Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 330 of 333
Found at i:106932279 original size:10 final size:9
Alignment explanation
Indices: 106932256--106932374 Score: 53
Period size: 9 Copynumber: 12.7 Consensus size: 9
106932246 CACGTGTATA
*
106932256 ATAAAAAAT
1 ATAAAAATT
106932265 ATAAAAATT
1 ATAAAAATT
**
106932274 ATTAAATTTT
1 A-TAAAAATT
106932284 AATAAAAATAT
1 -ATAAAAAT-T
* **
106932295 TTAAATTTT
1 ATAAAAATT
106932304 ATAAAAA-T
1 ATAAAAATT
*
106932312 ATAAAAAATG
1 AT-AAAAATT
*
106932322 GTAAAAA-T
1 ATAAAAATT
*
106932330 ATAAAAAAAT
1 AT-AAAAATT
* *
106932340 GTAAAATTT
1 ATAAAAATT
*
106932349 ATAAAAATC
1 ATAAAAATT
106932358 ATTAAAAAATT
1 A-T-AAAAATT
106932369 ATAAAA
1 ATAAAA
106932375 TACATAAAAA
Statistics
Matches: 79, Mismatches: 22, Indels: 18
0.66 0.18 0.15
Matches are distributed among these distances:
8 4 0.05
9 45 0.57
10 21 0.27
11 9 0.11
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:106932290 original size:19 final size:19
Alignment explanation
Indices: 106932264--106932313 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
106932254 TAATAAAAAA
106932264 TATAAAAAT-TATTAAATTT
1 TATAAAAATAT-TTAAATTT
106932283 TAATAAAAATATTTAAATTT
1 T-ATAAAAATATTTAAATTT
106932303 TATAAAAATAT
1 TATAAAAATAT
106932314 AAAAAATGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.38
20 17 0.59
21 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TATAAAAATATTTAAATTT
Found at i:106932320 original size:20 final size:20
Alignment explanation
Indices: 106932264--106932337 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 20
106932254 TAATAAAAAA
**
106932264 TATAAAAAT-TATTAAATTT
1 TATAAAAATATAAAAAATTT
**
106932283 TAATAAAAATAT-TTAAATTT
1 T-ATAAAAATATAAAAAATTT
106932303 TATAAAAATATAAAAAA--T
1 TATAAAAATATAAAAAATTT
**
106932321 GGTAAAAATATAAAAAA
1 TATAAAAATATAAAAAA
106932338 ATGTAAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
18 16 0.33
19 11 0.23
20 20 0.42
21 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
TATAAAAATATAAAAAATTT
Found at i:106932328 original size:19 final size:17
Alignment explanation
Indices: 106932305--106932355 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 17
106932295 TTAAATTTTA
106932305 TAAAAATATAAAAAATGG
1 TAAAAATATAAAAAAT-G
106932323 TAAAAATATAAAAAAATG
1 TAAAAATAT-AAAAAATG
*
106932341 TAAAATTTATAAAAA
1 TAAAA-ATATAAAAA
106932356 TCATTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (17 bp):
TAAAAATATAAAAAATG
Found at i:106932375 original size:19 final size:20
Alignment explanation
Indices: 106932342--106932385 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
106932332 AAAAAAATGT
*
106932342 AAAATTTATAAAAAT-CATTA
1 AAAAATTATAAAAATACA-TA
106932362 AAAAATTAT-AAAATACATA
1 AAAAATTATAAAAATACATA
106932381 AAAAA
1 AAAAA
106932386 ACTCTTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAATTATAAAAATACATA
Found at i:106932384 original size:20 final size:20
Alignment explanation
Indices: 106932342--106932386 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
106932332 AAAAAAATGT
* *
106932342 AAAATTTATAAAAATCATTA
1 AAAAATTATAAAAATCATAA
106932362 AAAAATTAT-AAAATACATAA
1 AAAAATTATAAAAAT-CATAA
106932382 AAAAA
1 AAAAA
106932387 CTCTTTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAATTATAAAAATCATAA
Found at i:106932483 original size:10 final size:9
Alignment explanation
Indices: 106932467--106932509 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
106932457 CCTTTTCAAA
106932467 TTTTATATT
1 TTTTATATT
106932476 TCTTTATATT
1 T-TTTATATT
*
106932486 TTTTATAAT
1 TTTTATATT
*
106932495 TTTCATATT
1 TTTTATATT
106932504 ATTTTA
1 -TTTTA
106932510 AGATTTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 15 0.54
10 13 0.46
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:106932495 original size:27 final size:26
Alignment explanation
Indices: 106932465--106932552 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 26
106932455 ATCCTTTTCA
*
106932465 AATTTTATATTTCTTTATATTTTTTAT
1 AATTTTATATTT-TTTAAATTTTTTAT
*
106932492 AATTTTCATATTATTTTAAGATTTTTATAA
1 AATTTT-ATATT-TTTTAA-ATTTTT-TAT
* *
106932522 AATTTTA-AATTTTTAAAATTTTTAT
1 AATTTTATATTTTTTAAATTTTTTAT
106932547 AATTTT
1 AATTTT
106932553 TTTTTCACAT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
25 8 0.15
26 5 0.10
27 12 0.23
28 11 0.21
29 8 0.15
30 8 0.15
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (26 bp):
AATTTTATATTTTTTAAATTTTTTAT
Found at i:106932508 original size:19 final size:19
Alignment explanation
Indices: 106932466--106932553 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
106932456 TCCTTTTCAA
*
106932466 ATTTTATATTTCTTTAT-AT
1 ATTTTATAATT-TTTATAAT
* * *
106932485 TTTTTATAATTTTCATATT
1 ATTTTATAATTTTTATAAT
*
106932504 ATTTTA-AGATTTTTATAAA
1 ATTTTATA-ATTTTTATAAT
*
106932523 ATTTTA-AATTTTTAAAAT
1 ATTTTATAATTTTTATAAT
106932541 -TTTTATAATTTTT
1 ATTTTATAATTTTT
106932554 TTTTCACATA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
17 5 0.09
18 21 0.38
19 30 0.54
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (19 bp):
ATTTTATAATTTTTATAAT
Found at i:106932542 original size:9 final size:9
Alignment explanation
Indices: 106932505--106932553 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
106932495 TTTCATATTA
*
106932505 TTTTAAGAT
1 TTTTAAAAT
*
106932514 TTTTATAAAA
1 TTTTA-AAAT
106932524 TTTT-AAAT
1 TTTTAAAAT
106932532 TTTTAAAAT
1 TTTTAAAAT
*
106932541 TTTTATAAT
1 TTTTAAAAT
106932550 TTTT
1 TTTT
106932554 TTTTCACATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 7 0.21
9 21 0.62
10 6 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:106943062 original size:16 final size:16
Alignment explanation
Indices: 106943037--106943067 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
106943027 AACATAATTT
106943037 ATTCACTTATTTATTG
1 ATTCACTTATTTATTG
*
106943053 ATTCATTTATTTATT
1 ATTCACTTATTTATT
106943068 AATTGACATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.61
Consensus pattern (16 bp):
ATTCACTTATTTATTG
Found at i:106947924 original size:31 final size:30
Alignment explanation
Indices: 106947851--106947924 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
106947841 GAAAAAAAAT
* * *
106947851 TCAATACCAAAGTGAATACTAAAGTCAAAC
1 TCAATACCAAATTAAATACTAAAATCAAAC
* *
106947881 TCAAGTATCAAATTAAATATTAAAATCAAAC
1 TCAA-TACCAAATTAAATACTAAAATCAAAC
*
106947912 TTAGATACCAAAT
1 TCA-ATACCAAAT
106947925 AATGTATTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
30 4 0.11
31 30 0.86
32 1 0.03
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.26
Consensus pattern (30 bp):
TCAATACCAAATTAAATACTAAAATCAAAC
Found at i:106955524 original size:17 final size:17
Alignment explanation
Indices: 106955502--106955534 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
106955492 AATTTTATTA
106955502 AAATATTATAA-AATTTC
1 AAATA-TATAATAATTTC
106955519 AAATATATAATAATTT
1 AAATATATAATAATTT
106955535 GGAGACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATATAATAATTTC
Found at i:106966462 original size:33 final size:35
Alignment explanation
Indices: 106966425--106966490 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
106966415 TAACTTTTTT
*
106966425 AAATATATATTTTAGAA-TTTTATAATT-TTTTAA
1 AAATATAAATTTTAGAATTTTTATAATTATTTTAA
*
106966458 AAATATAAATTTTGGAATTTTTATAATTATTTT
1 AAATATAAATTTTAGAATTTTTATAATTATTTT
106966491 GAATTTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 15 0.52
34 10 0.34
35 4 0.14
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (35 bp):
AAATATAAATTTTAGAATTTTTATAATTATTTTAA
Found at i:106966496 original size:19 final size:20
Alignment explanation
Indices: 106966466--106966518 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
106966456 AAAAATATAA
* *
106966466 ATTTTGGAATTTTT-ATAATT
1 ATTTT-GAATTTTTGAAAACT
106966486 ATTTTGAATTTTTGAAAACT
1 ATTTTGAATTTTTGAAAACT
106966506 ATTTTGAATTTTT
1 ATTTTGAATTTTT
106966519 TTTGTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAACT
Found at i:106969648 original size:18 final size:18
Alignment explanation
