Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 109 of 313
Found at i:35744492 original size:24 final size:23
Alignment explanation
Indices: 35744465--35744543 Score: 65
Period size: 24 Copynumber: 3.3 Consensus size: 23
35744455 TATGTATTTT
35744465 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
* *
35744489 TTATTATTATAGTTTTATATTAAA
1 TTATTA-AATAGTATTATATTAAA
*
35744513 TTATTAAATTATTATTATCATT--A
1 TTATTAAA-TAGTATTAT-ATTAAA
35744536 TTATTAAA
1 TTATTAAA
35744544 ATAAATTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
23 10 0.22
24 24 0.52
25 12 0.26
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:35750836 original size:84 final size:84
Alignment explanation
Indices: 35750722--35750905 Score: 269
Period size: 84 Copynumber: 2.2 Consensus size: 84
35750712 TGGGCGTATA
* * * *
35750722 GGCCCACACGGGCATGTCACATGGGCGTGTGGGTTTTGGGCTAGATCATATGGGCCACACGGGTA
1 GGCCCACACGGGCATGCCACATGGGAGTGTGGGTTTTGGGCCAGACCATATGGGCCACACGGGTA
*
35750787 ATGTCAATATGGGAATGTG
66 AGGTCAATATGGGAATGTG
* * *
35750806 GGCCCACACGGGCATGCCACATGGGAGTGTGGGTTTTGGGCCAGACCGTATGGGCTACATGGGTA
1 GGCCCACACGGGCATGCCACATGGGAGTGTGGGTTTTGGGCCAGACCATATGGGCCACACGGGTA
* **
35750871 AGGTCAATTTGGGTGTGTG
66 AGGTCAATATGGGAATGTG
35750890 GGCCCACACGGGCATG
1 GGCCCACACGGGCATG
35750906 TAGGCCCATA
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.20, C:0.21, G:0.38, T:0.22
Consensus pattern (84 bp):
GGCCCACACGGGCATGCCACATGGGAGTGTGGGTTTTGGGCCAGACCATATGGGCCACACGGGTA
AGGTCAATATGGGAATGTG
Found at i:35763489 original size:18 final size:19
Alignment explanation
Indices: 35763455--35763490 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35763445 AAAATAATAA
*
35763455 AAATATTATATAAAATTCT
1 AAATATTATAGAAAATTCT
35763474 AAATATTAT-GAAAATTC
1 AAATATTATAGAAAATTC
35763491 AGAAAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (19 bp):
AAATATTATAGAAAATTCT
Found at i:35769839 original size:31 final size:31
Alignment explanation
Indices: 35769803--35769862 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
35769793 TCAGAAAAAT
35769803 AAACAAAAAGAGAAATA-TCACAAAGAGAATA
1 AAACAAAAAGAGAAA-ACTCACAAAGAGAATA
*
35769834 AAACAAAAAGAGAAAACTCATAAAGAGAA
1 AAACAAAAAGAGAAAACTCACAAAGAGAA
35769863 ATCTAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.68, C:0.10, G:0.13, T:0.08
Consensus pattern (31 bp):
AAACAAAAAGAGAAAACTCACAAAGAGAATA
Found at i:35769845 original size:16 final size:15
Alignment explanation
Indices: 35769803--35769863 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
35769793 TCAGAAAAAT
35769803 AAACAAAAAGAGAAA
1 AAACAAAAAGAGAAA
* * *
35769818 TATCACAAAGAGAATA
1 AAACAAAAAGAGAA-A
35769834 AAACAAAAAGAGAAA
1 AAACAAAAAGAGAAA
** *
35769849 ACTCATAAAGAGAAA
1 AAACAAAAAGAGAAA
35769864 TCTAACAAAG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
15 24 0.67
16 12 0.33
ACGTcount: A:0.69, C:0.10, G:0.13, T:0.08
Consensus pattern (15 bp):
AAACAAAAAGAGAAA
Found at i:35770490 original size:18 final size:18
Alignment explanation
Indices: 35770469--35770503 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35770459 ATCAATTTTT
* *
35770469 TTTAATTTTTTAATTTAA
1 TTTAATATTATAATTTAA
35770487 TTTAATATTATAATTTA
1 TTTAATATTATAATTTA
35770504 CTTTCTAATA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTAATATTATAATTTAA
Found at i:35779404 original size:4 final size:4
Alignment explanation
Indices: 35779395--35779445 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
35779385 TGCAACAACC
35779395 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
35779443 ATG
1 ATG
35779446 GAACTCAAAT
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:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:35786769 original size:8 final size:8
Alignment explanation
Indices: 35786756--35786786 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
35786746 ATATGTATGC
35786756 TTGTGAAA
1 TTGTGAAA
35786764 TTGTGAAA
1 TTGTGAAA
35786772 TTGTGAAA
1 TTGTGAAA
*
35786780 TTATGAA
1 TTGTGAA
35786787 CATATATGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (8 bp):
TTGTGAAA
Found at i:35786873 original size:36 final size:36
Alignment explanation
Indices: 35786833--35786910 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
35786823 ATGATGACTG
* * *
35786833 ATGTGAAAATGAATATGAGGGTGTGTTGTTCATGCC
1 ATGTGAAAATAAATATGAGGGTATGTTATTCATGCC
* * *
35786869 ATGTGATAGTAAATATGTGGGTATGTTATTCATGCC
1 ATGTGAAAATAAATATGAGGGTATGTTATTCATGCC
35786905 ATGTGA
1 ATGTGA
35786911 CAGTGTTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (36 bp):
ATGTGAAAATAAATATGAGGGTATGTTATTCATGCC
Found at i:35787364 original size:19 final size:18
Alignment explanation
Indices: 35787323--35787365 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
35787313 TAGCTAATAA
35787323 ATATTTGTTACTATATTT
1 ATATTTGTTACTATATTT
* * *
35787341 CTATTTGGTTATTATTTTT
1 ATATTT-GTTACTATATTT
35787360 ATATTT
1 ATATTT
35787366 TTATTTTGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (18 bp):
ATATTTGTTACTATATTT
Found at i:35791305 original size:2 final size:2
Alignment explanation
Indices: 35791298--35791326 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
35791288 TTAACCAATC
35791298 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
35791327 CAGTAATTTT
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:35793469 original size:25 final size:24
Alignment explanation
Indices: 35793415--35793481 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
35793405 TAAATTAAAT
* *
35793415 TTAATATTTATCTTAATAGTATTTTA
1 TTAAT-TTTATATTAA-AGTATTATA
*
35793441 TTAATTTTATATTAAAGTGATTATC
1 TTAATTTTATATTAAAGT-ATTATA
* *
35793466 TTAATATTAAATTAAA
1 TTAATTTTATATTAAA
35793482 TTTAACGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 3 0.09
25 27 0.77
26 5 0.14
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (24 bp):
TTAATTTTATATTAAAGTATTATA
Found at i:35795613 original size:4 final size:4
Alignment explanation
Indices: 35795600--35795645 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
35795590 TCTTTTAAAA
35795600 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
35795646 TATATATTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.07
4 38 0.93
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:35796377 original size:21 final size:21
Alignment explanation
Indices: 35796353--35796398 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
35796343 TGCAAACATA
35796353 TATTATTATTTA-TATTATTAC
1 TATTATTA-TTACTATTATTAC
35796374 TATTATTATTACTATTATTAC
1 TATTATTATTACTATTATTAC
35796395 TATT
1 TATT
35796399 TCTTTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTATTATTACTATTATTAC
Found at i:35796380 original size:12 final size:12
Alignment explanation
Indices: 35796353--35796393 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
35796343 TGCAAACATA
35796353 TATTATTATT--
1 TATTATTATTAC
35796363 TA-TATTATTAC
1 TATTATTATTAC
35796374 TATTATTATTAC
1 TATTATTATTAC
35796386 TATTATTA
1 TATTATTA
35796394 CTATTTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.25
10 2 0.07
11 2 0.07
12 17 0.61
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:35796470 original size:14 final size:12
Alignment explanation
Indices: 35796443--35796476 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
35796433 GAATCTCATT
35796443 TTATTATTATCA
1 TTATTATTATCA
35796455 TTATTATTAATACA
1 TTATTATT-AT-CA
35796469 TTATTATT
1 TTATTATT
35796477 TTTACTATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 2 0.10
14 10 0.50
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATTATTATCA
Found at i:35796476 original size:17 final size:17
Alignment explanation
Indices: 35796454--35796496 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
35796444 TATTATTATC
*
35796454 ATTATTATTAATACATT
1 ATTATTATTAATACACT
* * *
35796471 ATTATTTTTACTATACT
1 ATTATTATTAATACACT
35796488 ATTATTATT
1 ATTATTATT
35796497 CCCTTTTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATTATTAATACACT
Found at i:35796686 original size:7 final size:7
Alignment explanation
Indices: 35796660--35796700 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
35796650 TTATTACTTT
35796660 ATTATTA
1 ATTATTA
*
35796667 ATTTAGT-
1 A-TTATTA
35796674 ATTATTA
1 ATTATTA
35796681 ATTATTA
1 ATTATTA
35796688 ATTATT-
1 ATTATTA
35796694 ATTATTA
1 ATTATTA
35796701 TCCTTATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 10 0.34
7 15 0.52
8 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (7 bp):
ATTATTA
Found at i:35796800 original size:3 final size:3
Alignment explanation
Indices: 35796794--35796827 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
35796784 TTGTTGTGTC
*
35796794 ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
35796828 ATTTTAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:35796933 original size:15 final size:15
Alignment explanation
Indices: 35796909--35796939 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35796899 ATTTAAACTT
35796909 TATTAGTTTTTATTA
1 TATTAGTTTTTATTA
*
35796924 TATTATTTTTTATTA
1 TATTAGTTTTTATTA
35796939 T
1 T
35796940 TTGTTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
TATTAGTTTTTATTA
Found at i:35799610 original size:4 final size:4
Alignment explanation
Indices: 35799601--35799641 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
35799591 TTCCCAAAAT
* *
