Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 54 of 352
Found at i:17422770 original size:18 final size:18
Alignment explanation
Indices: 17422720--17422769 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
17422710 AGCTTCTTTT
*
17422720 ATTTGACTTGAAAAATTA
1 ATTTAACTTGAAAAATTA
** *
17422738 ATCCAATTTGAAAAATTA
1 ATTTAACTTGAAAAATTA
17422756 ATTTAACTT-AAAAA
1 ATTTAACTTGAAAAA
17422770 AGCACTTTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (18 bp):
ATTTAACTTGAAAAATTA
Found at i:17424411 original size:21 final size:20
Alignment explanation
Indices: 17424326--17424413 Score: 65
Period size: 22 Copynumber: 4.3 Consensus size: 20
17424316 TGAAATTTAT
*
17424326 TATTAAAATAA--ATTTACAA
1 TATTAAAATAATTAATTA-AA
17424345 TA-TAAAATAATTAATTAATA
1 TATTAAAATAATTAATTAA-A
* * * *
17424365 TAATAAAATATATTTATTGCAT
1 TATTAAAATA-ATTAATT-AAA
17424387 TATTAAATATAATTAATTAAA
1 TATTAAA-ATAATTAATTAAA
17424408 TATTAA
1 TATTAA
17424414 TGTTAATAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
18 8 0.15
19 3 0.06
20 7 0.13
21 14 0.26
22 18 0.33
23 4 0.07
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (20 bp):
TATTAAAATAATTAATTAAA
Found at i:17432940 original size:2 final size:2
Alignment explanation
Indices: 17432933--17432988 Score: 85
Period size: 2 Copynumber: 27.5 Consensus size: 2
17432923 GTTTACGTAT
17432933 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
17432975 CAC CG AG AG AG AG A
1 -AG AG AG AG AG AG A
17432989 CCTTTTATTC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 48 0.98
3 1 0.02
ACGTcount: A:0.48, C:0.05, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17435282 original size:29 final size:29
Alignment explanation
Indices: 17435250--17435306 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
17435240 TTTTCTTATA
* *
17435250 TTTTT-AAAATAATTTTAATGATTTTTAAT
1 TTTTTAAAAATAAGTTT-ATAATTTTTAAT
17435279 TTTTTAAAAATAAGTTTATAATTTTTAA
1 TTTTTAAAAATAAGTTTATAATTTTTAA
17435307 AGAATCAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (29 bp):
TTTTTAAAAATAAGTTTATAATTTTTAAT
Found at i:17437261 original size:21 final size:23
Alignment explanation
Indices: 17437214--17437267 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
17437204 CATTCAAGAT
**
17437214 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
17437237 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
17437258 AAAAT-ATATA
1 AAAATAATATA
17437268 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:17437511 original size:23 final size:25
Alignment explanation
Indices: 17437453--17437514 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 25
17437443 AAACAATAAT
*
17437453 GAAA-ATAATATTAGTATATAAATA
1 GAAATATAATAATAGTATATAAATA
17437477 GAAATA-AA-AATA-TA-ATAAATA
1 GAAATATAATAATAGTATATAAATA
17437498 GAAATATAATAATAGTA
1 GAAATATAATAATAGTA
17437515 GAAATATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 13 0.39
22 4 0.12
23 7 0.21
24 8 0.24
25 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (25 bp):
GAAATATAATAATAGTATATAAATA
Found at i:17437526 original size:44 final size:44
Alignment explanation
Indices: 17437472--17437558 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
17437462 ATTAGTATAT
17437472 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
17437516 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
17437559 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:17437543 original size:15 final size:14
Alignment explanation
Indices: 17437470--17437598 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
17437460 ATATTAGTAT
*
17437470 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
17437483 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
17437499 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
17437513 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
17437528 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
17437543 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
17437557 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
17437572 ATAAATATAAATAG
1 ATAAATAAAAATAG
17437586 A-AACATAAAAATA
1 ATAA-ATAAAAATA
17437599 ATAGCAATAA
Statistics
Matches: 92, Mismatches: 12, Indels: 23
0.72 0.09 0.18
Matches are distributed among these distances:
12 6 0.07
13 8 0.09
14 30 0.33
15 35 0.38
16 6 0.07
17 7 0.08
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:17437548 original size:29 final size:28
Alignment explanation
Indices: 17437491--17437598 Score: 73
Period size: 29 Copynumber: 3.8 Consensus size: 28
17437481 TAAAAATATA
* * *
17437491 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAACATAAAAATAG-ATAAAT
17437520 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AACATAAAAA-TAGATAAAT
*
17437549 A-ATAATAGTATTAGA-ATAACAA-A-ATAAAT
1 ATA-AATAG-A--A-ACATAAAAATAGATAAAT
17437578 ATAAATAGAAACATAAAAATA
1 ATAAATAGAAACATAAAAATA
17437599 ATAGCAATAA
Statistics
Matches: 66, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 2 0.03
29 38 0.58
30 8 0.12
31 2 0.03
32 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (28 bp):
ATAAATAGAAACATAAAAATAGATAAAT
Found at i:17438500 original size:26 final size:24
Alignment explanation
Indices: 17438482--17438533 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 24
17438472 AATAAAATTT
17438482 TAATATCTATAAATATAATTAAGAAA
1 TAATATCTATAAATATAA-TAA-AAA
*
17438508 TAATATCTATAAATAAAATAAAAA
1 TAATATCTATAAATATAATAAAAA
17438532 TA
1 TA
17438534 GTATTTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.20
25 3 0.12
26 17 0.68
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (24 bp):
TAATATCTATAAATATAATAAAAA
Found at i:17442527 original size:26 final size:24
Alignment explanation
Indices: 17442483--17442532 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
17442473 ATTTGTTTTA
*
17442483 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
17442507 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
17442533 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:17451666 original size:21 final size:21
Alignment explanation
Indices: 17451642--17451711 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
17451632 ACCCTAATGG
17451642 GTTTCCATTTAGCTCTTTTGA
1 GTTTCCATTTAGCTCTTTTGA
* * *
17451663 GTTT-CAGTTTTATCCCTTTTGG
1 GTTTCCA--TTTAGCTCTTTTGA
* * *
17451685 GTTTCCGTTCAGCTCTTATGA
1 GTTTCCATTTAGCTCTTTTGA
*
17451706 GCTTCC
1 GTTTCC
17451712 GTTCAACCTT
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
20 2 0.06
21 18 0.50
22 15 0.42
23 1 0.03
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (21 bp):
GTTTCCATTTAGCTCTTTTGA
Found at i:17452010 original size:20 final size:20
Alignment explanation
Indices: 17451985--17452023 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17451975 AGTTATGGGT
17451985 TGAATTAGATTT-TAATTAGG
1 TGAATT-GATTTCTAATTAGG
*
17452005 TGAATTTATTTCTAATTAG
1 TGAATTGATTTCTAATTAG
17452024 AAGCAATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.49
Consensus pattern (20 bp):
TGAATTGATTTCTAATTAGG
Found at i:17456530 original size:11 final size:11
Alignment explanation
Indices: 17456514--17456538 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17456504 TTAAATTTTC
17456514 CTATTCAATTT
1 CTATTCAATTT
17456525 CTATTCAATTT
1 CTATTCAATTT
17456536 CTA
1 CTA
17456539 CCTTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
CTATTCAATTT
Found at i:17463551 original size:12 final size:12
Alignment explanation
Indices: 17463518--17463551 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
17463508 TTTCTTCTTC
*
17463518 TTCTTCTATTTT
1 TTCTTCTTTTTT
17463530 TTCTTCTTTTTT
1 TTCTTCTTTTTT
17463542 TTC-TCTTTTT
1 TTCTTCTTTTT
17463552 ATAAACCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (12 bp):
TTCTTCTTTTTT
Found at i:17465895 original size:8 final size:8
Alignment explanation
Indices: 17465853--17465877 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17465843 ATATAGACTA
17465853 AATAAAAT
1 AATAAAAT
17465861 AATAAAAT
1 AATAAAAT
17465869 AATAAAAT
1 AATAAAAT
17465877 A
1 A
17465878 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:17465901 original size:29 final size:31
Alignment explanation
Indices: 17465850--17465922 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
17465840 TATATATAGA
*
17465850 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
17465879 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
17465910 CTAATT-AAATAAT
1 CTAATTAAAATAAT
17465923 TATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:17465927 original size:29 final size:30
Alignment explanation
Indices: 17465857--17465928 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
17465847 AGACTAAATA
*
17465857 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
17465885 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
17465916 AAATAATTATAAA
1 AAATAATTATAAA
17465929 ATATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:17468526 original size:19 final size:19
Alignment explanation
Indices: 17468502--17468538 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
17468492 TTGATTTTAA
17468502 TAGGTTGAATTATTTAATT
1 TAGGTTGAATTATTTAATT
17468521 TAGGTTGAATTATTTAAT
1 TAGGTTGAATTATTTAAT
17468539 CTCGGTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (19 bp):
TAGGTTGAATTATTTAATT
Found at i:17468545 original size:19 final size:19
Alignment explanation
Indices: 17468502--17468546 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
