Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold65
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: 3097370
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.31
Warning! 315397 characters in sequence are not A, C, G, or T
File 10 of 17
Found at i:2001459 original size:21 final size:21
Alignment explanation
Indices: 2001414--2001466 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2001404 AAATACATTT
**
2001414 TTTCATCCAAAAAATGCATTT
1 TTTCATCCAAAAAATGCATCA
*
2001435 TTTCATCCAACAAATGCATCA
1 TTTCATCCAAAAAATGCATCA
*
2001456 TTTCATTCAAA
1 TTTCATCCAAA
2001467 TACACATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.36
Consensus pattern (21 bp):
TTTCATCCAAAAAATGCATCA
Found at i:2004824 original size:21 final size:22
Alignment explanation
Indices: 2004798--2004842 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2004788 TAATTAAAAA
*
2004798 ATACATTCA-TTCA-TCCAATAT
1 ATACA-TCATTTCATTCAAATAT
2004819 ATACATCATTTCATTCAAATAT
1 ATACATCATTTCATTCAAATAT
2004841 AT
1 AT
2004843 TTTTTCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 9 0.43
22 9 0.43
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (22 bp):
ATACATCATTTCATTCAAATAT
Found at i:2006714 original size:19 final size:19
Alignment explanation
Indices: 2006685--2006722 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
2006675 ATTTTAAATT
2006685 TTTTATATTTAAGTTTTTAA
1 TTTTATATTTAA-TTTTTAA
2006705 TTTT-TATTTAATTTTTAA
1 TTTTATATTTAATTTTTAA
2006723 ATGATGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTATATTTAATTTTTAA
Found at i:2007206 original size:11 final size:11
Alignment explanation
Indices: 2007169--2007235 Score: 57
Period size: 11 Copynumber: 6.0 Consensus size: 11
2007159 AGAAAATTAA
*
2007169 AATTTAATTTG
1 AATTTAATTTT
*
2007180 AATTATAGTGTTT
1 AATT-TAAT-TTT
*
2007193 AATTTGATTTT
1 AATTTAATTTT
2007204 AATTTTAATTTT
1 AA-TTTAATTTT
2007216 -A-TTAATTTT
1 AATTTAATTTT
*
2007225 AATTTGATTTT
1 AATTTAATTTT
2007236 GATTAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
9 8 0.18
10 1 0.02
11 17 0.38
12 13 0.29
13 6 0.13
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.61
Consensus pattern (11 bp):
AATTTAATTTT
Found at i:2007727 original size:30 final size:30
Alignment explanation
Indices: 2007693--2007757 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
2007683 GATGTAAAAT
2007693 AATAATATAA-ATATATTAAATTTTATATGA
1 AATAATATAATATATA-TAAATTTTATATGA
* *
2007723 AATAA-ATTATATATATAAATTTTATATTA
1 AATAATATAATATATATAAATTTTATATGA
2007752 AA-AATA
1 AATAATA
2007758 ATTTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 2 0.06
29 19 0.61
30 10 0.32
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (30 bp):
AATAATATAATATATATAAATTTTATATGA
Found at i:2019865 original size:17 final size:18
Alignment explanation
Indices: 2019816--2019866 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
2019806 GTGTATAGTT
2019816 TTTTTTAG-AAAAATAAG
1 TTTTTTAGAAAAAATAAG
2019833 TTTTTTA-ATAATAAATAA-
1 TTTTTTAGA-AA-AAATAAG
2019851 TTTTTTAGAAAAAATA
1 TTTTTTAGAAAAAATA
2019867 TTATATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 12 0.40
18 11 0.37
19 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (18 bp):
TTTTTTAGAAAAAATAAG
Found at i:2020469 original size:21 final size:21
Alignment explanation
Indices: 2020444--2020484 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2020434 GTATTAATGT
2020444 TAATGAAAATTTAAACTTTAA
1 TAATGAAAATTTAAACTTTAA
*
2020465 TAATGAAAATTTAAATTTTA
1 TAATGAAAATTTAAACTTTA
2020485 TATTTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (21 bp):
TAATGAAAATTTAAACTTTAA
Found at i:2020501 original size:20 final size:20
Alignment explanation
Indices: 2020476--2020537 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
2020466 AATGAAAATT
2020476 TAAATTTTATATTTATTAAA
1 TAAATTTTATATTTATTAAA
* *
2020496 TAAATTATATATATA-T-AA
1 TAAATTTTATATTTATTAAA
*
2020514 TATAA-TTTATACTTATTAAA
1 TA-AATTTTATATTTATTAAA
2020534 TAAA
1 TAAA
2020538 ATTCTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 11 0.32
19 6 0.18
20 17 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAATTTTATATTTATTAAA
Found at i:2020505 original size:18 final size:18
Alignment explanation
Indices: 2020482--2020537 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
2020472 AATTTAAATT
2020482 TTATATTTATTAAATAAA
1 TTATATTTATTAAATAAA
* *
2020500 TTATATATATATAATATAAT
1 TTATATTTAT-TAA-ATAAA
*
2020520 TTATACTTATTAAATAAA
1 TTATATTTATTAAATAAA
2020538 ATTCTTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 13 0.42
19 6 0.19
20 12 0.39
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TTATATTTATTAAATAAA
Found at i:2022858 original size:2 final size:2
Alignment explanation
Indices: 2022853--2022888 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2022843 GTGTGTGTGT
2022853 GA GA GA GA GA 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 GA GA GA GA GA
2022889 CTACACTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2025891 original size:7 final size:7
Alignment explanation
Indices: 2025852--2025927 Score: 66
Period size: 7 Copynumber: 10.9 Consensus size: 7
2025842 CTAAACAAAA
2025852 AAATTTT
1 AAATTTT
*
2025859 AAATTCAT
1 AAATT-TT
* *
2025867 GAATTTAA
1 AAATTT-T
*
2025875 AAATTAT
1 AAATTTT
2025882 AAATTTT
1 AAATTTT
2025889 AAATTTT
1 AAATTTT
2025896 AAATTTT
1 AAATTTT
*
2025903 AAAATTT
1 AAATTTT
*
2025910 AAA-TCT
1 AAATTTT
2025916 AAA-TTT
1 AAATTTT
2025922 AAATTT
1 AAATTT
2025928 AAGTTTTTAA
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
6 10 0.18
7 36 0.65
8 9 0.16
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (7 bp):
AAATTTT
Found at i:2030016 original size:21 final size:20
Alignment explanation
Indices: 2029992--2030034 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
2029982 ATATAGTTTT
2029992 ATATAAATTATTTATATTTAA
1 ATATAAATTATTTA-ATTTAA
***
2030013 ATATGTTTTATTTAATTTAA
1 ATATAAATTATTTAATTTAA
2030033 AT
1 AT
2030035 TAATATCGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATATAAATTATTTAATTTAA
Found at i:2033644 original size:2 final size:2
Alignment explanation
Indices: 2033637--2033675 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2033627 GCCTACTCTT
2033637 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2033676 TTGAAATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2034403 original size:21 final size:21
Alignment explanation
Indices: 2034361--2034403 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2034351 TCAAACTATC
* * *
2034361 TAAATTTAATTCAACAATAAT
1 TAAATTAAATTCAAAAAAAAT
2034382 TAAATTAAATTCAAAAAAAAT
1 TAAATTAAATTCAAAAAAAAT
2034403 T
1 T
2034404 TCAATTTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAATTAAATTCAAAAAAAAT
Found at i:2036760 original size:2 final size:2
Alignment explanation
Indices: 2036753--2036788 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2036743 TTGAGCTACA
2036753 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
2036789 TTAATTGTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2037351 original size:2 final size:2
Alignment explanation
Indices: 2037344--2037382 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2037334 GCCTACTCTT
2037344 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2037383 TTGAAATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2038110 original size:21 final size:21
Alignment explanation
Indices: 2038068--2038110 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2038058 TCAAACTATC
* * *
2038068 TAAATTTAATTCAACAATAAT
1 TAAATTAAATTCAAAAAAAAT
2038089 TAAATTAAATTCAAAAAAAAT
1 TAAATTAAATTCAAAAAAAAT
2038110 T
1 T
2038111 TCAATTTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAATTAAATTCAAAAAAAAT
Found at i:2040226 original size:34 final size:33
Alignment explanation
Indices: 2040183--2040294 Score: 101