35799601 ATTA ATTA ATTA ATTA GTTA ATTAA ATTA TTTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATT-A ATTA ATTA ATTA ATTA
35799642 TTTTCTTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 28 0.88
5 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (4 bp):
ATTA
Found at i:35799650 original size:12 final size:12
Alignment explanation
Indices: 35799601--35799644 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
35799591 TTCCCAAAAT
*
35799601 ATTAATTAATTA
1 ATTATTTAATTA
*
35799613 ATTAGTTAATTAA
1 ATTATTTAATT-A
35799626 ATTATTTAATTA
1 ATTATTTAATTA
35799638 ATTATTT
1 ATTATTT
35799645 TCTTAACCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
ATTATTTAATTA
Found at i:35805143 original size:32 final size:32
Alignment explanation
Indices: 35805089--35805157 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
35805079 CTTTATTGGG
* * *
35805089 CCATAAATTCCATAATTGTAAATGAATTCATT
1 CCATGAATTCCACAATTGTAAATGAAGTCATT
*
35805121 CCATGAATTCCACAATTTTAAATGAAGTCATT
1 CCATGAATTCCACAATTGTAAATGAAGTCATT
35805153 CCATG
1 CCATG
35805158 TAGAATTTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (32 bp):
CCATGAATTCCACAATTGTAAATGAAGTCATT
Found at i:35808966 original size:23 final size:22
Alignment explanation
Indices: 35808926--35808979 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
35808916 AACCACTTAC
*
35808926 CCAAAAGGAAGGGATTTTTAAA
1 CCAAAAAGAAGGGATTTTTAAA
35808948 CCAAAAAGAAGGGATTTTTAAA
1 CCAAAAAGAAGGGATTTTTAAA
35808970 CCAAAAAGAA
1 CCAAAAAGAA
35808980 TTTAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.19
Consensus pattern (22 bp):
CCAAAAAGAAGGGATTTTTAAA
Found at i:35810082 original size:15 final size:15
Alignment explanation
Indices: 35810062--35810092 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35810052 TTTTACTTAG
*
35810062 TAGTTTTATTTAATT
1 TAGTTTAATTTAATT
35810077 TAGTTTAATTTAATT
1 TAGTTTAATTTAATT
35810092 T
1 T
35810093 TTATAGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TAGTTTAATTTAATT
Found at i:35813653 original size:23 final size:22
Alignment explanation
Indices: 35813613--35813666 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
35813603 AACCACTTAC
*
35813613 CCAAAAGGAAGGGATTTTTAAA
1 CCAAAAAGAAGGGATTTTTAAA
35813635 CCAAAAAGAAGGGATTTTTAAA
1 CCAAAAAGAAGGGATTTTTAAA
35813657 CCAAAAAGAA
1 CCAAAAAGAA
35813667 TTTAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.19
Consensus pattern (22 bp):
CCAAAAAGAAGGGATTTTTAAA
Found at i:35814769 original size:15 final size:15
Alignment explanation
Indices: 35814749--35814779 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35814739 TTTTACTTAG
*
35814749 TAGTTTTATTTAATT
1 TAGTTTAATTTAATT
35814764 TAGTTTAATTTAATT
1 TAGTTTAATTTAATT
35814779 T
1 T
35814780 TTATAGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TAGTTTAATTTAATT
Found at i:35817816 original size:30 final size:33
Alignment explanation
Indices: 35817780--35817865 Score: 97
Period size: 35 Copynumber: 2.6 Consensus size: 33
35817770 TTATTTTTCA
*
35817780 TTTATTTA-ATTGTTTT-A-CTTTAGTTTCGTC
1 TTTATTTATATTGTTTTCATCTTTAGTTTCATC
* *
35817810 TTTATTTTATGTTGTTTTCATTTTTTAGTTTCATC
1 TTTA-TTTATATTGTTTTCA-TCTTTAGTTTCATC
35817845 TTTATTTCATATTGTTTTCAT
1 TTTATTT-ATATTGTTTTCAT
35817866 TTCTACTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 4 0.09
31 4 0.09
32 7 0.15
33 1 0.02
34 4 0.09
35 26 0.57
ACGTcount: A:0.16, C:0.09, G:0.08, T:0.66
Consensus pattern (33 bp):
TTTATTTATATTGTTTTCATCTTTAGTTTCATC
Found at i:35817837 original size:35 final size:35
Alignment explanation
Indices: 35817798--35817867 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
35817788 ATTGTTTTAC
* * *
35817798 TTTAGTTTCGTCTTTATTTTATGTTGTTTTCATTT
1 TTTAGTTTCATCTTTATTTCATATTGTTTTCATTT
35817833 TTTAGTTTCATCTTTATTTCATATTGTTTTCATTT
1 TTTAGTTTCATCTTTATTTCATATTGTTTTCATTT
35817868 CTACTTTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.14, C:0.10, G:0.09, T:0.67
Consensus pattern (35 bp):
TTTAGTTTCATCTTTATTTCATATTGTTTTCATTT
Found at i:35829281 original size:141 final size:143
Alignment explanation
Indices: 35829092--35829358 Score: 303
Period size: 141 Copynumber: 1.9 Consensus size: 143
35829082 ACTAATTAAA
* * * * * * *
35829092 TAATTATATTAGGAGATTTTTATTAGTAAATAAATTGAAAGTATGACAATTGTATGGT-ATTGAT
1 TAATTATATTAGAAGATTTTTATGAGTAAATAAATTAAAAGAAAGACAAATGGATGGTCA-TGAT
* * * * * *
35829156 ATTGTACAAATGTACAAAA-A-TATATGTGTACAATTGTAGTATTTATATTTGT-TATTAAAATA
65 AATATAAAAATGTA-AAAATATTATAAGTGTACAATTGTAATATATATATTTGTGTATTAAAATA
35829218 AATTATAATATATAT
129 AATTATAATATATAT
*
35829233 TAATTATATTATAAGATTTTTGTATGA-TAAATAAA-TAAAAGAAAGACAAATGGATGGTCATGA
1 TAATTATATTAGAAGA-TTTT-TATGAGTAAATAAATTAAAAGAAAGACAAATGGATGGTCATGA
* *
35829296 TAATATAAAAATGTAAAAATATTTATAAGTGTACATTTGTAATATATGTATTTGTGTATTAAA
64 TAATATAAAAATGTAAAAATA-TTATAAGTGTACAATTGTAATATATATATTTGTGTATTAAA
35829359 TAGATATTTA
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
140 4 0.04
141 48 0.47
142 13 0.13
143 31 0.30
144 7 0.07
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.40
Consensus pattern (143 bp):
TAATTATATTAGAAGATTTTTATGAGTAAATAAATTAAAAGAAAGACAAATGGATGGTCATGATA
ATATAAAAATGTAAAAATATTATAAGTGTACAATTGTAATATATATATTTGTGTATTAAAATAAA
TTATAATATATAT
Found at i:35833363 original size:10 final size:10
Alignment explanation
Indices: 35833332--35833366 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
35833322 AATAAGAAAA
35833332 TTTTCTAAA-
1 TTTTCTAAAG
35833341 TTTTCTCAAAG
1 TTTTCT-AAAG
35833352 TTTTCTAAAG
1 TTTTCTAAAG
35833362 TTTTC
1 TTTTC
35833367 GGTTTAGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 6 0.25
10 12 0.50
11 6 0.25
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (10 bp):
TTTTCTAAAG
Found at i:35836735 original size:7 final size:7
Alignment explanation
Indices: 35836723--35836747 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35836713 TAGCTTTGAA
35836723 ATTTATG
1 ATTTATG
35836730 ATTTATG
1 ATTTATG
35836737 ATTTATG
1 ATTTATG
35836744 ATTT
1 ATTT
35836748 TATTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
ATTTATG
Found at i:35836789 original size:16 final size:15
Alignment explanation
Indices: 35836768--35836804 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
35836758 AAATTCTTTG
35836768 TTTGAAAATTAAGAT
1 TTTGAAAATTAAGAT
*
35836783 ATTTGAAATTTAAGAT
1 -TTTGAAAATTAAGAT
35836799 TTTGAA
1 TTTGAA
35836805 TTAACCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (15 bp):
TTTGAAAATTAAGAT
Found at i:35839109 original size:22 final size:22
Alignment explanation
Indices: 35839072--35839124 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
35839062 ATTAGGGTTC
* * *
35839072 TAGGATTTTAAATAAATTAAGT
1 TAGGGTTTAAAATAAATTAAAT
*
35839094 TAGTGTTTAAAATAAATTAAAT
1 TAGGGTTTAAAATAAATTAAAT
35839116 TAGGGTTTA
1 TAGGGTTTA
35839125 TGGTTTATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.42
Consensus pattern (22 bp):
TAGGGTTTAAAATAAATTAAAT
Found at i:35839119 original size:109 final size:109
Alignment explanation
Indices: 35838994--35839643 Score: 466
Period size: 108 Copynumber: 6.0 Consensus size: 109
35838984 AACGATTTTT
* * * *
35838994 AAATAAATTAAGTTAGGGTTTTAAGTAAATTAGGGCTTAGGATTTATGGTTTTAAATAGATTAAG
1 AAATAAATTAAATTAGGGTTTTAAGTAAATTAGGGATTAGGATTTATGTTTTTAAATAGATTAAT
* *
35839059 TAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGTGTTTA
66 TAAATTAGGGTTTTAGGATTTTAAATAAATTAAGTTAGGGTTTA
* ** * * *
35839103 AAATAAATTAAATTAGGG-TTTATGGTTTATTA--AATTAGGGTTTATATTTTTTAAATAGATTA
1 AAATAAATTAAATTAGGGTTTTA-AGTAAATTAGGGATTAGGATTTAT-GTTTTTAAATAGATTA
* * * *
35839165 AGTAATTTAGGGTTTTAGGGTTTTAAAT-AATTAAGTCAGGGTTTA
64 ATTAAATTAGGGTTTTAGGATTTTAAATAAATTAAGTTAGGGTTTA
* * * *
35839210 AAATAATTTAAA-TAGCATTTCGGGTTT-A-TAAATTAGGGTTTA-TATTT-T-TTTGTT-AA-A
1 AAATAAATTAAATTAG------GGTTTTAAGTAAATTAGGGATTAGGATTTATGTTT-TTAAATA
* *
35839267 -ATTAATTAAATTAGGATTTTAGGATTTTAAATAAATTAATTTAGGGTTTA
59 GATTAATTAAATTAGGGTTTTAGGATTTTAAATAAATTAAGTTAGGGTTTA
** ** * * *** * *
35839317 AAATAAATTAAATTAGGGTTTTGGGTTTATTA--AATTAAGG-TTTATATTTTTTGGTTGAAATG
1 AAATAAATTAAATTAGGGTTTTAAGTAAATTAGGGATT-AGGATTTAT-GTTTTTAAAT-AGATT
* * * *
35839379 AATTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAATTAGGGCTTA
63 AATTAAATTAGGGTTTTAGGATTTTAAATAAATTAAGTTAGGGTTTA
* * * * *
35839426 AAATAAATTAAATTAGGGTTTTGTGTTTATTAAATTAGGG-TTTGTATTT-T-TTTTGTTAA-A-
1 AAATAAATTAAATTAGGG---T-T-TTAAGTAAATTAGGGATTAGGATTTATGTTTT-TAAATAG
*
35839486 ATTAATTAAATTAAGGG-TTTAGGATTTTAAATAAATTAGGTTAGGGTTTA
60 ATTAATTAAATT-AGGGTTTTAGGATTTTAAATAAATTAAGTTAGGGTTTA
* * ** * **
35839536 AAATAAATTAAATTAAGGTTTTGAGTTTATTA--AATTAGGGCTTATGTTTTTTAAATAGATTAA
1 AAATAAATTAAATTAGGGTTTTAAGTAAATTAGGGATTAGGATTTATG-TTTTTAAATAGATTAA
* * * *
35839599 ATAAATTAGGGTTTTAGGGTTTTAAATAAATTAATTTAGGATTTA
65 TTAAATTAGGGTTTTAGGATTTTAAATAAATTAAGTTAGGGTTTA
35839644 GGGTTAAAAT
Statistics
Matches: 422, Mismatches: 77, Indels: 85
0.72 0.13 0.15
Matches are distributed among these distances:
102 7 0.02
103 4 0.01
104 11 0.03
105 11 0.03
106 38 0.09
107 73 0.17
108 92 0.22
109 87 0.21
110 62 0.15
111 8 0.02
112 10 0.02
113 5 0.01
114 9 0.02
115 5 0.01
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.44
Consensus pattern (109 bp):
AAATAAATTAAATTAGGGTTTTAAGTAAATTAGGGATTAGGATTTATGTTTTTAAATAGATTAAT
TAAATTAGGGTTTTAGGATTTTAAATAAATTAAGTTAGGGTTTA
Found at i:35839137 original size:87 final size:86
Alignment explanation
Indices: 35838972--35839130 Score: 214
