Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 14 of 185
Found at i:3846610 original size:20 final size:22
Alignment explanation
Indices: 3846581--3846625 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
3846571 TTGCTTGTAC
*
3846581 TTTAGTACATCTT-GTTA-CAT
1 TTTAGGACATCTTAGTTAGCAT
*
3846601 TTTAGGACATTTTAGTTAGCAT
1 TTTAGGACATCTTAGTTAGCAT
3846623 TTT
1 TTT
3846626 TAATATTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.51
Consensus pattern (22 bp):
TTTAGGACATCTTAGTTAGCAT
Found at i:3851736 original size:39 final size:39
Alignment explanation
Indices: 3851644--3851778 Score: 105
Period size: 39 Copynumber: 3.4 Consensus size: 39
3851634 AGTTTGGATA
* * * *
3851644 AAAAACGCCGTTAAAAATC-AATCATTAGCGGCGCTTTTTT
1 AAAAACGCCGCTAAAAATCGAGT-ATTAGC-GCGCTTTCTG
* * * *
3851684 TAAAGCGCTGCTAAAGATCGAGTATTAGCGCGCTTTCTG
1 AAAAACGCCGCTAAAAATCGAGTATTAGCGCGCTTTCTG
* *
3851723 AAAAACGCCGCTAAAAAT-GAGCATTAGCCGCGTTTTCT-
1 AAAAACGCCGCTAAAAATCGAGTATTAG-CGCGCTTTCTG
* *
3851761 AATAAGCGCCGCAAAAAA
1 AA-AAACGCCGCTAAAAA
3851779 CCTAAGCCCA
Statistics
Matches: 76, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
38 10 0.13
39 44 0.58
40 20 0.26
41 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATCGAGTATTAGCGCGCTTTCTG
Found at i:3851918 original size:38 final size:41
Alignment explanation
Indices: 3851829--3851922 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 41
3851819 TAGTAGCGTT
* * *
3851829 TTTTTTAAAAAGCGCCGCTAATGCTTGTGTCTTTAGCGGCG
1 TTTTTAAAAAAGCGCCGCTAATGCTTCTATCTTTAGCGGCG
*
3851870 TTTTTAAAAAAGCGCCGCTAATGC-TCTAT-TTTA-TGGCG
1 TTTTTAAAAAAGCGCCGCTAATGCTTCTATCTTTAGCGGCG
*
3851908 TTTTTGAAAAAGCGC
1 TTTTTAAAAAAGCGC
3851923 TGCAAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
38 18 0.38
39 4 0.08
40 3 0.06
41 23 0.48
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (41 bp):
TTTTTAAAAAAGCGCCGCTAATGCTTCTATCTTTAGCGGCG
Found at i:3852314 original size:22 final size:21
Alignment explanation
Indices: 3852243--3852342 Score: 58
Period size: 22 Copynumber: 4.7 Consensus size: 21
3852233 TTAAGGTTTT
* * *
3852243 TGGTTTAGGGTATATGGTTTA
1 TGGTTTAAGGTTTATGATTTA
** * *
3852264 AAGTTTAAGGTTTAGGAGTTA
1 TGGTTTAAGGTTTATGATTTA
**
3852285 CTATTTTAAGGTTTATGGA-TTA
1 -TGGTTTAAGGTTTAT-GATTTA
* *
3852307 TGGGTTTAGGGGTTATGATTTA
1 T-GGTTTAAGGTTTATGATTTA
*
3852329 TGGTTTATGGTTTA
1 TGGTTTAAGGTTTA
3852343 AAGGCTGGGG
Statistics
Matches: 59, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
21 28 0.47
22 29 0.49
23 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (21 bp):
TGGTTTAAGGTTTATGATTTA
Found at i:3852335 original size:7 final size:7
Alignment explanation
Indices: 3852231--3852342 Score: 57
Period size: 7 Copynumber: 15.7 Consensus size: 7
3852221 TATCACTATA
*
3852231 GTTTAAG
1 GTTTATG
*
3852238 GTTTTTG
1 GTTTATG
*
3852245 GTTTAGG
1 GTTTATG
*
3852252 GTATATG
1 GTTTATG
**
3852259 GTTTAAA
1 GTTTATG
*
3852266 GTTTAAG
1 GTTTATG
*
3852273 GTTTAGG
1 GTTTATG
3852280 AGTTACTAT-
1 -GTT--TATG
*
3852289 -TTTAAG
1 GTTTATG
3852295 GTTTATG
1 GTTTATG
*
3852302 GATTATGG
1 GTTTAT-G
*
3852310 GTTTAGG
1 GTTTATG
*
3852317 GGTTATG
1 GTTTATG
*
3852324 ATTTATG
1 GTTTATG
3852331 GTTTATG
1 GTTTATG
3852338 GTTTA
1 GTTTA
3852343 AAGGCTGGGG
Statistics
Matches: 77, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
5 2 0.03
7 65 0.84
8 8 0.10
10 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (7 bp):
GTTTATG
Found at i:3853105 original size:13 final size:15
Alignment explanation
Indices: 3853077--3853108 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
3853067 CTCGTATTAT
3853077 TATTAATTTAATATA
1 TATTAATTTAATATA
3853092 TATTAA-TT-ATATA
1 TATTAATTTAATATA
3853105 TATT
1 TATT
3853109 TTTCATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTAATTTAATATA
Found at i:3856583 original size:43 final size:43
Alignment explanation
Indices: 3856516--3856602 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
3856506 CAATGATGTA
* * *
3856516 CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTTATTAC
* * *
3856559 CAAGATTTACTTGATTAGGAAAATGCATTGTATGTTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTTATTAC
3856602 C
1 C
3856603 TTGCATATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (43 bp):
CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTTATTAC
Found at i:3856926 original size:42 final size:43
Alignment explanation
Indices: 3856863--3857131 Score: 280
Period size: 43 Copynumber: 6.3 Consensus size: 43
3856853 AAGATATGTT
* *
3856863 TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGT-TTGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATC
* * * *
3856905 TTTAGCGGCGTTTGTGGGAAAAGTGTCGTTAAAGGTC-TG-TT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATC
* * * *
3856946 TTATAACGGCGTTTGTGGGAAAAGCGTCGCTAAAAGTGATGATC
1 TT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATC
* * *
3856990 TATAGTGGCGTTTGTGGGAAAAGCGCCGTTACAA-GTCATGA-C
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA-AAGGTCATGATC
* * * *
3857032 TTATAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCGTGTTC
1 TT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATC
* * *
3857076 TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCCTG-TT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATC
3857118 TTATAGCGGCGTTT
1 TT-TAGCGGCGTTT
3857132 ATTTCTAAAA
Statistics
Matches: 190, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.02
42 71 0.37
43 109 0.57
44 7 0.04
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATC
Found at i:3857086 original size:86 final size:84
Alignment explanation
Indices: 3856865--3857131 Score: 320
Period size: 86 Copynumber: 3.1 Consensus size: 84
3856855 GATATGTTTT
* * *
3856865 TAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTTTGATCTTTAGCGGCGTTTGTGGGAAAAGTG
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTGTGATCTTTAGCGGCGTTTGTGGGAAAAGCG
* **
3856930 TCGTTAAAGGTCTGTTTTA
66 CCGTTAAAGGTCTGACTTA
* * * * * *
3856949 TAACGGCGTTTGTGGGAAAAGCGTCGCTAAAAGTGATGATCTATAGTGGCGTTTGTGGGAAAAGC
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTG-TGATCTTTAGCGGCGTTTGTGGGAAAAGC
3857014 GCCGTTACAA-GTCATGACTTA
65 GCCGTTA-AAGGTC-TGACTTA
* * *
3857035 TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAGGTCGTGTTCTTTAGCGGCGTTTGTGTGAAAAGC
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGT-GTGATCTTTAGCGGCGTTTGTGGGAAAAGC
* **
3857100 GCCGCTAAAGGTCCTGTTTTA
65 GCCGTTAAAGGT-CTGACTTA
3857121 TAGCGGCGTTT
1 TAGCGGCGTTT
3857132 ATTTCTAAAA
Statistics
Matches: 153, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
84 30 0.20
85 37 0.24
86 84 0.55
87 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (84 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTGTGATCTTTAGCGGCGTTTGTGGGAAAAGCG
CCGTTAAAGGTCTGACTTA
Found at i:3862020 original size:15 final size:15
Alignment explanation
Indices: 3862000--3862030 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3861990 ACATCTACCG
3862000 AAATAGACGAATTAC
1 AAATAGACGAATTAC
3862015 AAATAGACGAATTAC
1 AAATAGACGAATTAC
3862030 A
1 A
3862031 TACAACACCC
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:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (15 bp):
AAATAGACGAATTAC
Found at i:3872024 original size:24 final size:22
Alignment explanation
Indices: 3871985--3872032 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
3871975 TTATTTATAT
*
3871985 AATTTTAAAAATACACATTAAA
1 AATTTTAAAAAAACACATTAAA
3872007 AATTATTAAAAAGAACACATTAAA
1 AATT-TTAAAAA-AACACATTAAA
3872031 AA
1 AA
3872033 ACTATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 7 0.30
24 12 0.52
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.27
Consensus pattern (22 bp):
AATTTTAAAAAAACACATTAAA
Found at i:3872038 original size:25 final size:23
Alignment explanation
Indices: 3871989--3872043 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
3871979 TTATATAATT
* *
3871989 TTAAAAATACACATTAAAAATTA
1 TTAAAAAAACACATTAAAAACTA
3872012 TTAAAAAGAACACATTAAAAAACTA
1 TTAAAAA-AACACATT-AAAAACTA
*
3872037 TTTAAAA
1 TTAAAAA
3872044 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 7 0.26
24 7 0.26
25 13 0.48
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (23 bp):
TTAAAAAAACACATTAAAAACTA
Found at i:3872041 original size:26 final size:24
Alignment explanation
Indices: 3871988--3872043 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
3871978 TTTATATAAT
* *
3871988 TTTAAAAATACACATTAAAAATTA
1 TTTAAAAAAACACATTAAAAACTA
3872012 -TTAAAAAGAACACATTAAAAAACTA
1 TTTAAAAA-AACACATT-AAAAACTA
3872037 TTTAAAA
1 TTTAAAA
3872044 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.26
24 7 0.26
25 7 0.26
26 6 0.22
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.29
Consensus pattern (24 bp):
TTTAAAAAAACACATTAAAAACTA
Found at i:3872497 original size:29 final size:29
Alignment explanation
Indices: 3872465--3872526 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
3872455 TTAAAATTTT
3872465 AAAAATAAAAAATATAAATATAAAT-TAAA
1 AAAAATAAAAAATATAAATA-AAATATAAA
* * * *
