Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 39 of 198
Found at i:11662905 original size:20 final size:20
Alignment explanation
Indices: 11662868--11662904 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
11662858 ATTACAATTT
11662868 TAATATTTTAATATTTTTAG
1 TAATATTTTAATATTTTTAG
*
11662888 TAAT-TTTTTATATTTTT
1 TAATATTTTAATATTTTT
11662905 TGCAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TAATATTTTAATATTTTTAG
Found at i:11662911 original size:19 final size:19
Alignment explanation
Indices: 11662873--11662913 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11662863 AATTTTAATA
*
11662873 TTTTAATATTTTTAGTAAT
1 TTTTAATATTTTTAGCAAT
* *
11662892 TTTTTATATTTTTTGCAAT
1 TTTTAATATTTTTAGCAAT
11662911 TTT
1 TTT
11662914 ATAAGTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTAATATTTTTAGCAAT
Found at i:11662948 original size:19 final size:17
Alignment explanation
Indices: 11662926--11662964 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11662916 AAGTTTTCTA
*
11662926 TTTAAATAATTATTTTAAT
1 TTTAAAT-ATT-TTATAAT
11662945 TTTAAATATTTTATAAT
1 TTTAAATATTTTATAAT
11662962 TTT
1 TTT
11662965 TTTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAAATATTTTATAAT
Found at i:11663047 original size:22 final size:22
Alignment explanation
Indices: 11663003--11663049 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
11662993 ATCTTTTCTA
* * *
11663003 TTTTTAAAATTTTTATTAGTTT
1 TTTTTAAAATTTTAAATAATTT
11663025 TTTTTAAAATTTTAAATAATTT
1 TTTTTAAAATTTTAAATAATTT
11663047 TTT
1 TTT
11663050 GCAATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTAAAATTTTAAATAATTT
Found at i:11665542 original size:2 final size:2
Alignment explanation
Indices: 11665535--11665628 Score: 147
Period size: 2 Copynumber: 48.0 Consensus size: 2
11665525 TGCTTCCCTT
11665535 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
11665577 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TC T- TA TA TA CA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11665617 TA TA TA TA TA TA
1 TA TA TA TA TA TA
11665629 CGTAATAAAA
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
1 2 0.02
2 84 0.98
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11666320 original size:2 final size:2
Alignment explanation
Indices: 11666308--11666363 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
11666298 TTTTTAAGTA
11666308 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11666349 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
11666364 AAAGAAAAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11678211 original size:30 final size:30
Alignment explanation
Indices: 11678177--11678235 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
11678167 CTTAATAAGT
*
11678177 AAATGCCTCTAAAATAATAATAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
11678207 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
11678236 TAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:11678293 original size:22 final size:22
Alignment explanation
Indices: 11678268--11678310 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11678258 TATCTAAATA
11678268 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAGTAGCAAT
* **
11678290 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
11678311 AATATGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAT
Found at i:11678314 original size:11 final size:11
Alignment explanation
Indices: 11678275--11678314 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
11678265 ATAATAACAA
11678275 CAAAATAGTAG
1 CAAAATAGTAG
* *
11678286 CAATATAATAG
1 CAAAATAGTAG
*
11678297 TAAAATAGTAG
1 CAAAATAGTAG
11678308 CAAAATA
1 CAAAATA
11678315 TGGAGAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.23
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:11678865 original size:18 final size:18
Alignment explanation
Indices: 11678842--11678877 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11678832 ACTACAATAC
*
11678842 TGGAATAATTTAGAAACA
1 TGGAATAATTTAAAAACA
11678860 TGGAATAATTTAAAAACA
1 TGGAATAATTTAAAAACA
11678878 AACCAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.28
Consensus pattern (18 bp):
TGGAATAATTTAAAAACA
Found at i:11691039 original size:5 final size:5
Alignment explanation
Indices: 11691029--11691053 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11691019 TTGATGTTCT
11691029 TCATC TCATC TCATC TCATC TCATC
1 TCATC TCATC TCATC TCATC TCATC
11691054 GTTTCGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (5 bp):
TCATC
Found at i:11693488 original size:16 final size:15
Alignment explanation
Indices: 11693467--11693496 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11693457 TAAGCAACAC
11693467 GAAAAGAAACAAAAAA
1 GAAAAGAAA-AAAAAA
11693483 GAAAAGAAAAAAAA
1 GAAAAGAAAAAAAA
11693497 TTGCCAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (15 bp):
GAAAAGAAAAAAAAA
Found at i:11698711 original size:3 final size:3
Alignment explanation
Indices: 11698703--11698731 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11698693 AGAGAGAGAG
11698703 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
11698732 CGATTCCACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11704376 original size:15 final size:15
Alignment explanation
Indices: 11704351--11704385 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11704341 GACTCTATTT
*
11704351 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
11704365 TAATTAATATTAAGA
1 TAATTAATATTAAGA
11704380 TAATTA
1 TAATTA
11704386 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:11710109 original size:21 final size:20
Alignment explanation
Indices: 11710084--11710145 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
11710074 GGCACTCAAT
11710084 TTTTATTTATTATTATTATTA
1 TTTTATTTATT-TTATTATTA
*
11710105 TTTTATTTACTTTATTTATTA
1 TTTTATTTATTTTA-TTATTA
*
11710126 CTTTATTTTATTTTATTATT
1 TTTTA-TTTATTTTATTATT
11710146 TATTACTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 3 0.08
21 25 0.69
22 8 0.22
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATTTATTTTATTATTA
Found at i:11710111 original size:17 final size:17
Alignment explanation
Indices: 11710086--11710149 Score: 67
Period size: 17 Copynumber: 3.5 Consensus size: 17
11710076 CACTCAATTT
11710086 TTATTTATTATTATTATTA
1 TTATTTATT-TTATT-TTA
*
11710105 TTTTATTTACTTTA-TTTA
1 --TTATTTATTTTATTTTA
11710123 TTACTTTATTTTATTTTA
1 TTA-TTTATTTTATTTTA
11710141 TTATTTATT
1 TTATTTATT
11710150 ACTTATTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.08
17 14 0.36
18 10 0.26
19 1 0.03
20 3 0.08
21 8 0.21
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTATTTTATTTTA
Found at i:11710119 original size:26 final size:25
Alignment explanation
Indices: 11710085--11710157 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 25
11710075 GCACTCAATT
*
11710085 TTTATTTA-TTATTATTATTATTTTA
1 TTTATTTATTTATTACT-TTATTTTA
11710110 TTTACTTTATTTATTACTTTATTTTA
1 TTTA-TTTATTTATTACTTTATTTTA
11710136 TTT-TATTATTTATTAC-TTATTT
1 TTTAT-TTATTTATTACTTTATTT
11710158 GGATATTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
24 7 0.16
25 15 0.34
26 15 0.34
27 7 0.16
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTATTTATTTATTACTTTATTTTA
Found at i:11710292 original size:12 final size:12
Alignment explanation
Indices: 11710275--11710306 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
11710265 AAACAGCCTA
11710275 TATTCCAGATAC
1 TATTCCAGATAC
11710287 TATTCCAGATAC
1 TATTCCAGATAC
11710299 TATTCCAG
1 TATTCCAG
11710307 CCCAGAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.34
Consensus pattern (12 bp):
TATTCCAGATAC
Found at i:11710344 original size:22 final size:23
Alignment explanation
Indices: 11710316--11710379 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
11710306 GCCCAGAATG
* *
11710316 CCTGCAGCCAAACTACCC-TATT
1 CCTGCAGCCAAACCACCCTTATC
11710338 CCTGCAGCC-AACCACCCTTATC
1 CCTGCAGCCAAACCACCCTTATC
*
11710360 CCTGCACCCAAGCACCACCC
1 CCTGCAGCCAA--ACCACCC
11710380 CTCAGTACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 7 0.20
22 20 0.57
23 1 0.03
25 7 0.20
ACGTcount: A:0.25, C:0.50, G:0.09, T:0.16
Consensus pattern (23 bp):
CCTGCAGCCAAACCACCCTTATC
Found at i:11711502 original size:13 final size:13
Alignment explanation
Indices: 11711486--11711569 Score: 52
Period size: 13 Copynumber: 6.5 Consensus size: 13
11711476 TTCCTAAAGT
*
11711486 ATAAAAAATATAA
1 ATAAAAAATAAAA
*
11711499 ATAATAAATAAAA
1 ATAAAAAATAAAA
11711512 AT-AAAAATAAATA
1 ATAAAAAATAAA-A
11711525 A-AAAGAAA-AAAA
1 ATAAA-AAATAAAA
*
11711537 AGAAAAAGA-AAAA
1 ATAAAAA-ATAAAA
*
11711550 GA-AAAAAAGAAAA
1 -ATAAAAAATAAAA
*
11711563 AGAAAAA
1 ATAAAAA
11711570 GAAAAAGAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
12 14 0.23
13 42 0.70
14 4 0.07
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:11711512 original size:1 final size:1