Period size: 87 Copynumber: 1.8 Consensus size: 86
35838962 AAAAATTATT
* * **
35838972 TAAATTAGGGTTAACGATTTTTAAATAAATTAAGTTAGGGTTTTAAGTAAATTAGGGCTTAGGAT
1 TAAATTAGGGTTAACGATTTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTA-GAATTAGGAT
35839037 TTATGGTTTTAAATAGATTAAG
65 TTATGGTTTTAAATAGATTAAG
* * * *
35839059 TAAATTAGGGTTCTAGGA-TTTTAAATAAATTAAGTTAGTGTTTAAAATAAATTA-AATTAGGGT
1 TAAATTAGGGTT-AACGATTTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAGAATTAGGAT
35839122 TTATGGTTT
65 TTATGGTTT
35839131 ATTAAATTAG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 15 0.24
87 45 0.71
88 3 0.05
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.42
Consensus pattern (86 bp):
TAAATTAGGGTTAACGATTTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAGAATTAGGATT
TATGGTTTTAAATAGATTAAG
Found at i:35839158 original size:21 final size:22
Alignment explanation
Indices: 35839109--35839158 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
35839099 TTTAAAATAA
*
35839109 ATTAAATTAGGGTTTATGGTTT
1 ATTAAATTAGGGTTTATGATTT
35839131 ATTAAATTAGGGTTTAT-ATTT
1 ATTAAATTAGGGTTTATGATTT
*
35839152 TTTAAAT
1 ATTAAAT
35839159 AGATTAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (22 bp):
ATTAAATTAGGGTTTATGATTT
Found at i:35839320 original size:22 final size:22
Alignment explanation
Indices: 35839284--35839337 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
35839274 AAATTAGGAT
* *
35839284 TTTAGGATTTTAAATAAATTAA
1 TTTAGGGTTTAAAATAAATTAA
35839306 TTTAGGGTTTAAAATAAATTAA
1 TTTAGGGTTTAAAATAAATTAA
*
35839328 ATTAGGGTTT
1 TTTAGGGTTT
35839338 TGGGTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (22 bp):
TTTAGGGTTTAAAATAAATTAA
Found at i:35839429 original size:22 final size:22
Alignment explanation
Indices: 35839395--35839443 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
35839385 ATTAGGGTTC
* *
35839395 TAGGGTTTTAAATAAATTAAAT
1 TAGGGCTTAAAATAAATTAAAT
35839417 TAGGGCTTAAAATAAATTAAAT
1 TAGGGCTTAAAATAAATTAAAT
35839439 TAGGG
1 TAGGG
35839444 TTTTGTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (22 bp):
TAGGGCTTAAAATAAATTAAAT
Found at i:35839523 original size:219 final size:215
Alignment explanation
Indices: 35839053--35839679 Score: 832
Period size: 219 Copynumber: 2.9 Consensus size: 215
35839043 TTTTAAATAG
* *
35839053 ATTAAGTAAATTAGGGTTCTAGGATTTTAAATAAATTAAGTTAGTGTTTAAAATAAATTAAATTA
1 ATTAATTAAATTAGGGTT-TAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTA
* *
35839118 GGGTTTAT-GGTTTATTAAATTAGGGTTTATATTTTTTAAATAGATTAAGTAATTTAGGGTTTTA
65 GGGTTT-TGGGTTTATTAAATTAGGGTTTATATTTTTTAAATAGATTAAATAAATTAGGGTTTTA
* * * ** * *
35839182 GGGTTTTAAAT-AATTAAGTCAGGGTTTAAAATAATTTAAA-TAGCATTTCGGGTTTA-TAAATT
129 GGGTTTTAAATAAATTAAATTAGGG-TTAAAATAAATTAAATTAGGGTTTTGTGTTTATTAAATT
35839244 AGGGTTTATATTTTTTTGTTAAA
193 AGGGTTTATATTTTTTTGTTAAA
* *
35839267 ATTAATTAAATTAGGATTTTAGGATTTTAAATAAATTAATTTAGGGTTTAAAATAAATTAAATTA
1 ATTAATTAAATTAGG-GTTTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTA
* *** * * * *
35839332 GGGTTTTGGGTTTATTAAATTAAGGTTTATATTTTTTGGTTGAAATGAATTAAATTAGGGTTCTA
65 GGGTTTTGGGTTTATTAAATTAGGGTTTATATTTTTTAAAT-AGATTAAATAAATTAGGGTTTTA
35839397 GGGTTTTAAATAAATTAAATTAGGGCTTAAAATAAATTAAATTAGGGTTTTGTGTTTATTAAATT
129 GGGTTTTAAATAAATTAAATTAGGG-TTAAAATAAATTAAATTAGGGTTTTGTGTTTATTAAATT
*
35839462 AGGGTTTGTATTTTTTTTGTTAAA
193 AGGGTTTATA-TTTTTTTGTTAAA
*
35839486 ATTAATTAAATTAAGGGTTTAGGATTTTAAATAAATTAGGTTAGGGTTTAAAATAAATTAAATTA
1 ATTAATTAAATT-AGGGTTTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTA
* * * *
35839551 AGGTTTTGAGTTTATTAAATTAGGGCTTATGTTTTTTAAATAGATTAAATAAATTAGGGTTTTAG
65 GGGTTTTGGGTTTATTAAATTAGGGTTTATATTTTTTAAATAGATTAAATAAATTAGGGTTTTAG
*
35839616 GGTTTTAAATAAATTAATTTAGGATTTAGGGTTAAAATTAATTAAATTAGGG-TTTGTGTTTATT
130 GGTTTTAAATAAATT-A---A--A-TTAGGGTTAAAATAAATTAAATTAGGGTTTTGTGTTTATT
35839680 TTTTTAACAA
Statistics
Matches: 360, Mismatches: 38, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
213 1 0.00
214 93 0.26
215 31 0.09
216 25 0.07
217 12 0.03
218 50 0.14
219 105 0.29
220 3 0.01
222 1 0.00
223 12 0.03
224 21 0.06
225 6 0.02
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (215 bp):
ATTAATTAAATTAGGGTTTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATAAATTAAATTAG
GGTTTTGGGTTTATTAAATTAGGGTTTATATTTTTTAAATAGATTAAATAAATTAGGGTTTTAGG
GTTTTAAATAAATTAAATTAGGGTTAAAATAAATTAAATTAGGGTTTTGTGTTTATTAAATTAGG
GTTTATATTTTTTTGTTAAA
Found at i:35839539 original size:22 final size:22
Alignment explanation
Indices: 35839504--35839545 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
35839494 AATTAAGGGT
*
35839504 TTAGGATTTTAAATAAATTAGG
1 TTAGGATTTAAAATAAATTAGG
*
35839526 TTAGGGTTTAAAATAAATTA
1 TTAGGATTTAAAATAAATTA
35839546 AATTAAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (22 bp):
TTAGGATTTAAAATAAATTAGG
Found at i:35839555 original size:22 final size:22
Alignment explanation
Indices: 35839514--35839556 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
35839504 TTAGGATTTT
** *
35839514 AAATAAATTAGGTTAGGGTTTA
1 AAATAAATTAAATTAAGGTTTA
35839536 AAATAAATTAAATTAAGGTTT
1 AAATAAATTAAATTAAGGTTT
35839557 TGAGTTTATT
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:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (22 bp):
AAATAAATTAAATTAAGGTTTA
Found at i:35839592 original size:52 final size:51
Alignment explanation
Indices: 35839426--35839600 Score: 138
Period size: 52 Copynumber: 3.3 Consensus size: 51
35839416 TTAGGGCTTA
* * *
35839426 AAATAAATTAAATTAGGGTTTTGTGTTTATTAAATTAGGGTTTGTATTTTTTTTGTT
1 AAATAAATTAAATTAAGGTTTTGAGTTTATTAAATTAGGG--T-TA--TGTTTT-TT
* * * * ** *
35839483 AAAATTAATTAAATTAAGGGTTTAGGATTTTAAATAAATTA-GGTTA-GGGTTTA
1 -AAATAAATTAAATTAA-GGTTT-TGAGTTT-ATTAAATTAGGGTTATGTTTTTT
35839536 AAATAAATTAAATTAAGGTTTTGAGTTTATTAAATTAGGGCTTATGTTTTTT
1 AAATAAATTAAATTAAGGTTTTGAGTTTATTAAATTAGGG-TTATGTTTTTT
*
35839588 AAATAGATTAAAT
1 AAATAAATTAAAT
35839601 AAATTAGGGT
Statistics
Matches: 93, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
49 8 0.09
50 7 0.08
51 8 0.09
52 31 0.33
53 1 0.01
54 2 0.02
57 2 0.02
58 15 0.16
59 5 0.05
60 6 0.06
61 8 0.09
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.46
Consensus pattern (51 bp):
AAATAAATTAAATTAAGGTTTTGAGTTTATTAAATTAGGGTTATGTTTTTT
Found at i:35839658 original size:28 final size:29
Alignment explanation
Indices: 35839596--35839666 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
35839586 TTAAATAGAT
* *
35839596 TAAA-TAAATTAGGGTTTTAGGGTTTTAAA
1 TAAATTAAATTA-GGATTTAGGGTTTAAAA
*
35839625 TAAATTAATTTAGGATTTAGGG-TTAAAA
1 TAAATTAAATTAGGATTTAGGGTTTAAAA
*
35839653 TTAATTAAATTAGG
1 TAAATTAAATTAGG
35839667 GTTTGTGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 17 0.47
29 13 0.36
30 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (29 bp):
TAAATTAAATTAGGATTTAGGGTTTAAAA
Found at i:35839936 original size:126 final size:126
Alignment explanation
Indices: 35839706--35840202 Score: 719
Period size: 126 Copynumber: 4.0 Consensus size: 126
35839696 TTATTTTTAC
* * * * *
35839706 CCTGCAAAAAA-AATTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACACTTCAAGTAGGA
1 CCTG-AAAAAATAATTTTGAGAAGACGTTTCTGAACAAAAAGTGTCAAAAACGCTTCAAGCAGGA
* * * * *
35839770 TGCACTGTCAGCAAAAATACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTT
65 TGCAATGTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAATAGTT
* *
35839832 CCTGAAAAAATAATTTTGAGAAGACGTTTTTGAACAAAAAGTGTCAAAAACGCTTCAAGTAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAAAAGTGTCAAAAACGCTTCAAGCAGGAT
* *
35839897 GCAATGTCAGCAAAATTTCTGAAAAGAGCTCCCACGTGGATGCTCTTTTTCTACAATAGTT
66 GCAATGTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAATAGTT
* **
35839958 CCTGAAAAAATAATTTTGAGAAGACGTTTTTGAACAAAAAGTGTCAAAAACGCTTCAAGCAATAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAAAAGTGTCAAAAACGCTTCAAGCAGGAT
* * * * *
35840023 GCAATGTCAGCAAAATTTTTGAAAAAAGCTCCCAAGTGGTCGTTCTTTTCCTACAATAGTT
66 GCAATGTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAATAGTT
* *
35840084 CCTGAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAAAAGTGTCAAAAACGCTTCAAGCAGGAT
* * * *
35840149 GCAATGTTAGCAAAATTTCT-AAAAAAACTCCCATGTGGATGCTCTTTTTCTACA
66 GCAATGTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACA
35840203 GTATTTCATG
Statistics
Matches: 335, Mismatches: 35, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
125 34 0.10
126 301 0.90
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (126 bp):
CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAAAAGTGTCAAAAACGCTTCAAGCAGGAT
GCAATGTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAATAGTT
Found at i:35843463 original size:21 final size:21
Alignment explanation
Indices: 35843437--35843481 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
35843427 GATTCCTCAT
35843437 TGGTTGCTCCGACGGGGGTTG
1 TGGTTGCTCCGACGGGGGTTG
* * * *
35843458 TGGTTGTTCTGGCGGGGTTTG
1 TGGTTGCTCCGACGGGGGTTG
35843479 TGG
1 TGG
35843482 CTACTCCGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.13, G:0.49, T:0.36
Consensus pattern (21 bp):
TGGTTGCTCCGACGGGGGTTG
Found at i:35844373 original size:7 final size:7
Alignment explanation
Indices: 35844363--35844387 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35844353 TTATATACAT
35844363 AATACTA
1 AATACTA
35844370 AATACTA
1 AATACTA
35844377 AATACTA
1 AATACTA
35844384 AATA
1 AATA