Period size: 34 Copynumber: 3.4 Consensus size: 33
2040173 CAGGTTCGAA
2040183 TTTATATTATTTTTTATAATTATATTTAAAATAT
1 TTTATATTATTTTTTATAATTATATTT-AAATAT
*
2040217 TTTATATTATATAAATTT-TAA-TATA-TT-AATA-
1 TTTATATTAT-T--TTTTATAATTATATTTAAATAT
* *
2040248 TTTATATTATTTTTAAT-ATTATATTTTAATTATT
1 TTTATATTATTTTTTATAATTATA-TTTAAATA-T
2040282 TTTATATTATTTT
1 TTTATATTATTTT
2040295 ATGTTGTGTA
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
28 3 0.05
29 5 0.08
30 1 0.02
31 12 0.19
32 7 0.11
34 25 0.39
35 5 0.08
36 3 0.05
37 3 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (33 bp):
TTTATATTATTTTTTATAATTATATTTAAATAT
Found at i:2040234 original size:16 final size:16
Alignment explanation
Indices: 2040202--2040257 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
2040192 TTTTTTATAA
*
2040202 TTATATT-TAAAATATT
1 TTATATTATATAA-ATT
2040218 TTATATTATATAAATT
1 TTATATTATATAAATT
*
2040234 TTA-A-TATATTAATAT
1 TTATATTATATAAAT-T
2040249 TTATATTAT
1 TTATATTAT
2040258 TTTTAATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 8 0.24
15 5 0.15
16 14 0.41
17 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATATTATATAAATT
Found at i:2040239 original size:24 final size:25
Alignment explanation
Indices: 2040212--2040267 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
2040202 TTATATTTAA
*
2040212 AATATTTTATA-TTATATAAATTTT
1 AATATTTAATATTTATATAAATTTT
* *
2040236 AATATATTAATATTTATATTATTTTT
1 AATAT-TTAATATTTATATAAATTTT
2040262 AATATT
1 AATATT
2040268 ATATTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.19
25 6 0.22
26 16 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
AATATTTAATATTTATATAAATTTT
Found at i:2040279 original size:11 final size:11
Alignment explanation
Indices: 2040183--2040294 Score: 73
Period size: 12 Copynumber: 9.2 Consensus size: 11
2040173 CAGGTTCGAA
2040183 TTTATATTATTT
1 TTTATATTA-TT
*
2040195 TTTATAATTATA
1 TTTAT-ATTATT
* *
2040207 TTTAAAATATT
1 TTTATATTATT
2040218 TTATATTATATAAATT
1 TT-TA-TAT-T--ATT
*
2040234 TTAATATATTAATA
1 TT--TATATT-ATT
2040248 TTTATATTATT
1 TTTATATTATT
2040259 TTTAATATTATAT
1 TTT-ATATTAT-T
2040272 TTTA-ATTATT
1 TTTATATTATT
2040282 TTTATATTATT
1 TTTATATTATT
2040293 TT
1 TT
2040295 ATGTTGTGTA
Statistics
Matches: 82, Mismatches: 8, Indels: 21
0.74 0.07 0.19
Matches are distributed among these distances:
10 5 0.06
11 24 0.29
12 26 0.32
13 9 0.11
14 6 0.07
15 1 0.01
16 8 0.10
17 3 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTATATTATT
Found at i:2040279 original size:23 final size:24
Alignment explanation
Indices: 2040238--2040291 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
2040228 TAAATTTTAA
2040238 TATATTA-ATATTTATATTATTTT
1 TATATTATATATTTATATTATTTT
2040261 TAATATTATAT-TTTA-ATTATTTT
1 T-ATATTATATATTTATATTATTTT
2040284 TATATTAT
1 TATATTAT
2040292 TTTATGTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.24
23 10 0.34
24 10 0.34
25 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TATATTATATATTTATATTATTTT
Found at i:2043539 original size:22 final size:23
Alignment explanation
Indices: 2043496--2043546 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
2043486 ATAAATGAAA
* *
2043496 TTTTATATTATCTGAATTTTTAT
1 TTTTAAATTATCTGAATATTTAT
*
2043519 TTTTAAATTAT-TTAATATTTAT
1 TTTTAAATTATCTGAATATTTAT
*
2043541 ATTTAA
1 TTTTAA
2043547 CAAATATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTAAATTATCTGAATATTTAT
Found at i:2045711 original size:2 final size:2
Alignment explanation
Indices: 2045704--2045738 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2045694 TTGACTAATT
2045704 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2045739 CTGCCTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2047160 original size:12 final size:13
Alignment explanation
Indices: 2047143--2047171 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2047133 AATATCTTTA
2047143 TTTTAT-AATTTT
1 TTTTATAAATTTT
2047155 TTTTATAAATTTT
1 TTTTATAAATTTT
2047168 TTTT
1 TTTT
2047172 TATCAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATAAATTTT
Found at i:2047562 original size:20 final size:21
Alignment explanation
Indices: 2047501--2047562 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 21
2047491 TTTTTTGAAT
*
2047501 ATAATA-AAAATAAT-ATATTA
1 ATAATATAAAA-AATGAAATTA
* * *
2047521 A-AATATAAAAAGTTAAAATA
1 ATAATATAAAAAATGAAATTA
2047541 ATAAT-TAAAAAATGAAATTA
1 ATAATATAAAAAATGAAATTA
2047561 AT
1 AT
2047563 TGATCGAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 6 0.18
20 24 0.73
21 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (21 bp):
ATAATATAAAAAATGAAATTA
Found at i:2048051 original size:14 final size:13
Alignment explanation
Indices: 2048024--2048050 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2048014 GATATATATC
2048024 TAAAGTTGTTTTT
1 TAAAGTTGTTTTT
2048037 TAAAGTTGTTTTT
1 TAAAGTTGTTTTT
2048050 T
1 T
2048051 TCTTTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (13 bp):
TAAAGTTGTTTTT
Found at i:2048443 original size:15 final size:16
Alignment explanation
Indices: 2048403--2048445 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
2048393 TATAATTGGT
*
2048403 AATAATATATTTATACA
1 AATAATAT-TTAATACA
2048420 AATTAATATTTAATA-A
1 AA-TAATATTTAATACA
2048436 AATAATATTT
1 AATAATATTT
2048446 TATTTTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 8 0.33
16 3 0.12
17 7 0.29
18 6 0.25
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAATATTTAATACA
Found at i:2048447 original size:16 final size:17
Alignment explanation
Indices: 2048403--2048447 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
2048393 TATAATTGGT
2048403 AATAATATATTT-ATACA
1 AATAATAT-TTTAATACA
2048420 AATTAATA-TTTAATA-A
1 AA-TAATATTTTAATACA
2048436 AATAATATTTTA
1 AATAATATTTTA
2048448 TTTTATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 5 0.20
16 10 0.40
17 5 0.20
18 5 0.20
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAATATTTTAATACA
Found at i:2048733 original size:27 final size:26
Alignment explanation
Indices: 2048673--2048735 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
2048663 TAAATAATAA
* * *
2048673 ATAATTATTTTTATTTAAAATTAATT
1 ATAAATATTTTAATATAAAATTAATT
2048699 ATAAATATTTTAATATAAAATTAAATT
1 ATAAATATTTTAATATAAAATT-AATT
*
2048726 TTAAATATTT
1 ATAAATATTT
2048736 ATAAAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAAATATTTTAATATAAAATTAATT
Found at i:2054580 original size:13 final size:13
Alignment explanation
Indices: 2054562--2054588 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2054552 ATCCAAATTT
2054562 ATAATTAAAAAAA
1 ATAATTAAAAAAA
2054575 ATAATTAAAAAAA
1 ATAATTAAAAAAA
2054588 A
1 A
2054589 ACATATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAATTAAAAAAA
Found at i:2054854 original size:16 final size:16
Alignment explanation
Indices: 2054833--2054878 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
2054823 TTAGAATTAT
2054833 TATTTAATTATAAATA
1 TATTTAATTATAAATA
2054849 TATTT-A-TAT--ATA
1 TATTTAATTATAAATA
2054861 TATTTAATTATAAATA
1 TATTTAATTATAAATA
2054877 TA
1 TA
2054879 ATAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 8 0.31
13 1 0.04
14 6 0.23
15 1 0.04
16 10 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTTAATTATAAATA
Found at i:2054893 original size:28 final size:28
Alignment explanation
Indices: 2054834--2054898 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
2054824 TAGAATTATT
** *
2054834 ATTTAATTATAAATATATTTATATATAT
1 ATTTAATTATAAATATATAAATATATAA
*
2054862 ATTTAATTATAAATATAATAAAT-TTTAA
1 ATTTAATTATAAATAT-ATAAATATATAA
*
2054890 ATTTTATTA
1 ATTTAATTA
2054899 ATATTTAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 27 0.87
29 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTTAATTATAAATATATAAATATATAA
Found at i:2054970 original size:22 final size:23
Alignment explanation