17468492 TTGATTTTAA
*
17468502 TAGGTTGAATTATTTAATT
1 TAGGTTGAATTATTTAATC
17468521 TAGGTTGAATTATTTAATC
1 TAGGTTGAATTATTTAATC
*
17468540 TCGGTTG
1 TAGGTTG
17468547 TAGGTTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (19 bp):
TAGGTTGAATTATTTAATC
Found at i:17469769 original size:15 final size:15
Alignment explanation
Indices: 17469749--17469782 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17469739 TTATATATAA
*
17469749 AAAATAATAATAAAG
1 AAAATAATAAAAAAG
*
17469764 AAAATACTAAAAAAG
1 AAAATAATAAAAAAG
17469779 AAAA
1 AAAA
17469783 AAGGCACCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAATAATAAAAAAG
Found at i:17470507 original size:17 final size:18
Alignment explanation
Indices: 17470474--17470508 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17470464 CTTTCTATAC
*
17470474 TTATTTATTTGTATTATT
1 TTATTTATTTATATTATT
17470492 TTATTT-TTTATATTATT
1 TTATTTATTTATATTATT
17470509 GTATCATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTATTTATTTATATTATT
Found at i:17470809 original size:3 final size:3
Alignment explanation
Indices: 17470801--17470841 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
17470791 CACTATATCC
17470801 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
17470842 ATACATACCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:17473209 original size:7 final size:7
Alignment explanation
Indices: 17473197--17473227 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
17473187 CAATTACTCA
17473197 ATTACCC
1 ATTACCC
17473204 ATTACCC
1 ATTACCC
17473211 ATTACCC
1 ATTACCC
17473218 ATTACCC
1 ATTACCC
17473225 ATT
1 ATT
17473228 CATCCAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.39, G:0.00, T:0.32
Consensus pattern (7 bp):
ATTACCC
Found at i:17481449 original size:16 final size:16
Alignment explanation
Indices: 17481403--17481446 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
17481393 ACGTGAAATT
17481403 TAATATTTTATTAAAA
1 TAATATTTTATTAAAA
*
17481419 TAATATTTTAATTAAGA
1 TAATATTTT-ATTAAAA
17481436 TAAT-TTTTATT
1 TAATATTTTATT
17481447 TAATAAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 3 0.12
16 13 0.50
17 10 0.38
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TAATATTTTATTAAAA
Found at i:17494520 original size:22 final size:23
Alignment explanation
Indices: 17494495--17494537 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
17494485 TAACAATAAT
* *
17494495 AATTTAATTAATAT-GTTATTGA
1 AATTAAATAAATATAGTTATTGA
17494517 AATTAAATAAATATAGTTATT
1 AATTAAATAAATATAGTTATT
17494538 TTATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (23 bp):
AATTAAATAAATATAGTTATTGA
Found at i:17496808 original size:15 final size:15
Alignment explanation
Indices: 17496790--17496879 Score: 94
Period size: 15 Copynumber: 5.9 Consensus size: 15
17496780 AATTCACTAT
*
17496790 TTAAATTTTCAATAC
1 TTAATTTTTCAATAC
17496805 TTAATTTTTCTAACT-C
1 TTAATTTTTC-AA-TAC
17496821 TTAAATTTTT-AATAC
1 TT-AATTTTTCAATAC
17496836 TTAATTTTTCTAATAC
1 TTAATTTTTC-AATAC
* **
17496852 TTACTTTTTCAGCAC
1 TTAATTTTTCAATAC
17496867 TTAATTTTTCAAT
1 TTAATTTTTCAAT
17496880 TTAACAAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
14 8 0.13
15 27 0.44
16 19 0.31
17 8 0.13
ACGTcount: A:0.31, C:0.14, G:0.01, T:0.53
Consensus pattern (15 bp):
TTAATTTTTCAATAC
Found at i:17496826 original size:31 final size:31
Alignment explanation
Indices: 17496790--17496876 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
17496780 AATTCACTAT
17496790 TTAAATTTTCAATACTTAATTTTTCTAACT-C
1 TTAAATTTTCAATACTTAATTTTTCTAA-TAC
*
17496821 TTAAATTTTTAATACTTAATTTTTCTAATAC
1 TTAAATTTTCAATACTTAATTTTTCTAATAC
** **
17496852 TTACTTTTTCAGCACTTAATTTTTC
1 TTAAATTTTCAATACTTAATTTTTC
17496877 AATTTAACAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
30 1 0.02
31 48 0.98
ACGTcount: A:0.30, C:0.15, G:0.01, T:0.54
Consensus pattern (31 bp):
TTAAATTTTCAATACTTAATTTTTCTAATAC
Found at i:17498048 original size:26 final size:26
Alignment explanation
Indices: 17498012--17498077 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
17498002 TTAATTTTAA
17498012 AAAAGCTAAAAAAATAAAAACTATAAT
1 AAAA-CTAAAAAAATAAAAACTATAAT
*
17498039 AAAACTAAAAAAATAATAACTATAAT
1 AAAACTAAAAAAATAAAAACTATAAT
17498065 AAAACTAAAAAAA
1 AAAACTAAAAAAA
17498078 AGGCTAAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 34 0.89
27 4 0.11
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.18
Consensus pattern (26 bp):
AAAACTAAAAAAATAAAAACTATAAT
Found at i:17513085 original size:5 final size:5
Alignment explanation
Indices: 17513075--17513100 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17513065 TAGGACTAAG
17513075 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
17513101 TGATAAGTCA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:17514181 original size:14 final size:14
Alignment explanation
Indices: 17514158--17514188 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17514148 CGTCGTGTTC
*
17514158 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
17514172 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
17514186 TTA
1 TTA
17514189 AAACAACCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:17517902 original size:5 final size:5
Alignment explanation
Indices: 17517851--17517908 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
17517841 ATGTGTTAAA
* * *
17517851 ATATAT ATATT AAATT ATTATT ATGTT ATAGT ATATT ATACTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
17517900 ATATT ATAT
1 ATATT ATAT
17517909 AAATAAGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
5 29 0.67
6 10 0.23
7 4 0.09
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (5 bp):
ATATT
Found at i:17519243 original size:18 final size:19
Alignment explanation
Indices: 17519220--17519258 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
17519210 ATATATAGAT
17519220 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
17519238 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
17519257 AT
1 AT
17519259 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:17519768 original size:18 final size:19
Alignment explanation
Indices: 17519747--17519787 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
17519737 AATGAAATGA
17519747 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
17519765 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
17519784 GAAA
1 GAAA
17519788 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:17524034 original size:46 final size:46
Alignment explanation
Indices: 17523981--17524153 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
17523971 TTGGACATCT
*
17523981 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* * ** *
17524027 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATATAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCC
* * *
17524074 GAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
* *
17524120 GAGCTCGTTGAGTTGAGTCCGAGCTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17524154 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 60 0.58
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC
Found at i:17526834 original size:18 final size:18
Alignment explanation
Indices: 17526813--17526874 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
17526803 ATATATAGAT
17526813 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
17526831 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
17526850 ATATA-AAT-AGTTAT-A
1 ATATATAATAAGATATAA
17526865 ATA-ATAATAA
1 ATATATAATAA
17526875 TAATAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.16
16 3 0.08
17 3 0.08
18 17 0.45
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:17526865 original size:35 final size:33
Alignment explanation
Indices: 17526810--17526874 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
17526800 GAGATATATA
17526810 GATATATATAATAAGATATAAATATATAATAAGAT
1 GATATATATAATAAGATAT-AATA-ATAATAAGAT
*
17526845 GATATATATAA-ATAGTTATAATAATAATAA
1 GATATATATAATA-AGATATAATAATAATAA
17526875 TAATAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (33 bp):
GATATATATAATAAGATATAATAATAATAAGAT
Found at i:17526870 original size:3 final size:3
Alignment explanation
Indices: 17526862--17526891 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17526852 ATAAATAGTT
17526862 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17526892 GGACAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17528175 original size:15 final size:16
Alignment explanation
Indices: 17528149--17528178 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17528139 TAGTGTTTAG
17528149 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
17528165 GTGGG-TATTGGGTT
1 GTGGGTTATTGGGTT
17528179 CTTTTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:17540696 original size:30 final size:30
Alignment explanation
Indices: 17540661--17540722 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
17540651 TGCATACATA
**
17540661 TATATTCATAAAATAAATGA-TATAAGTATG
1 TATATT-ATAAAATAAAACAGTATAAGTATG
*
17540691 TATATTGTAAAATAAAACAGTATAAGTATG
1 TATATTATAAAATAAAACAGTATAAGTATG
17540721 TA
1 TA
17540723 CATATATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.35
Consensus pattern (30 bp):
TATATTATAAAATAAAACAGTATAAGTATG
Found at i:17540880 original size:17 final size:18
Alignment explanation
Indices: 17540854--17540920 Score: 63
Period size: 17 Copynumber: 3.9 Consensus size: 18
