Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 46 of 332
Found at i:13870452 original size:35 final size:37
Alignment explanation
Indices: 13870406--13870485 Score: 119
Period size: 39 Copynumber: 2.2 Consensus size: 37
13870396 TGTTGATGAT
*
13870406 AATTCAATATGGTTATG-TTTTTT-TTTTTAGAGTTC
1 AATTCTATATGGTTATGTTTTTTTATTTTTAGAGTTC
13870441 AATTCTATATGGTTATGTTTTTTTTTATTTTTAGAGTTC
1 AATTCTATATGGTTATG--TTTTTTTATTTTTAGAGTTC
13870480 AATTCT
1 AATTCT
13870486 TACTCACTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 16 0.40
38 6 0.15
39 18 0.45
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.59
Consensus pattern (37 bp):
AATTCTATATGGTTATGTTTTTTTATTTTTAGAGTTC
Found at i:13870632 original size:66 final size:65
Alignment explanation
Indices: 13870562--13870880 Score: 203
Period size: 66 Copynumber: 5.2 Consensus size: 65
13870552 AAATATATTT
13870562 AATATTAATTATTTCAAATTATCTTTTATAGTACAATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTATCTTTTATAGTACAATATATTATGATTTGAGTAAATTCATATAA
13870627 G
65 G
* *
13870628 AATATTAATTA-TTAAGA--A--TTTTAT--TA-AAT-TA-TAT-ATTTTAATTAAGA-T-ATAT
1 AATATTAATTATTTAA-ATTATCTTTTATAGTACAATATATTATGA-TTTGAGTAA-ATTCATAT
**
13870680 -TT
63 AAG
*
13870682 AATAATAATTATGTTAAATTATCTTTTATAGTATC-ATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTATCTTTTATAGTA-CAATATATTATGATTTGAGTAAATTCATATA
13870746 AG
64 AG
* *
13870748 AATATTAATTA-TTAAGA--A--TTTTAT--TA-AAT-TA-TAT-ATTTTAATTATAA-T-ATAT
1 AATATTAATTATTTAA-ATTATCTTTTATAGTACAATATATTATGA-TTTGAGTA-AATTCATAT
**
13870800 -TT
63 AAG
* * * * *
13870802 AATAATAATTATATTAATTTATATTTTATAGTATC-ATATATTATTATTTGAGTAAATTCATATC
1 AATATTAATTAT-TTAAATTATCTTTTATAGTA-CAATATATTATGATTTGAGTAAATTCATATA
13870866 AG
64 AG
13870868 AATATTAATTATT
1 AATATTAATTATT
13870881 AAGAATTTTA
Statistics
Matches: 193, Mismatches: 21, Indels: 79
0.66 0.07 0.27
Matches are distributed among these distances:
54 20 0.10
55 11 0.06
56 29 0.15
57 9 0.05
58 5 0.03
59 16 0.08
61 16 0.08
62 4 0.02
63 9 0.05
64 27 0.14
65 15 0.08
66 32 0.17
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (65 bp):
AATATTAATTATTTAAATTATCTTTTATAGTACAATATATTATGATTTGAGTAAATTCATATAAG
Found at i:13870664 original size:61 final size:61
Alignment explanation
Indices: 13870597--13870904 Score: 257
Period size: 61 Copynumber: 5.1 Consensus size: 61
13870587 TTATAGTACA
*
13870597 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * ** *
13870658 ATATATT-TTAATTAAGATATATTTA-ATAATAATTATGTTAA--ATT-A-TCTTTTA-TAGTAT
1 ATATATTATTATTTGAG-TAAATTCATATAAGAA-TA--TTAATTATTAAGAATTTTATTA-AAT
*
13870716 C
61 T
*
13870717 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * *
13870778 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATATTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
13870836 C
61 T
*
13870837 ATATATTATTATTTGAGTAAATTCATATCAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
13870898 ATATATT
1 ATATATT
13870905 TTAATTAAAA
Statistics
Matches: 187, Mismatches: 36, Indels: 48
0.69 0.13 0.18
Matches are distributed among these distances:
57 15 0.08
58 10 0.05
59 44 0.24
60 43 0.23
61 51 0.27
62 10 0.05
63 14 0.07
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:13870780 original size:69 final size:69
Alignment explanation
Indices: 13870707--13870900 Score: 172
Period size: 69 Copynumber: 3.1 Consensus size: 69
13870697 AAATTATCTT
*
13870707 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATAATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
13870772 TAAA
66 TAAA
** * * ** *
13870776 TTATA-TATTTTA-ATTATAA--T-A-T--ATTTA-ATAA-TA-ATT-A-TATTAA-TT-TATAT
1 TTATAGTATCATATATTATAATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
13870826 T---
66 TAAA
* *
13870827 TTATAGTATCATATATTATTATTTGAGTAAATTCATATCAGAATATTAATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATAATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
13870892 TAAA
66 TAAA
13870896 TTATA
1 TTATA
13870901 TATTTTAATT
Statistics
Matches: 90, Mismatches: 17, Indels: 36
0.63 0.12 0.25
Matches are distributed among these distances:
51 5 0.06
52 5 0.06
53 6 0.07
54 5 0.06
55 1 0.01
56 7 0.08
57 2 0.02
58 3 0.03
59 5 0.06
60 7 0.08
61 5 0.06
62 3 0.03
63 2 0.02
64 7 0.08
65 1 0.01
66 5 0.06
67 6 0.07
68 5 0.06
69 10 0.11
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (69 bp):
TTATAGTATCATATATTATAATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
TAAA
Found at i:13870804 original size:15 final size:15
Alignment explanation
Indices: 13870769--13870820 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
13870759 TTAAGAATTT
*
13870769 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13870783 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13870797 TATTTAATAATAAT-
1 TATTTAATTATAATA
13870811 TATATTAATT
1 TAT-TTAATT
13870821 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13870913 original size:18 final size:18
Alignment explanation
Indices: 13870885--13870935 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
13870875 ATTATTAAGA
13870885 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
13870902 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
13870918 A-TTTAATAATAATTATAT
1 ATTTTAATTA-AATTATAT
13870936 TTAAATATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 5 0.17
18 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:13870934 original size:120 final size:120
Alignment explanation
Indices: 13870524--13870941 Score: 714
Period size: 120 Copynumber: 3.5 Consensus size: 120
13870514 AATTATTTTA
* *
13870524 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATT-AAATTATCTTT
13870588 TATAGTA-CAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATC-ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
13870644 AATTTTATTAAATTATATATTTTAATTAAGATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTAAATTATCTTTT
13870709 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
13870764 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTAAATTATCTTTT
* *
13870829 ATAGTATCATATATTATTATTTGAGTAAATTCATATCAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
13870884 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATA-TTAAAT
13870942 ATGATTAAAT
Statistics
Matches: 283, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
120 275 0.97
121 8 0.03
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:13871165 original size:45 final size:44
Alignment explanation
Indices: 13871084--13871174 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
13871074 ACTTCTATTC
*
13871084 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** *
13871128 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
13871173 CA
1 CA
13871175 CCTCTATTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:13871174 original size:16 final size:16
Alignment explanation
Indices: 13871153--13871222 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
13871143 TTGATTTGCT
*
13871153 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
13871169 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
13871185 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
* *
13871201 AATACATCTCTAATCC
1 ATTACACCTCTAATCC
*
13871217 AATACA
1 ATTACA
13871223 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.33, C:0.34, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:13872118 original size:15 final size:16
Alignment explanation
Indices: 13872098--13872132 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
13872088 CTATAAATTT
13872098 TTTTATTTTTTTGTA-
1 TTTTATTTTTTTGTAC
13872113 TTTTATTTTTTTGTAC
1 TTTTATTTTTTTGTAC
13872129 TTTT
1 TTTT
13872133 TCCATCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.80
Consensus pattern (16 bp):
TTTTATTTTTTTGTAC
Found at i:13872952 original size:17 final size:18
Alignment explanation
Indices: 13872930--13872964 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13872920 AAAACTCCTA
*
13872930 AATAATT-TAAAATATTT
1 AATAATTATAAAAAATTT
13872947 AATAATTATAAAAAATTT
1 AATAATTATAAAAAATTT
13872965 TGAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATTATAAAAAATTT
Found at i:13892306 original size:24 final size:24
Alignment explanation
Indices: 13892277--13892324 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
13892267 ATATTAAATC
13892277 TTATTAAAATAACAGAATTTTTAT
1 TTATTAAAATAACAGAATTTTTAT
13892301 TTATTAAAATAACAGAATTTTTAT
