Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold417
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: 511691
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
File 5 of 6
Found at i:413912 original size:23 final size:23
Alignment explanation
Indices: 413840--413913 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 23
413830 ATTAAATTTA
*
413840 ATATTAAATTAAATATATATAAATT
1 ATATT-AATTAAATATAT-TAAAAT
*
413865 ATA-TAAATAAAT-TATTAAAATAT
1 ATATTAATTAAATATATT-AAA-AT
*
413888 ATATTAATTTAATATATTAAAAT
1 ATATTAATTAAATATATTAAAAT
413911 ATA
1 ATA
413914 ATTTAAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 1 0.02
22 6 0.15
23 16 0.39
24 11 0.27
25 7 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATTAATTAAATATATTAAAAT
Found at i:414001 original size:15 final size:15
Alignment explanation
Indices: 413981--414014 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
413971 TTTATTAAAA
413981 TTTATTATTATATTT
1 TTTATTATTATATTT
* *
413996 TTTATTTTTTTATTT
1 TTTATTATTATATTT
414011 TTTA
1 TTTA
414015 ATAAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTATTATATTT
Found at i:415922 original size:22 final size:22
Alignment explanation
Indices: 415873--415922 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
415863 CACAAATTTC
* *
415873 ATATTTAAAATATGATAAAAAA
1 ATATTTAAAATATAAAAAAAAA
415895 AT-TTTAAAA-ATAAAAAAAAA
1 ATATTTAAAATATAAAAAAAAA
415915 ATTATTTA
1 A-TATTTA
415923 TTAAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 10 0.42
21 8 0.33
22 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
ATATTTAAAATATAAAAAAAAA
Found at i:416729 original size:16 final size:16
Alignment explanation
Indices: 416721--416766 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
416711 TTTGATTTAT
416721 TTAAATTTTAAATTAA
1 TTAAATTTTAAATTAA
416737 TTAAA-TTTAAATT--
1 TTAAATTTTAAATTAA
416750 TTAAATTATTTAAATTA
1 TTAAA-T-TTTAAATTA
416767 GACATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 5 0.19
15 8 0.31
16 13 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAATTTTAAATTAA
Found at i:416745 original size:22 final size:22
Alignment explanation
Indices: 416719--416765 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
416709 TTTTTGATTT
416719 ATTTAAATTTTAAATTAATTAA
1 ATTTAAATTTTAAATTAATTAA
*
416741 ATTTAAATTTTAAATTATTTAA
1 ATTTAAATTTTAAATTAATTAA
416763 ATT
1 ATT
416766 AGACATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTAAATTTTAAATTAATTAA
Found at i:417269 original size:163 final size:161
Alignment explanation
Indices: 416970--417270 Score: 435
Period size: 162 Copynumber: 1.9 Consensus size: 161
416960 AGGTTCGGGG
* * *
416970 ATACACGTGGCACTATATCGTAACGCAATCTCCAAAACGTGGAGCCTGCCTTTCGAGATGTTCAG
1 ATACACGTGGCACCATATCGTAACACAATCTCCAAAACGTGGAGCCTACCTTTCGAGATGTTCAG
* *
417035 GAAAGAAGGCAAGGCAATCTCCGGCACTTTTGAGGCGCCAACCTTTTTCTTTTTCTTTTTTTAAT
66 GAAACAAGGCAAGGCAATCTCCGGCACTTTTGAAGCGCCAACCTTTTTCTTTTTCTTTTTTTAAT
417100 TTATTTACAAAATTGTTAACTTCATTGCGAC
131 TTATTTACAAAATTGTTAACTTCATTGCGAC
* * *
417131 ATACACGTGTCACCATATCGTAGCACAATCTACCAAAAGGTGGAGCCTACC-TTCGGAGATGTTC
1 ATACACGTGGCACCATATCGTAACACAATCT-CCAAAACGTGGAGCCTACCTTTC-GAGATGTTC
* * ** *
417195 AGGAACCAAGGCACGGCAAT-TGTGGGCACTTTTTGAAGCGCCCACCTTTTTCTTTTTCTTTTTT
64 AGGAAACAAGGCAAGGCAATCT-CCGGCAC-TTTTGAAGCGCCAACCTTTTTCTTTTTCTTTTTT
417259 TAATTTATTTAC
127 TAATTTATTTAC
417271 CAAACTGTAA
Statistics
Matches: 123, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
161 31 0.25
162 48 0.39
163 44 0.36
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (161 bp):
ATACACGTGGCACCATATCGTAACACAATCTCCAAAACGTGGAGCCTACCTTTCGAGATGTTCAG
GAAACAAGGCAAGGCAATCTCCGGCACTTTTGAAGCGCCAACCTTTTTCTTTTTCTTTTTTTAAT
TTATTTACAAAATTGTTAACTTCATTGCGAC
Found at i:417671 original size:18 final size:18
Alignment explanation
Indices: 417644--417679 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
417634 ATATATCTTT
417644 TAAAAATTAAATA-AAAA
1 TAAAAATTAAATATAAAA
417661 TAAAAATTTAAATATAAAA
1 TAAAAA-TTAAATATAAAA
417680 ATCTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAAATTAAATATAAAA
Found at i:417677 original size:14 final size:13
Alignment explanation
Indices: 417657--417691 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
417647 AAATTAAATA
*
417657 AAAATAAAAATTT
1 AAAATAAAAATCT
417670 AAATATAAAAATCT
1 AAA-ATAAAAATCT
417684 AAAATAAA
1 AAAATAAA
417692 GTTTTTAGAG
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:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAATAAAAATCT
Found at i:418060 original size:19 final size:18
Alignment explanation
Indices: 418032--418075 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 18
418022 AAATTAACAT
418032 TAAAATATATAATTTAAGAA
1 TAAAA-ATATAATTTAA-AA
418052 TAAAAATATAATTTAAAA
1 TAAAAATATAATTTAAAA
418070 TAAAAA
1 TAAAAA
418076 AATACAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.33
19 11 0.46
20 5 0.21
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAAAATATAATTTAAAA
Found at i:418262 original size:26 final size:27
Alignment explanation
Indices: 418232--418291 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
418222 TAGAAGATTT
418232 TTAATATTTATA-AATATTTAA-TTAAA
1 TTAATATTTATATAA-ATTTAAGTTAAA
*
418258 TTAATAATTATATAAATTTAAGTTAAA
1 TTAATATTTATATAAATTTAAGTTAAA
418285 TT-ATATT
1 TTAATATT
418292 AAATAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
TTAATATTTATATAAATTTAAGTTAAA
Found at i:418278 original size:22 final size:21
Alignment explanation
Indices: 418245--418295 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
418235 ATATTTATAA
*
418245 ATATTTAA-TTAAATTAATAATT
1 ATATTAAATTTAAATT-A-AATT
*
418267 ATA-TAAATTTAAGTTAAATT
1 ATATTAAATTTAAATTAAATT
418287 ATATTAAAT
1 ATATTAAAT
418296 AATTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.28
21 9 0.36
22 9 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATTAAATTTAAATTAAATT
Found at i:418323 original size:19 final size:18
Alignment explanation
Indices: 418284--418336 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
418274 TTTAAGTTAA
* *
418284 ATTATATTAAATAATTATT
1 ATTAT-TTAAATATTTTTT
418303 ATTTATTTAAATATTTTTT
1 A-TTATTTAAATATTTTTT
*
418322 ATAATTTAAA-ATTTT
1 ATTATTTAAATATTTT
418337 ATATATCTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 5 0.17
18 8 0.27
19 13 0.43
20 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTATTTAAATATTTTTT
Found at i:418341 original size:17 final size:18
Alignment explanation
Indices: 418307--418341 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
418297 ATTATTATTT
*
418307 ATTTAAATATTTTTTATA
1 ATTTAAATATTTTATATA
418325 ATTTAAA-ATTTTATATA
1 ATTTAAATATTTTATATA
418342 TCTGAATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTAAATATTTTATATA
Found at i:418418 original size:11 final size:11
Alignment explanation
Indices: 418402--418440 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
418392 ATGAATTAAG
418402 ATATAATATAA
1 ATATAATATAA
418413 ATATAATATAA
1 ATATAATATAA
*
418424 AAATAAT-TAAA
1 ATATAATAT-AA
418435 ATATAA
1 ATATAA
418441 CGTGGCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 1 0.04
11 24 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATATAATATAA
Found at i:418805 original size:8 final size:8