3872494 AAAAATCAAAATTTTATATAAAATATAAA
1 AAAAATAAAAAATATAAATAAAATATAAA
3872523 AAAA
1 AAAA
3872527 TCATATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.26
Consensus pattern (29 bp):
AAAAATAAAAAATATAAATAAAATATAAA
Found at i:3872524 original size:20 final size:21
Alignment explanation
Indices: 3872501--3872546 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
3872491 AAAAAAAATC
*
3872501 AAAATTTTATATAAAATATAAA
1 AAAATTATATATAAAATAT-AA
* *
3872523 AAAATCATATATAATATATAA
1 AAAATTATATATAAAATATAA
3872544 AAA
1 AAA
3872547 TTCAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATTATATATAAAATATAA
Found at i:3872547 original size:20 final size:20
Alignment explanation
Indices: 3872509--3872547 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3872499 TCAAAATTTT
3872509 ATATAAAATATAAAAAAATC
1 ATATAAAATATAAAAAAATC
* *
3872529 ATATATAATATATAAAAAT
1 ATATAAAATATAAAAAAAT
3872548 TCAAATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
ATATAAAATATAAAAAAATC
Found at i:3872677 original size:29 final size:29
Alignment explanation
Indices: 3872619--3872680 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
3872609 ATATCAAAAT
** *
3872619 ATTATATAAAAATTGAAATTTTTAACAAA
1 ATTATATAAAAATCAAAATTTATAACAAA
3872648 ATTATATAAAAATCAAAATATTATATA-AAA
1 ATTATATAAAAATCAAAAT-TTATA-ACAAA
3872678 ATT
1 ATT
3872681 TAAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 17 0.61
30 10 0.36
31 1 0.04
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (29 bp):
ATTATATAAAAATCAAAATTTATAACAAA
Found at i:3872685 original size:19 final size:19
Alignment explanation
Indices: 3872602--3872679 Score: 66
Period size: 19 Copynumber: 4.6 Consensus size: 19
3872592 AATATATAAA
*
3872602 TATATAAATATCAAAATAT
1 TATATAAAAATCAAAATAT
**
3872621 TATATAAAAATTGAAAT-T
1 TATATAAAAATCAAAATAT
3872639 T-T-T---AA-C-AAA-AT
1 TATATAAAAATCAAAATAT
3872650 TATATAAAAATCAAAATAT
1 TATATAAAAATCAAAATAT
3872669 TATATAAAAAT
1 TATATAAAAAT
3872680 TTAAATTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
11 5 0.11
12 1 0.02
13 3 0.07
16 3 0.07
17 2 0.04
18 5 0.11
19 27 0.59
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (19 bp):
TATATAAAAATCAAAATAT
Found at i:3872703 original size:32 final size:32
Alignment explanation
Indices: 3872655--3872717 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
3872645 AAAATTATAT
*
3872655 AAAAATCAAAATATTATATAAAAATTTAAATTA
1 AAAAATCAAAATATTATA-AAAAATATAAATTA
* *
3872688 AAAAATCTAAA-ATTATAAAACATATAAATT
1 AAAAATCAAAATATTATAAAAAATATAAATT
3872718 GAAATTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 11 0.41
32 6 0.22
33 10 0.37
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (32 bp):
AAAAATCAAAATATTATAAAAAATATAAATTA
Found at i:3872706 original size:17 final size:18
Alignment explanation
Indices: 3872645--3872704 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 18
3872635 AATTTTTAAC
*
3872645 AAAATTATATAAAAATCA
1 AAAATTATATAAAAATCT
3872663 AAATATTATATAAAAAT-T
1 AAA-ATTATATAAAAATCT
*
3872681 TAAA-T-TA-AAAAATCT
1 AAAATTATATAAAAATCT
3872696 AAAATTATA
1 AAAATTATA
3872705 AAACATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
14 6 0.17
15 6 0.17
16 2 0.06
17 3 0.09
18 5 0.14
19 13 0.37
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTATATAAAAATCT
Found at i:3877050 original size:78 final size:80
Alignment explanation
Indices: 3876966--3877131 Score: 257
Period size: 78 Copynumber: 2.1 Consensus size: 80
3876956 CAACAACAAT
* * *
3876966 GTTTGAAATTGAGAAGTTCGATGGTGAGACAAATTTCAATTTGTGGCAAGTAT-GGATGATGGCA
1 GTTTGAAATTGAGAAGTTCGATGGTGAGACAAATTTCAATCTGTGGCAAGT-TCAGATGATGGAA
*
3877030 ATTCTAGTTTAAT-C-
65 ATTCTAGTTCAATCCG
*
3877044 GTTTGAAATTGAGAAGTTCGATGGTGAGACAAATTTTAATCTGTGGCAAGTTCAGATGATGGAAA
1 GTTTGAAATTGAGAAGTTCGATGGTGAGACAAATTTCAATCTGTGGCAAGTTCAGATGATGGAAA
3877109 TTCTAGTTCAATCCG
66 TTCTAGTTCAATCCG
3877124 GTTTGAAA
1 GTTTGAAA
3877132 AAGGTTGTTA
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
77 1 0.01
78 70 0.88
79 1 0.01
80 8 0.10
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (80 bp):
GTTTGAAATTGAGAAGTTCGATGGTGAGACAAATTTCAATCTGTGGCAAGTTCAGATGATGGAAA
TTCTAGTTCAATCCG
Found at i:3881471 original size:64 final size:64
Alignment explanation
Indices: 3881403--3881530 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
3881393 ATTAATGGAC
* *
3881403 TCTTCTTCTGAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
1 TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
3881467 TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
1 TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
3881531 CAAAAGCACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (64 bp):
TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
Found at i:3892809 original size:15 final size:15
Alignment explanation
Indices: 3892789--3892848 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 15
3892779 CATTTAATTT
3892789 TTTTTTAAATTTTTA
1 TTTTTTAAATTTTTA
*
3892804 TTTTTTTAATATTTTA
1 TTTTTTAAAT-TTTTA
*
3892820 TTTTTGAATATTTTTA
1 TTTTTTAA-ATTTTTA
3892836 TAATTTTTAAATT
1 T--TTTTTAAATT
3892849 ATTTGTTAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
15 9 0.24
16 17 0.46
17 5 0.14
18 6 0.16
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTTTTAAATTTTTA
Found at i:3894929 original size:44 final size:44
Alignment explanation
Indices: 3894881--3894973 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
3894871 GAACATAAAA
* * *
3894881 GAATGAAAATGATGAAGTTATAGATATGAGTTGTACTAACAAAT
1 GAATGAAAATGATGAAGTTAGAGAAATGAGTCGTACTAACAAAT
* * *
3894925 GAATGGAAATGATGAAGTTAGAGAAATGAGTCGTATTCACAAAT
1 GAATGAAAATGATGAAGTTAGAGAAATGAGTCGTACTAACAAAT
3894969 GAATG
1 GAATG
3894974 CATTTTCTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.44, C:0.05, G:0.24, T:0.27
Consensus pattern (44 bp):
GAATGAAAATGATGAAGTTAGAGAAATGAGTCGTACTAACAAAT
Found at i:3901531 original size:4 final size:4
Alignment explanation
Indices: 3901522--3901550 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
3901512 ATCATTGGCA
3901522 TGTT TGTT TGTT TGTT TGTT TGTT T-TT TG
1 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TG
3901551 CAGTCTGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TGTT
Found at i:3902021 original size:16 final size:16
Alignment explanation
Indices: 3901996--3902048 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
3901986 TTGGTTCGCT
*
3901996 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
*
3902012 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
3902028 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
3902044 GTAAT
1 GTAAT
3902049 AGCAAATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.40, C:0.04, G:0.34, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:3902299 original size:16 final size:16
Alignment explanation
Indices: 3902262--3902303 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
3902252 TTAATCATAT
*
3902262 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
3902278 TT-AAATATATTATAA
1 TTAAAATATATTATAA
3902293 TTAAAATATAT
1 TTAAAATATAT
3902304 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:3902310 original size:14 final size:15
Alignment explanation
Indices: 3902271--3902312 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
3902261 TTTAAACATA
*
3902271 ATTATTATTAAATAT
1 ATTATAATTAAATAT
3902286 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
3902300 A-TATAATTTAATA
1 ATTATAATTAAATA
3902313 AAATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:3902363 original size:61 final size:61
Alignment explanation
Indices: 3902297--3902484 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
3902287 TTATAATTAA
*
3902297 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
* * * * * * * * *
3902358 AATATATGATACT-ATAAAA-TA-TAATTTAA-C-ATAATTATTAT-TAAATATATTATAATTAA
1 AATATATAAT-TTAATAAAATTATTAA--TAATCAAT-ATTCTTATATGAATTTACTAAAATCAT
*
3902417 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
3902478 AATATAT
1 AATATAT
3902485 GATACTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 1 0.01
59 34 0.35
60 19 0.20
61 42 0.43
62 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
Found at i:3902408 original size:120 final size:121
Alignment explanation
Indices: 3902260--3902536 Score: 495
Period size: 120 Copynumber: 2.3 Consensus size: 121
3902250 ATTTAATCAT
3902260 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
*
3902325 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
*
3902381 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
3902445 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * *
3902501 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAA
3902537 TATTAAATAA
Statistics
Matches: 151, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
120 145 0.96
121 6 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
Found at i:3902421 original size:16 final size:16
Alignment explanation
Indices: 3902377--3902423 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
3902367 TACTATAAAA
*