1 TTATTAAAATAACAGAATTTTTAT
13892325 CTCGTAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
TTATTAAAATAACAGAATTTTTAT
Found at i:13892360 original size:17 final size:17
Alignment explanation
Indices: 13892338--13892426 Score: 64
Period size: 17 Copynumber: 5.4 Consensus size: 17
13892328 GTAGATAAAC
13892338 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
*
13892355 ATTAAAATAACCACTTTAAT
1 ATTAAATTAA--A-TTTAAT
13892375 ATTAAATTAAA---AAT
1 ATTAAATTAAATTTAAT
* * *
13892389 AAT-ATTTAGA--TAAGT
1 ATTAAATTAAATTTAA-T
13892404 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
13892421 ATTAAA
1 ATTAAA
13892427 CTATTAAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
13 5 0.09
14 7 0.12
15 3 0.05
16 5 0.09
17 16 0.29
18 4 0.07
19 1 0.02
20 15 0.27
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTAAATTAAATTTAAT
Found at i:13892364 original size:29 final size:29
Alignment explanation
Indices: 13892332--13892426 Score: 73
Period size: 29 Copynumber: 3.0 Consensus size: 29
13892322 TATCTCGTAG
13892332 ATAAACATTAAATTAAATTTAATATTAAA
1 ATAAACATTAAATTAAATTTAATATTAAA
* * *
13892361 ATAACCACTTTAATATTAAATTAAAAATAATATTTAG
1 ATAA--ACATTAA-ATTAAATT-----TAATATTAAA
**
13892398 ATAAGTATTAAATTAAATTTAATATTAAA
1 ATAAACATTAAATTAAATTTAATATTAAA
13892427 CTATTAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 16
0.68 0.11 0.22
Matches are distributed among these distances:
29 12 0.24
31 6 0.12
32 8 0.16
34 8 0.16
35 4 0.08
37 12 0.24
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (29 bp):
ATAAACATTAAATTAAATTTAATATTAAA
Found at i:13894058 original size:16 final size:16
Alignment explanation
Indices: 13894037--13894067 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13894027 CTATGCATGC
*
13894037 AAAATATAAAAGACAA
1 AAAATAAAAAAGACAA
13894053 AAAATAAAAAAGACA
1 AAAATAAAAAAGACA
13894068 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAGACAA
Found at i:13894567 original size:23 final size:23
Alignment explanation
Indices: 13894540--13894587 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
13894530 ACTTACACTA
13894540 ATTAAACATGTATAACTATATGC
1 ATTAAACATGTATAACTATATGC
13894563 ATTAAACATGTATAACTATATGC
1 ATTAAACATGTATAACTATATGC
13894586 AT
1 AT
13894588 ATATCTACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (23 bp):
ATTAAACATGTATAACTATATGC
Found at i:13896372 original size:19 final size:20
Alignment explanation
Indices: 13896344--13896381 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13896334 TTAATTATTT
*
13896344 ATTAATTAATT-ACAATTAA
1 ATTAACTAATTAACAATTAA
13896363 ATTAACTAATTAACAATTA
1 ATTAACTAATTAACAATTA
13896382 GCTAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTAACTAATTAACAATTAA
Found at i:13897542 original size:21 final size:21
Alignment explanation
Indices: 13897512--13897565 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
13897502 ATTATTTTCC
*
13897512 TTTTCTTTCC-TTTTCTATTTT
1 TTTTCCTTCCTTTTTCT-TTTT
13897533 TTTTCCTTCCCTTTTTCTTTTT
1 TTTTCCTT-CCTTTTTCTTTTT
*
13897555 TCTTCTCTTCC
1 TTTTC-CTTCC
13897566 CCCAGTTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 7 0.25
22 12 0.43
23 9 0.32
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTCCTTCCTTTTTCTTTTT
Found at i:13897554 original size:22 final size:24
Alignment explanation
Indices: 13897504--13897566 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 24
13897494 ATGATGTCAT
* * *
13897504 TATTTTCCTTTTCTTTCC-TTTTC
1 TATTTTTCTTCTCTTCCCTTTTTC
*
13897527 TATTTTTTTTC-CTTCCCTTTTTC
1 TATTTTTCTTCTCTTCCCTTTTTC
13897550 T-TTTTTCTTCTCTTCCC
1 TATTTTTCTTCTCTTCCC
13897567 CCAGTTCCTC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 13 0.39
23 20 0.61
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (24 bp):
TATTTTTCTTCTCTTCCCTTTTTC
Found at i:13903796 original size:21 final size:21
Alignment explanation
Indices: 13903754--13903795 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13903744 TTTAAAATTT
*
13903754 TAAAATATATAATCTAAAAAA
1 TAAAATATATAATATAAAAAA
*
13903775 TAAAATATATATATATTAAAA
1 TAAAATATATA-ATATAAAAA
13903796 TTATAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAATATATAATATAAAAAA
Found at i:13904636 original size:25 final size:25
Alignment explanation
Indices: 13904588--13904636 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13904578 ACTTTTTTAT
*
13904588 AATTATATTTAAAATAATATATATA
1 AATTATATTTAAAATAATAAATATA
13904613 AATTATATTTTAAAATAA-AAATAT
1 AATTATA-TTTAAAATAATAAATAT
13904637 TTAGTTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AATTATATTTAAAATAATAAATATA
Found at i:13912186 original size:10 final size:9
Alignment explanation
Indices: 13912173--13912275 Score: 52
Period size: 9 Copynumber: 11.1 Consensus size: 9
13912163 CTTTATAAAA
13912173 TTTTATAATT
1 TTTTAT-ATT
13912183 TTTT-TATAT
1 TTTTATAT-T
*
13912192 TTCTATA-T
1 TTTTATATT
13912200 TTTTATAATT
1 TTTTAT-ATT
*
13912210 TTTTACGA-T
1 TTTTA-TATT
* **
13912219 TGTTATAAAA
1 TTTTAT-ATT
13912229 TTTTATATT
1 TTTTATATT
13912238 TTTTACTA-T
1 TTTTA-TATT
13912247 TTTTATATT
1 TTTTATATT
*
13912256 TTTTCTAATT
1 TTTTAT-ATT
*
13912266 TTTAATATT
1 TTTTATATT
13912275 T
1 T
13912276 GAAATGTTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
8 10 0.14
9 34 0.48
10 27 0.38
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTATATT
Found at i:13912225 original size:27 final size:26
Alignment explanation
Indices: 13912173--13912268 Score: 88
Period size: 28 Copynumber: 3.5 Consensus size: 26
13912163 CTTTATAAAA
13912173 TTTTATAATTTTTTTA-TATTTCTATAT
1 TTTTATAA-TTTTTTACTATTT-TATAT
* *
13912200 TTTTATAATTTTTTACGATTGTTATAAAA
1 TTTTATAATTTTTTACTATT-TTAT--AT
13912229 TTTTAT-ATTTTTTACTATTTTTATATT
1 TTTTATAATTTTTTACTA-TTTTATA-T
*
13912256 TTTTCTAATTTTT
1 TTTTATAATTTTT
13912269 AATATTTGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
26 8 0.14
27 19 0.33
28 21 0.37
29 9 0.16
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTTATAATTTTTTACTATTTTATAT
Found at i:13912252 original size:18 final size:18
Alignment explanation
Indices: 13912229--13912275 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
13912219 TGTTATAAAA
13912229 TTTTATATTTTTTACT-AT
1 TTTTATATTTTTT-CTAAT
13912247 TTTTATATTTTTTCTAAT
1 TTTTATATTTTTTCTAAT
13912265 TTTTAATATTT
1 TTTT-ATATTT
13912276 GAAATGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.07
18 19 0.70
19 6 0.22
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATATTTTTTCTAAT
Found at i:13912255 original size:8 final size:8
Alignment explanation
Indices: 13912183--13912258 Score: 53
Period size: 8 Copynumber: 8.6 Consensus size: 8
13912173 TTTTATAATT
13912183 TTTTTATA
1 TTTTTATA
*
13912191 TTTCTATA
1 TTTTTATA
13912199 TTTTTATAA
1 TTTTTAT-A
*
13912208 TTTTTTACGA
1 -TTTTTA-TA
*
13912218 TTGTTATAAA
1 TT-TT-TATA
*
13912228 ATTTTATA
1 TTTTTATA
13912236 TTTTTTACTA
1 -TTTTTA-TA
13912246 TTTTTATA
1 TTTTTATA
13912254 TTTTT
1 TTTTT
13912259 TCTAATTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
8 23 0.43
9 16 0.30
10 13 0.24
11 2 0.04
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (8 bp):
TTTTTATA
Found at i:13914235 original size:23 final size:22
Alignment explanation
Indices: 13914209--13914271 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
13914199 TTATACTATT
*
13914209 TATTATTTTACATTTTAACAATA
1 TATTATTTTATATTTTAA-AATA
* * *
13914232 TATTATTTCATATTGTAAATTA
1 TATTATTTTATATTTTAAAATA
13914254 TAATTATTTTATATTTTA
1 T-ATTATTTTATATTTTA
13914272 TACCTTTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 4 0.12
23 29 0.88
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTATTTTATATTTTAAAATA
Found at i:13914559 original size:17 final size:16
Alignment explanation
Indices: 13914546--13914603 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
13914536 CCAATATATT
13914546 TTATATTTTTATATAA
1 TTATATTTTTATATAA
*
13914562 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
13914578 -TATATTTTTATTATATA
1 TTATATTTTTA-TATA-A
13914595 TTATATTTT
1 TTATATTTT
13914604 AAATATGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 7 0.20
15 4 0.11
16 6 0.17
17 10 0.29
18 8 0.23
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:13914604 original size:17 final size:17
Alignment explanation
Indices: 13914539--13914604 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
13914529 TTATATACCA
*
13914539 ATATATTTTATATTT-TT
1 ATATATTATAT-TTTATT
13914556 ATATAATTATTATTCTTA-T