Indices: 106969625--106969668 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
106969615 ATTAAGATGA
*
106969625 ATTATTTTAGGTTTCGTG
1 ATTATTTTAGGGTTCGTG
106969643 ATTATTTTAGGGTTCGTG
1 ATTATTTTAGGGTTCGTG
*
106969661 ATTGTTTT
1 ATTATTTT
106969669 CTTAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.05, G:0.23, T:0.57
Consensus pattern (18 bp):
ATTATTTTAGGGTTCGTG
Found at i:106975388 original size:7 final size:7
Alignment explanation
Indices: 106975378--106975413 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
106975368 GTTCGAGTTT
106975378 AAGGTTC
1 AAGGTTC
106975385 AAGGTTC
1 AAGGTTC
106975392 AAGGTTC
1 AAGGTTC
106975399 AAGGTTC
1 AAGGTTC
*
106975406 GAGGTTC
1 AAGGTTC
106975413 A
1 A
106975414 GAGTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.28
Consensus pattern (7 bp):
AAGGTTC
Found at i:106979046 original size:4 final size:4
Alignment explanation
Indices: 106979037--106979065 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
106979027 CATCATGTGG
106979037 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
106979066 CTCTTTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:106981585 original size:11 final size:11
Alignment explanation
Indices: 106981569--106981595 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
106981559 ACCTTCAATG
106981569 AAAAAAATAGA
1 AAAAAAATAGA
106981580 AAAAAAATAGA
1 AAAAAAATAGA
106981591 AAAAA
1 AAAAA
106981596 GACCAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAAATAGA
Found at i:106992809 original size:20 final size:20
Alignment explanation
Indices: 106992784--106992861 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
106992774 AACATTTAAT
106992784 TAATTTTTATTTTTAAAAAA
1 TAATTTTTATTTTTAAAAAA
*
106992804 TAATTTTTATAATTTTAAATAATTTT
1 TAATTTTTAT--TTTTAAA-AA---A
*
106992830 TACGATTTTTATTTTTTAAAAA
1 TA--ATTTTTATTTTTAAAAAA
106992852 TAATTTTTAT
1 TAATTTTTAT
106992862 AGTTTTTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
20 18 0.38
22 9 0.19
23 2 0.04
25 2 0.04
26 8 0.17
28 8 0.17
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (20 bp):
TAATTTTTATTTTTAAAAAA
Found at i:106992837 original size:19 final size:19
Alignment explanation
Indices: 106992801--106992838 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
106992791 TATTTTTAAA
*
106992801 AAATAATTTTTATAATTTT
1 AAATAATTTTTACAATTTT
*
106992820 AAATAATTTTTACGATTTT
1 AAATAATTTTTACAATTTT
106992839 TATTTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
AAATAATTTTTACAATTTT
Found at i:106992837 original size:28 final size:28
Alignment explanation
Indices: 106992806--106992860 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
106992796 TTAAAAAATA
106992806 ATTTTTATAATTTT-AAATAATTTTTACG
1 ATTTTTAT-ATTTTAAAATAATTTTTACG
*
106992834 ATTTTTATTTTTTAAAAATAATTTTTA
1 ATTTTTATATTTT-AAAATAATTTTTA
106992861 TAGTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 8 0.33
29 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTTTTATATTTTAAAATAATTTTTACG
Found at i:106994697 original size:85 final size:84
Alignment explanation
Indices: 106994491--106994806 Score: 340
Period size: 81 Copynumber: 3.8 Consensus size: 84
106994481 ATTTAGATGT
* *
106994491 ATATGAAAGCATTGGTTTATGGTTGAAATAGGAGAAAAGGGTTGTTGAAAATGTCGAGATTCGAA
1 ATATGAAA-CATTGG-TTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAA
* *
106994556 TCTTAGATTTA-TGAAAAT-TG
64 TATTGGATTTACT-AAAATATG
* * * * * *
106994576 TGTATCAAACATTGGTTTTGGTTGAAATAAGAGAAAGGGGTTCTTGTAAATGTCGAGATTCAAAT
1 -ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAAT
* *
106994641 GTTGGACTTACTAAAATATG
65 ATTGGATTTACTAAAATATG
* * *
106994661 AATATGACACATTGGTTATGATTGAAATAGGAGAAA--GG--GTTGTAAATGTTGAGATTCGAAT
1 -ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAAT
* *
106994722 ATTGAATTTACGAAAAGCTAT-
65 ATTGGATTTACTAAAA--TATG
* * *
106994743 ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAATTGTCAAAATTCGAAT
1 ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAAT
106994807 CCCGAACTTA
Statistics
Matches: 191, Mismatches: 31, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
81 65 0.34
83 7 0.04
84 56 0.29
85 57 0.30
86 6 0.03
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (84 bp):
ATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGTTGTAAATGTCGAGATTCGAATA
TTGGATTTACTAAAATATG
Found at i:106994818 original size:166 final size:170
Alignment explanation
Indices: 106994491--106994819 Score: 409
Period size: 166 Copynumber: 2.0 Consensus size: 170
106994481 ATTTAGATGT
*
106994491 ATATGAAAGCATTGGTTTATGGTTGAAATAGGAGAAAAGGGTTGTTGAAAATGTCGAGATTCGAA
1 ATATGAAAGCATTGGTTTATGATTGAAATAGGAGAAAAGGGTTGTT-AAAATGTCGAGATTCGAA
* * * * * *
106994556 TCTTAGATTTATGAAAATTGTGTATCAAACATTGGTTTTGGTTGAAATAAGAGAAAGGGGTTCTT
65 TATTAGATTTACGAAAACTATATATCAAACATTGGTTATGGTTGAAATAAGAGAAAGGGGTTCTT
* * *** *
106994621 GTAAATGTCGAGATTCAAATGTTGGACTTACTAAAATATGA
130 GTAAATGTCAAAATTCAAATCCCGAACTTACTAAAATATGA
* *
106994662 ATATGACA-CATTGG-TTATGATTGAAATAGGAG-AAAGGGTTG-T-AAATGTTGAGATTCGAAT
1 ATATGAAAGCATTGGTTTATGATTGAAATAGGAGAAAAGGGTTGTTAAAATGTCGAGATTCGAAT
* * *
106994722 ATT-GAATTTACGAAAAGCTATATATGAAACATTGGTTATGGTTGAAATAGGAGAAAGGGGTTGT
66 ATTAG-ATTTACGAAAA-CTATATATCAAACATTGGTTATGGTTGAAATAAGAGAAAGGGGTTCT
* *
106994786 TGTAATTGTCAAAATTCGAATCCCGAACTTACTA
129 TGTAAATGTCAAAATTCAAATCCCGAACTTACTA
106994820 TCTAATTATA
Statistics
Matches: 136, Mismatches: 20, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
164 1 0.01
165 29 0.21
166 66 0.49
167 1 0.01
168 9 0.07
169 17 0.12
170 6 0.04
171 7 0.05
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (170 bp):
ATATGAAAGCATTGGTTTATGATTGAAATAGGAGAAAAGGGTTGTTAAAATGTCGAGATTCGAAT
ATTAGATTTACGAAAACTATATATCAAACATTGGTTATGGTTGAAATAAGAGAAAGGGGTTCTTG
TAAATGTCAAAATTCAAATCCCGAACTTACTAAAATATGA
Found at i:106997288 original size:4 final size:4
Alignment explanation
Indices: 106997279--106997333 Score: 51
Period size: 4 Copynumber: 14.2 Consensus size: 4
106997269 GCTAAGAAGG
* * * *
106997279 TACA TACA TACA GACA TGCA TGCA TACA T--A TACA TACC TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
106997325 TGCA TACA T
1 TACA TACA T
106997334 TCACACGAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
4 39 0.95
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:106997313 original size:26 final size:26
Alignment explanation
Indices: 106997282--106997333 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
106997272 AAGAAGGTAC
*
106997282 ATACATACAGACATGCATGCATACAT
1 ATACATACAGACATACATGCATACAT
**
106997308 ATACATACCTACATACATGCATACAT
1 ATACATACAGACATACATGCATACAT
106997334 TCACACGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (26 bp):
ATACATACAGACATACATGCATACAT
Found at i:106997852 original size:14 final size:14
Alignment explanation
Indices: 106997812--106997843 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
106997802 GCAAAAGTTT
*
106997812 TATATACATATATG
1 TATATGCATATATG
106997826 TATATGCATATATG
1 TATATGCATATATG
106997840 TATA
1 TATA
106997844 CTTCTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (14 bp):
TATATGCATATATG
Found at i:106998012 original size:17 final size:17
Alignment explanation
Indices: 106997992--106998033 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
106997982 TTTTAAAAAT
106997992 TTTTAGATTTCAAATCA
1 TTTTAGATTTCAAATCA
* *
106998009 TTTTAG-GTTCATATCA
1 TTTTAGATTTCAAATCA
*
106998025 TTTTGGATT
1 TTTTAGATT
106998034 GAAATCAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (17 bp):
TTTTAGATTTCAAATCA
Found at i:107004832 original size:26 final size:24
Alignment explanation
Indices: 107004803--107004870 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
107004793 AAATACTATC
* *
107004803 AAAATCAATCCATTAATCAATATAAA
1 AAAAACAATCAATTAAT-AAT-TAAA
*
107004829 AAAAACAATCAATTAATTATTAAA
1 AAAAACAATCAATTAATAATTAAA
* *
107004853 AAAAGCAATTAATTAATA
1 AAAAACAATCAATTAATA
107004871 TTTCATTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 19 0.53
25 2 0.06
26 15 0.42
ACGTcount: A:0.60, C:0.10, G:0.01, T:0.28
Consensus pattern (24 bp):
AAAAACAATCAATTAATAATTAAA