17540844 ATAAAGAGAT
*
17540854 ATATAGATATAT-ATAAG
1 ATATAAATATATAATAAG
17540871 ATATAAATATATAATAAG
1 ATATAAATATATAATAAG
*
17540889 ATGATATATATA-AAT-AG
1 AT-ATAAATATATAATAAG
*
17540906 TTAT-AATA-ATAATAA
1 ATATAAATATATAATAA
17540921 TAATAATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 1 0.02
15 6 0.14
16 3 0.07
17 14 0.33
18 10 0.24
19 8 0.19
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (18 bp):
ATATAAATATATAATAAG
Found at i:17540916 original size:3 final size:3
Alignment explanation
Indices: 17540908--17540937 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17540898 ATAAATAGTT
17540908 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17540938 GGACAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17542222 original size:15 final size:16
Alignment explanation
Indices: 17542196--17542225 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17542186 TAGTGTTTAG
17542196 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
17542212 GTGGG-TATTGGGTT
1 GTGGGTTATTGGGTT
17542226 CTTTTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.47
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:17542639 original size:13 final size:13
Alignment explanation
Indices: 17542615--17542653 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
17542605 AACAGGAACC
*
17542615 ACACGATCGTGTG
1 ACACGGTCGTGTG
*
17542628 ACATGGTCGTGTG
1 ACACGGTCGTGTG
*
17542641 ACACGGCCGTGTG
1 ACACGGTCGTGTG
17542654 GCCCAACACG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.36, T:0.23
Consensus pattern (13 bp):
ACACGGTCGTGTG
Found at i:17543342 original size:5 final size:5
Alignment explanation
Indices: 17543326--17543374 Score: 64
Period size: 5 Copynumber: 10.0 Consensus size: 5
17543316 GACATGTTTA
* * *
17543326 TTATT TTCTT TTATT TTCTT TTACT TTA-T TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
17543375 CCTTTTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:17543359 original size:19 final size:19
Alignment explanation
Indices: 17543335--17543384 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
17543325 ATTATTTTCT
*
17543335 TTTATTTTCTTTTACTTTA
1 TTTATTTTATTTTACTTTA
*
17543354 TTTATTTTATTTTATTTTA
1 TTTATTTTATTTTACTTTA
**
17543373 TTCCTTTTATTT
1 TTTATTTTATTT
17543385 CGACAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTTATTTTACTTTA
Found at i:17544905 original size:6 final size:6
Alignment explanation
Indices: 17544894--17544933 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
17544884 GTCCATTCGT
* *
17544894 TTTTTA TTTTTA TTTTTA TTTTTA TGTTTA TTGTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
17544934 CTTAAACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:17555313 original size:15 final size:16
Alignment explanation
Indices: 17555295--17555329 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
17555285 CTTTTTTAGT
17555295 TTTATAATTTT-ATAA
1 TTTATAATTTTCATAA
*
17555310 TTTATAGTTTTCATAA
1 TTTATAATTTTCATAA
17555326 TTTA
1 TTTA
17555330 ATTTTATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTATAATTTTCATAA
Found at i:17566954 original size:15 final size:16
Alignment explanation
Indices: 17566934--17566980 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
17566924 AATTAATATT
17566934 AATATTT-TAACAATA
1 AATATTTATAACAATA
*
17566949 AATATTTATTACAAT-
1 AATATTTATAACAATA
* *
17566964 AATAATTATAATAATA
1 AATATTTATAACAATA
17566980 A
1 A
17566981 TAAATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATTTATAACAATA
Found at i:17567360 original size:14 final size:14
Alignment explanation
Indices: 17567338--17567390 Score: 79
Period size: 14 Copynumber: 3.8 Consensus size: 14
17567328 CTAAGAAAAT
*
17567338 AAGTTATTTTTTAA
1 AAGTCATTTTTTAA
17567352 AAGTCATTTTTTAA
1 AAGTCATTTTTTAA
* *
17567366 AAATTATTTTTTAA
1 AAGTCATTTTTTAA
17567380 AAGTCATTTTT
1 AAGTCATTTTT
17567391 AGTGAAACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.55
Consensus pattern (14 bp):
AAGTCATTTTTTAA
Found at i:17568198 original size:11 final size:11
Alignment explanation
Indices: 17568182--17568207 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17568172 TTTCTAGTCC
17568182 AATGTTGGCCT
1 AATGTTGGCCT
17568193 AATGTTGGCCT
1 AATGTTGGCCT
17568204 AATG
1 AATG
17568208 AATGGCTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (11 bp):
AATGTTGGCCT
Found at i:17577834 original size:15 final size:15
Alignment explanation
Indices: 17577814--17577843 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17577804 TGAATCAGAG
17577814 AGAAAATTTTCATTC
1 AGAAAATTTTCATTC
17577829 AGAAAATTTTCATTC
1 AGAAAATTTTCATTC
17577844 TGTGTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
AGAAAATTTTCATTC
Found at i:17583624 original size:30 final size:30
Alignment explanation
Indices: 17583588--17583646 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
17583578 TTAATAAAAG
*
17583588 TATATATATCTAGAATGAATATAGACAATA
1 TATATATATCTAAAATGAATATAGACAATA
*
17583618 TATATATATCTAAAATGAATTTAGACAAT
1 TATATATATCTAAAATGAATATAGACAAT
17583647 TGTTTGTCCA
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:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (30 bp):
TATATATATCTAAAATGAATATAGACAATA
Found at i:17583735 original size:10 final size:9
Alignment explanation
Indices: 17583714--17583752 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
17583704 AAATATTTTT
17583714 AAAATTATA
1 AAAATTATA
17583723 AAAATTAATAA
1 AAAATT-AT-A
17583734 AAAATTATA
1 AAAATTATA
17583743 AAAATT-TA
1 AAAATTATA
17583751 AA
1 AA
17583753 TATGTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.14
9 13 0.46
10 4 0.14
11 7 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:17583771 original size:18 final size:17
Alignment explanation
Indices: 17583729--17583776 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
17583719 TATAAAAATT
*
17583729 AATAAAAA-ATTATAAA
1 AATAAAAATATTAAAAA
**
17583745 AATTTAAATATGTAAAAA
1 AATAAAAATAT-TAAAAA
17583763 AATAAAAATATTAA
1 AATAAAAATATTAA
17583777 TAATTCAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 6 0.24
17 5 0.20
18 14 0.56
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AATAAAAATATTAAAAA
Found at i:17586151 original size:18 final size:18
Alignment explanation
Indices: 17586128--17586167 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
17586118 GCTGTTGGTG
17586128 GTGCTCAACCTGCTGGAA
1 GTGCTCAACCTGCTGGAA
* *
17586146 GTGCTCAATCTGCTGGAG
1 GTGCTCAACCTGCTGGAA
17586164 GTGC
1 GTGC
17586168 GCAGGGTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (18 bp):
GTGCTCAACCTGCTGGAA
Found at i:17586198 original size:12 final size:12
Alignment explanation
Indices: 17586183--17586214 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
17586173 GTGGAGCGCA
17586183 GGGAGGTGCACC
1 GGGAGGTGCACC
17586195 GGGAGGTGCACC
1 GGGAGGTGCACC
17586207 GGGAGGTG
1 GGGAGGTG
17586215 GAGGAGGTGT
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:0.16, C:0.19, G:0.56, T:0.09
Consensus pattern (12 bp):
GGGAGGTGCACC
Found at i:17587625 original size:18 final size:18
Alignment explanation
Indices: 17587599--17587712 Score: 73
Period size: 18 Copynumber: 6.7 Consensus size: 18
17587589 CCTGCCGCAA
17587599 CAAGCCCCGGTGGCCAAG
1 CAAGCCCCGGTGGCCAAG
*
17587617 CAGGCCCC----GCCAAAG
1 CAAGCCCCGGTGGCC-AAG
* * *
17587632 CAAGCCCTGGCGGCAAAG
1 CAAGCCCCGGTGGCCAAG
17587650 CAAGCCCCGGTGGCCAAG
1 CAAGCCCCGGTGGCCAAG
* *
17587668 CAGGGCCC--T--CCAAAG
1 CAAGCCCCGGTGGCC-AAG
* * *
17587683 CAAGCCCTGGCGGCAAAG
1 CAAGCCCCGGTGGCCAAG
17587701 CAAGCCCCGGTG
1 CAAGCCCCGGTG
17587713 CAACTGCTTA
Statistics
Matches: 70, Mismatches: 16, Indels: 20
0.66 0.15 0.19
Matches are distributed among these distances:
14 5 0.07
15 17 0.24
16 1 0.01
18 44 0.63
19 3 0.04
ACGTcount: A:0.25, C:0.39, G:0.32, T:0.05
Consensus pattern (18 bp):
CAAGCCCCGGTGGCCAAG
Found at i:17587654 original size:51 final size:51
Alignment explanation
Indices: 17587599--17587712 Score: 210
Period size: 51 Copynumber: 2.2 Consensus size: 51
17587589 CCTGCCGCAA
17587599 CAAGCCCCGGTGGCCAAGCAGGCCCCGCCAAAGCAAGCCCTGGCGGCAAAG
1 CAAGCCCCGGTGGCCAAGCAGGCCCCGCCAAAGCAAGCCCTGGCGGCAAAG
* *
17587650 CAAGCCCCGGTGGCCAAGCAGGGCCCTCCAAAGCAAGCCCTGGCGGCAAAG
1 CAAGCCCCGGTGGCCAAGCAGGCCCCGCCAAAGCAAGCCCTGGCGGCAAAG
17587701 CAAGCCCCGGTG
1 CAAGCCCCGGTG
17587713 CAACTGCTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.25, C:0.39, G:0.32, T:0.05
Consensus pattern (51 bp):
CAAGCCCCGGTGGCCAAGCAGGCCCCGCCAAAGCAAGCCCTGGCGGCAAAG
Found at i:17590693 original size:18 final size:18
Alignment explanation
Indices: 17590672--17590710 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17590662 TTTTTTCTAA
17590672 TATTATTAAT-ATTATCAC
1 TATTATT-ATCATTATCAC
*
17590690 TATTATTATCATTATTAC
1 TATTATTATCATTATCAC
17590708 TAT
1 TAT
17590711 ATCTTAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTATTATCATTATCAC
Found at i:17590706 original size:30 final size:31
Alignment explanation
Indices: 17590629--17590706 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
17590619 CCTTTCTTAT
*
17590629 TTATTTTCATTACTTTATTAAATATTATTACTA
1 TTATTTTCATTA--TTATTAAATATTATCACTA
*
17590662 TT-TTTTCTAATATTATT-AATATTATCACTA
1 TTATTTTC-ATTATTATTAAATATTATCACTA
*
17590692 TTATTATCATTATTA
1 TTATTTTCATTATTA
17590707 CTATATCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 20 0.51
31 9 0.23
32 5 0.13
33 5 0.13
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (31 bp):