1 ATAT-ATTA-TATT-TTATT
*
13914575 AAATA-TAT-TTTTATT
1 ATATATTATATTTTATT
13914590 ATATATTATATTTTA
1 ATATATTATATTTTA
13914605 AATATGTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
14 3 0.08
15 7 0.18
16 4 0.10
17 11 0.28
18 5 0.13
19 9 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATATTTTATT
Found at i:13921985 original size:25 final size:25
Alignment explanation
Indices: 13921957--13922004 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
13921947 ATTGTATCAT
*
13921957 TTTTATCAACTAATATTCTTTTAAA
1 TTTTAGCAACTAATATTCTTTTAAA
* * *
13921982 TTTTGGCAATTATTATTCTTTTA
1 TTTTAGCAACTAATATTCTTTTA
13922005 TTCATAGCAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTTAGCAACTAATATTCTTTTAAA
Found at i:13926994 original size:206 final size:206
Alignment explanation
Indices: 13926469--13927012 Score: 898
Period size: 205 Copynumber: 2.6 Consensus size: 206
13926459 TGGCTGAAAG
*
13926469 AAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGA-AAATCGAAGACATAGCTGATTTG
1 AAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGA-ACAAATCGAAGACATAGCTGATTTG
* *
13926533 GCTTTCACGTATTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTAATGTCAGAGAACA
65 GCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACA
* *
13926598 AATCGAAGTCTGGCATCTCCACTTCAACGGGAAGCAGATACATAGCAGATCTCACCTTCAGATGT
130 AATCAAAGTCTGGCATCTCCACTTCAACGGGAAGCAGATACATAGCAGATCTCACCTTCAGATAT
*
13926663 TTATACTGAAGC
195 TTACACTGAAGC
* *
13926675 -AGATCCAAGATGATTTGGCATCCTTGTGCTTATAA-GAAGCGAATCGAAGACATAGCTGATTTG
1 AAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAA-CAAATCGAAGACATAGCTGATTTG
13926738 GCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACA
65 GCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACA
* * *
13926803 AATCAAAGTCTGGCATCTCTACTTTAACGGGGAGCAGATACATAGCAGATCTCACCTTCAGATAA
130 AATCAAAGTCTGGCATCTCCACTTCAACGGGAAGCAGATACATAGCAGATCTCACCTTCAGAT-A
13926868 TTT-CACTGAAGC
194 TTTACACTGAAGC
* *
13926880 AAGATCCAAGATGATTTGACATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGG
1 AAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGG
* *
13926945 CTTTCACATGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
66 CTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
13927010 ATC
131 ATC
13927013 GAAGAAGCAG
Statistics
Matches: 316, Mismatches: 17, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
203 1 0.00
204 2 0.01
205 185 0.59
206 125 0.40
207 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (206 bp):
AAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGG
CTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
ATCAAAGTCTGGCATCTCCACTTCAACGGGAAGCAGATACATAGCAGATCTCACCTTCAGATATT
TACACTGAAGC
Found at i:13928780 original size:88 final size:88
Alignment explanation
Indices: 13928674--13928835 Score: 209
Period size: 88 Copynumber: 1.8 Consensus size: 88
13928664 ATATTACTTC
* * * * ** *
13928674 ATATCTTTCTATTATTATATTAATATATATTTTAAC-ATATATCATTACTTATTATTTATTATAG
1 ATATCTTTATACTATTATATTAATATACATTTTAACAATATATCATTACATATTATAAATTATAA
13928738 TATATTTTATCACATAATGTTTAT
66 T-TATTTTATCACATAATGTTTAT
* * * *
13928762 ATATCTTTATACTATTATATTATTTTACATTTTAACAATATATTATTTCATATTATAAATTATAA
1 ATATCTTTATACTATTATATTAATATACATTTTAACAATATATCATTACATATTATAAATTATAA
13928827 TTATTTTAT
66 TTATTTTAT
13928836 ATTTTATACC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
88 39 0.63
89 23 0.37
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (88 bp):
ATATCTTTATACTATTATATTAATATACATTTTAACAATATATCATTACATATTATAAATTATAA
TTATTTTATCACATAATGTTTAT
Found at i:13928803 original size:23 final size:22
Alignment explanation
Indices: 13928777--13928841 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
13928767 TTTATACTAT
*
13928777 TATATTATTTTACATTTTAACAA
1 TATATTATTTTATATTTTAA-AA
* * *
13928800 TATATTATTTCATATTATAAAT
1 TATATTATTTTATATTTTAAAA
13928822 TATAATTATTTTATATTTTA
1 TAT-ATTATTTTATATTTTA
13928842 TACCTTTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 4 0.11
23 31 0.89
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (22 bp):
TATATTATTTTATATTTTAAAA
Found at i:13929130 original size:17 final size:16
Alignment explanation
Indices: 13929117--13929174 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
13929107 CCAATATATT
13929117 TTATATTTTTATATAA
1 TTATATTTTTATATAA
*
13929133 TTATTATTCTTATA-AA
1 TTA-TATTTTTATATAA
13929149 -TATATTTTTATTATATA
1 TTATATTTTTA-TATA-A
13929166 TTATATTTT
1 TTATATTTT
13929175 AAATATGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 7 0.20
15 4 0.11
16 6 0.17
17 10 0.29
18 8 0.23
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATATTTTTATATAA
Found at i:13929175 original size:17 final size:17
Alignment explanation
Indices: 13929110--13929175 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
13929100 TTATATACCA
*
13929110 ATATATTTTATATTT-TT
1 ATATATTATAT-TTTATT
13929127 ATATAATTATTATTCTTA-T
1 ATAT-ATTA-TATT-TTATT
*
13929146 AAATA-TAT-TTTTATT
1 ATATATTATATTTTATT
13929161 ATATATTATATTTTA
1 ATATATTATATTTTA
13929176 AATATGTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
14 3 0.08
15 7 0.18
16 4 0.10
17 11 0.28
18 5 0.13
19 9 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATATTTTATT
Found at i:13930427 original size:20 final size:20
Alignment explanation
Indices: 13930391--13930428 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13930381 CAACTGTTGA
*
13930391 ATTTTACTATTGATTTTTTT
1 ATTTTAATATTGATTTTTTT
13930411 ATTTTAATACTTG-TTTTT
1 ATTTTAATA-TTGATTTTT
13930429 GTTCCTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (20 bp):
ATTTTAATATTGATTTTTTT
Found at i:13937401 original size:29 final size:30
Alignment explanation
Indices: 13937359--13937415 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
13937349 AAATTTGGGG
*
13937359 GTTAAAATTAAATTAT-AT-ATTTTATTAGA
1 GTTAAAATGAAATT-TGATCATTTTATTAGA
*
13937388 GTTAAAATGCAATTTGATCATTTTATTA
1 GTTAAAATGAAATTTGATCATTTTATTA
13937416 ACTTAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 14 0.58
30 9 0.38
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (30 bp):
GTTAAAATGAAATTTGATCATTTTATTAGA
Found at i:13938267 original size:16 final size:17
Alignment explanation
Indices: 13938238--13938277 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
13938228 ATTAATCAAA
*
13938238 CTAACTAAATTAATTTT
1 CTAACTAAAATAATTTT
13938255 CTAA-TAAAATAATTTT
1 CTAACTAAAATAATTTT
13938271 CTTAACT
1 C-TAACT
13938278 TAGTTCTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 12 0.60
17 7 0.35
18 1 0.05
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
CTAACTAAAATAATTTT
Found at i:13939861 original size:18 final size:18
Alignment explanation
Indices: 13939814--13939861 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
13939804 ATTTCATCCA
*
13939814 AATTAAA-TGATTGTTTT
1 AATTAAATTTATTGTTTT
* * *
13939831 GATTTAATATATTGTTTT
1 AATTAAATTTATTGTTTT
13939849 AATTAAATTTATT
1 AATTAAATTTATT
13939862 TACATATTAA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (18 bp):
AATTAAATTTATTGTTTT
Found at i:13943223 original size:26 final size:25
Alignment explanation
Indices: 13943173--13943225 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
13943163 TATAAATTAT
*
13943173 AATTAAATAATTACATAATTTTAAA
1 AATTAAATAATTACATAATTATAAA
*
13943198 AATTAAAATATATTA-ATTATTATAAA
1 AATT-AAATA-ATTACATAATTATAAA
13943224 AA
1 AA
13943226 GTATCACTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.17
26 16 0.67
27 4 0.17
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
AATTAAATAATTACATAATTATAAA
Found at i:13944418 original size:31 final size:30
Alignment explanation
Indices: 13944362--13944421 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
13944352 AGTTTAGGCC
13944362 AGGACTAAAATTTCAAAATTAGAAAAATATA
1 AGGACTAAAATTTC-AAATTAGAAAAATATA
*
13944393 AGGACTAAAATTAATC-AATTCGAAAAATA
1 AGGACTAAAATT--TCAAATTAGAAAAATA
13944422 CAGGGACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 24 0.92
33 2 0.08
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.25
Consensus pattern (30 bp):
AGGACTAAAATTTCAAATTAGAAAAATATA
Found at i:13945301 original size:31 final size:32
Alignment explanation
Indices: 13945262--13945347 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 32
13945252 TAGGTTCCTC
* *
13945262 AAAT-TTTTGAAAAATTTCATTATA-TCTTTT
1 AAATCTTTTGAAAAATTTCATTAAATTCTCTT
** * *
13945292 ATTTCTTTTGAAAATTTTAATTAAATTCTCTT