Found at i:107014744 original size:23 final size:25
Alignment explanation
Indices: 107014687--107014745 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
107014677 GTTTCAAATA
107014687 TATATTTTAAAATTAAATAAAATGG
1 TATATTTTAAAATTAAATAAAATGG
* * *
107014712 TATATATTAAAGTTAATTAAAAT-G
1 TATATTTTAAAATTAAATAAAATGG
107014736 -ATATTTTAAA
1 TATATTTTAAA
107014746 CTATATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 9 0.30
24 1 0.03
25 20 0.67
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (25 bp):
TATATTTTAAAATTAAATAAAATGG
Found at i:107019180 original size:12 final size:12
Alignment explanation
Indices: 107019163--107019196 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
107019153 ATAACAATAT
107019163 TGGTGGTGGTGA
1 TGGTGGTGGTGA
*
107019175 TGGTGGCGGTGA
1 TGGTGGTGGTGA
*
107019187 TTGTGGTGGT
1 TGGTGGTGGT
107019197 TTTAATGTTG
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:0.06, C:0.03, G:0.56, T:0.35
Consensus pattern (12 bp):
TGGTGGTGGTGA
Found at i:107019894 original size:16 final size:15
Alignment explanation
Indices: 107019862--107019905 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
107019852 CTATTAAAAA
* *
107019862 AAATTAAATAAATTT
1 AAATTAAATAGAGTT
107019877 AAATTATAATAGAGTT
1 AAATTA-AATAGAGTT
107019893 AACATTAAATAGA
1 AA-ATTAAATAGA
107019906 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 15 0.60
17 4 0.16
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (15 bp):
AAATTAAATAGAGTT
Found at i:107026587 original size:40 final size:40
Alignment explanation
Indices: 107026532--107026612 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
107026522 TTTGAAACAT
107026532 TACTGAATAAATGTCCAAAAATCATAAAAAAATTATGTTG
1 TACTGAATAAATGTCCAAAAATCATAAAAAAATTATGTTG
107026572 TACTGAATAAATGTCCAAAAATCATAAAAAAATTATGTTG
1 TACTGAATAAATGTCCAAAAATCATAAAAAAATTATGTTG
107026612 T
1 T
107026613 CAAATTAAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (40 bp):
TACTGAATAAATGTCCAAAAATCATAAAAAAATTATGTTG
Found at i:107028504 original size:14 final size:14
Alignment explanation
Indices: 107028485--107028512 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
107028475 AAGGGCTCAC
107028485 CAATTATAAGATGG
1 CAATTATAAGATGG
107028499 CAATTATAAGATGG
1 CAATTATAAGATGG
107028513 ACCCTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
CAATTATAAGATGG
Found at i:107033355 original size:20 final size:19
Alignment explanation
Indices: 107033308--107033355 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
107033298 AAGAAAATGA
107033308 AGCAATATATATATATAATT
1 AGCAATA-ATATATATAATT
*
107033328 AG-ATATAATATATAGTATTT
1 AGCA-ATAATATATA-TAATT
107033348 AGCAATAA
1 AGCAATAA
107033356 ACCTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 8 0.33
20 15 0.62
21 1 0.04
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (19 bp):
AGCAATAATATATATAATT
Found at i:107035923 original size:21 final size:22
Alignment explanation
Indices: 107035897--107035943 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
107035887 CTCTGCTCAA
*
107035897 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
107035918 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
107035940 ACTC
1 ACTC
107035944 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:107040786 original size:21 final size:21
Alignment explanation
Indices: 107040761--107040818 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
107040751 GTCTCTTCTG
*
107040761 CTTCTCCATTTGTTTTTC-TC
1 CTTCTCCATCTGTTTTTCTTC
*
107040781 CATTCTCTATCTGTTTTTCTTC
1 C-TTCTCCATCTGTTTTTCTTC
107040803 CTTCTCCATCT-TTTTT
1 CTTCTCCATCTGTTTTT
107040819 AACATAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 6 0.18
21 24 0.73
22 3 0.09
ACGTcount: A:0.07, C:0.29, G:0.03, T:0.60
Consensus pattern (21 bp):
CTTCTCCATCTGTTTTTCTTC
Found at i:107040929 original size:29 final size:29
Alignment explanation
Indices: 107040888--107040943 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
107040878 GGAGAAGGGA
* *
107040888 GGAAAACAGAGGAAGAAACA-AAAGAAAAT
1 GGAAAACAAAGGAA-AAAAAGAAAGAAAAT
*
107040917 GGAAAATAAAGGAAAAAAAGAAAGAAA
1 GGAAAACAAAGGAAAAAAAGAAAGAAA
107040944 GTTAAAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.70, C:0.04, G:0.23, T:0.04
Consensus pattern (29 bp):
GGAAAACAAAGGAAAAAAAGAAAGAAAAT
Found at i:107041128 original size:15 final size:15
Alignment explanation
Indices: 107041108--107041141 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
107041098 ACATGTTAAC
*
107041108 GTAAGTGACTAAAAT
1 GTAAGTAACTAAAAT
107041123 GTAAGTAACTAAAAT
1 GTAAGTAACTAAAAT
107041138 GTAA
1 GTAA
107041142 CTTAAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (15 bp):
GTAAGTAACTAAAAT
Found at i:107050103 original size:4 final size:4
Alignment explanation
Indices: 107050094--107050144 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
107050084 CATAGTCAAA
107050094 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
107050142 ACA
1 ACA
107050145 CCAAAAGGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:107058938 original size:31 final size:31
Alignment explanation
Indices: 107058903--107058965 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
107058893 AGAGGACCTA
*
107058903 AGAATTGTCATTCACTTTTCATAACCATATT
1 AGAATTGTCATTCACTTTTCATAACAATATT
107058934 AGAATTGTCATTCACTTTTCATAACAATATT
1 AGAATTGTCATTCACTTTTCATAACAATATT
107058965 A
1 A
107058966 TGCATACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.41
Consensus pattern (31 bp):
AGAATTGTCATTCACTTTTCATAACAATATT
Found at i:107059006 original size:4 final size:4
Alignment explanation
Indices: 107058968--107059044 Score: 93
Period size: 4 Copynumber: 19.5 Consensus size: 4
107058958 CAATATTATG
* * * * * *
107058968 CATA CATA TAT- CACA CATA CACA CACA AATG CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
107059015 CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CA
107059045 GTCTATGTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
3 1 0.02
4 61 0.98
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.22
Consensus pattern (4 bp):
CATA
Found at i:107062251 original size:3 final size:3
Alignment explanation
Indices: 107062238--107062268 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
107062228 AAATAAAATG
*
107062238 TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
107062269 TCAAGCTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:107062716 original size:2 final size:2
Alignment explanation
Indices: 107062709--107062736 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
107062699 TGAAAGCAAG
107062709 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
107062737 GGTGTTTTTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:107064824 original size:25 final size:25
Alignment explanation
Indices: 107064789--107064838 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
107064779 TCTACTTGTG
*
107064789 TTTTTTAAATAAATTTATATTATTTA
1 TTTTTTAAATAAATTT-TAATATTTA
*
107064815 TTTTTT-AATATATTTTAATATTTA
1 TTTTTTAAATAAATTTTAATATTTA
107064839 CATTATAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 8 0.36
26 6 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTTAAATAAATTTTAATATTTA
Found at i:107067785 original size:18 final size:18
Alignment explanation
Indices: 107067762--107067805 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
107067752 ATTGTTTTAT
*
107067762 TTTTTTA-TTTTTAATATA
1 TTTTTTAGTTTATAAT-TA
107067780 TTTTTTAGTTTATAATTA
1 TTTTTTAGTTTATAATTA
107067798 TTCTTTTA
1 TT-TTTTA
107067806 ACTCAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTTAGTTTATAATTA
Found at i:107069166 original size:39 final size:39
Alignment explanation
Indices: 107069123--107069201 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
107069113 TATTGGTATT
107069123 GTATCAATTAGTCATTCTATGAACATGGCCGTCAATTTA
1 GTATCAATTAGTCATTCTATGAACATGGCCGTCAATTTA
107069162 GTATCAATTAGTCATTCTATGAACATGGCCGTCAATTTA
1 GTATCAATTAGTCATTCTATGAACATGGCCGTCAATTTA
107069201 G
1 G
107069202 GTGTTAAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (39 bp):
GTATCAATTAGTCATTCTATGAACATGGCCGTCAATTTA