Alignment explanation
Indices: 11711508--11711598 Score: 56
Period size: 1 Copynumber: 91.0 Consensus size: 1
11711498 AATAATAAAT
* * * * * * * * * *
11711508 AAAAATAAAAATAAATAAAAAGAAAAAAAAGAAAAAGAAAAAGAAAAAAAGAAAAAGAAAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
11711573 AAAGAAAAAGAAAAAGAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
11711599 TAATTTGGGG
Statistics
Matches: 62, Mismatches: 28, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (1 bp):
A
Found at i:11711513 original size:19 final size:17
Alignment explanation
Indices: 11711489--11711528 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
11711479 CTAAAGTATA
11711489 AAAAATATAAATAATAAAT
1 AAAAA-ATAAA-AATAAAT
11711508 -AAAAATAAAAATAAAT
1 AAAAAATAAAAATAAAT
11711524 AAAAA
1 AAAAA
11711529 GAAAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.35
17 9 0.45
18 4 0.20
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAAATAAAAATAAAT
Found at i:11711521 original size:23 final size:23
Alignment explanation
Indices: 11711490--11711598 Score: 70
Period size: 21 Copynumber: 4.9 Consensus size: 23
11711480 TAAAGTATAA
*
11711490 AAAATATAAATAATAAATAAAAAT
1 AAAATATAAATAA-AAAGAAAAAT
11711514 AAAA-ATAAATAAAAAGAAAAA-
1 AAAATATAAATAAAAAGAAAAAT
*
11711535 AAAGA-A-AAAGAAAAAGAAAAA-
1 AAA-ATATAAATAAAAAGAAAAAT
* * *
11711556 AAGA-A-AAAGAAAAAGAAAAAGA
1 AAAATATAAATAAAAAGAAAAA-T
* * *
11711578 AAAAGAAAAAGAAAAAGAAAA
1 AAAATATAAATAAAAAGAAAA
11711599 TAATTTGGGG
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
20 17 0.22
21 19 0.25
22 13 0.17
23 9 0.12
24 18 0.24
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (23 bp):
AAAATATAAATAAAAAGAAAAAT
Found at i:11711523 original size:16 final size:16
Alignment explanation
Indices: 11711501--11711593 Score: 81
Period size: 15 Copynumber: 6.1 Consensus size: 16
11711491 AAATATAAAT
*
11711501 AATAAATAAAAATAAA
1 AATAAATAAAAAGAAA
11711517 AATAAATAAAAAGAAA
1 AATAAATAAAAAGAAA
*
11711533 AA-AAAGAAAAAGAAA
1 AATAAATAAAAAGAAA
*
11711548 AA-GAA-AAAAAGAAA
1 AATAAATAAAAAGAAA
* *
11711562 AAGAAA-AAGAAA-AAG
1 AATAAATAA-AAAGAAA
*
11711577 AA-AAAGAAAAAGAAA
1 AATAAATAAAAAGAAA
11711592 AA
1 AA
11711594 GAAAATAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.25
15 30 0.45
16 20 0.30
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (16 bp):
AATAAATAAAAAGAAA
Found at i:11711533 original size:6 final size:6
Alignment explanation
Indices: 11711533--11711598 Score: 114
Period size: 6 Copynumber: 10.7 Consensus size: 6
11711523 TAAAAAGAAA
11711533 AAAAAG AAAAAG AAAAAG AAAAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG --AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
11711583 AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAA
11711599 TAATTTGGGG
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
6 52 0.90
8 6 0.10
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:11711556 original size:44 final size:44
Alignment explanation
Indices: 11711508--11711598 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 44
11711498 AATAATAAAT
* *
11711508 AAAAATAAAAATAAATAA-AAAGAAAAAAAAGAAAAAGAAAAAGAA
1 AAAAAGAAAAAGAAA-AAGAAA-AAAAAAAAGAAAAAGAAAAAGAA
*
11711553 AAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAAAAAGAA
1 AAAAAGAAAAAGAAAAAGAAAAAAAAAAAGAAAAAGAAAAAGAA
11711597 AA
1 AA
11711599 TAATTTGGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 26 0.62
45 16 0.38
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (44 bp):
AAAAAGAAAAAGAAAAAGAAAAAAAAAAAGAAAAAGAAAAAGAA
Found at i:11712175 original size:15 final size:15
Alignment explanation
Indices: 11712150--11712184 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11712140 AACTCTATTT
*
11712150 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
11712164 TAATTAATATTAAGA
1 TAATTAATATTAAGA
11712179 TAATTA
1 TAATTA
11712185 TTAAGGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:11713971 original size:30 final size:30
Alignment explanation
Indices: 11713935--11713992 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
11713925 GGGATATTCC
11713935 TCTTCATCCATAAG-ATTAAGATTAGCCAAA
1 TCTTCATCCA-AAGTATTAAGATTAGCCAAA
* *
11713965 TCTTCATCCAACGTATTAATATTAGCCA
1 TCTTCATCCAAAGTATTAAGATTAGCCA
11713993 TGATGCACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (30 bp):
TCTTCATCCAAAGTATTAAGATTAGCCAAA
Found at i:11716537 original size:18 final size:19
Alignment explanation
Indices: 11716514--11716549 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11716504 TTATTATAAT
*
11716514 ATTTTTGTATTT-AATTTA
1 ATTTTTATATTTGAATTTA
11716532 ATTTTTATATTTGAATTT
1 ATTTTTATATTTGAATTT
11716550 TTTCGTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
ATTTTTATATTTGAATTTA
Found at i:11719230 original size:11 final size:11
Alignment explanation
Indices: 11719217--11719284 Score: 73
Period size: 11 Copynumber: 5.7 Consensus size: 11
11719207 TTTAATTTTT
*
11719217 TTGAAAAAAAT
1 TTGAAAAAAAA
11719228 TTGAAAAGAAAAAAA
1 TTG--AA-AAA-AAA
*
11719243 TTGAAAAACAAT
1 TTGAAAAA-AAA
11719255 TTGAAAAAAAA
1 TTGAAAAAAAA
11719266 TTGAAAAAAAA
1 TTGAAAAAAAA
11719277 TTGAAAAA
1 TTGAAAAA
11719285 TAGTAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
11 24 0.49
12 13 0.27
13 4 0.08
14 3 0.06
15 5 0.10
ACGTcount: A:0.68, C:0.01, G:0.10, T:0.21
Consensus pattern (11 bp):
TTGAAAAAAAA
Found at i:11719250 original size:16 final size:16
Alignment explanation
Indices: 11719219--11719249 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11719209 TAATTTTTTT
11719219 GAAAAAAATTTGAAAA
1 GAAAAAAATTTGAAAA
11719235 GAAAAAAA-TTGAAAA
1 GAAAAAAATTTGAAAA
11719250 ACAATTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (16 bp):
GAAAAAAATTTGAAAA
Found at i:11719262 original size:23 final size:22
Alignment explanation
Indices: 11719236--11719317 Score: 80
Period size: 19 Copynumber: 3.7 Consensus size: 22
11719226 ATTTGAAAAG
*
11719236 AAAAAAATTGAAAAACAATTTGA
1 AAAAAAATTGAAAAA-AAATTGA
11719259 AAAAAAATTGAAAAAAAATTG-
1 AAAAAAATTGAAAAAAAATTGA
* *
11719280 --AAAAATAGTAAAAAAATTAGA
1 AAAAAAATTGAAAAAAAATT-GA
*
11719301 CAAAAAAAATGAAAAAA
1 -AAAAAAATTGAAAAAA
11719318 TGACTTTTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
19 16 0.33
20 1 0.02
22 5 0.10
23 15 0.31
24 11 0.23
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (22 bp):
AAAAAAATTGAAAAAAAATTGA
Found at i:11719317 original size:11 final size:11
Alignment explanation
Indices: 11719236--11719284 Score: 80
Period size: 11 Copynumber: 4.4 Consensus size: 11
11719226 ATTTGAAAAG
11719236 AAAAAAATTGA
1 AAAAAAATTGA
*
11719247 AAAACAATTTGA
1 AAAA-AAATTGA
11719259 AAAAAAATTGA
1 AAAAAAATTGA
11719270 AAAAAAATTGA
1 AAAAAAATTGA
11719281 AAAA
1 AAAA
11719285 TAGTAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 25 0.71
12 10 0.29
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.18
Consensus pattern (11 bp):
AAAAAAATTGA
Found at i:11728102 original size:30 final size:30
Alignment explanation
Indices: 11728059--11728135 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
11728049 AAAAGCGCGC
* * * *
11728059 CTAGCTGGTCGCGCTTTCTGGAAATCTCAT
1 CTAGCAGGACGCGCTTTCTAGAAAGCTCAT
*
11728089 CTAGCAGGACGCGCTTTCTAGAAAGCTTAT
1 CTAGCAGGACGCGCTTTCTAGAAAGCTCAT
*
11728119 CCAGCAGGACGCG-TTTC
1 CTAGCAGGACGCGCTTTC
11728136 CCTCAACGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 4 0.10
30 37 0.90
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (30 bp):
CTAGCAGGACGCGCTTTCTAGAAAGCTCAT
Found at i:11728301 original size:12 final size:10
Alignment explanation
Indices: 11728274--11728321 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
11728264 TCCTTCTATC
11728274 AACTCTCTCA
1 AACTCTCTCA
11728284 AACTCTCTCA
1 AACTCTCTCA
* *
11728294 AACCCTCT-T
1 AACTCTCTCA
*
11728303 AAGTCTCTC-
1 AACTCTCTCA
11728312 AACTCTCTCA
1 AACTCTCTCA
11728322 TTTTAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
9 14 0.45
10 17 0.55
ACGTcount: A:0.27, C:0.40, G:0.02, T:0.31
Consensus pattern (10 bp):
AACTCTCTCA
Found at i:11728318 original size:9 final size:9
Alignment explanation
Indices: 11728272--11728321 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
11728262 CATCCTTCTA
11728272 TCAACTCTC
1 TCAACTCTC
11728281 TCAAACTCTC
1 TC-AACTCTC
*
11728291 TCAAACCCTC
1 TC-AACTCTC
* *
11728301 TTAAGTCTC
1 TCAACTCTC
11728310 TCAACTCTC
1 TCAACTCTC
11728319 TCA
1 TCA
11728322 TTTTAAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 17 0.50
10 17 0.50
ACGTcount: A:0.26, C:0.40, G:0.02, T:0.32
Consensus pattern (9 bp):
TCAACTCTC
Found at i:11742171 original size:27 final size:28
Alignment explanation
Indices: 11742131--11742184 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
11742121 CCAATGACTC
*
11742131 GGGGAATCATCACTTAGCAA-CCCCTTG
1 GGGGAATCAGCACTTAGCAATCCCCTTG
11742158 GGGGAATCAGCACTTAGCAATCCCCTT
1 GGGGAATCAGCACTTAGCAATCCCCTT