1 AAATCTTTTGAAAAATTTCATTAAATTCTCTT
13945324 AAATCTTTTG-AAAATTATCATTAA
1 AAATCTTTTGAAAAATT-TCATTAA
13945348 TGTTAAAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
30 2 0.05
31 22 0.51
32 19 0.44
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.51
Consensus pattern (32 bp):
AAATCTTTTGAAAAATTTCATTAAATTCTCTT
Found at i:13945335 original size:32 final size:32
Alignment explanation
Indices: 13945241--13945339 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 32
13945231 AACTTTTTAA
** *
13945241 AAAATTTTAATTAGGTTC-CTCAAAT-TTTTG
1 AAAATTTTAATTAAATTCTCTTAAATCTTTTG
* * * * **
13945271 AAAAATTTCATTATA-TCTTTTATTTCTTTTG
1 AAAATTTTAATTAAATTCTCTTAAATCTTTTG
13945302 AAAATTTTAATTAAATTCTCTTAAATCTTTTG
1 AAAATTTTAATTAAATTCTCTTAAATCTTTTG
13945334 AAAATT
1 AAAATT
13945340 ATCATTAATG
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
29 2 0.04
30 14 0.27
31 17 0.33
32 19 0.37
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (32 bp):
AAAATTTTAATTAAATTCTCTTAAATCTTTTG
Found at i:13955895 original size:30 final size:30
Alignment explanation
Indices: 13955859--13955920 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
13955849 ACTTATTTTA
13955859 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
13955889 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
13955919 TT
1 TT
13955921 ACTTATTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:13960081 original size:32 final size:32
Alignment explanation
Indices: 13960045--13960113 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
13960035 TTTCAATCAA
* *
13960045 AATTCATACCAATCACAAATTCTCAT-AATTTC
1 AATTCA-ACCAATCACAAATGCTCATAAAATTC
* * *
13960077 AATTCAACTATTCACATATGCTCATAAAATTC
1 AATTCAACCAATCACAAATGCTCATAAAATTC
13960109 AATTC
1 AATTC
13960114 CATTTAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 15 0.48
32 16 0.52
ACGTcount: A:0.41, C:0.23, G:0.01, T:0.35
Consensus pattern (32 bp):
AATTCAACCAATCACAAATGCTCATAAAATTC
Found at i:13960868 original size:24 final size:25
Alignment explanation
Indices: 13960841--13960888 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
13960831 CTTTTTCATT
*
13960841 CTTCTTGTTTTATTT-ATTTATTTA
1 CTTCATGTTTTATTTCATTTATTTA
*
13960865 CTTCATGTTTTATTTCTTTTATTT
1 CTTCATGTTTTATTTCATTTATTT
13960889 TATGTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.15, C:0.10, G:0.04, T:0.71
Consensus pattern (25 bp):
CTTCATGTTTTATTTCATTTATTTA
Found at i:13960904 original size:13 final size:13
Alignment explanation
Indices: 13960883--13960936 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
13960873 TTTATTTCTT
*
13960883 TTATTTTATGTTA
1 TTATATTATGTTA
13960896 TTATATTAT-TATA
1 TTATATTATGT-TA
*
13960909 TTATATTATATTA
1 TTATATTATGTTA
13960922 -TA-ATTATTGTTA
1 TTATATTA-TGTTA
13960934 TTA
1 TTA
13960937 CTTAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
11 4 0.11
12 7 0.20
13 23 0.66
14 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (13 bp):
TTATATTATGTTA
Found at i:13964593 original size:18 final size:18
Alignment explanation
Indices: 13964550--13964593 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13964540 GGACATTTGT
13964550 TATTCAAATCAAAAGTTA
1 TATTCAAATCAAAAGTTA
* * **
13964568 AATCCAAATCAAATTTTA
1 TATTCAAATCAAAAGTTA
13964586 TATTCAAA
1 TATTCAAA
13964594 ATAATATGTT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (18 bp):
TATTCAAATCAAAAGTTA
Found at i:13965228 original size:24 final size:25
Alignment explanation
Indices: 13965174--13965228 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
13965164 TTTGTCTCAG
13965174 CACGGGGTTTGGCATTAACAACTAT
1 CACGGGGTTTGGCATTAACAACTAT
* *
13965199 -AGGGGGTTTGGCATTGACAACT-T
1 CACGGGGTTTGGCATTAACAACTAT
13965222 CACGGGG
1 CACGGGG
13965229 GTGTAATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (25 bp):
CACGGGGTTTGGCATTAACAACTAT
Found at i:13967139 original size:10 final size:10
Alignment explanation
Indices: 13967108--13967151 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
13967098 ATTTTAAAAC
13967108 GAGAGAG-TT
1 GAGAGAGTTT
*
13967117 GAGAGA-CTT
1 GAGAGAGTTT
*
13967126 GAGAGGGTTT
1 GAGAGAGTTT
13967136 GAGAGAGTTT
1 GAGAGAGTTT
13967146 GAGAGA
1 GAGAGA
13967152 ATGATGTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
9 13 0.43
10 17 0.57
ACGTcount: A:0.32, C:0.02, G:0.43, T:0.23
Consensus pattern (10 bp):
GAGAGAGTTT
Found at i:13969597 original size:16 final size:16
Alignment explanation
Indices: 13969554--13969597 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
13969544 TGTGTAATTT
*
13969554 TAAAAATTGAAGGGTA
1 TAAAAATTGAAGGGAA
*
13969570 TAAAATATTGAAGTGAA
1 TAAAA-ATTGAAGGGAA
*
13969587 TTAAAATTGAA
1 TAAAAATTGAA
13969598 TTAGATGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (16 bp):
TAAAAATTGAAGGGAA
Found at i:13970086 original size:33 final size:32
Alignment explanation
Indices: 13969912--13970087 Score: 104
Period size: 33 Copynumber: 5.3 Consensus size: 32
13969902 CAGTGTTTAC
* *
13969912 ATGTAAGACCATAGCTGGGCTATGGCATTTTA
1 ATGTAAGACCATAACTGGGCTATGGCATATTA
* * * *
13969944 ATGAAAATATCATAACTGGGTTATGGCA-ATTTGA
1 ATG-TAAGACCATAACTGGGCTATGGCATA-TT-A
* * * *
13969978 ATGTAAGACCATGATTGGACCATGGCAGTAATTA
1 ATGTAAGACCATAACTGGGCTATGGCA-T-ATTA
* * * *
13970012 TATATAAAACCATAGCTGGGCTATGGCAT-TCTG
1 -ATGTAAGACCATAACTGGGCTATGGCATAT-TA
* * *
13970045 ACGATAAGACCATAACTGGGTTATGGCACTACTA
1 ATG-TAAGACCATAACTGGGCTATGGCA-TATTA
13970079 ATGTAAGAC
1 ATGTAAGAC
13970088 TGTGGCAGGG
Statistics
Matches: 103, Mismatches: 30, Indels: 21
0.67 0.19 0.14
Matches are distributed among these distances:
32 5 0.05
33 65 0.63
34 10 0.10
35 22 0.21
36 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGCTATGGCATATTA
Found at i:13970102 original size:101 final size:101
Alignment explanation
Indices: 13969919--13970105 Score: 232
Period size: 101 Copynumber: 1.9 Consensus size: 101
13969909 TACATGTAAG
* * * * *
13969919 ACCATAGCTGGGCTATGGCATTTTAATGAAAATATCATAACTGGGTTATGGCAATTTGAATGTAA
1 ACCATAGCTGGGCTATGGCATTCTAACGAAAAGACCATAACTGGGTTATGGCAATCTGAATGTAA
**
13969984 GACCATGATTGGACCATGGCAGTAATTATATATAAA
66 GACCATGACAGGACCATGGCAGTAATTATATATAAA
* * *
13970020 ACCATAGCTGGGCTATGGCATTCTGACGATAAGACCATAACTGGGTTATGGCACTACT-AATGTA
1 ACCATAGCTGGGCTATGGCATTCTAACGAAAAGACCATAACTGGGTTATGGCAAT-CTGAATGTA
** * *
13970084 AGACTGTGGCAGGGCCATGGCA
65 AGACCATGACAGGACCATGGCA
13970106 ATGCATCTGT
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
101 70 0.99
102 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (101 bp):
ACCATAGCTGGGCTATGGCATTCTAACGAAAAGACCATAACTGGGTTATGGCAATCTGAATGTAA
GACCATGACAGGACCATGGCAGTAATTATATATAAA
Found at i:13972743 original size:28 final size:28
Alignment explanation
Indices: 13972705--13972769 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
13972695 ACAGCCATAT
*
13972705 CACACGCCCGTAGGCTTACCGTGTGTCA
1 CACACGGCCGTAGGCTTACCGTGTGTCA
*
13972733 CACACGGCCGTGGGCTTACCGTGTGTCA
1 CACACGGCCGTAGGCTTACCGTGTGTCA
13972761 CACACGGCC
1 CACACGGCC
13972770 TAGACACACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.17, C:0.37, G:0.28, T:0.18
Consensus pattern (28 bp):
CACACGGCCGTAGGCTTACCGTGTGTCA
Found at i:13973542 original size:53 final size:51
Alignment explanation
Indices: 13973461--13973619 Score: 185
Period size: 52 Copynumber: 3.0 Consensus size: 51
13973451 CGGATCACAT
* *
13973461 ATCATACCGATGCCATATCCCAGA-TATGGTCTTATACGGAATCACATTATCAC
1 ATCACACCGATGCCATAGCCCA-ACTATGGTCTTATACGGAA-CACA-TATCAC
* * *
13973514 ATCACACCGATGTCATAGCCCAACTATGGTCTTATATGGGAACACGTATCAC
1 ATCACACCGATGCCATAGCCCAACTATGGTCTTATA-CGGAACACATATCAC
** * *
13973566 ATTGCACCGATGCCATAGCCTAGCTATGGTCTTATACGGAAACACATATCAC
1 ATCACACCGATGCCATAGCCCAACTATGGTCTTATACGG-AACACATATCAC
13973618 AT
1 AT
13973620 ATTTTCTGTC
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
51 2 0.02
52 51 0.56
53 34 0.37
54 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (51 bp):
ATCACACCGATGCCATAGCCCAACTATGGTCTTATACGGAACACATATCAC
Found at i:13974447 original size:10 final size:10
Alignment explanation
Indices: 13974432--13974462 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
13974422 GCTGGAGAGG
13974432 ATGAAGAAAA
1 ATGAAGAAAA
13974442 ATGAAGAAAA
1 ATGAAGAAAA
13974452 ATGAAGAAAA
1 ATGAAGAAAA
13974462 A
1 A
13974463 CTCTAGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (10 bp):
ATGAAGAAAA
Found at i:13977009 original size:19 final size:19
Alignment explanation