Indices: 2054926--2054970 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2054916 CAAGTATTTA
*
2054926 ATTTTAAATAAAATATTTTAAAT
1 ATTTTAAATAAAATAATTTAAAT
*
2054949 ATTTTAAA-AACATAATTTAAAT
1 ATTTTAAATAAAATAATTTAAAT
2054971 TATAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTAAATAAAATAATTTAAAT
Found at i:2055087 original size:33 final size:34
Alignment explanation
Indices: 2055050--2055125 Score: 102
Period size: 32 Copynumber: 2.3 Consensus size: 34
2055040 AATAATATTA
*
2055050 ATATAATTATAAATAAAAAAGATATTTAAA-TTT
1 ATATAATTATAAATAAAAAAGATATTAAAATTTT
** *
2055083 ATATAA-TATAAATAATTAATATATTAAAATTTT
1 ATATAATTATAAATAAAAAAGATATTAAAATTTT
2055116 ATATAATTAT
1 ATATAATTAT
2055126 TTAATAGATC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 19 0.51
33 15 0.41
34 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (34 bp):
ATATAATTATAAATAAAAAAGATATTAAAATTTT
Found at i:2055124 original size:16 final size:17
Alignment explanation
Indices: 2055078--2055124 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
2055068 AAGATATTTA
2055078 AATTTATATAATATAAAT
1 AATTTATATAAT-TAAAT
*
2055096 AATTAATAT-ATTAAA-
1 AATTTATATAATTAAAT
*
2055111 ATTTTATATAATTA
1 AATTTATATAATTA
2055125 TTTAATAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 7 0.28
16 8 0.32
17 2 0.08
18 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTATATAATTAAAT
Found at i:2055148 original size:2 final size:2
Alignment explanation
Indices: 2055141--2055168 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2055131 AGATCAAATA
2055141 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
2055169 TTTCTAACTA
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:2060041 original size:20 final size:19
Alignment explanation
Indices: 2059956--2060047 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 19
2059946 ATATTGTATT
*
2059956 TATTTTAT--TTTTTAAAA
1 TATTTTATAATTTTTATAA
* *
2059973 TATTATATAA-ATTT-TAA
1 TATTTTATAATTTTTATAA
* *
2059990 TATGTTATAATTAATTATAA
1 TATTTTATAATT-TTTATAA
2060010 -ATTTTGATTAATTTTTATAA
1 TATTTT-A-TAATTTTTATAA
*
2060030 TATTTATATAATATTTAT
1 TATTT-TATAATTTTTAT
2060048 GTTATTATAG
Statistics
Matches: 56, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
17 17 0.30
18 3 0.05
19 6 0.11
20 19 0.34
21 10 0.18
22 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TATTTTATAATTTTTATAA
Found at i:2061477 original size:20 final size:20
Alignment explanation
Indices: 2061452--2061491 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2061442 AAGTGGACTA
2061452 CCTTTAAACTTCTTTAATAT
1 CCTTTAAACTTCTTTAATAT
2061472 CCTTTAAACTTCTTTAATAT
1 CCTTTAAACTTCTTTAATAT
2061492 TTCCATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (20 bp):
CCTTTAAACTTCTTTAATAT
Found at i:2064605 original size:45 final size:44
Alignment explanation
Indices: 2064556--2064646 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 44
2064546 TATTTATTGA
*
2064556 TTAAAA-TAATATAAAATAA-AAATTAATATAATTAAAAATTAATTT
1 TTAAAATTAATA-AAAATAATAAATTAA-AT-ATTAAAAAATAATTT
* *
2064601 TTAAAATTTAATAAAATTAATATATTAAATATTAAAAAATAATTT
1 TTAAAA-TTAATAAAAATAATAAATTAAATATTAAAAAATAATTT
2064646 T
1 T
2064647 ATAATTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
45 21 0.52
46 8 0.20
47 11 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (44 bp):
TTAAAATTAATAAAAATAATAAATTAAATATTAAAAAATAATTT
Found at i:2064606 original size:14 final size:16
Alignment explanation
Indices: 2064558--2064643 Score: 65
Period size: 16 Copynumber: 5.6 Consensus size: 16
2064548 TTTATTGATT
*
2064558 AAAA-TAATATAAAATA
1 AAAATTAATAT-AATTA
2064574 AAAATTAATATAATTA
1 AAAATTAATATAATTA
*
2064590 AAAATTAAT-T-TTTA
1 AAAATTAATATAATTA
* *
2064604 AAATTTAATAAAATTA
1 AAAATTAATATAATTA
*
2064620 ATATATTAA-AT-ATTA
1 A-AAATTAATATAATTA
*
2064635 AAAAATAAT
1 AAAATTAAT
2064644 TTTATAATTT
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
14 16 0.29
15 6 0.11
16 22 0.40
17 11 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATTAATATAATTA
Found at i:2064616 original size:23 final size:22
Alignment explanation
Indices: 2064589--2064646 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
2064579 TAATATAATT
2064589 AAAAATTAATTTTTAAA-ATTTA
1 AAAAATTAATTTTTAAATA-TTA
*
2064611 ATAAAATTAATATATTAAATATTA
1 A-AAAATTAAT-TTTTAAATATTA
2064635 AAAAA-TAATTTT
1 AAAAATTAATTTT
2064647 ATAATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 2 0.06
22 5 0.16
23 13 0.42
24 10 0.32
25 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAAATTAATTTTTAAATATTA
Found at i:2064635 original size:24 final size:22
Alignment explanation
Indices: 2064589--2064653 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
2064579 TAATATAATT
*
2064589 AAAAATTAATTTTTAAAATTTA
1 AAAAATTAATTATTAAAATTTA
2064611 ATAAAATTAATATATT-AAATATTA
1 A-AAAATTAAT-TATTAAAAT-TTA
*
2064635 AAAAA-TAATT-TTATAATTT
1 AAAAATTAATTATTAAAATTT
2064654 TTATCAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 5 0.14
23 17 0.46
24 7 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAAATTAATTATTAAAATTTA
Found at i:2064931 original size:22 final size:22
Alignment explanation
Indices: 2064906--2064981 Score: 52
Period size: 24 Copynumber: 3.3 Consensus size: 22
2064896 TTAATATTTT
2064906 ATATATTATTATTATAATTATA
1 ATATATTATTATTATAATTATA
2064928 ATATTATATATT-TATATAAATT-TAA
1 ATA-TAT-TATTAT-TAT-AATTAT-A
*
2064953 ATATATTAATAATT-TATATTATA
1 ATATATT-ATTATTATA-ATTATA
2064976 A-ATATT
1 ATATATT
2064982 TTAAAATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 18
0.70 0.02 0.29
Matches are distributed among these distances:
22 9 0.20
23 11 0.25
24 15 0.34
25 9 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATATTATTATTATAATTATA
Found at i:2064956 original size:18 final size:17
Alignment explanation
Indices: 2064946--2065013 Score: 61
Period size: 16 Copynumber: 4.1 Consensus size: 17
2064936 TATTTATATA
2064946 AATTTAAATATATTAAT
1 AATTTAAATATATTAAT
* *
2064963 AATTTATAT-TATAAAT
1 AATTTAAATATATTAAT
* *
2064979 ATTTTAAA-ATATTTAT
1 AATTTAAATATATTAAT
2064995 ACATTT-AATAATATTAAT
1 A-ATTTAAAT-ATATTAAT
2065013 A
1 A
2065014 TTATTTTTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
16 20 0.51
17 11 0.28
18 8 0.21
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTAAATATATTAAT
Found at i:2065014 original size:34 final size:33
Alignment explanation
Indices: 2064948--2065015 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 33
2064938 TTTATATAAA
*
2064948 TTTAAATATATTAATAATTTATATTATAAATAT
1 TTTAAATATATTAATAATTTATAATATAAATAT
* *
2064981 TTTAAA-ATATTTATACATTTAATAATATTAATAT
1 TTTAAATATATTAATA-ATTT-ATAATATAAATAT
2065015 T
1 T
2065016 ATTTTTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 8 0.27
33 10 0.33
34 12 0.40
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (33 bp):
TTTAAATATATTAATAATTTATAATATAAATAT
Found at i:2065028 original size:23 final size:23
Alignment explanation
Indices: 2064998--2065047 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
2064988 TATTTATACA
2064998 TTTA-ATAATATTA-ATATTATTT
1 TTTATATAATATTATA-ATTATTT
*
2065020 TTTATATAATATTTTAATTATTT
1 TTTATATAATATTATAATTATTT
2065043 TTTAT
1 TTTAT
2065048 CATATTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 20 0.80
24 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATATAATATTATAATTATTT
Found at i:2065042 original size:50 final size:50
Alignment explanation
Indices: 2064924--2065042 Score: 122
Period size: 50 Copynumber: 2.4 Consensus size: 50
2064914 TTATTATAAT
* *
2064924 TATAATATTATATATT-TATATAAATTTAAATATATTAATAATTTATATTA
1 TATAATATTTTA-ATTATTTATAAATTTAAATATATTAATAATTTATATTA
* *
2064974 TA-AATATTTTAAAATATTTATACATTT-AATAATATTAATATTATTT-T-TTA
1 TATAATATTTT-AATTATTTATAAATTTAAAT-ATATTAATA--ATTTATATTA
2065024 TATAATATTTTAATTATTT
1 TATAATATTTTAATTATTT
2065043 TTTATCATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
49 12 0.21
50 33 0.57