11742185 CACATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (28 bp):
GGGGAATCAGCACTTAGCAATCCCCTTG
Found at i:11742236 original size:103 final size:102
Alignment explanation
Indices: 11742055--11742362 Score: 499
Period size: 103 Copynumber: 3.0 Consensus size: 102
11742045 CCAGTGATTC
* * *
11742055 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAACACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCC-TTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
11742120 ACCAATGACTCGGGGAATCATCACTTAGCAACCCCTTG
65 ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
11742158 GGGGAATCAGCACTTAGCAATCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAA-CCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
11742223 ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
65 ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
* * *
11742261 GGGGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAATC
1 GGGGAATCAGCACTTAGCAA-CCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
11742326 ACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTT
65 ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
11742363 CATATTCAAT
Statistics
Matches: 193, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
103 189 0.98
104 4 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
Found at i:11742248 original size:33 final size:33
Alignment explanation
Indices: 11742203--11742358 Score: 126
Period size: 33 Copynumber: 4.6 Consensus size: 33
11742193 AAGATACGGT
11742203 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* *
11742236 GGAATCAACACTTAGCAACC-CC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* *
11742263 GGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATACGG
1 GGAATCAGCACTTAGCAACCACC---A-A--T-GA-AT-CGG
* *
11742305 TGGAATCAGCACTTAGCAATCACCAATGAGTCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
11742339 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
11742359 CCTTCATATT
Statistics
Matches: 98, Mismatches: 9, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
27 22 0.22
28 2 0.02
30 1 0.01
32 2 0.02
33 38 0.39
34 3 0.03
35 1 0.01
36 2 0.02
37 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 2 0.02
43 21 0.21
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:11742980 original size:11 final size:12
Alignment explanation
Indices: 11742952--11742985 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
11742942 GCCCAAACGT
11742952 CGAAATTTTTGAA
1 CGAAATTTTT-AA
11742965 CGAAATTTTT-A
1 CGAAATTTTTAA
11742976 CGAAATTTTT
1 CGAAATTTTT
11742986 CCGTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTAA
Found at i:11747168 original size:21 final size:20
Alignment explanation
Indices: 11747128--11747168 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11747118 AACCCTAACC
* *
11747128 CTAACAAAATAAAAATCCTA
1 CTAAAAAAATAAAAACCCTA
11747148 CTAAAAAAATAAAAAACCCTA
1 CTAAAAAAAT-AAAAACCCTA
11747169 ACCCTGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.63, C:0.20, G:0.00, T:0.17
Consensus pattern (20 bp):
CTAAAAAAATAAAAACCCTA
Found at i:11752778 original size:12 final size:11
Alignment explanation
Indices: 11752761--11752795 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
11752751 AACAAATCCT
11752761 CTCTCATATTTC
1 CTCTCA-ATTTC
11752773 CTCTCAA-TTC
1 CTCTCAATTTC
11752783 CTCTCAATTTC
1 CTCTCAATTTC
11752794 CT
1 CT
11752796 TCCAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:11754679 original size:18 final size:18
Alignment explanation
Indices: 11754653--11754687 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11754643 AGATGCGTTT
*
11754653 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
11754671 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
11754688 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:11755065 original size:7 final size:7
Alignment explanation
Indices: 11755053--11755092 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
11755043 ACACTGAATT
11755053 CTAAACC
1 CTAAACC
11755060 CTAAACC
1 CTAAACC
*
11755067 ATAAACC
1 CTAAACC
11755074 CTAAAACC
1 CT-AAACC
*
11755082 CCAAACC
1 CTAAACC
11755089 CTAA
1 CTAA
11755093 CCTAATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.12
Consensus pattern (7 bp):
CTAAACC
Found at i:11755087 original size:15 final size:15
Alignment explanation
Indices: 11755055--11755092 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
11755045 ACTGAATTCT
*
11755055 AAACCCT-AAACCAT
1 AAACCCTAAAACCAC
*
11755069 AAACCCTAAAACCCC
1 AAACCCTAAAACCAC
11755084 AAACCCTAA
1 AAACCCTAA
11755093 CCTAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.50, C:0.39, G:0.00, T:0.11
Consensus pattern (15 bp):
AAACCCTAAAACCAC
Found at i:11755153 original size:29 final size:29
Alignment explanation
Indices: 11755075--11755246 Score: 280
Period size: 29 Copynumber: 6.1 Consensus size: 29
11755065 CCATAAACCC
* *
11755075 TAAAACCCCAAACCCTAACCTAATTT-AT
1 TAAAAACCCTAACCCTAACCTAATTTGAT
11755103 T-AAAACCCTAA-CCTAACCTAATTTGAT
1 TAAAAACCCTAACCCTAACCTAATTTGAT
*
11755130 TAAAAACCTTAACCCTAACCTAATTTGAT
1 TAAAAACCCTAACCCTAACCTAATTTGAT
11755159 TAAAAACCCTAACCCTAACCTAATTTGAT
1 TAAAAACCCTAACCCTAACCTAATTTGAT
11755188 TAAAAACCCTAA-CCTAACCTAATTTGAT
1 TAAAAACCCTAACCCTAACCTAATTTGAT
*
11755216 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTGAT
11755245 TA
1 TA
11755247 TTTTACTAAC
Statistics
Matches: 135, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
26 13 0.10
27 11 0.08
28 38 0.28
29 73 0.54
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.28
Consensus pattern (29 bp):
TAAAAACCCTAACCCTAACCTAATTTGAT
Found at i:11755205 original size:57 final size:58
Alignment explanation
Indices: 11755075--11755246 Score: 280
Period size: 57 Copynumber: 3.0 Consensus size: 58
11755065 CCATAAACCC
* *
11755075 TAAAACCCCAAACCCTAACCTAATTT-ATT-AAAACCCTAA-CCTAACCTAATTTGAT
1 TAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTGAT
*
11755130 TAAAAACCTTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTGAT
1 TAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTGAT
*
11755188 TAAAAACCCTAA-CCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTGAT
11755245 TA
1 TA
11755247 TTTTACTAAC
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
55 23 0.21
56 3 0.03
57 56 0.51
58 27 0.25
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.28
Consensus pattern (58 bp):
TAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTGAT
Found at i:11755218 original size:86 final size:84
Alignment explanation
Indices: 11755075--11755246 Score: 290
Period size: 86 Copynumber: 2.0 Consensus size: 84
11755065 CCATAAACCC
* *
11755075 TAAAACCCCAAACCCTAACCTAATTTATTAAAACCCTAACCTAACCTAATTTGATTAAAAACCTT
1 TAAAAACCCAAACCCTAACCTAATTTATTAAAACCCTAACCTAACCTAATTTGATTAAAAACCCT
*
11755140 AACCCTAACCTAATTTGAT
66 AACCCTAACCTAATTTAAT
*
11755159 TAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCTAACCTAATTTGATTAAAAACC
1 TAAAAACCCAAACCCTAACCTAATTT-ATT-AAAACCCTAACCTAACCTAATTTGATTAAAAACC
11755224 CTAACCCTAACCTAATTTAAT
64 CTAACCCTAACCTAATTTAAT
11755245 TA
1 TA
11755247 TTTTACTAAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
84 24 0.29
85 3 0.04
86 55 0.67
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.28
Consensus pattern (84 bp):
TAAAAACCCAAACCCTAACCTAATTTATTAAAACCCTAACCTAACCTAATTTGATTAAAAACCCT
AACCCTAACCTAATTTAAT
Found at i:11755268 original size:19 final size:19
Alignment explanation
Indices: 11755240--11755301 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
11755230 CTAACCTAAT
*
11755240 TTAATTATTTTACTAACCA
1 TTAATAATTTTACTAACCA
11755259 TTAATAATTTTA-TATA--A
1 TTAATAATTTTACTA-ACCA
*
11755276 TTTGATAATTTTACTAACCA
1 -TTAATAATTTTACTAACCA
11755296 TTAATA
1 TTAATA
11755302 CAATTAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 1 0.03
18 14 0.40
19 19 0.54
20 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAATAATTTTACTAACCA
Found at i:11755310 original size:46 final size:46
Alignment explanation
Indices: 11755258--11755356 Score: 189
Period size: 46 Copynumber: 2.2 Consensus size: 46
11755248 TTTACTAACC
*
11755258 ATTAATAATTTTATATAATTTGATAATTTTACTAACCATTAATACA
1 ATTAATAATTTTATATAATTTGATAATTTTACTAACCAGTAATACA
11755304 ATTAATAATTTTATATAATTTGATAATTTTACTAACCAGTAATACA
1 ATTAATAATTTTATATAATTTGATAATTTTACTAACCAGTAATACA
11755350 ATTAATA
1 ATTAATA
11755357 CAATTTTTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (46 bp):
ATTAATAATTTTATATAATTTGATAATTTTACTAACCAGTAATACA
Found at i:11755362 original size:30 final size:30
Alignment explanation
Indices: 11755328--11755386 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
11755318 ATAATTTGAT
11755328 AATTTTACTAACCAGTAAT-ACAATTAATAC
1 AATTTT-CTAACCAGTAATAACAATTAATAC
* * *
11755358 AATTTTTTAACTAGTAGTAACAATTAATA
1 AATTTTCTAACCAGTAATAACAATTAATA
11755387 ATTTTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (30 bp):
