Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold77
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: 1374688
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.34
Warning! 47366 characters in sequence are not A, C, G, or T
File 4 of 9
Found at i:400775 original size:16 final size:16
Alignment explanation
Indices: 400724--400771 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 16
400714 CTCTGATATT
400724 ATTAAAAATTATAAT-A
1 ATTAAAAATTA-AATAA
*
400740 A-T-AAAATTAAATTA
1 ATTAAAAATTAAATAA
400754 ATTAAAAATT-AATAA
1 ATTAAAAATTAAATAA
400769 ATT
1 ATT
400772 TAAATCATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 3 0.11
14 9 0.32
15 9 0.32
16 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAAAAATTAAATAA
Found at i:401184 original size:22 final size:22
Alignment explanation
Indices: 401159--401200 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
401149 TATTTATATT
401159 TTAATTAATAAT-ATAAAAATAA
1 TTAATTAAT-ATGATAAAAATAA
*
401181 TTAATTCATATGATAAAAAT
1 TTAATTAATATGATAAAAAT
401201 TTTTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TTAATTAATATGATAAAAATAA
Found at i:401368 original size:24 final size:26
Alignment explanation
Indices: 401321--401368 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
401311 TAATTATTTA
*
401321 TATTTTTATATTATATTTATATTAAC
1 TATTTTTATAATATATTTATATTAAC
401347 TATTTTTATAATAT-TTTA-ATTA
1 TATTTTTATAATATATTTATATTA
401369 TATTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 4 0.19
26 13 0.62
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (26 bp):
TATTTTTATAATATATTTATATTAAC
Found at i:402453 original size:12 final size:12
Alignment explanation
Indices: 402433--402472 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
402423 TTTTCATAAT
402433 TAAAA-TTTAAA
1 TAAAATTTTAAA
402444 TAAAATTTTAAA
1 TAAAATTTTAAA
*
402456 -ATAATTTTAAA
1 TAAAATTTTAAA
402467 TAAAAT
1 TAAAAT
402473 AAAATAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TAAAATTTTAAA
Found at i:402477 original size:20 final size:21
Alignment explanation
Indices: 402438--402487 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 21
402428 ATAATTAAAA
*
402438 TTTAAATAAAATTTTAAAATAAT
1 TTTAAATAAAA--TTAAAATAAG
402461 TTTAAATAAAA-TAAAATAAG
1 TTTAAATAAAATTAAAATAAG
402481 TTTAAAT
1 TTTAAAT
402488 TTACAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 15 0.58
23 11 0.42
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTTAAATAAAATTAAAATAAG
Found at i:404115 original size:3 final size:3
Alignment explanation
Indices: 404107--404150 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
404097 TTCTTTAATC
*
404107 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
404151 TAATTTTGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:405513 original size:7 final size:7
Alignment explanation
Indices: 405501--405534 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
405491 ATATTTAAAT
405501 ATAAAAA
1 ATAAAAA
405508 ATAAAAA
1 ATAAAAA
405515 ATAAAAA
1 ATAAAAA
405522 A-AATAAA
1 ATAA-AAA
405529 ATAAAA
1 ATAAAA
405535 TAAAAGGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 2 0.08
7 21 0.84
8 2 0.08
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:405520 original size:14 final size:14
Alignment explanation
Indices: 405496--405539 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
405486 GTCTGATATT
405496 TAAATATAAAAAATAA
1 TAAA-ATAAAAAA-AA
405512 -AAAATAAAAAAAA
1 TAAAATAAAAAAAA
405525 TAAAATAAAATAAAA
1 TAAAATAAAA-AAAA
405540 GGAGAATGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.08
14 17 0.65
15 7 0.27
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAAATAAAAAAAA
Found at i:405522 original size:16 final size:16
Alignment explanation
Indices: 405497--405529 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