TTATTTTCATTATTATTAAATATTATCACTA
Found at i:17590921 original size:36 final size:38
Alignment explanation
Indices: 17590838--17590921 Score: 93
Period size: 35 Copynumber: 2.3 Consensus size: 38
17590828 AATGTTAATT
* *
17590838 ATATATATATTTTTCATATATTATTAACATGTGTTTTTA
1 ATATATATA-TTTTCATATATTATTAACATATATTTTTA
* *
17590877 ATAT-TATATTTT-ATATATTA-TCATATATATTTTTA
1 ATATATATATTTTCATATATTATTAACATATATTTTTA
*
17590912 GTATATATAT
1 ATATATATAT
17590922 ATGTTTATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
35 14 0.36
36 13 0.33
37 4 0.10
38 4 0.10
39 4 0.10
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (38 bp):
ATATATATATTTTCATATATTATTAACATATATTTTTA
Found at i:17590923 original size:21 final size:20
Alignment explanation
Indices: 17590877--17590923 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
17590867 TGTGTTTTTA
17590877 ATAT-TATATTTTATATATT
1 ATATATATATTTTATATATT
17590896 ATCATATATATTTT-TAGTA-T
1 AT-ATATATATTTTATA-TATT
17590916 ATATATAT
1 ATATATAT
17590924 GTTTATGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 8 0.32
20 7 0.28
21 10 0.40
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
ATATATATATTTTATATATT
Found at i:17591217 original size:50 final size:52
Alignment explanation
Indices: 17591160--17591306 Score: 124
Period size: 50 Copynumber: 2.8 Consensus size: 52
17591150 ATATCATATA
* * *
17591160 TATATGTATATATATTTTCAATAT-TATTATTTATAT-TTGTTATATACTAT
1 TATATGTATATATATTTTCAATATATATTATGTATATATTATTAAATACTAT
* * * *
17591210 TCTATG--TACATA-TTTCCATATCATCTTATGTATATATTATTAAATACTAT
1 TATATGTATATATATTTTCAATAT-ATATTATGTATATATTATTAAATACTAT
* * * *
17591260 TATATGTATATGTATTTTTAATACCATATTGTATATATATATTATTA
1 TATATGTATATATATTTTCAATA-TATA-T-TATGTATATATTATTA
17591307 TTACATTTAT
Statistics
Matches: 73, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
47 8 0.11
48 5 0.07
49 10 0.14
50 22 0.30
52 4 0.05
53 8 0.11
54 1 0.01
55 15 0.21
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (52 bp):
TATATGTATATATATTTTCAATATATATTATGTATATATTATTAAATACTAT
Found at i:17602671 original size:43 final size:43
Alignment explanation
Indices: 17602610--17602726 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 43
17602600 AAAAAAGGGG
* *
17602610 AAAAAGATCAAGGTGAAAACTCGAAAAGGGCGTCTTGATGAAC
1 AAAAAGATCAAGGCGAAAACCCGAAAAGGGCGTCTTGATGAAC
* *
17602653 AAAAGGATCAAGGCGAAAACCCGAAAAGGGCGTCTTGATTAAC
1 AAAAAGATCAAGGCGAAAACCCGAAAAGGGCGTCTTGATGAAC
* *
17602696 ACAAAAGAT-TAGGATGAAAACCC-AAAAGGGC
1 A-AAAAGATCAAGG-CGAAAACCCGAAAAGGGC
17602727 ATTCTAATGA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 51 0.78
44 14 0.22
ACGTcount: A:0.45, C:0.16, G:0.25, T:0.14
Consensus pattern (43 bp):
AAAAAGATCAAGGCGAAAACCCGAAAAGGGCGTCTTGATGAAC
Found at i:17603728 original size:73 final size:74
Alignment explanation
Indices: 17603605--17603831 Score: 273
Period size: 73 Copynumber: 3.0 Consensus size: 74
17603595 TAAAAAAATC
* * *
17603605 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TAGGCCACCCTGAGGTATTTTTAATTTCTG
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGAGGTATTTTCAATTTCTG
*
17603669 CTTGTCAA-A
65 CTTTTCAATA
* *
17603678 AATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGA
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGC
17603743 TTTTCAATTTTCGTTTGA
66 TTTTCAA--------T-A
*
17603761 AATCAACTCATATTGC--GAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGC
17603824 TTTTCAAT
66 TTTTCAAT
17603832 TCTTGCTTTT
Statistics
Matches: 134, Mismatches: 9, Indels: 22
0.81 0.05 0.13
Matches are distributed among these distances:
73 63 0.47
74 3 0.02
81 52 0.39
83 16 0.12
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (74 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGC
TTTTCAATA
Found at i:17603829 original size:14 final size:14
Alignment explanation
Indices: 17603810--17603844 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
17603800 CGCTGAGGTA
17603810 TTTTCAATT-TCTGC
1 TTTTCAATTCT-TGC
17603824 TTTTCAATTCTTGC
1 TTTTCAATTCTTGC
17603838 TTTTCAA
1 TTTTCAA
17603845 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.95
15 1 0.05
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTCTTGC
Found at i:17603886 original size:89 final size:89
Alignment explanation
Indices: 17603760--17604008 Score: 441
Period size: 89 Copynumber: 2.8 Consensus size: 89
17603750 TTTTCGTTTG
17603760 AAATCAACTCATATTGC--GAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
17603823 CTTTTCAATT-CTTGCTTTTCAAAA
66 CTTTTCAATTAC-TGCTTTTCAAAA
* * *
17603847 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTATGCTGAGGTATTTTCAATTTCTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
17603912 CTTTTCAATTACTGCTTTTCAAAA
66 CTTTTCAATTACTGCTTTTCAAAA
17603936 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
17604001 CTTTTCAA
66 CTTTTCAA
17604009 AAAAATCAAC
Statistics
Matches: 153, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
87 17 0.11
89 135 0.88
90 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (89 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTG
CTTTTCAATTACTGCTTTTCAAAA
Found at i:17603918 original size:14 final size:14
Alignment explanation
Indices: 17603899--17603933 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
17603889 TGCTGAGGTA
*
17603899 TTTTCAATTTCTAC
1 TTTTCAATTACTAC
*
17603913 TTTTCAATTACTGC
1 TTTTCAATTACTAC
17603927 TTTTCAA
1 TTTTCAA
17603934 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.03, T:0.54
Consensus pattern (14 bp):
TTTTCAATTACTAC
Found at i:17604036 original size:75 final size:75
Alignment explanation
Indices: 17603913--17604083 Score: 315
Period size: 75 Copynumber: 2.3 Consensus size: 75
17603903 CAATTTCTAC
* *
17603913 TTTTCAATTACTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCA
17603978 CGCTGAGGTA
66 CGCTGAGGTA
17603988 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCA
*
17604053 CGTTGAGGTA
66 CGCTGAGGTA
17604063 TTTTCAATTTCTGCTTTTCAA
1 TTTTCAATTTCTGCTTTTCAA
17604084 TTCCTGCTTT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 93 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCA
CGCTGAGGTA
Found at i:17604082 original size:14 final size:14
Alignment explanation
Indices: 17604063--17604097 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
17604053 CGTTGAGGTA
*
17604063 TTTTCAATTTCTGC
1 TTTTCAATTCCTGC
17604077 TTTTCAATTCCTGC
1 TTTTCAATTCCTGC
17604091 TTTTCAA
1 TTTTCAA
17604098 AAAAAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTGC
Found at i:17604122 original size:90 final size:89
Alignment explanation
Indices: 17603988--17604484 Score: 636
Period size: 89 Copynumber: 5.6 Consensus size: 89
17603978 CGCTGAGGTA
* *
17603988 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCA
1 TTTTCAATTCCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
17604053 CGTTGAGGTATTTTCAATTTCTGC
66 CGTTGAGGTATTTTCAATTTCTGC
*
17604077 TTTTCAATTCCTGCTTTTCAAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGGGC
1 TTTTCAATTCCTGCTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
*
17604142 ACGCTGAGGTATTTTCAATTTCTGC
65 ACGTTGAGGTATTTTCAATTTCTGC
* *
17604167 TTTTCAATTCCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTCCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
** *
17604232 CGCAGAGGTATATTCAATTTCTG-
66 CGTTGAGGTATTTTCAATTTCTGC
* * *
17604255 TTTT---TTCAATGTTTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGT
1 TTTTCAATTC-CTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-
* ** **
17604315 CACATGTCGAGGTATTTTCAAAATCTAT
64 CAC--GTTGAGGTATTTTCAATTTCTGC
* * * *
17604343 TTTTCAAATT-CAG-TTTTC--AAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCGGGGA
1 TTTTC-AATTCCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
* * *
17604404 ACGTTGAGTTATTTTTAATTTCTTC
65 ACGTTGAGGTATTTTCAATTTCTGC
17604429 TTTTCAATTCCTGCTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTCCTGCTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
17604485 ATCCTAGGTC
Statistics
Matches: 357, Mismatches: 34, Indels: 32
0.84 0.08 0.08
Matches are distributed among these distances:
84 1 0.00
85 48 0.13
86 30 0.08
87 21 0.06
88 46 0.13
89 90 0.25
90 87 0.24
91 32 0.09
92 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (89 bp):
TTTTCAATTCCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
CGTTGAGGTATTTTCAATTTCTGC
Found at i:17604172 original size:14 final size:14
Alignment explanation
Indices: 17604153--17604187 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
17604143 CGCTGAGGTA
*
17604153 TTTTCAATTTCTGC
1 TTTTCAATTCCTGC
17604167 TTTTCAATTCCTGC
1 TTTTCAATTCCTGC
17604181 TTTTCAA
1 TTTTCAA
17604188 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTGC
Found at i:17604172 original size:254 final size:256
Alignment explanation
Indices: 17603675--17604484 Score: 1048
Period size: 254 Copynumber: 3.1 Consensus size: 256
17603665 TCTGCTTGTC
* * * *
17603675 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCAGAGGTATATTCAATTTC
* ***
17603740 TGATTTTCAATTTTC-GTTTGAAATCAACTCATATTGC--GAGGTGAGTTGAGCCTCAGGGCACG
66 TG----TC--TTTTCAATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
* *
17603802 CTGAGGTATTTTCAATTTCTGCTTTTCAATTCTTGCTTTTCAAAAAAATCAACTCATATTGCGAG
125 TTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAATCAACTCATATTGCGAG
* * *
17603867 AGGTGAGTTGAGCCTCAGGGTATGCTGAGGTATTTTCAATTTCTACTTTTCAATTACTGCTTTTC