AATTTTCTAACCAGTAATAACAATTAATAC
Found at i:11758806 original size:126 final size:125
Alignment explanation
Indices: 11758501--11758852 Score: 553
Period size: 126 Copynumber: 2.8 Consensus size: 125
11758491 CCCAAACATG
* * *
11758501 CTACTGTAGTAAAAGCGTGTCCAAGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
11758566 TAGAAGCGATTTTATACTATTTGCTCAGAAAAGT-AAAAAAAAATTATTTCTTACATGCT
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATACC
*
11758625 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTTAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
11758690 TAGAAGCGATATTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTTCGTACC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-AATTATTTCTTACATACC
* *
11758751 CTACTGTAGCAAAAGCGCGTCCACGAGGCCACGATTTCACAAATTTTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
** *
11758816 TAGAAGCGATTTTATACTATTTTATCAGAAACATCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
11758853 CTCGAAATTA
Statistics
Matches: 209, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
124 93 0.44
125 7 0.03
126 109 0.52
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATACC
Found at i:11762485 original size:31 final size:31
Alignment explanation
Indices: 11762450--11762517 Score: 111
Period size: 30 Copynumber: 2.2 Consensus size: 31
11762440 TATAGGGGTC
11762450 ACACGGCCATGTGGGCTTTTGAAGTAGGGAA
1 ACACGGCCATGTGGGCTTTTGAAGTAGGGAA
* *
11762481 ACACGG-CGTGTGGGCTTTTGAAGTAGGGAC
1 ACACGGCCATGTGGGCTTTTGAAGTAGGGAA
11762511 ACACGGC
1 ACACGGC
11762518 TGTGTCTCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 28 0.82
31 6 0.18
ACGTcount: A:0.24, C:0.19, G:0.37, T:0.21
Consensus pattern (31 bp):
ACACGGCCATGTGGGCTTTTGAAGTAGGGAA
Found at i:11764941 original size:33 final size:35
Alignment explanation
Indices: 11764854--11764945 Score: 98
Period size: 33 Copynumber: 2.7 Consensus size: 35
11764844 ATATACACTA
*
11764854 CCATGGTCCAATCATGGTCTTATGTTTGAAAAATTG
1 CCATGGTCCAACCATGGTCTTATG-TTGAAAAATTG
* * * * *
11764890 CCATAGCCCAGCTATGGTCTTATG-T-AAACATTG
1 CCATGGTCCAACCATGGTCTTATGTTGAAAAATTG
*
11764923 CCATGGTCCAACCGTGGTCTTAT
1 CCATGGTCCAACCATGGTCTTAT
11764946 ACATTTTTAT
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
33 25 0.56
34 1 0.02
36 19 0.42
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (35 bp):
CCATGGTCCAACCATGGTCTTATGTTGAAAAATTG
Found at i:11766336 original size:26 final size:28
Alignment explanation
Indices: 11766307--11766361 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 28
11766297 AACATGGGAT
* *
11766307 ATAAGAAATTAACATCA-AA-ATAAAAA
1 ATAAAAAATCAACATCAGAATATAAAAA
*
11766333 ATAAAAAATCAACATTAGAATATAAAAA
1 ATAAAAAATCAACATCAGAATATAAAAA
11766361 A
1 A
11766362 AATCACTAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.58
27 2 0.08
28 8 0.33
ACGTcount: A:0.69, C:0.07, G:0.04, T:0.20
Consensus pattern (28 bp):
ATAAAAAATCAACATCAGAATATAAAAA
Found at i:11769780 original size:40 final size:40
Alignment explanation
Indices: 11769736--11769855 Score: 161
Period size: 40 Copynumber: 3.0 Consensus size: 40
11769726 TCAAATACAT
* *
11769736 CCTTTTAATTTGATATCCTTTTTGGATACATCCTTTTCAA
1 CCTTTTAATTTGATATCCTTTTCGAATACATCCTTTTCAA
** *
11769776 CCTTTTCGTTTGATATTCTTTTCGAATACATCCTTTTCAA
1 CCTTTTAATTTGATATCCTTTTCGAATACATCCTTTTCAA
* *
11769816 CC-TTTAAGTCTGATATCCTTTTCAAATACATCCTTTTCAA
1 CCTTTTAA-TTTGATATCCTTTTCGAATACATCCTTTTCAA
11769856 GTATATTACT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
39 3 0.04
40 66 0.96
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (40 bp):
CCTTTTAATTTGATATCCTTTTCGAATACATCCTTTTCAA
Found at i:11773062 original size:18 final size:18
Alignment explanation
Indices: 11773039--11773081 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11773029 CAAGGTCACG
*
11773039 ATCAATAGTGTCACTATC
1 ATCAATAGCGTCACTATC
*
11773057 ATCAATAGCGTCATTATC
1 ATCAATAGCGTCACTATC
*
11773075 ATTAATA
1 ATCAATA
11773082 TTGATATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (18 bp):
ATCAATAGCGTCACTATC
Found at i:11777405 original size:12 final size:12
Alignment explanation
Indices: 11777388--11777413 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11777378 TTTATAATGC
11777388 TATTGTTATTAT
1 TATTGTTATTAT
11777400 TATTGTTATTAT
1 TATTGTTATTAT
11777412 TA
1 TA
11777414 CTATTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (12 bp):
TATTGTTATTAT
Found at i:11778955 original size:33 final size:32
Alignment explanation
Indices: 11778916--11779035 Score: 106
Period size: 33 Copynumber: 3.8 Consensus size: 32
11778906 CCAACTTAAG
* *
11778916 AAAAAGTGTCAAGTTTAGGTACTAAATTAGGA
1 AAAAAATGTCAAGTTTAGGTACCAAATTAGGA
* *
11778948 AAAAAAGTATCAAGTTTGGGTACCAAATT-GGA
1 AAAAAA-TGTCAAGTTTAGGTACCAAATTAGGA
* * *
11778980 CAACAAA----AAGTTTAAGTACCAAATTAAGA
1 -AAAAAATGTCAAGTTTAGGTACCAAATTAGGA
* *
11779009 AAAAAATGTCAAGTTCAGATACCAAAT
1 AAAAAATGTCAAGTTTAGGTACCAAAT
11779036 ATTATATTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
28 21 0.30
29 2 0.03
32 22 0.32
33 24 0.35
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (32 bp):
AAAAAATGTCAAGTTTAGGTACCAAATTAGGA
Found at i:11789643 original size:2 final size:2
Alignment explanation
Indices: 11789636--11789660 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11789626 AAGTGTTCGA
11789636 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11789661 AATTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11789707 original size:2 final size:2
Alignment explanation
Indices: 11789700--11789729 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11789690 CTATAAAAGC
11789700 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11789730 ATGTATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11789739 original size:15 final size:17
Alignment explanation
Indices: 11789700--11789741 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
11789690 CTATAAAAGC
11789700 ATATAT-ATATATATAT
1 ATATATAATATATATAT
11789716 ATATATAATATATA-AT
1 ATATATAATATATATAT
*
11789732 GTAT-TAATAT
1 ATATATAATAT
11789742 TTATTTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 11 0.46
17 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
ATATATAATATATATAT
Found at i:11789985 original size:19 final size:19
Alignment explanation
Indices: 11789961--11790000 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
11789951 GATATGTATA
11789961 TTGTAATTGTATAGGTGAT
1 TTGTAATTGTATAGGTGAT
11789980 TTGTAATTGTATAGGTGAT
1 TTGTAATTGTATAGGTGAT
11789999 TT
1 TT
11790001 TTTTTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (19 bp):
TTGTAATTGTATAGGTGAT
Found at i:11790155 original size:2 final size:2
Alignment explanation
Indices: 11790148--11790175 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11790138 TTGAGCTTAG
11790148 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
11790176 TATGCTCGAA
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:11790690 original size:41 final size:41
Alignment explanation
Indices: 11790645--11790918 Score: 458
Period size: 41 Copynumber: 6.7 Consensus size: 41
11790635 GGTTTTAAAA
11790645 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
11790686 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
11790727 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
11790768 CCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * *
11790809 CCTAGCAGGCTAAGTGCCGGTGAACTAAATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
11790850 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * *
11790891 CCTAACAAGCTAAGTGCCAGTGAATCTG
1 CCTAGCAGGCTAAGTGCCGGTG-ATCTG
11790919 TTTAAATTAA
Statistics
Matches: 218, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
41 213 0.98
42 5 0.02
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:11799812 original size:46 final size:46
Alignment explanation
Indices: 11799709--11800018 Score: 317
Period size: 46 Copynumber: 6.5 Consensus size: 46
11799699 TACGTATGAT
* *
11799709 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
11799752 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*** *
11799798 CACTTATCACTTTGTCACCACTT-ATCACTTG-TTCCTGATCAGATAAGTGTAGCTA-
1 CACTTATCACTTTGT---CACTTGATCA---GATAAGTG-T-AGCTAA----AGCTAC
* * *
11799853 AAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CA-CT--TA----TCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
11799906 CACTTATCACTTTGTCACTTAATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
11799952 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
11799998 CACTTATCACTTTGTCACTTG
1 CACTTATCACTTTGTCACTTG
11800019 TCACTGATCA
Statistics
Matches: 224, Mismatches: 18, Indels: 47
0.78 0.06 0.16
Matches are distributed among these distances:
43 10 0.04
44 5 0.02
45 20 0.09
46 125 0.56
48 4 0.02
49 5 0.02
50 4 0.02
51 2 0.01
52 11 0.05
53 1 0.00
55 1 0.00
56 12 0.05
57 2 0.01