51 9 0.16
52 4 0.07
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.55
Consensus pattern (50 bp):
TATAATATTTTAATTATTTATAAATTTAAATATATTAATAATTTATATTA
Found at i:2065984 original size:20 final size:20
Alignment explanation
Indices: 2065961--2066019 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
2065951 TAATATAAAT
2065961 TATAAATATATTAAAATTTA
1 TATAAATATATTAAAATTTA
*
2065981 TATAAATAT-TTAATA-TT-
1 TATAAATATATTAAAATTTA
*
2065998 T-TAAATATAATTAAAATATA
1 TATAAATAT-ATTAAAATTTA
2066018 TA
1 TA
2066020 ATCGTAGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
16 7 0.23
17 1 0.03
18 7 0.23
19 6 0.19
20 10 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAAATATATTAAAATTTA
Found at i:2066411 original size:18 final size:20
Alignment explanation
Indices: 2066390--2066426 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
2066380 TAAATATAAT
2066390 ATAAAAATA-AT-ATATTTA
1 ATAAAAATATATGATATTTA
2066408 ATAAAAATATATGATATTT
1 ATAAAAATATATGATATTT
2066427 TTAAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
ATAAAAATATATGATATTTA
Found at i:2066473 original size:31 final size:32
Alignment explanation
Indices: 2066425--2066501 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 32
2066415 TATATGATAT
2066425 TTTTAA-ATATAATTTATAATTT-TATAAAATA
1 TTTTAATATATAATTTAT-ATTTATATAAAATA
*
2066456 TATTTAATATAT-A-TTATATTTATATTAAA-A
1 T-TTTAATATATAATTTATATTTATATAAAATA
2066486 TTTTAATATATTAATT
1 TTTTAATATA-TAATT
2066502 AAATAATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
29 9 0.23
30 7 0.18
31 12 0.31
32 7 0.18
33 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TTTTAATATATAATTTATATTTATATAAAATA
Found at i:2066508 original size:16 final size:17
Alignment explanation
Indices: 2066489--2066521 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2066479 ATTAAAATTT
2066489 TAATATATT-AATTAAA
1 TAATATATTAAATTAAA
2066505 TAATATATTAAATTAAA
1 TAATATATTAAATTAAA
2066522 AAAAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATATATTAAATTAAA
Found at i:2066690 original size:27 final size:26
Alignment explanation
Indices: 2066646--2066734 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
2066636 AAATTTATAT
2066646 AATATTTTTTATATTATAATTATATTTAA
1 AATA-TTTTTAT-TTATAA-TATATTTAA
* *
2066675 AATATTTTTATTTATAAAAAATTTAA
1 AATATTTTTATTTATAATATATTTAA
* * * *
2066701 TATATTAATAATTTATAATATATTTGA
1 AATATT-TTTATTTATAATATATTTAA
*
2066728 TATATTT
1 AATATTT
2066735 ACATATTCAT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
26 12 0.24
27 27 0.54
28 7 0.14
29 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (26 bp):
AATATTTTTATTTATAATATATTTAA
Found at i:2068279 original size:25 final size:26
Alignment explanation
Indices: 2068247--2068296 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
2068237 GATATAAATT
2068247 ATATATAATAT-A-TATAAAAATAAAA
1 ATATATAATATAATTA-AAAAATAAAA
2068272 ATATATAATATAATTAAAAAATAAA
1 ATATATAATATAATTAAAAAATAAA
2068297 TTAACTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 11 0.48
26 10 0.43
27 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
ATATATAATATAATTAAAAAATAAAA
Found at i:2068714 original size:22 final size:22
Alignment explanation
Indices: 2068671--2068712 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2068661 TTAAATTATA
*
2068671 ATATTTATATTTTATTATAAAT
1 ATATTTATATTTTATTAAAAAT
2068693 ATATTTAT-TTTTATTAAAAA
1 ATATTTATATTTTATTAAAAA
2068713 ATTAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATTTATATTTTATTAAAAAT
Found at i:2070691 original size:13 final size:13
Alignment explanation
Indices: 2070673--2070810 Score: 57
Period size: 13 Copynumber: 10.2 Consensus size: 13
2070663 AAAATTTTAA
2070673 ATATAATATAATT
1 ATATAATATAATT
* **
2070686 ATATAAAATAAAA
1 ATATAATATAATT
2070699 AT-TAAATATGATATT
1 ATAT-AATAT-A-ATT
*
2070714 ATATAATATGATT
1 ATATAATATAATT
* *
2070727 ATAAAAAATAA-T
1 ATATAATATAATT
* *
2070739 ATAAAATATTAAATAA
1 ATATAATA-T-AAT-T
* *
2070755 ATATATTAAAATAT
1 ATATAATATAAT-T
*
2070769 ATATAATATTTATT
1 ATATAATA-TAATT
*
2070783 A-ATAATATATTT
1 ATATAATATAATT
* *
2070795 TTTTAATATAATT
1 ATATAATATAATT
2070808 ATA
1 ATA
2070811 ATATGTAAAA
Statistics
Matches: 89, Mismatches: 26, Indels: 20
0.66 0.19 0.15
Matches are distributed among these distances:
12 12 0.13
13 44 0.49
14 16 0.18
15 10 0.11
16 7 0.08
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (13 bp):
ATATAATATAATT
Found at i:2070759 original size:41 final size:42
Alignment explanation
Indices: 2070670--2070759 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 42
2070660 TTAAAAATTT
* * *
2070670 TAAATATAATATAATTATATAAAATAAAAATTAAATATGATA
1 TAAATATAATATAATTATAAAAAATAAAAATAAAATATGAAA
* * * *
2070712 T-TATATAATATGATTATAAAAAAT-AATATAAAATATTAAA
1 TAAATATAATATAATTATAAAAAATAAAAATAAAATATGAAA
2070752 TAAATATA
1 TAAATATA
2070760 TTAAAATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
40 13 0.33
41 25 0.64
42 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (42 bp):
TAAATATAATATAATTATAAAAAATAAAAATAAAATATGAAA
Found at i:2070764 original size:21 final size:21
Alignment explanation
Indices: 2070728--2070790 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
2070718 AATATGATTA
2070728 TAAA-AAATA-ATATAAAATAT
1 TAAATAAATATAT-TAAAATAT
2070748 TAAATAAATATATTAAAATA-
1 TAAATAAATATATTAAAATAT
* *
2070768 TATATAATATTTATTAATAATAT
1 TAAATAA-ATATATTAA-AATAT
2070791 ATTTTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
20 10 0.28
21 20 0.56
22 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATAAATATATTAAAATAT
Found at i:2071179 original size:3 final size:3
Alignment explanation
Indices: 2071161--2071196 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
2071151 TTGAAAGCTA
2071161 ATT ATT -TT ATTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
2071197 GCCTAGAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:2071495 original size:29 final size:29
Alignment explanation
Indices: 2071432--2071495 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
2071422 AATTACTGTT
* * * * *
2071432 TAAATAATAAAAAATATTTTTATATAAAT
1 TAAATTATAAAAAATATATTCACATAAAA
*
2071461 TTAATTATAAAAAATATATTCACATAAAA
1 TAAATTATAAAAAATATATTCACATAAAA
2071490 TAAATT
1 TAAATT
2071496 TTAATATTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAATTATAAAAAATATATTCACATAAAA
Found at i:2072980 original size:19 final size:18
Alignment explanation
Indices: 2072956--2073000 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
2072946 TAAATTGATT
2072956 TAAATATAATATAAATATA
1 TAAATATAATA-AAATATA
*
2072975 TAAATATAATAAAATTTA
1 TAAATATAATAAAATATA
2072993 T-AATATAA
1 TAAATATAA
2073001 ATTATTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 7 0.28
18 7 0.28
19 11 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATATAATAAAATATA
Found at i:2072997 original size:17 final size:18
Alignment explanation
Indices: 2072953--2073000 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
2072943 GGTTAAATTG
2072953 ATTTA-AATATAATATAA
1 ATTTATAATATAATATAA
*
2072970 ATATATAAATATAATA-AA
1 ATTTAT-AATATAATATAA
2072988 ATTTATAATATAA
1 ATTTATAATATAA
2073001 ATTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 11 0.41
18 7 0.26
19 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTTATAATATAATATAA
Found at i:2074020 original size:22 final size:24
Alignment explanation
Indices: 2073981--2074041 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 24
2073971 GAATTTTATT
*
2073981 TAAAAATTAAATCATAAA-AAT-A
1 TAAAAATTAATTCATAAATAATCA
**
2074003 TAAAAATTAATTTTTAAATAATCA
1 TAAAAATTAATTCATAAATAATCA
*
2074027 TAAAAATAAATTCAT
1 TAAAAATTAATTCAT
2074042 TAAGTTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 15 0.48
23 3 0.10
24 13 0.42
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (24 bp):
TAAAAATTAATTCATAAATAATCA
Found at i:2074038 original size:24 final size:22