Alignment explanation
Indices: 418792--418827 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
418782 TATGAATATA
418792 ATATAAAT
1 ATATAAAT
418800 ATATAAAT
1 ATATAAAT
418808 ATATAAAT
1 ATATAAAT
*
418816 ATGTAGAAT
1 ATATA-AAT
418825 ATA
1 ATA
418828 CATAATACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 20 0.80
9 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (8 bp):
ATATAAAT
Found at i:419373 original size:12 final size:12
Alignment explanation
Indices: 419356--419380 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
419346 ACAATAAATT
419356 ATAAAAATATAA
1 ATAAAAATATAA
419368 ATAAAAATATAA
1 ATAAAAATATAA
419380 A
1 A
419381 CAGGTAAATT
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAAAATATAA
Found at i:419584 original size:41 final size:42
Alignment explanation
Indices: 419537--419617 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
419527 GAGACATATA
* * *
419537 TTTTTAAAATATTTAA-TA-TAAATATAAA-TAAAATTTTTAT
1 TTTTTTAAATAATTAATTATTAAAT-TAAATTAAAAATTTTAT
419577 TTTTTTAAATAATTAATTATTAAATTAAATTAAAAATTTTA
1 TTTTTTAAATAATTAATTATTAAATTAAATTAAAAATTTTA
419618 AAAATTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 14 0.40
41 6 0.17
42 15 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (42 bp):
TTTTTTAAATAATTAATTATTAAATTAAATTAAAAATTTTAT
Found at i:420111 original size:16 final size:16
Alignment explanation
Indices: 420092--420156 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 16
420082 GATATATTTA
*
420092 TATATTTATATCGTAT
1 TATATTTATATCATAT
420108 TATATTAATTATATCATAT
1 TATA-T--TTATATCATAT
*
420127 TTTAATTATATTATCATAT
1 TAT-ATT-TA-TATCATAT
420146 TATATTTATAT
1 TATATTTATAT
420157 TATGTCTCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
16 7 0.17
17 4 0.10
18 5 0.12
19 23 0.57
20 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (16 bp):
TATATTTATATCATAT
Found at i:420141 original size:19 final size:19
Alignment explanation
Indices: 420119--420159 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
420109 ATATTAATTA
*
420119 TATCATATTTTAATTATAT
1 TATCATATTATAATTATAT
*
420138 TATCATATTATATTTATAT
1 TATCATATTATAATTATAT
420157 TAT
1 TAT
420160 GTCTCAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TATCATATTATAATTATAT
Found at i:420284 original size:15 final size:17
Alignment explanation
Indices: 420266--420305 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
420256 AATTATAATT
420266 ATTTAATATAA-T-TTA
1 ATTTAATATAATTATTA
*
420281 ATTTTATATAATTATTA
1 ATTTAATATAATTATTA
420298 ATTTAATA
1 ATTTAATA
420306 AAATATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 10 0.48
16 1 0.05
17 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTAATATAATTATTA
Found at i:420314 original size:28 final size:28
Alignment explanation
Indices: 420259--420316 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
420249 TTAAATAAAT
**
420259 TATAATTATTTAATATAATTTAATTTTA
1 TATAATTATTTAATATAATAAAATTTTA
*
420287 TATAATTA-TTAATTTAATAAAATATTTA
1 TATAATTATTTAATATAATAAAAT-TTTA
420315 TA
1 TA
420317 AATATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TATAATTATTTAATATAATAAAATTTTA
Found at i:420611 original size:8 final size:8
Alignment explanation
Indices: 420558--420660 Score: 55
Period size: 8 Copynumber: 11.5 Consensus size: 8
420548 AAAATAAATA
420558 ATATTTAT
1 ATATTTAT
*
420566 ATTATTTTT
1 A-TATTTAT
420575 ATATTATAATT
1 ATATT-T-A-T
420586 ATATTTA-
1 ATATTTAT
*
420593 AAATATTAT
1 ATAT-TTAT
420602 ATATTTAT
1 ATATTTAT
420610 ATAAATTTTAAT
1 AT--A-TTT-AT
420622 ATATTTAT
1 ATATTTAT
420630 ATATTTTTATT
1 ATA--TTTA-T
*
420641 ATATTAAT
1 ATATTTAT
*
420649 ATATTTTT
1 ATATTTAT
420657 ATAT
1 ATAT
420661 CATATTATAT
Statistics
Matches: 75, Mismatches: 7, Indels: 26
0.69 0.06 0.24
Matches are distributed among these distances:
7 3 0.04
8 30 0.40
9 18 0.24
10 7 0.09
11 13 0.17
12 4 0.05
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATATTTAT
Found at i:420617 original size:10 final size:10
Alignment explanation
Indices: 420558--420670 Score: 70
Period size: 10 Copynumber: 11.0 Consensus size: 10
420548 AAAATAAATA
420558 ATATTTATATT
1 ATATTTATA-T
*
420569 ATTTTTATATT
1 ATATTTATA-T
*
420580 ATAATTATAT
1 ATATTTATAT
* **
420590 TTAAAATATTAT
1 AT-ATTTA-TAT
420602 ATATTTATAT
1 ATATTTATAT
*
420612 AAATTT-TAAT
1 ATATTTAT-AT
420622 ATATTTATAT
1 ATATTTATAT
*
420632 ATTTTTAT-T
1 ATATTTATAT
*
420641 ATATTAATAT
1 ATATTTATAT
*
420651 ATTTTTATAT
1 ATATTTATAT
420661 CATA-TTATAT
1 -ATATTTATAT
420671 TTTAATTTTT
Statistics
Matches: 80, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
9 8 0.10
10 41 0.51
11 27 0.34
12 4 0.05
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTATAT
Found at i:420618 original size:45 final size:45
Alignment explanation
Indices: 420535--420623 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 45
420525 TCTTTAAAAA
* * *
420535 ATAATTATGTTTTAAAATAAATAATATTTATATTATTTTTATATT
1 ATAATTATGATTTAAAATAAATAATATTTATATAATTTTAATATT
*
420580 ATAATTAT-ATTTAAAAT-ATTATATATTTATATAAATTTTAATAT
1 ATAATTATGATTTAAAATAAATA-ATATTTATAT-AATTTTAATAT
420624 ATTTATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 3 0.08
44 18 0.47
45 17 0.45
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (45 bp):
ATAATTATGATTTAAAATAAATAATATTTATATAATTTTAATATT
Found at i:420647 original size:27 final size:27
Alignment explanation
Indices: 420558--420660 Score: 91
Period size: 27 Copynumber: 3.7 Consensus size: 27
420548 AAAATAAATA
* * * *
420558 ATATTTATATTATTTTTATATTATAATT
1 ATATTAATA-TATTTATATATTTTTATT
* * *
420586 ATATTTAAAATA-TTATATATTTATATAA
1 ATA-TTAATATATTTATATATTTTTAT-T
*
420614 ATTTTAATATATTTATATATTTTTATT
1 ATATTAATATATTTATATATTTTTATT
*
420641 ATATTAATATATTTTTATAT
1 ATATTAATATATTTATATAT
420661 CATATTATAT
Statistics
Matches: 59, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
27 35 0.59
28 20 0.34
29 4 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
ATATTAATATATTTATATATTTTTATT
Found at i:420673 original size:18 final size:19
Alignment explanation
Indices: 420601--420658 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
420591 TAAAATATTA
* * *
420601 TATATTTATATAAATTTTAA
1 TATATTAATAT-ATTTTTAT
*
420621 TATATTTATATATTTTTAT
1 TATATTAATATATTTTTAT
420640 TATATTAATATATTTTTAT
1 TATATTAATATATTTTTAT
420659 ATCATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 24 0.69
20 11 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTAATATATTTTTAT
Found at i:421193 original size:29 final size:32
Alignment explanation
Indices: 421117--421198 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 32
421107 CAATAATATA
* *
421117 TTTTAAAAATATTTAATATTAATATAAATATAAT
1 TTTTAATATTATTTAA-A-TAATATAAATATAAT
421151 TTTTAATATT-TTTAAATAATAT-AAT-TAA-
1 TTTTAATATTATTTAAATAATATAAATATAAT
421179 TTTTAAT-TTAATTTAAATAA
1 TTTTAATATT-ATTTAAATAA
421199 AATTTTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
27 2 0.05
28 7 0.16
29 12 0.27
30 3 0.07
31 6 0.14
32 1 0.02
33 5 0.11
34 8 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
TTTTAATATTATTTAAATAATATAAATATAAT
Found at i:423454 original size:16 final size:17
Alignment explanation
Indices: 423427--423458 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