58 4 0.02
59 5 0.02
60 4 0.02
62 9 0.04
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:11799849 original size:62 final size:64
Alignment explanation
Indices: 11799750--11799877 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 64
11799740 TAGCTAGGCT
11799750 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
11799814 ACCACTTATCAC-TTGTTC-C-TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
1 ACCACTTATCACTTTG-TCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
11799876 AC
1 AC
11799878 TTGATCAGAT
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
62 45 0.71
63 4 0.06
64 14 0.22
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (64 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
Found at i:11799897 original size:108 final size:107
Alignment explanation
Indices: 11799709--11799923 Score: 394
Period size: 108 Copynumber: 2.0 Consensus size: 107
11799699 TACGTATGAT
*
11799709 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
11799774 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
66 TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
*
11799816 CACTTATCACTTGTTCCTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACTTG
*
11799881 ATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCAC
65 ATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
11799924 TTAATCAGAT
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 35 0.34
108 69 0.66
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (107 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
TCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
Found at i:11799942 original size:92 final size:92
Alignment explanation
Indices: 11799814--11800017 Score: 360
Period size: 92 Copynumber: 2.2 Consensus size: 92
11799804 TCACTTTGTC
*
11799814 ACCACTTATCAC-TTGTTC-C-TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
1 ACCACTTATCACTTTG-TCACTTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTC
*
11799876 ACTTGATCAGATAAGTGTAGCTAAGGCT
65 ACTTGATCAGATAAGTGTAGCTAAAGCT
11799904 ACCACTTATCACTTTGTCACTTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
1 ACCACTTATCACTTTGTCACTTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
11799969 CTTGATCAGATAAGTGTAGCTAAAGCT
66 CTTGATCAGATAAGTGTAGCTAAAGCT
11799996 ACCACTTATCACTTTGTCACTT
1 ACCACTTATCACTTTGTCACTT
11800018 GTCACTGATC
Statistics
Matches: 109, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
90 14 0.13
91 4 0.04
92 91 0.83
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (92 bp):
ACCACTTATCACTTTGTCACTTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
CTTGATCAGATAAGTGTAGCTAAAGCT
Found at i:11808944 original size:8 final size:7
Alignment explanation
Indices: 11808931--11809009 Score: 68
Period size: 6 Copynumber: 12.3 Consensus size: 7
11808921 TTTCCCCAGT
11808931 TTTATTTA
1 TTTA-TTA
11808939 TTTATTA
1 TTTATTA
*
11808946 TTTTATTG
1 -TTTATTA
11808954 TTT-TTA
1 TTTATTA
11808960 -TTATTA
1 TTTATTA
11808966 -TTATTA
1 TTTATTA
11808972 -TTATTA
1 TTTATTA
11808978 -TTATTA
1 TTTATTA
11808984 -TTATTA
1 TTTATTA
11808990 -TTATTA
1 TTTATTA
11808996 -TTATTA
1 TTTATTA
11809002 -TTATTA
1 TTTATTA
11809008 TT
1 TT
11809010 ATTCTGTTGT
Statistics
Matches: 66, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
5 2 0.03
6 47 0.71
7 7 0.11
8 10 0.15
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (7 bp):
TTTATTA
Found at i:11808963 original size:3 final size:3
Alignment explanation
Indices: 11808940--11809012 Score: 121
Period size: 3 Copynumber: 24.7 Consensus size: 3
11808930 TTTTATTTAT
* *
11808940 TTA TTA TT- TTA TTG TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11808987 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
11809013 CTGTTGTTCT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:11812298 original size:31 final size:33
Alignment explanation
Indices: 11812236--11812298 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 33
11812226 CTTTACCCAA
*
11812236 TTTTATTTATTTATTTATTATTTTATTGTTCTT
1 TTTTATTTATTTATTTATTATTTTATCGTTCTT
* *
11812269 TTTTCTTTA-TTA-TTATTATTTTGTCGTTCT
1 TTTTATTTATTTATTTATTATTTTATCGTTCT
11812299 CCTACTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 16 0.59
32 3 0.11
33 8 0.30
ACGTcount: A:0.16, C:0.06, G:0.05, T:0.73
Consensus pattern (33 bp):
TTTTATTTATTTATTTATTATTTTATCGTTCTT
Found at i:11813391 original size:22 final size:22
Alignment explanation
Indices: 11813336--11813393 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
11813326 TTTCTAAAAT
11813336 TATGTTATATGATAAGCTCTGA
1 TATGTTATATGATAAGCTCTGA
* * *
11813358 TACGTTACATGATATGCTCTGA
1 TATGTTATATGATAAGCTCTGA
*
11813380 TATGTAATATGATA
1 TATGTTATATGATA
11813394 CAAAATTTCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (22 bp):
TATGTTATATGATAAGCTCTGA
Found at i:11814548 original size:17 final size:17
Alignment explanation
Indices: 11814528--11814561 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11814518 CTTATTAATT
*
11814528 TTACTTTCAAATTATAA
1 TTACTTTCAAAATATAA
*
11814545 TTACTTTTAAAATATAA
1 TTACTTTCAAAATATAA
11814562 AAAAAAACAG
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:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TTACTTTCAAAATATAA
Found at i:11815683 original size:13 final size:12
Alignment explanation
Indices: 11815665--11815707 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
11815655 TTTTTTAATG
11815665 TTTATAGTAATAT
1 TTTATAGTAA-AT
11815678 TTTATAGTAAAT
1 TTTATAGTAAAT
*
11815690 TTTAGTAATAAAAT
1 TTTA-TAGT-AAAT
11815704 TTTA
1 TTTA
11815708 GATGGTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 6 0.22
13 13 0.48
14 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (12 bp):
TTTATAGTAAAT
Found at i:11816817 original size:27 final size:27
Alignment explanation
Indices: 11816787--11816884 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
11816777 TGTATGAGCT
* *
11816787 CTAGGTATGCGAACCCTTGTACGACCC
1 CTAGGTGTGCGAACCCTTGTACGAACC
* ***
11816814 CTAGGTGTGTGAACCCTTGTGTTAACC
1 CTAGGTGTGCGAACCCTTGTACGAACC
*
11816841 CTAAGTGTGCGAACCCTTGTACGAACC
1 CTAGGTGTGCGAACCCTTGTACGAACC
11816868 CTAGGTGTGCGAACCCT
1 CTAGGTGTGCGAACCCT
11816885 GATGTGCAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (27 bp):
CTAGGTGTGCGAACCCTTGTACGAACC
Found at i:11816855 original size:15 final size:14
Alignment explanation
Indices: 11816837--11816911 Score: 57
Period size: 14 Copynumber: 5.4 Consensus size: 14
11816827 CCCTTGTGTT
11816837 AACCCTAAGTGTGCG
1 AACCCTAA-TGTGCG
*
11816852 AACCCT--TGTACG
1 AACCCTAATGTGCG
*
11816864 AACCCTAGGTGTGCG
1 AACCCTA-ATGTGCG
* *
11816879 AACCCTGATGTGCA
1 AACCCTAATGTGCG
*
11816893 AACCC-ATCTGTGCG
1 AACCCTA-ATGTGCG
11816907 AACCC
1 AACCC
11816912 CCTTGTGCGA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
12 11 0.23
14 20 0.42
15 17 0.35
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (14 bp):
AACCCTAATGTGCG
Found at i:11816918 original size:14 final size:14
Alignment explanation
Indices: 11816901--11816932 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11816891 CAAACCCATC
*
11816901 TGTGCGAACCCCCT
1 TGTGCGAACACCCT
11816915 TGTGCGAACACCCT
1 TGTGCGAACACCCT
11816929 TGTG
1 TGTG
11816933 GGAGTCCCTA
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:0.16, C:0.34, G:0.25, T:0.25
Consensus pattern (14 bp):
TGTGCGAACACCCT
Found at i:11816985 original size:16 final size:16
Alignment explanation
Indices: 11816943--11816987 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
11816933 GGAGTCCCTA
11816943 TAGGTTACGAACCTTG
1 TAGGTTACGAACCTTG
*
11816959 TA-GTATGCGAACCTTG
1 TAGGT-TACGAACCTTG
11816975 TAGGTTACGAACC
1 TAGGTTACGAACC
11816988 CTATATGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 2 0.08
16 21 0.84
17 2 0.08
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (16 bp):
TAGGTTACGAACCTTG
Found at i:11834194 original size:5 final size:5
Alignment explanation
Indices: 11834186--11834211 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11834176 GAGATGGAAT
11834186 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
11834212 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:11834891 original size:30 final size:31
Alignment explanation
Indices: 11834852--11834911 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11834842 AGAGGTGAGA
*
11834852 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
11834883 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
11834912 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:11835078 original size:9 final size:9
Alignment explanation
Indices: 11835064--11835100 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11835054 TATAGTTTGA
11835064 TATTCGAAT
1 TATTCGAAT
11835073 TATTCGAAT
1 TATTCGAAT
*
11835082 TATTCGAGT
1 TATTCGAAT
11835091 TATTCGAAT
1 TATTCGAAT
11835100 T
1 T