35844388 TGAAACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:35845348 original size:53 final size:53
Alignment explanation
Indices: 35845274--35845383 Score: 177
Period size: 53 Copynumber: 2.1 Consensus size: 53
35845264 TATAAAATAC
*
35845274 AAATTAATTAAAATTAGATAAATG-AAAAAATATTAAATAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAA-AATATTCAAAAATTA
**
35845327 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAAAATATTCAAAGTTTA
1 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAAAATATTCAAAAATTA
35845380 AAAT
1 AAAT
35845384 AAATCGTTGC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
53 40 0.75
54 13 0.25
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (53 bp):
AAATTAATTAAAATTACATAAATGAAAAAAATATTAAAAATATTCAAAAATTA
Found at i:35847524 original size:25 final size:25
Alignment explanation
Indices: 35847505--35847563 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
35847495 CAGCTTGTAT
35847505 GAGCTTACCGTTATTTAGCTCGGAG
1 GAGCTTACCGTTATTTAGCTCGGAG
* *
35847530 GAGCTTATCGTTATTCAGCTCGGAG
1 GAGCTTACCGTTATTTAGCTCGGAG
35847555 GAGCTTACC
1 GAGCTTACC
35847564 ATTTATAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGTTATTTAGCTCGGAG
Found at i:35855065 original size:23 final size:24
Alignment explanation
Indices: 35855017--35855067 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
35855007 TTTAATGTTT
* * *
35855017 AATTTGATATTTAAATTTTTTTAA
1 AATTTAATATTTAAACTATTTTAA
35855041 AATTTAATATTT-AACTATTTTAA
1 AATTTAATATTTAAACTATTTTAA
35855064 AATT
1 AATT
35855068 GATATCTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
AATTTAATATTTAAACTATTTTAA
Found at i:35855179 original size:12 final size:12
Alignment explanation
Indices: 35855159--35855200 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
35855149 ATAATATTAT
*
35855159 TTAATTTAAATA
1 TTAAATTAAATA
35855171 TTAAATTAAATA
1 TTAAATTAAATA
35855183 TTAAAATTAAAT-
1 TT-AAATTAAATA
35855195 TTAAAT
1 TTAAAT
35855201 ACCGTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 4 0.14
12 15 0.54
13 9 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TTAAATTAAATA
Found at i:35855198 original size:19 final size:19
Alignment explanation
Indices: 35855164--35855201 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
35855154 ATTATTTAAT
35855164 TTAAATATTAAATTAAATA
1 TTAAATATTAAATTAAATA
35855183 TTAAA-ATTAAATTTAAATA
1 TTAAATATTAAA-TTAAATA
35855202 CCGTATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAATATTAAATTAAATA
Found at i:35856004 original size:13 final size:13
Alignment explanation
Indices: 35855970--35856005 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
35855960 TGATCGACTG
35855970 ATTCTATTAATTA
1 ATTCTATTAATTA
35855983 ATT-TGATTAATTA
1 ATTCT-ATTAATTA
35855996 ATTCTATTAA
1 ATTCTATTAA
35856006 CTGTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 1 0.05
13 19 0.90
14 1 0.05
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (13 bp):
ATTCTATTAATTA
Found at i:35856447 original size:40 final size:41
Alignment explanation
Indices: 35856403--35856488 Score: 165
Period size: 40 Copynumber: 2.1 Consensus size: 41
35856393 TTGACATAAG
35856403 TAAATTGAAAATAAATTAAGAGTACATAAATATTGAAGG-A
1 TAAATTGAAAATAAATTAAGAGTACATAAATATTGAAGGAA
35856443 TAAATTGAAAATAAATTAAGAGTACATAAATATTGAAGGAA
1 TAAATTGAAAATAAATTAAGAGTACATAAATATTGAAGGAA
35856484 TAAAT
1 TAAAT
35856489 AAATATCTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 39 0.87
41 6 0.13
ACGTcount: A:0.56, C:0.02, G:0.14, T:0.28
Consensus pattern (41 bp):
TAAATTGAAAATAAATTAAGAGTACATAAATATTGAAGGAA
Found at i:35863443 original size:48 final size:48
Alignment explanation
Indices: 35863391--35863482 Score: 184
Period size: 48 Copynumber: 1.9 Consensus size: 48
35863381 TATAAACTTC
35863391 GATAGTTTACTGGACCATTCCTGTAACAATCCGTTTTTAGTGAAATCG
1 GATAGTTTACTGGACCATTCCTGTAACAATCCGTTTTTAGTGAAATCG
35863439 GATAGTTTACTGGACCATTCCTGTAACAATCCGTTTTTAGTGAA
1 GATAGTTTACTGGACCATTCCTGTAACAATCCGTTTTTAGTGAA
35863483 CTAGGAACAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (48 bp):
GATAGTTTACTGGACCATTCCTGTAACAATCCGTTTTTAGTGAAATCG
Found at i:35867099 original size:18 final size:16
Alignment explanation
Indices: 35867075--35867116 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
35867065 TTTTATATCA
35867075 TATTATATAATTATT-T
1 TATTATAT-ATTATTGT
35867091 TATTATATATTATTGT
1 TATTATATATTATTGT
35867107 TATTATATAT
1 TATTATATAT
35867117 CACTTTTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTATATATTATTGT
Found at i:35867186 original size:16 final size:14
Alignment explanation
Indices: 35867153--35867199 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 14
35867143 ACATTCTTAT
35867153 TTATATATTATT-A
1 TTATATATTATTAA
*
35867166 TTATATTTTACTTGAA
1 TTATATATTA-TT-AA
35867182 TTATATATTATTAA
1 TTATATATTATTAA
35867196 TTAT
1 TTAT
35867200 TTATATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 9 0.31
14 8 0.28
15 2 0.07
16 10 0.34
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (14 bp):
TTATATATTATTAA
Found at i:35867204 original size:16 final size:16
Alignment explanation
Indices: 35867149--35867265 Score: 57
Period size: 18 Copynumber: 6.9 Consensus size: 16
35867139 TTTCACATTC
35867149 TTATTTATA-TATT-A
1 TTATTTATATTATTAA
*
35867163 TTA-TTATATT-TTAC
1 TTATTTATATTATTAA
35867177 TTGAATTATATATTATTAA
1 TT--ATT-TATATTATTAA
*
35867196 TTATTTATATTTATATACT
1 TTATTTATA-TTAT-TA-A
35867215 TTCATATTATA-TATTATAA
1 TT-AT-TTATATTA-T-TAA
*
35867234 TTATTTTATATTATGTCA
1 TTA-TTTATATTAT-TAA
35867252 TT-TTTATATTATTA
1 TTATTTATATTATTA
35867266 TGTTTTTTAT
Statistics
Matches: 81, Mismatches: 7, Indels: 29
0.69 0.06 0.25
Matches are distributed among these distances:
13 7 0.09
14 6 0.07
15 1 0.01
16 15 0.19
17 8 0.10
18 19 0.23
19 14 0.17
20 6 0.07
21 5 0.06
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (16 bp):
TTATTTATATTATTAA
Found at i:35869351 original size:25 final size:24
Alignment explanation
Indices: 35869313--35869365 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
35869303 AAGTTCAAGC
*
35869313 GAGCCATATTAGGAAACTCATAAA
1 GAGCCATATCAGGAAACTCATAAA
**
35869337 GAGCCTATATCAGGACGCTCATAAA
1 GAGCC-ATATCAGGAAACTCATAAA
35869362 GAGC
1 GAGC
35869366 TGCGGTATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGGAAACTCATAAA
Found at i:35872565 original size:16 final size:16
Alignment explanation
Indices: 35872541--35872587 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
35872531 AGCTTGCATC
*
35872541 ATTTTTATTTTTTAAA
1 ATTTATATTTTTTAAA
*
35872557 ATTTATATTTTTTATA
1 ATTTATATTTTTTAAA
*
35872573 TTTTATATTTTTTAA
1 ATTTATATTTTTTAA
35872588 TTTTTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTATATTTTTTAAA
Found at i:35872572 original size:9 final size:9
Alignment explanation
Indices: 35872558--35872593 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
35872548 TTTTTTAAAA
35872558 TTTATATTT
1 TTTATATTT
35872567 TTTATA--T
1 TTTATATTT
35872574 TTTATATTT
1 TTTATATTT
35872583 TTTA-ATTT
1 TTTATATTT
35872591 TTT
1 TTT
35872594 TTAAAAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.28
8 7 0.28
9 11 0.44
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTATATTT
Found at i:35872591 original size:23 final size:23
Alignment explanation
Indices: 35872541--35872632 Score: 62
Period size: 23 Copynumber: 4.0 Consensus size: 23
35872531 AGCTTGCATC
* * *
35872541 ATTTTTATTTTTTAAAATTTATA
1 ATTTTTATATTTTAAATTTTTTA
* *
35872564 TTTTTTATATTTTATATTTTTTA
1 ATTTTTATATTTTAAATTTTTTA
**
35872587 ATTTTT-T-TTAAAAATGTTTTTGA
1 ATTTTTATATTTTAAAT-TTTTT-A
* *
35872610 ATTATTTATATATTATATTTTTT
1 ATT-TTTATATTTTAAATTTTTT
35872633 TACATATTTA
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
21 5 0.10
22 6 0.12
23 27 0.53
24 3 0.06
25 6 0.12
26 4 0.08
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
ATTTTTATATTTTAAATTTTTTA
Found at i:35872788 original size:19 final size:19
Alignment explanation
Indices: 35872766--35872810 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
35872756 AAAAAATTCA
*
35872766 ATTTTTATATAATATTTTG
1 ATTTTTATAGAATATTTTG
* * *
35872785 ATTTTTTTAGAATTTTTTT
1 ATTTTTATAGAATATTTTG
35872804 ATTTTTA
1 ATTTTTA
35872811 ACATTTTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (19 bp):
ATTTTTATAGAATATTTTG
Found at i:35879676 original size:88 final size:88
Alignment explanation
Indices: 35879561--35879729 Score: 338
Period size: 88 Copynumber: 1.9 Consensus size: 88
35879551 ATAGCAAAGA
35879561 GCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGT
1 GCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGT
35879626 ACTAAGACATCAGAAATGCTATT
66 ACTAAGACATCAGAAATGCTATT
35879649 GCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGT
1 GCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGT
35879714 ACTAAGACATCAGAAA
66 ACTAAGACATCAGAAA
35879730 CGCTGATATT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (88 bp):
GCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGT
ACTAAGACATCAGAAATGCTATT
Found at i:35880593 original size:88 final size:88
Alignment explanation
Indices: 35880478--35880646 Score: 338
Period size: 88 Copynumber: 1.9 Consensus size: 88
35880468 ATAGCAAAGA
35880478 GCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGT
1 GCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGT
35880543 ACTAAGACATCAGAAATGCTATT
66 ACTAAGACATCAGAAATGCTATT