190 AGGTGAGTTGAGCCTCAGGGAACGCTGAGGTATTTTCAATTTCTACTTTTCAATTCCTGCTTTTC
17603932 AA
255 AA
* * * *
17603934 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCAGAGGTATATTCAATTTC
*
17603999 TG-CTTTTC-A-AAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGTTGAGG
66 TGTCTTTTCAATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGG
*
17604061 TATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAAATCAACTCACATTGCGAGAGGTG
131 TATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTG
* *
17604126 AGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAA
195 AGTTGAGCCTCAGGGAACGCTGAGGTATTTTCAATTTCTACTTTTCAATTCCTGCTTTTCAA
17604188 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCAGAGGTATATTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCAGAGGTATATTCAATTTC
* *
17604253 TGTTTTTTCAATGTTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGTCA
66 TGTCTTTTCAA------T-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CA
* ** ** * *
17604317 CATGTCGAGGTATTTTCAAAATCTATTTTTCAAATT-CAG-TTTTC--AAAAATCAACTCATATG
123 C--GTTGAGGTATTTTCAATTTCTGCTTTTC-AATTCCTGCTTTTCAAAAAAATCAACTCATATT
* * * * *
17604378 GCGAGAGGTGAGTTGAGCCTCGGGGAACGTTGAGTTATTTTTAATTTCTTCTTTTCAATTCCTGC
185 GCGAGAGGTGAGTTGAGCCTCAGGGAACGCTGAGGTATTTTCAATTTCTACTTTTCAATTCCTGC
17604443 TTTTCAAAA
250 TTTTC--AA
17604452 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
17604485 ATCCTAGGTC
Statistics
Matches: 497, Mismatches: 35, Indels: 33
0.88 0.06 0.06
Matches are distributed among these distances:
251 17 0.03
252 5 0.01
253 63 0.13
254 150 0.30
255 5 0.01
256 1 0.00
259 65 0.13
262 79 0.16
263 3 0.01
264 75 0.15
265 5 0.01
266 25 0.05
267 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (256 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCAGAGGTATATTCAATTTC
TGTCTTTTCAATAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGG
TATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
GTTGAGCCTCAGGGAACGCTGAGGTATTTTCAATTTCTACTTTTCAATTCCTGCTTTTCAA
Found at i:17604200 original size:179 final size:179
Alignment explanation
Indices: 17603988--17604484 Score: 649
Period size: 179 Copynumber: 2.8 Consensus size: 179
17603978 CGCTGAGGTA
*
17603988 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCA
1 TTTTCAA-TTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
*
17604053 CGTTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAAATCAACTCACATTGC
65 CGTTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAAATCAACTCATATTGC
** *
17604118 GAGAGGTGAGTTGAGCCTCAGGG-CAC-G-CTGAGGTATTTTCAATTTCTGC
130 GAGAGGTGAGTTGAGCCTC-GGGTCACAGTC-GAGGTATTTTCAAAATCTAC
* *
17604167 TTTTCAATTCCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATT-CTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
** * * *
17604232 CGCAGAGGTATATTCAATTTCTG-TTTT---TTCAATGTTTTTC--AAAAAATCAACTCATATTG
65 CGTTGAGGTATTTTCAATTTCTGCTTTTCAATTC-CTGCTTTTCAAAAAAAATCAACTCATATTG
* *
17604291 CGAGAAGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTAT
129 CGAGAGGTGAGTTGAGCCTCGGGTCACA-GTCGAGGTATTTTCAAAATCTAC
* * * *
17604343 TTTTCAAATTCAG-TTTTC--AAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCGGGGAA
1 TTTTC-AATTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
* * *
17604405 CGTTGAGTTATTTTTAATTTCTTCTTTTCAATTCCTGCTTTTCAAAAAAAAATCAACTCATATTG
65 CGTTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTC-AAAAAAAATCAACTCATATTG
17604470 CGAGAGGTGAGTTGA
129 CGAGAGGTGAGTTGA
17604485 ATCCTAGGTC
Statistics
Matches: 275, Mismatches: 29, Indels: 28
0.83 0.09 0.08
Matches are distributed among these distances:
173 59 0.21
174 44 0.16
175 8 0.03
176 38 0.14
177 8 0.03
178 6 0.02
179 112 0.41
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (179 bp):
TTTTCAATTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
GTTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGCCTCGGGTCACAGTCGAGGTATTTTCAAAATCTAC
Found at i:17604220 original size:343 final size:339
Alignment explanation
Indices: 17603605--17604484 Score: 1158
Period size: 343 Copynumber: 2.6 Consensus size: 339
17603595 TAAAAAAATC
* * * *
17603605 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGCCACCCTGAGGTATTTTTAATTTCTGC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
* * * *
17603670 TTGTC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTT
66 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTT
* * * *
17603733 CAATTTCTGATTTTCAATT--TTCGTTT-----GAAATCAACTCATATTGC--GAGGTGAGTTGA
131 CAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
17603789 GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCTTGCTTTTCAAAAAAATCAA
196 GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAATCAA
* ** * * *
17603854 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTATGCTGAGGTATTTTCAATTTCTACTTTTCA
261 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCAGAGGTATATTCAATTTCT-CTTTT--
*
17603919 ATT-ACTGCTTTTCAAAAA
323 -TTCAATGCTTTTC-AAAA
17603937 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
*
17604002 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGGCACGTTGAGGTATTTT
66 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTT
*
17604067 CAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGA
131 CAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
17604132 GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAATCAA
196 GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAATCAA
*
17604197 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCAGAGGTATATTCAATTTCTGTTTTTTC
261 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCAGAGGTATATTCAATTTCTCTTTTTTC
*
17604262 AATGTTTTTCAAAA
326 AATGCTTTTCAAAA
* **
17604276 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGTCACATG-TCGAGGTATTTTCAAAAT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CAC--GCT-GAGGTATTTTCAATTT
** * * *
17604339 CTATTTTTCAAATTCAGTTTTCAAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCGGGGA
62 CTGCTTTTC--A---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGC
* * *
17604404 ACGTTGAGTTATTTTTAATTTCTTCTTTTCAATTCCTGCTTTTCAAAAAAAAATCAACTCATATT
116 ACGTTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTC-AAAAAAAATCAACTCATATT
17604469 GCGAGAGGTGAGTTGA
180 GCGAGAGGTGAGTTGA
17604485 ATCCTAGGTC
Statistics
Matches: 483, Mismatches: 37, Indels: 35
0.87 0.07 0.06
Matches are distributed among these distances:
332 65 0.13
334 72 0.15
336 5 0.01
338 3 0.01
339 43 0.09
340 9 0.02
341 38 0.08
342 4 0.01
343 128 0.27
346 1 0.00
352 80 0.17
353 35 0.07
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (339 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTTT
CAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTCAATTCCTGCTTTTCAAAAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCAGAGGTATATTCAATTTCTCTTTTTTC
AATGCTTTTCAAAA
Found at i:17609075 original size:18 final size:18
Alignment explanation
Indices: 17609054--17609092 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17609044 TTTTTTCTAA
17609054 TATTATTAAT-ATTATCAC
1 TATTATT-ATCATTATCAC
*
17609072 TATTATTATCATTATTAC
1 TATTATTATCATTATCAC
17609090 TAT
1 TAT
17609093 ATCTTAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTATTATCATTATCAC
Found at i:17609088 original size:30 final size:31
Alignment explanation
Indices: 17609011--17609088 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
17609001 CCTTTCTTAT
*
17609011 TTATTTTCATTACTTTATTAAATATTATTACTA
1 TTATTTTCATTA--TTATTAAATATTATCACTA
*
17609044 TT-TTTTCTAATATTATT-AATATTATCACTA
1 TTATTTTC-ATTATTATTAAATATTATCACTA
*
17609074 TTATTATCATTATTA
1 TTATTTTCATTATTA
17609089 CTATATCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 20 0.51
31 9 0.23
32 5 0.13
33 5 0.13
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (31 bp):
TTATTTTCATTATTATTAAATATTATCACTA
Found at i:17609308 original size:21 final size:20
Alignment explanation
Indices: 17609262--17609308 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
17609252 TGTGTTTTTA
17609262 ATAT-TATATTTTATATATT
1 ATATATATATTTTATATATT
17609281 ATCATATATATTTT-TAGTA-T
1 AT-ATATATATTTTATA-TATT
17609301 ATATATAT
1 ATATATAT
17609309 GTTTATGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 8 0.32
20 7 0.28
21 10 0.40
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
ATATATATATTTTATATATT
Found at i:17609707 original size:20 final size:20
Alignment explanation
Indices: 17609682--17609751 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
17609672 ATTGTATATA
*
17609682 TTTATTATTATTACATTTAT
1 TTTATTATTACTACATTTAT
** *
17609702 TTTATTCCTACTATATTTAT
1 TTTATTATTACTACATTTAT
* * *
17609722 TATTAATATTAGTACATATAT
1 T-TTATTATTACTACATTTAT
17609743 TTTATTATT
1 TTTATTATT
17609752 CTTGCATACA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 24 0.63
21 14 0.37
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (20 bp):
TTTATTATTACTACATTTAT
Found at i:17612752 original size:115 final size:116
Alignment explanation
Indices: 17612475--17612900 Score: 349
Period size: 115 Copynumber: 3.7 Consensus size: 116
17612465 ATTTTTTAAG
* * ** *
17612475 TTTAAGTTTATATTAAAAGTATGATTTGTTTGTTTTATT-AT-TTTTT-TATGATATCTTATAAT
1 TTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAATGTTTTTGTA-G-TATCTTAT-AT
* * *** *
17612537 -ATTTTTTTATATTTAAAAGAAAT-ATTTTTGTTGTTGTTGTTGTTGTGTTTTATTT-GA
63 CATTTTTTTGTGTTTACTTGAAATGA-TATT-TT-TTGTTG-TGTT-T-TTTTATTTAGA
* * * * * * *
17612594 TTTAAGTTTGTTTTAAATGTATAATTAGTCTATTTTATTAATGTTATTGTCGTATCTTATATCAT