11835101 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11863733 original size:24 final size:23
Alignment explanation
Indices: 11863697--11863783 Score: 79
Period size: 23 Copynumber: 3.7 Consensus size: 23
11863687 TTTCTTTTAA
* * *
11863697 AATAATGCCTAATAAACCTGAAAT
1 AATAATACATAATAAATCT-AAAT
*
11863721 AATAATACATAATGAATCTAAA-
1 AATAATACATAATAAATCTAAAT
* *
11863743 AATAAATATATAATAAATCTAAGCT
1 AAT-AATACATAATAAATCTAA-AT
11863768 AATAATACATAA-AAAT
1 AATAATACATAATAAAT
11863784 TTATGATGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
22 3 0.06
23 23 0.44
24 23 0.44
25 3 0.06
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (23 bp):
AATAATACATAATAAATCTAAAT
Found at i:11863937 original size:19 final size:20
Alignment explanation
Indices: 11863915--11863952 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
11863905 ATATAAATAG
11863915 ATAAATAAAATAT-AATAAC
1 ATAAATAAAATATCAATAAC
* *
11863934 ATAATTACAATATCAATAA
1 ATAAATAAAATATCAATAA
11863953 GGCTAGTGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAATAAAATATCAATAAC
Found at i:11865264 original size:18 final size:20
Alignment explanation
Indices: 11865241--11865278 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11865231 ACTTTTAATA
11865241 ATTTTTG-TT-TTTATTTAT
1 ATTTTTGTTTATTTATTTAT
11865259 ATTTTTGTTTATTTATTTAT
1 ATTTTTGTTTATTTATTTAT
11865279 TTCTGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
ATTTTTGTTTATTTATTTAT
Found at i:11865852 original size:44 final size:44
Alignment explanation
Indices: 11865804--11866077 Score: 154
Period size: 44 Copynumber: 6.3 Consensus size: 44
11865794 AAAATTTCCA
* *
11865804 GGAGATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCAG
1 GGAGATAAGATTATCTGCTTCAATCTGCTCCACTACAACCTCAG
* * * *
11865848 GGAGATAAGATT-TGCCAT-CTTCGATCTG-TCCCACTGCAACTTTAG
1 GGAGATAAGATTAT--C-TGCTTCAATCTGCT-CCACTACAACCTCAG
* * * *
11865893 GGGGATAA-A--ACCTGCTTACTCAATCTACTCCACTGCAACCTCAG
1 GGAGATAAGATTATCTGC-T--TCAATCTGCTCCACTACAACCTCAG
* * * * * * * *
11865937 GGAGATAAG---ACCTGATGCGATCTACTCTACTGCAACTTCAG
1 GGAGATAAGATTATCTGCTTCAATCTGCTCCACTACAACCTCAG
* * * * * * *
11865978 AGAGATAAGATCCAT-TACTTTAATCCGCTCCACTACAACTTCAA
1 GGAGATAAGAT-TATCTGCTTCAATCTGCTCCACTACAACCTCAG
* * *
11866022 GGAGATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCAA
1 GGAGATAAGATTATCTGCTTCAATCTGCTCCACTACAACCTCAG
11866066 GGAGATAAGATT
1 GGAGATAAGATT
11866078 TATAATTTCC
Statistics
Matches: 175, Mismatches: 39, Indels: 32
0.71 0.16 0.13
Matches are distributed among these distances:
40 1 0.01
41 31 0.18
42 1 0.01
43 4 0.02
44 107 0.61
45 31 0.18
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (44 bp):
GGAGATAAGATTATCTGCTTCAATCTGCTCCACTACAACCTCAG
Found at i:11866012 original size:218 final size:217
Alignment explanation
Indices: 11865614--11866078 Score: 723
Period size: 218 Copynumber: 2.1 Consensus size: 217
11865604 TCAGTCTACC
* *
11865614 CCACTACAACTTCAAGGGGGATAAGACTTTCCATCTTCGATCTGCCCCACTACAACTTCAGAGGG
1 CCACTACAACCTC-AGGGAGATAAGA-TTTCCATCTTCGATCTGCCCCACTACAACTTCAGAGGG
* * * *
11865679 ATAAGACCTACTTACTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCCAC
64 ATAAAACCTACTTACTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCAC
* * * * * *
11865744 TCTACTGCAATTTTAGAGAGATAAGATCTATTACTTTAATCCGGTCCACTAAAATTTCCAGGAGA
129 TCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAATCCGCTCCACTAAAACTTCAAGGAGA
11865809 TAGGATTATCGGCTTCAATCTGCT
194 TAGGATTATCGGCTTCAATCTGCT
* * * *
11865833 CCACTACAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGTCCCACTGCAACTTTAGGGGGA
1 CCACTACAACCTCAGGGAGATAAGATTT-CCATCTTCGATCTGCCCCACTACAACTTCAGAGGGA
* *
11865898 TAAAACCTGCTTACTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACT
65 TAAAACCTACTTACTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACT
*
11865963 CTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAATCCGCTCCACTACAACTTCAAGGAGAT
130 CTACTGCAACTTCAGAGAGATAAGATCCATTACTTTAATCCGCTCCACTAAAACTTCAAGGAGAT
11866028 AGGATTATCGGCTTCAATCTGCT
195 AGGATTATCGGCTTCAATCTGCT
*
11866051 CCACTACAACCTCAAGGAGATAAGATTT
1 CCACTACAACCTCAGGGAGATAAGATTT
11866079 ATAATTTCCC
Statistics
Matches: 225, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
217 3 0.01
218 210 0.93
219 12 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (217 bp):
CCACTACAACCTCAGGGAGATAAGATTTCCATCTTCGATCTGCCCCACTACAACTTCAGAGGGAT
AAAACCTACTTACTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACCTGATGCGATCCACTC
TACTGCAACTTCAGAGAGATAAGATCCATTACTTTAATCCGCTCCACTAAAACTTCAAGGAGATA
GGATTATCGGCTTCAATCTGCT
Found at i:11868502 original size:12 final size:13
Alignment explanation
Indices: 11868458--11868515 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
11868448 TTTGACTTTA
11868458 ATTTTGATTTTTCT
1 ATTTTGATTTTT-T
**
11868472 -TTTTCTTCTTTTT
1 ATTTTGAT-TTTTT
11868485 ATTTTTG-TTTTTT
1 A-TTTTGATTTTTT
11868498 ATTTTGATTTTTT
1 ATTTTGATTTTTT
11868511 -TTTTG
1 ATTTTG
11868516 GATTGGATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
12 10 0.27
13 18 0.49
14 5 0.14
15 4 0.11
ACGTcount: A:0.09, C:0.05, G:0.07, T:0.79
Consensus pattern (13 bp):
ATTTTGATTTTTT
Found at i:11873526 original size:20 final size:19
Alignment explanation
Indices: 11873485--11873533 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
11873475 ATATACATAT
11873485 ATATAAATAAATAAATAAA
1 ATATAAATAAATAAATAAA
* *
11873504 ATATAAATAACATAATTACA
1 ATATAAATAA-ATAAATAAA
*
11873524 ATATCAATAA
1 ATATAAATAA
11873534 GGCTAGTGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (19 bp):
ATATAAATAAATAAATAAA
Found at i:11882657 original size:19 final size:19
Alignment explanation
Indices: 11882633--11882676 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
11882623 ATGATTTAAT
11882633 TGATATGTGATACATGGTA
1 TGATATGTGATACATGGTA
*
11882652 TGATATGTGATACCTGGTA
1 TGATATGTGATACATGGTA
11882671 TGATAT
1 TGATAT
11882677 TGAGTTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.39
Consensus pattern (19 bp):
TGATATGTGATACATGGTA
Found at i:11895716 original size:56 final size:50
Alignment explanation
Indices: 11895640--11895873 Score: 189
Period size: 50 Copynumber: 4.6 Consensus size: 50
11895630 ATTTGGGCAA
* * * * *
11895640 AGAGATCCCATGTAAAACCATGTCTGGGACATTGCATTGGCATTCTTGAAATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG--TAC-CGAAA-C--G
* *
11895696 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAAACG
* * * * * *
11895746 AGAGGTCCTATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAAACG
* ** * * * * * *
11895796 AGAGCTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAAACG
** *
11895846 AGAACTCCCATGTAAGACCATATCTGGG
1 AGAGGTCCCATGTAAGACCATGTCTGGG
11895874 TTATCTAAGT
Statistics
Matches: 152, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
50 110 0.72
52 1 0.01
53 3 0.02
54 2 0.01
56 36 0.24
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGTACCGAAACG
Found at i:11895753 original size:50 final size:50
Alignment explanation
Indices: 11895693--11895873 Score: 227
Period size: 50 Copynumber: 3.6 Consensus size: 50
11895683 TCTTGAAATC
* *
11895693 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAG
1 ATGAGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * * *
11895743 ACGAGAGGTCCTATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAG
1 ATGAGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * * * * *
11895793 ATGAGAGCTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACTGAT
1 ATGAGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
11895843 ATGAGAACTCCCATGTAAGACCATATCTGGG
1 ATGAGAGCTCCCATGTAAGACCATGTCTGGG
11895874 TTATCTAAGT
Statistics
Matches: 111, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 111 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
ATGAGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:11896557 original size:20 final size:20
Alignment explanation
Indices: 11896529--11896574 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
11896519 CTGTTCTGAG
*
11896529 TTTAGAAAATCACTTAAAAT
1 TTTAAAAAATCACTTAAAAT
*
11896549 TTTAAAAAAATCACTTAAAGT
1 TTT-AAAAAATCACTTAAAAT
11896570 TTTAA
1 TTTAA
11896575 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (20 bp):
TTTAAAAAATCACTTAAAAT
Found at i:11896560 original size:21 final size:21
Alignment explanation
Indices: 11896534--11896574 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
11896524 CTGAGTTTAG
11896534 AAAATCACTTAAAATTTTAAA
1 AAAATCACTTAAAATTTTAAA
*
11896555 AAAATCACTTAAAGTTTTAA
1 AAAATCACTTAAAATTTTAA
11896575 TTTAAAAAAA
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:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAATCACTTAAAATTTTAAA
Found at i:11906067 original size:40 final size:40
Alignment explanation
Indices: 11906022--11906108 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 40
11906012 AATTGTGGAA
* * *
11906022 TACTGAATATTGTTTTGAGTACTGAATTGAATTATGAAGT