Found at i:107072490 original size:31 final size:31
Alignment explanation
Indices: 107072452--107072512 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
107072442 AAATGATTAT
*
107072452 TGAACTATTCGAAAATTTTCATTTAAGTCAC
1 TGAACTATTAGAAAATTTTCATTTAAGTCAC
* * *
107072483 TGAACTATTAGAAAGTTTTTATTTGAGTCA
1 TGAACTATTAGAAAATTTTCATTTAAGTCA
107072513 ATAGGCTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (31 bp):
TGAACTATTAGAAAATTTTCATTTAAGTCAC
Found at i:107074303 original size:17 final size:18
Alignment explanation
Indices: 107074263--107074303 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
107074253 TGTTCAACAG
107074263 TTAAAAAATAAAATAAAA
1 TTAAAAAATAAAATAAAA
*
107074281 -TAAAAAACTAAAA-ATAA
1 TTAAAAAA-TAAAATAAAA
107074298 TTAAAA
1 TTAAAA
107074304 GTTAAAGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (18 bp):
TTAAAAAATAAAATAAAA
Found at i:107084952 original size:27 final size:28
Alignment explanation
Indices: 107084901--107084962 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
107084891 TTACTTAATA
**
107084901 AATAATTATTATTTTTGTTTACAAAAAT
1 AATAATTATTATTTTTGTAAACAAAAAT
107084929 AA-AATTATTATTTTTG-AAAGCAAAAAT
1 AATAATTATTATTTTTGTAAA-CAAAAAT
107084956 AATAATT
1 AATAATT
107084963 TTGTAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.03
27 23 0.77
28 6 0.20
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (28 bp):
AATAATTATTATTTTTGTAAACAAAAAT
Found at i:107086569 original size:4 final size:4
Alignment explanation
Indices: 107086553--107086612 Score: 93
Period size: 4 Copynumber: 15.0 Consensus size: 4
107086543 AAAAGGCTAA
* * *
107086553 TATG TACG TATG TATG TATG TATG AATG TATG AATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
107086601 TATG TATG TATG
1 TATG TATG TATG
107086613 AAACAATGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.45
Consensus pattern (4 bp):
TATG
Found at i:107086829 original size:4 final size:4
Alignment explanation
Indices: 107086822--107086859 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
107086812 TCTGTCTGTC
* *
107086822 TGTA TGTA TGTA TGTA TGTA CGTA CGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
107086860 AATGAATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.24, C:0.05, G:0.26, T:0.45
Consensus pattern (4 bp):
TGTA
Found at i:107087252 original size:12 final size:12
Alignment explanation
Indices: 107087235--107087271 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
107087225 GGTAATATTT
107087235 CACACACATACA
1 CACACACATACA
107087247 CACACACATACA
1 CACACACATACA
* *
107087259 TACATACATACA
1 CACACACATACA
107087271 C
1 C
107087272 TTACAAGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.14
Consensus pattern (12 bp):
CACACACATACA
Found at i:107091197 original size:16 final size:17
Alignment explanation
Indices: 107091178--107091211 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
107091168 TACGTTTATA
107091178 AATTTAAATT-TTTTCG
1 AATTTAAATTATTTTCG
107091194 AATTTAAATTATTTTCG
1 AATTTAAATTATTTTCG
107091211 A
1 A
107091212 TTCCAGGGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
AATTTAAATTATTTTCG
Found at i:107101902 original size:39 final size:39
Alignment explanation
Indices: 107101848--107101975 Score: 166
Period size: 39 Copynumber: 3.3 Consensus size: 39
107101838 TATGAGATTG
*
107101848 AAAATATCCGGACATGAGGTCCGCAGGTTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
107101887 AAAATATCCGAACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * * **
107101926 GATATATCTGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
107101965 AAAATATCCGG
1 AAAATATCCGG
107101976 GTTAAAGACC
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:107101989 original size:78 final size:77
Alignment explanation
Indices: 107101851--107102001 Score: 178
Period size: 78 Copynumber: 1.9 Consensus size: 77
107101841 GAGATTGAAA
* * * *
107101851 ATATCCGGACATGAGGTCCGCAGGTTATATGCTGGAAAAATATCCGAACATGAGATCCGCAGGCT
1 ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGAACATAAGACCCGCAGGCT
*
107101916 ATATGCTAGAGAT
66 -TACGCTAGAGAT
* * * ***
107101929 ATATCTGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCG-GGTTAAAGACCCGCAGGC
1 ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGAACAT-AAGACCCGCAGGC
107101993 TTACGCTAG
65 TTACGCTAG
107102002 TAATGTATTC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
77 8 0.13
78 53 0.87
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (77 bp):
ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGAACATAAGACCCGCAGGCT
TACGCTAGAGAT
Found at i:107104363 original size:79 final size:81
Alignment explanation
Indices: 107104195--107104379 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
107104185 GCTACTCGTT
* *
107104195 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
107104259 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * **
107104276 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
107104338 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
*
107104355 CAAAGCCTTTGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
107104380 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:107104379 original size:40 final size:40
Alignment explanation
Indices: 107104176--107104379 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
107104166 CGGAATTTAA
** *
107104176 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
107104216 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
107104256 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
107104295 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
107104335 CCGGATATGGTCACTTAGCACAAA-GCCTTTGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
107104375 CCGGA
1 CCGGA
107104380 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:107105500 original size:41 final size:41
Alignment explanation
Indices: 107105443--107105566 Score: 189
Period size: 41 Copynumber: 3.0 Consensus size: 41
107105433 CAGATTCACC
107105443 GAAATGTATCACCGGCATTTAGCCTGCTAGACTTAAAGTCT
1 GAAATGTATCACCGGCATTTAGCCTGCTAGACTTAAAGTCT
107105484 GAAATGTATCACCGGCATTTAGCCTGCTAGACTTAAAGTCT
1 GAAATGTATCACCGGCATTTAGCCTGCTAGACTTAAAGTCT
* * *
107105525 G-AAT-TACTTCACCGGCATTAAGCCTGCTAGACGTAACGTCT
1 GAAATGTA--TCACCGGCATTTAGCCTGCTAGACTTAAAGTCT
107105566 G
1 G
107105567 TATTATATTC
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
39 2 0.03
40 3 0.04
41 73 0.94
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (41 bp):
GAAATGTATCACCGGCATTTAGCCTGCTAGACTTAAAGTCT
Found at i:107113051 original size:41 final size:40
Alignment explanation
Indices: 107113006--107113202 Score: 254
Period size: 41 Copynumber: 4.8 Consensus size: 40
107112996 TGATTCAGTA
* *
107113006 CACCGGCACTTAGTCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAGCCTGCTAGACATAAAGTCTGAAATGTAT
*
107113047 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATT-AGCCTGCTAGACATAAAGTCTGAAATGTAT
*
107113088 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGAAATGTAT
1 CACCGGCA-TTAGCCTGCTAGACATAAAGTCTGAAATGTAT
*
107113129 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-AAT-TACTT
1 CACCGGCA-TTAGCCTGCTAGACATAAAGTCTGAAATGTA--T
* *
107113170 CACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 CACCGGCATT-AGCCTGCTAGACATAAAGTCTG
107113203 TATTATATTC
Statistics
Matches: 146, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
39 2 0.01
40 7 0.05
41 135 0.92
42 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATAAAGTCTGAAATGTAT
Found at i:107113106 original size:82 final size:81
Alignment explanation
Indices: 107112964--107113202 Score: 275
Period size: 82 Copynumber: 2.9 Consensus size: 81
107112954 TTAAACAGAT
** * * * * * *
107112964 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTACACCGGCACTTAGTCTGCTAGA
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATT-ACT-CACCGGCATTTAGCCTGCTAGA
*
107113028 CATATAGTCTGAAATGTA
64 CATAAAGTCTGAAATGTA
*
107113046 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA-TCACCGGCATTTAGCCTGCTAGA
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTG-AAT-TACTCACCGGCATTTAGCCTGCTAGA