1 TTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAATGTTTTTGTAGTATCTTATATCAT
17612659 TTTTTT-TAGTTTGTA-TT-AAA-GATATTTTTTGTTGTGTTTTTTTATTTAG-
66 TTTTTTGT-G-TT-TACTTGAAATGATATTTTTTGTTGTGTTTTTTTATTTAGA
* * *
17612708 TTTTAGATTTGTATTAAAGGTATGATTAATTTATTTTATTAATGTTTTTGTGGTATCTTATATTA
1 TTTAAG-TTTGTATTAAAGGTATGATTAATTTATTTTATTAATGTTTTTGTAGTATCTTATATCA
* * * *
17612773 GTTTTTTGTGTTTACTTGAAATGTTATTTTTTGTTGT-TGTGTTTTA-TTAGC
65 TTTTTTTGTGTTTACTTGAAATGATATTTTTTGTTGTGT-TTTTTTATTTAGA
* * * * *
17612824 TTTAAGTTTGTATT-AAGGTTTGATTAATTTATTTTATTAATTTTTTTGAAGAATCTTATATCAG
1 TTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAATGTTTTTGTAGTATCTTATATCAT
*
17612888 TTTTTTGTATTTA
66 TTTTTTGTGTTTA
17612901 AGGTATGAAC
Statistics
Matches: 258, Mismatches: 33, Indels: 37
0.79 0.10 0.11
Matches are distributed among these distances:
113 2 0.01
114 73 0.28
115 75 0.29
116 30 0.12
117 6 0.02
118 2 0.01
119 38 0.15
120 22 0.09
121 7 0.03
122 3 0.01
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.60
Consensus pattern (116 bp):
TTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAATGTTTTTGTAGTATCTTATATCAT
TTTTTTGTGTTTACTTGAAATGATATTTTTTGTTGTGTTTTTTTATTTAGA
Found at i:17612870 original size:114 final size:111
Alignment explanation
Indices: 17612573--17612900 Score: 365
Period size: 114 Copynumber: 2.9 Consensus size: 111
17612563 TTTGTTGTTG
* * * * * *
17612573 TTGTTGTTGTGTTTTATTTGATTTAAGTTTGTTTTAAATGTATAATTAGTCTATTTTATTAATGT
1 TTGTTGTTGTGTTTTATTAG-TTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAATGT
* * *
17612638 TATTGTCGTATCTTATATCA-TTTTTTTTAGTTTGTATTAAAGATATTTT
65 TTTTGTAGTATCTTATATCAGTTTTTTGT-G-TT-TATTAAAGATATTTT
* *
17612687 TTGTTG-TGTTTTTTTATTTAGTTTTAGATTTGTATTAAAGGTATGATTAATTTATTTTATTAAT
1 TTGTTGTTG-TGTTTTA-TTAGTTTAAG-TTTGTATTAAAGGTATGATTAATTTATTTTATTAAT
* * *
17612751 GTTTTTGTGGTATCTTATATTAGTTTTTTGTGTTTACTTGAAATGTTATTTT
63 GTTTTTGTAGTATCTTATATCAGTTTTTTGTGTTTA-TT-AAA-GATATTTT
* *
17612803 TTGTTGTTGTGTTTTATTAGCTTTAAGTTTGTATT-AAGGTTTGATTAATTTATTTTATTAATTT
1 TTGTTGTTGTGTTTTATTAG-TTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAATGT
* * *
17612867 TTTTGAAGAATCTTATATCAGTTTTTTGTATTTA
65 TTTTGTAGTATCTTATATCAGTTTTTTGTGTTTA
17612901 AGGTATGAAC
Statistics
Matches: 183, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
113 4 0.02
114 77 0.42
115 69 0.38
116 31 0.17
117 2 0.01
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.60
Consensus pattern (111 bp):
TTGTTGTTGTGTTTTATTAGTTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAATGTT
TTTGTAGTATCTTATATCAGTTTTTTGTGTTTATTAAAGATATTTT
Found at i:17612918 original size:114 final size:112
Alignment explanation
Indices: 17612573--17612919 Score: 353
Period size: 115 Copynumber: 3.0 Consensus size: 112
17612563 TTTGTTGTTG
* * * * * *
17612573 TTGTTGTTGTGTTTTATTTGATTTAAGTTTGTTTTAAATGTATAATTAGTCTATTTTATTAATGT
1 TTGTTGTTGTGTTTTATTAG-TTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAATGT
* * * *
17612638 TATTGTCGTATCTTATATCA-TTTTTTTTAGTTT-GTATTAAAGATATTTT
65 TTTTGTAGTATCTTATATCAGTTTTTTGTA-TTTAGTA-TGAA-ATATTTT
* *
17612687 TTGTTG-TGTTTTTTTATTTAGTTTTAGATTTGTATTAAAGGTATGATTAATTTATTTTATTAAT
1 TTGTTGTTG-TGTTTTA-TTAGTTTAAG-TTTGTATTAAAGGTATGATTAATTTATTTTATTAAT
* * * *
17612751 GTTTTTGTGGTATCTTATATTAGTTTTTTGTGTTTACT-TGAAATGTTATTTT
63 GTTTTTGTAGTATCTTATATCAGTTTTTTGTATTTAGTATGAAA---TATTTT
* *
17612803 TTGTTGTTGTGTTTTATTAGCTTTAAGTTTGTATT-AAGGTTTGATTAATTTATTTTATTAATTT
1 TTGTTGTTGTGTTTTATTAG-TTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAATGT
* *
17612867 TTTTGAAGAATCTTATATCAGTTTTTTGTATTTAAGGTATGAACATATTTT
65 TTTTGTAGTATCTTATATCAGTTTTTTGTATTT-A-GTATGAA-ATATTTT
17612918 TT
1 TT
17612920 TATAATTGGT
Statistics
Matches: 194, Mismatches: 25, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
113 3 0.02
114 75 0.39
115 77 0.40
116 32 0.16
117 6 0.03
118 1 0.01
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.59
Consensus pattern (112 bp):
TTGTTGTTGTGTTTTATTAGTTTAAGTTTGTATTAAAGGTATGATTAATTTATTTTATTAATGTT
TTTGTAGTATCTTATATCAGTTTTTTGTATTTAGTATGAAATATTTT
Found at i:17619760 original size:23 final size:24
Alignment explanation
Indices: 17619721--17619785 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
17619711 ATACATAACA
*
17619721 TATATATAA-AAAAATAAT-AA-G
1 TATATAGAATAAAAATAATAAACG
17619742 TAATATAGAATAAAAATAATAAACG
1 T-ATATAGAATAAAAATAATAAACG
17619767 T-TATAGAATAAAACATAAT
1 TATATAGAATAAAA-ATAAT
17619786 TTGAATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 1 0.03
22 7 0.18
23 21 0.55
24 7 0.18
25 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (24 bp):
TATATAGAATAAAAATAATAAACG
Found at i:17619867 original size:15 final size:15
Alignment explanation
Indices: 17619849--17619905 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
17619839 ATGTAAGGGC
*
17619849 AATATATATATAATT
1 AATAAATATATAATT
*
17619864 AATAAATATATAATAC
1 AATAAATATATAAT-T
17619880 AAGTAAA-ATAT-ATT
1 AA-TAAATATATAATT
17619894 AAT-AATATATAA
1 AATAAATATATAA
17619906 AAATAATGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
12 2 0.06
13 5 0.14
14 3 0.09
15 15 0.43
16 6 0.17
17 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
AATAAATATATAATT
Found at i:17619938 original size:14 final size:14
Alignment explanation
Indices: 17619894--17619953 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 14
17619884 AAAATATATT
17619894 AATAATATAT-AAA
1 AATAATATATGAAA
* *
17619907 AATAATGT-T-AAT
1 AATAATATATGAAA
* *
17619919 AATAATTTGTGAAA
1 AATAATATATGAAA
*
17619933 AATAATATATGATA
1 AATAATATATGAAA
17619947 AATAATA
1 AATAATA
17619954 ATAATGTATG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 10 0.26
13 8 0.21
14 20 0.53
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (14 bp):
AATAATATATGAAA
Found at i:17619956 original size:20 final size:19
Alignment explanation
Indices: 17619933--17619974 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
17619923 ATTTGTGAAA
17619933 AATAATATATGATAAATAAT
1 AATAATATATGATAAA-AAT
*
17619953 AATAATGTATGATAAAAAT
1 AATAATATATGATAAAAAT
17619972 AAT
1 AAT
17619975 CTTATAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (19 bp):
AATAATATATGATAAAAAT
Found at i:17620053 original size:3 final size:3
Alignment explanation
Indices: 17620045--17620074 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17620035 ATATATATAC
17620045 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17620075 ATGAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17622399 original size:210 final size:210
Alignment explanation
Indices: 17621769--17622757 Score: 1636
Period size: 210 Copynumber: 4.7 Consensus size: 210
17621759 CCCATTGAAT
* * *
17621769 GTGGAGATGCCAGACTTTGATTTGTTCTCTGACAATACAGAA-ACGAC-AA--ATC----ATTTG
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACA-AAGACGACAAATCATCTTAGATTTG
*
17621826 CTTCATCGTAAACACGTGAAGGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGA
65 CTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGA
* *
17621891 GAGATAAGATCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTGAGATCTGCTATGGG
130 GAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTG
17621956 TCTGCCTTCCATCAAA
195 TCTGCCTTCCATCAAA
* *
17621972 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAAAGGCGACAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAAAGACGACAAATCATCTTAGATTTGC
* * * * *
17622037 TTCATCGTAAACACGTGAAAGCCAAATCTGCCATATC-TTCATCTGGTCCCCGCTGAATACAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAG
* *
17622101 AGATAAGATTTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGGAGGTGAGATCTGCTATGTGT
131 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
17622166 CTGCCTTCCATCAAA
196 CTGCCTTCCATCAAA
*
17622181 GTGGAAATGCTAGACTTCGATTTGTTCTCTGACCATACAAAGACGACAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAAAGACGACAAATCATCTTAGATTTGC
*
17622246 TTCATCGTAAACACGTGAAAGCTAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAG
17622311 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
131 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
17622376 CTGCCTTCCATCAAA
196 CTGCCTTCCATCAAA
* * *
17622391 GAGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAGAGACGACAAATCATTTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAAAGACGACAAATCATCTTAGATTTGC
*
17622456 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCACCGAATACAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAG
* *
17622521 AGATAAGATCTGTTATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTAT
131 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
*
17622586 TTGCCTTCCATCAAA
196 CTGCCTTCCATCAAA
* * *
17622601 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAGAGATGAAAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAAAGACGACAAATCATCTTAGATTTGC
* *
17622666 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCCCGCCGAATACAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAG
*
17622731 AGATAAGATCTGTTATCTTGGATCTGC
131 AGATAAGATCTGTCATCTTGGATCTGC
17622758 CCTGATAATG
Statistics
Matches: 737, Mismatches: 40, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
202 2 0.00
203 41 0.06
204 2 0.00
206 3 0.00
209 196 0.27
210 493 0.67
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (210 bp):
GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAAAGACGACAAATCATCTTAGATTTGC
TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAG
AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
CTGCCTTCCATCAAA
Found at i:17630893 original size:14 final size:14
Alignment explanation
Indices: 17630870--17630899 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17630860 ATTCTGGTTC
17630870 AATTTCATTTAGAA
1 AATTTCATTTAGAA
*
17630884 AATTTTATTTAGAA
1 AATTTCATTTAGAA
17630898 AA
1 AA
17630900 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTTCATTTAGAA
Found at i:17634684 original size:15 final size:14
Alignment explanation
Indices: 17634654--17634725 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
17634644 AATAGAAAAA
17634654 ATATAATAAATAAT
1 ATATAATAAATAAT
17634668 ATATACATAACAT-AT
1 ATATA-ATAA-ATAAT
17634683 ATAT-ATATAA-AA-
1 ATATAATA-AATAAT
*
17634695 A-ATAATAAGTAAT
1 ATATAATAAATAAT
*
17634708 ATAGAATAAA-AAT
1 ATATAATAAATAAT
17634721 A-ATAA
1 ATATAA
17634726 ACGTTATAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
11 3 0.07
12 9 0.20
13 10 0.22
14 12 0.26
15 10 0.22
16 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (14 bp):
ATATAATAAATAAT
Found at i:17634829 original size:15 final size:15
Alignment explanation
Indices: 17634811--17634861 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
17634801 ATGTAAGGGC
*
17634811 AATATATATATAATT
1 AATAAATATATAATT
*
17634826 AATAAATATATAATAC
1 AATAAATATATAAT-T
17634842 AAGTAAAATATATAA-T
1 AA-T-AAATATATAATT
17634858 AATA
1 AATA
17634862 TATAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 1 0.03
15 14 0.47
16 4 0.13
17 1 0.03
18 10 0.33
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AATAAATATATAATT
Found at i:17634920 original size:20 final size:19
Alignment explanation
Indices: 17634897--17634938 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
17634887 ATTTGTGAAA
17634897 AATAATATATGATAAATAAT
1 AATAATATATGATAAA-AAT
*
17634917 AATAATGTATGATAAAAAT
1 AATAATATATGATAAAAAT
17634936 AAT
1 AAT
17634939 CTTATAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (19 bp):
AATAATATATGATAAAAAT
Found at i:17635014 original size:3 final size:3
Alignment explanation
Indices: 17635006--17635032 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
17634996 ATATATATAC
17635006 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
17635033 ATGAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17637187 original size:3 final size:3
Alignment explanation
Indices: 17637174--17637261 Score: 169
Period size: 3 Copynumber: 29.7 Consensus size: 3
17637164 AGAATAGTAG
17637174 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17637221 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
17637262 GTAACAAAAA
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 82 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:17637427 original size:11 final size:12
Alignment explanation
Indices: 17637408--17637437 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
17637398 ATAACAAGTA
17637408 AATAGTAATAAT
1 AATAGTAATAAT
17637420 AATA-TAATAAT
1 AATAGTAATAAT
17637431 AATAGTA
1 AATAGTA
17637438 TATGTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:17637541 original size:12 final size:11
Alignment explanation
Indices: 17637515--17637567 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 11
17637505 GAAATAACAG
*
17637515 TAATAAAAACAA
1 TAATAATAA-AA
17637527 TAATAATAAATA
1 TAATAATAAA-A
17637539 TAATAATAGAAAA
1 TAATAAT--AAAA
17637552 TAATAATGAAAA
1 TAATAAT-AAAA
17637564 TAAT
1 TAAT
17637568 TAATTTGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 1 0.03
12 25 0.68
13 8 0.22
14 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:17638272 original size:13 final size:13
Alignment explanation
Indices: 17638254--17638284 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17638244 ATAGATTTAA
17638254 AAAAAATAAAAAT
1 AAAAAATAAAAAT
*
17638267 AAAAAATAATAAT
1 AAAAAATAAAAAT
17638280 AAAAA
1 AAAAA
17638285 GATGAAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:17640208 original size:14 final size:14
Alignment explanation
Indices: 17640189--17640222 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
17640179 TTAAATAGGT
*
17640189 TAATATTAAAATCC
1 TAATATTAAAATAC
17640203 TAATATTAAAATAC
1 TAATATTAAAATAC
17640217 TAATAT
1 TAATAT
17640223 AATTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATATTAAAATAC
Found at i:17646566 original size:4 final size:4
Alignment explanation
Indices: 17646550--17646595 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
17646540 GTTTACTTAA
* *
17646550 AAAG AAA- AAAG AAAG AAAC AAAG AAAC AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
17646596 ACTTTTTCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 3 0.08
4 34 0.92
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:17649263 original size:18 final size:19
Alignment explanation
Indices: 17649228--17649265 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17649218 TGAATAGGCC
*
17649228 AAATGGGCCGGAATGGGCT
1 AAATGGGCCCGAATGGGCT
17649247 AAATGGGCCCG-ATGGGCT
1 AAATGGGCCCGAATGGGCT
17649265 A
1 A
17649266 TTGGGCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.26, C:0.18, G:0.39, T:0.16
Consensus pattern (19 bp):
AAATGGGCCCGAATGGGCT
Found at i:17649415 original size:29 final size:29
Alignment explanation
Indices: 17649334--17649485 Score: 159
Period size: 29 Copynumber: 5.3 Consensus size: 29
17649324 GTGAGCATGA
* * * *
17649334 ATAT-AATGTGATTTGGGTCGGATGGACC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* * *
17649362 ATATAAATGAG-ATTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
17649390 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* *
17649419 ATATGAACGTGAATTGGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* *
17649448 ATATAAATGAG-ATTGGGCCT-AGTGGGCC
1 ATATGAATGTGAATTGGGCCTGA-TGGGCC
*
17649476 ATATGCATGT
1 ATATGAATGT
17649486 ATATAGGGGT
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
27 1 0.01
28 46 0.45
29 56 0.54
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTGATGGGCC
Found at i:17657752 original size:27 final size:27
Alignment explanation
Indices: 17657722--17657907 Score: 248
Period size: 27 Copynumber: 6.9 Consensus size: 27
17657712 GGCAAAATGA
* * * *
17657722 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
17657749 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
17657776 TAATTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
17657803 TAATTTTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
17657830 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * *
17657857 TAATTCTACCATATAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
17657884 TAA-TCTACCCTACAAGGGTATTTC
1 TAATTCTACCCTACAGGGGTATTTC
17657908 AATAATTTCA
Statistics
Matches: 141, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 18 0.13
27 123 0.87
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:17657857 original size:81 final size:81
Alignment explanation
Indices: 17657722--17657907 Score: 284
Period size: 81 Copynumber: 2.3 Consensus size: 81
17657712 GGCAAAATGA
* * *
17657722 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
1 TAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCA
*
17657787 TACAAGGGTATTTCGG
66 TACAAGGGTATTTCAG
* *
17657803 TAATTTTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCA
1 TAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCA
* *
17657868 TATAGGGGTATTTCAG
66 TACAAGGGTATTTCAG
*
17657884 TAA-TCTACCCTACAAGGGTATTTC
1 TAATTTTACCCTACAAGGGTATTTC
17657908 AATAATTTCA
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 18 0.19
81 76 0.81
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (81 bp):
TAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCA
TACAAGGGTATTTCAG
Found at i:17657940 original size:53 final size:54
Alignment explanation
Indices: 17657762--17657933 Score: 208
Period size: 54 Copynumber: 3.2 Consensus size: 54
17657752 TTCTACCCTA
* * **
17657762 CAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTAC-CCT
1 CAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTTCACAAAT
** * *
17657815 ACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAA-TTCTACCATAT
1 -CAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTTC-A-CAAAT
*
17657871 -AGGGGTATTTCAGTAA-TCTACCCTACAAGGGTATTTCAATAATTTCACAAAT
1 CAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTTCACAAAT
17657923 CAGGGGTATTT
1 CAGGGGTATTT
17657934 TGGTAATTTC
Statistics
Matches: 101, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
52 4 0.04
53 37 0.37
54 58 0.57
55 1 0.01
56 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (54 bp):
CAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTTCACAAAT
Found at i:17657975 original size:54 final size:54
Alignment explanation
Indices: 17657910--17658050 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 54
17657900 GGTATTTCAA
* *
17657910 TAATTTCACAAATCAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGG
*
17657964 TAATTTTACAAACCAGTGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGG
* *
17658018 CAATTTTACAAGCCAGGGGTATTTTGGTAATTT
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTT
17658051 TGTTAATCAA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (54 bp):
TAATTTTACAAACCAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGG
Found at i:17657985 original size:107 final size:108
Alignment explanation
Indices: 17657738--17657987 Score: 276
Period size: 107 Copynumber: 2.3 Consensus size: 108