405487 TCTGATATTT
*
405497 AAATATAAAAAATAAA
1 AAATAAAAAAAATAAA
405513 AAATAAAAAAAATAAA
1 AAATAAAAAAAATAAA
405529 A
1 A
405530 TAAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (16 bp):
AAATAAAAAAAATAAA
Found at i:405534 original size:10 final size:9
Alignment explanation
Indices: 405497--405539 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
405487 TCTGATATTT
*
405497 AAATATAAA
1 AAATAAAAA
405506 AAAT--AAA
1 AAATAAAAA
405513 AAATAAAAA
1 AAATAAAAA
405522 AAATAAAATA
1 AAATAAAA-A
405532 AAATAAAA
1 AAATAAAA
405540 GGAGAATGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.23
9 15 0.48
10 9 0.29
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (9 bp):
AAATAAAAA
Found at i:406116 original size:2 final size:2
Alignment explanation
Indices: 406109--406149 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
406099 ATTATACCTG
406109 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA T
406150 GTGTGTGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:407306 original size:15 final size:16
Alignment explanation
Indices: 407271--407308 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
407261 AACCCTTTAA
407271 AAAAAATAACAATAAT
1 AAAAAATAACAATAAT
*
407287 -AAAAATAATAA-AAT
1 AAAAAATAACAATAAT
407301 AAAAAATA
1 AAAAAATA
407309 GAATACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 3 0.15
15 17 0.85
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAATAACAATAAT
Found at i:408970 original size:9 final size:9
Alignment explanation
Indices: 408938--408995 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
408928 TTATATTTTA
408938 ATTATATAAT
1 ATTATAT-AT
*
408948 ATAATATAAT
1 ATTATAT-AT
408958 ATTATATAT
1 ATTATATAT
408967 ATTATATA-
1 ATTATATAT
408975 ATT-TATAT
1 ATTATATAT
*
408983 ATTATAAAT
1 ATTATATAT
408992 ATTA
1 ATTA
408996 AATAGTACAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
7 4 0.09
8 6 0.14
9 18 0.42
10 15 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
ATTATATAT
Found at i:410800 original size:24 final size:22
Alignment explanation
Indices: 410773--410817 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
410763 AAAGTATAAA
410773 TTTTAAATATATATAATTTTTTAT
1 TTTTAAATA-ATA-AATTTTTTAT
*
410797 TTTTAAATAATAATTTTTTTA
1 TTTTAAATAATAAATTTTTTA
410818 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 3 0.15
24 9 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTAAATAATAAATTTTTTAT
Found at i:410806 original size:18 final size:18
Alignment explanation
Indices: 410785--410833 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 18
410775 TTAAATATAT
410785 ATAATTTTTTATTTTTAA
1 ATAATTTTTTATTTTTAA
**
410803 ATAA-TAATT-TTTTTAA
1 ATAATTTTTTATTTTTAA
410819 A-AATTATTTTATTTT
1 ATAATT-TTTTATTTT
410834 ATATTTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
15 2 0.08
16 9 0.38
17 5 0.21
18 8 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATAATTTTTTATTTTTAA
Found at i:410827 original size:15 final size:16
Alignment explanation
Indices: 410796--410828 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
410786 TAATTTTTTA
410796 TTTTTAAATAATAATT
1 TTTTTAAATAATAATT
*
410812 TTTTTAAA-AATTATT
1 TTTTTAAATAATAATT
410827 TT
1 TT
410829 ATTTTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTTAAATAATAATT
Found at i:411058 original size:20 final size:19
Alignment explanation
Indices: 411009--411059 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
410999 GATGACGTAA
411009 AATTATAAT-ATAAATTAAT
1 AATT-TAATAATAAATTAAT
*
411028 AATTTTGATAATAAATTTAAT
1 AA-TTTAATAATAAA-TTAAT
411049 AATTTAATAAT
1 AATTTAATAAT
411060 TTATATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.19
20 15 0.56
21 7 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AATTTAATAATAAATTAAT
