Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold48
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: 4619657
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18863 characters in sequence are not A, C, G, or T
File 7 of 27
Found at i:843101 original size:33 final size:32
Alignment explanation
Indices: 843063--843142 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 32
843053 TTAAGAAATT
*
843063 TGATCAAAGTTAACCAAAAATGTATAATATCTAG
1 TGATCAAAGTTAACAAAAAATGTATAA-ATCT-G
* *
843097 -GATCAGAGTTAATAAAAAATGTATAAATCTG
1 TGATCAAAGTTAACAAAAAATGTATAAATCTG
*
843128 TAATCAAAGTTAACA
1 TGATCAAAGTTAACA
843143 GCTTCAGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 1 0.03
32 15 0.38
33 23 0.59
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (32 bp):
TGATCAAAGTTAACAAAAAATGTATAAATCTG
Found at i:859157 original size:16 final size:16
Alignment explanation
Indices: 859128--859206 Score: 79
Period size: 16 Copynumber: 4.9 Consensus size: 16
859118 TTAACTTAAA
* *
859128 TTTAATTTTAAATTAT
1 TTTAAATTTGAATTAT
859144 TTTAAATTTGAATTAT
1 TTTAAATTTGAATTAT
*
859160 TTTACATTTGAATTA-
1 TTTAAATTTGAATTAT
* *
859175 TTTAGAGTTTAAATTATT
1 TTTA-AATTTGAATTA-T
*
859193 TTTGAATTTGAATT
1 TTTAAATTTGAATT
859207 GAGTGAGTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
15 4 0.08
16 36 0.71
17 8 0.16
18 3 0.06
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.57
Consensus pattern (16 bp):
TTTAAATTTGAATTAT
Found at i:859831 original size:5 final size:5
Alignment explanation
Indices: 859823--859872 Score: 55
Period size: 5 Copynumber: 9.0 Consensus size: 5
859813 AATTTAATCG
859823 ATTAT ATTAT ATTACAT ATTAT ATATAT ATCATAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATT--AT ATTAT AT-TAT AT--TAT ATTAT ATTAT ATTAT
859873 TTACTAGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 25 0.61
6 5 0.12
7 11 0.27
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (5 bp):
ATTAT
Found at i:860235 original size:10 final size:10
Alignment explanation
Indices: 860216--860250 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
860206 AACTTGGGTA
*
860216 ACATTACATT
1 ACATTGCATT
860226 ACATTGCATT
1 ACATTGCATT
*
860236 GCATTGCATT
1 ACATTGCATT
860246 ACATT
1 ACATT
860251 ACAAGGTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (10 bp):
ACATTGCATT
Found at i:864835 original size:4 final size:4
Alignment explanation
Indices: 864826--864850 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
864816 TGATCTTAGT
864826 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
864851 GTGAACAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:865175 original size:2 final size:2
Alignment explanation
Indices: 865168--865204 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
865158 CAGTGAGGGA
865168 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
865205 AGATTTTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:868665 original size:18 final size:18
Alignment explanation
Indices: 868605--868669 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
868595 GTTATTTTTT
*
868605 TCATTTTTGGTAGCTATC
1 TCATTTTTTGTAGCTATC
* *
868623 TCCTTTATTTGAAATGCCT-TC
1 TCATTT-TTTG-TA-G-CTATC
868644 TCATTTTTTGTAGCTATC
1 TCATTTTTTGTAGCTATC
868662 TCATTTTT
1 TCATTTTT
868670 AAAAATATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
17 2 0.05
18 16 0.43
19 4 0.11
20 5 0.14
21 8 0.22
22 2 0.05
ACGTcount: A:0.17, C:0.18, G:0.11, T:0.54
Consensus pattern (18 bp):
TCATTTTTTGTAGCTATC
Found at i:868714 original size:13 final size:12
Alignment explanation
Indices: 868670--868726 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
868660 TCTCATTTTT
868670 AAAAATATTAAA
1 AAAAATATTAAA
*
868682 AAATATAATTAAA
1 AAAAAT-ATTAAA
*
868695 ATTAAATATTTAAA
1 A-AAAATA-TTAAA
868709 AAAAATATTAAA
1 AAAAATATTAAA
*
868721 CAAAAT
1 AAAAAT
868727 CATTCGAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
12 15 0.41
13 13 0.35
14 9 0.24
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAATATTAAA
Found at i:869459 original size:21 final size:20
Alignment explanation
Indices: 869433--869485 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
869423 ATATGAAATT
869433 TATTTAATATTATTTATTT-TA
1 TATTTAA-ATTATTT-TTTATA
*
869454 TATTTAAAAATATTTTTTATA
1 TATTT-AAATTATTTTTTATA
*
869475 TATATAAATTA
1 TATTTAAATTA
869486 AAAATGTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 8 0.30
21 17 0.63
22 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTAAATTATTTTTTATA
Found at i:877072 original size:19 final size:20
Alignment explanation
Indices: 877048--877096 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
877038 AATTTTCTTA
*
877048 TTTCTTTCTTG-AAAAAATT
1 TTTCTTTCTTGAAAAAAAAT
877067 TTTCTTTCTTGAAAAAAAAT
1 TTTCTTTCTTGAAAAAAAAT
877087 TTTCTTTCTT
1 TTTCTTTCTT
877097 TCTGAGATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTCTTTCTTGAAAAAAAAT
Found at i:878351 original size:2 final size:2
Alignment explanation
Indices: 878344--878370 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
878334 TTTATTTATG
878344 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
878371 AGTGTATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:878492 original size:18 final size:17
Alignment explanation
Indices: 878471--878513 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
878461 ACAATATTCG
*
878471 TAAATTATTATTTTGTGT
1 TAAATTATTATTTTAT-T
878489 TAAATTTATTATTTTATT
1 TAAA-TTATTATTTTATT
878507 TAAATTA
1 TAAATTA
878514 ATATCTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 9 0.39
19 11 0.48
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
TAAATTATTATTTTATT
Found at i:878499 original size:19 final size:18
Alignment explanation
Indices: 878471--878512 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
878461 ACAATATTCG
*
878471 TAAA-TTATTATTTTGTGT
1 TAAATTTATTATTTTAT-T
878489 TAAATTTATTATTTTATT
1 TAAATTTATTATTTTATT
878507 TAAATT
1 TAAATT
878513 AATATCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TAAATTTATTATTTTATT
Found at i:878567 original size:16 final size:16
Alignment explanation
Indices: 878548--878626 Score: 86
Period size: 16 Copynumber: 4.9 Consensus size: 16
878538 TTAACTTAAA
*
878548 TTTAATTTTAAATTAT
1 TTTAAATTTAAATTAT
*
878564 TTTAAATTCAAATTAT
1 TTTAAATTTAAATTAT
** *
878580 TTTACGTTTGAATTAT
1 TTTAAATTTAAATTAT
*
878596 TTAAAATTTAAATTATT
1 TTTAAATTTAAATTA-T
*
878613 TTTAAATTTGAATT
1 TTTAAATTTAAATT
878627 GAATGGGTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
16 37 0.74
17 13 0.26
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (16 bp):
TTTAAATTTAAATTAT
Found at i:879011 original size:3 final size:3
Alignment explanation
Indices: 879003--879046 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
878993 GCTTCTAGCT
879003 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
879047 TCATCTAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:879274 original size:5 final size:5
Alignment explanation
Indices: 879266--879315 Score: 55
Period size: 5 Copynumber: 9.0 Consensus size: 5
879256 AATTTAATCG
879266 ATTAT ATTAT ATTACAT ATTAT ATATAT ATCATAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATT--AT ATTAT AT-TAT AT--TAT ATTAT ATTAT ATTAT