3902377 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
3902393 TATTATT-AAATATAT
1 TATAATTAAAATATAT
3902408 TATAATTAAAATATAT
1 TATAATTAAAATATAT
3902424 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:3902483 original size:59 final size:59
Alignment explanation
Indices: 3902300--3902483 Score: 166
Period size: 59 Copynumber: 3.1 Consensus size: 59
3902290 TAATTAAAAT
*
3902300 ATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTAAAATCATA
* * * * * *
3902359 ATAT-ATGATACTATAAAATATAATTTAA-CAT-AATTATTATTAAAT-ATATTATAATTAAA--
1 ATATAAT-TTA--ATAAAAT-T-A-TTAATAATCAA-TATTCTTATATGA-ATT-TACTAAAATC
3902418 AT-
57 ATA
*
3902420 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATA
1 ATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTAAAATCATA
3902479 ATATA
1 ATATA
3902484 TGATACTATA
Statistics
Matches: 96, Mismatches: 13, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
56 10 0.10
57 14 0.15
58 8 0.08
59 18 0.19
61 13 0.14
62 8 0.08
63 15 0.16
64 10 0.10
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTAAAATCATA
Found at i:3902904 original size:30 final size:30
Alignment explanation
Indices: 3902870--3902928 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
3902860 GGCCCATTTT
3902870 TATTTTAAAAAT-TTTAAAAAATTAAAAAAG
1 TATTTTAAAAATATTT-AAAAATTAAAAAAG
*
3902900 TATTTTAAAAATATTTTAAAATTAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAA
3902929 ATTAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (30 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAG
Found at i:3902909 original size:11 final size:10
Alignment explanation
Indices: 3902870--3902921 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
3902860 GGCCCATTTT
3902870 TATTTTAAAA
1 TATTTTAAAA
3902880 -ATTTTAAAA
1 TATTTTAAAA
* **
3902889 AATTAAAAAA
1 TATTTTAAAA
3902899 GTATTTTAAAAA
1 -TATTTT-AAAA
3902911 TATTTTAAAA
1 TATTTTAAAA
3902921 T
1 T
3902922 TAAAAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 9 0.26
10 12 0.35
11 9 0.26
12 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:3902916 original size:41 final size:41
Alignment explanation
Indices: 3902870--3903053 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 41
3902860 GGCCCATTTT
*
3902870 TATTTTAAAAATTTTAAAAAATT-AAAAAAGTATTTTAAAAA
1 TATTTTAAAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAA
*
3902911 TATTTT-AAAATTAAAAAAATTAAAAAAAGTATTTTAAAAT
1 TATTTTAAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
*
3902951 TATTTT-AAAATTAAAAAGAATTAAAAAAATTATTTTAAAAA
1 TATTTTAAAAATTAAAAA-AATTAAAAAAAGTATTTTAAAAA
**
3902992 TA-TTTAAAAATTTAAAAAAAATT-AAAAAAGTATGTAAAAAAA
1 TATTTTAAAAA-TT-AAAAAAATTAAAAAAAGTAT-TTTAAAAA
3903034 TATTTT-AAAATTAAAAAAAT
1 TATTTTAAAAATTAAAAAAAT
3903054 AAATATATTT
Statistics
Matches: 129, Mismatches: 7, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
39 10 0.08
40 49 0.38
41 44 0.34
42 18 0.14
43 8 0.06
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (41 bp):
TATTTTAAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:3902961 original size:11 final size:11
Alignment explanation
Indices: 3902869--3902963 Score: 51
Period size: 11 Copynumber: 9.3 Consensus size: 11
3902859 CGGCCCATTT
3902869 TTATTTTAAAA
1 TTATTTTAAAA
3902880 --ATTTTAAAA
1 TTATTTTAAAA
* **
3902889 -AATTAAAAAA
1 TTATTTTAAAA
*
3902899 GTATTTTAAAA
1 TTATTTTAAAA
*
3902910 ATATTTTAAAA
1 TTATTTTAAAA
**
3902921 TTA--AAAAAA
1 TTATTTTAAAA
**
3902930 TTA--AAAAAA
1 TTATTTTAAAA
*
3902939 GTATTTTAAAA
1 TTATTTTAAAA
3902950 TTATTTTAAAA
1 TTATTTTAAAA
3902961 TTA
1 TTA
3902964 AAAAGAATTA
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
9 24 0.36
10 7 0.10
11 36 0.54
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TTATTTTAAAA
Found at i:3902966 original size:29 final size:29
Alignment explanation
Indices: 3902904--3902990 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
3902894 AAAAAGTATT
**
3902904 TTAAAAA-TATTTTAAAATTA--AAAAAA
1 TTAAAAAGTATTTTAAAATTATTTTAAAA
3902930 TTAAAAAAAGTATTTTAAAATTATTTTAAAA
1 TT--AAAAAGTATTTTAAAATTATTTTAAAA
* **
3902961 TTAAAAAGAATTAAAAAAATTATTTTAAAA
1 TTAAAAAGTATT-TTAAAATTATTTTAAAA
3902991 ATATTTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
26 2 0.04
28 5 0.10
29 22 0.44
30 15 0.30
31 6 0.12
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAAAAGTATTTTAAAATTATTTTAAAA
Found at i:3902974 original size:10 final size:9
Alignment explanation
Indices: 3902957--3903053 Score: 50
Period size: 10 Copynumber: 9.6 Consensus size: 9
3902947 AAATTATTTT
3902957 AAAATTAAA
1 AAAATTAAA
3902966 AAGAATTAAA
1 AA-AATTAAA
3902976 AAAATTATTTTAA
1 AAAATTA----AA
*
3902989 AAATATTTAA
1 AAA-ATTAAA
*
3902999 AAATTTAAAA
1 AAAATT-AAA
3903009 AAAATTAAA
1 AAAATTAAA
3903018 AAAGTATGTAAA
1 AAA--AT-TAAA
***
3903030 AAAATATTTT
1 AAAAT-TAAA
3903040 AAAATTAAA
1 AAAATTAAA
3903049 AAAAT
1 AAAAT
3903054 AAATATATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 20
0.68 0.11 0.20
Matches are distributed among these distances:
9 21 0.31
10 29 0.43
11 2 0.03
12 7 0.10
13 5 0.07
14 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAATTAAA
Found at i:3903007 original size:18 final size:18
Alignment explanation
Indices: 3902984--3903019 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3902974 AAAAAATTAT
* *
3902984 TTTAAAAATATTTAAAAA
1 TTTAAAAAAAATTAAAAA
3903002 TTTAAAAAAAATTAAAAA
1 TTTAAAAAAAATTAAAAA
3903020 AGTATGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TTTAAAAAAAATTAAAAA
Found at i:3903009 original size:19 final size:19
Alignment explanation
Indices: 3902982--3903054 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
3902972 TAAAAAAATT
*
3902982 ATTTTAAAAATATTTAAAA
1 ATTTAAAAAATATTTAAAA
* *
3903001 ATTTAAAAAAAATTAAAAA
1 ATTTAAAAAATATTTAAAA
*
3903020 AGTATGTAAAAAAATATTTTAAA
1 A-T-T-T-AAAAAATATTTAAAA
*
3903043 ATTAAAAAAATA
1 ATTTAAAAAATA
3903055 AATATATTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
19 25 0.58
20 1 0.02
21 2 0.05
22 2 0.05
23 13 0.30
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
ATTTAAAAAATATTTAAAA
Found at i:3903053 original size:40 final size:40
Alignment explanation
Indices: 3902870--3903053 Score: 246
Period size: 41 Copynumber: 4.5 Consensus size: 40
3902860 GGCCCATTTT
*
3902870 TATTTTAAAAATTTTAAAAAATT-AAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAA
*
3902911 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAT
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
*
3902951 TATTTTAAAATTAAAAAGAATTAAAAAAATTATTTTAAAAA
1 TATTTTAAAATTAAAAA-AATTAAAAAAAGTATTTTAAAAA
* **
3902992 TATTTAAAAATTTAAAAAAAATT-AAAAAAGTATGTAAAAAAA
1 TATTTTAAAA-TT-AAAAAAATTAAAAAAAGTAT-TTTAAAAA
3903034 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
3903054 AAATATATTT
Statistics
Matches: 129, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
39 10 0.08
40 46 0.36
41 47 0.36
42 21 0.16
43 5 0.04
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:3904163 original size:25 final size:25
Alignment explanation
Indices: 3904129--3904180 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
3904119 AAGAATCAGT
* *
3904129 AAACTTAAACAGACGGGACTGGTGA
1 AAACTTAAACAAACAGGACTGGTGA
3904154 AAACTTAAACAAACAGGACTGGTGA
1 AAACTTAAACAAACAGGACTGGTGA
3904179 AA
1 AA
3904181 TATAAATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (25 bp):
AAACTTAAACAAACAGGACTGGTGA
Found at i:3943578 original size:78 final size:78
Alignment explanation
Indices: 3943467--3943610 Score: 220
Period size: 78 Copynumber: 1.8 Consensus size: 78
3943457 CTCAACATGA
* * *
3943467 TTTTTTTACTAATTTTTCTCTTTTGAAATATAATATACATTATAAAAAAA-ATTAACACATAAAA
1 TTTTTTTACTAATTTTTCTCTTGTAAAACATAATATACATTATAAAAAAATATTAACACATAAAA
3943531 TTCAACATTGTTT
66 TTCAACATTGTTT
*
3943544 TTTTTATTACT-ATTTTTACTCTTGTAAAACATAATATACATTGTAAAAAAATATTAACACATAA
1 TTTTT-TTACTAATTTTT-CTCTTGTAAAACATAATATACATTATAAAAAAATATTAACACATAA
3943608 AAT
64 AAT
3943611 AAAGACAACT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
77 11 0.18
78 34 0.57
79 15 0.25
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (78 bp):
TTTTTTTACTAATTTTTCTCTTGTAAAACATAATATACATTATAAAAAAATATTAACACATAAAA
TTCAACATTGTTT
Found at i:3944401 original size:2 final size:2
Alignment explanation
Indices: 3944396--3944421 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3944386 TATATATATA
3944396 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
3944422 CTCTTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:3951266 original size:20 final size:20
Alignment explanation
Indices: 3951232--3951273 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3951222 AACTATTTAA
** *
3951232 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
3951252 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
3951272 AT
1 AT
3951274 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:3951273 original size:32 final size:32
Alignment explanation
Indices: 3951213--3951273 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
3951203 GTTTTTGAAA
3951213 AATAATTATAACTATTTAAATAATATTATTTG
1 AATAATTATAACTATTTAAATAATATTATTTG