Found at i:411068 original size:5 final size:5
Alignment explanation
Indices: 411060--411181 Score: 76
Period size: 5 Copynumber: 24.8 Consensus size: 5
411050 ATTTAATAAT
*
411060 TTATA TTATA TT-TA -TATA TTATA TTATA TTATA TTAAA TTATA TT-TA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
* * * * * *
411107 ATATA TTTTA TTTATA TTTTA -AATA TT-TA -TATA TTTATA TTATT TTTTA
1 TTATA TTATA -TTATA TTATA TTATA TTATA TTATA -TTATA TTATA TTATA
* * *
411156 ATATA TCATATA TTTTA CTATA TTAT
1 TTATA T--TATA TTATA TTATA TTAT
411182 TATTGTATCT
Statistics
Matches: 87, Mismatches: 20, Indels: 20
0.69 0.16 0.16
Matches are distributed among these distances:
3 2 0.02
4 13 0.15
5 59 0.68
6 8 0.09
7 5 0.06
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:411132 original size:29 final size:28
Alignment explanation
Indices: 411067--411172 Score: 90
Period size: 28 Copynumber: 3.6 Consensus size: 28
411057 AATTTATATT
* *
411067 ATATTTATATATTATATTATATTATATTAAA
1 ATATTTATATA-T-T-TTATATTATTTTTAA
411098 TTATATTTAATATATTTTAT-TTATATTTTAA
1 --ATATTT-ATATATTTTATATTAT-TTTTAA
*
411129 ATATTTATATA-TTTATATTATTTTTTA
1 ATATTTATATATTTTATATTATTTTTAA
*
411156 ATATATCATATATTTTA
1 ATAT-TTATATATTTTA
411173 CTATATTATT
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
27 14 0.22
28 15 0.23
29 10 0.16
30 4 0.06
31 8 0.12
32 1 0.02
33 7 0.11
34 5 0.08
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (28 bp):
ATATTTATATATTTTATATTATTTTTAA
Found at i:416015 original size:66 final size:67
Alignment explanation
Indices: 415934--416073 Score: 194
Period size: 66 Copynumber: 2.1 Consensus size: 67
415924 CTTGAAATTA
*
415934 ATGCATTAATTACAATTTATATTTTGGTACTTGGAAATTGCACG-TTGCG-GGAGGGTAAAGGAA
1 ATGCATTAATTACAATATATATTTTGGTACTTGGAAATTGCACGTTTG-GTGGAGGGTAAAGGAA
415997 AGT
65 AGT
* * * *
416000 ATGCATTAATTACAATATATATTTTGGTATTTGGCAATTGCATGTTTGGTGGAGGGTAAGGGAAA
1 ATGCATTAATTACAATATATATTTTGGTACTTGGAAATTGCACGTTTGGTGGAGGGTAAAGGAAA
*
416065 TT
66 GT
*
416067 GTGCATT
1 ATGCATT
416074 TATTGGAATT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
66 41 0.63
67 24 0.37
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (67 bp):
ATGCATTAATTACAATATATATTTTGGTACTTGGAAATTGCACGTTTGGTGGAGGGTAAAGGAAA
GT
Found at i:416295 original size:24 final size:24
Alignment explanation
Indices: 416212--416295 Score: 63
Period size: 24 Copynumber: 3.5 Consensus size: 24
416202 TGTTTTATGT
416212 TATAATAT--TTTATTAATAAATAA
1 TATAATATAATTT-TTAATAAATAA
*
416235 -ATAA-ATAGTTTTTAAAATAAA-AA
1 TATAATATAATTTTT--AATAAATAA
*
416258 TAGGAAT-TATATTTTTAATAAATAA
1 TA-TAATATA-ATTTTTAATAAATAA
416283 TATAATATAATTT
1 TATAATATAATTT
416296 ATTATTAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 19
0.69 0.04 0.27
Matches are distributed among these distances:
21 2 0.04
22 6 0.12
23 5 0.10
24 20 0.42
25 10 0.21
26 5 0.10
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
TATAATATAATTTTTAATAAATAA
Found at i:416650 original size:17 final size:16
Alignment explanation
Indices: 416600--416664 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 16
416590 AAATAAATTC
416600 AAAATTATAT-AATAT
1 AAAATTATATAAATAT
416615 -AAATTAT-TAAAGTATT
1 AAAATTATATAAA-TA-T
416631 AAAATTAATATAAATAT
1 AAAATT-ATATAAATAT
*
416648 AAAA-TATTTAAATAT
1 AAAATTATATAAATAT
416663 AA
1 AA
416665 GTATTGTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
13 1 0.02
14 9 0.21
15 13 0.30
16 2 0.05
17 10 0.23
18 4 0.09
19 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATTATATAAATAT
Found at i:417261 original size:15 final size:17
Alignment explanation
Indices: 417226--417267 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
417216 TTAAGATGTT
*
417226 TATTGAATATAAATATA
1 TATTTAATATAAATATA
417243 TATTTAATAT-AAT-TA
1 TATTTAATATAAATATA
417258 TATTTAATAT
1 TATTTAATAT