*
107113110 CTTAAAGTCTGAAATGTA
64 CATAAAGTCTGAAATGTA
* * *
107113128 TCACCGGCATTTAGCCTGCTAGACTTAAAGTCTGAATTACTTCACCGGCATTAAGCCTGCTAGAC
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC-TCACCGGCATTTAGCCTGCTAGAC
* *
107113193 GTAACGTCTG
65 ATAAAGTCTG
107113203 TATTATATTC
Statistics
Matches: 136, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
80 2 0.01
81 3 0.02
82 126 0.93
83 1 0.01
84 3 0.02
85 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (81 bp):
TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTACTCACCGGCATTTAGCCTGCTAGACA
TAAAGTCTGAAATGTA
Found at i:107113202 original size:123 final size:122
Alignment explanation
Indices: 107112964--107113192 Score: 320
Period size: 123 Copynumber: 1.9 Consensus size: 122
107112954 TTAAACAGAT
* * * *
107112964 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTGATTCAGTACACCGGCACTTAGTCTGCTAGAC
1 TCACCGGCATTTAGCCTGCTAGACTTAAAGCCTGAAT-AGTACACCGGCACTTAGCCTGCTAGAC
*
107113029 ATATAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
65 ATAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
* *
107113087 TCACCGGCATTTAGCCTGCTAGACTTAAAGTCTGAA-ATGTATCACCGGCATTTAGCCTGCTAGA
1 TCACCGGCATTTAGCCTGCTAGACTTAAAGCCTGAATA-GTA-CACCGGCACTTAGCCTGCTAGA
*
107113151 CTTAAAGTCTG-AAT-TACTTCACCGGCATTAAGCCTGCTAGAC
64 CATAAAGTCTGAAATGTA--TCACCGGCATTAAGCCTGCTAGAC
107113193 GTAACGTCTG
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
121 3 0.03
122 6 0.06
123 85 0.90
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (122 bp):
TCACCGGCATTTAGCCTGCTAGACTTAAAGCCTGAATAGTACACCGGCACTTAGCCTGCTAGACA
TAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
Found at i:107128532 original size:29 final size:29
Alignment explanation
Indices: 107128497--107128555 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
107128487 GTCCTTTCTG
*
107128497 TTATTATTAATGTTATGCCTTGTTTCAAA
1 TTATTATTAATGTTATCCCTTGTTTCAAA
107128526 TTATTATTAATGTTATCCCTTGTTTCAAA
1 TTATTATTAATGTTATCCCTTGTTTCAAA
107128555 T
1 T
107128556 CACATAGGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (29 bp):
TTATTATTAATGTTATCCCTTGTTTCAAA
Found at i:107128625 original size:26 final size:26
Alignment explanation
Indices: 107128607--107128665 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
107128597 GATTGCAGTG
* *
107128607 ATTGATTTGATCAACTGATTCTATTA
1 ATTGATTTGACCAACTGATTCTAGTA
* *
107128633 ATTGATTTGACCAATTGATTCTATTA
1 ATTGATTTGACCAACTGATTCTAGTA
107128659 ATT-ATTT
1 ATTGATTT
107128666 ATTTAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (26 bp):
ATTGATTTGACCAACTGATTCTAGTA
Found at i:107142702 original size:14 final size:14
Alignment explanation
Indices: 107142680--107142715 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
107142670 TAAACAAATT
*
107142680 CATACATATACATA
1 CATATATATACATA
107142694 CATATATATACATA
1 CATATATATACATA
107142708 CATATATA
1 CATATATA
107142716 CATGTGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (14 bp):
CATATATATACATA
Found at i:107142726 original size:14 final size:14
Alignment explanation
Indices: 107142685--107142739 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 14
107142675 AAATTCATAC
**
107142685 ATATACATACATAT
1 ATATACATGTATAT
*
107142699 ATATACA--TACAT
1 ATATACATGTATAT
*
107142711 ATATACATGTGTAT
1 ATATACATGTATAT
*
107142725 ATATATATGTATAT
1 ATATACATGTATAT
107142739 A
1 A
107142740 AGAGTTAATC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 10 0.30
14 23 0.70
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.40
Consensus pattern (14 bp):
ATATACATGTATAT
Found at i:107145641 original size:19 final size:18
Alignment explanation
Indices: 107145614--107145649 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
107145604 TTAATATATC
*
107145614 ATTTGATATTTATATTTAA
1 ATTTAATATTTA-ATTTAA
107145633 ATTTAATATTTAATTTA
1 ATTTAATATTTAATTTA
107145650 GTATTCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
ATTTAATATTTAATTTAA
Found at i:107151003 original size:18 final size:18
Alignment explanation
Indices: 107150974--107151017 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
107150964 TAAGAAAGTA
*
107150974 TTCACTCTTGAAAGAGTG
1 TTCACACTTGAAAGAGTG
*
107150992 TTTACACTTGAAAGAGTG
1 TTCACACTTGAAAGAGTG
107151010 TTCACACT
1 TTCACACT
107151018 AAAAAGCAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (18 bp):
TTCACACTTGAAAGAGTG
Found at i:107151023 original size:18 final size:18
Alignment explanation
Indices: 107150984--107151023 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
107150974 TTCACTCTTG
* **
107150984 AAAGAGTGTTTACACTTG
1 AAAGAGTGTTCACACTAA
107151002 AAAGAGTGTTCACACTAA
1 AAAGAGTGTTCACACTAA
107151020 AAAG
1 AAAG
107151024 CAGGTGGCTT
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:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (18 bp):
AAAGAGTGTTCACACTAA
Found at i:107151981 original size:23 final size:22
Alignment explanation
Indices: 107151954--107152007 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
107151944 AACTTAAATT
107151954 TTAAAATTTAAAAAGTAAAAAAA
1 TTAAAATTTAAAAA-TAAAAAAA
* *
107151977 TTAAATTCTTAAAAATAAAAATA
1 TTAAAAT-TTAAAAATAAAAAAA
107152000 -TAAAATTT
1 TTAAAATTT
107152008 CAATGTCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.07
22 5 0.19
23 13 0.48
24 7 0.26
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TTAAAATTTAAAAATAAAAAAA
Found at i:107158218 original size:93 final size:93
Alignment explanation
Indices: 107158059--107158245 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
107158049 CGATGGGACA
*
107158059 TAGTTGCTATCCTAAAGGGAAGGTAGTTATGGGCTGAGAATTTTTAGGACTTGACTAGCTGCTTC
1 TAGTTGCTATCCTAAAGGGAAGGTAGTTATGGGCTGAGAATTTTGAGGACTTGACTAGCTGCTTC
107158124 TATCTTAAGGCACATCTGGTCTTATCTT
66 TATCTTAAGGCACATCTGGTCTTATCTT
107158152 TAGTTGCTATCCTAAAGGGAAGGTAGTTATGGGCTGAGAATTTTGAGGACTTGACTAGCTGCTTC
1 TAGTTGCTATCCTAAAGGGAAGGTAGTTATGGGCTGAGAATTTTGAGGACTTGACTAGCTGCTTC
107158217 TATCTTAAGGCACATCTGGTCTTATCTT
66 TATCTTAAGGCACATCTGGTCTTATCTT
107158245 T
1 T
107158246 TGGAGGTCAG
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (93 bp):
TAGTTGCTATCCTAAAGGGAAGGTAGTTATGGGCTGAGAATTTTGAGGACTTGACTAGCTGCTTC
TATCTTAAGGCACATCTGGTCTTATCTT
Found at i:107161251 original size:18 final size:18
Alignment explanation
Indices: 107161228--107161268 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
107161218 ATTCACTATC
107161228 AAAATTGATAAAT-TATTA
1 AAAATT-ATAAATCTATTA
*
107161246 AAAATTTTAAATCTATTA
1 AAAATTATAAATCTATTA
107161264 AAAAT
1 AAAAT
107161269 AATATTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATTATAAATCTATTA
Found at i:107161425 original size:15 final size:15
Alignment explanation
Indices: 107161397--107161439 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
107161387 AATATTTTCA
*
107161397 ATTACTTTAATTTAAT
1 ATTA-TTTATTTTAAT
*
107161413 TTTATTTATTTTAAT
1 ATTATTTATTTTAAT
*
107161428 ATTATATATTTT
1 ATTATTTATTTT
107161440 TTAAAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 20 0.87
16 3 0.13
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTATTTATTTTAAT
Found at i:107162436 original size:16 final size:17
Alignment explanation
Indices: 107162406--107162446 Score: 75
Period size: 16 Copynumber: 2.5 Consensus size: 17
107162396 GATAGCTGAC
107162406 TCAAGGCCAGTAGAAAT
1 TCAAGGCCAGTAGAAAT
107162423 TCAAGGCC-GTAGAAAT
1 TCAAGGCCAGTAGAAAT
107162439 TCAAGGCC
1 TCAAGGCC
107162447 TGGTGACTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (17 bp):
TCAAGGCCAGTAGAAAT
Found at i:107170387 original size:21 final size:21
Alignment explanation
Indices: 107170363--107170404 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
107170353 TGTTATTATA
107170363 CCAATCAAAATTATATACAAT
1 CCAATCAAAATTATATACAAT
107170384 CCAATCAAAATTATATACAAT
1 CCAATCAAAATTATATACAAT
107170405 TGATGGACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (21 bp):
CCAATCAAAATTATATACAAT
Found at i:107185014 original size:8 final size:9
Alignment explanation
Indices: 107184995--107185041 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
107184985 TTAATCCATC
