGAAGAAAACCATACTGAG
* *
7225534 TTGTGAAAAGCATGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
*
7225580 TTGTGAAAAGTAGGTATGGTGTTTCATTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * * *
7225626 TTGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAATCATATTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
7225672 TT
1 TT
7225674 ATAGCAATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 164 0.99
47 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:7233569 original size:11 final size:11
Alignment explanation
Indices: 7233555--7233612 Score: 71
Period size: 11 Copynumber: 5.2 Consensus size: 11
7233545 TTTTAAATAA
*
7233555 AAATTTAAGAG
1 AAATTTGAGAG
7233566 AAATTTGAGAG
1 AAATTTGAGAG
*
7233577 GAATTTGAGAG
1 AAATTTGAGAG
*
7233588 GAATTTGAGAG
1 AAATTTGAGAG
*
7233599 AATATTAGAGAG
1 AA-ATTTGAGAG
7233611 AA
1 AA
7233613 TATTAGAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
11 32 0.76
12 10 0.24
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.26
Consensus pattern (11 bp):
AAATTTGAGAG
Found at i:7233581 original size:22 final size:21
Alignment explanation
Indices: 7233556--7233621 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
7233546 TTTAAATAAA
7233556 AATTTAAGAGAAATTTGAGAGG
1 AATTTAAGAGAAATTTGAGA-G
* *
7233578 AATTTGAGAGGAATTTGAGAG
1 AATTTAAGAGAAATTTGAGAG
*
7233599 AATATTAGAGAGAATATTAGAGA
1 AAT-TTA-AGAGAA-ATTTGAGA
7233622 AAGGGTTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 4 0.11
22 20 0.56
23 5 0.14
24 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (21 bp):
AATTTAAGAGAAATTTGAGAG
Found at i:7233611 original size:12 final size:11
Alignment explanation
Indices: 7233570--7233622 Score: 58
Period size: 11 Copynumber: 4.8 Consensus size: 11
7233560 TAAGAGAAAT
7233570 TTGAGAGGAAT-
1 TTGAGA-GAATA
7233581 TTGAGAGGAAT-
1 TTGAGA-GAATA
7233592 TTGAGAGAATA
1 TTGAGAGAATA
7233603 TTAGAGAGAATA
1 TT-GAGAGAATA
7233615 TT-AGAGAA
1 TTGAGAGAA
7233623 AGGGTTTAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.25
11 19 0.47
12 11 0.28
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.26
Consensus pattern (11 bp):
TTGAGAGAATA
Found at i:7241753 original size:20 final size:20
Alignment explanation
Indices: 7241728--7241777 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
7241718 TGGCTTAAAA
7241728 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
7241748 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
7241765 GTGGTAGTGGATT
1 TTGGTAGTGGATT
7241778 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:7246392 original size:20 final size:20
Alignment explanation
Indices: 7246367--7246416 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
7246357 TGGCTTAAAA
7246367 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
7246387 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
7246404 GTGGTAGTGGATT
1 TTGGTAGTGGATT
7246417 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:7268730 original size:3 final size:3
Alignment explanation
Indices: 7268722--7268747 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7268712 TTTTATTCTT
7268722 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
7268748 GGTCAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:7271371 original size:13 final size:13
Alignment explanation
Indices: 7271355--7271394 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
7271345 TTTAAATCAA
7271355 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* * *
7271368 ACTTCTCCACAGC
1 ACTTTTCAAAAGC
7271381 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
7271394 A
1 A
7271395 ATGAAGGACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:7279791 original size:2 final size:2
Alignment explanation
Indices: 7279784--7279809 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7279774 TAGACCAATA
7279784 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
7279810 GTGCAATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7300792 original size:5 final size:5
Alignment explanation
Indices: 7300778--7300820 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
7300768 CAATATTAAG
7300778 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
7300821 GTAAAACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:7301605 original size:24 final size:23
Alignment explanation
Indices: 7301573--7301619 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
7301563 TTTGTAATTG
7301573 AAATGTATTG-ATTTAGTATGTGAT
1 AAATGTATTGAATTTA-TAT-TGAT
*
7301597 AAATTTATTGAATTTATATTGAT
1 AAATGTATTGAATTTATATTGAT
7301620 TGAATTGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (23 bp):
AAATGTATTGAATTTATATTGAT
Found at i:7301623 original size:15 final size:15
Alignment explanation
Indices: 7301602--7301648 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
7301592 GTGATAAATT
7301602 TATTGAATTTATAT-
1 TATTGAATTTATATA
7301616 TGATTGAATTGGTATATA
1 T-ATTGAATT--TATATA
*
7301634 TATTGAATATATATA
1 TATTGAATTTATATA
7301649 CTGGTTGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 1 0.04
15 14 0.50
17 12 0.43
18 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (15 bp):
TATTGAATTTATATA
Found at i:7301805 original size:41 final size:39
Alignment explanation
Indices: 7301761--7301895 Score: 130
Period size: 41 Copynumber: 3.4 Consensus size: 39
7301751 GACTTCGAGT
*
7301761 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTGATT
1 CGATGAGACACTGGGTGTCAATTTACTACTT-GGATT-ATC
* * * *
7301802 CGATGAGGCACTGGGTGCCAATTTACT--TTGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTTACTACTTGGATTATC
* * * *
7301839 CGATGAGACACTGGATGTCAAATTATTACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAATTTACTAC-TTGGATTATC