Alignment explanation
Indices: 2073995--2074038 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
2073985 AATTAAATCA
*
2073995 TAAAAATATAAAAATTAATTTT
1 TAAAAATATAAAAATAAATTTT
2074017 TAAATAATCATAAAAATAAATT
1 TAAA-AAT-ATAAAAATAAATT
2074039 CATTAAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 3 0.16
24 12 0.63
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAAATATAAAAATAAATTTT
Found at i:2074943 original size:8 final size:8
Alignment explanation
Indices: 2074930--2074988 Score: 59
Period size: 8 Copynumber: 7.2 Consensus size: 8
2074920 TATCAAAATT
2074930 TATATAAA
1 TATATAAA
2074938 TATAT-AA
1 TATATAAA
2074945 TATGATTATAA
1 TAT-A-TA-AA
*
2074956 TATAAAAA
1 TATATAAA
2074964 TATATAAA
1 TATATAAA
2074972 TATA-AAA
1 TATATAAA
*
2074979 TAAATAAA
1 TATATAAA
2074987 TA
1 TA
2074989 AATTATCATG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
7 11 0.26
8 24 0.56
9 2 0.05
10 1 0.02
11 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (8 bp):
TATATAAA
Found at i:2074981 original size:26 final size:26
Alignment explanation
Indices: 2074930--2074986 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
2074920 TATCAAAATT
* **
2074930 TATATAAATATATAATATGATTATAA
1 TATAAAAATATATAATATGAAAATAA
2074956 TATAAAAATATATAAATAT-AAAATAA
1 TATAAAAATATAT-AATATGAAAATAA
2074982 -ATAAA
1 TATAAA
2074987 TAAATTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.19
26 17 0.63
27 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
TATAAAAATATATAATATGAAAATAA
Found at i:2075093 original size:24 final size:23
Alignment explanation
Indices: 2075049--2075097 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
2075039 ATTTTACTTT
*
2075049 AAAAAAATTATAATATGATTATAA
1 AAAAAAATTACAATATGATTA-AA
2075073 AAAAAAATTACATATAT-ATTAAA
1 AAAAAAATTACA-ATATGATTAAA
2075096 AA
1 AA
2075098 TCAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAAAAATTACAATATGATTAAA
Found at i:2076053 original size:19 final size:19
Alignment explanation
Indices: 2076029--2076084 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2076019 TAATAAGATA
2076029 AATATATTTTATTATTTTT
1 AATATATTTTATTATTTTT
* *
2076048 AATATA-TTTATGCATTCTT
1 AATATATTTTAT-TATTTTT
2076067 AATATATTTTATTATTTT
1 AATATATTTTATTATTTT
2076085 GAAAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
AATATATTTTATTATTTTT
Found at i:2076104 original size:35 final size:37
Alignment explanation
Indices: 2076029--2076107 Score: 90
Period size: 38 Copynumber: 2.2 Consensus size: 37
2076019 TAATAAGATA
* * **
2076029 AATATATTTTATTATTTTTAATATATTTATGCATTCTT
1 AATATATTTTATTATTTTGAAAATATAAATG-ATTCTT
*
2076067 AATATATTTTATTATTTTGAAAATA-AAATG-TTTTT
1 AATATATTTTATTATTTTGAAAATATAAATGATTCTT
2076102 AATATA
1 AATATA
2076108 ATGATAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 10 0.28
37 3 0.08
38 23 0.64
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (37 bp):
AATATATTTTATTATTTTGAAAATATAAATGATTCTT
Found at i:2076754 original size:14 final size:14
Alignment explanation
Indices: 2076735--2076761 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2076725 ATGACTTATT
2076735 ATAATAATATATAG
1 ATAATAATATATAG
2076749 ATAATAATATATA
1 ATAATAATATATA
2076762 TATATATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
ATAATAATATATAG
Found at i:2077402 original size:21 final size:21
Alignment explanation
Indices: 2077377--2077429 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
2077367 CTAATTCACT
*
2077377 ATAATTTTATTTTAAAAAATA
1 ATAATATTATTTTAAAAAATA
*
2077398 ATAATAAT-TTTTAAAAAATA
1 ATAATATTATTTTAAAAAATA
2077418 A-AATATTATTTT
1 ATAATATTATTTT
2077430 TAATTGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.18
20 17 0.61
21 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAATATTATTTTAAAAAATA
Found at i:2078145 original size:2 final size:2
Alignment explanation
Indices: 2078138--2078171 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2078128 AGCTGTGCCA
*
2078138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2078172 CCCAGTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2084828 original size:15 final size:15
Alignment explanation
Indices: 2084808--2084837 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2084798 AATTTAATTG
2084808 ACACTGATATGATTA
1 ACACTGATATGATTA
2084823 ACACTGATATGATTA
1 ACACTGATATGATTA
2084838 CCATGTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
ACACTGATATGATTA
Found at i:2085077 original size:21 final size:20
Alignment explanation
Indices: 2085053--2085110 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
2085043 TTTTTTTAAC
2085053 ATAAAAAAATTATAATTTGA
1 ATAAAAAAATTATAATTTGA
*
2085073 GATAAAAAAAATATTATATTTGA
1 -ATAAAAAAATTA-TA-ATTTGA
* *
2085096 ATTATAAAATTATAA
1 ATAAAAAAATTATAA
2085111 AATATTATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 1 0.03
21 13 0.42
22 11 0.35
23 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
ATAAAAAAATTATAATTTGA
Found at i:2085104 original size:23 final size:23
Alignment explanation
Indices: 2085053--2085104 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2085043 TTTTTTTAAC
2085053 ATAAAAAAATTATAATTTGAGAT
1 ATAAAAAAATTATAATTTGAGAT
*
2085076 AAAAAAAATATTAT-ATTTGA-ATT
1 ATAAAAAA-ATTATAATTTGAGA-T
2085099 ATAAAA
1 ATAAAA
2085105 TTATAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 1 0.04
23 19 0.76
24 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (23 bp):
ATAAAAAAATTATAATTTGAGAT
Found at i:2085757 original size:17 final size:17
Alignment explanation
Indices: 2085737--2085770 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2085727 TATTTTATTA
* *
2085737 AAATTTTATTTTTTAAT
1 AAATATTATTGTTTAAT
2085754 AAATATTATTGTTTAAT
1 AAATATTATTGTTTAAT
2085771 TTACTAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
AAATATTATTGTTTAAT
Found at i:2086097 original size:6 final size:6
Alignment explanation
Indices: 2086086--2086115 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
2086076 GGACAGAACG
2086086 ATGCGA ATGCGA ATGCGA ATGCGA ATGCGA
1 ATGCGA ATGCGA ATGCGA ATGCGA ATGCGA
2086116 TCCATGAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (6 bp):
ATGCGA
Found at i:2088017 original size:16 final size:16
Alignment explanation
Indices: 2087998--2088052 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
2087988 AAATAATATT
2087998 ATTTTATATTAATTAA
1 ATTTTATATTAATTAA
* *
2088014 ATTTTATA-TCATTTA
1 ATTTTATATTAATTAA
2088029 ATATTTATATTTAAATTAA
1 AT-TTTATA-TT-AATTAA
2088048 ATTTT
1 ATTTT
2088053 TTATAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 7 0.23
16 14 0.45
18 4 0.13
19 6 0.19
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTATATTAATTAA
Found at i:2088139 original size:20 final size:19
Alignment explanation
Indices: 2088097--2088139 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
2088087 AAATAAAGTA
***
2088097 TTAATTATAAAATTAATTT
1 TTAATTATAAAATTAAAGG
2088116 TTAATTATAAAAATTAAAGG
1 TTAATTAT-AAAATTAAAGG
2088136 TTAA
1 TTAA
2088140 AATTGAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
TTAATTATAAAATTAAAGG
Found at i:2088174 original size:24 final size:24
Alignment explanation
Indices: 2088140--2088199 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
2088130 TAAAGGTTAA
*
2088140 AATTGAATTAA-AAAAATTTATAATT
1 AATT-AATTAATAAAAA-TAATAATT
* *
2088165 AGTTATTTAATAAAAATAATAATT
1 AATTAATTAATAAAAATAATAATT
2088189 AATTAATTAAT
1 AATTAATTAAT
2088200 TAATGTGAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (24 bp):
AATTAATTAATAAAAATAATAATT
Found at i:2088495 original size:19 final size:19
Alignment explanation
Indices: 2088462--2088501 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
2088452 ATTAAATTAA
2088462 TTTTAAATAATTTTATAATT
1 TTTTAAATAATTTTAT-ATT
*
2088482 TTTTATATAA-TTTATATT
1 TTTTAAATAATTTTATATT
2088500 TT
1 TT
2088502 AATAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTAAATAATTTTATATT
Found at i:2088619 original size:15 final size:15
Alignment explanation
Indices: 2088564--2088629 Score: 54
Period size: 13 Copynumber: 4.6 Consensus size: 15
2088554 TTAATTTAAT
*
2088564 TTATAT-AATTTAAA
1 TTATATAAATATAAA
2088578 -TATATAAAATATTAAA
1 TTATAT-AAATA-TAAA
2088594 -TATA-ATAATA-AAA
1 TTATATA-AATATAAA
2088607 TTA-ATAAATATAAA
1 TTATATAAATATAAA
2088621 TTATATAAA
1 TTATATAAA
2088630 AATGATGAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 13 0.30
14 10 0.23
15 12 0.28
16 8 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTATATAAATATAAA
Found at i:2089577 original size:20 final size:20
Alignment explanation
Indices: 2089554--2089591 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2089544 TTATGATAAT
2089554 AAATATTAATAT-ATTATATA
1 AAAT-TTAATATAATTATATA
2089574 AAATTTAATATAATTATA
1 AAATTTAATATAATTATA
2089592 ATTATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTTAATATAATTATATA
Found at i:2089612 original size:28 final size:26
Alignment explanation
Indices: 2089553--2089625 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 26
2089543 ATTATGATAA
2089553 TAAATATTAATAT-ATTATATAAAATT
1 TAAATA-TAATATAATTATATAAAATT
2089579 T-AATATAATTATAATTAT-TAAAATTTT
1 TAAATATAA-TATAATTATATAAAA--TT
2089606 TAAATATAAATATAATTATA
1 TAAATAT-AATATAATTATA
2089626 ACGTGTGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
24 3 0.08
25 12 0.30
26 6 0.15
27 3 0.08
28 14 0.35
29 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TAAATATAATATAATTATATAAAATT
Found at i:2092099 original size:25 final size:25
Alignment explanation
Indices: 2092045--2092100 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
2092035 AATCAAGGAG
**
2092045 TAATTTAGTTTTAATAAATTTTTTAA
1 TAATTTAGTTTT-ATAAATTTAATAA
2092071 -AATTTAAGTTTT-TAAATTTAATAA
1 TAATTT-AGTTTTATAAATTTAATAA
2092095 TAATTT
1 TAATTT
2092101 TAAAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 10 0.38
25 10 0.38
26 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
TAATTTAGTTTTATAAATTTAATAA
Found at i:2095926 original size:9 final size:9
Alignment explanation
Indices: 2095914--2095974 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
2095904 ATTTTTTCAA
2095914 TTTTTTTTC
1 TTTTTTTTC
2095923 TTTTTTTTC
1 TTTTTTTTC
2095932 TTTTTTATT-
1 TTTTTT-TTC
**
2095941 TTTTTTTAA
1 TTTTTTTTC
**
2095950 TTTTAATT-
1 TTTTTTTTC
*
2095958 TTTTTCTTC
1 TTTTTTTTC
2095967 TTTTTTTT
1 TTTTTTTT
2095975 TCGAAGCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
8 7 0.17
9 33 0.79
10 2 0.05
ACGTcount: A:0.08, C:0.07, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:2095935 original size:16 final size:16
Alignment explanation
Indices: 2095916--2095975 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
2095906 TTTTTCAATT
*
2095916 TTTTTTCTTTTTTTTC
1 TTTTTTATTTTTTTTC
2095932 TTTTTTATTTTTTTT-
1 TTTTTTATTTTTTTTC
* *
2095947 TAATTTTAATTTTTTTC
1 T-TTTTTATTTTTTTTC
2095964 TTCTTTT-TTTTT
1 TT-TTTTATTTTT
2095976 CGAAGCAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
15 1 0.03
16 30 0.83
17 5 0.14
ACGTcount: A:0.08, C:0.07, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTATTTTTTTTC
Found at i:2095935 original size:17 final size:17
Alignment explanation
Indices: 2095923--2095972 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
2095913 ATTTTTTTTC
2095923 TTTTTTTTCTTTTTTAT
1 TTTTTTTTCTTTTTTAT
** *
2095940 TTTTTTTTAATTTTAAT
1 TTTTTTTTCTTTTTTAT
2095957 TTTTTTCTTCTTTTTT
1 TTTTTT-TTCTTTTTT
2095973 TTTCGAAGCA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTTTCTTTTTTAT
Found at i:2095944 original size:35 final size:35
Alignment explanation
Indices: 2095887--2095972 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 35
2095877 TTTTTTTCAC
* * **
2095887 TTTTTTTTTC-TTTTCAAATTTTTTCAATTTTTTT
1 TTTTTTTTTCTTTTTTATATTTTTTCAATTTTAAT
* *
2095921 TCTTTTTTTTCTTTTTTATTTTTTTTTAATTTTAAT
1 T-TTTTTTTTCTTTTTTATATTTTTTCAATTTTAAT
*
2095957 TTTTTTCTTCTTTTTT
1 TTTTTTTTTCTTTTTT
2095973 TTTCGAAGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
34 1 0.02
35 23 0.53
36 19 0.44
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (35 bp):
TTTTTTTTTCTTTTTTATATTTTTTCAATTTTAAT
Found at i:2096990 original size:41 final size:41
Alignment explanation
Indices: 2096944--2097082 Score: 251
Period size: 41 Copynumber: 3.4 Consensus size: 41
2096934 TTTTTTTTTT
*
2096944 ATAAGGCGTGGGCACGTTAATAAAATAGAAGCTCTCGTTTG
1 ATAAGGCGTGGGCACGTTAATAAAACAGAAGCTCTCGTTTG
* *
2096985 ATAAGGCGTTGGCACGTTAAGAAAACAGAAGCTCTCGTTTG
1 ATAAGGCGTGGGCACGTTAATAAAACAGAAGCTCTCGTTTG
2097026 ATAAGGCGTGGGCACGTTAATAAAACAGAAGCTCTCGTTTG
1 ATAAGGCGTGGGCACGTTAATAAAACAGAAGCTCTCGTTTG
2097067 ATAAGGCGTGGGCACG
1 ATAAGGCGTGGGCACG
2097083 CTCGAGAGCT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (41 bp):
ATAAGGCGTGGGCACGTTAATAAAACAGAAGCTCTCGTTTG
Found at i:2106343 original size:15 final size:14
Alignment explanation
Indices: 2106318--2106364 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
2106308 ATATCGATAC
2106318 CAAAATATCTGTGT
1 CAAAATATCTGTGT
2106332 CAAAAGTATCTGTGT
1 CAAAA-TATCTGTGT
* *
2106347 CAAGATATTTGTGT
1 CAAAATATCTGTGT
2106361 CAAA
1 CAAA
2106365 GTATTTGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (14 bp):
CAAAATATCTGTGT
Found at i:2106369 original size:14 final size:14
Alignment explanation
Indices: 2106327--2106372 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
2106317 CCAAAATATC
*
2106327 TGTGTCAAAAGTATC
1 TGTGTC-AAAGTATT
2106342 TGTGTC-AAGATATT
1 TGTGTCAAAG-TATT
2106356 TGTGTCAAAGTATT
1 TGTGTCAAAGTATT
2106370 TGT
1 TGT
2106373 ATTAAAGTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 3 0.11
14 16 0.57
15 9 0.32
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (14 bp):
TGTGTCAAAGTATT
Found at i:2109535 original size:19 final size:20
Alignment explanation
Indices: 2109494--2109536 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
2109484 ATTGTCAAAT
* *
2109494 AAATATAGTTATGGTTGGCC
1 AAATATAGTGATGGATGGCC
*
2109514 AAATATAG-GATGGATGGTC
1 AAATATAGTGATGGATGGCC
2109533 AAAT
1 AAAT
2109537 GGTTTTGAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (20 bp):
AAATATAGTGATGGATGGCC
Found at i:2110498 original size:20 final size:20
Alignment explanation
Indices: 2110473--2110557 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
2110463 AACTTGACAT
2110473 ATATAATTTATATTAAATAA
1 ATATAATTTATATTAAATAA
* *
2110493 ATATAAATCATA-TAAA-AA
1 ATATAATTTATATTAAATAA
* * *
2110511 ATTATAAATATATATAAAATTA
1 A-TAT-AATTTATATTAAATAA
*
2110533 ATTTAATTTTATATTAATATAA
1 ATATAA-TTTATATTAA-ATAA
2110555 ATA
1 ATA
2110558 GACCTTTGAA
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
18 3 0.06
19 7 0.15
20 17 0.36
21 13 0.28
22 7 0.15
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATAATTTATATTAAATAA
Found at i:2110505 original size:31 final size:32
Alignment explanation
Indices: 2110470--2110557 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 32
2110460 CAAAACTTGA
2110470 CATATATAATTTATATTAAATAAATAT-AAAT
1 CATATATAATTTATATTAAATAAATATAAAAT
* ** *
2110501 CATATAAAAAAT-TA-TAAATATATATAAAAT
1 CATATATAATTTATATTAAATAAATATAAAAT
* *
2110531 TA-ATTTAATTTTATATTAATATAAATA
1 CATATATAA-TTTATATTAA-ATAAATA
2110558 GACCTTTGAA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
29 14 0.33
30 8 0.19
31 11 0.26
32 3 0.07
33 6 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (32 bp):
CATATATAATTTATATTAAATAAATATAAAAT
Found at i:2110523 original size:18 final size:18
Alignment explanation
Indices: 2110481--2110532 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
2110471 ATATATAATT
2110481 TATATTAAATAAA-TATAAA
1 TATA-TAAA-AAATTATAAA
2110500 TCATATAAAAAATTATAAA
1 T-ATATAAAAAATTATAAA
*
2110519 TATATATAAAATTA
1 TATATAAAAAATTA
2110533 ATTTAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 15 0.50
19 12 0.40