879316 TTACTAGTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 25 0.61
6 5 0.12
7 11 0.27
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (5 bp):
ATTAT
Found at i:879678 original size:10 final size:10
Alignment explanation
Indices: 879659--879693 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
879649 AACTTGGGTA
*
879659 ACATTACATT
1 ACATTGCATT
879669 ACATTGCATT
1 ACATTGCATT
*
879679 GCATTGCATT
1 ACATTGCATT
879689 ACATT
1 ACATT
879694 ACAAGGTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (10 bp):
ACATTGCATT
Found at i:884598 original size:2 final size:2
Alignment explanation
Indices: 884591--884625 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
884581 TAATTTCAGT
*
884591 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GC GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
884626 CAGATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:890462 original size:47 final size:47
Alignment explanation
Indices: 890393--890492 Score: 191
Period size: 47 Copynumber: 2.1 Consensus size: 47
890383 AAAAGGTATT
890393 TGATTGTATTGCTCTTTGGTAGGACCATTGACTTGAAGATGTCAGAA
1 TGATTGTATTGCTCTTTGGTAGGACCATTGACTTGAAGATGTCAGAA
*
890440 TGATTGTATTGCTCTTTGGTAGGACCATTGACTTGTAGATGTCAGAA
1 TGATTGTATTGCTCTTTGGTAGGACCATTGACTTGAAGATGTCAGAA
890487 TGATTG
1 TGATTG
890493 CAGAAAAATG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (47 bp):
TGATTGTATTGCTCTTTGGTAGGACCATTGACTTGAAGATGTCAGAA
Found at i:897565 original size:22 final size:20
Alignment explanation
Indices: 897540--897600 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
897530 AAAATTATTT
*
897540 TTATGATTTGATATAATTTAAA
1 TTATGATTT-AT-TAATTAAAA
*
897562 TTATTATTTATTAATTAAAA
1 TTATGATTTATTAATTAAAA
*
897582 TGAT-ATTT-TT-ATTAAAA
1 TTATGATTTATTAATTAAAA
897599 TT
1 TT
897601 TAATTATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.23
18 2 0.06
19 4 0.11
20 11 0.31
21 2 0.06
22 8 0.23
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TTATGATTTATTAATTAAAA
Found at i:897885 original size:19 final size:19
Alignment explanation
Indices: 897861--897901 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
897851 AATTAATTTG
*
897861 ATTATAATATTTTA-TTATA
1 ATTATAA-ATTATACTTATA
897880 ATTATAAATTATACTTATA
1 ATTATAAATTATACTTATA
897899 ATT
1 ATT
897902 TTTATTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTATAAATTATACTTATA
Found at i:898048 original size:19 final size:19
Alignment explanation
Indices: 898024--898063 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
898014 AATATCATAC
898024 ATAATT-AATAAAATTTAAT
1 ATAATTGAAT-AAATTTAAT
*
898043 ATAATTGAATAATTTTAAT
1 ATAATTGAATAAATTTAAT
898062 AT
1 AT
898064 CAAATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATAATTGAATAAATTTAAT
Found at i:898287 original size:21 final size:22
Alignment explanation
Indices: 898257--898299 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
898247 ATTTATCCTT
*
898257 TATATAATAT-ATTATAAAATA
1 TATATAATATAATTAAAAAATA
*
898278 TATATCATATAATTAAAAAATA
1 TATATAATATAATTAAAAAATA
898300 AATTAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TATATAATATAATTAAAAAATA
Found at i:899857 original size:28 final size:28
Alignment explanation
Indices: 899822--899876 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
899812 ATATATATAA
* *
899822 TTTTTAATTT-ATATATTGATAATAAAAT
1 TTTTTAATTTCATAAATT-AAAATAAAAT
899850 TTTTTAATTTCATAAATTAAAATAAAA
1 TTTTTAATTTCATAAATTAAAATAAAA
899877 AACTGTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (28 bp):
TTTTTAATTTCATAAATTAAAATAAAAT
Found at i:900385 original size:21 final size:21
Alignment explanation
Indices: 900361--900404 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
900351 GATTAAAAAT
*
900361 TATTTTAT-ATTAATATTTATA
1 TATTTTATAAGTAA-ATTTATA
900382 TATTTTATAAGTAAATTTATA
1 TATTTTATAAGTAAATTTATA
900403 TA
1 TA
900405 AAATATTTTA
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:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TATTTTATAAGTAAATTTATA
Found at i:901306 original size:22 final size:22
Alignment explanation
Indices: 901279--901337 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
901269 TAAAAAACAT
* *
901279 TAATTAATGTAA-ATATTAATA
1 TAATTAATGTAATATATAAAAA
**
901300 TAGATTAAAATAATATATAAAAA
1 TA-ATTAATGTAATATATAAAAA
901323 TAATTAATGT-ATATA
1 TAATTAATGTAATATA
901338 CTTTTTAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
21 7 0.23
22 14 0.47
23 9 0.30
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (22 bp):
TAATTAATGTAATATATAAAAA
Found at i:901452 original size:22 final size:21
Alignment explanation
Indices: 901422--901471 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
901412 TATAAACACA
* *
901422 AATTAAATTACTTTTAAATAAT
1 AATT-AATTAATTTTAAAAAAT
901444 ATATTAATTAATTTTAAAAAAT
1 A-ATTAATTAATTTTAAAAAAT
901466 AATTAA
1 AATTAA
901472 AAGACATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 17 0.68
23 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTAATTAATTTTAAAAAAT
Found at i:902024 original size:10 final size:10
Alignment explanation
Indices: 901994--902035 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
901984 CTATTCATAT
*
901994 TATATTTTAT
1 TATATTTTAA
902004 TATA-TTTAA
1 TATATTTTAA
*
902013 TATATTTAAA
1 TATATTTTAA
*
902023 TAAATTTTAA
1 TATATTTTAA
902033 TAT
1 TAT
902036 TTAACTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATATTTTAA
Found at i:902063 original size:17 final size:17
Alignment explanation
Indices: 901985--902065 Score: 54
Period size: 17 Copynumber: 5.1 Consensus size: 17
901975 ATTTTAACTC
901985 TATTCATATT-ATATTT-
1 TATT-ATATTAATATTTA
902001 TATTATATTTAATA--TA
1 TATTATA-TTAATATTTA
*
902017 T-TTA-AATAA-ATTT-
1 TATTATATTAATATTTA
*
902030 TAATAT-TTAACTATTTA
1 TATTATATTAA-TATTTA
902047 TATTATATTAATATTTA
1 TATTATATTAATATTTA
902064 TA
1 TA
902066 AAATATTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 21
0.67 0.05 0.28
Matches are distributed among these distances:
12 1 0.02
13 4 0.08
14 7 0.14
15 7 0.14
16 11 0.22
17 16 0.32
18 4 0.08
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTATATTAATATTTA
Found at i:902071 original size:17 final size:18
Alignment explanation
Indices: 902031--902072 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
902021 AATAAATTTT
*
902031 AATATTTAACTATTTATAT
1 AATA-TTAACTATTTATAA
*
902050 TATATTAA-TATTTATAA
1 AATATTAACTATTTATAA
902067 AATATT
1 AATATT
902073 TAAATTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 13 0.65
18 4 0.20
19 3 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
AATATTAACTATTTATAA
Found at i:902159 original size:12 final size:12
Alignment explanation
Indices: 902142--902175 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
902132 AAAAAGTAAT
902142 TAAAATATTATA
1 TAAAATATTATA
*
902154 TAAAATATAATA
1 TAAAATATTATA
*
902166 TAATATATTA
1 TAAAATATTA
902176 ATTAATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATTATA
Found at i:904798 original size:2 final size:2
Alignment explanation
Indices: 904791--904841 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
904781 TTTATTATTG
904791 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
904833 CT CT -T CT CT
1 CT CT CT CT CT