423417 ACTTTTAAGT
423427 TTTAAGTTTAAATTTAG
1 TTTAAGTTTAAATTTAG
423444 TTTAA-TTTAAATTTA
1 TTTAAGTTTAAATTTA
423459 TTATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTAAGTTTAAATTTAG
Found at i:423503 original size:20 final size:21
Alignment explanation
Indices: 423478--423527 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
423468 ATATAATAAA
*
423478 ATATTAAAAATTTTAT-TTTT
1 ATATTAAAAATTTTATATCTT
* *
423498 ATATTAATATTTTTATATCTT
1 ATATTAAAAATTTTATATCTT
423519 ATAATTAAA
1 AT-ATTAAA
423528 TTTAAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 14 0.58
21 5 0.21
22 5 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTAAAAATTTTATATCTT
Found at i:423869 original size:19 final size:19
Alignment explanation
Indices: 423845--423883 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
423835 AATAAAATTA
423845 ATTAAAAA-TATTTATGAAT
1 ATTAAAAATTATTTAT-AAT
423864 ATTAAAAATTATTTATAAT
1 ATTAAAAATTATTTATAAT
423883 A
1 A
423884 ATTTAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATTAAAAATTATTTATAAT
Found at i:426749 original size:32 final size:32
Alignment explanation
Indices: 426680--426750 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
426670 TATTATTTAA
* * **
426680 TTAAAATATTAAATTTTTATTTAAATTTAATT
1 TTAAAATATTAAATTTTAATATAAATAAAATT
*
426712 ATAAAATATATAAATTTTAATATAAA-AAAATT
1 TTAAAATAT-TAAATTTTAATATAAATAAAATT
426744 TTAAAAT
1 TTAAAAT
426751 TTTTAATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 18 0.56
33 14 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
TTAAAATATTAAATTTTAATATAAATAAAATT
Found at i:426835 original size:15 final size:16
Alignment explanation
Indices: 426815--426853 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
426805 TTAAATTTAA
426815 AATTTAAAATTT-TTT
1 AATTTAAAATTTATTT
*
426830 AATTTATAATTTAATTT
1 AATTTAAAATTT-ATTT
426847 AATTTAA
1 AATTTAA
426854 TTTATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 11 0.55
17 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTTAAAATTTATTT
Found at i:426840 original size:22 final size:21
Alignment explanation
Indices: 426803--426860 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 21
426793 TAAATCATGA
*
426803 ATTTAAATTTAAAATTTAAAATTT
1 ATTT-AATTTATAATTT--AATTT
426827 -TTTAATTTATAATTTAATTT
1 ATTTAATTTATAATTTAATTT
426847 AATTTAATTTATAA
1 -ATTTAATTTATAA
426861 ATATTTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 5 0.16
22 23 0.74
23 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTAATTTATAATTTAATTT
Found at i:429256 original size:19 final size:18
Alignment explanation
Indices: 429207--429257 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
429197 ATCATATTGT
*
429207 AATAATAAATA-TAAAAT
1 AATAATAAATATTAAAAA
429224 AA-AATAAA-AGTTAAAAA
1 AATAATAAATA-TTAAAAA
429241 AATAACTAAATATTAAA
1 AATAA-TAAATATTAAA
429258 TTTTAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
15 1 0.04
16 6 0.21
17 9 0.32
18 2 0.07
19 9 0.32
20 1 0.04
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
AATAATAAATATTAAAAA
Found at i:431406 original size:18 final size:17
Alignment explanation
Indices: 431385--431418 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
431375 TTTTAAAATC
*
431385 ATATTTCAATTTATTTAT
1 ATATTTAAATTT-TTTAT
431403 ATATTTAAATTTTTTA
1 ATATTTAAATTTTTTA
431419 AAAAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTTAAATTTTTTAT
Found at i:433268 original size:20 final size:19
Alignment explanation
Indices: 433234--433271 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
433224 TAACAAATTA
*
433234 ATTTTATATATAAATATAG
1 ATTTTATAAATAAATATAG
433253 ATTTTAATAAATAAATATA
1 ATTTT-ATAAATAAATATA
433272 TTAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTTTATAAATAAATATAG
Found at i:433504 original size:16 final size:17
Alignment explanation
Indices: 433475--433520 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
433465 ATCTAAATCT
*
433475 AAATAAACTCAAATTTTA
1 AAATAAA-TTAAATTTTA
433493 AAA-AAATTAAA-TTTA
1 AAATAAATTAAATTTTA
*
433508 AAATAATTTAAAT
1 AAATAAATTAAAT
433521 AAAAAAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 3 0.12
18 3 0.12
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATAAATTAAATTTTA
Found at i:433509 original size:15 final size:15
Alignment explanation
Indices: 433489--433529 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
433479 AAACTCAAAT
433489 TTTAAAAAAATTAAA
1 TTTAAAAAAATTAAA
*
433504 TTTAAAATAATTTAAA
1 TTTAAAA-AAATTAAA
433520 --TAAAAAAATT
1 TTTAAAAAAATT
433530 CATTCTAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.17
14 5 0.22
15 7 0.30
16 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTAAAAAAATTAAA
Found at i:433898 original size:30 final size:30
Alignment explanation
Indices: 433853--433916 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
433843 TCTTAAACTA
*
433853 AAAAATAAATTTTTAAATATTATTTTAAAT
1 AAAAATAAATCTTTAAATATTATTTTAAAT
*
433883 AAAAATGAATCTTTAAATATTATTTTAAAT
1 AAAAATAAATCTTTAAATATTATTTTAAAT
433913 AAAA
1 AAAA
433917 TGATAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
AAAAATAAATCTTTAAATATTATTTTAAAT
Found at i:435362 original size:3 final size:3
Alignment explanation
Indices: 435354--435393 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
435344 ATTCAATTGC
435354 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
435394 TGAGATAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:435775 original size:13 final size:13
Alignment explanation
Indices: 435754--435791 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
435744 AGCAAGATTT
*
435754 AATTTTTTTAAAA
1 AATTATTTTAAAA
*
435767 AATTATTTTTAAA
1 AATTATTTTAAAA
435780 AATTA-TTTAAAA
1 AATTATTTTAAAA
435792 TGAAATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTATTTTAAAA
Found at i:435777 original size:14 final size:13
Alignment explanation
Indices: 435754--435787 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
435744 AGCAAGATTT
435754 AATT-TTTTTAAAA
1 AATTATTTTT-AAA
435767 AATTATTTTTAAA
1 AATTATTTTTAAA
435780 AATTATTT
1 AATTATTT
435788 AAAATGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTATTTTTAAA
Found at i:436567 original size:2 final size:2
Alignment explanation
Indices: 436560--436584 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
436550 TCATTACTTT
436560 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
436585 TTCTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:436714 original size:22 final size:22
Alignment explanation
Indices: 436689--436730 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
436679 TTAAAATTAT
* *
436689 ATTTATTAAATTTTTAATATAG
1 ATTTATTAAATATTAAATATAG
436711 ATTTATTAAATATTAAATAT
1 ATTTATTAAATATTAAATAT
436731 TTAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTTATTAAATATTAAATATAG
Found at i:437484 original size:53 final size:53
Alignment explanation
Indices: 437404--437507 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 53
437394 ATAAAAATTT
* * **
437404 AAAAATAATAATAATATATTATTATTTTAAATTTTTTATT-AATTAAATTAATA
1 AAAAATAATAATAATATATCATGATTTTAAATAATTTATTAAATT-AATTAATA
* *
437457 AAAAATAAT-TTAATATATACATGATTTTATATAATTTATTAAATTAATTAA
1 AAAAATAATAATAATATAT-CATGATTTTAAATAATTTATTAAATTAATTAA