*
3951245 AATAGTTATAA-TA-TTAAATGAATAATTAT
1 AATAATTATAACTATTTAAAT-AAT-ATTAT
3951274 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAACTATTTAAATAATATTATTTG
Found at i:3962655 original size:18 final size:18
Alignment explanation
Indices: 3962609--3962666 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
3962599 TGCAAACCTG
*
3962609 TATGCATGTGCGAACCCA
1 TATGTATGTGCGAACCCA
**
3962627 TAAACTATGTGCGAACCCA
1 T-ATGTATGTGCGAACCCA
*
3962646 TATGTATGTGTGAACCC-
1 TATGTATGTGCGAACCCA
3962663 TATG
1 TATG
3962667 ATAAGCAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 4 0.12
18 14 0.42
19 15 0.45
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (18 bp):
TATGTATGTGCGAACCCA
Found at i:3962757 original size:18 final size:18
Alignment explanation
Indices: 3962702--3962758 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
3962692 ATGTGAGCTT
*
3962702 ATATAGATGTGCAAACCC
1 ATATACATGTGCAAACCC
* * * * *
3962720 CTGTAC-TATGCGAGCCC
1 ATATACATGTGCAAACCC
3962737 ATATACATGTGCAAACCC
1 ATATACATGTGCAAACCC
3962755 ATAT
1 ATAT
3962759 GTTATTGTGA
Statistics
Matches: 27, Mismatches: 11, Indels: 2
0.68 0.28 0.05
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (18 bp):
ATATACATGTGCAAACCC
Found at i:3965293 original size:84 final size:84
Alignment explanation
Indices: 3965152--3965317 Score: 305
Period size: 84 Copynumber: 2.0 Consensus size: 84
3965142 GTGATAAGAG
* * *
3965152 AATGATTAAGTCTTATAATTGTATGAGATGTTGAGGGTGTTGGAACATTATTAAAATAAGTTGAT
1 AATGATTAAGTCTTATAATTGCATGAGATGTTGAGGATGTTGGAACACTATTAAAATAAGTTGAT
3965217 AATATAAAAGAAGATAAAT
66 AATATAAAAGAAGATAAAT
3965236 AATGATTAAGTCTTATAATTGCATGAGATGTTGAGGATGTTGGAACACTATTAAAATAAGTTGAT
1 AATGATTAAGTCTTATAATTGCATGAGATGTTGAGGATGTTGGAACACTATTAAAATAAGTTGAT
3965301 AATATAAAAGAAGATAA
66 AATATAAAAGAAGATAA
3965318 GTAGATTTAA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (84 bp):
AATGATTAAGTCTTATAATTGCATGAGATGTTGAGGATGTTGGAACACTATTAAAATAAGTTGAT
AATATAAAAGAAGATAAAT
Found at i:3974009 original size:18 final size:18
Alignment explanation
Indices: 3973973--3974010 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
3973963 TTTTCAGTTA
*
3973973 TTTTTAATTTAATTATTT
1 TTTTTAATTTAAATATTT
3973991 TTTTTAATTTGAAAT-TTT
1 TTTTTAATTT-AAATATTT
3974009 TT
1 TT
3974011 GTGTAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTTAATTTAAATATTT
Found at i:3977342 original size:81 final size:82
Alignment explanation
Indices: 3977235--3977388 Score: 258
Period size: 81 Copynumber: 1.9 Consensus size: 82
3977225 AATTAGTGAC
* *
3977235 TGTTTTGTCACTTTTTTATAACGTTAGT-AGCTGTTTTGTTATTTTTT-AAAATTTGAGTGACTA
1 TGTTTTGTCACTTTTTGATAACGTTAGTGA-CTGTTTTGTTATTTTTTAAAAAGTTGAGTGACTA
3977298 AAATGAAACTTATGTAAT
65 AAATGAAACTTATGTAAT
*
3977316 TGTTTTGTCACTTTTTGATAATGTTAGTGACTGTTTTGTTATTTTTTAAAAAGTTGAGTGACTAA
1 TGTTTTGTCACTTTTTGATAACGTTAGTGACTGTTTTGTTATTTTTTAAAAAGTTGAGTGACTAA
3977381 AATGAAAC
66 AATGAAAC
3977389 CTAGGTGACT
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
81 43 0.63
82 25 0.37
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.48
Consensus pattern (82 bp):
TGTTTTGTCACTTTTTGATAACGTTAGTGACTGTTTTGTTATTTTTTAAAAAGTTGAGTGACTAA
AATGAAACTTATGTAAT
Found at i:3980389 original size:767 final size:767
Alignment explanation
Indices: 3978915--3980775 Score: 3713
Period size: 767 Copynumber: 2.4 Consensus size: 767
3978905 GGAAGCTTAC
3978915 CATAGTCATTCAGATGTCAGCTTTGCTTTCCTCCCTCTCTCTTCCTACTATTTCACTGCATGAGC
1 CATAGTCATTCAGATGTCAGCTTTGCTTTCCTCCCTCTCTCTTCCTACTATTTCACTGCATGAGC
3978980 AAAAGGCAGAAATATCAAACACAATGAATCTCCTGATACTAGTAGAAATGCAGTTCACTGCTCTT
66 AAAAGGCAGAAATATCAAACACAATGAATCTCCTGATACTAGTAGAAATGCAGTTCACTGCTCTT
3979045 GCGCATATGGATCATTAACTTATATCTAAAGGGTGTAAATTCAGTTGTCACAAAAGGGAATAATT
131 GCGCATATGGATCATTAACTTATATCTAAAGGGTGTAAATTCAGTTGTCACAAAAGGGAATAATT
3979110 AATTTTTGAAACAATAATTTCAAAGGGAGTTCAAGACTTCAAGAGGGTGTCCTCAAATATATATA
196 AATTTTTGAAACAATAATTTCAAAGGGAGTTCAAGACTTCAAGAGGGTGTCCTCAAATATATATA
*
3979175 TGCATGCATGCATATATTACTGTCTCTTTGGTCCTCTTCTACAGGCAGTTACTTCCAGAAACTGC
261 TGCATGCATGCATATATTACTGTCTCTTTGGTCCTCTTCTACAGGCAGTTACTCCCAGAAACTGC
3979240 AGTTCTAATTTATACATAGCCAAGAATATATGCAACTAAGGTCAAACACTTATACCATAACTGCA
326 AGTTCTAATTTATACATAGCCAAGAATATATGCAACTAAGGTCAAACACTTATACCATAACTGCA
3979305 GAATCATTTGAAAAAGGATTTTCTATTGGGAAATGATTGGCATCAATTATTCGAACAGGATGATG
391 GAATCATTTGAAAAAGGATTTTCTATTGGGAAATGATTGGCATCAATTATTCGAACAGGATGATG
3979370 ATTCAGGGCATGGGATCAAATTTTCCAAGAGATTAGGACTGAAATGATTCAAGGACTGGTTCCTG
456 ATTCAGGGCATGGGATCAAATTTTCCAAGAGATTAGGACTGAAATGATTCAAGGACTGGTTCCTG
3979435 GTATTATCTATGCCATTGCTTCAACAGTTCAGGTAAGCACCAAGGAGCAAAGTAGCCGGAGTAAA
521 GTATTATCTATGCCATTGCTTCAACAGTTCAGGTAAGCACCAAGGAGCAAAGTAGCCGGAGTAAA
3979500 CTATAACATGGAAAAAAGTATTCCTCCTCCTCAACAAAAAAGAACCCATTCCTTCCAATATCAGG
586 CTATAACATGGAAAAAAGTATTCCTCCTCCTCAACAAAAAAGAACCCATTCCTTCCAATATCAGG
3979565 TACAGAGGCTTTATGATTCAAGAAGAGTTAAAACTGTCTATTTACAAATTAATTAATGAATGAGT
651 TACAGAGGCTTTATGATTCAAGAAGAGTTAAAACTGTCTATTTACAAATTAATTAATGAATGAGT
3979630 GAATGAAACATGTAGCACTTTTTTAGACTGGCTGTGAGTTAAAAAGCCCCAT
716 GAATGAAACATGTAGCACTTTTTTAGACTGGCTGTGAGTTAAAAAGCCCCAT
3979682 CATAGTCATTCAGATGTCAGCTTTGCTTTCCTCCCTCTCTCTTCCTACTATTTCACTGCATGAGC
1 CATAGTCATTCAGATGTCAGCTTTGCTTTCCTCCCTCTCTCTTCCTACTATTTCACTGCATGAGC
3979747 AAAAGGCAGAAATATCAAACACAATGAATCTCCTGATACTAGTAGAAATGCAGTTCACTGCTCTT
66 AAAAGGCAGAAATATCAAACACAATGAATCTCCTGATACTAGTAGAAATGCAGTTCACTGCTCTT
3979812 GCGCATATGGATCATTAACTTATATCTAAAGGGTGTAAATTCAGTTGTCACAAAAGGGAATAATT
131 GCGCATATGGATCATTAACTTATATCTAAAGGGTGTAAATTCAGTTGTCACAAAAGGGAATAATT
3979877 AATTTTTGAAACAATAATTTCAAAGGGAGTTCAAGACTTCAAGAGGGTGTCCTCAAATATATATA
196 AATTTTTGAAACAATAATTTCAAAGGGAGTTCAAGACTTCAAGAGGGTGTCCTCAAATATATATA
3979942 TGCATGCATGCATATATTACTGTCTCTTTGGTCCTCTTCTACAGGCAGTTACTCCCAGAAACTGC
261 TGCATGCATGCATATATTACTGTCTCTTTGGTCCTCTTCTACAGGCAGTTACTCCCAGAAACTGC
3980007 AGTTCTAATTTATACATAGCCAAGAATATATGCAACTAAGGTCAAACACTTATACCATAACTGCA
326 AGTTCTAATTTATACATAGCCAAGAATATATGCAACTAAGGTCAAACACTTATACCATAACTGCA
3980072 GAATCATTTGAAAAAGGATTTTCTATTGGGAAATGATTGGCATCAATTATTCGAACAGGATGATG
391 GAATCATTTGAAAAAGGATTTTCTATTGGGAAATGATTGGCATCAATTATTCGAACAGGATGATG
3980137 ATTCAGGGCATGGGATCAAATTTTCCAAGAGATTAGGACTGAAATGATTCAAGGACTGGTTCCTG
456 ATTCAGGGCATGGGATCAAATTTTCCAAGAGATTAGGACTGAAATGATTCAAGGACTGGTTCCTG
3980202 GTATTATCTATGCCATTGCTTCAACAGTTCAGGTAAGCACCAAGGAGCAAAGTAGCCGGAGTAAA
521 GTATTATCTATGCCATTGCTTCAACAGTTCAGGTAAGCACCAAGGAGCAAAGTAGCCGGAGTAAA
3980267 CTATAACATGGAAAAAAGTATTCCTCCTCCTCAACAAAAAAGAACCCATTCCTTCCAATATCAGG
586 CTATAACATGGAAAAAAGTATTCCTCCTCCTCAACAAAAAAGAACCCATTCCTTCCAATATCAGG
3980332 TACAGAGGCTTTATGATTCAAGAAGAGTTAAAACTGTCTATTTACAAATTAATTAATGAATGAGT
651 TACAGAGGCTTTATGATTCAAGAAGAGTTAAAACTGTCTATTTACAAATTAATTAATGAATGAGT
3980397 GAATGAAACATGTAGCACTTTTTTAGACTGGCTGTGAGTTAAAAAGCCCCAT
716 GAATGAAACATGTAGCACTTTTTTAGACTGGCTGTGAGTTAAAAAGCCCCAT
3980449 CATAGTCATTCAGATGTCAGCTTTGCTTTCCTCCCTCTCTCTTCCTACTATTTCACTGCATGAGC
1 CATAGTCATTCAGATGTCAGCTTTGCTTTCCTCCCTCTCTCTTCCTACTATTTCACTGCATGAGC
3980514 AAAAGGCAGAAATATCAAACACAATGAATCTCCTGATACTAGTAGAAATGCAGTTCACTGCTCTT
66 AAAAGGCAGAAATATCAAACACAATGAATCTCCTGATACTAGTAGAAATGCAGTTCACTGCTCTT
3980579 GCGCATATGGATCATTAACTTATATCTAAAGGGTGTAAATTCAGTTGTCACAAAAGGGAATAATT
131 GCGCATATGGATCATTAACTTATATCTAAAGGGTGTAAATTCAGTTGTCACAAAAGGGAATAATT
3980644 AATTTTTGAAACAATAATTTCAAAGGGAGTTCAAGACTTCAAGAGGGTGTCCTCAAATATATATA
196 AATTTTTGAAACAATAATTTCAAAGGGAGTTCAAGACTTCAAGAGGGTGTCCTCAAATATATATA
3980709 TGCATGCATGCATATATTACTGTCTCTTTGGTCCTCTTCTACAGGCAGTTACTCCCAGAAACTGC
261 TGCATGCATGCATATATTACTGTCTCTTTGGTCCTCTTCTACAGGCAGTTACTCCCAGAAACTGC
3980774 AG
326 AG
3980776 GCAGCGGTAT
Statistics
Matches: 1093, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
767 1093 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (767 bp):
CATAGTCATTCAGATGTCAGCTTTGCTTTCCTCCCTCTCTCTTCCTACTATTTCACTGCATGAGC
AAAAGGCAGAAATATCAAACACAATGAATCTCCTGATACTAGTAGAAATGCAGTTCACTGCTCTT
GCGCATATGGATCATTAACTTATATCTAAAGGGTGTAAATTCAGTTGTCACAAAAGGGAATAATT
AATTTTTGAAACAATAATTTCAAAGGGAGTTCAAGACTTCAAGAGGGTGTCCTCAAATATATATA
TGCATGCATGCATATATTACTGTCTCTTTGGTCCTCTTCTACAGGCAGTTACTCCCAGAAACTGC
AGTTCTAATTTATACATAGCCAAGAATATATGCAACTAAGGTCAAACACTTATACCATAACTGCA
GAATCATTTGAAAAAGGATTTTCTATTGGGAAATGATTGGCATCAATTATTCGAACAGGATGATG
ATTCAGGGCATGGGATCAAATTTTCCAAGAGATTAGGACTGAAATGATTCAAGGACTGGTTCCTG
GTATTATCTATGCCATTGCTTCAACAGTTCAGGTAAGCACCAAGGAGCAAAGTAGCCGGAGTAAA
CTATAACATGGAAAAAAGTATTCCTCCTCCTCAACAAAAAAGAACCCATTCCTTCCAATATCAGG
TACAGAGGCTTTATGATTCAAGAAGAGTTAAAACTGTCTATTTACAAATTAATTAATGAATGAGT
GAATGAAACATGTAGCACTTTTTTAGACTGGCTGTGAGTTAAAAAGCCCCAT
Found at i:3981603 original size:18 final size:18
Alignment explanation
Indices: 3981580--3981615 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3981570 ATAATTTATT
3981580 TTTTTATTATACTTTTTA
1 TTTTTATTATACTTTTTA
3981598 TTTTTATTATACTTTTTA
1 TTTTTATTATACTTTTTA
3981616 GTAACATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTATTATACTTTTTA
Found at i:3982568 original size:21 final size:21
Alignment explanation