904842 TCTATTTAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:907332 original size:2 final size:2
Alignment explanation
Indices: 907327--907354 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
907317 TGAAATGAAG
907327 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
907355 TTGTTCAAAT
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):
AT
Found at i:908180 original size:23 final size:23
Alignment explanation
Indices: 908154--908197 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
908144 ATACGATAGA
908154 TATTAAAATTAAAATTTTTAATT
1 TATTAAAATTAAAATTTTTAATT
* * *
908177 TATTAAATTTTATATTTTTAA
1 TATTAAAATTAAAATTTTTAA
908198 AAATAATTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTAAAATTAAAATTTTTAATT
Found at i:909192 original size:25 final size:25
Alignment explanation
Indices: 909150--909198 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
909140 TCAATGATTT
*
909150 AATTATCAATTACCTTATTAAATTA
1 AATTATCAATTACCTTATAAAATTA
**
909175 AATTATCAATTATTTTATAAAATT
1 AATTATCAATTACCTTATAAAATT
909199 TAAACTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (25 bp):
AATTATCAATTACCTTATAAAATTA
Found at i:909965 original size:27 final size:25
Alignment explanation
Indices: 909935--909994 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
909925 TTTGAATTAA
909935 TTTAATAAATTATAATAATAAAAATAT
1 TTTAATAAATT-TAATAAT-AAAATAT
* *
909962 TTTATTTAAATTTAATTATAAAATAT
1 TTTA-ATAAATTTAATAATAAAATAT
909988 TTTAATA
1 TTTAATA
909995 TAAAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 11 0.38
27 10 0.34
28 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTAATAAATTTAATAATAAAATAT
Found at i:909971 original size:28 final size:26
Alignment explanation
Indices: 909940--909991 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 26
909930 ATTAATTTAA
909940 TAAATTATAATAATAAAAATATTTTATT
1 TAAATT-TAATAAT-AAAATATTTTATT
*
909968 TAAATTTAATTATAAAATATTTTA
1 TAAATTTAATAATAAAATATTTTA
909992 ATATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
27 6 0.26
28 6 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TAAATTTAATAATAAAATATTTTATT
Found at i:909998 original size:27 final size:28
Alignment explanation
Indices: 909935--909998 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
909925 TTTGAATTAA
909935 TTTA-ATAAATTATAATAATAAAAATAT
1 TTTATATAAATTATAATAATAAAAATAT
* *
909962 TTTATTTAAATT-TAATTAT-AAAATAT
1 TTTATATAAATTATAATAATAAAAATAT
909988 TTTAATATAAA
1 TTT-ATATAAA
909999 AATAAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 10 0.31
27 16 0.50
28 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTATATAAATTATAATAATAAAAATAT
Found at i:910971 original size:2 final size:2
Alignment explanation
Indices: 910964--910992 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
910954 GTCCCATTGC
910964 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 A
910993 GTTTTTCTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:916142 original size:2 final size:2
Alignment explanation
Indices: 916135--916160 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
916125 GAAACTCAAC
916135 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
916161 CCAGATTGTT
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:917497 original size:19 final size:19
Alignment explanation
Indices: 917475--917512 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
917465 TAATTTAATA
917475 AAAATAATTT-ATTAAATGT
1 AAAAT-ATTTAATTAAATGT
*
917494 AAAATTTTTAATTAAATGT
1 AAAATATTTAATTAAATGT
917513 GAGTAGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
AAAATATTTAATTAAATGT
Found at i:926284 original size:17 final size:19
Alignment explanation
Indices: 926258--926295 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
926248 TTTCATGTCA
926258 ATAATATAAA-TA-TAAAT
1 ATAATATAAATTATTAAAT
*
926275 ATAATTTAAATTATTAAAT
1 ATAATATAAATTATTAAAT
926294 AT
1 AT
926296 TTTAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 2 0.11
19 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAATATAAATTATTAAAT
Found at i:926876 original size:16 final size:16
Alignment explanation
Indices: 926845--926876 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
926835 AATATGCTTG
926845 AATTAAAATATAATTT
1 AATTAAAATATAATTT
*
926861 AATTAAAATTTAATTT
1 AATTAAAATATAATTT
926877 GATAGTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAAAATATAATTT
Found at i:927004 original size:14 final size:16
Alignment explanation
Indices: 926967--926999 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
926957 AATTAAATAA
*
926967 TTAATATTTAATATTT
1 TTAATTTTTAATATTT
926983 TTAATTTTTAAT-TTT
1 TTAATTTTTAATATTT
926998 TT
1 TT
927000 CTTTTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTAATTTTTAATATTT
Found at i:937783 original size:21 final size:21
Alignment explanation
Indices: 937759--937805 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
937749 TACACCACAC
* *
937759 CTTCCACATTATTGTCTTCTT
1 CTTCCACATCAATGTCTTCTT
**
937780 CTTCTTCATCAATGTCTTCTT
1 CTTCCACATCAATGTCTTCTT
937801 CTTCC
1 CTTCC
937806 TTTTTTGCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.32, G:0.04, T:0.51
Consensus pattern (21 bp):
CTTCCACATCAATGTCTTCTT
Found at i:943866 original size:19 final size:19
Alignment explanation
Indices: 943844--943881 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
943834 GCATTCATGT
*
943844 TGTATT-TATATTATTTTTA
1 TGTATTATA-ATTATATTTA
943863 TGTATTATAATTATATTTA
1 TGTATTATAATTATATTTA
943882 AAATATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TGTATTATAATTATATTTA
Found at i:945299 original size:13 final size:13
Alignment explanation
Indices: 945281--945305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
945271 CTATCATTAA
945281 TAAAAATTATTTT
1 TAAAAATTATTTT
945294 TAAAAATTATTT
1 TAAAAATTATTT
945306 ATATATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAAAATTATTTT
Found at i:946821 original size:5 final size:5
Alignment explanation
Indices: 946811--946848 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
946801 TTAAAAAATA
* *
946811 TTAAT TTAAT TTAAT TTAAT TTGAT TTTAT TTAAT TTA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTA
946849 TTAAAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (5 bp):
TTAAT
Found at i:952124 original size:6 final size:6
Alignment explanation
Indices: 952113--952180 Score: 54
Period size: 6 Copynumber: 11.2 Consensus size: 6
952103 ATTAAAATTT
*
952113 ATATAA ATATAAA ATATTTAA ATATAA TTATAA TATATTAA A-AT-- ATATAA
1 ATATAA ATAT-AA ATA--TAA ATATAA ATATAA -ATA-TAA ATATAA ATATAA
952163 ATAT-A ATATAA ATATAA A
1 ATATAA ATATAA ATATAA A
952181 ATTTATTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 6 0.12
6 25 0.49
7 8 0.16
8 8 0.16
9 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
ATATAA
Found at i:952127 original size:46 final size:44
Alignment explanation
Indices: 952077--952168 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 44
952067 GATAGATTGA
*
952077 AAAATATGAGTAAA-ATAATT-TTATATATTAAAATTTATATAAATAT
1 AAAATAT--GTAAATATAATTATAATATATTAAAA--TATATAAATAT
*
952123 AAAATATTTAAATATAATTATAATATATTAAAATATATAAATAT
1 AAAATATGTAAATATAATTATAATATATTAAAATATATAAATAT
952167 AA
1 AA
952169 TATAAATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
44 17 0.40
45 6 0.14