107184995 ATTTGATTA
1 ATTTGATTA
107185004 ATTTG-TTA
1 ATTTGATTA
* *
107185012 ATTTAATTG
1 ATTTGATTA
107185021 ATTT-ATTTA
1 ATTTGA-TTA
107185030 ATTTGATTA
1 ATTTGATTA
107185039 ATT
1 ATT
107185042 AAAAATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
8 8 0.25
9 23 0.72
10 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (9 bp):
ATTTGATTA
Found at i:107185019 original size:13 final size:14
Alignment explanation
Indices: 107185001--107185041 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
107184991 CATCATTTGA
107185001 TTAATTTG-TTAAT
1 TTAATTTGATTAAT
*
107185014 TTAA-TTGATTTAT
1 TTAATTTGATTAAT
107185027 TTAATTTGATTAAT
1 TTAATTTGATTAAT
107185041 T
1 T
107185042 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 3 0.12
13 12 0.50
14 9 0.38
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (14 bp):
TTAATTTGATTAAT
Found at i:107189198 original size:21 final size:21
Alignment explanation
Indices: 107189160--107189199 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
107189150 TATCATATCA
* *
107189160 TTACATAAAATTTTAAAATTT
1 TTACATAAAATATAAAAATTT
107189181 TTACATAAAATATAAAAAT
1 TTACATAAAATATAAAAAT
107189200 ATACAGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TTACATAAAATATAAAAATTT
Found at i:107192034 original size:59 final size:59
Alignment explanation
Indices: 107191967--107192085 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
107191957 GAGCTCTTGA
107191967 TACTGTTGGTTTGTTCTTAATCTTCAACCTTCTATTTTTATTTGATGTGATTTTCCCAT
1 TACTGTTGGTTTGTTCTTAATCTTCAACCTTCTATTTTTATTTGATGTGATTTTCCCAT
107192026 TACTGTTGGTTTGTTCTTAATCTTCAACCTTCTATTTTTATTTGATGTGATTTTCCCAT
1 TACTGTTGGTTTGTTCTTAATCTTCAACCTTCTATTTTTATTTGATGTGATTTTCCCAT
107192085 T
1 T
107192086 TTGTATAAGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.55
Consensus pattern (59 bp):
TACTGTTGGTTTGTTCTTAATCTTCAACCTTCTATTTTTATTTGATGTGATTTTCCCAT
Found at i:107195341 original size:24 final size:24
Alignment explanation
Indices: 107195294--107195341 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
107195284 TAATGTACAA
* *
107195294 AGATCAAATTTTAATAGTAGAAAT
1 AGATAAAATTTTAATAGTAAAAAT
107195318 AGATAAAATTTTTAATAG-AAAAAT
1 AGATAAAA-TTTTAATAGTAAAAAT
107195342 CAATTTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.33
Consensus pattern (24 bp):
AGATAAAATTTTAATAGTAAAAAT
Found at i:107195445 original size:12 final size:12
Alignment explanation
Indices: 107195428--107195454 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
107195418 ATAGAAGAGC
107195428 TTTCATAGTACT
1 TTTCATAGTACT
107195440 TTTCATAGTACT
1 TTTCATAGTACT
107195452 TTT
1 TTT
107195455 ATCTAACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (12 bp):
TTTCATAGTACT
Found at i:107197475 original size:22 final size:22
Alignment explanation
Indices: 107197435--107197476 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
107197425 TGATTACCTT
* *
107197435 AAATATTCAGTTTAGTTTCTAA
1 AAATATTCAGTTGAATTTCTAA
*
107197457 AAATATTTAGTTGAATTTCT
1 AAATATTCAGTTGAATTTCT
107197477 GAAATTTCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.48
Consensus pattern (22 bp):
AAATATTCAGTTGAATTTCTAA
Found at i:107202676 original size:3 final size:3
Alignment explanation
Indices: 107202668--107202695 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
107202658 GATTCTATGC
107202668 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
107202696 GTCGTCTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:107206909 original size:29 final size:31
Alignment explanation
Indices: 107206842--107206912 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
107206832 TTAATAACTC
*
107206842 AATTAAATTTTCGATTATAATAAAATATAAT
1 AATTAAATTTTCGATTATAATAAAATATAAA
*
107206873 AATCAAATTTT-GA-TA-AATTAAAATA-AAA
1 AATTAAATTTTCGATTATAA-TAAAATATAAA
107206901 AGATTAAATTTT
1 A-ATTAAATTTT
107206913 TGGATTTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
28 5 0.14
29 18 0.51
30 2 0.06
31 10 0.29
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (31 bp):
AATTAAATTTTCGATTATAATAAAATATAAA
Found at i:107207812 original size:20 final size:20
Alignment explanation
Indices: 107207787--107207834 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
107207777 AAATATAAAT
107207787 ATATATAATAATTATT-TAAC
1 ATATATAAT-ATTATTATAAC
*
107207807 ATATATAATATTTTTATAAC
1 ATATATAATATTATTATAAC
107207827 ATAATATA
1 AT-ATATA
107207835 TTCAACTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 5 0.20
20 15 0.60
21 5 0.20
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATATAATATTATTATAAC
Found at i:107208634 original size:29 final size:28
Alignment explanation
Indices: 107208562--107208634 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
107208552 TTTTTGAGTC
*
107208562 TAATAAAAAATTTTAAAATTTTAAAGGGTT
1 TAAT-AAAATTTTTAAAATTTTAAA-GGTT
107208592 TAATTAAAATTTTTAATAATTTTAAA-GTT
1 TAA-TAAAATTTTTAA-AATTTTAAAGGTT
107208621 TAATAATAATTTTT
1 TAATAA-AATTTTT
107208635 TTTAAATTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
28 3 0.08
29 13 0.33
30 13 0.33
31 10 0.26
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (28 bp):
TAATAAAATTTTTAAAATTTTAAAGGTT
Found at i:107208636 original size:31 final size:29
Alignment explanation
Indices: 107208562--107208634 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
107208552 TTTTTGAGTC
* *
107208562 TAATAAAAAATTTTAAAATTTTAAAGGGTT
1 TAATTAAAATTTTTAAAATTTTAAA-GGTT
107208592 TAATTAAAATTTTTAATAATTTTAAA-GTT
1 TAATTAAAATTTTTAA-AATTTTAAAGGTT
107208621 TAA-TAATAATTTTT
1 TAATTAA-AATTTTT
107208635 TTTAAATTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 3 0.08
29 13 0.33
30 14 0.36
31 9 0.23
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (29 bp):
TAATTAAAATTTTTAAAATTTTAAAGGTT
Found at i:107211599 original size:21 final size:21
Alignment explanation
Indices: 107211569--107211610 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
107211559 GCATATTTTT
* *
107211569 TAAAATAAATAATTAAGAAAA
1 TAAAAAAAATAATAAAGAAAA
107211590 TAAAAAAAATAATAAAGAAAA
1 TAAAAAAAATAATAAAGAAAA
107211611 AAGTAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (21 bp):
TAAAAAAAATAATAAAGAAAA
Found at i:107211921 original size:3 final size:3
Alignment explanation
Indices: 107211913--107211953 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
107211903 CCTACTTTCG
* * *
107211913 TTC TTC TTC TTC TTC TTC TTC TTC TTC ATA TTC TTC ATC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
107211954 TATCAGGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:107212516 original size:30 final size:31
Alignment explanation
Indices: 107212471--107212533 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
107212461 TTGCAGGATT
* **
107212471 TTTTTATTGTTTTTTTTTATTTTTTCATGCA
1 TTTTTACTGTTTTTTTTTAAATTTTCATGCA
107212502 TTTTTACT-TTTTTTTTTAAATTTTCATGCA
1 TTTTTACTGTTTTTTTTTAAATTTTCATGCA
107212532 TT
1 TT
107212534 CTTTCACCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.16, C:0.08, G:0.05, T:0.71
Consensus pattern (31 bp):
TTTTTACTGTTTTTTTTTAAATTTTCATGCA
Found at i:107212737 original size:20 final size:21
Alignment explanation
Indices: 107212714--107212764 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
107212704 ATTTTTTAGA
107212714 TTTTTTTTGAAATTTCGTG-T
1 TTTTTTTTGAAATTTCGTGAT
* *
107212734 TTTTTTTTTAAATTTGGTGAT
1 TTTTTTTTGAAATTTCGTGAT
107212755 TCTTTTTTTG
1 T-TTTTTTTG
107212765 GTGTTTAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 2 0.08
22 7 0.27
ACGTcount: A:0.14, C:0.04, G:0.14, T:0.69
Consensus pattern (21 bp):
TTTTTTTTGAAATTTCGTGAT
Found at i:107212738 original size:21 final size:22
Alignment explanation
Indices: 107212714--107212764 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
107212704 ATTTTTTAGA
107212714 TTTTTTTTGAAATTTCGTG-TT
1 TTTTTTTTGAAATTTCGTGATT
*
107212735 TTTTTTTT-AAATTTGGTGATT
1 TTTTTTTTGAAATTTCGTGATT
*
107212756 CTTTTTTTG
1 TTTTTTTTG
107212765 GTGTTTAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.14, C:0.04, G:0.14, T:0.69
Consensus pattern (22 bp):
TTTTTTTTGAAATTTCGTGATT
Found at i:107216470 original size:25 final size:25