Indices: 3982543--3982584 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3982533 CTTCACTCTA
3982543 TTACAATTTTGCCTTCAAGGT
1 TTACAATTTTGCCTTCAAGGT
3982564 TTACAATTTTGCCTTCAAGGT
1 TTACAATTTTGCCTTCAAGGT
3982585 GAGCTTCGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (21 bp):
TTACAATTTTGCCTTCAAGGT
Found at i:3983327 original size:29 final size:29
Alignment explanation
Indices: 3983294--3983358 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
3983284 AGACTCCACC
*
3983294 TCCACCAAATAAG-CAACCTTTGCCAAGAT
1 TCCACCAAATAAGAAAACC-TTGCCAAGAT
*
3983323 TCCACC-TATAAGAAAACCTTGCCAAGAT
1 TCCACCAAATAAGAAAACCTTGCCAAGAT
3983351 TCCACCAA
1 TCCACCAA
3983359 TCTTCATGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.38, C:0.32, G:0.09, T:0.20
Consensus pattern (29 bp):
TCCACCAAATAAGAAAACCTTGCCAAGAT
Found at i:3986759 original size:18 final size:18
Alignment explanation
Indices: 3986736--3986772 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3986726 ATTAAGTGGA
3986736 TTTAATATT-GTAATATTT
1 TTTAATATTAGT-ATATTT
3986754 TTTAATATTAGTATATTT
1 TTTAATATTAGTATATTT
3986772 T
1 T
3986773 ATATTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTAATATTAGTATATTT
Found at i:3986777 original size:7 final size:7
Alignment explanation
Indices: 3986765--3986789 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3986755 TTAATATTAG
3986765 TATATTT
1 TATATTT
3986772 TATATTT
1 TATATTT
3986779 TATATTT
1 TATATTT
3986786 TATA
1 TATA
3986790 AATATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TATATTT
Found at i:3987040 original size:14 final size:13
Alignment explanation
Indices: 3987014--3987047 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
3987004 TTTTTATTCG
*
3987014 TTTTAAAATATAT
1 TTTTAAAAAATAT
3987027 TTTCTAAAAAATAT
1 TTT-TAAAAAATAT
3987041 TTTTAAA
1 TTTTAAA
3987048 TTTTATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:3989937 original size:5 final size:5
Alignment explanation
Indices: 3989929--3989967 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
3989919 GTAAACTAAA
*
3989929 CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CACAC CGCA
1 CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CGCA
3989968 TCCAATCGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.23, C:0.59, G:0.18, T:0.00
Consensus pattern (5 bp):
CGCAC
Found at i:3990611 original size:19 final size:21
Alignment explanation
Indices: 3990584--3990624 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
3990574 TAATATATAT
3990584 ATTAATTTTTAT-T-AAACAA
1 ATTAATTTTTATGTAAAACAA
*
3990603 ATTATTTTTTATGTAAAACAA
1 ATTAATTTTTATGTAAAACAA
3990624 A
1 A
3990625 CAGTTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 1 0.05
21 7 0.37
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (21 bp):
ATTAATTTTTATGTAAAACAA
Found at i:3991703 original size:15 final size:15
Alignment explanation
Indices: 3991679--3991721 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
3991669 CATTTCAAAG
* *
3991679 ATAAATCCTAATTCC
1 ATAAACCCTAATTAC
*
3991694 CTAAACCCTAATTAC
1 ATAAACCCTAATTAC
3991709 ATAAACCCATAAT
1 ATAAACCC-TAAT
3991722 CTTATGCGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAACCCTAATTAC
Found at i:3991990 original size:108 final size:108
Alignment explanation
Indices: 3991797--3992012 Score: 423
Period size: 108 Copynumber: 2.0 Consensus size: 108
3991787 CATTCGAAAA
3991797 CCTACCTATATCTAAATTCCTCATCCATGGAAAATAAGGAGAATTTGGATTTCTCACACAGATAT
1 CCTACCTATATCTAAATTCCTCATCCATGGAAAATAAGGAGAATTTGGATTTCTCACACAGATAT
*
3991862 GATTACTCGTAATCAGCTAGGAAGTTCTTTTTGCACCATCTTT
66 GATTACTCGTAATCAACTAGGAAGTTCTTTTTGCACCATCTTT
3991905 CCTACCTATATCTAAATTCCTCATCCATGGAAAATAAGGAGAATTTGGATTTCTCACACAGATAT
1 CCTACCTATATCTAAATTCCTCATCCATGGAAAATAAGGAGAATTTGGATTTCTCACACAGATAT
3991970 GATTACTCGTAATCAACTAGGAAGTTCTTTTTGCACCATCTTT
66 GATTACTCGTAATCAACTAGGAAGTTCTTTTTGCACCATCTTT
3992013 TACAATGCCC
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (108 bp):
CCTACCTATATCTAAATTCCTCATCCATGGAAAATAAGGAGAATTTGGATTTCTCACACAGATAT
GATTACTCGTAATCAACTAGGAAGTTCTTTTTGCACCATCTTT
Found at i:3994078 original size:21 final size:22
Alignment explanation
Indices: 3994034--3994084 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
3994024 TGGCTAGTAC
3994034 AAATAACAAAAACAATAGC-AA
1 AAATAACAAAAACAATAGCAAA
3994055 AAATAACAAAAA-AA-AGGCAGAA
1 AAATAACAAAAACAATA-GCA-AA
3994077 AAATAACA
1 AAATAACA
3994085 GCACCAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.04
20 4 0.15
21 12 0.44
22 10 0.37
ACGTcount: A:0.73, C:0.12, G:0.08, T:0.08
Consensus pattern (22 bp):
AAATAACAAAAACAATAGCAAA
Found at i:3994623 original size:22 final size:21
Alignment explanation
Indices: 3994562--3994624 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
3994552 TTTTTGACCC
3994562 TTTAAAATTT-TGACTCTAATTTT
1 TTTAAAATTTAT--CTC-AATTTT
*
3994585 TTTAAAATTTCTCTCAATTTT
1 TTTAAAATTTATCTCAATTTT
* *
3994606 TTTTAACTTTATCGTCAAT
1 TTTAAAATTTATC-TCAAT
3994625 ATGCTTTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 16 0.46
22 8 0.23
23 10 0.29
24 1 0.03
ACGTcount: A:0.29, C:0.13, G:0.03, T:0.56
Consensus pattern (21 bp):
TTTAAAATTTATCTCAATTTT
Found at i:3996824 original size:14 final size:14
Alignment explanation
Indices: 3996805--3996843 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
3996795 TTATTTCACT
3996805 GAAAATGATTTCTA
1 GAAAATGATTTCTA
*
3996819 GAAAATAATTTCTA
1 GAAAATGATTTCTA
3996833 GAAAATGATTT
1 GAAAATGATTT
3996844 ACTTTCTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:3997447 original size:18 final size:18
Alignment explanation
Indices: 3997392--3997452 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
3997382 AATATGCATG
*
3997392 TTTAATAATATTGAAA-AA
1 TTTAATAAT-TTTAAATAA
*
3997410 TATAATAATTTATATTAATAA
1 TTTAATAATTT-TA--AATAA
3997431 TTTAATAATTTTAAAT-A
1 TTTAATAATTTTAAATAA
3997448 TTTAA
1 TTTAA
3997453 AAAATAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
17 8 0.22
18 12 0.33
20 4 0.11
21 12 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TTTAATAATTTTAAATAA
Found at i:3997479 original size:42 final size:46
Alignment explanation
Indices: 3997398--3997486 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 46
3997388 CATGTTTAAT
* *
3997398 AATATTGAAAAATATAATAATTTATATTAATAATTTAATAATTTTA
1 AATATTGAAAAATATAATAATTTATATTAATAATATAATAATATTA
*
3997444 AATATTTAAAAA-ATAA-AA-TT-TATT-ATCAATATAATAATATTA
1 AATATTGAAAAATATAATAATTTATATTAAT-AATATAATAATATTA
3997486 A
1 A
3997487 GCTTGGTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
41 2 0.05
42 18 0.46
43 2 0.05
44 2 0.05
45 4 0.10
46 11 0.28
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (46 bp):
AATATTGAAAAATATAATAATTTATATTAATAATATAATAATATTA
Found at i:4001133 original size:20 final size:20
Alignment explanation
Indices: 4001108--4001159 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
4001098 GAAAAAGTTG
4001108 TTTTTACATATATT-AATAAA
1 TTTTTACATATATTAAAT-AA
* *
4001128 TTTTT--ATATTTTAAATTA
1 TTTTTACATATATTAAATAA
4001146 TTTTTACATATATT
1 TTTTTACATATATT
4001160 GCAATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 11 0.42
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTACATATATTAAATAA
Found at i:4002661 original size:8 final size:7
Alignment explanation
Indices: 4002641--4002675 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
4002631 GGTATTCTAC
4002641 TTTTTCT
1 TTTTTCT
4002648 TTTTTCT
1 TTTTTCT
4002655 TTGTTTCTT
1 TT-TTTC-T
4002664 TTTTTCT
1 TTTTTCT
4002671 TTTTT
1 TTTTT
4002676 AGAATCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 15 0.58
8 8 0.31
9 3 0.12
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:4002663 original size:15 final size:16
Alignment explanation
Indices: 4002643--4002672 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4002633 TATTCTACTT
4002643 TTTC-TTTTTTCTTTG
1 TTTCTTTTTTTCTTTG
4002658 TTTCTTTTTTTCTTT
1 TTTCTTTTTTTCTTT
4002673 TTTAGAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTCTTTTTTTCTTTG
Found at i:4005075 original size:18 final size:18
Alignment explanation
Indices: 4005029--4005076 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
4005019 TATAAGAATA
*
4005029 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
4005045 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
4005062 TTAATTATAATATAT
1 TTAATTATAATATAT
4005077 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:4005081 original size:15 final size:15
Alignment explanation
Indices: 4005046--4005087 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4005036 TTAATAATTT
*
4005046 TATTAAATTAT-ATA
1 TATTTAATTATAATA
4005060 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
4005074 TATTTAATAATAAT
1 TATTTAATTATAAT
4005088 TATGATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:4005118 original size:59 final size:59
Alignment explanation
Indices: 4005055--4005240 Score: 180
Period size: 59 Copynumber: 3.1 Consensus size: 59
4005045 TTATTAAATT
4005055 ATATATTTTAATTATAATATATTTAATAATAATTATGATAATTTATATTTTATAGTATC