437508 ATTTTTTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
52 8 0.19
53 31 0.72
54 4 0.09
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (53 bp):
AAAAATAATAATAATATATCATGATTTTAAATAATTTATTAAATTAATTAATA
Found at i:438331 original size:22 final size:22
Alignment explanation
Indices: 438288--438332 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
438278 CAATAAATCG
* *
438288 AAAATCAAATAAAAATATGAAA
1 AAAAACAAATAAAAATAAGAAA
438310 AAAAACAAATAAAAA-AGAGAAA
1 AAAAACAAATAAAAATA-AGAAA
438332 A
1 A
438333 GGGCAACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (22 bp):
AAAAACAAATAAAAATAAGAAA
Found at i:441298 original size:7 final size:7
Alignment explanation
Indices: 441286--441314 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
441276 CAGTTTGAAG
441286 AAAATTT
1 AAAATTT
441293 AAAATTT
1 AAAATTT
441300 AAAATTT
1 AAAATTT
441307 -AAATTT
1 AAAATTT
441313 AA
1 AA
441315 GCTTAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAAATTT
Found at i:448473 original size:14 final size:14
Alignment explanation
Indices: 448440--448490 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
448430 TTCATGTATT
*
448440 TATATAATATTT-A
1 TATATTATATTTAA
* *
448453 TTTATTATCTTTTAA
1 TATATTAT-ATTTAA
448468 TA-ATTATATTTAA
1 TATATTATATTTAA
448481 TATATTATAT
1 TATATTATAT
448491 ATTTATATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 13 0.43
14 15 0.50
15 2 0.07
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATTATATTTAA
Found at i:448749 original size:4 final size:4
Alignment explanation
Indices: 448742--448806 Score: 69
Period size: 4 Copynumber: 15.5 Consensus size: 4
448732 TCCAACCAAT
*
448742 ATTA ATTA ATTA ATTA ATTA ATTA ATTA TATAA ATTA ATT- ATTA TATTCA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA -ATTA ATTA ATTA ATTA -ATT-A
*
448792 TATTA ATAA ATTA AT
1 -ATTA ATTA ATTA AT
448807 ACAGTAATTC
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
3 3 0.06
4 38 0.72
5 7 0.13
6 5 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:449330 original size:14 final size:14
Alignment explanation
Indices: 449289--449331 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
449279 TTAAAATATA
449289 AAATTTATATTAATT
1 AAATTTATA-TAATT
*
449304 ATATATTTTTATAATT
1 A-A-ATTTATATAATT
449320 AAATTTATATAA
1 AAATTTATATAA
449332 AAATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 9 0.38
15 2 0.08
16 7 0.29
17 6 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AAATTTATATAATT
Found at i:449552 original size:24 final size:23
Alignment explanation
Indices: 449501--449558 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
449491 ATAATATAAA
*
449501 AAATAATATAAATATAACATATT
1 AAATAATATAAAAATAACATATT
* * *
449524 TAATATATATAAAAATAATATGTT
1 AAATA-ATATAAAAATAACATATT
449548 AAATAAATATA
1 AAAT-AATATA
449559 TTTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 4 0.14
24 23 0.82
25 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATAATATAAAAATAACATATT
Found at i:450042 original size:19 final size:19
Alignment explanation
Indices: 450011--450049 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
450001 TTTATACTAT
450011 TTTTTTATGTTATATTCGTA
1 TTTTTTATGTTATATT-GTA
450031 TTTTTTAT-TTATATTGTA
1 TTTTTTATGTTATATTGTA
450049 T
1 T
450050 CTTAACTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (19 bp):
TTTTTTATGTTATATTGTA
Found at i:451143 original size:20 final size:18
Alignment explanation
Indices: 451098--451155 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 18
451088 GTATTTATTT
*
451098 ATTTTTATATTTT-ATAA
1 ATTTTAATATTTTAATAA
451115 TTATGTTTAATATATTTATATAA
1 --AT-TTTAATAT-TTTA-ATAA
451138 ATTTTAATATTTTAATAA
1 ATTTTAATATTTTAATAA
451156 TTAATGTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
18 4 0.12
19 6 0.18
20 15 0.44
21 5 0.15
23 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTTTAATATTTTAATAA
Found at i:451205 original size:11 final size:11
Alignment explanation
Indices: 451189--451257 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
451179 TATTCGCATT
451189 TTTATATAATA
1 TTTATATAATA
* *
451200 TTTATATTATT
1 TTTATATAATA
* *
451211 TTTTTATCATA
1 TTTATATAATA
451222 TTT-TAATTATATA
1 TTTAT-A-TA-ATA
*
451235 TTTATATTATA
1 TTTATATAATA
*
451246 TTTATAAAATA
1 TTTATATAATA
451257 T
1 T
451258 AATCATATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
10 1 0.02
11 34 0.76
12 2 0.04
13 7 0.16
14 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTATATAATA
Found at i:451222 original size:22 final size:22
Alignment explanation
Indices: 451186--451251 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
451176 TTATATTCGC
451186 ATTTTTATATAATATTTATATT
1 ATTTTTATATAATATTTATATT
* *
451208 ATTTTTTTATCATATTT-TAATT
1 ATTTTTATATAATATTTAT-ATT
*
451230 ATATATTTATATTATATTTATA
1 AT-T-TTTATATAATATTTATA
451252 AAATATAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 1 0.03
22 20 0.56
23 1 0.03
24 13 0.36
25 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTTTATATAATATTTATATT
Found at i:451692 original size:31 final size:31
Alignment explanation
Indices: 451656--451719 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
451646 TTTAAAATCA
*
451656 ATTAAAA-ATT-TTATTTTATTATTAATTATTT
1 ATTAAAATATTATT-TTTTA-TATTAAATATTT
451687 ATTAAAATATTATTTTTTATATTAAATATTT
1 ATTAAAATATTATTTTTTATATTAAATATTT
451718 AT
1 AT
451720 ATATTTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 20 0.67
32 8 0.27
33 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (31 bp):
ATTAAAATATTATTTTTTATATTAAATATTT
Found at i:451697 original size:19 final size:19
Alignment explanation
Indices: 451675--451730 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
451665 TTTATTTTAT
451675 TATTAATTATTTAT-TAAAA
1 TATT-ATTATTTATATAAAA
* *
451694 TATTATTTTTTATATTAAA
1 TATTATTATTTATATAAAA
451713 TATTTATATATTT-TATAA
1 TA-TTAT-TATTTATATAA
451731 TTATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.27
19 10 0.33
20 8 0.27
21 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTATTATTTATATAAAA
Found at i:451719 original size:20 final size:22
Alignment explanation
Indices: 451686--451729 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
451676 ATTAATTATT
451686 TATTAAAATATTAT-T-TTTTA
1 TATTAAAATATTATATATTTTA
451706 TATT-AAATATTTATATATTTTA
1 TATTAAAATA-TTATATATTTTA
451728 TA
1 TA
451730 ATTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 1 0.05
22 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTAAAATATTATATATTTTA
Found at i:451724 original size:15 final size:15
Alignment explanation
Indices: 451704--451763 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
451694 TATTATTTTT
*
451704 TATATTAAATATTTA
1 TATATTAAATAATTA
**
451719 TATATTTTATAATTA
1 TATATTAAATAATTA
451734 TATA-TATAATAATTA
1 TATATTA-AATAATTA
*
451749 TTTTTATTAAATAAT
1 --TATATTAAATAAT
451764 AATTCACGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 1 0.03
15 23 0.66
17 9 0.26
18 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTAAATAATTA
Found at i:456151 original size:22 final size:22
Alignment explanation
Indices: 456100--456157 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
456090 AAATTATAAA
*
456100 ATAATTTTATATTAATATTTAT