* *
7301879 CGATGAGATACTAGGTG
1 CGATGAGACACTGGGTG
7301896 CCAAACTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 23 0.31
38 4 0.05
39 2 0.03
40 21 0.28
41 25 0.33
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTTACTACTTGGATTATC
Found at i:7301882 original size:40 final size:40
Alignment explanation
Indices: 7301761--7301900 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
7301751 GACTTCGAGT
* * * *
7301761 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTGATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATT-ATC
* * * *
7301802 CGATGAGGCACTGGGTG-CCAA-T-TTACTTTGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
* *
7301839 CGATGAGACACTGGATGTCAAATTATTACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
* * *
7301879 CGATGAGATACTAGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
7301901 CTGGTGTGTT
Statistics
Matches: 78, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 16 0.21
38 12 0.15
39 2 0.03
40 32 0.41
41 16 0.21
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
Found at i:7313536 original size:16 final size:17
Alignment explanation
Indices: 7313515--7313548 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7313505 TAAAAGAACT
7313515 TTAAAAGTATAAA-AAA
1 TTAAAAGTATAAATAAA
*
7313531 TTAAAATTATAAATAAA
1 TTAAAAGTATAAATAAA
7313548 T
1 T
7313549 ATAAGTGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TTAAAAGTATAAATAAA
Found at i:7314376 original size:16 final size:18
Alignment explanation
Indices: 7314349--7314383 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7314339 ATGTGATTTA
7314349 TAAAATTTTATAA-ATAT
1 TAAAATTTTATAATATAT
7314366 TAAAA-TTTATAATATAT
1 TAAAATTTTATAATATAT
7314383 T
1 T
7314384 TTTAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATTTTATAATATAT
Found at i:7316628 original size:37 final size:37
Alignment explanation
Indices: 7316578--7316652 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
7316568 GATCACAGTG
7316578 AGGAAAGCTTGTGCTTAATGAGGAAGCAAATTTGGAC
1 AGGAAAGCTTGTGCTTAATGAGGAAGCAAATTTGGAC
7316615 AGGAAAGCTTGTGCTTAATGAGGAAGCAAATTTGGAC
1 AGGAAAGCTTGTGCTTAATGAGGAAGCAAATTTGGAC
7316652 A
1 A
7316653 CTCGGAATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.24
Consensus pattern (37 bp):
AGGAAAGCTTGTGCTTAATGAGGAAGCAAATTTGGAC
Found at i:7316809 original size:12 final size:12
Alignment explanation
Indices: 7316794--7316822 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7316784 TTTGACTGAT
7316794 TATTTGAGTTAG
1 TATTTGAGTTAG
7316806 TATTTGAGTTAG
1 TATTTGAGTTAG
7316818 TATTT
1 TATTT
7316823 CAGTGAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (12 bp):
TATTTGAGTTAG
Found at i:7318218 original size:20 final size:21
Alignment explanation
Indices: 7318189--7318233 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
7318179 TATAATTGAA
*
7318189 TTAATGAATT-AATTAAAGGT
1 TTAATGAATTCAATAAAAGGT
* *
7318209 TTAATTAATTCAATAAAATGT
1 TTAATGAATTCAATAAAAGGT
7318230 TTAA
1 TTAA
7318234 ATATAAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (21 bp):
TTAATGAATTCAATAAAAGGT
Found at i:7324142 original size:25 final size:25
Alignment explanation
Indices: 7324108--7324155 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7324098 ATATATTATT
* *
7324108 TTTTATTAAATTATATTTAATAATA
1 TTTTAATAAAATATATTTAATAATA
*
7324133 TTTTAATAAAATATGTTTAATAA
1 TTTTAATAAAATATATTTAATAA
7324156 CAATCCTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TTTTAATAAAATATATTTAATAATA
Found at i:7326519 original size:222 final size:222
Alignment explanation
Indices: 7326133--7326578 Score: 883
Period size: 222 Copynumber: 2.0 Consensus size: 222
7326123 TAAAATTTCA
7326133 ACATAGGTTAAGTAGTATTTAATACTAGGATTCTAAAAACATAAAAATTACAAGAAAAGAGACTA
1 ACATAGGTTAAGTAGTATTTAATACTAGGATTCTAAAAACATAAAAATTACAAGAAAAGAGACTA
7326198 AATTAGCTTACCAATTAAGCTTTGAACCCTTGAAAACCCTAACACTATGTTTGGTTGAGTGTATT
66 AATTAGCTTACCAATTAAGCTTTGAACCCTTGAAAACCCTAACACTATGTTTGGTTGAGTGTATT
7326263 GGATTAGCCAATACACCCCTAATCCGTGGGCCCCACTTAAGCCCCTCTTAAGCAGTTGTTTGGTT
131 GGATTAGCCAATACACCCCTAATCCGTGGGCCCCACTTAAGCCCCTCTTAAGCAGTTGTTTGGTT
7326328 CAATATATTGGCTAATACACCCCTAAT
196 CAATATATTGGCTAATACACCCCTAAT
7326355 ACATAGGTTAAGTAGTATTTAATACTAGGATTCTAAAAACATAAAAATTACAAGAAAAGAGACTA
1 ACATAGGTTAAGTAGTATTTAATACTAGGATTCTAAAAACATAAAAATTACAAGAAAAGAGACTA
7326420 AATTAGCTTACCAATTAAGCTTTGAACCCTTGAAAACCCTAACACTATGTTTGGTTGAGTGTATT
66 AATTAGCTTACCAATTAAGCTTTGAACCCTTGAAAACCCTAACACTATGTTTGGTTGAGTGTATT
7326485 GGATTAGCCAATACACCCCTAATCCGTGGGCCCCACTTAAGCCCCTCTTAAGCAGTTGTTTGGTT
131 GGATTAGCCAATACACCCCTAATCCGTGGGCCCCACTTAAGCCCCTCTTAAGCAGTTGTTTGGTT
*
7326550 CAATGTATTGGCTAATACACCCCTAAT
196 CAATATATTGGCTAATACACCCCTAAT
7326577 AC
1 AC
7326579 GTTACGGCTC
Statistics
Matches: 223, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
222 223 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (222 bp):
ACATAGGTTAAGTAGTATTTAATACTAGGATTCTAAAAACATAAAAATTACAAGAAAAGAGACTA
AATTAGCTTACCAATTAAGCTTTGAACCCTTGAAAACCCTAACACTATGTTTGGTTGAGTGTATT
GGATTAGCCAATACACCCCTAATCCGTGGGCCCCACTTAAGCCCCTCTTAAGCAGTTGTTTGGTT
CAATATATTGGCTAATACACCCCTAAT
Found at i:7330248 original size:9 final size:9
Alignment explanation
Indices: 7330230--7330264 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
7330220 TCCACTCTTC
7330230 TAAA-TTTT
1 TAAATTTTT
7330238 TAAATTTTT
1 TAAATTTTT
7330247 TAAATTTTT
1 TAAATTTTT
7330256 TAAATTTTT
1 TAAATTTTT
7330265 GTTGTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAAATTTTT
Found at i:7330423 original size:22 final size:22
Alignment explanation
Indices: 7330389--7330432 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7330379 CCTTATTTAA
**
7330389 TTTAAATTGATTAT-AATATTAT