1 TACTGAATATTGTTATGAGTACTGAATTGAACTATGAAAT
* * *
11906062 TACTGAATATTGTTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTATGAGTACTGAATTGAACTATGAAAT
11906102 TACTGAA
1 TACTGAA
11906109 GTAATGAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (40 bp):
TACTGAATATTGTTATGAGTACTGAATTGAACTATGAAAT
Found at i:11906077 original size:21 final size:19
Alignment explanation
Indices: 11906022--11906085 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
11906012 AATTGTGGAA
*
11906022 TACTGAATATTGTTTTGAG
1 TACTGAATATTGTTATGAG
11906041 TACTG-A-ATTGAATTATGAAG
1 TACTGAATATTG--TTATG-AG
*
11906061 TTACTGAATATTGTTATGTG
1 -TACTGAATATTGTTATGAG
11906081 TACTG
1 TACTG
11906086 CATTGAACTG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
17 4 0.11
18 1 0.03
19 14 0.38
20 3 0.08
21 10 0.27
22 1 0.03
23 4 0.11
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (19 bp):
TACTGAATATTGTTATGAG
Found at i:11906341 original size:45 final size:45
Alignment explanation
Indices: 11906270--11906750 Score: 450
Period size: 45 Copynumber: 10.9 Consensus size: 45
11906260 TTACTGATCA
* * * *
11906270 GGCAC-TTATGTGCCGACTACTGTTACTGTTACTATTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
* * * *
11906314 GACACTTTATGTGTTGAATACTATTACTGTTACTGTTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
** *
11906359 GGCACTTTAAGTGTCGAATACTGTTACTGTTACTGTTACTGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
*
11906404 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTATTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
* * *
11906449 GGCACTTTGTGTGTCAAATACTGTAACTGTTACTGTTACAGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
* *
11906494 GACACTTTGTGTGTTGAATACTG--A----TAC----A--GATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
*
11906527 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACTGTTACTGATTT
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTAC-----C-GATTC
* * * * * *
11906578 GGCACTTTTTGTGTCAAATACTGTTACCGTTACTATTATCGATTT
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
* * **
11906623 GGCACTTTGTGTGTCAAATACTGTTACCGTTACTGTTACAAATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
* * * * **
11906668 AGCACTTTTTGTGTCTAATATTGTTACTG-TACTGTTATAGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
** * * * *
11906712 AACACTTTATGTGTTGAATAATGTTACTATTACTGTTAC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTAC
11906751 TGCTACCGTT
Statistics
Matches: 367, Mismatches: 50, Indels: 39
0.80 0.11 0.09
Matches are distributed among these distances:
33 26 0.07
35 2 0.01
39 6 0.02
43 2 0.01
44 40 0.11
45 252 0.69
46 1 0.00
51 38 0.10
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (45 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
Found at i:11906516 original size:33 final size:33
Alignment explanation
Indices: 11906479--11906553 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
11906469 CTGTAACTGT
*
11906479 TACTGTTACAGATTCGACACTTTGTGTGTTGAA
1 TACTGTTACAGATTCGACACTTTGTGTGTCGAA
* *
11906512 TACTGATACAGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACAGATTCGACACTTTGTGTGTCGAA
11906545 TACTGTTAC
1 TACTGTTAC
11906554 TGTTACTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (33 bp):
TACTGTTACAGATTCGACACTTTGTGTGTCGAA
Found at i:11906556 original size:6 final size:6
Alignment explanation
Indices: 11906545--11906573 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11906535 GTGTGTCGAA
11906545 TACTGT TACTGT TACTGT TACTGT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTG
11906574 ATTTGGCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:11906591 original size:51 final size:49
Alignment explanation
Indices: 11906512--11906661 Score: 191
Period size: 51 Copynumber: 3.1 Consensus size: 49
11906502 GTGTGTTGAA
* * *
11906512 TACTGATACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTGT
1 TACTG-TAC-GATTTGGCACTTTGTGTGTCAAATACTGTTACCGTTACTGT
* *
11906563 TACTGTTACTGATTTGGCACTTTTTGTGTCAAATACTGTTACCGTTACTAT
1 TACTG-TAC-GATTTGGCACTTTGTGTGTCAAATACTGTTACCGTTACTGT
11906614 TA---T-CGATTTGGCACTTTGTGTGTCAAATACTGTTACCGTTACTGT
1 TACTGTACGATTTGGCACTTTGTGTGTCAAATACTGTTACCGTTACTGT
11906659 TAC
1 TAC
11906662 AAATTCAGCA
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
45 41 0.46
46 1 0.01
47 1 0.01
51 46 0.52
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (49 bp):
TACTGTACGATTTGGCACTTTGTGTGTCAAATACTGTTACCGTTACTGT
Found at i:11906596 original size:129 final size:123
Alignment explanation
Indices: 11906389--11906645 Score: 336
Period size: 129 Copynumber: 2.0 Consensus size: 123
11906379 CTGTTACTGT
* *
11906389 TACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTATTACCGATTCGGCAC
1 TACTGATACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTATTACCGATTCGGCAC
* * **
11906454 TTTGTGTGTCAAATACTGTAACTGTTACTGTTA-CAGATTCGACACTTTGTGTGTTGAA
66 TTTGTGTGTCAAATACTGTAACCGTTACTATTATC-GATTCGACACTTTGTGTGTCAAA
*
11906512 TACTGATACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACTGTTACTGATT
1 TACTGATACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTAC---TA---TTACCGATT
* * * * *
11906577 TGGCACTTTTTGTGTCAAATACTGTTACCGTTACTATTATCGATTTGGCACTTTGTGTGTCAAA
60 CGGCACTTTGTGTGTCAAATACTGTAACCGTTACTATTATCGATTCGACACTTTGTGTGTCAAA
11906641 TACTG
1 TACTG
11906646 TTACCGTTAC
Statistics
Matches: 115, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
123 46 0.40
126 2 0.02
129 66 0.57
130 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (123 bp):
TACTGATACAGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTATTACCGATTCGGCAC
TTTGTGTGTCAAATACTGTAACCGTTACTATTATCGATTCGACACTTTGTGTGTCAAA
Found at i:11909515 original size:35 final size:35
Alignment explanation
Indices: 11909460--11909543 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
11909450 TACTATCTGT
* *
11909460 TTTGGTGTGTTTCGG-TTGGACTAACTCTTATGAGCA
1 TTTGGTGTGTTT-GGAATGGACTAACTC-TACGAGCA
**
11909496 TTT-GTGTGTTTGGAATGGACTGGCTCTACGAGCA
1 TTTGGTGTGTTTGGAATGGACTAACTCTACGAGCA
11909530 TTTGGTGTGTTTGG
1 TTTGGTGTGTTTGG
11909544 GTGGTTTGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
34 12 0.29
35 27 0.64
36 3 0.07
ACGTcount: A:0.14, C:0.12, G:0.32, T:0.42
Consensus pattern (35 bp):
TTTGGTGTGTTTGGAATGGACTAACTCTACGAGCA
Found at i:11916006 original size:42 final size:41
Alignment explanation
Indices: 11915920--11916009 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 41
11915910 ACGGTTTGAG
* * *
11915920 CACACGGAGGTGTGGGGTAACTAAACGGCCATGTCCCTATGC
1 CACAC-GAGGTGTGGGGTAACCAAACGGCCATGTCCCCAAGC
* *
11915962 CACACGAGCGTGTGGGGTAGCCACACGGCCATG-CCCCAGAGC
1 CACACGAG-GTGTGGGGTAACCAAACGGCCATGTCCCCA-AGC
11916004 CACACG
1 CACACG
11916010 GTCTAGGACC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 7 0.17
42 34 0.83
ACGTcount: A:0.23, C:0.32, G:0.31, T:0.13
Consensus pattern (41 bp):
CACACGAGGTGTGGGGTAACCAAACGGCCATGTCCCCAAGC
Found at i:11921306 original size:6 final size:6
Alignment explanation
Indices: 11921295--11921320 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11921285 TTTTTAGCTA
11921295 ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT AT
11921321 TTTTAAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:11940930 original size:2 final size:2
Alignment explanation
Indices: 11940923--11940951 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11940913 CTTGGAAATG
11940923 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11940952 GGTGGTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11953855 original size:45 final size:44
Alignment explanation
Indices: 11953762--11953942 Score: 174
Period size: 45 Copynumber: 4.1 Consensus size: 44
11953752 ATAGATGCAC
* * *
11953762 GGTGG-ATCAGCACATAGC-ACCACCCTTATAGTCAATGATA-CT
1 GGTGGAATCAACACATAGCAACCACCTTTATAATCAATG-TACCT
* * *
11953804 CAGTGGAATCAACACATAGCAATCACCTTCATAATCAATAGTACCT
1 -GGTGGAATCAACACATAGCAACCACCTTTATAATCAAT-GTACCT
* * * *
11953850 GGTGGAATCAGCACACATCAACCACCTTTATAAGT-AATGATACCC
1 GGTGGAATCAACACATAGCAACCACCTTTATAA-TCAATG-TACCT
11953895 GGTGGAAT-AAGCACATAGCAACCACCTTTATAATCAATGGTACCT
1 GGTGGAATCAA-CACATAGCAACCACCTTTATAATCAAT-GTACCT
11953940 GGT
1 GGT
11953943 ACACGTAGTA
Statistics
Matches: 112, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
43 4 0.04
44 15 0.13
45 88 0.79
46 5 0.04
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (44 bp):
GGTGGAATCAACACATAGCAACCACCTTTATAATCAATGTACCT
Found at i:11953900 original size:90 final size:88
Alignment explanation
Indices: 11953762--11953942 Score: 240
Period size: 90 Copynumber: 2.0 Consensus size: 88
11953752 ATAGATGCAC
* *
11953762 GGTGGATCAGCACATAGCACCACCCTTATAGTCAATGATACTCAGTGGAATCAA-CACATAGCAA
1 GGTGGATCAGCACACAGCACCACCCTTATAGTCAATGATACCCAGTGGAAT-AAGCACATAGCAA
*
11953826 TCACCTTCATAATCAATAGTACCT
65 CCACCTTCATAATCAATAGTACCT
* * *
11953850 GGTGGAATCAGCACACATCAACCACCTTTATAAGT-AATGATACCCGGTGGAATAAGCACATAGC