1 ATAATTTTATATTAATAGTTAT
*
456122 ATATTTTTATAATTAA-AGTTA-
1 ATAATTTTAT-ATTAATAGTTAT
*
456143 AGTAATTTTTTATTA
1 A-TAATTTTATATTA
456158 TGAATTAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 5 0.17
22 20 0.67
23 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
ATAATTTTATATTAATAGTTAT
Found at i:456345 original size:23 final size:22
Alignment explanation
Indices: 456327--456367 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
456317 AGTTTATCTA
456327 AATA-AAATAAAAAAATTTATT
1 AATATAAATAAAAAAATTTATT
* *
456348 ATTATAACTAAAAAAATTTA
1 AATATAAATAAAAAAATTTA
456368 ACAGAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 3 0.18
22 14 0.82
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
AATATAAATAAAAAAATTTATT
Found at i:457257 original size:9 final size:9
Alignment explanation
Indices: 457226--457263 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
457216 ATTCAACTTT
457226 TTAAAAT-A
1 TTAAAATAA
457234 -TAAAATAA
1 TTAAAATAA
457242 TTAAAAATAA
1 TT-AAAATAA
457252 TTAAAATAA
1 TTAAAATAA
457261 TTA
1 TTA
457264 TTATTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 6 0.22
8 1 0.04
9 11 0.41
10 9 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TTAAAATAA
Found at i:457502 original size:20 final size:21
Alignment explanation
Indices: 457460--457503 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
457450 GGATCGGACG
457460 TAAGTAAAATATTTTATAATT
1 TAAGTAAAATATTTTATAATT
*
457481 TAAGTAATATATTTTA-AATT
1 TAAGTAAAATATTTTATAATT
457501 TAA
1 TAA
457504 TTATTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
TAAGTAAAATATTTTATAATT
Found at i:458367 original size:18 final size:18
Alignment explanation
Indices: 458344--458396 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
458334 GTGGTTTGTG
*
458344 ATATAAATAATATATAAA
1 ATATAAATAAAATATAAA
*
458362 ATATAATTAAAATATAATATA
1 ATATAAATAAAATAT-A-A-A
458383 ATATAAA-AAAATAT
1 ATATAAATAAAATAT
458397 GAATGTGATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 13 0.45
19 1 0.03
20 8 0.28
21 7 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATATAAATAAAATATAAA
Found at i:458395 original size:10 final size:10
Alignment explanation
Indices: 458352--458396 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
458342 TGATATAAAT
458352 AATAT-ATAA
1 AATATAATAA
458361 AATATAATTAA
1 AATATAA-TAA
*
458372 AATATAATAT
1 AATATAATAA
*
458382 AATATAAAAA
1 AATATAATAA
458392 AATAT
1 AATAT
458397 GAATGTGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 5 0.16
10 16 0.52
11 10 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AATATAATAA
Found at i:458407 original size:21 final size:20
Alignment explanation
Indices: 458352--458410 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
458342 TGATATAAAT
* *
458352 AATAT-ATAAAATATAATTAA
1 AATATAATATAATATAA-AAA
458372 AATATAATATAATATAAAAA
1 AATATAATATAATATAAAAA
* *
458392 AATATGAATGTGATATAAA
1 AATAT-AATATAATATAAA
458411 TATTTAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
AATATAATATAATATAAAAA
Found at i:458475 original size:21 final size:22
Alignment explanation
Indices: 458435--458478 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
458425 AAATTTACAT
458435 AATAAAAATTTTTGATTTATGA
1 AATAAAAATTTTTGATTTATGA
458457 AATATAAAA-TTTT-ATTTATGA
1 AATA-AAAATTTTTGATTTATGA
458478 A
1 A
458479 TATGATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
22 8 0.38
23 4 0.19
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
AATAAAAATTTTTGATTTATGA
Found at i:458509 original size:11 final size:10
Alignment explanation
Indices: 458477--458521 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
458467 TTTATTTATG
458477 AATATGATATA
1 AATAT-ATATA
*
458488 AAAATATATA
1 AATATATATA
*
458498 AATTTAATATA
1 AATAT-ATATA
458509 AATATATATA
1 AATATATATA
458519 AAT
1 AAT
458522 CCTTAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 16 0.55
11 13 0.45
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
AATATATATA
Found at i:458515 original size:29 final size:28
Alignment explanation
Indices: 458483--458538 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
458473 TATGAATATG
458483 ATATAAAAAT-ATATAAATTTAATATAAAT
1 ATATAAAAATCAT-TAAATTTAA-ATAAAT
* *
458512 ATATATAAATCCTTAAATTTAAATAAA
1 ATATAAAAATCATTAAATTTAAATAAA
458539 GCATCATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 18 0.75
30 1 0.04
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (28 bp):
ATATAAAAATCATTAAATTTAAATAAAT
Found at i:460488 original size:20 final size:17
Alignment explanation
Indices: 460446--460478 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
460436 AATTTATATT
*
460446 AATATTTTTTTATTAAA
1 AATATTTATTTATTAAA
460463 AATATTTATTTATTAA
1 AATATTTATTTATTAA
460479 TAAACTTATT
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:0.00, T:0.58
Consensus pattern (17 bp):
AATATTTATTTATTAAA
Found at i:461211 original size:18 final size:21
Alignment explanation
Indices: 461161--461205 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
461151 TTAATATATT
*
461161 AAATATTAATTTTTTGTAATA
1 AAATATTAATTTTTAGTAATA
461182 AAATATTAATTTTTAGTAA-A
1 AAATATTAATTTTTAGTAATA
461202 AAAT
1 AAAT
461206 TAATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
AAATATTAATTTTTAGTAATA
Found at i:461745 original size:17 final size:16
Alignment explanation
Indices: 461706--461764 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
461696 AAATTATTTA
461706 TTTATATT-TAAAATAT
1 TTTATATTATAAAA-AT
*
461722 TATATATTATAAAAAT
1 TTTATATTATAAAAAT
* *
461738 TTTGATATTA-GAATAT
1 TTT-ATATTATAAAAAT
461754 TTTATATTATA
1 TTTATATTATA
461765 TAAAGTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 6 0.17
16 18 0.51
17 11 0.31
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTATATTATAAAAAT
Found at i:462093 original size:16 final size:16
Alignment explanation
Indices: 462069--462113 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
462059 AATATATTAA
462069 AATAATATAAATATAT
1 AATAATATAAATATAT
*
462085 AATATTATAAATATA-
1 AATAATATAAATATAT
*
462100 ATATAATACAAATA
1 A-ATAATATAAATA
462114 AATTAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATATAAATATAT
Found at i:464378 original size:19 final size:19
Alignment explanation
Indices: 464351--464393 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
464341 ATCCAACTGG
464351 AAAAA-GCACAATAAAGAT
1 AAAAATGCACAATAAAGAT
464369 AAAAATGCACAATAAAGAT
1 AAAAATGCACAATAAAGAT
464388 AAAAAT
1 AAAAAT
464394 TGAGATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.14
Consensus pattern (19 bp):
AAAAATGCACAATAAAGAT
Found at i:465870 original size:2 final size:2
Alignment explanation
Indices: 465863--465890 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
465853 GTAAAATTTA
465863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
465891 GAATGAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:466064 original size:19 final size:18
Alignment explanation
Indices: 466013--466070 Score: 75
Period size: 17 Copynumber: 3.2 Consensus size: 18
466003 ATATAAACTA
*
466013 TTATATTTTATATAAATT
1 TTATATTTTATATATATT
466031 TTA-ATGTTT-TATATATT
1 TTATAT-TTTATATATATT
466048 TTATATTTTATATTATATT
1 TTATATTTTATA-TATATT
466067 TTAT
1 TTAT