46 19 0.45
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (44 bp):
AAAATATGTAAATATAATTATAATATATTAAAATATATAAATAT
Found at i:952135 original size:8 final size:9
Alignment explanation
Indices: 952099--952178 Score: 60
Period size: 10 Copynumber: 8.6 Consensus size: 9
952089 AAATAATTTT
952099 ATATATTAAA
1 ATATATT-AA
*
952109 ATTTATATAA
1 ATATAT-TAA
952119 ATATA--AA
1 ATATATTAA
952126 ATAT-TTAA
1 ATATATTAA
952134 ATATAATTATA
1 ATAT-ATTA-A
952145 ATATATTAA
1 ATATATTAA
952154 A-ATATATAA
1 ATATAT-TAA
952163 ATATAATATAA
1 ATAT-AT-TAA
952174 ATATA
1 ATATA
952179 AAATTTATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 18
0.75 0.03 0.23
Matches are distributed among these distances:
7 6 0.10
8 10 0.17
9 6 0.10
10 21 0.36
11 16 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
ATATATTAA
Found at i:952138 original size:21 final size:21
Alignment explanation
Indices: 952113--952180 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
952103 ATTAAAATTT
952113 ATATAAATATAAAATATTTAA
1 ATATAAATATAAAATATTTAA
* * *
952134 ATATAATTATAATATATTAAA
1 ATATAAATATAAAATATTTAA
*
952155 ATATATAA-ATATAATA--TAA
1 ATATA-AATATAAAATATTTAA
952174 ATATAAA
1 ATATAAA
952181 ATTTATTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 2 0.05
19 7 0.18
21 29 0.74
22 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAAATATAAAATATTTAA
Found at i:952143 original size:29 final size:28
Alignment explanation
Indices: 952099--952182 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 28
952089 AAATAATTTT
952099 ATATATTAAA-AT-TTATATAAATATAAA
1 ATATA-TAAATATATTATATAAATATAAA
* *
952126 ATATTTAAATATAATTATA-ATATATTAAA
1 ATATATAAATAT-ATTATATAAATA-TAAA
952155 ATATATAAATATA--ATATAAATATAAA
1 ATATATAAATATATTATATAAATATAAA
952181 AT
1 AT
952183 TTATTTATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
26 13 0.27
27 10 0.21
28 5 0.10
29 20 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
ATATATAAATATATTATATAAATATAAA
Found at i:952739 original size:14 final size:15
Alignment explanation
Indices: 952707--952751 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
952697 TAATTTTTAT
*
952707 ATATTTT-ATAATTA
1 ATATTTTAATAATAA
952721 A-ATTTTAATAA-AA
1 ATATTTTAATAATAA
*
952734 ATATTTTATTAATAA
1 ATATTTTAATAATAA
952749 ATA
1 ATA
952752 ATAATTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 7 0.27
14 14 0.54
15 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTTTAATAATAA
Found at i:952865 original size:16 final size:16
Alignment explanation
Indices: 952844--952902 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 16
952834 CATATTATAA
952844 TTATATTTAAAATATT
1 TTATATTTAAAATATT
952860 TTATATTTATATAA-ATT
1 TTATATTTA-A-AATATT
*
952877 TTATTATGTAAAATTATTT
1 TTA-TATTTAAAA-TA-TT
952896 TTATATT
1 TTATATT
952903 AATATTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
16 11 0.31
17 8 0.23
18 11 0.31
19 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTATATTTAAAATATT
Found at i:952883 original size:20 final size:20
Alignment explanation
Indices: 952796--952883 Score: 52
Period size: 19 Copynumber: 4.7 Consensus size: 20
952786 CATTAAAAAA
952796 ATAAA-TTTA-TATATTTAT
1 ATAAATTTTATTATATTTAT
952814 AT-AATATTTATGTAT-TTTAT
1 ATAAAT-TTTAT-TATATTTAT
*
952834 CAT--ATTATAATTATA-TT-T
1 -ATAAATT-TTATTATATTTAT
*
952852 A-AAATATT-TTATATTTAT
1 ATAAATTTTATTATATTTAT
952870 ATAAATTTTATTAT
1 ATAAATTTTATTAT
952884 GTAAAATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 24
0.65 0.05 0.30
Matches are distributed among these distances:
16 5 0.09
17 6 0.11
18 7 0.13
19 16 0.30
20 14 0.26
21 5 0.09
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (20 bp):
ATAAATTTTATTATATTTAT
Found at i:952920 original size:28 final size:27
Alignment explanation
Indices: 952800--952922 Score: 65
Period size: 30 Copynumber: 4.3 Consensus size: 27
952790 AAAAAAATAA
* *
952800 ATTTATATATTTATA-TAATATTTATGT
1 ATTT-TATTTTTATATTAATATTTATAT
* *
952827 ATTTTATCATATTATAATT-ATATTTAAAAT
1 ATTTTAT--TTTTAT-ATTAATATTT-ATAT
* *
952857 ATTTTATATTTATATAAAT-TTTAT-T
1 ATTTTATTTTTATATTAATATTTATAT
952882 ATGTAAAATTATTTTTATATTAATATTTATAT
1 AT-T----TTATTTTTATATTAATATTTATAT
952914 ATTATTATT
1 ATT-TTATT
952923 AAATTTAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 25
0.68 0.09 0.23
Matches are distributed among these distances:
25 3 0.04
26 5 0.07
27 9 0.12
28 16 0.22
29 7 0.10
30 24 0.33
31 6 0.08
32 3 0.04
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.59
Consensus pattern (27 bp):
ATTTTATTTTTATATTAATATTTATAT
Found at i:953084 original size:3 final size:3
Alignment explanation
Indices: 953078--953117 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
953068 ACACAATTAT
953078 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
953118 CTTTTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:953136 original size:27 final size:27
Alignment explanation
Indices: 953105--953163 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
953095 AATAATAATA
953105 ATAATAATAATAACT-TTTAAAAATATTT
1 ATAATAA-AA-AACTATTTAAAAATATTT
* *
953133 -TAATAAAAAATTATTTTAAAATATTT
1 ATAATAAAAAACTATTTAAAAATATTT
953159 ATAAT
1 ATAAT
953164 TGTTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 3 0.11
26 14 0.52
27 10 0.37
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
ATAATAAAAAACTATTTAAAAATATTT
Found at i:953425 original size:19 final size:19
Alignment explanation
Indices: 953377--953428 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
953367 TTATTAATAA
*
953377 TTTATTAAATCAATTATTT
1 TTTATTAAATTAATTATTT
* * * *
953396 TATCTTTAATTATTTATTT
1 TTTATTAAATTAATTATTT
953415 TTTATTAAATTAAT
1 TTTATTAAATTAAT
953429 AAAATTGCCA
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTAAATTAATTATTT
Found at i:954181 original size:42 final size:42
Alignment explanation
Indices: 954134--954213 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
954124 TAATAGTTTG
* * * *
954134 ATATTTGATATGATTTTGACAGTATTTAATATACTTTTAATC
1 ATATTTAATATGATTTTGACAATATTTAAAATAATTTTAATC
** *
954176 ATATTTAATATTTTTTTGATAATATTTAAAATAATTTT
1 ATATTTAATATGATTTTGACAATATTTAAAATAATTTT
954214 GATAACTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (42 bp):
ATATTTAATATGATTTTGACAATATTTAAAATAATTTTAATC
Found at i:954216 original size:21 final size:21
Alignment explanation
Indices: 954134--954224 Score: 83
Period size: 21 Copynumber: 4.3 Consensus size: 21
954124 TAATAGTTTG
* * *
954134 ATATTTGATATGATTTTGACA
1 ATATTTAATATAATTTTGATA
* * * *
954155 GTATTTAATATACTTTTAATC
1 ATATTTAATATAATTTTGATA
**
954176 ATATTTAATATTTTTTTGATA
1 ATATTTAATATAATTTTGATA
*
954197 ATATTTAAAATAATTTTGATA
1 ATATTTAATATAATTTTGATA
954218 ACTATTT
1 A-TATTT
954225 TTTATATAAT
Statistics
Matches: 54, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
21 49 0.91
22 5 0.09
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (21 bp):
ATATTTAATATAATTTTGATA
Found at i:955563 original size:2 final size:2
Alignment explanation
Indices: 955556--955597 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
955546 ATAATAAATC
955556 AT AT AT AT AT 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 AT AT AT AT AT
955598 GAGGTGATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:956110 original size:2 final size:2