417268 TTTTTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.50
16 3 0.12
17 9 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TATTTAATATAAATATA
Found at i:420094 original size:21 final size:21
Alignment explanation
Indices: 420051--420094 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
420041 ATAAATAAAT
* *
420051 AAATTTATTTTTATTAAATTA
1 AAATTTAGTTTTATTAAACTA
*
420072 AAATTTAGTTTTATTATACTA
1 AAATTTAGTTTTATTAAACTA
420093 AA
1 AA
420095 GCTCCAATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
AAATTTAGTTTTATTAAACTA
Found at i:421614 original size:11 final size:11
Alignment explanation
Indices: 421598--421633 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
421588 ATTATATTTA
421598 TTTTTAAAATT
1 TTTTTAAAATT
* *
421609 TTTTTAATATA
1 TTTTTAAAATT
421620 TTTTTAAAATT
1 TTTTTAAAATT
421631 TTT
1 TTT
421634 AAAAAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTTAAAATT
Found at i:421663 original size:37 final size:36
Alignment explanation
Indices: 421609--421682 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
421599 TTTTAAAATT
* * *
421609 TTTTTAATATATTTTTAAAAT-TTTTAAAAAATTATA
1 TTTTTAATATATATTT-AAATGTATCAAAAAATTATA
*
421645 TTTTTATATTTATATTTAAATGTATCAAAAAATTATA
1 TTTTTA-ATATATATTTAAATGTATCAAAAAATTATA
421682 T
1 T
421683 ACACTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 10 0.31
37 22 0.69
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (36 bp):
TTTTTAATATATATTTAAATGTATCAAAAAATTATA
Found at i:421798 original size:2 final size:2
Alignment explanation
Indices: 421791--421820 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
421781 ACCATATCAA
421791 AT 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 AT
421821 GCAATGAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:424468 original size:81 final size:81
Alignment explanation
Indices: 424330--424558 Score: 289
Period size: 81 Copynumber: 2.8 Consensus size: 81
424320 ACTCGAATTA
* * * **
424330 TGATCGCCACATCGGAATCAATATTATCAGTGACACCAAGTCACTCTGATCATGCTCGCCACTTT
1 TGATCGCCACATTGGCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGCTCGCCACCAT
* *
424395 AGCTTCGCCGTAATCC
66 AGCTTCACCCTAATCC
* *
424411 TGGTCGCCACATTGGCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGCTCGCTACCAT
1 TGATCGCCACATTGGCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGCTCGCCACCAT
*
424476 GGCTTCACCCTAATCC
66 AGCTTCACCCTAATCC
* * * * ** * *
424492 TGATCACCATATTAGCATCAATATTATCAGTGACGCTGAGTCACTCTGAT-CTGATCGCCACAAT
1 TGATCGCCACATTGGCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGCTCGCCACCAT
424556 AGC
66 AGC
424559 ACCAATATTA
Statistics
Matches: 127, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 13 0.10
81 114 0.90
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (81 bp):
TGATCGCCACATTGGCATCAATATTATCAGTGACACCAAGTCACTCTGATCCTGCTCGCCACCAT
AGCTTCACCCTAATCC
Found at i:426932 original size:11 final size:11
Alignment explanation
Indices: 426879--426933 Score: 55
Period size: 10 Copynumber: 5.4 Consensus size: 11
426869 AGATTTTAAA
426879 ATATT-TATTT
1 ATATTATATTT
*
426889 AT-TTAGATTT
1 ATATTATATTT
426899 -TATTATATTT
1 ATATTATATTT
* *
426909 -TAATATTTTT
1 ATATTATATTT
426919 ATATTATATTT
1 ATATTATATTT
426930 ATAT
1 ATAT
426934 AATAAGTCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
9 3 0.08
10 21 0.58
11 12 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
ATATTATATTT
Found at i:427197 original size:23 final size:23
Alignment explanation
Indices: 427171--427215 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
427161 CATTTGACAT
*
427171 TAATATGTTTAAATTTTTAAAAA
1 TAATATGTTTAAATATTTAAAAA
* * *
427194 TAATTTTTTTATATATTTAAAA
1 TAATATGTTTAAATATTTAAAA
427216 GATTATATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TAATATGTTTAAATATTTAAAAA