Alignment explanation
Indices: 107216448--107216499 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
107216438 TATCAAATTT
107216448 AAGCATAATACAGGGACTAAAATCA
1 AAGCATAATACAGGGACTAAAATCA
107216473 AAGCATAATACAGGGACTAAAATCA
1 AAGCATAATACAGGGACTAAAATCA
107216498 AA
1 AA
107216500 TTTGACCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (25 bp):
AAGCATAATACAGGGACTAAAATCA
Found at i:107217637 original size:24 final size:24
Alignment explanation
Indices: 107217610--107217655 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
107217600 AACAGTAGAC
107217610 AATTTGTTTATAGAAAATTTAATG
1 AATTTGTTTATAGAAAATTTAATG
107217634 AATTTGTTTATAGAAAATTTAA
1 AATTTGTTTATAGAAAATTTAA
107217656 AGACAACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (24 bp):
AATTTGTTTATAGAAAATTTAATG
Found at i:107223746 original size:19 final size:17
Alignment explanation
Indices: 107223715--107223762 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 17
107223705 TCCAGAAATT
107223715 AAAAAAAGAAAAATTCAG
1 AAAAAAAGAAAAATT-AG
*
107223733 AAAAATAAGTAAAATTAG
1 AAAAA-AAGAAAAATTAG
107223751 -AAAAAAGAAAAA
1 AAAAAAAGAAAAA
107223763 AACACAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 7 0.26
17 4 0.15
18 7 0.26
19 9 0.33
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAAAAAGAAAAATTAG
Found at i:107226553 original size:22 final size:22
Alignment explanation
Indices: 107226522--107226575 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
107226512 TAGCTTTTTC
* *
107226522 AATTTTAATTTATTAATAAATAA
1 AATTTTAATTCAAT-ATAAATAA
*
107226545 AA-TTTAATTCAATATACATAA
1 AATTTTAATTCAATATAAATAA
107226566 AATTTTAATT
1 AATTTTAATT
107226576 AGGACAAGCG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.33
22 16 0.59
23 2 0.07
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTTTAATTCAATATAAATAA
Found at i:107227398 original size:22 final size:22
Alignment explanation
Indices: 107227372--107227425 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
107227362 ATAATAAAAT
*
107227372 AAATAATATATTAAATTAAGGA
1 AAATAATATATTAAATTAAAGA
* * *
107227394 AAATAA-CTCTTAATTTAAAGA
1 AAATAATATATTAAATTAAAGA
107227415 AAATAAATATA
1 AAAT-AATATA
107227426 ATTATCTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
21 15 0.62
22 8 0.33
23 1 0.04
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (22 bp):
AAATAATATATTAAATTAAAGA
Found at i:107233541 original size:68 final size:69
Alignment explanation
Indices: 107233410--107233541 Score: 230
Period size: 68 Copynumber: 1.9 Consensus size: 69
107233400 TGCACTGATA
*
107233410 ATTTGTTTTCAAAGATTATGAAACATTTACACCCCCAGAGTTCATCAATGAAGAAAAATAGACTC
1 ATTTGTTTTCAAAGATGATGAAACATTTACACCCCCAGAGTTCATCAATGAAGAAAAATAGACTC
107233475 TATT
66 TATT
* *
107233479 ATTTGTTTTCAAAGATGATGAAACATTTACA-TCCCAGAGTTCATCAATGAAGAAACATAGACT
1 ATTTGTTTTCAAAGATGATGAAACATTTACACCCCCAGAGTTCATCAATGAAGAAAAATAGACT
107233542 AAAAACAATC
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
68 30 0.50
69 30 0.50
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (69 bp):
ATTTGTTTTCAAAGATGATGAAACATTTACACCCCCAGAGTTCATCAATGAAGAAAAATAGACTC
TATT
Found at i:107236592 original size:18 final size:18
Alignment explanation
Indices: 107236559--107236593 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
107236549 TCCTCCTCTA
* *
107236559 TCTCCTCTGTATCCTCCG
1 TCTCCTCTGCAGCCTCCG
107236577 TCTCCTCTGCAGCCTCC
1 TCTCCTCTGCAGCCTCC
107236594 ATTTCCAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.49, G:0.11, T:0.34
Consensus pattern (18 bp):
TCTCCTCTGCAGCCTCCG
Found at i:107246213 original size:13 final size:14
Alignment explanation
Indices: 107246185--107246213 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
107246175 ATTTAATTAC
107246185 TAAAAAATTAAGAA
1 TAAAAAATTAAGAA
107246199 TAAAAAATTAA-AA
1 TAAAAAATTAAGAA
107246212 TA
1 TA
107246214 TTATGATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (14 bp):
TAAAAAATTAAGAA
Found at i:107249515 original size:18 final size:20
Alignment explanation
Indices: 107249477--107249514 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
107249467 TTAGTTTTAG
107249477 TTTAAATATATTATTAAAAA
1 TTTAAATATATTATTAAAAA
*
107249497 TTTAAATATCTT-TTAAAA
1 TTTAAATATATTATTAAAA
107249515 TGTTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAAATATATTATTAAAAA
Found at i:107255271 original size:257 final size:257
Alignment explanation
Indices: 107254815--107255332 Score: 883
Period size: 257 Copynumber: 2.0 Consensus size: 257
107254805 TTGTCACTTT
* *
107254815 TCAATTTTAAATTGAAGCAAAGAGTATGGGGCATAGTTTTATGACAGTTTGCTTAATTAGATTCA
1 TCAATTTTAAATTGAAACAAAGACTATGGGGCATAGTTTTATGACAGTTTGCTTAATTAGATTCA
*
107254880 GTGTTGAATTTTTCTCAATGACACTAATATGTGAATAACTATTTACTATATTCTTTAGGGATAAC
66 GTGTTGAATCTTTCTCAATGACACTAATATGTGAATAACTATTTACTATATTCTTTAGGGATAAC
* *
107254945 TATTCATATCCAGTTGGATTTGAAGTAATTATTACCACAATAGCGTCTTCAAGTACAGGATATTG
131 TATTCATATCCAGTTGGATTTGAAGTAATTATTACCACAATAACGTCTTCAAGTACAGAATATTG
* * *
107255010 ATGATGTAGAAAAAGGCAATGTCTTGTTAAACTATTGTCACCTACTATATTTGCTCAACTCA
196 ATGATGTAGAAAAAGACAATGTCTTGTTAAACTATTGTCACCCACTATAATTGCTCAACTCA
* *
107255072 TCAATTTTAAATTGAAACACAGACTGTGGGGCATAGTTTTATGACAGTTTGCTTAATTAGATTCA
1 TCAATTTTAAATTGAAACAAAGACTATGGGGCATAGTTTTATGACAGTTTGCTTAATTAGATTCA
* * *
107255137 GTGTTGAATCTTTCTCATTGACACTAATATTTGAATAACTATTTACTATATTCTTTAGGGATAAT
66 GTGTTGAATCTTTCTCAATGACACTAATATGTGAATAACTATTTACTATATTCTTTAGGGATAAC
* * * *
107255202 TATTCATATCCAGTTGGATTTGTAGTAATTATTACTACAATAATGTGTTCAAGTACAGAATATTG
131 TATTCATATCCAGTTGGATTTGAAGTAATTATTACCACAATAACGTCTTCAAGTACAGAATATTG
107255267 ATGATGTAGAAAAAGACAATGTCTTGTTAAACTATTGTCACCCACTATAATTGCTCAACTCA
196 ATGATGTAGAAAAAGACAATGTCTTGTTAAACTATTGTCACCCACTATAATTGCTCAACTCA
107255329 TCAA
1 TCAA
107255333 CGGTTTGCTA
Statistics
Matches: 244, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
257 244 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (257 bp):
TCAATTTTAAATTGAAACAAAGACTATGGGGCATAGTTTTATGACAGTTTGCTTAATTAGATTCA
GTGTTGAATCTTTCTCAATGACACTAATATGTGAATAACTATTTACTATATTCTTTAGGGATAAC
TATTCATATCCAGTTGGATTTGAAGTAATTATTACCACAATAACGTCTTCAAGTACAGAATATTG
ATGATGTAGAAAAAGACAATGTCTTGTTAAACTATTGTCACCCACTATAATTGCTCAACTCA
Found at i:107273438 original size:179 final size:179
Alignment explanation
Indices: 107273138--107273495 Score: 680
Period size: 179 Copynumber: 2.0 Consensus size: 179
107273128 AATTCTGCAC
*
107273138 CAAGGTCTGTATTCTTTTAGATTTTTCAATTTGATCCATTTACTTTTAAATTTCACAAATTTAAT
1 CAAGGTCTGTATTCTTTTAGATTTTGCAATTTGATCCATTTACTTTTAAATTTCACAAATTTAAT
*
107273203 CCTTGTGCTTATTTGACTTAAAAATTAAATTCCAATTGAGAAAAATTCTGCCAAGTTTAAATAGG
66 CCTTGTGCTTATTTGACTTAAAAATTAAATCCCAATTGAGAAAAATTCTGCCAAGTTTAAATAGG
* *
107273268 TGTTATCAATTGGATTTTTTCTAATTAGAACTTTAAATATTAATAATAT
131 TGTTATCAATTGGATTTTTTATAATTAGAACTTTAAATATTAAAAATAT
107273317 CAAGGTCTGTATTCTTTTAGATTTTGCAATTTGATCCATTTACTTTTAAATTTCACAAATTTAAT
1 CAAGGTCTGTATTCTTTTAGATTTTGCAATTTGATCCATTTACTTTTAAATTTCACAAATTTAAT
107273382 CCTTGTGCTTATTTGACTTAAAAATTAAATCCCAATTGAGAAAAATTCTGCCAAGTTTAAATAGG
66 CCTTGTGCTTATTTGACTTAAAAATTAAATCCCAATTGAGAAAAATTCTGCCAAGTTTAAATAGG
107273447 TGTTATCAATTGGATTTTTTATAATTAGAACTTTAAATATTAAAAATAT
131 TGTTATCAATTGGATTTTTTATAATTAGAACTTTAAATATTAAAAATAT
107273496 TATAAGTCTA
Statistics
Matches: 175, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
179 175 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (179 bp):
CAAGGTCTGTATTCTTTTAGATTTTGCAATTTGATCCATTTACTTTTAAATTTCACAAATTTAAT
CCTTGTGCTTATTTGACTTAAAAATTAAATCCCAATTGAGAAAAATTCTGCCAAGTTTAAATAGG
TGTTATCAATTGGATTTTTTATAATTAGAACTTTAAATATTAAAAATAT
Found at i:107283957 original size:13 final size:12
Alignment explanation
Indices: 107283931--107283969 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
107283921 TAATAACAAT
107283931 AAAATAAGTAAA
1 AAAATAAGTAAA
107283943 AAAATAAAGTTAAA
1 AAAAT-AAG-TAAA
*
107283957 AAAATAATTAAA
1 AAAATAAGTAAA
107283969 A
1 A
107283970 TTTGAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 10 0.42
13 5 0.21
14 9 0.38
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (12 bp):