1 TTTAAATAAATTATCAA-ATTAT
7330411 TTTAAATAAATTATCAAATTAT
1 TTTAAATAAATTATCAAATTAT
7330433 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTAAATAAATTATCAAATTAT
Found at i:7331170 original size:29 final size:28
Alignment explanation
Indices: 7331137--7331223 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
7331127 TCATAAGAAC
7331137 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* *
7331166 A-TTT-TAAATTATATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
7331190 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
7331220 ATTT
1 ATTT
7331224 CAAATTTTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
24 2 0.04
25 4 0.09
26 15 0.33
27 1 0.02
28 17 0.37
29 2 0.04
30 5 0.11
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:7331176 original size:26 final size:26
Alignment explanation
Indices: 7331145--7331229 Score: 91
Period size: 26 Copynumber: 3.2 Consensus size: 26
7331135 ACATTTTATG
7331145 AAATTATATTTAATAATAATTATTTT
1 AAATTATATTTAATAATAATTATTTT
* *
7331171 AAATTATATTAAATCATATATT-TTAATT
1 AAATTATATTTAATAATA-ATTATT--TT
* * *
7331199 AAAATATATTTAATATTAATTATTTC
1 AAATTATATTTAATAATAATTATTTT
7331225 AAATT
1 AAATT
7331230 TTCATTTAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
26 23 0.49
27 6 0.13
28 18 0.38
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
AAATTATATTTAATAATAATTATTTT
Found at i:7331399 original size:67 final size:66
Alignment explanation
Indices: 7331324--7331536 Score: 159
Period size: 67 Copynumber: 3.2 Consensus size: 66
7331314 ATTATAATGT
7331324 ATTT-AATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATTATGTTTAAATATGATTAAA-TATTTATTATTGATATTAATAATCTTATTA
7331388 AA
65 AA
* * ** * * * * * * *
7331390 ATTTAAATAACAATAACAAATTT--CTGCTAATTATAAGAATT-TTATT-AAATT-ATATATTTT
1 ATTTAAATAATAAT--TATGTTTAAAT-ATGATTA-AATATTTATTATTGATATTAATA-ATCTT
7331450 AATTAAAA
61 -ATT-AAA
* * *
7331458 TATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATTATGTTTAAATATGATT-AAATATTTATTATTGATATTAATAATCTTAT
7331523 TAAA
63 TAAA
7331527 ATTTAAATAA
1 ATTTAAATAA
7331537 CATTAACAAT
Statistics
Matches: 105, Mismatches: 26, Indels: 31
0.65 0.16 0.19
Matches are distributed among these distances:
65 3 0.03
66 12 0.11
67 24 0.23
68 17 0.16
69 20 0.19
70 19 0.18
71 7 0.07
72 3 0.03
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATTATGTTTAAATATGATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:7331434 original size:137 final size:138
Alignment explanation
Indices: 7331280--7331701 Score: 445
Period size: 137 Copynumber: 2.9 Consensus size: 138
7331270 TAAGAATATG
* *
7331280 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* * *
7331345 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAA
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
7331410 TTTCTGCT
131 TTTCTGCT
****
7331418 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
*
7331482 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAAT
66 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAAC-A-
*
7331547 AATCATT-TACCAAAAT
129 AAT--TTCT-GC----T
** * ** * * ** * *
7331563 AATT-TTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTAT
1 AATTATTAAG--AATTTTATTAA-ATTA-TATACCA-A-A-ATTAA----AATATATTTAATAAT
7331627 AATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATA
55 AATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATA
7331692 ACAATAACAA
120 ACAATAACAA
7331702 TAATCATTTA
Statistics
Matches: 240, Mismatches: 23, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
137 111 0.46
138 6 0.03
139 3 0.01
140 1 0.00
141 3 0.01
145 7 0.03
147 8 0.03
148 3 0.01
149 5 0.02
151 1 0.00
152 4 0.02
154 1 0.00
155 1 0.00
156 86 0.36
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:7331456 original size:18 final size:17
Alignment explanation
Indices: 7331428--7331462 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7331418 AATTATAAGA
*
7331428 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7331445 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7331463 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7331527 original size:70 final size:69
Alignment explanation
Indices: 7331314--7331528 Score: 176
Period size: 70 Copynumber: 3.1 Consensus size: 69
7331304 ATATACCAAA
* * * *
7331314 ATTATAATGTATTTAATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATA
1 ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAATA
7331379 ATCTT
65 ATCTT
* ** * ** * * *
7331384 ATTAAAATTTAAATAACAATAACAAAT-TTCTGCTAAT-T-A-TAAGAAT-TTTATTA-AATTAT
1 ATTAAAATATATTTAATAATAA-TTATGTT-T--AAATATGATTAA-AATATTTATTATGATAAT
*
7331443 -AT-ATTTT
61 AATAATCTT
7331450 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 -ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAAT
7331515 AATCTT
64 AATCTT
7331521 ATTAAAAT
1 ATTAAAAT
7331529 TTAAATAACA
Statistics
Matches: 107, Mismatches: 23, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
64 3 0.03
65 1 0.01
66 11 0.10
67 32 0.30
68 3 0.03
69 4 0.04
70 39 0.36
71 10 0.09
72 1 0.01
73 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (69 bp):
ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTATGATAATAATAA
TCTT
Found at i:7331534 original size:50 final size:51
Alignment explanation
Indices: 7331478--7331691 Score: 122
Period size: 50 Copynumber: 4.2 Consensus size: 51
7331468 AATAATTATG
7331478 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
** * * * * ** *
7331528 TTTAAATAACATTAACAATAATCATTTAC-CAAAATAATTTTCTGCTAATTATAA
1 TTTAAATATGATTAA-AATATTTA-TTACTGATAATAATAATCT--TAATTAAAA
* * * * * * *
7331582 ---GAATTTTATTAAATTATATATT-TTAATTAA-AATATAT-TTAATTATAATTA
1 TTTAAATATGATTAAAATATTTATTACTGA-TAATAATA-ATCTTAATTA-AA--A