Indices: 13976985--13977022 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13976975 AAGTATGAAG
13976985 AATAAAAATTAGTCTCGGT
1 AATAAAAATTAGTCTCGGT
*
13977004 AATAAAATTTAGTCTCGGT
1 AATAAAAATTAGTCTCGGT
13977023 TTAGGGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (19 bp):
AATAAAAATTAGTCTCGGT
Found at i:13977608 original size:37 final size:38
Alignment explanation
Indices: 13977508--13977612 Score: 106
Period size: 37 Copynumber: 2.7 Consensus size: 38
13977498 AACTTCGAGT
* **
13977508 CGATGAGACACTGGGTGTCAATTTATTTCTTCGGATTTATT
1 CGATAAGACACTGGGTGTCAATTTA---CTTCGGATTTAAC
* *
13977549 CGATAAGGA-ACTAGGTGCCAATTTACTTCGG-TTTAAC
1 CGATAA-GACACTGGGTGTCAATTTACTTCGGATTTAAC
*
13977586 CGATAAGACATTGGGTGTCAATTTACT
1 CGATAAGACACTGGGTGTCAATTTACT
13977613 ACTTTGGATT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
36 2 0.04
37 25 0.46
38 6 0.11
41 19 0.35
42 2 0.04
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (38 bp):
CGATAAGACACTGGGTGTCAATTTACTTCGGATTTAAC
Found at i:13978366 original size:21 final size:20
Alignment explanation
Indices: 13978324--13978366 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
13978314 GTTTAAAATG
* * *
13978324 ATGATTTGAATGATGTTTTA
1 ATGATATGAATGATGATATA
13978344 ATGATATGAAATGATGATATA
1 ATGATATG-AATGATGATATA
13978365 AT
1 AT
13978367 TGTGGTACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (20 bp):
ATGATATGAATGATGATATA
Found at i:13979094 original size:22 final size:23
Alignment explanation
Indices: 13979050--13979146 Score: 99
Period size: 22 Copynumber: 4.0 Consensus size: 23
13979040 GTGTTACATT
13979050 AAATGTTTTATAATATTATTTTTTA
1 AAAT-TTTTA-AATATTATTTTTTA
13979075 AAATTTTTAAATA-TATTTTTTA
1 AAATTTTTAAATATTATTTTTTA
**
13979097 ATTTTTTAATTTAAATATTATTTTTTA
1 A--AATT--TTTAAATATTATTTTTTA
*
13979124 AAA-TTTTAAATATAATTTTTTA
1 AAATTTTTAAATATTATTTTTTA
13979146 A
1 A
13979147 TATTATAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
22 28 0.45
23 4 0.06
24 8 0.13
25 4 0.06
26 8 0.13
27 10 0.16
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (23 bp):
AAATTTTTAAATATTATTTTTTA
Found at i:13979122 original size:21 final size:22
Alignment explanation
Indices: 13979095--13979155 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
13979085 ATATATTTTT
13979095 TAATTTTTT--AA-TTTAAATA
1 TAATTTTTTAAAATTTTAAATA
*
13979114 TTATTTTTTAAAATTTTAAATA
1 TAATTTTTTAAAATTTTAAATA
* *
13979136 TAATTTTTTAATATTATAAA
1 TAATTTTTTAAAATTTTAAA
13979156 ACATTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.23
21 2 0.06
22 25 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATTTTTTAAAATTTTAAATA
Found at i:13979568 original size:19 final size:20
Alignment explanation
Indices: 13979546--13979585 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
13979536 TTTTTATATT
13979546 ATTAAA-AAT-ATATTTAAAA
1 ATTAAAGAATAAT-TTTAAAA
13979565 ATTAAAGAATAATTTTAAAA
1 ATTAAAGAATAATTTTAAAA
13979585 A
1 A
13979586 AATAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 11 0.58
21 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
ATTAAAGAATAATTTTAAAA
Found at i:13979582 original size:13 final size:13
Alignment explanation
Indices: 13979566--13979600 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
13979556 TATTTAAAAA
*
13979566 TTAAAGAATAATT
1 TTAAAAAATAATT
13979579 TTAAAAAAATAATT
1 TT-AAAAAATAATT
13979593 TTAAAAAA
1 TTAAAAAA
13979601 ATTTATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
TTAAAAAATAATT
Found at i:13979612 original size:14 final size:14
Alignment explanation
Indices: 13979572--13979602 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13979562 AAAATTAAAG
13979572 AATAATTTTAAAAA
1 AATAATTTTAAAAA
13979586 AATAATTTTAAAAA
1 AATAATTTTAAAAA
13979600 AAT
1 AAT
13979603 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAATTTTAAAAA
Found at i:13979634 original size:23 final size:22
Alignment explanation
Indices: 13979591--13979644 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
13979581 AAAAAAATAA
*
13979591 TTTTAAAAAAATTTATTTAAAAT
1 TTTTAAAAAAATTTA-TTAAAAC
13979614 TTTTAAAAATAATGTTA-TAAAAC
1 TTTTAAAAA-AAT-TTATTAAAAC
*
13979637 GTTTAAAA
1 TTTTAAAA
13979645 TATACATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 21 0.78
24 3 0.11
25 3 0.11
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (22 bp):
TTTTAAAAAAATTTATTAAAAC
Found at i:13989234 original size:25 final size:25
Alignment explanation
Indices: 13989200--13989250 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
13989190 CTATAAGATC
*
13989200 GCACGATGTGGGTTTACACCACCAT
1 GCACGATGTGGGTTCACACCACCAT
*
13989225 GCACGATGTGGGTTCACATCACCAT
1 GCACGATGTGGGTTCACACCACCAT
13989250 G
1 G
13989251 TAGGCGAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (25 bp):
GCACGATGTGGGTTCACACCACCAT
Found at i:13994407 original size:15 final size:15
Alignment explanation
Indices: 13994387--13994416 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13994377 ATGCCGTGCA
13994387 ACCATTCACAACATG
1 ACCATTCACAACATG
13994402 ACCATTCACAACATG
1 ACCATTCACAACATG
13994417 TGGTTAGACT
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:0.33, G:0.07, T:0.20
Consensus pattern (15 bp):
ACCATTCACAACATG
Found at i:13995672 original size:25 final size:25
Alignment explanation
Indices: 13995657--13995714 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
13995647 CTTTTCATTC
13995657 CCATATTCTCTGTTTCTTCTTGCTA
1 CCATATTCTCTGTTTCTTCTTGCTA
13995682 CCATATTCTCTGTTTCTTCTTGCTA
1 CCATATTCTCTGTTTCTTCTTGCTA
13995707 CCATATTC
1 CCATATTC
13995715 ATAGTTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.14, C:0.29, G:0.07, T:0.50
Consensus pattern (25 bp):
CCATATTCTCTGTTTCTTCTTGCTA
Found at i:13997939 original size:39 final size:40
Alignment explanation
Indices: 13997896--13997993 Score: 108
Period size: 46 Copynumber: 2.3 Consensus size: 40
13997886 TATTAAATGC
*
13997896 ATACTTTCAATTTACTAA-AATAATAGATGAGTCCGAGAG
1 ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
**
13997935 ATACTTTCAATTTTTTACCAATCTTTCTAATAGATGAGTCCGAGAG
1 ATACTTTCAA---TTTACCAA---TAATAATAGATGAGTCCGAGAG
13997981 ATACTTTCAATTT
1 ATACTTTCAATTT
13997994 TTTACTAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
39 10 0.20
42 7 0.14
43 3 0.06
46 29 0.59
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (40 bp):
ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
Found at i:13998670 original size:24 final size:25
Alignment explanation
Indices: 13998616--13998673 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
13998606 ATAATAAATA
*
13998616 TTTTTAATTATTGAAAATTTAAATTT
1 TTTTTAATCATT-AAAATTTAAATTT
*
13998642 ATTTTAATCATT-AAA-TTAAATTT
1 TTTTTAATCATTAAAATTTAAATTT
13998665 CTTTTTAAT
1 -TTTTTAAT
13998674 TATTTTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 8 0.29
24 10 0.36
26 10 0.36
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTTTAATCATTAAAATTTAAATTT
Found at i:14000314 original size:32 final size:32
Alignment explanation
Indices: 14000268--14000428 Score: 241
Period size: 32 Copynumber: 5.0 Consensus size: 32
14000258 TACAACTATG
*
14000268 CTACTTTTTTATATGCAAAACTAATGTATAAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
*
14000300 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
** *
14000332 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
14000364 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGCAAAACTAATGTATGAT
* * *
14000396 CTACTTTTTTTTTATGTAAACCTAATGTATGAT
1 CTAC-TTTTTTATATGCAAAACTAATGTATGAT
14000429 ATTTTTTATG
Statistics
Matches: 116, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
32 91 0.78
33 25 0.22
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGCAAAACTAATGTATGAT
Found at i:14003403 original size:35 final size:35
Alignment explanation
Indices: 14003363--14003432 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
14003353 GAAACTAAAA
14003363 ATGCACCATATTATCGGGTTAATTTCACTAAATGT
1 ATGCACCATATTATCGGGTTAATTTCACTAAATGT
14003398 ATGCACCATATTATCGGGTTAATTTCACTAAATGT
1 ATGCACCATATTATCGGGTTAATTTCACTAAATGT
14003433 TCTTAAACTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (35 bp):
ATGCACCATATTATCGGGTTAATTTCACTAAATGT
Found at i:14003786 original size:15 final size:15
Alignment explanation
Indices: 14003766--14003796 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14003756 GTCTACGTGT
14003766 TTTAGATACATTGCA
1 TTTAGATACATTGCA
14003781 TTTAGATACATTGCA