35880566 GCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGT
1 GCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGT
35880631 ACTAAGACATCAGAAA
66 ACTAAGACATCAGAAA
35880647 CGCTGATATT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.31
Consensus pattern (88 bp):
GCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGT
ACTAAGACATCAGAAATGCTATT
Found at i:35880983 original size:917 final size:917
Alignment explanation
Indices: 35879209--35881042 Score: 3668
Period size: 917 Copynumber: 2.0 Consensus size: 917
35879199 ATGAATACAT
35879209 GATATCATTCAGTTTCAATTGTGATTAAATAATTCTATACGACTGTAAACAGAAAAACAAAATGC
1 GATATCATTCAGTTTCAATTGTGATTAAATAATTCTATACGACTGTAAACAGAAAAACAAAATGC
35879274 TATGGTTGGTAAAGGGAACAAATATAAAGGATGATAATTAACTAGGGGCAAATCCTTTGTAAAAC
66 TATGGTTGGTAAAGGGAACAAATATAAAGGATGATAATTAACTAGGGGCAAATCCTTTGTAAAAC
35879339 AAACTCATTTTCCTTCCAGTACCGTGTCTAACACTTGAGTCCCACACATATCAGTACACAGAAAA
131 AAACTCATTTTCCTTCCAGTACCGTGTCTAACACTTGAGTCCCACACATATCAGTACACAGAAAA
35879404 AACTTAGAACAAATTCAATATATCCATGTCAGACATCCGTATCCACCACTTACATCCGAGGCCAA
196 AACTTAGAACAAATTCAATATATCCATGTCAGACATCCGTATCCACCACTTACATCCGAGGCCAA
35879469 GTAAATAGGACAAAATGGTTCCTCAACAAGAACATGTTACCTTCCTACTTTATCCATACTTTTAT
261 GTAAATAGGACAAAATGGTTCCTCAACAAGAACATGTTACCTTCCTACTTTATCCATACTTTTAT
35879534 TCATCCAAGATGCTGCAATAGCAAAGAGCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGT
326 TCATCCAAGATGCTGCAATAGCAAAGAGCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGT
35879599 TGGATCTTTAATTTTCATAGAGCTGGTACTAAGACATCAGAAATGCTATTGCAACTATGAAAGTA
391 TGGATCTTTAATTTTCATAGAGCTGGTACTAAGACATCAGAAATGCTATTGCAACTATGAAAGTA
35879664 AGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGTACTAAGACATCAGAA
456 AGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGTACTAAGACATCAGAA
35879729 ACGCTGATATTTGCAACTTCCTATAGAAGATTTATCAATATTGATAAAGCAATTTAGCTTTGCAA
521 ACGCTGATATTTGCAACTTCCTATAGAAGATTTATCAATATTGATAAAGCAATTTAGCTTTGCAA
35879794 TTGAATGCTAAAGAATCTTGACTCGGTACTACCAAGTAACAAATGCAAAAAGCACAATATTTTAG
586 TTGAATGCTAAAGAATCTTGACTCGGTACTACCAAGTAACAAATGCAAAAAGCACAATATTTTAG
35879859 GACTACCAAGATTCACGGATTCTTGCAAAAGACATTAATAAAATCTTAATCAATTACCTCTCCAA
651 GACTACCAAGATTCACGGATTCTTGCAAAAGACATTAATAAAATCTTAATCAATTACCTCTCCAA
35879924 TGATGTGACTTCTGATTCAAGCTGACTAGCTCTTTCCTTTGCTTGATCAAAAGGCATTGACAACC
716 TGATGTGACTTCTGATTCAAGCTGACTAGCTCTTTCCTTTGCTTGATCAAAAGGCATTGACAACC
35879989 CCAACTTTCTCTCGCTATCTTGAAGCCGTTGCCTTAGTTCCTTGTCCTGAAACCCAGATTTTCAA
781 CCAACTTTCTCTCGCTATCTTGAAGCCGTTGCCTTAGTTCCTTGTCCTGAAACCCAGATTTTCAA
35880054 ACAAACTCAAGAAAGCCTTTTTTTTTTTTGGAAGAAACTCAAGAAAGCTAATTCGATGTACTTAT
846 ACAAACTCAAGAAAGCCTTTTTTTTTTTTGGAAGAAACTCAAGAAAGCTAATTCGATGTACTTAT
35880119 TCATGCA
911 TCATGCA
35880126 GATATCATTCAGTTTCAATTGTGATTAAATAATTCTATACGACTGTAAACAGAAAAACAAAATGC
1 GATATCATTCAGTTTCAATTGTGATTAAATAATTCTATACGACTGTAAACAGAAAAACAAAATGC
35880191 TATGGTTGGTAAAGGGAACAAATATAAAGGATGATAATTAACTAGGGGCAAATCCTTTGTAAAAC
66 TATGGTTGGTAAAGGGAACAAATATAAAGGATGATAATTAACTAGGGGCAAATCCTTTGTAAAAC
35880256 AAACTCATTTTCCTTCCAGTACCGTGTCTAACACTTGAGTCCCACACATATCAGTACACAGAAAA
131 AAACTCATTTTCCTTCCAGTACCGTGTCTAACACTTGAGTCCCACACATATCAGTACACAGAAAA
35880321 AACTTAGAACAAATTCAATATATCCATGTCAGACATCCGTATCCACCACTTACATCCGAGGCCAA
196 AACTTAGAACAAATTCAATATATCCATGTCAGACATCCGTATCCACCACTTACATCCGAGGCCAA
35880386 GTAAATAGGACAAAATGGTTCCTCAACAAGAACATGTTACCTTCCTACTTTATCCATACTTTTAT
261 GTAAATAGGACAAAATGGTTCCTCAACAAGAACATGTTACCTTCCTACTTTATCCATACTTTTAT
35880451 TCATCCAAGATGCTGCAATAGCAAAGAGCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGT
326 TCATCCAAGATGCTGCAATAGCAAAGAGCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGT
35880516 TGGATCTTTAATTTTCATAGAGCTGGTACTAAGACATCAGAAATGCTATTGCAACTATGAAAGTA
391 TGGATCTTTAATTTTCATAGAGCTGGTACTAAGACATCAGAAATGCTATTGCAACTATGAAAGTA
35880581 AGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGTACTAAGACATCAGAA
456 AGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGTACTAAGACATCAGAA
35880646 ACGCTGATATTTGCAACTTCCTATAGAAGATTTATCAATATTGATAAAGCAATTTAGCTTTGCAA
521 ACGCTGATATTTGCAACTTCCTATAGAAGATTTATCAATATTGATAAAGCAATTTAGCTTTGCAA
35880711 TTGAATGCTAAAGAATCTTGACTCGGTACTACCAAGTAACAAATGCAAAAAGCACAATATTTTAG
586 TTGAATGCTAAAGAATCTTGACTCGGTACTACCAAGTAACAAATGCAAAAAGCACAATATTTTAG
35880776 GACTACCAAGATTCACGGATTCTTGCAAAAGACATTAATAAAATCTTAATCAATTACCTCTCCAA
651 GACTACCAAGATTCACGGATTCTTGCAAAAGACATTAATAAAATCTTAATCAATTACCTCTCCAA
35880841 TGATGTGACTTCTGATTCAAGCTGACTAGCTCTTTCCTTTGCTTGATCAAAAGGCATTGACAACC
716 TGATGTGACTTCTGATTCAAGCTGACTAGCTCTTTCCTTTGCTTGATCAAAAGGCATTGACAACC
35880906 CCAACTTTCTCTCGCTATCTTGAAGCCGTTGCCTTAGTTCCTTGTCCTGAAACCCAGATTTTCAA
781 CCAACTTTCTCTCGCTATCTTGAAGCCGTTGCCTTAGTTCCTTGTCCTGAAACCCAGATTTTCAA
35880971 ACAAACTCAAGAAAGCCTTTTTTTTTTTTGGAAGAAACTCAAGAAAGCTAATTCGATGTACTTAT
846 ACAAACTCAAGAAAGCCTTTTTTTTTTTTGGAAGAAACTCAAGAAAGCTAATTCGATGTACTTAT
35881036 TCATGCA
911 TCATGCA
35881043 ACAGGAATAA
Statistics
Matches: 917, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
917 917 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (917 bp):
GATATCATTCAGTTTCAATTGTGATTAAATAATTCTATACGACTGTAAACAGAAAAACAAAATGC
TATGGTTGGTAAAGGGAACAAATATAAAGGATGATAATTAACTAGGGGCAAATCCTTTGTAAAAC
AAACTCATTTTCCTTCCAGTACCGTGTCTAACACTTGAGTCCCACACATATCAGTACACAGAAAA
AACTTAGAACAAATTCAATATATCCATGTCAGACATCCGTATCCACCACTTACATCCGAGGCCAA
GTAAATAGGACAAAATGGTTCCTCAACAAGAACATGTTACCTTCCTACTTTATCCATACTTTTAT
TCATCCAAGATGCTGCAATAGCAAAGAGCAACTATGAAAGTAAGATACTTCAAAGAGTTATAAGT
TGGATCTTTAATTTTCATAGAGCTGGTACTAAGACATCAGAAATGCTATTGCAACTATGAAAGTA
AGATACTTCAAAGAGTTATAAGTTGGATCTTTAATTTTCATAGAGCTGGTACTAAGACATCAGAA
ACGCTGATATTTGCAACTTCCTATAGAAGATTTATCAATATTGATAAAGCAATTTAGCTTTGCAA
TTGAATGCTAAAGAATCTTGACTCGGTACTACCAAGTAACAAATGCAAAAAGCACAATATTTTAG
GACTACCAAGATTCACGGATTCTTGCAAAAGACATTAATAAAATCTTAATCAATTACCTCTCCAA
TGATGTGACTTCTGATTCAAGCTGACTAGCTCTTTCCTTTGCTTGATCAAAAGGCATTGACAACC
CCAACTTTCTCTCGCTATCTTGAAGCCGTTGCCTTAGTTCCTTGTCCTGAAACCCAGATTTTCAA
ACAAACTCAAGAAAGCCTTTTTTTTTTTTGGAAGAAACTCAAGAAAGCTAATTCGATGTACTTAT
TCATGCA
Found at i:35890999 original size:3 final size:3
Alignment explanation
Indices: 35890991--35891027 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
35890981 TACTGAAATG
35890991 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
35891028 AGTTACATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:35892322 original size:31 final size:30
Alignment explanation
Indices: 35892284--35892381 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 30
35892274 AATTAAGGTA
35892284 AATAATAATATTACAGATAAATTATTTTTAT
1 AATAATAATATTA-AGATAAATTATTTTTAT
* * * *
35892315 AATAATAATATTGATGATATATTA-ATTCAT
1 AATAATAATATT-AAGATAAATTATTTTTAT
* *
35892345 AATAAATGATATTATAAATAAATTATTTTTTAT
1 AAT-AATAATATTA-AGATAAATTA-TTTTTAT
35892378 AATA
1 AATA
35892382 GTATTGATGA
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
30 8 0.15
31 35 0.67
32 2 0.04
33 7 0.13
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (30 bp):
AATAATAATATTAAGATAAATTATTTTTAT
Found at i:35892491 original size:17 final size:17
Alignment explanation
Indices: 35892466--35892498 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35892456 TTATAATTTC
*
35892466 TTATTATAGTATATTAT
1 TTATGATAGTATATTAT
35892483 TTATGATAGTATATTA
1 TTATGATAGTATATTA
35892499 ATTAATGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (17 bp):
TTATGATAGTATATTAT
Found at i:35892736 original size:26 final size:24
Alignment explanation
Indices: 35892706--35892755 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
35892696 TACTTTAGGG
*
35892706 TTAGGGTTTAGATTTTTGTTAAGGTT
1 TTAGGG-TTAGAGTTTTG-TAAGGTT
*
35892732 TTAGGGTTAGGGTTTTGTAAGGTT
1 TTAGGGTTAGAGTTTTGTAAGGTT
35892756 AAGGTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 9 0.41
26 6 0.27
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (24 bp):
TTAGGGTTAGAGTTTTGTAAGGTT
Found at i:35892761 original size:16 final size:15
Alignment explanation
Indices: 35892723--35892770 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 15
35892713 TTAGATTTTT
*
35892723 GTTAAGG-TTTTAGG
1 GTTAAGGTTTTTAAG
*
35892737 GTTAGGGTTTTGTAAG
1 GTTAAGGTTTT-TAAG
*
35892753 GTTAAGGTTTTTAGG
1 GTTAAGGTTTTTAAG
35892768 GTT
1 GTT
35892771 TATGAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 6 0.21
15 9 0.32
16 13 0.46
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GTTAAGGTTTTTAAG
Found at i:35895874 original size:17 final size:17
Alignment explanation
Indices: 35895830--35895875 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
35895820 AGTGTTTAAT
35895830 ATAAATAAATATACATAA
1 ATAAATAAAT-TACATAA
* * *
35895848 ATAAACAAATTATATAC
1 ATAAATAAATTACATAA
35895865 ATAAATAAATT
1 ATAAATAAATT
35895876 TAATAGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAATAAATTACATAA
Found at i:35896333 original size:28 final size:28
Alignment explanation
Indices: 35896301--35896354 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
35896291 AACAATATGA
*
35896301 AGGACCAAAATACAACACGCGCAAACCT
1 AGGACCAAAACACAACACGCGCAAACCT
*
35896329 AGGACCAAAACACAACACGTGCAAAC
1 AGGACCAAAACACAACACGCGCAAAC
35896355 TTAAGAGGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.48, C:0.31, G:0.15, T:0.06
Consensus pattern (28 bp):
AGGACCAAAACACAACACGCGCAAACCT
Found at i:35897358 original size:33 final size:29
Alignment explanation
Indices: 35897280--35897358 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 29