7331632 TGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 --TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
7331684 TTTAAATA
1 TTTAAATA
7331692 ACAATAACAA
Statistics
Matches: 115, Mismatches: 30, Indels: 38
0.63 0.16 0.21
Matches are distributed among these distances:
47 6 0.05
48 1 0.01
49 7 0.06
50 29 0.25
51 24 0.21
52 5 0.04
53 1 0.01
54 8 0.07
55 26 0.23
56 8 0.07
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (51 bp):
TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
Found at i:7331586 original size:156 final size:156
Alignment explanation
Indices: 7331404--7331731 Score: 611
Period size: 156 Copynumber: 2.1 Consensus size: 156
7331394 AAATAACAAT
*
7331404 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
7331469 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
7331534 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
* *
7331560 AATAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
7331625 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
7331690 TAACAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
7331716 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
7331732 GGGTATTCTA
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 166 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:7331612 original size:18 final size:18
Alignment explanation
Indices: 7331584--7331632 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
7331574 AATTATAAGA
7331584 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
7331601 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
7331617 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
7331633 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:7331618 original size:16 final size:16
Alignment explanation
Indices: 7331584--7331638 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
7331574 AATTATAAGA
7331584 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
7331601 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
7331617 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
7331631 ATGTTTAA
1 AT-TTTAA
7331639 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:7331849 original size:44 final size:45
Alignment explanation
Indices: 7331784--7331869 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
7331774 ACCTCTATTC
* *
7331784 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCATTA
***
7331828 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCA
7331870 ATATACCTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 19 0.53
45 17 0.47
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.28
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCATTA
Found at i:7331894 original size:17 final size:16
Alignment explanation
Indices: 7331855--7331907 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
7331845 GATTAGCTAT
7331855 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
7331871 TATACCTCTAATATCAA
1 TACACCTCTAAT-CCAA
7331888 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7331904 TACA
1 TACA
7331908 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 18 0.56
17 14 0.44
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:7347696 original size:22 final size:22
Alignment explanation
Indices: 7347662--7347703 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7347652 TTTACCTACA
7347662 TAAAAAAACAAAAAAAATATAT
1 TAAAAAAACAAAAAAAATATAT
* * *
7347684 TAAAATAATAAAAATAATAT
1 TAAAAAAACAAAAAAAATAT
7347704 GCCAATAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAAAAAACAAAAAAAATATAT
Found at i:7348146 original size:39 final size:38
Alignment explanation
Indices: 7348068--7348149 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 38
7348058 AAATAAAATT
* ** * *
7348068 AAAATAATCAAAACAACATGCCAAATAAATTTCTTTAA
1 AAAAAAATCAAAACAACATAACAAATAAATTACTATAA
7348106 AAAAAAATCTAAAACACACATAACAAATAAATTAC-ATAA
1 AAAAAAATC-AAAACA-ACATAACAAATAAATTACTATAA
7348145 AAAAA
1 AAAAA
7348150 TAAAATATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 8 0.22
39 14 0.38
40 15 0.41
ACGTcount: A:0.63, C:0.15, G:0.01, T:0.21
Consensus pattern (38 bp):
AAAAAAATCAAAACAACATAACAAATAAATTACTATAA
Found at i:7352236 original size:25 final size:23
Alignment explanation
Indices: 7352161--7352261 Score: 89
Period size: 22 Copynumber: 4.3 Consensus size: 23
7352151 ACTAATGAAT
* *
7352161 AGAGAGCATTGAAGTGCTAT-AC
1 AGAGAGCACTGACGTGCTATAAC
* *
7352183 AGAGAGCACAGATGTGCTA-AAC
1 AGAGAGCACTGACGTGCTATAAC
*
7352205 GGAGAGCACTGACGTGCTAGTAATC
1 AGAGAGCACTGACGTGCTA-TAA-C
**
7352230 AGAGAGCACCAACGTGCTAATAATC
1 AGAGAGCACTGACGTGCT-ATAA-C
7352255 AGAGAGC
1 AGAGAGC
7352262 GCGCTAAAGT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
22 34 0.52
24 2 0.03
25 28 0.43
26 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.17
Consensus pattern (23 bp):
AGAGAGCACTGACGTGCTATAAC
Found at i:7352247 original size:47 final size:44
Alignment explanation
Indices: 7352162--7352249 Score: 106
Period size: 47 Copynumber: 1.9 Consensus size: 44
7352152 CTAATGAATA
* *
7352162 GAGAGCATTGAAGTGCTATACAGAGAGCACAGATGTGCTAAACG
1 GAGAGCACTGAAGTGCTATACAGAGAGCACAGACGTGCTAAACG
*
7352206 GAGAGCACTGACGTGCTAGTAATCAGAGAGCACCA-ACGTGCTAA
1 GAGAGCACTGAAGTGCTA-T-A-CAGAGAGCA-CAGACGTGCTAA
7352250 TAATCAGAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 16 0.43
45 1 0.03
46 1 0.03
47 17 0.46
48 2 0.05
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.17
Consensus pattern (44 bp):
GAGAGCACTGAAGTGCTATACAGAGAGCACAGACGTGCTAAACG
Found at i:7353247 original size:11 final size:13
Alignment explanation
Indices: 7353218--7353256 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