1 TTTAGATACATTGCA
14003796 T
1 T
14003797 GTCATAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (15 bp):
TTTAGATACATTGCA
Found at i:14007269 original size:39 final size:39
Alignment explanation
Indices: 14007212--14007458 Score: 368
Period size: 39 Copynumber: 6.3 Consensus size: 39
14007202 CAGGACTTTA
* * *
14007212 AGCCCGAATATAATACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* *
14007251 AGCCCGAATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * * * *
14007290 AACCCGGATATAACACCAGCACAAATACCTTTGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* *
14007329 AGCCCGGATATAACACTAGCACGAATGCCTTCGAGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
14007368 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
14007407 AGCCCGGATATAACACCAGCACGAATACCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
14007446 AGACCGGATATAA
1 AGCCCGGATATAA
14007459 TTCTCCATTA
Statistics
Matches: 191, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 191 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:14007922 original size:13 final size:13
Alignment explanation
Indices: 14007904--14007935 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
14007894 TATTTATTAT
14007904 TCACATTCGGCAA
1 TCACATTCGGCAA
14007917 TCACATTCGGCAA
1 TCACATTCGGCAA
14007930 TCACAT
1 TCACAT
14007936 AACAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (13 bp):
TCACATTCGGCAA
Found at i:14009873 original size:10 final size:10
Alignment explanation
Indices: 14009860--14009892 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
14009850 AAAAGAGAAT
14009860 AAAAAATATA
1 AAAAAATATA
*
14009870 AAAAAATTTA
1 AAAAAATATA
14009880 AAAAAATATA
1 AAAAAATATA
14009890 AAA
1 AAA
14009893 GAAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAAATATA
Found at i:14012711 original size:21 final size:21
Alignment explanation
Indices: 14012687--14012729 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
14012677 ACCAATTTGA
14012687 TAATTTCTAGCTCTTACACTT
1 TAATTTCTAGCTCTTACACTT
14012708 TAATTTCTAGCTCTTACACTT
1 TAATTTCTAGCTCTTACACTT
14012729 T
1 T
14012730 TCAAATTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.49
Consensus pattern (21 bp):
TAATTTCTAGCTCTTACACTT
Found at i:14013112 original size:10 final size:10
Alignment explanation
Indices: 14013097--14013124 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
14013087 AATTAACAAA
14013097 ATAATTTTTT
1 ATAATTTTTT
14013107 ATAATTTTTT
1 ATAATTTTTT
14013117 ATAATTTT
1 ATAATTTT
14013125 AATATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:14013140 original size:28 final size:27
Alignment explanation
Indices: 14013100--14013158 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
14013090 TAACAAAATA
* *
14013100 ATTTTTTATAATTTTTTATAATTTTAAT
1 ATTTTTTATAATTTTCTA-AAATTTAAT
14013128 ATTTTTT-TGAATTTTCTAAAATTTAAT
1 ATTTTTTAT-AATTTTCTAAAATTTAAT
14013155 -TTTT
1 ATTTT
14013159 CGTCCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 9 0.32
28 15 0.54
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (27 bp):
ATTTTTTATAATTTTCTAAAATTTAAT
Found at i:14020715 original size:15 final size:17
Alignment explanation
Indices: 14020694--14020734 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
14020684 AATCATTTAA
14020694 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
14020710 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
14020726 AAAATTATA
1 AAAATTATA
14020735 TTTTAACTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:14021807 original size:15 final size:15
Alignment explanation
Indices: 14021789--14021819 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14021779 TTCTCAAATC
14021789 TCCTTTTCCTTTTTG
1 TCCTTTTCCTTTTTG
14021804 TCCTTTTCCTTTTTG
1 TCCTTTTCCTTTTTG
14021819 T
1 T
14021820 TTTCTTTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.26, G:0.06, T:0.68
Consensus pattern (15 bp):
TCCTTTTCCTTTTTG
Found at i:14027974 original size:23 final size:22
Alignment explanation
Indices: 14027944--14027986 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
14027934 ATTTTTAGTT
14027944 AAATTTAATTATTAAA-AATATA
1 AAATTTAATT-TTAAATAATATA
14027966 AAATATTAATTTTAAATAATA
1 AAAT-TTAATTTTAAATAATA
14027987 ATATGAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTTAATTTTAAATAATATA
Found at i:14029247 original size:16 final size:16
Alignment explanation
Indices: 14029228--14029269 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
14029218 GATTGTTGAT
14029228 GGGAAAGAAAAAGAAA
1 GGGAAAGAAAAAGAAA
*
14029244 GGG-AAGGAAAAGAAA
1 GGGAAAGAAAAAGAAA
* *
14029259 AGAAAAGAAAA
1 GGGAAAGAAAA
14029270 GAATTTCTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGGAAAGAAAAAGAAA
Found at i:14045819 original size:46 final size:46
Alignment explanation
Indices: 14045771--14045998 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
14045761 GCTATCTGAT
** * *
14045771 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
14045817 ATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
14045863 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
14045909 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
14045955 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
14045999 TCAAAGATAA
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 161 0.99
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:14045930 original size:92 final size:92
Alignment explanation
Indices: 14045781--14045993 Score: 354
Period size: 92 Copynumber: 2.3 Consensus size: 92
14045771 ATGAAATGTG
* *
14045781 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAACGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
* *
14045846 TACCATGGCAACATGACGGGAAATGAA
66 TACCATGGCAACATGACAGAAAATGAA
14045873 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
*
14045938 TACCATGGCAACATGACAGAAAATGAG
66 TACCATGGCAACATGACAGAAAATGAA
* * *
14045965 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
14045994 TCATGTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 113 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.18
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGAAAATGAA
Found at i:14049159 original size:12 final size:12
Alignment explanation
Indices: 14049142--14049166 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14049132 GGTGTTCATT
14049142 CGGTTAACCGAC
1 CGGTTAACCGAC
14049154 CGGTTAACCGAC
1 CGGTTAACCGAC
14049166 C
1 C
14049167 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:14049340 original size:9 final size:9
Alignment explanation
Indices: 14049326--14049381 Score: 85
Period size: 9 Copynumber: 6.2 Consensus size: 9
14049316 TTTGGTTAAA
*
14049326 AATTACCCG
1 AATTAACCG
*
14049335 AATTACCCG
1 AATTAACCG
*
14049344 AATTACCCG
1 AATTAACCG
14049353 AATTAACCG
1 AATTAACCG
14049362 AATTAACCG
1 AATTAACCG
14049371 AATTAACCG
1 AATTAACCG
14049380 AA
1 AA
14049382 AAATACCCGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.41, C:0.27, G:0.11, T:0.21
Consensus pattern (9 bp):
AATTAACCG
Found at i:14049349 original size:18 final size:18
Alignment explanation
Indices: 14049326--14049381 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
14049316 TTTGGTTAAA
*
14049326 AATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
14049344 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
*
14049362 AATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
14049380 AA
1 AA
14049382 AAATACCCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.41, C:0.27, G:0.11, T:0.21
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:14051717 original size:23 final size:25
Alignment explanation
Indices: 14051675--14051724 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 25
14051665 AAATTAAATT
*
14051675 TTTTAATAATTTTATTTTTAATGAAA
1 TTTTAATAATTTTA-TTTTAATCAAA
14051701 TTTTAATAA-TTTA-TTTAATCAAA
1 TTTTAATAATTTTATTTTAATCAAA
14051724 T
1 T
14051725 CAGTTGATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 10 0.43
25 4 0.17
26 9 0.39
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
TTTTAATAATTTTATTTTAATCAAA
Found at i:14056536 original size:26 final size:26
Alignment explanation
Indices: 14056505--14056612 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
14056495 TGAAATTCCC
* *
14056505 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
14056531 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14056557 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