466071 TAATTATTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
17 15 0.43
18 10 0.29
19 10 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TTATATTTTATATATATT
Found at i:466345 original size:18 final size:19
Alignment explanation
Indices: 466318--466359 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
466308 GTGTCAAAAA
466318 TTAAATTATTC-TTCTAAAT
1 TTAAATTATTCATT-TAAAT
466337 TTAAA-TATTCATTTAAAT
1 TTAAATTATTCATTTAAAT
466355 TTAAA
1 TTAAA
466360 AAAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAAATTATTCATTTAAAT
Found at i:467049 original size:19 final size:19
Alignment explanation
Indices: 467007--467059 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
466997 ATTAAATTAA
*
467007 TTTTATATAATTATATAAT
1 TTTTATATGATTATATAAT
*
467026 TTTTATATGATT-TATATT
1 TTTTATATGATTATATAAT
467044 TATTTAATATGATTAT
1 T-TTT-ATATGATTAT
467060 TGTATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 6 0.21
19 14 0.48
20 8 0.28
21 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTATATGATTATATAAT
Found at i:468324 original size:17 final size:17
Alignment explanation
Indices: 468295--468336 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
468285 AAATTATTAC
468295 ATATTTT-ATTTTTAATT
1 ATATTTTAATTTTT-ATT
468312 -TATTTTAATTTTTATT
1 ATATTTTAATTTTTATT
468328 ATATTTTAA
1 ATATTTTAA
468337 AAAATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATTTTAATTTTTATT
Found at i:469926 original size:21 final size:20
Alignment explanation
Indices: 469902--469946 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
469892 GCTTTTAAGA
469902 ATAAAT-TTTTTTATAATTATT
1 ATAAATATTTTTTA-AATT-TT
469923 AT-AATATTTTTTAAATTTT
1 ATAAATATTTTTTAAATTTT
469942 ATAAA
1 ATAAA
469947 AATAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.18
20 9 0.41
21 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATAAATATTTTTTAAATTTT
Found at i:470142 original size:3 final size:3
Alignment explanation
Indices: 470134--470167 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
470124 GGGTTCTAAG
470134 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
470168 TTAAAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:470439 original size:26 final size:25
Alignment explanation
Indices: 470381--470449 Score: 61
Period size: 26 Copynumber: 2.8 Consensus size: 25
470371 TGTTTATATA
*
470381 ATAAAAA-ATAAATTTAATTTAAAT
1 ATAAAAATAAAAATTTAATTTAAAT
* *
470405 TTAATAATAAAAATATTAATATT-AAT
1 ATAAAAATAAAAAT-TTAAT-TTAAAT
* *
470431 ATAAAAATAATATTTTAAT
1 ATAAAAATAAAAATTTAAT
470450 ATTTTAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 5 0.14
25 10 0.29
26 18 0.51
27 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
ATAAAAATAAAAATTTAATTTAAAT
Found at i:470442 original size:32 final size:30
Alignment explanation
Indices: 470378--470442 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
470368 AATTGTTTAT
* **
470378 ATAATAAAAAATAAATTTAATTTAAATTTA
1 ATAATAAAAAATAAATTTAATATAAAAATA
*
470408 ATAATAAAAATATTAATATTAATATAAAAATA
1 ATAATAAAAA-ATAAAT-TTAATATAAAAATA
470440 ATA
1 ATA
470443 TTTTAATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 10 0.34
31 5 0.17
32 14 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
ATAATAAAAAATAAATTTAATATAAAAATA
Found at i:471170 original size:6 final size:6
Alignment explanation
Indices: 471161--471188 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
471151 TTATTCATAT
471161 TTTATA TTTATA TTTATA TTTATA TTTA
1 TTTATA TTTATA TTTATA TTTATA TTTA
471189 AATAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:471651 original size:13 final size:14
Alignment explanation
Indices: 471626--471721 Score: 50
Period size: 13 Copynumber: 7.4 Consensus size: 14
471616 CTTCACATTT
471626 TTTAAATATTTATA
1 TTTAAATATTTATA
471640 TTTAAA-A-TT-TA
1 TTTAAATATTTATA
*
471651 TTTAAATA--TAAA
1 TTTAAATATTTATA
*
471663 TGTAATATATATT-T-
1 TTTAA-ATAT-TTATA
471677 TTTAAATA--TATA
1 TTTAAATATTTATA
** *
471689 AATATATATTTATA
1 TTTAAATATTTATA
471703 TTT-AATATTTATA
1 TTTAAATATTTATA
*
471716 ATTAAA
1 TTTAAA
471722 ATAGAGTAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 22
0.65 0.12 0.24
Matches are distributed among these distances:
10 1 0.02
11 10 0.17
12 13 0.22
13 18 0.30
14 17 0.28
16 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (14 bp):
TTTAAATATTTATA
Found at i:472063 original size:17 final size:16
Alignment explanation
Indices: 472043--472141 Score: 69
Period size: 17 Copynumber: 6.2 Consensus size: 16
472033 TTATTTTTAA
* *
472043 ATATTTATATTTAATAT
1 ATATTTAAATATAA-AT
472060 ATATTTAAATATAAAT
1 ATATTTAAATATAAAT
**
472076 ATATAAAAATAT-AAT
1 ATATTTAAATATAAAT
* *
472091 -TATTTAATTATAAAA
1 ATATTTAAATATAAAT
* *
472106 ATTTTTTAAAAATAAAT
1 A-TATTTAAATATAAAT
* *
472123 ATATCTATAT-TAAAT
1 ATATTTAAATATAAAT
472138 ATAT
1 ATAT
472142 ATATATATGT
Statistics
Matches: 63, Mismatches: 16, Indels: 8
0.72 0.18 0.09
Matches are distributed among these distances:
14 8 0.13
15 14 0.22
16 17 0.27
17 24 0.38
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATTTAAATATAAAT
Found at i:472136 original size:15 final size:15
Alignment explanation
Indices: 472118--472147 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
472108 TTTTTAAAAA
*
472118 TAAATATATCTATAT
1 TAAATATATATATAT
472133 TAAATATATATATAT
1 TAAATATATATATAT
472148 ATGTTCAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAATATATATATAT
Found at i:472428 original size:13 final size:13
Alignment explanation
Indices: 472410--472457 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 13
472400 TAAAAAATAA
472410 AAATATTTATATT
1 AAATATTTATATT
472423 AAATATTTATTTATATT
1 -AA-A--TATTTATATT
472440 AAATATTTATATTT
1 AAATATTTATA-TT
472454 AAAT
1 AAAT
472458 CTAAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.27
14 8 0.27
15 2 0.07
16 2 0.07
17 10 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAATATTTATATT
Found at i:472433 original size:17 final size:17
Alignment explanation
Indices: 472413--472449 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
472403 AAAATAAAAA
472413 TATTTATATTAAATATT
1 TATTTATATTAAATATT
472430 TATTTATATTAAATATT
1 TATTTATATTAAATATT
472447 TAT
1 TAT
472450 ATTTAAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTATATTAAATATT
Found at i:475968 original size:21 final size:20
Alignment explanation
Indices: 475920--475969 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
475910 TATGAAATCT
475920 TTTAAAATTTCTTACCTAAA
1 TTTAAAATTTCTTACCTAAA
*
475940 TTTGAAAATTTTTTCAACC-AAA
1 TTT-AAAATTTCTT--ACCTAAA
475962 TTTAAAAT
1 TTTAAAAT
475970 AAAAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 14 0.54
22 6 0.23
23 3 0.12
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTAAAATTTCTTACCTAAA
Found at i:480576 original size:15 final size:14
Alignment explanation
Indices: 480556--480585 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
480546 TTTTAAACCT
480556 AAATAAAAAACAAAA
1 AAATAAAAAA-AAAA
480571 AAATAAAAAAAAAA
1 AAATAAAAAAAAAA
480585 A
1 A
480586 CACACACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.90, C:0.03, G:0.00, T:0.07
Consensus pattern (14 bp):
AAATAAAAAAAAAA
Found at i:480679 original size:11 final size:12
Alignment explanation