1 ATATATTTTAATTATAATATATTTAATAATAATTATGATAATTTATATTTTATAGTATC
* * * * * * * * * * *
4005114 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TATTGATTATTAAGAATTTTATTA-AATT
1 ATATATTTTAATTAT-AATATATTTA-ATAATAATTA-TGATAATTTA-TATTTTA-TAGTATC
* * *
4005175 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTATC
1 ATATATTTTAATTATAATATATTTAATAATAATTATGATAATTTATATTTTATAGTATC
4005234 ATATATT
1 ATATATT
4005241 ATGATTTGAG
Statistics
Matches: 94, Mismatches: 25, Indels: 16
0.70 0.19 0.12
Matches are distributed among these distances:
58 3 0.03
59 34 0.36
60 26 0.28
61 28 0.30
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (59 bp):
ATATATTTTAATTATAATATATTTAATAATAATTATGATAATTTATATTTTATAGTATC
Found at i:4005196 original size:16 final size:16
Alignment explanation
Indices: 4005175--4005220 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
4005165 TTATTAAATT
4005175 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
4005191 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
4005206 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
4005221 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:4005314 original size:16 final size:16
Alignment explanation
Indices: 4005295--4005336 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4005285 TTTTTAAATT
*
4005295 ATATATTTTAATTATA
1 ATATATTTTAATAATA
4005311 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
4005326 AT-TATGTTTAA
1 ATATAT-TTTAA
4005337 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:4005319 original size:15 final size:14
Alignment explanation
Indices: 4005286--4005327 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
4005276 TTAAGAATTT
4005286 TTTTAAATTAT-ATA
1 TTTT-AATTATAATA
4005300 TTTTAATTATAATA
1 TTTTAATTATAATA
*
4005314 TATTTAATAATAAT
1 T-TTTAATTATAAT
4005328 TATGTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 6 0.24
14 8 0.32
15 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTAATTATAATA
Found at i:4005332 original size:120 final size:120
Alignment explanation
Indices: 4005012--4005338 Score: 584
Period size: 120 Copynumber: 2.7 Consensus size: 120
4005002 ATTGTTTTAT
*
4005012 TAAATT-ATATAAGAATATTAATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
* *
4005076 TTTAATAATAATTATGATAATTTATATTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
*
4005131 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
*
4005196 TTTAATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
*
4005251 TAAATTCATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
4005316 TTTAATAATAATTATGTTTAAAT
66 TTTAATAATAATTATG-TTAAAT
4005339 ATGATTAAAT
Statistics
Matches: 199, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
119 6 0.03
120 187 0.94
121 6 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
TTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAG
Found at i:4005532 original size:44 final size:45
Alignment explanation
Indices: 4005482--4005571 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
4005472 CCTCTATTCT
*
4005482 ATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTAC
1 ATTCAACCAAACA-ATAGATTTACTATTACGCCTCTATTCCAATAC
* * *
4005526 ATTCAACCAAACAATTGATTTGCTATTACGCGTCTATTCCAATAC
1 ATTCAACCAAACAATAGATTTACTATTACGCCTCTATTCCAATAC
4005571 A
1 A
4005572 GCGAACCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.03
44 15 0.38
45 24 0.60
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (45 bp):
ATTCAACCAAACAATAGATTTACTATTACGCCTCTATTCCAATAC
Found at i:4006035 original size:24 final size:23
Alignment explanation
Indices: 4006002--4006053 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 23
4005992 TCAAATACTA
*
4006002 AAATTTATCCCTGAATTTTATTT
1 AAATTTATCCCTAAATTTTATTT
4006025 ACAATTTATCCCTAAATTTTATTT
1 A-AATTTATCCCTAAATTTTATTT
4006049 AAATT
1 AAATT
4006054 ACGACTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (23 bp):
AAATTTATCCCTAAATTTTATTT
Found at i:4006236 original size:19 final size:19
Alignment explanation
Indices: 4006205--4006253 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
4006195 TTGTTGCTCG
4006205 TATTATT-TTTATTATTA-
1 TATTATTATTTATTATTAC
*
4006222 TCATTATTATTTATTTTTAC
1 T-ATTATTATTTATTATTAC
4006242 TATTATTATTTA
1 TATTATTATTTA
4006254 ATTAGTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 6 0.21
19 20 0.71
20 1 0.04
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTATTATTTATTATTAC
Found at i:4007823 original size:21 final size:20
Alignment explanation
Indices: 4007786--4007824 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4007776 TGTCAATAAC
*
4007786 CAAAAGTTCTTACAAACAAA
1 CAAAAGTTCTGACAAACAAA
*
4007806 CAAAATGTTCTGAGAAACA
1 CAAAA-GTTCTGACAAACA
4007825 GACGTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.21
Consensus pattern (20 bp):
CAAAAGTTCTGACAAACAAA
Found at i:4009177 original size:15 final size:16
Alignment explanation
Indices: 4009157--4009186 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4009147 CCTTTTTAAA
4009157 AAATAAA-ATAAAAAC
1 AAATAAATATAAAAAC
4009172 AAATAAATATAAAAA
1 AAATAAATATAAAAA
4009187 ACTCACAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAATATAAAAAC
Found at i:4012232 original size:24 final size:24
Alignment explanation
Indices: 4012200--4012254 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
4012190 AGATTAAACT
* *
4012200 TGCAAGATCAGTTGCAAGCGTAGC
1 TGCAGGATCAGTTGCAAGCGCAGC
4012224 TGCAGGATCAGTTGCAAGCGCAGC
1 TGCAGGATCAGTTGCAAGCGCAGC
4012248 TGCAGGA
1 TGCAGGA
4012255 ATAATTAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.33, T:0.18
Consensus pattern (24 bp):
TGCAGGATCAGTTGCAAGCGCAGC
Found at i:4015247 original size:41 final size:41
Alignment explanation
Indices: 4015202--4015393 Score: 312
Period size: 41 Copynumber: 4.7 Consensus size: 41
4015192 GGTTTTAAAA
4015202 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
4015243 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
4015284 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
4015325 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * *
4015366 CCTAACAAGCTAAGTGCCAGTGAATCTG
1 CCTAGCAGGCTAAGTGCCGGTG-ATCTG
4015394 TTTAAATTAA
Statistics
Matches: 142, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 138 0.97
42 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:4022003 original size:18 final size:17
Alignment explanation
Indices: 4021970--4022008 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
4021960 TTGTATAAAT
4021970 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
4021988 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
4022005 TGTG
1 TGTG
4022009 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:4022261 original size:23 final size:23
Alignment explanation
Indices: 4022234--4022331 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
4022224 AGTGTTATTG
*
4022234 ATCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
4022257 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
4022280 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4022302 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4022325 ATCAGTG
1 ATCAGTG
4022332 TGGCACTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:4022300 original size:45 final size:45
Alignment explanation
Indices: 4022236--4022324 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
4022226 TGTTATTGAT
* *
4022236 CAGTGGTAACTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAACTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
*
4022281 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAACTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
4022325 ATCAGTGTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (45 bp):
CAGTGGTAACTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:4026215 original size:44 final size:44
Alignment explanation
Indices: 4026135--4026514 Score: 151
Period size: 44 Copynumber: 8.5 Consensus size: 44
4026125 TACCATGGCG
* *
4026135 AATCTTATCTCCCTAAAGTTGCAATGGAGCATATTAAAGCTACA
1 AATCTTATCTCCCTAAAGTTGCAATGAAGCAAATTAAAGCTACA
* * *
4026179 AATTTTATCTCCCTGAAA-TTGCAGTGAAGCAAATTAAAGCTATA
1 AATCTTATCTCCCT-AAAGTTGCAATGAAGCAAATTAAAGCTACA
* * * * * * * * * **
4026223 AATCTTATCTCTCTAAAGATGTAGTGGAGTGAGATGAAA-CAATG
1 AATCTTATCTCCCTAAAGTTGCAATGAAG-CAAATTAAAGCTACA
* * * * *
4026267 AATCTTATCTCCATGAAGTTGCAATGGAGCAGATTGAAA-CTATA
1 AATCTTATCTCCCTAAAGTTGCAATGAAGCAAATT-AAAGCTACA
* * * *
4026311 AATCTTATTTCCCCGAAA-TTGCAGTGGAA-CAGATTATAGCTAGAAGTTACA
1 AATCTTATCT-CCCTAAAGTTGCAAT-GAAGCA-A--AT---TA-AAGCTACA
* * **** * * *
4026362 AATCTTATCTCTCTGAAGTTATGGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTAAAGTTGCAATGAAGCAAATTAAAGCTACA
* * * * * * * *
4026406 AATCCTATCTCCCTGACGTTGCAGTGGAGCAGATTGAAGCTACT
1 AATCTTATCTCCCTAAAGTTGCAATGAAGCAAATTAAAGCTACA
* * * * * *
4026450 AATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTGAAGCGACA
1 AATCTTATCTCCCTAAAGTTGCAATGAAGCAAATTAAAGCTACA
* *
4026494 ATTCATATAC-CCCTAAAGTTG
1 AATCTTAT-CTCCCTAAAGTTG
4026515 AAGTAGGTTA
Statistics
Matches: 258, Mismatches: 61, Indels: 34
0.73 0.17 0.10