20 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TATATAAAAAATTATAAA
Found at i:2114247 original size:34 final size:35
Alignment explanation
Indices: 2114169--2114247 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 35
2114159 TTGTTAAGTG
* * * *
2114169 TGTTAGGTGAAGCATATTAGGTATGTTAGGTGATG
1 TGTTAGGTGAAGAATATTAGATATGTTAGGTAATA
* *
2114204 TATTTGGTGAA-AATATTAGATATGTTAGGTAATA
1 TGTTAGGTGAAGAATATTAGATATGTTAGGTAATA
2114238 TGTTAGGTGA
1 TGTTAGGTGA
2114248 GTAAGATATT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
34 27 0.75
35 9 0.25
ACGTcount: A:0.30, C:0.01, G:0.29, T:0.39
Consensus pattern (35 bp):
TGTTAGGTGAAGAATATTAGATATGTTAGGTAATA
Found at i:2117875 original size:454 final size:454
Alignment explanation
Indices: 2117028--2117918 Score: 1701
Period size: 454 Copynumber: 2.0 Consensus size: 454
2117018 TCGATGAAGC
2117028 ATATATTGCACTTCCTTATTCAACAGAAAAGCAAGAAAAGTTAGAAAATAAGTTAGAAGAAATTT
1 ATATATTGCACTTCCTTATTCAACAGAAAAGCAAGAAAAGTTAGAAAATAAGTTAGAAGAAATTT
2117093 AGCAAACTCCAAAGAGTGTTGCAAAGCCTTCATCACAAGAAAGATCATGGAAGACTGGTATTTAC
66 AGCAAACTCCAAAGAGTGTTGCAAAGCCTTCATCACAAGAAAGATCATGGAAGACTGGTATTTAC
*
2117158 CAAAAAAAAGAGATAGAGAATCATCCAACAAAGGAGTTGTTAGAGGACCAACCGGTTAAGGCGAC
131 CAAAAAAAAGAGATAGAGAATCATCCAACAAAGGAGTTGTTAGAGGACCAACCGGTTAAGGCAAC
* *
2117223 ACCATCACCACAAAAATTGAGAAGATCAAAAAGGGTGAGAAAGTAAAATATCAAATATGCTAATG
196 ACCATCACCACAAAAATTGAGAAGATCAAAAAGGGTGAGAAAGTAAAATACCAAATATGCTAATA
*
2117288 TTACACTGGTAGAAGAAGAAACAGAACCAATATTTTTTGAAGAAGCATTCCAGAAGATGAAATGG
261 TTACACTGGTAAAAGAAGAAACAGAACCAATATTTTTTGAAGAAGCATTCCAGAAGATGAAATGG
*
2117353 AGAAAGGCTATGGAGGAAGAGATGAAAGCTCTTGTTGAAAATCAAACTTGGGATTTTGTTCCTAA
326 AGAAAGGCTATGGAGGAAAAGATGAAAGCTCTTGTTGAAAATCAAACTTGGGATTTTGTTCCTAA
2117418 ACCAAAGGATGTGAAACCCATATCATGCAAATGGGTATACAAGATCATCATGGTGGACACCAGA
391 ACCAAAGGATGTGAAACCCATATCATGCAAATGGGTATACAAGATCATCATGGTGGACACCAGA
*
2117482 ATATATTGCACTTCTTTATTCAACAGAAAAGCAAGAAAAGTTAGAAAATAAGTTAGAAGAAATTT
1 ATATATTGCACTTCCTTATTCAACAGAAAAGCAAGAAAAGTTAGAAAATAAGTTAGAAGAAATTT
*
2117547 AGCAAACTCCAAAGAGTGTTGCAAAGTCTTCATCACAAGAAAGATCATGGAAGACTGGTATTTAC
66 AGCAAACTCCAAAGAGTGTTGCAAAGCCTTCATCACAAGAAAGATCATGGAAGACTGGTATTTAC
2117612 CAAAAAAAAGAGATAGAGAATCATCCAACAAAGGAGTTGTTAGAGGACCAACCGGTTAAGGCAAC
131 CAAAAAAAAGAGATAGAGAATCATCCAACAAAGGAGTTGTTAGAGGACCAACCGGTTAAGGCAAC
* *
2117677 ACCATCACCACAAAAATTGAGAAGATCAGAAAGGGTGAGAAAGTAAAATACCAGATATGCTAATA
196 ACCATCACCACAAAAATTGAGAAGATCAAAAAGGGTGAGAAAGTAAAATACCAAATATGCTAATA
2117742 TTACACTGGTAAAAGAAGAAACAGAACCAATATTTTTTGAAGAAGCATTCCAGAAGATGAAATGG
261 TTACACTGGTAAAAGAAGAAACAGAACCAATATTTTTTGAAGAAGCATTCCAGAAGATGAAATGG
2117807 AGAAAGGCTATGGAGGAAAAGATGAAAGCTCTTGTTGAAAATCAAACTTGGGATTTTGTTCCTAA
326 AGAAAGGCTATGGAGGAAAAGATGAAAGCTCTTGTTGAAAATCAAACTTGGGATTTTGTTCCTAA
2117872 ACCAAAGGATGTGAAACCCATATCATGCAAATGGGTATACAAGATCA
391 ACCAAAGGATGTGAAACCCATATCATGCAAATGGGTATACAAGATCA
2117919 AGACTCGTCC
Statistics
Matches: 428, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
454 428 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (454 bp):
ATATATTGCACTTCCTTATTCAACAGAAAAGCAAGAAAAGTTAGAAAATAAGTTAGAAGAAATTT
AGCAAACTCCAAAGAGTGTTGCAAAGCCTTCATCACAAGAAAGATCATGGAAGACTGGTATTTAC
CAAAAAAAAGAGATAGAGAATCATCCAACAAAGGAGTTGTTAGAGGACCAACCGGTTAAGGCAAC
ACCATCACCACAAAAATTGAGAAGATCAAAAAGGGTGAGAAAGTAAAATACCAAATATGCTAATA
TTACACTGGTAAAAGAAGAAACAGAACCAATATTTTTTGAAGAAGCATTCCAGAAGATGAAATGG
AGAAAGGCTATGGAGGAAAAGATGAAAGCTCTTGTTGAAAATCAAACTTGGGATTTTGTTCCTAA
ACCAAAGGATGTGAAACCCATATCATGCAAATGGGTATACAAGATCATCATGGTGGACACCAGA
Found at i:2120781 original size:28 final size:27
Alignment explanation
Indices: 2120750--2120838 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 27
2120740 TGGTAACACA
2120750 ATAAAAAATAATTAAAATATTATAAAAT
1 ATAAAAAATAA-TAAAATATTATAAAAT
* *
2120778 ATAAAAATTAATATAAATATAATATAAAT
1 ATAAAAAATAATA-AAATATTATA-AAAT
* * *
2120807 TTAAAAATATAA-AAAATTTTATATAAT
1 ATAAAAA-ATAATAAAATATTATAAAAT
2120834 ATAAA
1 ATAAA
2120839 TTATTAACAT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
27 9 0.18
28 27 0.54
29 11 0.22
30 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
ATAAAAAATAATAAAATATTATAAAAT
Found at i:2120834 original size:19 final size:18
Alignment explanation
Indices: 2120763--2120838 Score: 75
Period size: 19 Copynumber: 4.1 Consensus size: 18
2120753 AAAAATAATT
2120763 AAAATATTATAAAATAT-A
1 AAAAT-TTATAAAATATAA
*
2120781 AAAATTAATATAAATATAA
1 AAAATTTATA-AAATATAA
2120800 TATAAATTTA-AAAATATAA
1 -A-AAATTTATAAAATATAA
*
2120819 AAAATTTTATATAATATAA
1 AAAA-TTTATAAAATATAA
2120838 A
1 A
2120839 TTATTAACAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
17 7 0.14
18 16 0.33
19 18 0.37
20 2 0.04
21 6 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTTATAAAATATAA
Found at i:2120835 original size:38 final size:39
Alignment explanation
Indices: 2120764--2120877 Score: 104
Period size: 38 Copynumber: 3.1 Consensus size: 39
2120754 AAAATAATTA
2120764 AAATATTATAAAATATAAAAATTAATATAAATATAATAT
1 AAATATTATAAAATATAAAAATTAATATAAATATAATAT
2120803 AAAT-TTA-AAAATATAAAAAATT--T-T--ATATAATAT
1 AAATATTATAAAATAT-AAAAATTAATATAAATATAATAT
* * *
2120836 -AA-ATTATTAACATATCAAAATTTATATAAATAT-ATAAT
1 AAATATTA-TAAAATATAAAAATTAATATAAATATAAT-AT
2120874 AAAT
1 AAAT
2120878 TTAAATATAA
Statistics
Matches: 61, Mismatches: 2, Indels: 23
0.71 0.02 0.27
Matches are distributed among these distances:
32 5 0.08
33 15 0.25
34 6 0.10
35 2 0.03
36 2 0.03
37 9 0.15
38 16 0.26
39 6 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (39 bp):
AAATATTATAAAATATAAAAATTAATATAAATATAATAT
Found at i:2120856 original size:33 final size:32
Alignment explanation
Indices: 2120794--2120869 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
2120784 ATTAATATAA
2120794 ATATAATATAAATTTAAAAATATAAAAAATTTT
1 ATATAATATAAATTTAAAAATATAAAAAA-TTT
* * *
2120827 ATATAATATAAATTATTAACATAT-CAAAATTT
1 ATATAATATAAATT-TAAAAATATAAAAAATTT
2120859 ATATAAATATA
1 ATAT-AATATA
2120870 TAATAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 7 0.18
33 24 0.63
34 7 0.18
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (32 bp):
ATATAATATAAATTTAAAAATATAAAAAATTT
Found at i:2120884 original size:17 final size:16
Alignment explanation
Indices: 2120791--2120887 Score: 54
Period size: 17 Copynumber: 5.6 Consensus size: 16
2120781 AAAATTAATA
2120791 TAAATATAATATAAATT
1 TAAATATAA-ATAAATT
2120808 TAAAAATATAAA-AAATT
1 T--AAATATAAATAAATT
*
2120825 T-TATATAATATAAATTAT
1 TAAATATAA-ATAAA-T-T
** *
2120843 TAACATATCAAAATTTATA
1 TAA-ATAT--AAATAAATT
2120862 TAAATATATAATAAATT
1 TAAATATA-AATAAATT
2120879 TAAATATAA
1 TAAATATAA
2120888 TTATGACATA
Statistics
Matches: 61, Mismatches: 8, Indels: 23
0.66 0.09 0.25
Matches are distributed among these distances:
14 6 0.10
15 1 0.02
16 5 0.08
17 21 0.34
18 7 0.11
19 11 0.18
20 5 0.08
21 3 0.05
22 2 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATATAAATAAATT
Found at i:2120927 original size:17 final size:18
Alignment explanation
Indices: 2120764--2120927 Score: 53
Period size: 17 Copynumber: 9.3 Consensus size: 18
2120754 AAAATAATTA
2120764 AAATAT-TATA-AAATAT
1 AAATATATATATAAATAT
*
2120780 AAAAAT-TAATATAAATAT
1 AAATATAT-ATATAAATAT
* * *
2120798 AATATAAATTTAAAAATAT
1 AA-ATATATATATAAATAT
* *
2120817 AAA-AAATTTTATATAATAT
1 AAATATA-TATATA-AATAT
*
2120836 AAAT-TAT-TA-ACATAT
1 AAATATATATATAAATAT
*
2120851 CAAA-ATTTATATAAATAT
1 -AAATATATATATAAATAT
*
2120869 ATAATA-A-ATTTAAATAT
1 A-AATATATATATAAATAT
* * * *
2120886 AATTATGACATAAAAATTT
1 AAATAT-ATATATAAATAT
*
2120905 TAATATA-ATATAAATAT
1 AAATATATATATAAATAT
*
2120922 ATATAT
1 AAATAT
2120928 TGATAAACAT
Statistics
Matches: 110, Mismatches: 22, Indels: 31
0.67 0.13 0.19
Matches are distributed among these distances:
15 4 0.04
16 15 0.14
17 33 0.30
18 24 0.22
19 33 0.30
20 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.39