Alignment explanation
Indices: 956099--956135 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
956089 GCTGGAATCC
956099 AT AT -T 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 AT AT AT
956136 TTGTATTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:956347 original size:16 final size:17
Alignment explanation
Indices: 956326--956361 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
956316 TTAATGTTAG
956326 AAAAGTTTT-ACTTAAA
1 AAAAGTTTTAACTTAAA
*
956342 AAAAGTTTTAAGTTAAA
1 AAAAGTTTTAACTTAAA
956359 AAA
1 AAA
956362 TTATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (17 bp):
AAAAGTTTTAACTTAAA
Found at i:956470 original size:16 final size:17
Alignment explanation
Indices: 956426--956470 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
956416 TATTATTATA
956426 AAAAATATAAAAAATGTT
1 AAAAATAT-AAAAATGTT
*
956444 TAAAATAATAAAAAT-TT
1 AAAAAT-ATAAAAATGTT
956461 AAAAATATAA
1 AAAAATATAA
956471 TAATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.17
17 7 0.29
18 11 0.46
19 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAAATATAAAAATGTT
Found at i:957660 original size:22 final size:20
Alignment explanation
Indices: 957621--957682 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 20
957611 TACGAACTAA
957621 TTAAAAATTATT-TATTTATTATT
1 TTAAAAA-TATTAT-TTTA-TA-T
957644 TTAAAAATATTATTTTATAT
1 TTAAAAATATTATTTTATAT
*
957664 TT-AATATATTATTTT-TAT
1 TTAAAAATATTATTTTATAT
957682 T
1 T
957683 GAATTCAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 3 0.08
21 2 0.05
22 8 0.22
23 8 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAAAAATATTATTTTATAT
Found at i:961319 original size:2 final size:2
Alignment explanation
Indices: 961312--961343 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
961302 ATAAGGCACA
*
961312 AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
961344 GCATATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:961429 original size:14 final size:16
Alignment explanation
Indices: 961390--961438 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
961380 ATAAATCTAT
961390 AATATATAATTATAAC
1 AATATATAATTATAAC
*
961406 AAAATA-AATT-TAA-
1 AATATATAATTATAAC
*
961419 AATATATAATTATAAT
1 AATATATAATTATAAC
961435 AATA
1 AATA
961439 AACTTTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 5 0.18
14 7 0.25
15 7 0.25
16 9 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AATATATAATTATAAC
Found at i:961440 original size:27 final size:29
Alignment explanation
Indices: 961374--961433 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
961364 TGTATATATA
* *
961374 AACAAAATAAATCTATAATATATAATTAT
1 AACAAAATAAATTTAAAATATATAATTAT
961403 AACAAAATAAATTTAAAATATATAATTAT
1 AACAAAATAAATTTAAAATATATAATTAT
961432 AA
1 AA
961434 TAATAAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (29 bp):
AACAAAATAAATTTAAAATATATAATTAT
Found at i:964573 original size:49 final size:49
Alignment explanation
Indices: 964496--964593 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
964486 ACTTTAAAAA
*
964496 TTAACTAATTGGTATTAAGCTATAAAAGTGGGAAATTAGTAAACTTCAG
1 TTAACTAATTGGTATTAAGCTATAAAAGTGGGAAATTAATAAACTTCAG
* *
964545 TTAACTAATTGGTATTAAGGTATTAAAGTGGGAAATTAATAAACTTCAG
1 TTAACTAATTGGTATTAAGCTATAAAAGTGGGAAATTAATAAACTTCAG
964594 AGCCTCCTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (49 bp):
TTAACTAATTGGTATTAAGCTATAAAAGTGGGAAATTAATAAACTTCAG
Found at i:966808 original size:25 final size:24
Alignment explanation
Indices: 966779--966873 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 24
966769 TTATATTTAA
966779 AATAT-TTTATATTTATATTAATT
1 AATATATTTATATTTATATTAATT
*
966802 AATATATTAATAATTTATATT-ATAT
1 AATATATTTAT-ATTTATATTAAT-T
* *
966827 AA-CTATTTATATTT-TATTATTT
1 AATATATTTATATTTATATTAATT
*
966849 TATATATATTATATTTATA-TAATT
1 AATATAT-TTATATTTATATTAATT
966873 A
1 A
966874 TATTTAACAT
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
22 6 0.11
23 13 0.23
24 24 0.42
25 14 0.25
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (24 bp):
AATATATTTATATTTATATTAATT
Found at i:966820 original size:47 final size:48
Alignment explanation
Indices: 966749--966868 Score: 128
Period size: 47 Copynumber: 2.5 Consensus size: 48
966739 TGGTAATTAA
966749 TATATTAATATCAATTAA-AA-TTATATT-TA-AAATATTTTATATTTATAT
1 TATATTAATAT--ATTAATAATTTATATTATATAAATA-TTTATATTT-TAT
*
966797 TA-ATTAATATATTAATAATTTATATTATATAACTATTTATATTTTAT
1 TATATTAATATATTAATAATTTATATTATATAAATATTTATATTTTAT
*
966844 TATTTTATATATATT-AT-ATTTATAT
1 TATATTA-ATATATTAATAATTTATAT
966869 AATTATATTT
Statistics
Matches: 64, Mismatches: 2, Indels: 13
0.81 0.03 0.16
Matches are distributed among these distances:
45 5 0.08
46 2 0.03
47 28 0.44
48 18 0.28
49 11 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (48 bp):
TATATTAATATATTAATAATTTATATTATATAAATATTTATATTTTAT
Found at i:966836 original size:17 final size:16
Alignment explanation
Indices: 966768--966879 Score: 93
Period size: 14 Copynumber: 7.6 Consensus size: 16
966758 ATCAATTAAA
* *
966768 ATTATATTTAAAATAT
1 ATTATATTTATATTAT
*
966784 TTTATATTTATATTA-
1 ATTATATTTATATTAT
966799 ATTA-A--TATATTA-
1 ATTATATTTATATTAT
966811 A-TA-ATTTATATTAT
1 ATTATATTTATATTAT
* *
966825 ATAACTATTTATATTTT
1 ATTA-TATTTATATTAT
966842 ATTAT-TTTATA-TAT
1 ATTATATTTATATTAT
966856 ATTATATTTATA-TA-
1 ATTATATTTATATTAT
966870 ATTATATTTA
1 ATTATATTTA
966880 ACATCCGACC
Statistics
Matches: 81, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
11 3 0.04
12 8 0.10
13 7 0.09
14 19 0.23
15 18 0.22
16 13 0.16
17 13 0.16
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTATATTTATATTAT
Found at i:972608 original size:23 final size:23
Alignment explanation
Indices: 972560--972608 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
972550 AAAAGTGTTT
*
972560 AGGCTTTGATACTACTTTGTTAG
1 AGGCTTTGATACTACTTTGATAG
* *
972583 AGGCTTTGATACTAGTTTGATGG
1 AGGCTTTGATACTACTTTGATAG
972606 AGG
1 AGG
972609 AAAAGGGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.39
Consensus pattern (23 bp):
AGGCTTTGATACTACTTTGATAG
Found at i:976766 original size:21 final size:21
Alignment explanation
Indices: 976722--976770 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
976712 AAAGTATATT
* * *
976722 ATTATTATTTTAAATTTAATA
1 ATTATTATTTTAAAATAAAAA
976743 ATTATTATTTTAAAATAAAAA
1 ATTATTATTTTAAAATAAAAA
976764 ATT-TTAT
1 ATTATTAT
976771 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTATTATTTTAAAATAAAAA
Found at i:976929 original size:21 final size:21
Alignment explanation
Indices: 976905--976961 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
976895 ACGTTTCTAT
*
976905 TAATTAATTTTATTATTATAA
1 TAATTAATTTTATAATTATAA
976926 TAATTAATTTTATAATTATAA
1 TAATTAATTTTATAATTATAA
*
976947 TAATTAATTTCATAA
1 TAATTAATTTTATAA
976962 AAATTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATTAATTTTATAATTATAA
Found at i:976940 original size:15 final size:15
Alignment explanation
Indices: 976941--976974 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
976931 AATTTTATAA
*
976941 TTATAATAATTAATT
1 TTATAAAAATTAATT
*
976956 TCATAAAAATTAATT
1 TTATAAAAATTAATT
976971 TTAT
1 TTAT
976975 CATTTACCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATAAAAATTAATT
Found at i:982178 original size:5 final size:5
Alignment explanation
Indices: 982170--982262 Score: 51
Period size: 5 Copynumber: 17.6 Consensus size: 5
982160 TTTAATTTTT
* * * * *
982170 TAAAA TAAAA TAAAA TTATAA TAAAA TATAAG TGAAA TATAA TAAAA TAATTA
1 TAAAA TAAAA TAAAA -TAAAA TAAAA TA-AAA TAAAA TAAAA TAAAA TAA-AA
*** * *
982223 TTTTA TAAGAA TAAAA TATAAG TAAAA TATAA TAAAA TAA
1 TAAAA TAA-AA TAAAA TA-AAA TAAAA TAAAA TAAAA TAA
982263 TTATAATATT
Statistics
Matches: 65, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
5 48 0.74
6 17 0.26
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (5 bp):
TAAAA
Found at i:982196 original size:21 final size:21
Alignment explanation
Indices: 982130--982219 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 21
982120 TTCAAAAATA
**
982130 AAAATAAAATAAAATTATTTT
1 AAAATAAAATAAAATTATAAT
* * ** **
982151 AACATAATATTTAATT-TTTT
1 AAAATAAAATAAAATTATAAT
982171 AAAATAAAATAAAATTATAAT
1 AAAATAAAATAAAATTATAAT
* *
982192 AAAATATAAGTGAAA-TATAAT
1 AAAATA-AAATAAAATTATAAT
982213 AAAATAA
1 AAAATAA
982220 TTATTTTATA
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
20 17 0.31
21 32 0.58
22 6 0.11
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAATAAAATAAAATTATAAT
Found at i:982268 original size:11 final size:10
Alignment explanation
Indices: 982170--982261 Score: 76
Period size: 11 Copynumber: 8.7 Consensus size: 10
982160 TTTAATTTTT
*
982170 TAAAATAAAA
1 TAAAATATAA
982180 TAAAATTATAA
1 TAAAA-TATAA
982191 TAAAATATAA
1 TAAAATATAA
*
982201 GTGAAATATAA
1 -TAAAATATAA
*
982212 TAAAATAATTA
1 TAAAAT-ATAA
*** *
982223 TTTTATAAGAA
1 TAAAAT-ATAA
982234 TAAAATATAA
1 TAAAATATAA
982244 GTAAAATATAA
1 -TAAAATATAA
982255 TAAAATA
1 TAAAATA
982262 ATTATAATAT
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
10 25 0.38
11 40 0.62
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (10 bp):
TAAAATATAA
Found at i:985257 original size:15 final size:16
Alignment explanation
Indices: 985218--985274 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
985208 TATTATATTT
*
985218 AATTAAATTA-AAATA
1 AATTAATTTATAAATA
985233 TAATTAATTTATAAATA
1 -AATTAATTTATAAATA
*
985250 AATT-ATTTAT-ATTA
1 AATTAATTTATAAATA
985264 AATTAATTTAT
1 AATTAATTTAT
985275 TTTTAACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
14 7 0.19
15 12 0.32
16 13 0.35
17 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAATTTATAAATA
Found at i:985471 original size:15 final size:15
Alignment explanation
Indices: 985453--985493 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
985443 ATATATCAAG
*
985453 ATTAAATATATTTAT
1 ATTAAATATAATTAT
*
985468 ATTAAATAAAATTAT
1 ATTAAATATAATTAT
985483 A-TAAATATAAT
1 ATTAAATATAAT
985494 ATAATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAAATATAATTAT
Found at i:985494 original size:5 final size:5
Alignment explanation
Indices: 985481--985590 Score: 59
Period size: 5 Copynumber: 22.2 Consensus size: 5
985471 AAATAAAATT
* * * *
985481 ATATAA ATATA ATATA ATAAA ATTAAA ATATA AAATA ATATA A-AT- ATTTA
1 ATAT-A ATATA ATATA ATATA A-TATA ATATA ATATA ATATA ATATA ATATA
* * * * * *
985531 AAATTT ATATA ATATA A-ATT AT-TA ATATA ATAAA AT-TT ATATAA ATAAA
1 ATA-TA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATAT-A ATATA
985580 ATATA ATATA A
1 ATATA ATATA A
985591 ATACGCCAAC
Statistics
Matches: 78, Mismatches: 18, Indels: 17
0.69 0.16 0.15
Matches are distributed among these distances:
3 1 0.01
4 11 0.14
5 51 0.65
6 15 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:985570 original size:32 final size:31
Alignment explanation
Indices: 985481--985590 Score: 115
Period size: 32 Copynumber: 3.6 Consensus size: 31
985471 AAATAAAATT
985481 ATATAAA-TATAATATAATAAAA-TTA-A-A
1 ATATAAATTATAATATAATAAAATTTATATA
*
985508 ATATAAAATAATATAA-ATATTTAAAATTTATATA
1 ATAT-AAAT--TATAATATA-ATAAAATTTATATA
985542 ATATAAATTATTAATATAATAAAATTTATATA
1 ATATAAATTA-TAATATAATAAAATTTATATA
*
985574 A-ATAAAATATAATATAA
1 ATATAAATTATAATATAA
985591 ATACGCCAAC
Statistics
Matches: 70, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
27 4 0.06
28 3 0.04
30 11 0.16
31 19 0.27
32 20 0.29
33 8 0.11
34 5 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
ATATAAATTATAATATAATAAAATTTATATA
Found at i:985578 original size:18 final size:17
Alignment explanation
Indices: 985487--985593 Score: 70
Period size: 18 Copynumber: 6.5 Consensus size: 17
985477 AATTATATAA
985487 ATATAATATAATAAAA-T
1 ATATAA-ATAATAAAATT
*
985504 -TA-AAAT-ATAAAATA
1 ATATAAATAATAAAATT
*
985518 ATATAAATATTTAAAATT
1 ATATAAATA-ATAAAATT
985536 -TAT--ATAATATAAATT
1 ATATAAATAATA-AAATT
985551 AT-TAATATAATAAAATTT
1 ATATAA-ATAATAAAA-TT
* *
985569 ATATAAATAA-AATATA
1 ATATAAATAATAAAATT
985585 ATATAAATA
1 ATATAAATA
985594 CGCCAACTCT
Statistics
Matches: 72, Mismatches: 6, Indels: 25
0.70 0.06 0.24
Matches are distributed among these distances:
13 6 0.08
14 4 0.06
15 13 0.18
16 17 0.24
17 9 0.12
18 20 0.28
19 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATAAATAATAAAATT
Found at i:985591 original size:16 final size:16
Alignment explanation
Indices: 985485--985593 Score: 86
Period size: 16 Copynumber: 7.0 Consensus size: 16
985475 AAAATTATAT
985485 AAATATAATAT-AATA
1 AAATATAATATAAATA
*
985500 AAATTAAAATATAAA-A
1 AAA-TATAATATAAATA
* **
985516 TAATATAA-ATATTTA
1 AAATATAATATAAATA
*
985531 AAAT-TTATATAATATA
1 AAATATAATATAA-ATA
*
985547 AATTATTAATAT-AATA
1 AAATA-TAATATAAATA
*
985563 AAAT-TTATATAAATA
1 AAATATAATATAAATA
985578 AAATATAATATAAATA
1 AAATATAATATAAATA
985594 CGCCAACTCT
Statistics
Matches: 71, Mismatches: 14, Indels: 17
0.70 0.14 0.17
Matches are distributed among these distances:
14 10 0.14
15 22 0.31
16 31 0.44
17 3 0.04
18 5 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAATATAAATA
Found at i:986608 original size:42 final size:40
Alignment explanation
Indices: 986522--986599 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
986512 AAATATAATT
*
986522 TTTAAAATTT-AATTTAATTAATTTATATAATTATAATAATAA
1 TTTAAAATTTAAATTT-A--AATTTATATAATTAGAATAATAA
*
986564 TTTAAAATTTAAATTTAAATTTTTATAATTAGAATA
1 TTTAAAATTTAAATTTAAATTTATATAATTAGAATA
986600 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 17 0.52
42 11 0.33
43 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (40 bp):
TTTAAAATTTAAATTTAAATTTATATAATTAGAATAATAA
Found at i:986720 original size:21 final size:21
Alignment explanation
Indices: 986670--986733 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
986660 ATATTAATTT
*
986670 TAAATATTTATATAATATATAA
1 TAAATATTTATATAATA-AAAA
* *
986692 TTATTATTTA-ATAATTAAAAA
1 TAAATATTTATATAA-TAAAAA
986713 TAAATATTTATATAATAAAAA
1 TAAATATTTATATAATAAAAA
986734 CTAATTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 21 0.60
22 14 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATATTTATATAATAAAAA
Found at i:986743 original size:21 final size:20
Alignment explanation
Indices: 986676--986743 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
986666 ATTTTAAATA
* *
986676 TTTATATAATATATAATTATT
1 TTTATATAATA-AAAATAATT
*
986697 ATTTA-ATAATTAAAAATAAATA
1 -TTTATATAA-TAAAAAT-AATT
986719 TTTATATAATAAAAACTAATT
1 TTTATATAATAAAAA-TAATT
986740 TTTA
1 TTTA
986744 ATTAAATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