7353208 TCATTTACTT
7353218 TATAT-ATATATA
1 TATATAATATATA
7353230 TATATAATAT-TA
1 TATATAATATATA
7353242 TA-ATAATATA-A
1 TATATAATATATA
7353253 TATA
1 TATA
7353257 ACAACATACT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 10 0.42
12 10 0.42
13 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATAATATATA
Found at i:7372561 original size:28 final size:28
Alignment explanation
Indices: 7372509--7372577 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
7372499 AAATAAAAAA
* *
7372509 TTATCAAAATGT-TATAATTTTTTTTAT
1 TTATCAAAATATATATAAATTTTTTTAT
*
7372536 TTATCAATATATATATAAATTTTTTTAT
1 TTATCAAAATATATATAAATTTTTTTAT
7372564 TTATCAAAATATAT
1 TTATCAAAATATAT
7372578 CAAAAAAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 10 0.27
28 27 0.73
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (28 bp):
TTATCAAAATATATATAAATTTTTTTAT
Found at i:7372728 original size:10 final size:10
Alignment explanation
Indices: 7372713--7372865 Score: 72
Period size: 10 Copynumber: 15.3 Consensus size: 10
7372703 GAAGGAGAGG
7372713 GAAAGAAGAA
1 GAAAGAAGAA
7372723 GAAAGAAAGGAA
1 GAAAG-AA-GAA
*
7372735 GAAAGAAAAA
1 GAAAGAAGAA
*
7372745 GAAGGAA-AA
1 GAAAGAAGAA
* *
7372754 GGAAAGGAGAG
1 -GAAAGAAGAA
7372765 GAAAG-A-AA
1 GAAAGAAGAA
7372773 GAAA-AAGAA
1 GAAAGAAGAA
7372782 GGAAAGAA-AA
1 -GAAAGAAGAA
* *
7372792 GGAAAGGAGAG
1 -GAAAGAAGAA
7372803 GAAAG-A-AA
1 GAAAGAAGAA
*
7372811 GAAA-AATAA
1 GAAAGAAGAA
7372820 GGAAAGAA-AA
1 -GAAAGAAGAA
*
7372830 GGAAAGTAGAAGA
1 -GAAAGAAG-A-A
* *
7372843 GAAAAAAAAA
1 GAAAGAAGAA
7372853 GAAAGAAGAA
1 GAAAGAAGAA
7372863 GAA
1 GAA
7372866 GAGAGAAGGA
Statistics
Matches: 112, Mismatches: 15, Indels: 32
0.70 0.09 0.20
Matches are distributed among these distances:
8 12 0.11
9 8 0.07
10 66 0.59
11 11 0.10
12 14 0.12
13 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:7372758 original size:28 final size:30
Alignment explanation
Indices: 7372714--7372799 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 30
7372704 AAGGAGAGGG
7372714 AAAGAAGAAGAAAGAAAGGA-A-GAAAGAA
1 AAAGAAGAAGAAAGAAAGGAGAGGAAAGAA
*
7372742 AAAGAAGGAA-AAGGAAAGGAGAGGAAAGAA
1 AAAGAA-GAAGAAAGAAAGGAGAGGAAAGAA
* *
7372772 AGAAAAAGAAGGAAAGAAAAGGAAAGGA
1 A-AAGAAGAA-GAAAG-AAAGGAGAGGA
7372800 GAGGAAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
28 15 0.32
29 4 0.09
30 11 0.23
31 4 0.09
32 3 0.06
33 10 0.21
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (30 bp):
AAAGAAGAAGAAAGAAAGGAGAGGAAAGAA
Found at i:7372791 original size:38 final size:38
Alignment explanation
Indices: 7372712--7372892 Score: 177
Period size: 38 Copynumber: 4.9 Consensus size: 38
7372702 AGAAGGAGAG
*
7372712 GGAAAGAAGAA-GAAA-GAAAGG-AAGAAAGAAAAAGAA
1 GGAAAGAA-AAGGAAAGGAGAGGAAAGAAAGAAAAAGAA
7372748 -G---GAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAA
1 GGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAA
*
7372782 GGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAATAA
1 GGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAA
* * *
7372820 GGAAAGAAAAGGAAAGTAGA--AGAGAAAAAAAAAGAA
1 GGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAA
* * *
7372856 AG-AAGAAGAAGAGAGAAGGA-AGGAAAAAAAAAAAAAG
1 GGAAAGAA-AAG-GA-AAGGAGAGGAAAGAAAGAAAAAG
7372893 GTAATTTTTA
Statistics
Matches: 123, Mismatches: 10, Indels: 21
0.80 0.06 0.14
Matches are distributed among these distances:
31 2 0.02
32 7 0.06
33 5 0.04
34 15 0.12
35 7 0.06
36 17 0.14
37 3 0.02
38 55 0.45
39 12 0.10
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (38 bp):
GGAAAGAAAAGGAAAGGAGAGGAAAGAAAGAAAAAGAA
Found at i:7372807 original size:28 final size:28
Alignment explanation
Indices: 7372763--7372835 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
7372753 AGGAAAGGAG
* *
7372763 AGGAAAG-AAAGAAAAAGAAGGAAAGAA-A
1 AGGAAAGAAAAG-GAAAGAAAGAAA-AATA
* *
7372791 AGGAAAGGAGAGGAAAGAAAGAAAAATA
1 AGGAAAGAAAAGGAAAGAAAGAAAAATA
7372819 AGGAAAGAAAAGGAAAG
1 AGGAAAGAAAAGGAAAG
7372836 TAGAAGAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 2 0.05
28 33 0.87
29 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (28 bp):
AGGAAAGAAAAGGAAAGAAAGAAAAATA
Found at i:7373589 original size:19 final size:19
Alignment explanation
Indices: 7373565--7373616 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
7373555 AAAATATATA
*
7373565 TAATATTTTGA-TATTTTTT
1 TAATATTTT-ATTATTTTTG
7373584 TAATATTTTATTATTTTTG
1 TAATATTTTATTATTTTTG
*
7373603 TAATGTTTTATTAT
1 TAATATTTTATTAT
7373617 GGGTTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 1 0.03
19 29 0.97
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:7373695 original size:28 final size:27
Alignment explanation
Indices: 7373652--7373720 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
7373642 AAATAAAAAA
7373652 TTACCAAAATAT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTTAT
7373679 TTACCAAAATATATATAATTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
*
7373706 TTTCCAAAATATATA
1 TTACCAAAATATATA
7373721 AAAAAAGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 35 0.88
28 5 0.12
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:7373741 original size:16 final size:16
Alignment explanation
Indices: 7373720--7373750 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7373710 CAAAATATAT
*
7373720 AAAAAAAGTAAAAAAC
1 AAAAAAAATAAAAAAC
7373736 AAAAAAAATAAAAAA
1 AAAAAAAATAAAAAA
7373751 AACAGAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.03, G:0.03, T:0.06
Consensus pattern (16 bp):
AAAAAAAATAAAAAAC
Found at i:7373752 original size:9 final size:9
Alignment explanation
Indices: 7373729--7373762 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
7373719 TAAAAAAAGT
7373729 AAAAAACAA