AAAATAAGTAAA
Found at i:107283958 original size:14 final size:13
Alignment explanation
Indices: 107283931--107283963 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
107283921 TAATAACAAT
107283931 AAAAT-AAGTAAA
1 AAAATAAAGTAAA
107283943 AAAATAAAGTTAAA
1 AAAATAAAG-TAAA
107283957 AAAATAA
1 AAAATAA
107283964 TTAAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 3 0.16
14 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (13 bp):
AAAATAAAGTAAA
Found at i:107288589 original size:18 final size:17
Alignment explanation
Indices: 107288550--107288591 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
107288540 AATTTATTTT
107288550 ATTT-ATTACGTAATTA
1 ATTTAATTACGTAATTA
* *
107288566 AATTAATTATCGTGATTA
1 ATTTAATTA-CGTAATTA
107288584 ATTTAATT
1 ATTTAATT
107288592 GAATCGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 3 0.14
17 4 0.19
18 14 0.67
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (17 bp):
ATTTAATTACGTAATTA
Found at i:107301234 original size:24 final size:24
Alignment explanation
Indices: 107301206--107301254 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
107301196 GTAATTATAA
107301206 ATTTTTAAAAAAATATTATTT-TTC
1 ATTTTTAAAAAAATATT-TTTATTC
* *
107301230 ATTTTTATAAATATATTTTTATTC
1 ATTTTTAAAAAAATATTTTTATTC
107301254 A
1 A
107301255 ATATCTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTTAAAAAAATATTTTTATTC
Found at i:107312043 original size:18 final size:18
Alignment explanation
Indices: 107312006--107312040 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
107311996 AGGAAACAAT
*
107312006 TAATAGTATGATTAAAAA
1 TAATAGTATAATTAAAAA
107312024 TAATAGTA-AATTAAAAA
1 TAATAGTATAATTAAAAA
107312041 ATATTATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (18 bp):
TAATAGTATAATTAAAAA
Found at i:107318743 original size:3 final size:3
Alignment explanation
Indices: 107318735--107318769 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
107318725 ATGTGTGGAT
107318735 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
107318770 GGTAAAATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:107319590 original size:31 final size:31
Alignment explanation
Indices: 107319555--107319620 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
107319545 CTTTTCATAG
*
107319555 TTGGGCGGCCAAAAAAGAAACT-TACTAATAA
1 TTGGGCGACCAAAAAAGAAA-TGTACTAATAA
* * *
107319586 TTGGGTGACCAAAATAGAAATGTACTAATAG
1 TTGGGCGACCAAAAAAGAAATGTACTAATAA
107319617 TTGG
1 TTGG
107319621 ATGCCTACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (31 bp):
TTGGGCGACCAAAAAAGAAATGTACTAATAA
Found at i:107328634 original size:28 final size:30
Alignment explanation
Indices: 107328602--107328666 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 30
107328592 TAGAGTTGTG
* *
107328602 ATCAAATTAGTCCTT-TATTATT-AAATGA
1 ATCAAATTAGTCATTATATTATTAAAAAGA
* *
107328630 ATCAATTTAGTCATTATATTGTTAAAAAGA
1 ATCAAATTAGTCATTATATTATTAAAAAGA
107328660 ATCAAAT
1 ATCAAAT
107328667 AATGTGAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 13 0.43
29 6 0.20
30 11 0.37
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (30 bp):
ATCAAATTAGTCATTATATTATTAAAAAGA
Found at i:107337394 original size:32 final size:32
Alignment explanation
Indices: 107337348--107337457 Score: 118
Period size: 31 Copynumber: 3.4 Consensus size: 32
107337338 GATGTCCTTT
*
107337348 AAAATATTTGAAAATTTTAATTAG-GTCCCTTCA
1 AAAAT-TTTAAAAATTTTAATTAGAG-CCCTTCA
* *
107337381 AAAATTTTAAAAATTCTAA-TAGAGCCTTTCA
1 AAAATTTTAAAAATTTTAATTAGAGCCCTTCA
* *
107337412 AAAATTTTAAAAATTTTAATTA-AACCCTCCAA
1 AAAATTTTAAAAATTTTAATTAGAGCCCTTC-A
*
107337444 AAAATTTGAAAAAT
1 AAAATTTTAAAAAT
107337458 CTTATTAATC
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
31 32 0.48
32 29 0.44
33 5 0.08
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (32 bp):
AAAATTTTAAAAATTTTAATTAGAGCCCTTCA
Found at i:107337445 original size:31 final size:31
Alignment explanation
Indices: 107337348--107337500 Score: 105
Period size: 31 Copynumber: 4.9 Consensus size: 31
107337338 GATGTCCTTT
* ** *
107337348 AAAATATTTGAAAATTTTAATTAGGTCCCTTCA
1 AAAAT-TTTAAAAATTTTAATTA-AACCCTCCA
* * * *
107337381 AAAATTTTAAAAATTCTAA-TAGAGCCTTTCA
1 AAAATTTTAAAAATTTTAATTA-AACCCTCCA
107337412 AAAATTTTAAAAATTTTAATTAAACCCTCCAA
1 AAAATTTTAAAAATTTTAATTAAACCCTCC-A
* * * * *
107337444 AAAATTTGAAAAATCTT-ATTAATCTTCTCGA
1 AAAATTTTAAAAATTTTAATTAAAC-CCTCCA
**
107337475 AATCTTTT-AAAATTTTAATTAAACCC
1 AAAATTTTAAAAATTTTAATTAAACCC
107337501 CCTAAGTTTT
Statistics
Matches: 96, Mismatches: 20, Indels: 11
0.76 0.16 0.09
Matches are distributed among these distances:
30 8 0.08
31 50 0.52
32 33 0.34
33 5 0.05
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.38
Consensus pattern (31 bp):
AAAATTTTAAAAATTTTAATTAAACCCTCCA
Found at i:107347433 original size:66 final size:66
Alignment explanation
Indices: 107347327--107347462 Score: 272
Period size: 66 Copynumber: 2.1 Consensus size: 66
107347317 GTTGCTGCAT
107347327 GCTTGTCACGAGGTTGCATGGCCAGCTTCCAGCTGCACTTGCTTCATACCAACTGCATGGAGATC
1 GCTTGTCACGAGGTTGCATGGCCAGCTTCCAGCTGCACTTGCTTCATACCAACTGCATGGAGATC
107347392 A
66 A
107347393 GCTTGTCACGAGGTTGCATGGCCAGCTTCCAGCTGCACTTGCTTCATACCAACTGCATGGAGATC
1 GCTTGTCACGAGGTTGCATGGCCAGCTTCCAGCTGCACTTGCTTCATACCAACTGCATGGAGATC
107347458 A
66 A
107347459 GCTT
1 GCTT
107347463 CAACACTCCT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (66 bp):
GCTTGTCACGAGGTTGCATGGCCAGCTTCCAGCTGCACTTGCTTCATACCAACTGCATGGAGATC
A
Found at i:107355628 original size:48 final size:48
Alignment explanation
Indices: 107355572--107355667 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
107355562 GCAGAACAAA
107355572 CCGACCAAGGTCCCACTTGAATATGGACCTTAAAAACCTTCTTCACGG
1 CCGACCAAGGTCCCACTTGAATATGGACCTTAAAAACCTTCTTCACGG
107355620 CCGACCAAGGTCCCACTTGAATATGGACCTTAAAAACCTTCTTCACGG
1 CCGACCAAGGTCCCACTTGAATATGGACCTTAAAAACCTTCTTCACGG
107355668 TAGAAGATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (48 bp):
CCGACCAAGGTCCCACTTGAATATGGACCTTAAAAACCTTCTTCACGG
Found at i:107358037 original size:18 final size:18
Alignment explanation
Indices: 107358006--107358040 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
107357996 TCTATTATTA
*
107358006 AGTGGGGAATGTGCAATG
1 AGTGGGGAAGGTGCAATG
*
107358024 AGTGGTGAAGGTGCAAT
1 AGTGGGGAAGGTGCAAT
107358041 TGCTGGGGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.43, T:0.23
Consensus pattern (18 bp):
AGTGGGGAAGGTGCAATG
Found at i:107365709 original size:24 final size:24
Alignment explanation
Indices: 107365682--107365733 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
107365672 TTAGCAAGTC
*
107365682 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
107365706 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
107365730 AAAT
1 AAAT
107365734 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:107367678 original size:24 final size:24
Alignment explanation
Indices: 107367651--107367702 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
107367641 TTAGTAAGTC
107367651 AAATAAACTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
* *
107367675 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
107367699 AAAT
1 AAAT
107367703 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:107376383 original size:11 final size:11
Alignment explanation
Indices: 107376363--107376401 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
107376353 TAATATGAAC
107376363 AATAAAAAAACT
1 AATAAAAAAA-T
107376375 AATAAAAAAAT
1 AATAAAAAAAT
*
107376386 AATAACAATAAT
1 AATAA-AAAAAT
107376398 AATA
1 AATA
107376402 GTAAAATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:107376528 original size:14 final size:14
Alignment explanation
Indices: 107376509--107376559 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
107376499 AATAAAATAA
107376509 ATAAATAAGTGAAT
1 ATAAATAAGTGAAT
*** *
107376523 ATAAATAAAACATT
1 ATAAATAAGTGAAT
107376537 AATAAATAAGTGAAT
1 -ATAAATAAGTGAAT
107376552 ATAAATAA
1 ATAAATAA
107376560 AACATTTGAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (14 bp):
ATAAATAAGTGAAT
Done.