17657728 TACCCCACAA
* * ** **
17657738 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
1 GGGTATTTCAGTAATTCTACCAAACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAA
* ** **
17657803 TAATTTTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAG
66 TAATTTCACAATACAGGGGTATTTTGGTAATTCTACCAAACAG
* *
17657846 GGGTATTTCAGTAATTCTACCATATAGGGGTATTTCAGTAA-TCTACCCTACAAGGGTATTTCAA
1 GGGTATTTCAGTAATTCTACCAAACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAA
17657910 TAATTTCACAA-ATCAGGGGTATTTTGGTAATT-T-CACAAACTAG
66 TAATTTCACAATA-CAGGGGTATTTTGGTAATTCTAC-CAAAC-AG
** * *
17657953 GGGTATTTTGGTAATTTTA-CAAACCAGTGGTATTT
1 GGGTATTTCAGTAATTCTACCAAA-CAGGGGTATTT
17657988 TGGTAATTTC
Statistics
Matches: 121, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
105 1 0.01
106 8 0.07
107 75 0.62
108 37 0.31
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (108 bp):
GGGTATTTCAGTAATTCTACCAAACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAA
TAATTTCACAATACAGGGGTATTTTGGTAATTCTACCAAACAG
Found at i:17658051 original size:27 final size:27
Alignment explanation
Indices: 17657910--17658051 Score: 203
Period size: 27 Copynumber: 5.3 Consensus size: 27
17657900 GGTATTTCAA
* *
17657910 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
17657937 TAATTTCACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
17657964 TAATTTTACAAACCAGTGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
17657991 TAATTTCACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
17658018 CAATTTTACAAGCCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
17658045 TAATTTT
1 TAATTTT
17658052 GTTAATCAAG
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:17658064 original size:27 final size:27
Alignment explanation
Indices: 17658034--17658110 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 27
17658024 TACAAGCCAG
* *
17658034 GGGTATTTTGGTAATTTTGTTAATCAA
1 GGGTAATTTGGTAATTTTGTAAATCAA
*** *
17658061 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTAATTTGGTAATTTTGTAAATCAA
* * *
17658088 TGGTACTTTGGTAATTTGGTAAA
1 GGGTAATTTGGTAATTTTGTAAA
17658111 CTAAAGTATT
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTAATTTGGTAATTTTGTAAATCAA
Found at i:17658074 original size:81 final size:81
Alignment explanation
Indices: 17657910--17658076 Score: 194
Period size: 81 Copynumber: 2.1 Consensus size: 81
17657900 GGTATTTCAA
* *
17657910 TAATTTCACAAATCAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAA
1 TAATTTCACAAATCAGGGGTATTTTGGCAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAA
* ****
17657975 ACCAGTGGTATTTTGG
66 ACAAGTGGTAAAACGG
* * **
17657991 TAATTTCACAAA-CTAGGGGTATTTTGGCAATTTTACAAGCCAGGGGTATTTTGGTAATTTTGTT
1 TAATTTCACAAATC-AGGGGTATTTTGGCAATTTCACAAACCAGGGGTATTTTGGTAATTTT-AC
*
17658055 AATCAAG-GGTAAAACGG
64 AAACAAGTGGTAAAACGG
17658072 TAATT
1 TAATT
17658077 CTGTAAATCA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
80 1 0.01
81 66 0.92
82 5 0.07
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.37
Consensus pattern (81 bp):
TAATTTCACAAATCAGGGGTATTTTGGCAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAA
ACAAGTGGTAAAACGG
Found at i:17659087 original size:17 final size:18
Alignment explanation
Indices: 17659065--17659102 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
17659055 GTTTACCAAG
*
17659065 AGATACAATTGTTCAA-A
1 AGATACAACTGTTCAATA
17659082 AGATACAACTGTTCAATA
1 AGATACAACTGTTCAATA
17659100 AGA
1 AGA
17659103 GACAGAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (18 bp):
AGATACAACTGTTCAATA
Found at i:17659402 original size:7 final size:7
Alignment explanation
Indices: 17659390--17659415 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17659380 AAGTTTCTTT
17659390 TATTTAA
1 TATTTAA
17659397 TATTTAA
1 TATTTAA
17659404 TATTTAA
1 TATTTAA
17659411 TATTT
1 TATTT
17659416 GATTATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATTTAA
Found at i:17664296 original size:3 final size:3
Alignment explanation
Indices: 17664288--17664315 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17664278 ATATATATAT
17664288 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17664316 AAGCTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:17664864 original size:23 final size:24
Alignment explanation
Indices: 17664838--17664883 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
17664828 TAAACTTCTC
* *
17664838 TTTTATATTATA-TTGTTTTAAAA
1 TTTTATATAATATTTATTTTAAAA
*
17664861 TTTTGTATAATATTTATTTTAAA
1 TTTTATATAATATTTATTTTAAA
17664884 TTACCTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTTATATAATATTTATTTTAAAA
Found at i:17667147 original size:56 final size:56
Alignment explanation
Indices: 17667061--17667180 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
17667051 ACAAGGGATG
17667061 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
17667117 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
17667173 ATGGGCAA
1 ATGGGCAA
17667181 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:17669817 original size:22 final size:22
Alignment explanation
Indices: 17669789--17669910 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
17669779 TTCCACATCC
17669789 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
17669811 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
17669835 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
17669858 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
17669882 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
17669905 ATCACA
1 ATCACA
17669911 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:17669824 original size:47 final size:47
Alignment explanation
Indices: 17669761--17670496 Score: 1088
Period size: 47 Copynumber: 15.6 Consensus size: 47
17669751 CCCTTCGGGA
* * *
17669761 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
17669808 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
17669855 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
17669902 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
17669949 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
17669996 CTTATCTCACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
17670043 CTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
17670090 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
17670137 CTTATCAGACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
17670184 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
17670231 CTTATCACACATACACATGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
17670278 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
17670327 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
17670374 CTTATCACATATACACATGTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
17670421 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
17670470 CTTATCACATATATACACT-TTCACATT
1 CTTATCACATATATACA-TGTTCACATT
17670497 TATTCAAATA
Statistics
Matches: 647, Mismatches: 34, Indels: 16
0.93 0.05 0.02
Matches are distributed among these distances:
46 2 0.00
47 558 0.86
49 85 0.13
50 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:17670051 original size:22 final size:22
Alignment explanation
Indices: 17670024--17670098 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
17670014 GTTCACATTC
17670024 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
17670046 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
17670070 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
17670093 ATCACA
1 ATCACA
17670099 CATACACATG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 16 0.40
23 7 0.17
24 7 0.17
25 10 0.25
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:17670336 original size:22 final size:22
Alignment explanation
Indices: 17670308--17670430 Score: 68
Period size: 22 Copynumber: 5.3 Consensus size: 22
17670298 TTTCACATTC
17670308 ATCACATTGGCCATTAGGCCTT
1 ATCACATTGGCCATTAGGCCTT
*** *** *
17670330 ATCACATATATACACTTTCACATT
1 ATCACAT-TGGCCA-TTAGGCCTT
17670354 CATCACATTGGCCATTAGGCCTT
1 -ATCACATTGGCCATTAGGCCTT
* *** *
17670377 ATCACATAT-ACACATGTTCACATT
1 ATCACAT-TGGC-CAT-TAGGCCTT
17670401 CATCACATTGGCCATTAGGCCTT
1 -ATCACATTGGCCATTAGGCCTT
17670424 ATCACAT
1 ATCACAT
17670431 ATATATACAC
Statistics
Matches: 69, Mismatches: 24, Indels: 16
0.63 0.22 0.15
Matches are distributed among these distances:
22 22 0.32
23 16 0.23
24 16 0.23
25 15 0.22
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTAGGCCTT
Found at i:17675539 original size:40 final size:39
Alignment explanation
Indices: 17675455--17675718 Score: 203
Period size: 40 Copynumber: 6.6 Consensus size: 39
17675445 TCGAATGATG
* * * *
17675455 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
17675495 TCCGGACTAAGATCCGAAGGCATTTGTCCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
17675535 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
17675574 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
** * * **
17675615 -CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAGT-CCGAAG-GCATTTGTGCGAGTTACTAAA
** * * **
17675654 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAG-TCCGAAG-GCATTTGTGCGAGTTACTAAA
17675694 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGT-CCGAAG-GCATT
17675719 CATGCTAGTG
Statistics
Matches: 194, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
39 36 0.19
40 136 0.70
41 22 0.11
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Done.