Found at i:428682 original size:19 final size:20
Alignment explanation
Indices: 428650--428694 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
428640 AATTTTGATT
428650 TAAATTTAATTATAA-AATA
1 TAAATTTAATTATAAGAATA
428669 TAAATATTAA-TATAAGAATA
1 TAAAT-TTAATTATAAGAATA
428689 -AAATTT
1 TAAATTT
428695 TAAATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.08
19 14 0.58
20 8 0.33
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAATTTAATTATAAGAATA
Found at i:428700 original size:20 final size:20
Alignment explanation
Indices: 428650--428701 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
428640 AATTTTGATT
*
428650 TAAA-TTTAATTATAAAATA
1 TAAATTTTAAATATAAAATA
*
428669 TAAATATT-AATATAAGAATA
1 TAAATTTTAAATATAA-AATA
428689 -AAATTTTAAATAT
1 TAAATTTTAAATAT
428702 TTTAATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAATTTTAAATATAAAATA
Found at i:429073 original size:33 final size:33
Alignment explanation
Indices: 429036--429104 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 33
429026 ATGATATAAC
* *
429036 ATAAAGATATAAATATATCAAAATTTAT-TTAAT
1 ATAAAGA-ATAAACATATCAAAATTTATATAAAT
* * *
429069 ATAAATAATTAACATATTAAAATTTATATAAAT
1 ATAAAGAATAAACATATCAAAATTTATATAAAT
429102 ATA
1 ATA
429105 TAACATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (33 bp):
ATAAAGAATAAACATATCAAAATTTATATAAAT
Found at i:429100 original size:27 final size:28
Alignment explanation
Indices: 429062--429116 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
429052 ATCAAAATTT
429062 ATTTAATATAAATA-ATTAACATATTAAA
1 ATTTAATATAAATATA-TAACATATTAAA
*
429090 ATTT-ATATAAATATATAACATTTTAAA
1 ATTTAATATAAATATATAACATATTAAA
429117 TACTATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (28 bp):
ATTTAATATAAATATATAACATATTAAA
Found at i:429919 original size:33 final size:33
Alignment explanation
Indices: 429857--429919 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
429847 TTTTATCTTG
* *
429857 AATTTAATAGTATTGAAGATGAATTTTATTTTT
1 AATTTAATAGTATTGAAGATAAATATTATTTTT
*
429890 AATTTAATAGTATTTG-ATATAAATATTATT
1 AATTTAATAGTA-TTGAAGATAAATATTATT
429920 CATAACCCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.51
Consensus pattern (33 bp):
AATTTAATAGTATTGAAGATAAATATTATTTTT
Found at i:430453 original size:22 final size:21
Alignment explanation
Indices: 430423--430479 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
430413 AATATATTTT
430423 TATATAAAT-TTAATTATAAAA
1 TATATAAATATTAA-TATAAAA
430444 TATATAAAATATTAATATAAAAA
1 TATAT-AAATATTAATAT-AAAA
*
430467 TAATTTAAATATT
1 T-ATATAAATATT
430480 TTTTAATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 5 0.16
22 7 0.23
23 16 0.52
24 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TATATAAATATTAATATAAAA
Found at i:430468 original size:23 final size:21
Alignment explanation
Indices: 430423--430465 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
430413 AATATATTTT
430423 TATATAAATTTAATTATAAAA
1 TATATAAATTTAATTATAAAA
430444 TATATAAAATATTAA-TATAAAA
1 TATAT-AAAT-TTAATTATAAAA
430466 ATAATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TATATAAATTTAATTATAAAA
Found at i:431561 original size:16 final size:17
Alignment explanation
Indices: 431525--431562 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
431515 TATAAAATTT
431525 TTCA-AATATTTTTATA
1 TTCATAATATTTTTATA
431541 TTCATAATATTTTTATA
1 TTCATAATATTTTTATA
431558 -TCATA
1 TTCATA
431563 TCGTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (17 bp):
TTCATAATATTTTTATA
Found at i:431581 original size:12 final size:12
Alignment explanation
Indices: 431560--431611 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
431550 TTTTTATATC
*
431560 ATATCGTATTTT
1 ATATCATATTTT
431572 ATATCATATTTT
1 ATATCATATTTT
431584 A-AT--TATTTT
1 ATATCATATTTT