1 AAAAAACAA
*
7373738 AAAAAATAA
1 AAAAAACAA
7373747 AAAAAACAGA
1 AAAAAACA-A
7373757 AAAAAA
1 AAAAAA
7373763 ACACACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.88, C:0.06, G:0.03, T:0.03
Consensus pattern (9 bp):
AAAAAACAA
Found at i:7376066 original size:3 final size:3
Alignment explanation
Indices: 7376058--7376083 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7376048 AGTAACATCT
7376058 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
7376084 CTATAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7376425 original size:27 final size:27
Alignment explanation
Indices: 7376395--7376461 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
7376385 TTGGCAGGAC
7376395 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
**
7376422 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGAACCCTTGTT
*
7376449 TGGTGCCACCAAC
1 TGGTGCCGCCAAC
7376462 CTGCTTCCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.16, C:0.31, G:0.28, T:0.24
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGAACCCTTGTT
Found at i:7376469 original size:27 final size:27
Alignment explanation
Indices: 7376395--7376471 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
7376385 TTGGCAGGAC
* ***
7376395 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCACCAACAGGCTTCCCTTGTT
* *
7376422 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCACCAACAGGCTTCCCTTGTT
**
7376449 TGGTGCCACCAACCTGCTTCCCT
1 TGGTGCCACCAACAGGCTTCCCT
7376472 CCACCCAGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.14, C:0.34, G:0.26, T:0.26
Consensus pattern (27 bp):
TGGTGCCACCAACAGGCTTCCCTTGTT
Found at i:7376539 original size:17 final size:16
Alignment explanation
Indices: 7376502--7376536 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
7376492 TCAGTCCAAG
7376502 TTTT-TTTTTTTTGTT
1 TTTTATTTTTTTTGTT
7376517 TTTTATTTTTTTTGTT
1 TTTTATTTTTTTTGTT
7376533 TTTT
1 TTTT
7376537 TATATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.03, C:0.00, G:0.06, T:0.91
Consensus pattern (16 bp):
TTTTATTTTTTTTGTT
Found at i:7376567 original size:27 final size:29
Alignment explanation
Indices: 7376537--7376602 Score: 111
Period size: 27 Copynumber: 2.4 Consensus size: 29
7376527 TTTGTTTTTT
7376537 TATATATTTTGGTAAAT-AAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
7376564 TATATATTTTGGTAAATAAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAAGTTA
7376593 TA-ATATTTTG
1 TATATATTTTG
7376603 ATAATTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
27 17 0.46
28 15 0.41
29 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAAGTTA
Found at i:7399707 original size:19 final size:19
Alignment explanation
Indices: 7399665--7399707 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7399655 TAATAAAATC
* *
7399665 ATTTT-TAATTATTTATTA
1 ATTTTATAAATATTTAATA
*
7399683 ACTTTATAAATATTTAATA
1 ATTTTATAAATATTTAATA
7399702 ATTTTA
1 ATTTTA
7399708 ATTTCTCATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTATAAATATTTAATA
Found at i:7400212 original size:13 final size:13
Alignment explanation
Indices: 7400194--7400227 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
7400184 ATATTTCATA
7400194 TCATCAAAACAAG
1 TCATCAAAACAAG
7400207 TCATCAAAACAAG
1 TCATCAAAACAAG
7400220 TCATCAAA
1 TCATCAAA
7400228 GCATCATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (13 bp):
TCATCAAAACAAG
Found at i:7402775 original size:11 final size:11
Alignment explanation
Indices: 7402761--7402835 Score: 70
Period size: 11 Copynumber: 7.2 Consensus size: 11
7402751 ATAAAAAATT
7402761 TATTTTAAAAA
1 TATTTTAAAAA
7402772 TATTTT-AAAA
1 TATTTTAAAAA
*
7402782 T-TTTAAAAAA
1 TATTTTAAAAA
* *
7402792 AATTTAAAAAA
1 TATTTTAAAAA
*
7402803 GTATTTTAAAAG
1 -TATTTTAAAAA
7402815 TATTTT--AAA
1 TATTTTAAAAA
7402824 -ATTTTAAAAA
1 TATTTTAAAAA
7402834 TA
1 TA
7402836 AATAAATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 5 0.10
9 5 0.10
10 12 0.23
11 22 0.42
12 8 0.15
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:7402778 original size:43 final size:43
Alignment explanation
Indices: 7402729--7402846 Score: 150
Period size: 43 Copynumber: 2.7 Consensus size: 43
7402719 CCAAAAAATT
* *
7402729 TATTTTAAAA-ATTAAAACAAAAATAAAAAATTTATTTTAAAAA
1 TATTTTAAAATTTTAAAA-AAAAATAAAAAATGTATTTTAAAAA
* *
7402772 TATTTTAAAATTTTAAAAAAAATTTAAAAAA-GTATTTTAAAAG
1 TATTTTAAAATTTTAAAAAAAA-ATAAAAAATGTATTTTAAAAA
*
7402815 TATTTTAAAATTTTAAAAATAAATAAATAAAT
1 TATTTTAAAATTTTAAAAAAAAATAAA-AAAT
7402847 AAATAAAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
42 4 0.06
43 48 0.74
44 13 0.20
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (43 bp):
TATTTTAAAATTTTAAAAAAAAATAAAAAATGTATTTTAAAAA
Found at i:7414521 original size:13 final size:13
Alignment explanation
Indices: 7414505--7414554 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
7414495 TTTAAACCGA
7414505 ACTTTTAAAAAAC
1 ACTTTTAAAAAAC
* * *
7414518 ACTTCTCAAAAGC
1 ACTTTTAAAAAAC
*
7414531 ACTTTTCAAAAAC
1 ACTTTTAAAAAAC
7414544 ACTTTTCAAAA
1 ACTTTT-AAAA
7414555 GTAATGAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 27 0.90
14 3 0.10
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (13 bp):
ACTTTTAAAAAAC
Found at i:7414534 original size:26 final size:26
Alignment explanation
Indices: 7414505--7414555 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
7414495 TTTAAACCGA
7414505 ACTTTTAAAAAACACTTCTCAAAAGC
1 ACTTTTAAAAAACACTTCTCAAAAGC
* *
7414531 ACTTTTCAAAAACACTTTTCAAAAG
1 ACTTTTAAAAAACACTTCTCAAAAG
7414556 TAATGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (26 bp):
ACTTTTAAAAAACACTTCTCAAAAGC
Found at i:7435305 original size:21 final size:23
Alignment explanation