21 25 0.66
22 13 0.34
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTATATAATAAAAATAATT
Found at i:986859 original size:18 final size:16
Alignment explanation
Indices: 986831--986881 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 16
986821 AAATTATTCG
986831 TTTAAATTTAAAAATTA
1 TTTAAATTTAAAAA-TA
986848 TTTAATATTTAAAAATA
1 TTTAA-ATTTAAAAATA
986865 TTTAAA--TAAAAATA
1 TTTAAATTTAAAAATA
986879 TTT
1 TTT
986882 TATTTGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.33
16 1 0.03
17 12 0.36
18 9 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAAATTTAAAAATA
Found at i:986861 original size:17 final size:17
Alignment explanation
Indices: 986831--986911 Score: 59
Period size: 17 Copynumber: 5.0 Consensus size: 17
986821 AAATTATTCG
*
986831 TTTAAATTTAAAAATTA
1 TTTAAATTTAAAAAATA
986848 TTTAATATTT-AAAAATA
1 TTTAA-ATTTAAAAAATA
986865 TTTAAA--T-AAAAATA
1 TTTAAATTTAAAAAATA
*
986879 TTT-TATTTGAAAATAA-A
1 TTTAAATTT-AAAA-AATA
*
986896 TTTAAA-TAAAAAAATA
1 TTTAAATTTAAAAAATA
986912 AATTCATTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 17
0.71 0.05 0.23
Matches are distributed among these distances:
13 1 0.02
14 11 0.21
15 3 0.06
16 6 0.12
17 24 0.46
18 7 0.13
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (17 bp):
TTTAAATTTAAAAAATA
Found at i:986899 original size:31 final size:31
Alignment explanation
Indices: 986839--986907 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
986829 CGTTTAAATT
*
986839 TAAAAATTATTTAATATTTAAAAATATTTAAA
1 TAAAAATTATTT-ATATTTAAAAAAATTTAAA
986871 TAAAAA-TATTT-TATTTGAAAATAAATTTAAA
1 TAAAAATTATTTATATTT-AAAA-AAATTTAAA
986902 TAAAAA
1 TAAAAA
986908 AATAAATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
29 5 0.15
30 4 0.12
31 19 0.56
32 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (31 bp):
TAAAAATTATTTATATTTAAAAAAATTTAAA
Found at i:986923 original size:18 final size:18
Alignment explanation
Indices: 986888--986927 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
986878 ATTTTATTTG
*
986888 AAAATAAATTTAAATAAA
1 AAAATAAATTCAAATAAA
**
986906 AAAATAAATTCATTTAAA
1 AAAATAAATTCAAATAAA
986924 AAAA
1 AAAA
986928 ATTAAGTTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATAAATTCAAATAAA
Found at i:986930 original size:33 final size:30
Alignment explanation
Indices: 986854--986930 Score: 75
Period size: 33 Copynumber: 2.5 Consensus size: 30
986844 ATTATTTAAT
* * *
986854 ATTT-AAAAATATTTAAATAAAAATATTTT
1 ATTTAAAAAAAATTTAAATAAAAATAATTC
*
986883 ATTTGAAAATAAATTTAAATAAAAAAATAAATTC
1 ATTT-AAAAAAAATTTAAAT--AAAAAT-AATTC
986917 ATTTAAAAAAAATT
1 ATTTAAAAAAAATT
986931 AAGTTGGGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 4 0.11
31 12 0.32
33 15 0.39
34 7 0.18
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (30 bp):
ATTTAAAAAAAATTTAAATAAAAATAATTC
Found at i:987141 original size:28 final size:29
Alignment explanation
Indices: 987083--987180 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 29
987073 TATTATTTAT
* *
987083 ATTTATAATTTAATAAAAATAAAATATTAAAA
1 ATTTATAATTTAA-AAAATTTAAA-A-TAAAA
987115 ATTTA-AATTTAAAAAATTTAAAATAAAA
1 ATTTATAATTTAAAAAATTTAAAATAAAA
* * *
987143 A-ATATAATATGAATAAATTT-AAATAAAA
1 ATTTATAAT-TTAAAAAATTTAAAATAAAA
* *
987171 AATTAAAATT
1 ATTTATAATT
987181 CATATTTTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
27 2 0.04
28 19 0.34
29 15 0.27
30 8 0.14
31 7 0.12
32 5 0.09
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (29 bp):
ATTTATAATTTAAAAAATTTAAAATAAAA
Found at i:987143 original size:29 final size:29
Alignment explanation
Indices: 987083--987180 Score: 85
Period size: 29 Copynumber: 3.3 Consensus size: 29
987073 TATTATTTAT
*
987083 ATTTATAATTTAATAAAA-ATAAAATATTAAAA
1 ATTTA-AATTTAA-AAAATTTAAAATA--AAAA
987115 ATTTAAATTTAAAAAATTTAAAATAAAAA
1 ATTTAAATTTAAAAAATTTAAAATAAAAA
* * *
987144 ATAT-AATATGAATAAATTT-AAATAAAAA
1 ATTTAAAT-TTAAAAAATTTAAAATAAAAA
*
987172 ATTAAAATT
1 ATTTAAATT
987181 CATATTTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
28 15 0.26
29 19 0.33
30 4 0.07
31 14 0.25
32 5 0.09
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (29 bp):
ATTTAAATTTAAAAAATTTAAAATAAAAA
Found at i:987360 original size:27 final size:26
Alignment explanation
Indices: 987302--987360 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
987292 TACTTTATTA
*
987302 AAATTAAATTATTATTATATATTTTT
1 AAATAAAATTATTATTATATATTTTT
*
987328 ATAATAAAATTATT-TATATTTATTTTTT
1 A-AATAAAATTATTAT-TATATA-TTTTT
987356 AAATA
1 AAATA
987361 TTTTAATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 2 0.07
27 20 0.71
28 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
AAATAAAATTATTATTATATATTTTT
Found at i:993752 original size:25 final size:25
Alignment explanation
Indices: 993686--993752 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
993676 TATTTTAAAA
*
993686 ATTTTAA-AATATATAATTATATCAT
1 ATTTTAATAAT-TATATTTATATCAT
* * *
993711 ATTTTAATTATTTTATTTATATTAT
1 ATTTTAATAATTATATTTATATCAT
993736 A-TTTATATAATTATATT
1 ATTTTA-ATAATTATATT
993753 AAGTTTAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 4 0.12
25 28 0.82
26 2 0.06
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTAATAATTATATTTATATCAT
Found at i:996303 original size:21 final size:22
Alignment explanation
Indices: 996279--996323 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
996269 ACAAATTATT
996279 TTATTTTAAATAAAAAA-TAAA
1 TTATTTTAAATAAAAAATTAAA
* *
996300 TTATTTTTATTAAAAAATTAAA
1 TTATTTTAAATAAAAAATTAAA
996322 TT
1 TT
996324 TATAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TTATTTTAAATAAAAAATTAAA
Found at i:998454 original size:24 final size:23
Alignment explanation
Indices: 998413--998484 Score: 65
Period size: 25 Copynumber: 3.1 Consensus size: 23
998403 TAATTTATTT
* *
998413 ATTTATA-TTATTATATTTAAAA
1 ATTTATATTTAATAAATTTAAAA
* *
998435 ATTTTTATTTAAATAAATTTTAATA
1 ATTTATATTT-AATAAA-TTTAAAA
* *
998460 ATTTATATTTTATAAATTTTAAA
1 ATTTATATTTAATAAATTTAAAA
998483 AT
1 AT
998485 ATTAATATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
22 6 0.15
23 9 0.23
24 9 0.23
25 15 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTATATTTAATAAATTTAAAA
Found at i:998462 original size:25 final size:24
Alignment explanation
Indices: 998428--998497 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
998418 TATTATTATA
*
998428 TTTAAAAATTTTTATTTAAATAAAT
1 TTTAAAAATTTATATTT-AATAAAT
* *
998453 TTTAATAATTTATATTTTATAAAT
1 TTTAAAAATTTATATTTAATAAAT
998477 TTTAAAATATTAATATATTTA
1 TTTAAAA-ATT--TATATTTA
998498 TATTAAGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 12 0.32
25 18 0.49
27 7 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTAAAAATTTATATTTAATAAAT
Found at i:1004911 original size:16 final size:15
Alignment explanation
Indices: 1004886--1004937 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
1004876 AAAAAATTAT
1004886 TAAAATAATAATTAATA
1 TAAAA-AATAATTAA-A
1004903 TAAAAAATAATATAAA
1 TAAAAAATAAT-TAAA
* *
1004919 TATAAAATAAATAAA
1 TAAAAAATAATTAAA
1004934 TAAA
1 TAAA
1004938 TATTTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 7 0.23
16 16 0.52
17 8 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAAATAATTAAA
Found at i:1004938 original size:19 final size:19