431593 ATAT-ATATTTT
1 ATATCATATTTT
431604 ATAATCAT
1 AT-ATCAT
431612 TTTATCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
9 7 0.20
10 2 0.06
11 10 0.29
12 14 0.40
13 2 0.06
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (12 bp):
ATATCATATTTT
Found at i:431602 original size:20 final size:21
Alignment explanation
Indices: 431566--431604 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
431556 TATCATATCG
431566 TATTTTATATCATATTTTAAT
1 TATTTTATATCATATTTTAAT
431587 TATTTTATAT-ATATTTTA
1 TATTTTATATCATATTTTA
431605 TAATCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTATATCATATTTTAAT
Found at i:431603 original size:11 final size:11
Alignment explanation
Indices: 431566--431616 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
431556 TATCATATCG
431566 TATTTTATATCA
1 TATTTTATAT-A
431578 TATTTTA-AT-
1 TATTTTATATA
431587 TATTTTATATA
1 TATTTTATATA
431598 TATTTTATA-A
1 TATTTTATATA
431608 TCATTTTAT
1 T-ATTTTAT
431617 CTTATATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.19
10 4 0.11
11 18 0.50
12 7 0.19
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTTTATATA
Found at i:431613 original size:22 final size:21
Alignment explanation
Indices: 431567--431616 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
431557 ATCATATCGT
*
431567 ATTTTATATCATATTTTAATT
1 ATTTTATATCATATTTTAATC
431588 ATTTTATAT-ATATTTTATAATC
1 ATTTTATATCATA-TTT-TAATC
431610 ATTTTAT
1 ATTTTAT
431617 CTTATATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 3 0.12
21 12 0.46
22 11 0.42
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTATATCATATTTTAATC
Found at i:432634 original size:3 final size:3
Alignment explanation
Indices: 432628--432656 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
432618 TACTCTTTTC
432628 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
432657 TTGGGAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:432731 original size:25 final size:25
Alignment explanation
Indices: 432694--432748 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
432684 ATTTGAATTG
*
432694 ATTGCTATATATATATATATGTATT
1 ATTGATATATATATATATATGTATT
*
432719 ATTGATATGTATATATATATGTATT
1 ATTGATATATATATATATATGTATT
432744 ATTGA
1 ATTGA
432749 ATTAAATGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (25 bp):
ATTGATATATATATATATATGTATT
Found at i:432732 original size:29 final size:28
Alignment explanation
Indices: 432690--432746 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
432680 CCAAATTTGA
432690 ATTGATTGCTATATATATATATATGTATT
1 ATTGATTGCTATATATATATATAT-TATT
*
432719 ATTGATATG-TATATATATATGTATTATT
1 ATTGAT-TGCTATATATATATATATTATT
432747 GAATTAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 4 0.15
29 20 0.77
30 2 0.08
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.53
Consensus pattern (28 bp):
ATTGATTGCTATATATATATATATTATT
Found at i:433147 original size:36 final size:37
Alignment explanation
Indices: 433100--433187 Score: 151
Period size: 36 Copynumber: 2.4 Consensus size: 37
433090 TTTAAGTATG
433100 ATCATATTGTATTTGTAGTTTCATCGAAAATATATA-
1 ATCATATTGTATTTGTAGTTTCATCGAAAATATATAT
433136 ATCATATTGTATTTGTAGTTTCATCGAAAATATATAT
1 ATCATATTGTATTTGTAGTTTCATCGAAAATATATAT
*
433173 ATATATATTGTATTT
1 AT-CATATTGTATTT
433188 TTATATTTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
36 36 0.73
37 2 0.04
38 11 0.22
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (37 bp):
ATCATATTGTATTTGTAGTTTCATCGAAAATATATAT
Found at i:433480 original size:14 final size:14
Alignment explanation
Indices: 433461--433493 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
433451 GATAACACAA
*
433461 ATATATTAAAATTT
1 ATATATTAAAAATT
433475 ATATATTAAAAATT
1 ATATATTAAAAATT
433489 ATATA
1 ATATA
433494 AATACATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATTAAAAATT
Found at i:434464 original size:19 final size:20
Alignment explanation
Indices: 434442--434487 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
434432 TTTTATTTAT
*
434442 TATTTATTATT-TTTTAATA
1 TATTTATTATTATATTAATA
*
434461 TATTAATTATTACTATTAATA
1 TATTTATTATTA-TATTAATA
434482 TATTTA
1 TATTTA
434488 AGATTCATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 10 0.45
21 12 0.55
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTTATTATTATATTAATA
Found at i:435009 original size:20 final size:21
Alignment explanation
Indices: 434985--435024 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
434975 AAATATTTAA
*
434985 AAAATAAATCAAA-TTAATTT
1 AAAATAAATAAAATTTAATTT
*
435005 AAAATTAATAAAATTTAATT
1 AAAATAAATAAAATTTAATT
435025 ATAGATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATAAATAAAATTTAATTT
Found at i:435053 original size:16 final size:17
Alignment explanation
Indices: 435016--435056 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
435006 AAATTAATAA
435016 AATTTAATTATAGATATT
1 AATTTAA-TATAGATATT
*
435034 -ATTTAATATA-ATTTT
1 AATTTAATATAGATATT
435049 AATTTAAT
1 AATTTAAT
435057 TTTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 4 0.19
16 11 0.52
17 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
AATTTAATATAGATATT
Found at i:436229 original size:34 final size:36
Alignment explanation
Indices: 436161--436231 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
436151 AAAATATATT
*
436161 AATATTTTTATATTTTAATAATTAAATTTAAATAAA
1 AATATTTTTATATTTAAATAATTAAATTTAAATAAA
*
436197 AATATTTTTAT-TATTAAATAA-T-AATTTGAATAAA
1 AATATTTTTATAT-TTAAATAATTAAATTTAAATAAA
436231 A
1 A
436232 TTTAATCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 12 0.38
35 2 0.06
36 18 0.56
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (36 bp):
AATATTTTTATATTTAAATAATTAAATTTAAATAAA
Found at i:438781 original size:2 final size:2
Alignment explanation
Indices: 438774--438806 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
438764 ATATAACTAG
*
438774 AT AT AT AT AT AT AT AT CT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
438807 TCTCTAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:446573 original size:15 final size:15
Alignment explanation
Indices: 446555--446584 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
446545 AGATAATTAG
*
446555 TTTAAATATAAATTT
1 TTTAAAAATAAATTT
446570 TTTAAAAATAAATTT
1 TTTAAAAATAAATTT
446585 GACTTAATAT
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:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAAAAATAAATTT
Found at i:448215 original size:2 final size:2
Alignment explanation
Indices: 448208--448264 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
448198 ACATACAAAC
* * *
448208 AT AT AT AT TT AT AT AT AT AT TT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
448250 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
448265 CAAAGTCAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:450369 original size:16 final size:16
Alignment explanation
Indices: 450343--450391 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
450333 TATAAAAATT
450343 TATAA-AAATATAAAA
1 TATAATAAATATAAAA
*
450358 TATTATAAATATAAAA
1 TATAATAAATATAAAA
*
450374 -ATAATATAT-TAAAA
1 TATAATAAATATAAAA
450388 TATA
1 TATA
450392 TTAATACGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 5 0.17
15 14 0.48
16 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TATAATAAATATAAAA
Found at i:450376 original size:17 final size:17
Alignment explanation
Indices: 450333--450381 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
450323 ATTTTTAATT
450333 TATAAAAAT-TTATAAA
1 TATAAAAATATTATAAA
*
450349 AATATAAAATATTATAAA
1 TATA-AAAATATTATAAA
*
450367 TATAAAAATAATATA
1 TATAAAAATATTATA