Indices: 480649--480681 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
480639 GATTGGGATT
480649 GAAGAAGAAAAG
1 GAAGAAGAAAAG
480661 G-AGAAGAAAAG
1 GAAGAAGAAAAG
480672 GAAG-AGAAAA
1 GAAGAAGAAAA
480682 TGTAGTGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAG
Found at i:480902 original size:7 final size:7
Alignment explanation
Indices: 480886--480942 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
480876 ATTTTTATAT
480886 TTAAATA
1 TTAAATA
*
480893 TTAAAAA
1 TTAAATA
480900 TTAAATA
1 TTAAATA
480907 TT-AA-A
1 TTAAATA
*
480912 -TAAATT
1 TTAAATA
480918 TTAAATA
1 TTAAATA
*
480925 -TAATTA
1 TTAAATA
480931 TTAAATA
1 TTAAATA
*
480938 ATAAA
1 TTAAA
480943 ATATGTATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
4 1 0.03
5 3 0.08
6 7 0.18
7 28 0.72
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TTAAATA
Found at i:480910 original size:39 final size:39
Alignment explanation
Indices: 480867--480946 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 39
480857 AATTTAATTA
* * * *
480867 ATTAAATATATTTTTATATTTAAATATTAAA-AATTAAAT
1 ATTAAATA-AATTTTAAATATAAATATTAAATAATAAAAT
*
480906 ATTAAATAAATTTTAAATATAATTATTAAATAATAAAAT
1 ATTAAATAAATTTTAAATATAAATATTAAATAATAAAAT
480945 AT
1 AT
480947 GTATTTAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 18 0.51
39 17 0.49
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (39 bp):
ATTAAATAAATTTTAAATATAAATATTAAATAATAAAAT
Found at i:480937 original size:24 final size:25
Alignment explanation
Indices: 480887--480938 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
480877 TTTTTATATT
480887 TAAATATTAAAAATTAAATATTAAA
1 TAAATATTAAAAATTAAATATTAAA
* * *
480912 TAAATTTTAAATA-TAATTATTAAA
1 TAAATATTAAAAATTAAATATTAAA
480936 TAA
1 TAA
480939 TAAAATATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TAAATATTAAAAATTAAATATTAAA
Found at i:480944 original size:21 final size:20
Alignment explanation
Indices: 480920--480980 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 20
480910 AATAAATTTT
480920 AAATATAATTATTAAATAATA
1 AAATATAATTATTAAAT-ATA
* *
480941 AAATAT--GTATTTAATATA
1 AAATATAATTATTAAATATA
*
480959 ATAATATAATTTTTAAA-ATA
1 A-AATATAATTATTAAATATA
480979 AA
1 AA
480981 TTTAAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
18 4 0.12
19 13 0.41
20 4 0.12
21 11 0.34
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATATAATTATTAAATATA
Found at i:480945 original size:32 final size:32
Alignment explanation
Indices: 480885--480945 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
480875 TATTTTTATA
*
480885 TTTAAATATTAAAAATTAAATATTAAATAAAT
1 TTTAAATATTAAAAATTAAATATAAAATAAAT
**
480917 TTTAAATA-TAATTATTAAATAATAAAATA
1 TTTAAATATTAAAAATTAAAT-ATAAAATA
480946 TGTATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 10 0.40
32 15 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
TTTAAATATTAAAAATTAAATATAAAATAAAT
Found at i:481100 original size:20 final size:20
Alignment explanation
Indices: 481048--481100 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
481038 ATAATTTATC
* *
481048 AATTTAATTTAATTTTTAATT
1 AATTTAA-TTAATTTTAAAAT
* *
481069 AATTGAACTAATTTTAAAAT
1 AATTTAATTAATTTTAAAAT
481089 AATTTAATTAAT
1 AATTTAATTAAT
481101 AAAAATTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AATTTAATTAATTTTAAAAT
Found at i:481750 original size:40 final size:38
Alignment explanation
Indices: 481706--481791 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 38
481696 ATTCTACATA
* *
481706 TAAAATTAATAAAATAATAT-ATATTTCTTTAAAATATATT
1 TAAAAATAAAAAAAT-ATATGATATTT-TTT-AAATATATT
*
481746 TAAAAATAAAAAAATATATGATATTTTTTAATTATATT
1 TAAAAATAAAAAAATATATGATATTTTTTAAATATATT
481784 TATAAAAT
1 TA-AAAAT
481792 TGAAATATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 10 0.24
39 12 0.29
40 19 0.46
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (38 bp):
TAAAAATAAAAAAATATATGATATTTTTTAAATATATT
Found at i:481754 original size:37 final size:39
Alignment explanation
Indices: 481713--481791 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 39
481703 ATATAAAATT
*
481713 AATAAAATAATATAT-AT-TTCTTTAAAATATATTTA-AA
1 AATAAAAAAATATATGATATT-TTTAAAATATATTTATAA
* *
481750 AATAAAAAAATATATGATATTTTTTAATTATATTTATAA
1 AATAAAAAAATATATGATATTTTTAAAATATATTTATAA
481789 AAT
1 AAT
481792 TGAAATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 14 0.39
38 15 0.42
39 7 0.19
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (39 bp):
AATAAAAAAATATATGATATTTTTAAAATATATTTATAA
Found at i:482237 original size:18 final size:17
Alignment explanation
Indices: 482189--482248 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
482179 AAATATCTTA
482189 AAAATTTATA-AAATAT
1 AAAATTTATATAAATAT
482205 -AAA-TTAT-TAACATATT
1 AAAATTTATATAA-ATA-T
482221 AAAATTTATATAAATAT
1 AAAATTTATATAAATAT
482238 AAAATATTATA
1 AAAAT-TTATA
482249 AACATGATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
14 6 0.16
15 6 0.16
16 1 0.03
17 9 0.24
18 12 0.32
19 3 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATTTATATAAATAT
Found at i:485715 original size:12 final size:13
Alignment explanation
Indices: 485688--485722 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
485678 TATAAAGCTT
*
485688 AAAAGGAAATCAA
1 AAAAGCAAATCAA
485701 AAAAGCAAATCAA
1 AAAAGCAAATCAA
*
485714 AAAACCAAA
1 AAAAGCAAA
485723 AGGAAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.71, C:0.14, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAAGCAAATCAA
Found at i:486945 original size:22 final size:24
Alignment explanation
Indices: 486920--486967 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
486910 ATAAATTTTA
486920 ATATATT-AA-TAATTTATATTAT
1 ATATATTAAATTAATTTATATTAT
*
486942 ATATATTAAATTATTTTATATTAT
1 ATATATTAAATTAATTTATATTAT
486966 AT
1 AT
486968 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.30
23 2 0.09
24 14 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATATTAAATTAATTTATATTAT
Found at i:486972 original size:22 final size:23
Alignment explanation
Indices: 486920--486985 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 23
486910 ATAAATTTTA
*
486920 ATATATTAA-TAATTTATATTAT
1 ATATATTAATTATTTTATATTAT
486942 ATATATTAAATTATTTTATATTAT
1 ATATATT-AATTATTTTATATTAT
*
486966 AT-T-TTAATTTTTTTAATATT
1 ATATATTAATTATTTT-ATATT
486986 TTTTATTATG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.21
22 14 0.36
23 3 0.08
24 14 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
ATATATTAATTATTTTATATTAT
Found at i:488054 original size:21 final size:21
Alignment explanation
Indices: 488028--488091 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
488018 ATTGTGAATA
488028 TATAATAGTATCATAATTAAT
1 TATAATAGTATCATAATTAAT
*
488049 TATAATAAGTAT-AAAATT-AT
1 TATAAT-AGTATCATAATTAAT
* *
488069 CAATAATAATATCATAA-TAAT
1 -TATAATAGTATCATAATTAAT
488090 TA
1 TA
488092 AAATTTATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
20 8 0.24
21 21 0.62
22 5 0.15
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (21 bp):
TATAATAGTATCATAATTAAT
Found at i:488090 original size:24 final size:23
Alignment explanation
Indices: 488059--488108 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
488049 TATAATAAGT
*
488059 ATAAAATTATCAA-TAATAATATC