35897270 GGGCCATCTA
*
35897280 GGTTGTTTTAGGAA-TGGGCTGGGATTTG
1 GGTTGTTTTAGTAATTGGGCTGGGATTTG
*
35897308 GGTT-ATTTAGTAATTGGGCTGGGTTTATTTG
1 GGTTGTTTTAGTAATTGGGCTGGG---ATTTG
35897339 GGTTGTTTTATGTAATTGGG
1 GGTTGTTTTA-GTAATTGGG
35897359 TCATGGACTG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 7 0.17
28 13 0.31
31 9 0.21
32 4 0.10
33 9 0.21
ACGTcount: A:0.15, C:0.03, G:0.37, T:0.46
Consensus pattern (29 bp):
GGTTGTTTTAGTAATTGGGCTGGGATTTG
Found at i:35899350 original size:53 final size:51
Alignment explanation
Indices: 35899238--35899357 Score: 134
Period size: 53 Copynumber: 2.3 Consensus size: 51
35899228 TTATTAAAAA
*
35899238 ATAATATTATTTTAATAGTTTAATATTAAATTTAATTTAATATTCATCTAC
1 ATAATATTATTTTAATAGTTTAATATTAAATTTAATATAATATTCATCTAC
** * * **
35899289 ATTCTATTATTTTAATAAGATTTAATATTTAA-TTAATATAATATTTATCTTG
1 ATAATATTATTTTAAT-AG-TTTAATATTAAATTTAATATAATATTCATCTAC
*
35899341 ATAAATATTATATTAAT
1 AT-AATATTATTTTAAT
35899358 TAAATATTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
51 14 0.25
52 20 0.36
53 22 0.39
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.52
Consensus pattern (51 bp):
ATAATATTATTTTAATAGTTTAATATTAAATTTAATATAATATTCATCTAC
Found at i:35902039 original size:40 final size:40
Alignment explanation
Indices: 35901984--35902164 Score: 184
Period size: 40 Copynumber: 4.5 Consensus size: 40
35901974 TGTTATACTC
* * *
35901984 TCTGTTTGGCGTGTTTCGGTTGGATCAGCTTTTATGAGTT
1 TCTGTTTGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCT
* **
35902024 TCTGTCTGGTGTGTTTCAATTGGATCAGCTCTTATGAGCT
1 TCTGTTTGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCT
** * * * * *
35902064 TCTGTTTGGCATGTTTTGATTGAATCAACTATTATGAGCT
1 TCTGTTTGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCT
* * * * * *
35902104 TCTATTTGATGTATTTTGGTTTGACCAGCTCTTATGAGCT
1 TCTGTTTGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCT
35902144 TCTGTTTGGTGTG-TTCGGTTG
1 TCTGTTTGGTGTGTTTCGGTTG
35902165 ATCTGATGAT
Statistics
Matches: 111, Mismatches: 30, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
39 6 0.05
40 105 0.95
ACGTcount: A:0.14, C:0.14, G:0.25, T:0.46
Consensus pattern (40 bp):
TCTGTTTGGTGTGTTTCGGTTGGATCAGCTCTTATGAGCT
Found at i:35906878 original size:13 final size:13
Alignment explanation
Indices: 35906860--35906884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35906850 AACGAAGTAG
35906860 GACACGACCGTGC
1 GACACGACCGTGC
35906873 GACACGACCGTG
1 GACACGACCGTG
35906885 TGCACCAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.36, G:0.32, T:0.08
Consensus pattern (13 bp):
GACACGACCGTGC
Found at i:35911486 original size:17 final size:17
Alignment explanation
Indices: 35911464--35911496 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
35911454 TAACGATTCA
35911464 AAAATGTAAAGAGCATT
1 AAAATGTAAAGAGCATT
35911481 AAAATGTAAAGAGCAT
1 AAAATGTAAAGAGCAT
35911497 CAAACGATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.18, T:0.21
Consensus pattern (17 bp):
AAAATGTAAAGAGCATT
Found at i:35924563 original size:44 final size:44
Alignment explanation
Indices: 35924497--35924584 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
35924487 AAGGTAAAAA
*
35924497 AGGATGGTCTAACAATTTGAGTATTTCCATCTCGGTCCTAGCTC
1 AGGATGGTCTAACAATTCGAGTATTTCCATCTCGGTCCTAGCTC
*
35924541 AGGATGGTCTAACAATTCGAGTATTTCCATCTCGGTCCTCGCTC
1 AGGATGGTCTAACAATTCGAGTATTTCCATCTCGGTCCTAGCTC
35924585 TCCCTTCTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (44 bp):
AGGATGGTCTAACAATTCGAGTATTTCCATCTCGGTCCTAGCTC
Found at i:35925780 original size:22 final size:21
Alignment explanation
Indices: 35925747--35925788 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
35925737 AATATGCCAT
*
35925747 TTTATTTAATGCTTGTATAAC
1 TTTACTTAATGCTTGTATAAC
*
35925768 TTTACTTACATGCTTTTATAA
1 TTTACTTA-ATGCTTGTATAA
35925789 TTTCAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (21 bp):
TTTACTTAATGCTTGTATAAC
Found at i:35927949 original size:29 final size:28
Alignment explanation
Indices: 35927877--35927949 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
35927867 AAATTAAAAT
35927877 TTCATGTATAAAGTTACACAAAATCAAAG
1 TTCATGTATAAA-TTACACAAAATCAAAG
*
35927906 TTCATATATACAATTACACATTAAATCATAA-
1 TTCATGTATA-AATTACACA--AAATCA-AAG
35927937 TTCATGTA-AAATT
1 TTCATGTATAAATT
35927950 TTAAGATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 20 0.53
30 3 0.08
31 13 0.34
32 2 0.05
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (28 bp):
TTCATGTATAAATTACACAAAATCAAAG
Found at i:35937722 original size:61 final size:61
Alignment explanation
Indices: 35937627--35937745 Score: 220
Period size: 61 Copynumber: 2.0 Consensus size: 61
35937617 AAAAAGTGCA
* *
35937627 TATCAATCAATCAGAATGTATTAGAATCAAACTAACAAAGCAAATCTAATAGCACAATAAG
1 TATCAATCAATCAGAATGTATGAGAATCAAACTAACAAAGCAAACCTAATAGCACAATAAG
35937688 TATCAATCAATCAGAATGTATGAGAATCAAACTAACAAAGCAAACCTAATAGCACAAT
1 TATCAATCAATCAGAATGTATGAGAATCAAACTAACAAAGCAAACCTAATAGCACAAT
35937746 GAGTCCAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.50, C:0.18, G:0.10, T:0.22
Consensus pattern (61 bp):
TATCAATCAATCAGAATGTATGAGAATCAAACTAACAAAGCAAACCTAATAGCACAATAAG
Found at i:35937775 original size:61 final size:60
Alignment explanation
Indices: 35937634--35937759 Score: 148
Period size: 61 Copynumber: 2.1 Consensus size: 60
35937624 GCATATCAAT
** * * *
35937634 CAATCAGAATGTATTAGAATCAAACTAACAAAGCAAATCTAATAGCACAATAAGTATCAA
1 CAATCAGAACATATAAGAATCAAACTAACAAAGCAAACCTAATAGCACAATAAGTACCAA
** * *
35937694 TCAATCAGAATGTATGAGAATCAAACTAACAAAGCAAACCTAATAGCACAATGAGT-CCAA
1 -CAATCAGAACATATAAGAATCAAACTAACAAAGCAAACCTAATAGCACAATAAGTACCAA
35937754 -AATCAG
1 CAATCAG
35937760 CTAAACATCA
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
58 6 0.10
60 3 0.05
61 52 0.85
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.20
Consensus pattern (60 bp):
CAATCAGAACATATAAGAATCAAACTAACAAAGCAAACCTAATAGCACAATAAGTACCAA
Found at i:35938153 original size:91 final size:88
Alignment explanation
Indices: 35938000--35938206 Score: 238
Period size: 91 Copynumber: 2.3 Consensus size: 88
35937990 AGTTTTAACA
* * *
35938000 GCAAACACTGATGGTTTATCCACAAATTATTGGCAGCTTTTATCTGCAAACCTATTGTGCATTTA
1 GCAAACACTG-TGGTTTATCCACAAATTATTGGCAGCTATTATCTGCAAACCCATTGTGCATTCA
* *
35938065 CAACCACTGGCT-GTGTATTAACCT
65 CAACCACTAG-TAGCGTATTAACCT
* * * *
35938089 GCAAACACTAGTGGTTTATCCACAATTTTTATTTGTAGCTATTATTTGCAAACCCATTGTGCATT
1 GCAAACACT-GTGGTTTATCCACAA--ATTATTGGCAGCTATTATCTGCAAACCCATTGTGCATT
*
35938154 CACAACTACTAGTAGCGTATTAACCT
63 CACAACCACTAGTAGCGTATTAACCT
* *
35938180 GC-AACACTTGTGGTTCAACCACAAATT
1 GCAAACAC-TGTGGTTTATCCACAAATT
35938207 GGAGTGTCCG
Statistics
Matches: 100, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
88 2 0.02
89 23 0.23
90 20 0.20
91 55 0.55
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (88 bp):
GCAAACACTGTGGTTTATCCACAAATTATTGGCAGCTATTATCTGCAAACCCATTGTGCATTCAC
AACCACTAGTAGCGTATTAACCT
Found at i:35950741 original size:16 final size:15
Alignment explanation
Indices: 35950716--35950745 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
35950706 TTCAAATTAC
35950716 AAAAATAATAATATT
1 AAAAATAATAATATT
35950731 AAAAATAAATAATAT
1 AAAAAT-AATAATAT
35950746 CAACAAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATATT
Found at i:35951610 original size:20 final size:18
Alignment explanation
Indices: 35951553--35951610 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 18
35951543 TGGTAGATAA
35951553 TAGAAATATTGATAAAGTCT
1 TAGAAATATTGATAAA-T-T
* * *
35951573 TAGATATTTTGGTAAATT
1 TAGAAATATTGATAAATT
35951591 TAAAGAAATATTGATAAATT
1 T--AGAAATATTGATAAATT
35951611 CATATAAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 2 0.07
19 1 0.03
20 27 0.90
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.40
Consensus pattern (18 bp):
TAGAAATATTGATAAATT
Found at i:35951624 original size:40 final size:41
Alignment explanation
Indices: 35951554--35951638 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 41
35951544 GGTAGATAAT
* * *
35951554 AGAAATATTGATAAAGTCTTAGATATTTTGGTAAAT-TTAA
1 AGAAATATTGATAAAGTCATAGAAACTTTGGTAAATATTAA
* *
35951594 AGAAATATTGATAAATTCATATAAACTTTGGTAAATAGTTAA
1 AGAAATATTGATAAAGTCATAGAAACTTTGGTAAATA-TTAA
35951636 AGA
1 AGA
35951639 TTTATGTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 31 0.82
42 7 0.18
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.36
Consensus pattern (41 bp):
AGAAATATTGATAAAGTCATAGAAACTTTGGTAAATATTAA
Found at i:35951744 original size:20 final size:20
Alignment explanation
Indices: 35951721--35951759 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35951711 AAAGCCTCGT
*
35951721 AAATGTTGGTAAATCTATAG
1 AAATGTTGGTAAATATATAG
*
35951741 AAATTTTGGTAAATATATA
1 AAATGTTGGTAAATATATA
35951760 TTGGTAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (20 bp):
AAATGTTGGTAAATATATAG
Found at i:35951778 original size:20 final size:20
Alignment explanation
Indices: 35951755--35951850 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
35951745 TTTGGTAAAT
* *
35951755 ATATATTGGTAAATCGTAAG
1 ATATATTAGTAAATCGTTAG
* * *
35951775 ATAT-TTTGATAAAATCCTTGG
1 ATATATTAG-T-AAATCGTTAG
* * *
35951796 AAATATTAGAAAATTGTTAG
1 ATATATTAGTAAATCGTTAG
35951816 ATATATTAGTAAATCGTTAG
1 ATATATTAGTAAATCGTTAG
*
35951836 ATACATTAGTAAATC
1 ATATATTAGTAAATC
35951851 CTTAAATATT
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.73