Indices: 7435265--7435306 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
7435255 TCATGATTGT
7435265 TAAACATTTAGAACAAATAAATC
1 TAAACATTTAGAACAAATAAATC
*
7435288 TAAAC-TTTA-AACACATAAA
1 TAAACATTTAGAACAAATAAA
7435307 GATGTTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.26
Consensus pattern (23 bp):
TAAACATTTAGAACAAATAAATC
Found at i:7437067 original size:18 final size:18
Alignment explanation
Indices: 7437036--7437080 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
7437026 ATTCCCACTC
7437036 ATAATAATAATAATACTA
1 ATAATAATAATAATACTA
* *
7437054 ATAATTATATTAATACTA
1 ATAATAATAATAATACTA
*
7437072 ATATTAATA
1 ATAATAATA
7437081 CTTACTTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAATAATAATAATACTA
Found at i:7437082 original size:12 final size:12
Alignment explanation
Indices: 7437040--7437080 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
7437030 CCACTCATAA
*
7437040 TAATAATAATAC
1 TAATAATAATAT
*
7437052 TAATAATTATAT
1 TAATAATAATAT
*
7437064 TAATACTAATAT
1 TAATAATAATAT
7437076 TAATA
1 TAATA
7437081 CTTACTTCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:7437829 original size:19 final size:18
Alignment explanation
Indices: 7437798--7437834 Score: 65
Period size: 18 Copynumber: 2.0 Consensus size: 18
7437788 TTCTGTTTTG
7437798 TTTTTATTTCTTTACTTT
1 TTTTTATTTCTTTACTTT
7437816 TTTTTATTTACTTTACTTT
1 TTTTTATTT-CTTTACTTT
7437835 ATTTCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTATTTCTTTACTTT
Found at i:7437844 original size:19 final size:19
Alignment explanation
Indices: 7437798--7437844 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
7437788 TTCTGTTTTG
7437798 TTTT-TATTT-CTTTACTT
1 TTTTCTATTTACTTTACTT
*
7437815 TTTTTTATTTACTTTACTT
1 TTTTCTATTTACTTTACTT
7437834 TATTTCT-TTTA
1 T-TTTCTATTTA
7437845 TTATAACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 4 0.15
18 5 0.19
19 13 0.50
20 4 0.15
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCTATTTACTTTACTT
Found at i:7437998 original size:5 final size:5
Alignment explanation
Indices: 7437990--7438049 Score: 63
Period size: 5 Copynumber: 12.2 Consensus size: 5
7437980 TATTTAATTT
* *
7437990 ATATA ATATA ATATA ATACA ATATA ATATA TTATATT ATATA ATA-A A-ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA
7438040 ATAT- ATATA A
1 ATATA ATATA A
7438050 AACATAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
3 1 0.02
4 8 0.17
5 33 0.72
7 4 0.09
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:7438046 original size:27 final size:27
Alignment explanation
Indices: 7437984--7438049 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
7437974 GTCATCTATT
*
7437984 TAATTTATATAATATAATATAATACAATA
1 TAATATATATAATATAATATAATA-AA-A
*
7438013 TAATATAT-T-ATATTATATAATAAAA
1 TAATATATATAATATAATATAATAAAA
7438038 TAATATATATAA
1 TAATATATATAA
7438050 AACATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 9 0.27
26 3 0.09
27 13 0.39
28 1 0.03
29 7 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TAATATATATAATATAATATAATAAAA
Found at i:7446694 original size:13 final size:14
Alignment explanation
Indices: 7446678--7446707 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
7446668 AAGTCACCTT
7446678 AAAAAAAGAAAA-A
1 AAAAAAAGAAAATA
7446691 AAAAAAAGAAAATA
1 AAAAAAAGAAAATA
7446705 AAA
1 AAA
7446708 TCAAGTGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (14 bp):
AAAAAAAGAAAATA
Found at i:7446960 original size:27 final size:27
Alignment explanation
Indices: 7446930--7446987 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
7446920 GCTATCTATA
7446930 AATAATCCCAGAATGCGCTTCGTTTTC
1 AATAATCCCAGAATGCGCTTCGTTTTC
* *
7446957 AATAGTCCCAGAATGCTCTTCGTTTTC
1 AATAATCCCAGAATGCGCTTCGTTTTC
7446984 AATA
1 AATA
7446988 TATACTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (27 bp):
AATAATCCCAGAATGCGCTTCGTTTTC
Found at i:7467732 original size:24 final size:24
Alignment explanation
Indices: 7467704--7467754 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
7467694 AACCTATAAC
7467704 GGGTAGCTCTAAAGAGCAATTAAT
1 GGGTAGCTCTAAAGAGCAATTAAT
7467728 GGGTAGCTCTAAAGAGCAATTAAT
1 GGGTAGCTCTAAAGAGCAATTAAT
7467752 GGG
1 GGG
7467755 AAGCACCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (24 bp):
GGGTAGCTCTAAAGAGCAATTAAT
Found at i:7467854 original size:26 final size:26
Alignment explanation
Indices: 7467800--7467855 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
7467790 GAGCACTAAC
* *
7467800 GGGAAGCTTACAAAGAGCCTTTAATT
1 GGGAAGCTCACAAAGAGCCTATAATT
*
7467826 GGGAAGCTCACAAAGTGCCATATAA-T
1 GGGAAGCTCACAAAGAGCC-TATAATT
7467852 GGGA
1 GGGA
7467856 CACTCATAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (26 bp):
GGGAAGCTCACAAAGAGCCTATAATT
Found at i:7475068 original size:21 final size:21
Alignment explanation
Indices: 7475042--7475196 Score: 172
Period size: 21 Copynumber: 7.4 Consensus size: 21
7475032 CGTGTTTTAC
*
7475042 TTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAACTCTTACGAG
7475063 TTTCTGTT-AAGCTCTTACGAG
1 TTTCTGTTCAA-CTCTTACGAG
* *
7475084 CTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAACTCTTACGAG
* *
7475105 TTTCTGTTCAGCTTTTACGAG
1 TTTCTGTTCAACTCTTACGAG
* *
7475126 CTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAACTCTTACGAG
* *
7475147 TTTTTGTTCAGCTCTTACGAG
1 TTTCTGTTCAACTCTTACGAG
*
7475168 CTTCTGTT-AAGCTCTTACGAG
1 TTTCTGTTCAA-CTCTTACGAG
7475189 CTTT-TGTT
1 -TTTCTGTT
7475197 GGCTCAGTTG
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
20 3 0.03
21 104 0.94
22 4 0.04
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.46
Consensus pattern (21 bp):
TTTCTGTTCAACTCTTACGAG
Found at i:7475196 original size:42 final size:42
Alignment explanation