1 ATAAAATTA-AAATTAATAATATC
*
488082 ATAATAATTAAAATTTATAATATC
1 ATAA-AATTAAAATTAATAATATC
488106 ATA
1 ATA
488109 TTACGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAAATTAAAATTAATAATATC
Found at i:490507 original size:23 final size:21
Alignment explanation
Indices: 490467--490508 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
490457 TTAAAATTTA
*
490467 TAAAAATTTTTTATTTTAATT
1 TAAAAATTTTATATTTTAATT
490488 TAAAAATATTTATATATTTAA
1 TAAAAAT-TTTATAT-TTTAA
490509 AATTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TAAAAATTTTATATTTTAATT
Found at i:490584 original size:23 final size:19
Alignment explanation
Indices: 490540--490589 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 19
490530 ATAATATCGG
490540 TTAAATATATATTTAAATT
1 TTAAATATATATTTAAATT
490559 TTAAATGATATTATTTATATATT
1 TTAAAT-ATA-TATTTA-A-ATT
490582 TTATAATA
1 TTA-AATA
490590 ACTTGACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 6 0.23
20 3 0.12
21 6 0.23
22 1 0.04
23 7 0.27
24 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTAAATATATATTTAAATT
Found at i:490790 original size:6 final size:6
Alignment explanation
Indices: 490779--490809 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
490769 TGAACGCTTG
490779 TCGTTT TCGTTT TCGTTT TCGTTT TCCGTTT
1 TCGTTT TCGTTT TCGTTT TCGTTT T-CGTTT
490810 AGCAGGTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.00, C:0.19, G:0.16, T:0.65
Consensus pattern (6 bp):
TCGTTT
Found at i:491192 original size:14 final size:15
Alignment explanation
Indices: 491155--491192 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
491145 TATTTAATAA
491155 ATTTAAA-TTTTATT
1 ATTTAAATTTTTATT
491169 ATTTATAATTTTTATT
1 ATTTA-AATTTTTATT
491185 -TTTAAATT
1 ATTTAAATT
491193 ATCATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 6 0.27
16 7 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTAAATTTTTATT
Found at i:491407 original size:27 final size:29
Alignment explanation
Indices: 491372--491430 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 29
491362 TAAAATATTT
491372 TTATAATTTAAATTTAATT-AATTTAA-A
1 TTATAATTTAAATTTAATTAAATTTAATA
* * *
491399 TTATTATTTAATTTTATTTAAATTTAATA
1 TTATAATTTAAATTTAATTAAATTTAATA
491428 TTA
1 TTA
491431 AAAATAGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 16 0.59
28 7 0.26
29 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TTATAATTTAAATTTAATTAAATTTAATA
Found at i:491488 original size:43 final size:41
Alignment explanation
Indices: 491364--491489 Score: 105
Period size: 44 Copynumber: 2.9 Consensus size: 41
491354 GTTTTAAATA
* *
491364 AAATATTTTTATAATTTAAATTTAATTAATTTAAATTATTATTT
1 AAAT-TTTTTATAATTTATATTTAAATAA-TTAAA-TATTATTT
* *
491408 AATTTTATTTA-AATTTAATATTAAAAATAGA-TAAATATTAATTT
1 AAATTT-TTTATAATTT-ATATT-TAAATA-ATTAAATATT-ATTT
491452 AAATTTTTTATAATTT-TATTTATAATAATTCAAATATT
1 AAATTTTTTATAATTTATATTTA-AATAATT-AAATATT
491490 TAACTAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
41 2 0.03
42 9 0.13
43 22 0.33
44 29 0.43
45 4 0.06
46 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (41 bp):
AAATTTTTTATAATTTATATTTAAATAATTAAATATTATTT
Found at i:492824 original size:32 final size:33
Alignment explanation
Indices: 492765--492828 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
492755 TTTATTTTTA
**
492765 TTTTTTAAAATAAATAAATAGCAAATTGATTAG
1 TTTTTTAAAATAAATAAATAAAAAATTGATTAG
492798 TTTTTT-AAATAAATAAA-AAAAGAATTGATTA
1 TTTTTTAAAATAAATAAATAAAA-AATTGATTA
492829 AAATAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 2 0.07
32 20 0.71
33 6 0.21
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (33 bp):
TTTTTTAAAATAAATAAATAAAAAATTGATTAG
Found at i:494642 original size:12 final size:12
Alignment explanation
Indices: 494615--494652 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
494605 ACACAAAATT
*
494615 TAAAAAATAAT-
1 TAAAAAGTAATA
494626 T-AAAAGTAATA
1 TAAAAAGTAATA
494637 TAAAAAGTAATA
1 TAAAAAGTAATA
494649 TAAA
1 TAAA
494653 TATTATACGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 8 0.33
11 2 0.08
12 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (12 bp):
TAAAAAGTAATA
Found at i:494719 original size:60 final size:60
Alignment explanation
Indices: 494655--494768 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 60
494645 AATATAAATA
* *
494655 TTATACGAATATATAAATATATTAAA-ATA-AAAATAAAATAA-ATTATTAAAATATTATATT
1 TTATACAAATATAT-AATATATTAAATATATAAAA-AAAATAAGAATA-TAAAATATTATATT
* * *
494715 TTATATAAATTTATAATATTTTAAATATATAAAAAAAATAAGAATATAAAATAT
1 TTATACAAATATATAATATATTAAATATATAAAAAAAATAAGAATATAAAATAT
494769 AAAATATTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
59 10 0.22
60 29 0.63
61 7 0.15
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.39
Consensus pattern (60 bp):
TTATACAAATATATAATATATTAAATATATAAAAAAAATAAGAATATAAAATATTATATT
Found at i:499063 original size:14 final size:14
Alignment explanation
Indices: 499044--499073 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
499034 AATTTTCAAC
499044 ACTAGTTAATCACT
1 ACTAGTTAATCACT
499058 ACTAGTTAATCACT
1 ACTAGTTAATCACT
499072 AC
1 AC
499074 GCAAGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (14 bp):
ACTAGTTAATCACT
Found at i:503174 original size:25 final size:26
Alignment explanation
Indices: 503122--503176 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
503112 AATTATATAA
*
503122 ATATGATATATATAAAATAGTAAAAT
1 ATATGATATATATAAAATAGCAAAAT
*
503148 ATATGATATA-ATACAATA-CAAATAT
1 ATATGATATATATAAAATAGCAAA-AT
503173 ATAT
1 ATAT
503177 TTCAAAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 3 0.12
25 13 0.50
26 10 0.38
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (26 bp):
ATATGATATATATAAAATAGCAAAAT
Found at i:503231 original size:17 final size:17
Alignment explanation
Indices: 503180--503233 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
503170 TATATATTTC
*
503180 AAAATCTATAT-AATAT
1 AAAATTTATATAAATAT
503196 -AAA-TTAT-TAACATATT
1 AAAATTTATATAA-ATA-T
503212 AAAATTTATATAAATAT
1 AAAATTTATATAAATAT
503229 AAAAT
1 AAAAT
503234 AACTTAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
13 1 0.03
14 4 0.13
15 6 0.19
16 1 0.03
17 9 0.29
18 7 0.23
19 3 0.10
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTTATATAAATAT
Found at i:503647 original size:32 final size:33
Alignment explanation
Indices: 503587--503652 Score: 84
Period size: 32 Copynumber: 2.0 Consensus size: 33
503577 TTTATTTATT
*
503587 ATTTGATTTAATAAAAAATTATCAATTAA-AAA
1 ATTTAATTTAATAAAAAATTATCAATTAACAAA
503619 ATTTAATTTAAT-AAAAATT-TCATTATTAACAAA
1 ATTTAATTTAATAAAAAATTATCA--ATTAACAAA
503652 A
1 A
503653 AAATAAGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 3 0.10
31 7 0.23
32 16 0.53
33 4 0.13
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (33 bp):
ATTTAATTTAATAAAAAATTATCAATTAACAAA
Found at i:503820 original size:15 final size:16
Alignment explanation
Indices: 503784--503823 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
503774 TTTAATATTT
*
503784 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
503801 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
503816 ATAAAATT
1 ATAAAATT
503824 TATTTAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Done.