21 10 0.17
22 3 0.05
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (20 bp):
ATATATTAGTAAATCGTTAG
Found at i:35951994 original size:20 final size:20
Alignment explanation
Indices: 35951971--35952055 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
35951961 ATAAATATTA
35951971 GTAAATCGATAGAAATTTTG
1 GTAAATCGATAGAAATTTTG
* * * *
35951991 GTAATTCGTTAGATATTTTC
1 GTAAATCGATAGAAATTTTG
* *
35952011 GTAAAAC-ATTAAAAATTTTG
1 GTAAATCGA-TAGAAATTTTG
* * *
35952031 GTAAATTGTTAGAAGTTTTG
1 GTAAATCGATAGAAATTTTG
35952051 GTAAA
1 GTAAA
35952056 ACCTTAACAA
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.40
Consensus pattern (20 bp):
GTAAATCGATAGAAATTTTG
Found at i:35952055 original size:40 final size:40
Alignment explanation
Indices: 35951983--35952070 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
35951973 AAATCGATAG
35951983 AAATTTTGGTAATTCGTTAGATATTTTCGTAAAACATTAA
1 AAATTTTGGTAATTCGTTAGATATTTTCGTAAAACATTAA
* *
35952023 AAATTTTGGTAAATT-GTTAGA-AGTTTTGGTAAAACCTTAA
1 AAATTTTGGT-AATTCGTTAGATA-TTTTCGTAAAACATTAA
*
35952063 CAATTTTG
1 AAATTTTG
35952071 TGAGGTGTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.02
40 38 0.88
41 4 0.09
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (40 bp):
AAATTTTGGTAATTCGTTAGATATTTTCGTAAAACATTAA
Found at i:35952069 original size:20 final size:19
Alignment explanation
Indices: 35952005--35952070 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
35951995 TTCGTTAGAT
*
35952005 ATTTTCGTAAAACATTAAAA
1 ATTTTGGTAAAACATT-AAA
***
35952025 ATTTTGGTAAATTGTTAGAA
1 ATTTTGGTAAAACATTA-AA
* *
35952045 GTTTTGGTAAAACCTTAACA
1 ATTTTGGTAAAACATTAA-A
35952065 ATTTTG
1 ATTTTG
35952071 TGAGGTGTGC
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 2 0.06
20 33 0.94
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (19 bp):
ATTTTGGTAAAACATTAAA
Found at i:35954816 original size:48 final size:48
Alignment explanation
Indices: 35954745--35954840 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
35954735 TTACTCTTAA
*
35954745 GATAATCCGGTTGAAGGTGGTGTCATGTCAAATGTTAGGCATGTGTCT
1 GATAATCCGGTTGAAGGTGGTGTCATGTCAAATGTTAGGCACGTGTCT
* * *
35954793 GATAATCCGTTTGAAGGTGGTGTCGTGTCAAATTTTAGGCACGTGTCT
1 GATAATCCGGTTGAAGGTGGTGTCATGTCAAATGTTAGGCACGTGTCT
35954841 AATTTAGAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (48 bp):
GATAATCCGGTTGAAGGTGGTGTCATGTCAAATGTTAGGCACGTGTCT
Found at i:35956713 original size:20 final size:20
Alignment explanation
Indices: 35956690--35956852 Score: 109
Period size: 20 Copynumber: 8.2 Consensus size: 20
35956680 GATATAATGA
*
35956690 TAAATCCTTAGAAATCTTGG
1 TAAATCCTTAGAAATTTTGG
**
35956710 TAAATCGGTAGAAATTTT-G
1 TAAATCCTTAGAAATTTTGG
** *
35956729 TGAAATTGTTAGATATTTTGG
1 T-AAATCCTTAGAAATTTTGG
* *
35956750 TACAA--CTTCAAAAATATTGG
1 TA-AATCCTT-AGAAATTTTGG
* ** * *
35956770 TAATTTATTAGATATATTGG
1 TAAATCCTTAGAAATTTTGG
35956790 TAAATCCTTAGAAATTTTGG
1 TAAATCCTTAGAAATTTTGG
** *
35956810 TAAATTGTTAGATATTTTGG
1 TAAATCCTTAGAAATTTTGG
*
35956830 TAAAAT-CATAGAAATTTTGG
1 T-AAATCCTTAGAAATTTTGG
35956850 TAA
1 TAA
35956853 TTGTTAAGAC
Statistics
Matches: 111, Mismatches: 25, Indels: 15
0.74 0.17 0.10
Matches are distributed among these distances:
19 7 0.06
20 94 0.85
21 10 0.09
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (20 bp):
TAAATCCTTAGAAATTTTGG
Found at i:35956741 original size:40 final size:39
Alignment explanation
Indices: 35956697--35956858 Score: 168
Period size: 40 Copynumber: 4.1 Consensus size: 39
35956687 TGATAAATCC
* * *
35956697 TTAGAAATCTTGGTAAATCGGTAGAAATTTT-GTGAAATTG
1 TTAGATATTTTGGTAAATC-TTAGAAATTTTGGT-AAATTG
* * * *
35956737 TTAGATATTTTGGTACAA-CTTCAAAAATATTGGTAATTTA
1 TTAGATATTTTGGTA-AATCTT-AGAAATTTTGGTAAATTG
*
35956777 TTAGATATATTGGTAAATCCTTAGAAATTTTGGTAAATTG
1 TTAGATATTTTGGTAAAT-CTTAGAAATTTTGGTAAATTG
*
35956817 TTAGATATTTTGGTAAAATCATAGAAATTTTGGT-AATTG
1 TTAGATATTTTGGT-AAATCTTAGAAATTTTGGTAAATTG
35956856 TTA
1 TTA
35956859 AGACTTGATA
Statistics
Matches: 102, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
39 11 0.11
40 80 0.78
41 11 0.11
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (39 bp):
TTAGATATTTTGGTAAATCTTAGAAATTTTGGTAAATTG
Found at i:35956847 original size:100 final size:100
Alignment explanation
Indices: 35956661--35956851 Score: 258
Period size: 100 Copynumber: 1.9 Consensus size: 100
35956651 GATCTCCAAC
* *
35956661 AAATTTTGGTAATTTGTTAGATATAATGATAAATCCTTAGAAATCTTGGTAAATCGGTAGAAATT
1 AAATATTGGTAATTTATTAGATATAATGATAAATCCTTAGAAATCTTGGTAAATCGGTAGAAATT
* ** *
35956726 TTGTGAAATTGTTAGATATTTTGGTACAACTTCAA
66 TTGTGAAAATCATAGAAATTTTGGTACAACTTCAA
* * * * * *
35956761 AAATATTGGTAATTTATTAGATATATTGGTAAATCCTTAGAAATTTTGGTAAATTGTTAGATATT
1 AAATATTGGTAATTTATTAGATATAATGATAAATCCTTAGAAATCTTGGTAAATCGGTAGAAATT
35956826 TTG-GTAAAATCATAGAAATTTTGGTA
66 TTGTG-AAAATCATAGAAATTTTGGTA
35956852 ATTGTTAAGA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 1 0.01
100 77 0.99
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (100 bp):
AAATATTGGTAATTTATTAGATATAATGATAAATCCTTAGAAATCTTGGTAAATCGGTAGAAATT
TTGTGAAAATCATAGAAATTTTGGTACAACTTCAA
Found at i:35956850 original size:80 final size:80
Alignment explanation
Indices: 35956697--35956854 Score: 214
Period size: 80 Copynumber: 2.0 Consensus size: 80
35956687 TGATAAATCC
* * *
35956697 TTAGAAATCTTGGTAAATCGGTAGAAATTTTGTGAAATTGTTAGATATTTTGGTACAACTTCAAA
1 TTAGAAATATTGGTAAATCCGTAGAAATTTTGTGAAATTGTTAGATATTTTGGTACAACATCAAA
35956762 AATATTGGTAATTTA
66 AATATTGGTAATTTA
* *
35956777 TTAGATATATTGGTAAATCCTTAGAAATTTTG-GTAAATTGTTAGATATTTTGGTA-AA-ATCAT
1 TTAGAAATATTGGTAAATCCGTAGAAATTTTGTG-AAATTGTTAGATATTTTGGTACAACATCA-
*
35956839 AGAAATTTTGGTAATT
64 A-AAATATTGGTAATT
35956855 GTTAAGACTT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.04
79 4 0.06
80 62 0.90
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (80 bp):
TTAGAAATATTGGTAAATCCGTAGAAATTTTGTGAAATTGTTAGATATTTTGGTACAACATCAAA
AATATTGGTAATTTA
Found at i:35956956 original size:20 final size:20
Alignment explanation
Indices: 35956933--35957031 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
35956923 TATAGAAATT
*
35956933 TTGGCAAATTGTTAGATATA
1 TTGGTAAATTGTTAGATATA
* * * *
35956953 TTGGTTAGTTCTTAGAAATA
1 TTGGTAAATTGTTAGATATA
* *
35956973 TTGATAAATCGTTAGATATA
1 TTGGTAAATTGTTAGATATA
* ** * *
35956993 TTGGTATATACTTAAAAATA
1 TTGGTAAATTGTTAGATATA
**
35957013 TTGGTAAATCCTTAGATAT
1 TTGGTAAATTGTTAGATAT
35957032 TTTGATAAAG
Statistics
Matches: 58, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.41
Consensus pattern (20 bp):
TTGGTAAATTGTTAGATATA
Found at i:35957012 original size:40 final size:40
Alignment explanation
Indices: 35956938--35957031 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
35956928 AAATTTTGGC
* * *
35956938 AAATTGTTAGATATATTGGTTAGTTCTTAGAAATATTGAT
1 AAATCGTTAGATATATTGGTTAGTACTTAAAAATATTGAT
*
35956978 AAATCGTTAGATATATTGGTATA-TACTTAAAAATATTGGT
1 AAATCGTTAGATATATTGGT-TAGTACTTAAAAATATTGAT
*
35957018 AAATCCTTAGATAT
1 AAATCGTTAGATAT
35957032 TTTGATAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (40 bp):
AAATCGTTAGATATATTGGTTAGTACTTAAAAATATTGAT
Found at i:35957040 original size:20 final size:20
Alignment explanation
Indices: 35956963--35957040 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
35956953 TTGGTTAGTT
35956963 CTTAGAAATATTGATAAATC
1 CTTAGAAATATTGATAAATC
* * * * *
35956983 GTTAGATATATTGGTATATA
1 CTTAGAAATATTGATAAATC
* *
35957003 CTTAAAAATATTGGTAAATC
1 CTTAGAAATATTGATAAATC
* *
35957023 CTTAGATATTTTGATAAA
1 CTTAGAAATATTGATAAA
35957041 GCTGTTTATT
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (20 bp):
CTTAGAAATATTGATAAATC
Found at i:35957522 original size:14 final size:13
Alignment explanation
Indices: 35957495--35957519 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35957485 ATGTGAATAA
35957495 TATTATTTAAAAT
1 TATTATTTAAAAT
35957508 TATTATTTAAAA
1 TATTATTTAAAA
35957520 ATTTATAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:35957582 original size:22 final size:22
Alignment explanation
Indices: 35957542--35957597 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
35957532 AATAAAATTG
*
35957542 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
35957562 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
35957584 TATTAATAATTTAT
1 AAATAATAAATTAT
35957598 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:35958120 original size:16 final size:17
Alignment explanation
Indices: 35958096--35958129 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
35958086 ATTCAAATAT
35958096 AATTATTAACATTATTA
1 AATTATTAACATTATTA
*
35958113 AATT-TTAACATTTTTA
1 AATTATTAACATTATTA
35958129 A
1 A
35958130 CAATTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTATTAACATTATTA
Found at i:35961546 original size:21 final size:21
Alignment explanation
Indices: 35961520--35961560 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35961510 AGACGAACAA
* *
35961520 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
35961541 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
35961561 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:35975773 original size:23 final size:25
Alignment explanation
Indices: 35975729--35975774 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
35975719 AAGCTCCTCC
35975729 TGAGCTGATATACAATAAGCTCTAT
1 TGAGCTGATATACAATAAGCTCTAT
*