Alignment explanation
Indices: 1004886--1004940 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
1004876 AAAAAATTAT
*
1004886 TAAAAT-AAT-AATTAATA
1 TAAAATAAATAAATAAATA
1004903 T-AAA-AAATAATATAAATA
1 TAAAATAAATAA-ATAAATA
1004921 TAAAATAAATAAATAAATA
1 TAAAATAAATAAATAAATA
1004940 T
1 T
1004941 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 7 0.22
19 11 0.34
20 6 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATAAATAAATAAATA
Found at i:1004946 original size:28 final size:29
Alignment explanation
Indices: 1004872--1004948 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 29
1004862 ATTAAACGTT
*
1004872 ATATAAAAAATTA-TTAAAATAATAATTA
1 ATATAAAAAATAATTTAAAATAATAATTA
*
1004900 ATATAAAAAATAATATAAATATAA-AA-TA
1 ATATAAAAAATAATTTAAA-ATAATAATTA
*
1004928 A-ATAAATAAATATTTTAAAAT
1 ATATAAA-AAATAATTTAAAAT
1004949 TTATATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 7 0.17
28 25 0.60
29 6 0.14
30 4 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (29 bp):
ATATAAAAAATAATTTAAAATAATAATTA
Found at i:1004961 original size:25 final size:24
Alignment explanation
Indices: 1004929--1004978 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
1004919 TATAAAATAA
*
1004929 ATAAATAAATATTTTAAAATTTAT
1 ATAAATAAATATCTTAAAATTTAT
*
1004953 ATAATATAAATATCTTAACATTTAT
1 ATAA-ATAAATATCTTAAAATTTAT
1004978 A
1 A
1004979 ATTTTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAAATAAATATCTTAAAATTTAT
Found at i:1005036 original size:19 final size:19
Alignment explanation
Indices: 1005014--1005051 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1005004 TTTTTTTATA
*
1005014 AAAATATTAT-TAATATATT
1 AAAAT-TTATATAAAATATT
1005033 AAAATTTATATAAAATATT
1 AAAATTTATATAAAATATT
1005052 TTAAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATTTATATAAAATATT
Found at i:1005065 original size:29 final size:29
Alignment explanation
Indices: 1005008--1005064 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
1004998 TTATTATTTT
*
1005008 TTTATAAAAATATTATTAATATATTAAAA
1 TTTATAAAAATATTATTAATATATAAAAA
1005037 TTTATATAAAATATT-TTAA-ATATAAAAA
1 TTTATA-AAAATATTATTAATATATAAAAA
1005065 AATATTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.31
29 10 0.38
30 8 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTATAAAAATATTATTAATATATAAAAA
Found at i:1005067 original size:30 final size:29
Alignment explanation
Indices: 1005008--1005067 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
1004998 TTATTATTTT
**
1005008 TTTATAAAAATATTATTAATATATTAAAA
1 TTTATAAAAATATTATTAATATAAAAAAA
1005037 TTTATATAAAATATT-TTAAATATAAAAAAA
1 TTTATA-AAAATATTATT-AATATAAAAAAA
1005067 T
1 T
1005068 ATTTGTATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TTTATAAAAATATTATTAATATAAAAAAA
Found at i:1014011 original size:6 final size:6
Alignment explanation
Indices: 1014000--1014035 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
1013990 AATTATAAAT
1014000 AATTAA AATTAA AATTAAA AATTAA AATTAA AATTA
1 AATTAA AATTAA AATT-AA AATTAA AATTAA AATTA
1014036 TATTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:1014022 original size:13 final size:13
Alignment explanation
Indices: 1014000--1014032 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1013990 AATTATAAAT
1014000 AATT-AAAATTAA
1 AATTAAAAATTAA
1014012 AATTAAAAATTAA
1 AATTAAAAATTAA
1014025 AATTAAAA
1 AATTAAAA
1014033 TTATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATTAAAAATTAA
Found at i:1014022 original size:19 final size:20
Alignment explanation
Indices: 1013995--1014035 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
1013985 AAATTAATTA
1013995 TAAATAATTAAAATTAAAAT
1 TAAATAATTAAAATTAAAAT
1014015 TAAA-AATTAAAATTAAAAT
1 TAAATAATTAAAATTAAAAT
1014034 TA
1 TA
1014036 TATTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAATAATTAAAATTAAAAT
Found at i:1014065 original size:14 final size:13
Alignment explanation
Indices: 1014041--1014072 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
1014031 AATTATATTT
1014041 TTTAATAAATAAA
1 TTTAATAAATAAA
1014054 TTTAATTAAATAAA
1 TTTAA-TAAATAAA
1014068 TTTAA
1 TTTAA
1014073 ATAATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAATAAATAAA
Found at i:1014550 original size:32 final size:29
Alignment explanation
Indices: 1014504--1014566 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 29
1014494 TTTAATTGAC
1014504 AAAAATTATTTATTTTAATTAAATTATAAAAT
1 AAAAATTATTTATTTTAA-T-AATT-TAAAAT
1014536 AAAAATT-TTATATTTTAATAATTTAAAAT
1 AAAAATTATT-TATTTTAATAATTTAAAAT
1014565 AA
1 AA
1014567 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 8 0.27
30 4 0.13
31 3 0.10
32 15 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
AAAAATTATTTATTTTAATAATTTAAAAT
Found at i:1015519 original size:16 final size:17
Alignment explanation
Indices: 1015487--1015521 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1015477 TGTTTTTGTC
*
1015487 TATTTTCTTTAATTATT
1 TATTTTCTTTAAATATT
1015504 TATTTT-TTTAAATATT
1 TATTTTCTTTAAATATT
1015520 TA
1 TA
1015522 CATTTGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTTCTTTAAATATT
Found at i:1016971 original size:2 final size:2
Alignment explanation
Indices: 1016964--1016995 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1016954 TCCGACTTGA
1016964 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1016996 TACCGCTGGC
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1020466 original size:20 final size:20
Alignment explanation
Indices: 1020438--1020475 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1020428 TACATTATAT
*
1020438 TATTTCTTATAAAATAAAAA
1 TATTACTTATAAAATAAAAA
1020458 TATTACTTATAAAATAAA
1 TATTACTTATAAAATAAA
1020476 TAAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
TATTACTTATAAAATAAAAA
Found at i:1021012 original size:31 final size:31
Alignment explanation
Indices: 1020968--1021026 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
1020958 GATTGAATCT
* *
1020968 AAAAATTTATTTTATTATATAAAATAATATTA
1 AAAAATATATTTTAATA-ATAAAATAATATTA
*
1021000 AAAAATAT-TTTTAATAATTAAATAATA
1 AAAAATATATTTTAATAATAAAATAATA
1021027 ATTTAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.42
31 7 0.29
32 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
AAAAATATATTTTAATAATAAAATAATATTA
Found at i:1021866 original size:30 final size:30
Alignment explanation
Indices: 1021830--1021889 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1021820 TTTATGATTA
* *
1021830 TAAAATATGAATATAATAT-TAATAAATAAT
1 TAAAATA-AAATATAATATATAAAAAATAAT
*
1021860 TAAAATAAAATATTATATATAAAAAATAAT
1 TAAAATAAAATATAATATATAAAAAATAAT
1021890 ATAAGCGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (30 bp):
TAAAATAAAATATAATATATAAAAAATAAT
Found at i:1021890 original size:24 final size:25
Alignment explanation
Indices: 1021828--1021890 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 25
1021818 ATTTTATGAT
* *
1021828 TATAAAATATGAATATAATATTAATA
1 TATAAAAAAT-AATAAAATATTAATA
* **
1021854 AATAATTAA-AATAAAATATT-ATA
1 TATAAAAAATAATAAAATATTAATA
1021877 TATAAAAAATAATA
1 TATAAAAAATAATA
1021891 TAAGCGTAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
23 9 0.32
24 14 0.50
26 5 0.18
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
TATAAAAAATAATAAAATATTAATA
Done.