Indices: 7475043--7475184 Score: 241
Period size: 42 Copynumber: 3.4 Consensus size: 42
7475033 GTGTTTTACT
*
7475043 TTCTGTTCAACTCTTATGAGTTTCTGTTAAGCTCTTACGAGC
1 TTCTGTTCAACTCTTATGAGTTTCTGTTCAGCTCTTACGAGC
*
7475085 TTCTGTTCAACTCTTATGAGTTTCTGTTCAGCTTTTACGAGC
1 TTCTGTTCAACTCTTATGAGTTTCTGTTCAGCTCTTACGAGC
*
7475127 TTCTGTTCAACTCTTATGAGTTTTTGTTCAGCTCTTACGAGC
1 TTCTGTTCAACTCTTATGAGTTTCTGTTCAGCTCTTACGAGC
7475169 TTCTGTT-AAGCTCTTA
1 TTCTGTTCAA-CTCTTA
7475185 CGAGCTTTTG
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
41 2 0.02
42 93 0.98
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (42 bp):
TTCTGTTCAACTCTTATGAGTTTCTGTTCAGCTCTTACGAGC
Found at i:7477544 original size:50 final size:50
Alignment explanation
Indices: 7477486--7477728 Score: 369
Period size: 50 Copynumber: 4.8 Consensus size: 50
7477476 ATTTGGGTAA
*
7477486 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
7477536 AGAGGTCCCATGTAAGACCATGTCTGGGATATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
7477586 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
7477636 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGTACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
7477686 AGTACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
7477729 TGTTATGATC
Statistics
Matches: 173, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 140 0.81
51 33 0.19
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:7479565 original size:67 final size:67
Alignment explanation
Indices: 7479457--7479592 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
7479447 TGAATCGGCA
7479457 ATCAAAAGTTTGGTACCTAACCTGCGCACGTGAAACAAAACCGTACGCTAAGTATAAACTCAGTG
1 ATCAAAAGTTTGGTACCTAACCTGCGCACGTGAAACAAAACCGTACGCTAAGTATAAACTCAGTG
7479522 GT
66 GT
7479524 ATCAAAAGTTTGGTACCTAACCTGCGCACGTGAAACAAAACCGTACGCTAAGTATAAACTCAGTG
1 ATCAAAAGTTTGGTACCTAACCTGCGCACGTGAAACAAAACCGTACGCTAAGTATAAACTCAGTG
7479589 GT
66 GT
7479591 AT
1 AT
7479593 TTCTATAATC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (67 bp):
ATCAAAAGTTTGGTACCTAACCTGCGCACGTGAAACAAAACCGTACGCTAAGTATAAACTCAGTG
GT
Found at i:7481027 original size:16 final size:15
Alignment explanation
Indices: 7481006--7481070 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 15
7480996 TTCTCCTTCC
7481006 TTTCTTTCCGTTTTCT
1 TTTCTTT-CGTTTTCT
*
7481022 TTTCTTTCTTTTTCT
1 TTTCTTTCGTTTTCT
* *
7481037 TTGTGTTTCGTTTCTAT
1 TT-TCTTTCGTTT-TCT
7481054 CTTTCTTTC-TTTTCT
1 -TTTCTTTCGTTTTCT
7481069 TT
1 TT
7481071 ATTCTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
14 2 0.05
15 11 0.28
16 18 0.45
17 7 0.17
18 2 0.05
ACGTcount: A:0.02, C:0.20, G:0.06, T:0.72
Consensus pattern (15 bp):
TTTCTTTCGTTTTCT
Found at i:7482537 original size:17 final size:17
Alignment explanation
Indices: 7482515--7482548 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7482505 AGAACATAGA
7482515 ACTGTCCATGTTTGAGT
1 ACTGTCCATGTTTGAGT
7482532 ACTGTCCATGTTTGAGT
1 ACTGTCCATGTTTGAGT
7482549 TTGATTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (17 bp):
ACTGTCCATGTTTGAGT
Found at i:7483889 original size:21 final size:21
Alignment explanation
Indices: 7483865--7483904 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7483855 TTTCGTTGCT
* *
7483865 TCTGCCTTGGATTCTGAATAG
1 TCTGACTTGGATTCCGAATAG
*
7483886 TCTGACTTTGATTCCGAAT
1 TCTGACTTGGATTCCGAAT
7483905 GCAATTCTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (21 bp):
TCTGACTTGGATTCCGAATAG
Found at i:7485778 original size:72 final size:72
Alignment explanation
Indices: 7485686--7485857 Score: 260
Period size: 72 Copynumber: 2.4 Consensus size: 72
7485676 AACAACAATG
* * *
7485686 CTAAA-CTAGTTTCATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
7485750 ATTTAT-
66 ATTTATA
* * *
7485756 GTGTAATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
1 CT-AAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
7485821 TATTTATA
65 TATTTATA
7485829 CTAAAT-TAGTTTTATCAATAGTTGTTTAT
1 CTAAATCTAGTTTTATCAATAGTTGTTTAT
7485858 ATATGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
70 1 0.01
71 24 0.27
72 64 0.71
73 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
ATTTATA
Found at i:7487972 original size:118 final size:118
Alignment explanation
Indices: 7487827--7488069 Score: 423
Period size: 118 Copynumber: 2.1 Consensus size: 118
7487817 TAAAATGAAC
7487827 ATTTTATTTCTCAAAAATATTTTTTGACAGCAATACCAAACACTTAAAAATTTCAAAAGCACTTC
1 ATTTTATTTCTCAAAAATATTTTTTGACAGCAATACCAAACACTTAAAAATTTCAAAAGCACTTC
* *
7487892 TCAAAAGCAGTTTTTCATAGCACTTTTCAAAAACATTGCCAAACTAGTTCTAA
66 TCAAAAGCAGTTTTTCATAACACTTTTCAAAAACATTGCCAAACTAGCTCTAA
* * *
7487945 ATTTTATTTCTCAAAAGTATTTTTTGACAGCAATACCAAACACTTAAAATTTTCAAAAGCATTTC
1 ATTTTATTTCTCAAAAATATTTTTTGACAGCAATACCAAACACTTAAAAATTTCAAAAGCACTTC
*
7488010 TCAAAAGCAGTTTTTCATAACACTTTTCAAAAGCATTGCCAAACTAGCTCTAA
66 TCAAAAGCAGTTTTTCATAACACTTTTCAAAAACATTGCCAAACTAGCTCTAA
*
7488063 ATATTAT
1 ATTTTAT
7488070 CGGGTTGGAT
Statistics
Matches: 118, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (118 bp):
ATTTTATTTCTCAAAAATATTTTTTGACAGCAATACCAAACACTTAAAAATTTCAAAAGCACTTC
TCAAAAGCAGTTTTTCATAACACTTTTCAAAAACATTGCCAAACTAGCTCTAA
Found at i:7488015 original size:13 final size:12
Alignment explanation
Indices: 7487993--7488046 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
7487983 AACACTTAAA
7487993 ATTTTCAAAAGC
1 ATTTTCAAAAGC
7488005 ATTTCTCAAAAGC
1 ATTT-TCAAAAGC
*
7488018 AGTTTTTCATAA-C
1 A--TTTTCAAAAGC
7488031 ACTTTTCAAAAGC
1 A-TTTTCAAAAGC
7488044 ATT
1 ATT
7488047 GCCAAACTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
12 14 0.40
13 13 0.37
14 5 0.14
15 3 0.09
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (12 bp):
ATTTTCAAAAGC
Done.