14056583 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14056609 ATCA
1 ATCA
14056613 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14056562 original size:52 final size:52
Alignment explanation
Indices: 14056505--14056612 Score: 207
Period size: 52 Copynumber: 2.1 Consensus size: 52
14056495 TGAAATTCCC
14056505 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
14056557 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
14056609 ATCA
1 ATCA
14056613 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:14063645 original size:26 final size:26
Alignment explanation
Indices: 14063614--14063721 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
14063604 CGAAATTCCC
*
14063614 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
14063640 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14063666 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
14063692 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14063718 ATCA
1 ATCA
14063722 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14065290 original size:20 final size:19
Alignment explanation
Indices: 14065242--14065278 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
14065232 TTTTAGGATG
14065242 GTTCTAATATAATTTATTA
1 GTTCTAATATAATTTATTA
14065261 GTTCTAATATAATTTATT
1 GTTCTAATATAATTTATT
14065279 CCTTTCTAAT
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:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (19 bp):
GTTCTAATATAATTTATTA
Found at i:14066888 original size:41 final size:41
Alignment explanation
Indices: 14066822--14066902 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
14066812 TGATAATGGA
* * * *
14066822 ATATTTTGATTAGAGTTTTATTTTAATTTGAA-GATTCAATG
1 ATATTCTGATTAGAATTATACTTTAATTT-AAGGATTCAATG
14066863 ATATTCTGATTAGAATTATACTTTAATTTAAGGATTCAAT
1 ATATTCTGATTAGAATTATACTTTAATTTAAGGATTCAAT
14066903 TTGAATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.06
41 33 0.94
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.48
Consensus pattern (41 bp):
ATATTCTGATTAGAATTATACTTTAATTTAAGGATTCAATG
Found at i:14082357 original size:7 final size:7
Alignment explanation
Indices: 14082347--14082384 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
14082337 TTCAAAATCC
14082347 AAATTTT
1 AAATTTT
14082354 AAATTTT
1 AAATTTT
14082361 AAATTTT
1 AAATTTT
14082368 AAATTTT
1 AAATTTT
14082375 AAATTTT
1 AAATTTT
14082382 AAA
1 AAA
14082385 ATTAACAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AAATTTT
Found at i:14084128 original size:21 final size:19
Alignment explanation
Indices: 14084104--14084154 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
14084094 CAACTACGTT
14084104 AAAAGAAATGGAGAAGAGAG
1 AAAAGAAATGGAGAAG-GAG
*
14084124 AAAA-ATAGAGGGAGAAGGAG
1 AAAAGA-A-ATGGAGAAGGAG
14084144 AAAAG-AATGGA
1 AAAAGAAATGGA
14084155 AAAAAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
18 4 0.15
19 2 0.08
20 12 0.46
21 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.35, T:0.06
Consensus pattern (19 bp):
AAAAGAAATGGAGAAGGAG
Found at i:14088531 original size:26 final size:26
Alignment explanation
Indices: 14088494--14088545 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14088484 AGAATTTCTA
14088494 ATCGGGTCTCGATTTGTTCCTAACTT
1 ATCGGGTCTCGATTTGTTCCTAACTT
*
14088520 ATCGGGTTTCGATTTGTTCCTAACTT
1 ATCGGGTCTCGATTTGTTCCTAACTT
14088546 CTATGTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.44
Consensus pattern (26 bp):
ATCGGGTCTCGATTTGTTCCTAACTT
Found at i:14091758 original size:53 final size:53
Alignment explanation
Indices: 14091602--14091758 Score: 221
Period size: 53 Copynumber: 3.0 Consensus size: 53
14091592 GACGAAAAAT
* **
14091602 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
14091654 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
14091707 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTAT
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT
14091759 GATATGTCAA
Statistics
Matches: 96, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.84
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:14093073 original size:30 final size:30
Alignment explanation
Indices: 14093037--14093094 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
14093027 AATGACAATG
14093037 TTTATATATAAGACCATAGCTGGGCTATGA
1 TTTATATATAAGACCATAGCTGGGCTATGA
*
14093067 TTTATATGTAAGACCATAGCTGGGCTAT
1 TTTATATATAAGACCATAGCTGGGCTAT
14093095 AGCAATAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (30 bp):
TTTATATATAAGACCATAGCTGGGCTATGA
Found at i:14093165 original size:33 final size:33
Alignment explanation
Indices: 14093128--14093314 Score: 121
Period size: 33 Copynumber: 5.6 Consensus size: 33
14093118 GACGGATAAA
* *
14093128 ACCATAATTGGGTTATGGCACTATGAATGTAAG
1 ACCATAACTGGGCTATGGCACTATGAATGTAAG
** * * * * *
14093161 ACCAT-GGTGGACCATGGCAATGTTTATATGTAAG
1 ACCATAACTGGGCTATGGCACT-ATGA-ATGTAAG
** *
14093195 ACCATAACTGGGCTATAACACTCTG-ATGATAAG
1 ACCATAACTGGGCTATGGCACTATGAATG-TAAG
* *
14093228 ACCATAACTGGGTTATGGCACTACGAATGTAAG
1 ACCATAACTGGGCTATGGCACTATGAATGTAAG
* * * * *
14093261 ACCTTGACTGAGCCATGGTA--ATGTATATGTAAG
1 ACCATAACTGGGCTATGGCACTATG-A-ATGTAAG
*
14093294 ACCATAACTGGACTATGGCAC
1 ACCATAACTGGGCTATGGCAC
14093315 AAAGAAAACG
Statistics
Matches: 111, Mismatches: 35, Indels: 15
0.69 0.22 0.09
Matches are distributed among these distances:
31 2 0.02
32 14 0.13
33 70 0.63
34 16 0.14
35 9 0.08
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (33 bp):
ACCATAACTGGGCTATGGCACTATGAATGTAAG
Found at i:14099042 original size:25 final size:24
Alignment explanation
Indices: 14098998--14099051 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
14098988 TCAAATCAGG
*
14098998 TTTT-ATTTTTATGCAAATAAATTT
1 TTTTAATTTTTAGGCAAAT-AATTT
*
14099022 TTTTAATTTTTAGGCAGATAATTT
1 TTTTAATTTTTAGGCAAATAATTT
14099046 TTTTAA
1 TTTTAA
14099052 AATTTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.57
Consensus pattern (24 bp):
TTTTAATTTTTAGGCAAATAATTT
Found at i:14099160 original size:29 final size:28
Alignment explanation
Indices: 14099108--14099169 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 28
14099098 ATTTTCCAAA
* *
14099108 TTTTGATTTTTACTAGTGTTTTTA-TTT
1 TTTTGATTTTTAATAGTGATTTTAGTTT
14099135 TTTTAGATTTTTAATAGTTGATTTTAGGTTT
1 TTTT-GATTTTTAATAG-TGATTTTA-GTTT
14099166 TTTT
1 TTTT
14099170 TTTCAATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.14
28 11 0.38
29 7 0.24
31 7 0.24
ACGTcount: A:0.18, C:0.02, G:0.13, T:0.68
Consensus pattern (28 bp):
TTTTGATTTTTAATAGTGATTTTAGTTT
Found at i:14099880 original size:16 final size:16
Alignment explanation
Indices: 14099855--14099897 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
14099845 TACTTCGATC
*
14099855 TTGAAATGATTCAAAT
1 TTGAAATGATTAAAAT
*
14099871 TTGAAGTGATTAAAAT
1 TTGAAATGATTAAAAT
*
14099887 TAGAAATGATT
1 TTGAAATGATT
14099898 TTAACCTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (16 bp):
TTGAAATGATTAAAAT
Found at i:14100329 original size:18 final size:18
Alignment explanation
Indices: 14100306--14100345 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
14100296 ATTATAAGAT
*
14100306 ATAATAAATACAT-TTAAA
1 ATAATAAA-AAATATTAAA
14100324 ATAATAAAAAATATTAAA
1 ATAATAAAAAATATTAAA
14100342 ATAA
1 ATAA
14100346 AAGTCGACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATAAAAAATATTAAA
Found at i:14110251 original size:33 final size:33
Alignment explanation
Indices: 14110214--14110293 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
14110204 ATAGTTATAT
*
14110214 TTAAATATTTAAAATATAGTTTATAT-ATT-CTTA
1 TTAAATATTTAAAATA-A-TTAATATAATTACTTA
14110247 TTAAAT-TTTATAAATAATTAATATAATTACTTA
1 TTAAATATTTA-AAATAATTAATATAATTACTTA
*
14110280 -GAAATATTTAAAAT
1 TTAAATATTTAAAAT
14110294 TAATATTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
31 6 0.15
32 16 0.39
33 19 0.46
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (33 bp):
TTAAATATTTAAAATAATTAATATAATTACTTA
Found at i:14113429 original size:18 final size:18
Alignment explanation
Indices: 14113406--14113443 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
14113396 TCTCTAAGTG
*
14113406 TAATATATTTGTTTTGTA
1 TAATATATTTGCTTTGTA
14113424 TAATATATTTGCTTTGTA
1 TAATATATTTGCTTTGTA
14113442 TA
1 TA
14113444 CTTGTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (18 bp):
TAATATATTTGCTTTGTA
Found at i:14114182 original size:21 final size:21