Consensus pattern (18 bp):
AAATATATATATAAATAT
Found at i:2125205 original size:6 final size:6
Alignment explanation
Indices: 2125190--2125222 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
2125180 ATAAATAATA
*
2125190 TATATC TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TATATG TAT
2125223 GTGTGTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:2125682 original size:24 final size:24
Alignment explanation
Indices: 2125608--2125683 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 24
2125598 AATAAAATTT
* *
2125608 TTATAAA-TTTAAGTTAAATTT-A
1 TTATAAATTTTTATTTAAATTTAA
* **
2125630 TT-TAAATTATTATTTAAAAATAA
1 TTATAAATTTTTATTTAAATTTAA
**
2125653 AAATAAATTTTTATTTAAATTTAA
1 TTATAAATTTTTATTTAAATTTAA
2125677 TTATAAA
1 TTATAAA
2125684 AATATGAAAT
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
21 4 0.10
22 11 0.28
23 1 0.03
24 23 0.59
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
TTATAAATTTTTATTTAAATTTAA
Found at i:2130621 original size:19 final size:19
Alignment explanation
Indices: 2130597--2130639 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
2130587 GATTTAATCT
2130597 ATTTAATTAAAAATTAAAA
1 ATTTAATTAAAAATTAAAA
* *
2130616 ATTTAATTCAAAATTCAAA
1 ATTTAATTAAAAATTAAAA
2130635 ATTTA
1 ATTTA
2130640 TCTTACTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTTAATTAAAAATTAAAA
Found at i:2135164 original size:2 final size:2
Alignment explanation
Indices: 2135157--2135182 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2135147 ATAATGTGTA
2135157 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
2135183 GTGTGTGTGT
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:2135187 original size:2 final size:2
Alignment explanation
Indices: 2135182--2135211 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2135172 TATATATATA
2135182 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2135212 AGAGGAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2140695 original size:21 final size:21
Alignment explanation
Indices: 2140669--2140709 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2140659 TAATATTAAC
*
2140669 TTTTATATAAATTATA-AATTT
1 TTTTAT-TAAATAATATAATTT
2140690 TTTTATTAAATAATATAATT
1 TTTTATTAAATAATATAATT
2140710 AAATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTATTAAATAATATAATTT
Found at i:2140714 original size:26 final size:24
Alignment explanation
Indices: 2140683--2140779 Score: 80
Period size: 23 Copynumber: 4.1 Consensus size: 24
2140673 ATATAAATTA
2140683 TAAATTTTTTTATTAAATAATATAAT
1 TAAA-TTTTTTATTAAATAATA-AAT
2140709 TAAA-TTTTTA-T-AATCAATAAAT
1 TAAATTTTTTATTAAAT-AATAAAT
*
2140731 TAAATATTTTATTAAATAA-AAAT
1 TAAATTTTTTATTAAATAATAAAT
* * *
2140754 AAAAATTTATATTTAAA-AAT-AAT
1 TAAATTTTTTA-TTAAATAATAAAT
2140777 TAA
1 TAA
2140780 CTACTAGTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
22 10 0.17
23 28 0.47
24 14 0.24
25 3 0.05
26 4 0.07
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (24 bp):
TAAATTTTTTATTAAATAATAAAT
Found at i:2140756 original size:22 final size:24
Alignment explanation
Indices: 2140690--2140779 Score: 86
Period size: 22 Copynumber: 3.9 Consensus size: 24
2140680 TTATAAATTT
2140690 TTTTATTAAATAATATAATTAAAT-
1 TTTTATTAAATAATA-AATTAAATA
2140714 TTTTA-T-AATCAATAAATTAAATA
1 TTTTATTAAAT-AATAAATTAAATA
*
2140737 TTTTATTAAATAA-AAA-TAAAAA
1 TTTTATTAAATAATAAATTAAATA
2140759 TTTATATTTAAA-AAT-AATTAA
1 TTT-TA-TTAAATAATAAATTAA
2140780 CTACTAGTAA
Statistics
Matches: 57, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
22 19 0.33
23 19 0.33
24 16 0.28
25 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (24 bp):
TTTTATTAAATAATAAATTAAATA
Found at i:2141438 original size:27 final size:28
Alignment explanation
Indices: 2141406--2141460 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
2141396 ATTAATAAAG
*
2141406 AGATAG-TTAAAAAAAATTATGTTTTAA
1 AGATAGTTTAAAAAAAAATATGTTTTAA
2141433 AGATAGTTTTAAAAAAAAATATGTTTTA
1 AGATAG-TTTAAAAAAAAATATGTTTTA
2141461 GCAGTTAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 6 0.24
29 19 0.76
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (28 bp):
AGATAGTTTAAAAAAAAATATGTTTTAA
Found at i:2144350 original size:21 final size:19
Alignment explanation
Indices: 2144321--2144364 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
2144311 ACGCTGCGGA
2144321 AAAACAAAGAAAGATAGAACG
1 AAAACAAAGAAAGA-AGAA-G
* *
2144342 AAAAGAAAGAATGAAGAAG
1 AAAACAAAGAAAGAAGAAG
2144361 AAAA
1 AAAA
2144365 ATTAGCGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 4 0.19
21 12 0.57
ACGTcount: A:0.70, C:0.05, G:0.20, T:0.05
Consensus pattern (19 bp):
AAAACAAAGAAAGAAGAAG
Found at i:2144455 original size:2 final size:2
Alignment explanation
Indices: 2144448--2144486 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
2144438 TATTTTATTT
* * *
2144448 TA TA TA TA TT TA TA TA TA TA TA TA TA TG TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2144487 TATGTGTATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (2 bp):
TA
Found at i:2144457 original size:16 final size:17
Alignment explanation
Indices: 2144438--2144528 Score: 66
Period size: 16 Copynumber: 5.5 Consensus size: 17
2144428 ATTAATGATT
2144438 TATTTTAT-TTTATATA
1 TATTTTATATTTATATA
*
2144454 TA-TTTATATATATATA
1 TATTTTATATTTATATA
*
2144470 TATATGTATATTTATAT-
1 TAT-TTTATATTTATATA
* * *
2144487 TATGTGTATA-TTATTTT
1 TAT-TTTATATTTATATA
* *
2144504 TATTTTATGTTT-TAAA
1 TATTTTATATTTATATA
2144520 TATTTTATA
1 TATTTTATA
2144529 GAAATATCAT
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
15 5 0.08
16 29 0.49
17 14 0.24
18 11 0.19
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (17 bp):
TATTTTATATTTATATA
Found at i:2144487 original size:6 final size:6
Alignment explanation
Indices: 2144435--2144487 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
2144425 AATATTAATG
* * *
2144435 ATTTAT -TTTAT -TTTAT A--TAT ATTTAT ATATAT ATATAT ATGTAT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT
2144479 ATTTAT ATT
1 ATTTAT ATT
2144488 ATGTGTATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 4 0.10
5 10 0.24
6 27 0.66
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (6 bp):
ATTTAT
Found at i:2144505 original size:22 final size:22
Alignment explanation
Indices: 2144426--2144513 Score: 72
Period size: 22 Copynumber: 3.9 Consensus size: 22
2144416 TATTTTTTAA
* *
2144426 ATATTAATGATTTATTTTAT-TTT
1 ATATT-AT-ATTTATATTATGTAT
*
2144449 ATA-TATATTTATATATATATAT
1 ATATTATATTTATAT-TATGTAT
*
2144471 ATATGTATATTTATATTATGTGT
1 ATAT-TATATTTATATTATGTAT
* *
2144494 ATATTATTTTTATTTTATGT
1 ATATTATATTTATATTATGT
2144514 TTTAAATATT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
20 7 0.13
21 5 0.09
22 20 0.36
23 12 0.22
24 11 0.20
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (22 bp):
ATATTATATTTATATTATGTAT
Found at i:2145546 original size:20 final size:22
Alignment explanation
Indices: 2145498--2145547 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
2145488 AAATCATAAA
2145498 TTATTTAATATTTTATATTAAT
1 TTATTTAATATTTTATATTAAT
* * *
2145520 TTTTTTAA-CTTTTA-ATTTAT
1 TTATTTAATATTTTATATTAAT
2145540 TTATTTAA
1 TTATTTAA
2145548 AATAAAGAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 12 0.50
21 5 0.21
22 7 0.29
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTAATATTTTATATTAAT
Found at i:2145612 original size:15 final size:14
Alignment explanation
Indices: 2145594--2145640 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 14
2145584 TATTATTTAA
2145594 TATATTAATTTAAAT
1 TATA-TAATTTAAAT
2145609 TATATAATTTAAAT
1 TATATAATTTAAAT
*
2145623 T-T-TAATTAAAAT
1 TATATAATTTAAAT
2145635 T-TATAA
1 TATATAA
2145641 ATATTAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 11 0.37
13 4 0.13
14 11 0.37
15 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TATATAATTTAAAT
Done.