35975754 TGAGCTGA-A-ACGATAAGCTCT
1 TGAGCTGATATACAATAAGCTCT
35975775 GACGAGCTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 1 0.05
25 8 0.40
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (25 bp):
TGAGCTGATATACAATAAGCTCTAT
Found at i:35975852 original size:26 final size:24
Alignment explanation
Indices: 35975767--35975857 Score: 112
Period size: 24 Copynumber: 3.7 Consensus size: 24
35975757 GCTGAAACGA
* *
35975767 TAAGCTCTGACGAGCTGAAAATAG
1 TAAGCTCTTACGAGCTGATAATAG
*
35975791 TAAACTCTTACGAGCTGATAATAG
1 TAAGCTCTTACGAGCTGATAATAG
*
35975815 TAAGCTCTTACGAGCTGATATATCG
1 TAAGCTCTTACGAGCTGATA-ATAG
35975840 ATAAGCT-TATACGAGCTG
1 -TAAGCTCT-TACGAGCTG
35975858 TGGTGAGTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
24 40 0.68
25 4 0.07
26 15 0.25
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (24 bp):
TAAGCTCTTACGAGCTGATAATAG
Found at i:35979832 original size:11 final size:11
Alignment explanation
Indices: 35979770--35979844 Score: 71
Period size: 11 Copynumber: 6.9 Consensus size: 11
35979760 AATATTCCCT
*
35979770 TCAAAAATCTA
1 TCAAAATTCTA
*
35979781 TCAAATTTC-A
1 TCAAAATTCTA
** * *
35979791 TTGAAATTTTC
1 TCAAAATTCTA
*
35979802 TCAAAATTCTT
1 TCAAAATTCTA
35979813 TCAAAATTCTA
1 TCAAAATTCTA
35979824 TCAAAATTCTA
1 TCAAAATTCTA
*
35979835 TCAAAGTTCT
1 TCAAAATTCT
35979845 TTGTTTAAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
10 6 0.12
11 44 0.88
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:35980042 original size:48 final size:46
Alignment explanation
Indices: 35979978--35980111 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 46
35979968 AGTGATAATT
*
35979978 TTAAATTTTCAATACTATTCGATATTTTTTTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATT-GATATTTTTTTCATTTATGC-AATTATAA
*
35980026 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTA-TTGATATTTTTTTCATTTATGCAATTATAA
*
35980074 TTAAAATTTCAATACTGCTTGAT-TTTTTTTCATTTATG
1 TT-AAATTTCAATACT-ATTGATATTTTTTTCATTTATG
35980112 ATGTTTGCAT
Statistics
Matches: 77, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
47 21 0.27
48 48 0.62
49 8 0.10
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (46 bp):
TTAAATTTCAATACTATTGATATTTTTTTCATTTATGCAATTATAA
Found at i:35981102 original size:7 final size:7
Alignment explanation
Indices: 35981090--35981122 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
35981080 TAGACGTTTC
35981090 GTATTTA
1 GTATTTA
35981097 GTATTTA
1 GTATTTA
*
35981104 ATATTTA
1 GTATTTA
35981111 GTATTTA
1 GTATTTA
35981118 GTATT
1 GTATT
35981123 ATGTATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:35981821 original size:2 final size:2
Alignment explanation
Indices: 35981814--35981848 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
35981804 ACAAATCAAG
* *
35981814 AT AT AT AT AT AT AG AT AT AT AG AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35981849 ACATTTTGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (2 bp):
AT
Found at i:35988731 original size:126 final size:119
Alignment explanation
Indices: 35988588--35988835 Score: 354
Period size: 126 Copynumber: 2.0 Consensus size: 119
35988578 TTATAGCCTC
* *
35988588 ATTTTTCTACGAACTACTGTAGCAAAAAAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTA
* *
35988653 ATAGTGCATCCTTTTTAAAGCGTTTTCAACACTATTTGTTCAGAAATGTCTACT-AAGAATT
66 ACAGTG----C---TTAAAGCGTTTTCAACACTATTTGTTCAGAAACGTCTACTCAA-AATT
*
35988714 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTA
1 ATTTTTCTACGAACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTA
* *
35988779 ACAGTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
66 ACAGTGCTTAAAGCGTTTTCAACACTATTTGTTCAGAAACGTCTACTCAAAATT
35988833 ATT
1 ATT
35988836 CTTGCAGAAA
Statistics
Matches: 114, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
119 44 0.39
120 2 0.02
122 1 0.01
126 67 0.59
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (119 bp):
ATTTTTCTACGAACTACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTA
ACAGTGCTTAAAGCGTTTTCAACACTATTTGTTCAGAAACGTCTACTCAAAATT
Found at i:35989445 original size:19 final size:18
Alignment explanation
Indices: 35989376--35989445 Score: 92
Period size: 19 Copynumber: 3.9 Consensus size: 18
35989366 ACTATTATGT
35989376 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCT-AATTA
35989395 ATCAATTAACCCTAAGTTA
1 ATCAATTAACCCTAA-TTA
35989414 ATCAA-T--CCCTAATTAA
1 ATCAATTAACCCTAATT-A
35989430 ATCAATTAACCCTAAT
1 ATCAATTAACCCTAAT
35989446 ACCCTAAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.04
16 12 0.26
17 1 0.02
18 3 0.07
19 28 0.61
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.31
Consensus pattern (18 bp):
ATCAATTAACCCTAATTA
Found at i:35989561 original size:14 final size:15
Alignment explanation
Indices: 35989541--35989579 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
35989531 TTAAATTCTA
35989541 AACCCTAAAAACCCT
1 AACCCTAAAAACCCT
35989556 AA-CCTAAAAAACCCT
1 AACCCT-AAAAACCCT
35989571 AACCCTAAA
1 AACCCTAAA
35989580 TCCTAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 3 0.14
15 16 0.73
16 3 0.14
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (15 bp):
AACCCTAAAAACCCT
Found at i:35989594 original size:22 final size:23
Alignment explanation
Indices: 35989550--35989603 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
35989540 AAACCCTAAA
*
35989550 AACCCT-AA-CCTAAAAAACCCT
1 AACCCTAAATCCTAAAAAACACT
35989571 AACCCTAAATCCT-AAAAACACT
1 AACCCTAAATCCTAAAAAACACT
35989593 AACCCTAAATC
1 AACCCTAAATC
35989604 AATTAAACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 6 0.20
22 21 0.70
23 3 0.10
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (23 bp):
AACCCTAAATCCTAAAAAACACT
Found at i:36002597 original size:17 final size:18
Alignment explanation
Indices: 36002571--36002605 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
36002561 TGTTTTGGGC
*
36002571 TTGGGGTAA-TGGGTTAT
1 TTGGGCTAATTGGGTTAT
36002588 TTGGGCTAATTGGGTTAT
1 TTGGGCTAATTGGGTTAT
36002606 ATATTTTTAC
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:0.17, C:0.03, G:0.37, T:0.43
Consensus pattern (18 bp):
TTGGGCTAATTGGGTTAT
Found at i:36003335 original size:40 final size:40
Alignment explanation
Indices: 36003280--36003412 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
36003270 TTCAAAGCAT
*
36003280 GTATGTGCATTCAGGGGTATCGAAGTACAAATAGGGGCAC
1 GTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCAC
* * *
36003320 GTATGTGTATTCAGGGGTACCGAAGTATAATTAGGGGCAC
1 GTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCAC
* ** * **
36003360 ATATGTGCATTCAGAAGTACCGAAGTACAAACAATGGCAC
1 GTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCAC
*
36003400 ATATGTGCATTCA
1 GTATGTGCATTCA
36003413 ATAATATTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (40 bp):
GTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCAC
Found at i:36010951 original size:12 final size:12
Alignment explanation
Indices: 36010934--36010960 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36010924 TGTTAGAACA
36010934 AAAAAAAAAAAG
1 AAAAAAAAAAAG
36010946 AAAAAAAAAAAG
1 AAAAAAAAAAAG
36010958 AAA
1 AAA
36010961 CTGAAGTTGG
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:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:36011684 original size:43 final size:43
Alignment explanation
Indices: 36011631--36011740 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
36011621 TTTTCGAAAA
* *
36011631 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCATTTTTT-GC
1 AAACGACGCTAAAGACCAGGACCTTTAGCGGCGC-TTTTTTCAC
* *
36011674 AAACGACGCTAAAGACCAGGAGCTTTAGCGGTGCTTTTTTCAC
1 AAACGACGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTTCAC
* *
36011717 AAAC-ACCGCTAAAAACCATGACCT
1 AAACGA-CGCTAAAGACCAGGACCT
36011741 CTAACTACGA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 7 0.12
43 51 0.88
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (43 bp):
AAACGACGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTTCAC
Found at i:36011811 original size:43 final size:43
Alignment explanation
Indices: 36011750--36011834 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
36011740 TCTAACTACG
* *
36011750 ACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAGATCATA
1 ACCTTTAGCGGCACTTTTTCCACAAACGCCGCTAAAGATCATA
*
36011793 ACCTTTAGCGGCACTTTTTCCCCAAACGCCGCTAAAGATCAT
1 ACCTTTAGCGGCACTTTTTCCACAAACGCCGCTAAAGATCAT
36011835 GAAATTTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (43 bp):
ACCTTTAGCGGCACTTTTTCCACAAACGCCGCTAAAGATCATA
Found at i:36011836 original size:99 final size:99
Alignment explanation
Indices: 36011650--36011828 Score: 243
Period size: 99 Copynumber: 1.8 Consensus size: 99
36011640 TAAAGACCAG
* * * ** *
36011650 GACCTTTAGCGGCGCATTTTTTGCAAACGACGCTAAAGACCAGGAGCTTTAGCGGTGCTTTTTTC
1 GACCTTTAGCGGCGCATTTTTTACAAACGACGCTAAAGACCAGAACCTTTAGCGGCACTTTTTCC
36011715 ACAAACACCGCTAAAAACCATGACCTCTAACTAC
66 ACAAACACCGCTAAAAACCATGACCTCTAACTAC
* * *
36011749 GACCTTTAGCGGCGC-TTTTTTCACAAACGCCGCTAAAGATCATAACCTTTAGCGGCACTTTTTC
1 GACCTTTAGCGGCGCATTTTTT-ACAAACGACGCTAAAGACCAGAACCTTTAGCGGCACTTTTTC
* *
36011813 CCCAAACGCCGCTAAA
65 CACAAACACCGCTAAA
36011829 GATCATGAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
98 6 0.09
99 62 0.91
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (99 bp):
GACCTTTAGCGGCGCATTTTTTACAAACGACGCTAAAGACCAGAACCTTTAGCGGCACTTTTTCC
ACAAACACCGCTAAAAACCATGACCTCTAACTAC
Done.