Alignment explanation
Indices: 14114157--14114196 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14114147 ACTATTTAAG
14114157 TATTAATATTATAATATATTC
1 TATTAATATTATAATATATTC
* *
14114178 TATTATTATTATATTATAT
1 TATTAATATTATAATATAT
14114197 ATAAAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTAATATTATAATATATTC
Found at i:14114688 original size:35 final size:35
Alignment explanation
Indices: 14114642--14114712 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
14114632 CGGGTAATCC
*
14114642 AAATCGAGCTTAATGGAGTATTTGTCACTGAAAGG
1 AAATCGAGCTTAATAGAGTATTTGTCACTGAAAGG
14114677 AAATCGAGCTTAATAGAGTATTTGTCACTGAAAGG
1 AAATCGAGCTTAATAGAGTATTTGTCACTGAAAGG
14114712 A
1 A
14114713 TTTAGCCTGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (35 bp):
AAATCGAGCTTAATAGAGTATTTGTCACTGAAAGG
Found at i:14117457 original size:17 final size:17
Alignment explanation
Indices: 14117435--14117467 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14117425 CACAATTGGG
14117435 TTGAGAAAATTATTTAA
1 TTGAGAAAATTATTTAA
*
14117452 TTGAGAAATTTATTTA
1 TTGAGAAAATTATTTA
14117468 GTTATTAAAT
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:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
TTGAGAAAATTATTTAA
Found at i:14122804 original size:46 final size:47
Alignment explanation
Indices: 14122739--14123008 Score: 354
Period size: 46 Copynumber: 5.9 Consensus size: 47
14122729 TTATCTTCGA
* * * * * *
14122739 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* ** *
14122785 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
14122831 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* *
14122877 CCTGTTGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* * *
14122923 CATGTTGTCATGGTGTCTTTCAACCATGGTCTTACATA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
14122969 CATGTTG-CATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
14123009 CATTTCAGAA
Statistics
Matches: 202, Mismatches: 18, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
45 36 0.18
46 162 0.80
47 4 0.02
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
Found at i:14122964 original size:21 final size:21
Alignment explanation
Indices: 14122940--14123010 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
14122930 TCATGGTGTC
14122940 TTTCAACCATGGTCTTACATA
1 TTTCAACCATGGTCTTACATA
* * *** *
14122961 TTTCATATCATGTTGCATGGTATC
1 TTTCA-ACCATGGT-C-TTACATA
*
14122985 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACATA
14123006 TTTCA
1 TTTCA
14123011 TTTCAGAAAG
Statistics
Matches: 34, Mismatches: 13, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
21 12 0.35
22 7 0.21
23 7 0.21
24 8 0.24
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACATA
Found at i:14131648 original size:15 final size:15
Alignment explanation
Indices: 14131628--14131656 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14131618 ATGTATAAGT
14131628 GTAACTTTAGTCATG
1 GTAACTTTAGTCATG
14131643 GTAACTTTAGTCAT
1 GTAACTTTAGTCAT
14131657 TACTTGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (15 bp):
GTAACTTTAGTCATG
Found at i:14133165 original size:32 final size:32
Alignment explanation
Indices: 14133099--14133166 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
14133089 TTTTTGTTAA
* *
14133099 TGTTGGATTCTAAAATTTTAGTTTATTATATT
1 TGTTGGATTCTAAAATTTTAGTCTATGATATT
*
14133131 TGTTGGATTCTGAAATTATTATGTCT-TGAT-TT
1 TGTTGGATTCTAAAATT-TTA-GTCTATGATATT
14133163 TGTT
1 TGTT
14133167 AGATATTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 22 0.71
33 6 0.19
34 3 0.10
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (32 bp):
TGTTGGATTCTAAAATTTTAGTCTATGATATT
Found at i:14133192 original size:27 final size:27
Alignment explanation
Indices: 14133162--14133234 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
14133152 TGTCTTGATT
14133162 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
14133189 TTGTTAGATATTGAGTTTATTATGTTTTAAGC
1 TTGTTAGATATT--G---ATTATGTTTCAAGC
*
14133221 TTGTTGGATATTGA
1 TTGTTAGATATTGA
14133235 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 13 0.33
29 1 0.03
30 1 0.03
32 24 0.62
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:14134287 original size:22 final size:22
Alignment explanation
Indices: 14134189--14134274 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 22
14134179 ACTTTTAATG
*
14134189 TGGTGTAATATTAGTTATGCACT-
1 TGGTATAATATTAGTTAT-CA-TA
* *
14134212 TGG-ATAATATTGTTGTTATCATG
1 TGGTATAATA-T-TAGTTATCATA
*
14134235 TGGTGTAATATTAGTTATCATA
1 TGGTATAATATTAGTTATCATA
*
14134257 TGGTGTAATATTAGTTAT
1 TGGTATAATATTAGTTAT
14134275 GCACTTGGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
22 33 0.61
23 10 0.19
24 11 0.20
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.47
Consensus pattern (22 bp):
TGGTATAATATTAGTTATCATA
Found at i:14134334 original size:68 final size:68
Alignment explanation
Indices: 14134189--14134337 Score: 228
Period size: 68 Copynumber: 2.2 Consensus size: 68
14134179 ACTTTTAATG
* * *
14134189 TGGTGTAATATTAGTTATGCACTTGGATAATATTGTTGTTATCATGTGGTGTAATATTAGTTATC
1 TGGTATAATATTAGTTATGCACTTGGATAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
14134254 ATA
66 ATA
* *
14134257 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATG
1 TGGTATAATATTAGTTATGCACTTGGATAATATTGTTGTTATCATGTGGTGTAATACTAATTAT-
*
14134322 TATA
65 CATA
14134326 TGG-ATAATATTA
1 TGGTATAATATTA
14134338 TTAATTTCTA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
68 69 0.92
69 6 0.08
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (68 bp):
TGGTATAATATTAGTTATGCACTTGGATAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
ATA
Found at i:14134754 original size:14 final size:14
Alignment explanation
Indices: 14134735--14134801 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
14134725 ACAGAAAAGT
14134735 AAATCATTTTTCAA
1 AAATCATTTTTCAA
*
14134749 AAATCATTTTCCAA
1 AAATCATTTTTCAA
*
14134763 GAAATTATTTTTCAA
1 -AAATCATTTTTCAA
* *
14134778 AAATTATTTTTGAA
1 AAATCATTTTTCAA
*
14134792 AAAACATTTT
1 AAATCATTTT
14134802 ACCTGCAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 34 0.74
15 12 0.26
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.43
Consensus pattern (14 bp):
AAATCATTTTTCAA
Found at i:14136178 original size:10 final size:10
Alignment explanation
Indices: 14136165--14136228 Score: 53
Period size: 9 Copynumber: 6.6 Consensus size: 10
14136155 ATGTCTAATT
14136165 TTTTTTATAA
1 TTTTTTATAA
14136175 -TTTTTATAA
1 TTTTTTATAA
**
14136184 AATTTTAT-A
1 TTTTTTATAA
**
14136193 TTTTTTGATTT
1 TTTTTT-ATAA
*
14136204 TTTTTTACAA
1 TTTTTTATAA
14136214 -TTTTTATAA
1 TTTTTTATAA
14136223 TTTTTT
1 TTTTTT
14136229 CAATAGAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
9 22 0.52
10 14 0.33
11 6 0.14
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:14136240 original size:21 final size:21
Alignment explanation
Indices: 14136216--14136270 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
14136206 TTTTACAATT
*
14136216 TTTATAATTTTTTCAA-TAGAA
1 TTTATAATTTTTT-AATTAAAA
14136237 TTTA-AATATTTTTAATTAAAA
1 TTTATAAT-TTTTTAATTAAAA
14136258 TTTAATAATTTTT
1 TTT-ATAATTTTT
14136271 ATTGCTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 5 0.17
21 16 0.55
22 5 0.17
23 3 0.10
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTATAATTTTTTAATTAAAA
Found at i:14144691 original size:5 final size:5
Alignment explanation
Indices: 14144681--14144711 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
14144671 TGGGCGATTG
*
14144681 GGTGC GGTGC GGTGT GGTGC GGTGC GGTGC G
1 GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC G
14144712 TTTAACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.16, G:0.61, T:0.23
Consensus pattern (5 bp):
GGTGC
Found at i:14150711 original size:21 final size:21
Alignment explanation
Indices: 14150685--14150751 Score: 57
Period size: 21 Copynumber: 3.0 Consensus size: 21
14150675 ATACCAGATT
14150685 ATTATTATGTTAAGAGATTGA
1 ATTATTATGTTAAGAGATTGA
* *
14150706 ATTATTTAAATCTTATACCAGATT--
1 ATTA-TT--ATGTTA-A-GAGATTGA
14150730 ATTATTATGTTAAGAGATTGA
1 ATTATTATGTTAAGAGATTGA
14150751 A
1 A
14150752 ATTCATCTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
19 5 0.14
20 1 0.03
21 10 0.29
22 2 0.06
23 2 0.06
24 9 0.26
25 1 0.03
26 5 0.14
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.43
Consensus pattern (21 bp):
ATTATTATGTTAAGAGATTGA
Done.