Matches are distributed among these distances:
43 7 0.03
44 202 0.78
45 17 0.07
47 2 0.01
48 2 0.01
49 1 0.00
50 9 0.03
51 18 0.07
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAATGAAGCAAATTAAAGCTACA
Found at i:4028007 original size:4 final size:4
Alignment explanation
Indices: 4027986--4028026 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
4027976 CCCTTTATAG
* *
4027986 ATTT -TTT ATAT A-TT ATTT ATTT ATTT ATTT ATCT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
4028027 ATCTCTTACC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
3 5 0.16
4 26 0.84
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:4028015 original size:12 final size:12
Alignment explanation
Indices: 4027979--4028026 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
4027969 ATTTCAACCC
*
4027979 TTTATAGATTT-
1 TTTATATATTTA
4027990 TTTATATA-TTA
1 TTTATATATTTA
*
4028001 TTTATTTATTTA
1 TTTATATATTTA
*
4028013 TTTATCTATTTA
1 TTTATATATTTA
4028025 TT
1 TT
4028027 ATCTCTTACC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
10 2 0.06
11 14 0.44
12 16 0.50
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTATATATTTA
Found at i:4030076 original size:20 final size:20
Alignment explanation
Indices: 4030051--4030090 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4030041 CGTAAAATGA
*
4030051 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
4030071 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
4030091 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:4030080 original size:34 final size:35
Alignment explanation
Indices: 4030036--4030102 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
4030026 CAGTAAAATA
*
4030036 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
4030070 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
4030103 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:4030106 original size:14 final size:15
Alignment explanation
Indices: 4030030--4030106 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
4030020 GATTGCCAGT
* *
4030030 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
4030044 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
4030058 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
4030078 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
4030093 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
4030107 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:4032882 original size:10 final size:10
Alignment explanation
Indices: 4032867--4032893 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4032857 AGAGATAACA
4032867 GAAGAAGGTT
1 GAAGAAGGTT
4032877 GAAGAAGGTT
1 GAAGAAGGTT
4032887 GAAGAAG
1 GAAGAAG
4032894 AGAAAGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (10 bp):
GAAGAAGGTT
Found at i:4034883 original size:18 final size:19
Alignment explanation
Indices: 4034856--4034897 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
4034846 TTATGCCAAC
*
4034856 ATTTTTTTAT-ACAATTTA
1 ATTTTATTATCACAATTTA
*
4034874 ATTTTATTATCCACACTTTA
1 ATTTTATTAT-CACAATTTA
4034894 ATTT
1 ATTT
4034898 CTCCATCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTATTATCACAATTTA
Found at i:4041874 original size:13 final size:14
Alignment explanation
Indices: 4041858--4041899 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
4041848 TTTCAATTTT
4041858 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
4041871 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
4041886 ATTTTAAATAATAT
1 ATTTT-AATAATAT
4041900 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:4041884 original size:16 final size:16
Alignment explanation
Indices: 4041862--4041898 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
4041852 AATTTTATTT
4041862 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
4041879 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
4041894 TAATA
1 TAATA
4041899 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:4041950 original size:21 final size:23
Alignment explanation
Indices: 4041926--4041976 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
4041916 AAAATATTTA
* *
4041926 ATATTAATATTTCAA-TA-ACAT
1 ATATTAATATTACAATTATAAAT
4041947 ATATT--TATTACAATTATAAAT
1 ATATTAATATTACAATTATAAAT
4041968 ATATTAATA
1 ATATTAATA
4041977 ATAAATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 7 0.29
20 2 0.08
21 13 0.54
23 2 0.08
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTAATATTACAATTATAAAT
Found at i:4049610 original size:24 final size:25
Alignment explanation
Indices: 4049513--4049610 Score: 76
Period size: 25 Copynumber: 4.0 Consensus size: 25
4049503 GTCATTAGGG
* *
4049513 TTACCGAT-TTCAGCTCTTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
* * * * *
4049537 ATATCGATATTCAACTTGTATGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
* * *
4049562 TTACTGTTATTCAGCTCGGAGGAGC
1 TTACCGTTATTCAGCTCGTATGAGC
4049587 TTACCGTT-TATC-GCTCGTATGAGC
1 TTACCGTTAT-TCAGCTCGTATGAGC
4049611 ATACATGTAC
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
24 17 0.30
25 39 0.70
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.36
Consensus pattern (25 bp):
TTACCGTTATTCAGCTCGTATGAGC
Found at i:4062930 original size:21 final size:21
Alignment explanation
Indices: 4062904--4062949 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4062894 ATATGAAGCT
*
4062904 TTCTTCTTCTTC-TTTTCCTTC
1 TTCTTCTTC-TCATTTTCATTC
4062925 TTCTTCTTCTCATTTTCATTC
1 TTCTTCTTCTCATTTTCATTC
4062946 TTCT
1 TTCT
4062950 AATCTAGGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.65
Consensus pattern (21 bp):
TTCTTCTTCTCATTTTCATTC
Found at i:4063002 original size:27 final size:27
Alignment explanation
Indices: 4062965--4063029 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
4062955 AGGGCTTTTG
4062965 AAAAATTAAAAGGAAAATTAATTAATA
1 AAAAATTAAAAGGAAAATTAATTAATA
*
4062992 AAAAATTAAAAGGAAAATTAATTAATT
1 AAAAATTAAAAGGAAAATTAATTAATA
*
4063019 AAAAGTTAAAA
1 AAAAATTAAAA
4063030 TGATAGGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (27 bp):
AAAAATTAAAAGGAAAATTAATTAATA
Found at i:4063548 original size:5 final size:5
Alignment explanation
Indices: 4063538--4063584 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
4063528 ATGAATGAAA
4063538 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
4063585 CAAGGTTGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:4063917 original size:37 final size:37
Alignment explanation
Indices: 4063867--4063942 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
4063857 TTTTTTTGTA
4063867 AATGATCTGATTTTGTTTGGCCAAGCAGAAGAGGATC
1 AATGATCTGATTTTGTTTGGCCAAGCAGAAGAGGATC
4063904 AATGATCTGATTTTGTTTGGCCAAGCAGAAGAGGATC
1 AATGATCTGATTTTGTTTGGCCAAGCAGAAGAGGATC
4063941 AA
1 AA
4063943 GCTACAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (37 bp):
AATGATCTGATTTTGTTTGGCCAAGCAGAAGAGGATC
Found at i:4065834 original size:9 final size:9
Alignment explanation
Indices: 4065820--4065850 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4065810 GTTAAACAAA
4065820 TCGAGTTAT
1 TCGAGTTAT
*
4065829 TCGAGTTAA
1 TCGAGTTAT
4065838 TCGAGTTAT
1 TCGAGTTAT
4065847 TCGA
1 TCGA
4065851 ATCAAGTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:4065924 original size:9 final size:9
Alignment explanation
Indices: 4065905--4065941 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
4065895 TGAGTTTTCA
4065905 AATTCGAAT
1 AATTCGAAT
4065914 AACTT-GAAT
1 AA-TTCGAAT
4065923 AATTCGAAT
1 AATTCGAAT
4065932 AATTCGAAT
1 AATTCGAAT
4065941 A
1 A
4065942 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:4066841 original size:5 final size:5
Alignment explanation
Indices: 4066831--4066871 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
4066821 GAACAAATAT
4066831 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
4066872 ATTCTATCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:4077067 original size:33 final size:31
Alignment explanation
Indices: 4077012--4077075 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 31
4077002 GAAATTTAAT
*
4077012 TTTTAATTTTATTTTATTTTATTTTTGTAAA
1 TTTTAATTTTATCTTATTTTATTTTTGTAAA
4077043 TTTTAATTTTTAATCTTATTTTATTTTTGTAAA
1 TTTTAA-TTTT-ATCTTATTTTATTTTTGTAAA
4077076 CTTAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 6 0.20
32 4 0.13
33 20 0.67
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.69
Consensus pattern (31 bp):
TTTTAATTTTATCTTATTTTATTTTTGTAAA
Found at i:4079385 original size:31 final size:31
Alignment explanation
Indices: 4079328--4079387 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
4079318 AGAGGTGGGA
*
4079328 TGGGAAGGGAATAAAAGTTTTAGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
* * *
4079359 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAA
4079388 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
Found at i:4079617 original size:9 final size:9
Alignment explanation
Indices: 4079603--4079639 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
4079593 TATAGTTTGA
4079603 TATTCGAAT
1 TATTCGAAT
4079612 TATTCGAAT
1 TATTCGAAT
*
4079621 TATTCGAGT