1 GGTGG-ATCAGCACACAGC-ACCACCCTTAT-AGTCAATGATACCCAGTGGAATAAGCACATAGC
* *
11953914 AACCACCTTTATAATCAATGGTACCT
63 AACCACCTTCATAATCAATAGTACCT
11953940 GGT
1 GGT
11953943 ACACGTAGTA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
88 5 0.06
89 13 0.16
90 60 0.74
91 3 0.04
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (88 bp):
GGTGGATCAGCACACAGCACCACCCTTATAGTCAATGATACCCAGTGGAATAAGCACATAGCAAC
CACCTTCATAATCAATAGTACCT
Found at i:11958663 original size:2 final size:2
Alignment explanation
Indices: 11958594--11958652 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
11958584 TATGGTGCGA
11958594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11958636 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
11958653 GGCATATATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11959360 original size:82 final size:82
Alignment explanation
Indices: 11959157--11959380 Score: 358
Period size: 82 Copynumber: 2.7 Consensus size: 82
11959147 AGGCTAAGCG
*
11959157 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAGCAGGCTATGTGCCGGTGAT
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAGCAGGCTATGTGCCGATGAT
*
11959222 TTGAATCGGGTTATAAA
66 TTGAATCAGGTTATAAA
*
11959239 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAGCAGGCTACGTGCCGATGAT
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAGCAGGCTATGTGCCGATGAT
11959304 TTGAATCAGGTTATAAA
66 TTGAATCAGGTTATAAA
* ** * ** *
11959321 CCTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTATAAGTCTAGCAGTCTATGTGCCG
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAGCAGGCTATGTGCCG
11959381 TTGAATCTGT
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 131 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (82 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAGCAGGCTATGTGCCGATGAT
TTGAATCAGGTTATAAA
Found at i:11959379 original size:123 final size:123
Alignment explanation
Indices: 11959157--11959380 Score: 349
Period size: 123 Copynumber: 1.8 Consensus size: 123
11959147 AGGCTAAGCG
* * *
11959157 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAGCAGGCTATGTGCCGGTGAT
1 CCTAGCAGGCTACGTGCCGATGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGAT
* ** *
11959222 TTGAATCGGGTTATAAACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
66 CTGAATCAAGCTATAAACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
11959280 CCTAGCAGGCTACGTGCCGATGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGAT
1 CCTAGCAGGCTACGTGCCGATGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGAT
** * *
11959345 CTGAATCAAGCTATAAGTCTAGCAGTCTATGTGCCG
66 CTGAATCAAGCTATAAACCTAGCAGGCTACGTGCCG
11959381 TTGAATCTGT
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
123 90 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (123 bp):
CCTAGCAGGCTACGTGCCGATGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGAT
CTGAATCAAGCTATAAACCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
Found at i:11959380 original size:41 final size:41
Alignment explanation
Indices: 11959157--11959351 Score: 354
Period size: 41 Copynumber: 4.8 Consensus size: 41
11959147 AGGCTAAGCG
11959157 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
11959198 CCTAGCAGGCTATGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
11959239 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
* *
11959280 CCTAGCAGGCTACGTGCCGATGATTTGAATCAGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
11959321 CCTAGCAGGCTACGTGCCGGTGATCTGAATC
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATC
11959352 AAGCTATAAG
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 148 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
Found at i:11964060 original size:30 final size:30
Alignment explanation
Indices: 11963989--11964052 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
11963979 GGGTAACCTC
* * * *
11963989 GATATAATCTCAGCTTGTGTGAGCAATCTT
1 GATAAAATGTCAGCTTGTGTGAGCAACCAT
*
11964019 GTTAAAATGTCAGCTTGTGTGAGCAACCAT
1 GATAAAATGTCAGCTTGTGTGAGCAACCAT
11964049 GATA
1 GATA
11964053 CGTTGTCAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (30 bp):
GATAAAATGTCAGCTTGTGTGAGCAACCAT
Found at i:11966836 original size:20 final size:20
Alignment explanation
Indices: 11966813--11966871 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
11966803 AAAAATTATC
*
11966813 TAAGAATTTACCAAAACTTA
1 TAAGAAGTTACCAAAACTTA
*
11966833 TAAGAAGTTACCAAAA-TATT
1 TAAGAAGTTACCAAAACT-TA
*
11966853 TAAGGAGTTACCAAAACTT
1 TAAGAAGTTACCAAAACTT
11966872 CTAACCTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.03
20 32 0.94
21 1 0.03
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
TAAGAAGTTACCAAAACTTA
Found at i:11966965 original size:40 final size:41
Alignment explanation
Indices: 11966877--11966971 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
11966867 AACTTCTAAC
* *
11966877 CTTTTACCGAAATTCCTTAAAAGTTAATAGAATTTTGTAAG
1 CTTTTACCAAAATTCCTTAAAAGTTAATAGAAATTTGTAAG
* *
11966918 CTTTTACCAAAATTTCTTAAAATTTAATA-AAATTTGTAAG
1 CTTTTACCAAAATTCCTTAAAAGTTAATAGAAATTTGTAAG
11966958 CTTTTACCAAAATT
1 CTTTTACCAAAATT
11966972 ATATTTTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 24 0.48
41 26 0.52
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (41 bp):
CTTTTACCAAAATTCCTTAAAAGTTAATAGAAATTTGTAAG
Found at i:11966969 original size:20 final size:20
Alignment explanation
Indices: 11966910--11966971 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
11966900 TTAATAGAAT
11966910 TTTGTAAGCTTTTACCAAAA
1 TTTGTAAGCTTTTACCAAAA
* ** **
11966930 TTTCTTAA-AATTTAATAAAA
1 TTT-GTAAGCTTTTACCAAAA
11966950 TTTGTAAGCTTTTACCAAAA
1 TTTGTAAGCTTTTACCAAAA
11966970 TT
1 TT
11966972 ATATTTTTTA
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 3 0.10
20 24 0.80
21 3 0.10
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (20 bp):
TTTGTAAGCTTTTACCAAAA
Found at i:11967060 original size:40 final size:39
Alignment explanation
Indices: 11966976--11967076 Score: 100
Period size: 40 Copynumber: 2.5 Consensus size: 39
11966966 AAAATTATAT
* * *
11966976 TTTTTAATGATTTACCCAA-ATTTCTAACTATTTACCAATA
1 TTTTTAA-GATTTA-CCAATATATCTAACGATTTACAAATA
11967016 TTTTTGAA-ACTTTACCAATATATCTAACGATTTATCAAAT-
1 TTTTT-AAGA-TTTACCAATATATCTAACGATTTA-CAAATA
11967056 TTTTTAAGGATTTACCAATAT
1 TTTTTAA-GATTTACCAATAT
11967077 TTTTGAGACT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
39 7 0.13
40 38 0.73
41 7 0.13
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.45
Consensus pattern (39 bp):
TTTTTAAGATTTACCAATATATCTAACGATTTACAAATA
Found at i:11967069 original size:60 final size:60
Alignment explanation
Indices: 11967005--11967132 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
11966995 ATTTCTAACT
* *
11967005 ATTTACCAATATTTTTGAAACTTTACCAA-TATATCTAACGATTTATCAAATTTTTTAAGG
1 ATTTACCAATATTTTTGAAACTTTACCAATTA-ATCTAACCACTTATCAAATTTTTTAAGG
* * * ** *
11967065 ATTTACCAATATTTTTGAGACTTTACTAATTAATCTAACCACTTGTTGAATTTTTTAGGG
1 ATTTACCAATATTTTTGAAACTTTACCAATTAATCTAACCACTTATCAAATTTTTTAAGG
11967125 ATTTACCA
1 ATTTACCA
11967133 TGATATCTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
60 57 0.97
61 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.44
Consensus pattern (60 bp):
ATTTACCAATATTTTTGAAACTTTACCAATTAATCTAACCACTTATCAAATTTTTTAAGG
Found at i:11967090 original size:20 final size:20
Alignment explanation
Indices: 11966976--11967080 Score: 83
Period size: 20 Copynumber: 5.2 Consensus size: 20
11966966 AAAATTATAT
*
11966976 TTTTTAATGATTTACCCAA-A
1 TTTTTAACGATTTA-CCAATA
* *
11966996 TTTCTAACTATTTACCAATA
1 TTTTTAACGATTTACCAATA
11967016 TTTTTGAA--ACTTTACCAATA
1 TTTTT-AACGA-TTTACCAATA
* * *
11967036 TATCTAACGATTTATCAA-A
1 TTTTTAACGATTTACCAATA
*
11967055 TTTTTTAAGGATTTACCAATA
1 -TTTTTAACGATTTACCAATA
11967076 TTTTT
1 TTTTT
11967081 GAGACTTTAC
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
19 8 0.12
20 55 0.82
21 4 0.06
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTTAACGATTTACCAATA
Found at i:11967250 original size:20 final size:20
Alignment explanation
Indices: 11967225--11967271 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
11967215 AAAATATTTG
*
11967225 AGGATTTATCAATATTTCTA
1 AGGATTTATCAAAATTTCTA
* *
11967245 ATGATTGATCAAAATTTCTA
1 AGGATTTATCAAAATTTCTA
11967265 AGGATTT
1 AGGATTT
11967272 CATTTGTATC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.43
Consensus pattern (20 bp):
AGGATTTATCAAAATTTCTA
Found at i:11967372 original size:20 final size:20
Alignment explanation
Indices: 11967308--11967365 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
11967298 CATCTAAGCC
* * *
11967308 TTTACCAAAATTTTTGAGAC
1 TTTACCAAAATTTCTAAGAA
* *
11967328 TTTACCAACATTTCTAACAA
1 TTTACCAAAATTTCTAAGAA
11967348 TTTACCAAAATTTCTAAG
1 TTTACCAAAATTTCTAAG
11967366 GTTTTACTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (20 bp):
TTTACCAAAATTTCTAAGAA
Done.