1 TATTCGAAT
*
4079630 TATTCAAAT
1 TATTCGAAT
4079639 T
1 T
4079640 CAAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:4082222 original size:42 final size:43
Alignment explanation
Indices: 4082113--4082270 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
4082103 AGCTCGTACA
* * **
4082113 ACGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACG
1 ACGCCAATGTCCCAGACATGGTCTTACACATAATCAAATAACG
* * * * *
4082156 ATGCCACTGTCCTAGACAGGGTCTTACACATAATCATAT-ACG
1 ACGCCAATGTCCCAGACATGGTCTTACACATAATCAAATAACG
* *
4082198 ACGCCAATGTCCCAAACATGGTCTTACACGTAAATCTCAAAT--CG
1 ACGCCAATGTCCCAGACATGGTCTTACACAT-AA--TCAAATAACG
* *
4082242 ATGCCAACT-TCCCAGACGTGGTCTTACAC
1 ACGCCAA-TGTCCCAGACATGGTCTTACAC
4082271 GATATCACAT
Statistics
Matches: 92, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 28 0.30
43 32 0.35
44 26 0.28
45 6 0.07
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (43 bp):
ACGCCAATGTCCCAGACATGGTCTTACACATAATCAAATAACG
Found at i:4084610 original size:19 final size:20
Alignment explanation
Indices: 4084562--4084610 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
4084552 CACACAGAAG
4084562 CGGTGTTGCAACATCTGAAT
1 CGGTGTTGCAACATCTGAAT
**
4084582 CTTATGTTGCAACATCT-AAT
1 C-GGTGTTGCAACATCTGAAT
4084602 CGGTGTTGC
1 CGGTGTTGC
4084611 GGCATTCGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.25
20 5 0.21
21 13 0.54
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
CGGTGTTGCAACATCTGAAT
Found at i:4087177 original size:37 final size:37
Alignment explanation
Indices: 4087129--4087208 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
4087119 GTTTGTGCAC
* *
4087129 AACACTCATCAGTATAACTGAAGTAAAATGTGTGCCT
1 AACACTAATCAGTATAACTAAAGTAAAATGTGTGCCT
* *
4087166 AGCACTAATCAGTATAACTAAAGTAAAATGTGTGTCT
1 AACACTAATCAGTATAACTAAAGTAAAATGTGTGCCT
4087203 AACACT
1 AACACT
4087209 CATCGAAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (37 bp):
AACACTAATCAGTATAACTAAAGTAAAATGTGTGCCT
Found at i:4096290 original size:30 final size:30
Alignment explanation
Indices: 4096255--4096318 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
4096245 CAAAACAGGT
* *
4096255 TGAGAAGATTGTAGGGTCGATGAAGGTGCA
1 TGAGAAGATTGGACGGTCGATGAAGGTGCA
* *
4096285 TGAGAAGATTGGACTGTTGATGAAGGTGCA
1 TGAGAAGATTGGACGGTCGATGAAGGTGCA
4096315 TGAG
1 TGAG
4096319 CTGTCAAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.06, G:0.39, T:0.25
Consensus pattern (30 bp):
TGAGAAGATTGGACGGTCGATGAAGGTGCA
Found at i:4103018 original size:6 final size:6
Alignment explanation
Indices: 4103007--4103038 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
4102997 AAGCTTTCGC
4103007 AATAAA AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA
4103039 GCTTTTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:4103438 original size:25 final size:25
Alignment explanation
Indices: 4103410--4103475 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
4103400 ACTGTCCTTT
*
4103410 ATAGTATATCCTGAAACTACTATAG
1 ATAGTATATACTGAAACTACTATAG
*
4103435 ATAGTATATACTGAGACTACTATAG
1 ATAGTATATACTGAAACTACTATAG
4103460 ATAG-ACTATACTGAAA
1 ATAGTA-TATACTGAAA
4103476 ACACTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (25 bp):
ATAGTATATACTGAAACTACTATAG
Found at i:4108724 original size:428 final size:427
Alignment explanation
Indices: 4107927--4108783 Score: 1651
Period size: 428 Copynumber: 2.0 Consensus size: 427
4107917 AATTAGAGGC
*
4107927 TTAAATTTATATTTTTAAAATCCTGAATGAGTCTATTTTCAATAGAAACAAATAGAAACATCATC
1 TTAAATTTATATTTTTAAAATCCTGAATGAGTCTATTTTCAATAGAAACAAACAGAAACATCATC
*
4107992 CAAATTCTGTACAAAGAGATAATTAATTTTTAGTGAAGAGGGGTCGGAACTGTCAAACAGTGAAA
66 CAAATTCTGTACAAAGAGATAATTAATTTTTAGTGAAGAGGAGTCGGAACTGTCAAACAGTGAAA
*
4108057 TAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGATAAACCAAAAATTCTGAAAATTTTATGG
131 CAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGATAAACCAAAAATTCTGAAAATTTTATGG
4108122 TAAGAAGATATGTGAGTCTAGTTTTGTAAGAATTTAACGGATCTTAATTCAGAGTTCTTTAGCTC
196 TAAGAAGATATGTGAGTCTAGTTTTGTAAGAATTTAACGGATCTTAATTCAGAGTTCTTTAGCTC
4108187 AAGATATAAATAATTTAGTGACTATGACTCAAGTGGACAGCTTTGAATTAATATATAAATAAATG
261 AAGATATAAATAATTTAGTGACTATGACTCAAGTGGACAGCTTTGAATTAATATATAAATAAATG
4108252 ATGGAATTATAGATAATGTTACATATAAGCATATTATACATTAAGGATGTGGAATGGAGAGGAGG
326 ATGGAATTATAGATAATGTTACATATAAGCATATTATACATTAAGGATGTGGAATGGAGAGGAGG
4108317 AGGAGGAAAATAAATGATTATTCAACTAGCATGAGTT
391 AGGAGGAAAATAAATGATTATTCAACTAGCATGAGTT
4108354 NTTAAATTTATATTTTTAAAATCCTGAATGAGTCTATTTTCAATAGAAACAAACAGAAACATCAT
1 -TTAAATTTATATTTTTAAAATCCTGAATGAGTCTATTTTCAATAGAAACAAACAGAAACATCAT
* *
4108419 CCAAATTCTGTACAAAGAGATAATTAATTTTTTGTGAAGAGGAGTCGGAACTGTCAAACATTGAA
65 CCAAATTCTGTACAAAGAGATAATTAATTTTTAGTGAAGAGGAGTCGGAACTGTCAAACAGTGAA
*
4108484 ACATGGGAAACTTTAAAGAATAAACTGTACTTATTGGATAAACCAAAAATTCTGAAAATTTTATG
130 ACAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGATAAACCAAAAATTCTGAAAATTTTATG
4108549 GTAAGAAGATATGTGAGTCTAGTTTTGTAAGAATTTAACGGATCTTAATTCAGAGTTCTTTAGCT
195 GTAAGAAGATATGTGAGTCTAGTTTTGTAAGAATTTAACGGATCTTAATTCAGAGTTCTTTAGCT
4108614 CAAGATATAAATAATTTAGTGACTATGACTCAAGTGGACAGCTTTGAATTAATATATAAATAAAT
260 CAAGATATAAATAATTTAGTGACTATGACTCAAGTGGACAGCTTTGAATTAATATATAAATAAAT
4108679 GATGGAATTATAGATAATGTTACATATAAGCATATTATACATTAAGGATGTGGAATGGAGAGGAG
325 GATGGAATTATAGATAATGTTACATATAAGCATATTATACATTAAGGATGTGGAATGGAGAGGAG
4108744 GAGGAGGAAAATAAATGATTATTCAACTAGCATGAGTT
390 GAGGAGGAAAATAAATGATTATTCAACTAGCATGAGTT
4108782 TT
1 TT
4108784 CATTAAAAAT
Statistics
Matches: 423, Mismatches: 6, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
427 2 0.00
428 421 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.32
Consensus pattern (427 bp):
TTAAATTTATATTTTTAAAATCCTGAATGAGTCTATTTTCAATAGAAACAAACAGAAACATCATC
CAAATTCTGTACAAAGAGATAATTAATTTTTAGTGAAGAGGAGTCGGAACTGTCAAACAGTGAAA
CAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGATAAACCAAAAATTCTGAAAATTTTATGG
TAAGAAGATATGTGAGTCTAGTTTTGTAAGAATTTAACGGATCTTAATTCAGAGTTCTTTAGCTC
AAGATATAAATAATTTAGTGACTATGACTCAAGTGGACAGCTTTGAATTAATATATAAATAAATG
ATGGAATTATAGATAATGTTACATATAAGCATATTATACATTAAGGATGTGGAATGGAGAGGAGG
AGGAGGAAAATAAATGATTATTCAACTAGCATGAGTT
Found at i:4111557 original size:45 final size:44
Alignment explanation
Indices: 4111506--4111642 Score: 186
Period size: 45 Copynumber: 3.0 Consensus size: 44
4111496 ATGATACTCG
* *
4111506 GTGGAATCAGCACATAGAAACCACCTTCATAATCAATAGTACCCA
1 GTGGAATCAGCACACAGAAACCACCTTTATAATCAAT-GTACCCA
* *
4111551 GTGGAATCAGCACACAGCAACCACCTTTATAATCAATGATACCCG
1 GTGGAATCAGCACACAGAAACCACCTTTATAATCAATG-TACCCA
*
4111596 GTGGAATCAGCACACA-ACAACCACCTTTATAATTAATGGTACCCA
1 GTGGAATCAGCACACAGA-AACCACCTTTATAATCAAT-GTACCCA
4111641 GT
1 GT
4111643 ACACGTAGTA
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
44 1 0.01
45 80 0.98
46 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (44 bp):
GTGGAATCAGCACACAGAAACCACCTTTATAATCAATGTACCCA
Found at i:4111598 original size:90 final size:88
Alignment explanation
Indices: 4111463--4111642 Score: 238
Period size: 90 Copynumber: 2.0 Consensus size: 88
4111453 CAGATACACG
* * * * *
4111463 GTGGATCAGCACATAGCACCACTCTTATAGTTAATGATACTCGGTGGAATCAGCACATAGA-AAC
1 GTGGATCAGCACACAGCACCACTCTTATAATCAATGATACCCGGTGGAATCAGCACACA-ACAAC
4111527 CACCTTCATAATCAATAGTACCCA
65 CACCTTCATAATCAATAGTACCCA
4111551 GTGGAATCAGCACACAGCAACCAC-CTTTATAATCAATGATACCCGGTGGAATCAGCACACAACA
1 GTGG-ATCAGCACACAGC-ACCACTC-TTATAATCAATGATACCCGGTGGAATCAGCACACAACA
* * *
4111615 ACCACCTTTATAATTAATGGTACCCA
63 ACCACCTTCATAATCAATAGTACCCA
4111641 GT
1 GT
4111643 ACACGTAGTA
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
88 4 0.05
89 14 0.17
90 62 0.77
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (88 bp):
GTGGATCAGCACACAGCACCACTCTTATAATCAATGATACCCGGTGGAATCAGCACACAACAACC
ACCTTCATAATCAATAGTACCCA
Found at i:4117480 original size:39 final size:39
Alignment explanation
Indices: 4117426--4117602 Score: 255
Period size: 39 Copynumber: 4.5 Consensus size: 39
4117416 AACATGTTTT
* *
4117426 TGAGTATTGTAATATATGCTTGAATGATATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
4117465 TGAGTATTATGATATATGCTTGAATGCTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
4117504 TGAGTATTGTGATATATGCTTGAATGTTTTGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
** * *
4117543 TTTGTATTGTGATATATACTTGAATGTTGTGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
4117582 TGTGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
4117603 TAAAGTGAAT
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 125 1.00
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.47
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:4117617 original size:23 final size:23
Alignment explanation
Indices: 4117587--4117640 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
4117577 TTATATGTGT
*
4117587 AATGTGATATATGCTTTAAAGTG
1 AATGTGATATATGCTTAAAAGTG
4117610 AATGTGATATATGCTTAAAAGTG
1 AATGTGATATATGCTTAAAAGTG
4117633 AATGTGAT
1 AATGTGAT
4117641 TATAATATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (23 bp):
AATGTGATATATGCTTAAAAGTG
Done.