450382 TTAAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 3 0.11
17 15 0.54
18 10 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TATAAAAATATTATAAA
Found at i:450382 original size:22 final size:22
Alignment explanation
Indices: 450347--450391 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
450337 AAAATTTATA
450347 AAAATATAAAATATTATAAATAT
1 AAAATATAAAATATTA-AAATAT
*
450370 AAAA-ATAATATATTAAAATAT
1 AAAATATAAAATATTAAAATAT
450391 A
1 A
450392 TTAATACGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 10 0.48
23 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATATAAAATATTAAAATAT
Found at i:451126 original size:23 final size:24
Alignment explanation
Indices: 451084--451156 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
451074 TAAAAAATTA
* *
451084 TTAAAAAAATTA-AA-TATTTAAT
1 TTAATAAAATTATAATTTTTTAAT
* *
451106 TTAATAATA-TATAATTTTTTAAA
1 TTAATAAAATTATAATTTTTTAAT
* * *
451129 TAAATAAAATTTTAATTTTTTTAT
1 TTAATAAAATTATAATTTTTTAAT
451153 TTAA
1 TTAA
451157 ATTATTAAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 2 0.05
22 9 0.24
23 13 0.34
24 14 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTAATAAAATTATAATTTTTTAAT
Found at i:454905 original size:3 final size:3
Alignment explanation
Indices: 454897--454928 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
454887 AATTCAGGTT
454897 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
454929 TTCATAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:459010 original size:22 final size:21
Alignment explanation
Indices: 458976--459016 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
458966 ATTAAAAAAT
458976 TATTGTTATATTAATATTTATA
1 TATTGTTATATTAA-ATTTATA
458998 TATT-TTATAATTAAATTTA
1 TATTGTTAT-ATTAAATTTA
459017 AATAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTGTTATATTAAATTTATA
Found at i:461274 original size:20 final size:19
Alignment explanation
Indices: 461229--461274 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
461219 AGATTGAGAC
* *
461229 TTAATAAAATATTTTTAATT
1 TTAA-AAAATATTTTGAATA
461249 TTAAAAAATATTTTAGAATA
1 TTAAAAAATATTTT-GAATA
461269 TTAAAA
1 TTAAAA
461275 TATTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TTAAAAAATATTTTGAATA
Found at i:461603 original size:17 final size:16
Alignment explanation
Indices: 461576--461613 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
461566 TTAATATAGA
*
461576 ATATTAATATTTTAAT
1 ATATAAATATTTTAAT
461592 AGTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
461609 ATATA
1 ATATA
461614 TTAATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:461607 original size:25 final size:23
Alignment explanation
Indices: 461565--461646 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 23
461555 AAATAATGTA
*
461565 TTTAATATAGAATA--TTAATAT
1 TTTAATATATAATATTTTAATAT
461586 TTTAATAGTATAAATATTTTAATAT
1 TTTAATA-TAT-AATATTTTAATAT
*
461611 ATATTAATATATAGTATTTTAAGTAT
1 -T-TTAATATATAATATTTTAA-TAT
*
461637 TTTAAAATAT
1 TTTAATATAT
461647 TTTTGTAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
21 7 0.14
22 2 0.04
23 4 0.08
24 8 0.16
25 17 0.33
26 7 0.14
27 6 0.12
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (23 bp):
TTTAATATATAATATTTTAATAT
Found at i:461729 original size:13 final size:13
Alignment explanation
Indices: 461692--461755 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
461682 TTATGCATTT
461692 ATATTAATA-T-A
1 ATATTAATATTAA
*
461703 ATATTTCATATTAA
1 ATA-TTAATATTAA
*
461717 ATATTATTATTAA
1 ATATTAATATTAA
*
461730 ATATTACTATTTGAA
1 ATATTAATA-TT-AA
461745 ATATTAATATT
1 ATATTAATATT
461756 TTAATAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
11 3 0.07
12 5 0.12
13 17 0.40
14 8 0.19
15 10 0.23
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (13 bp):
ATATTAATATTAA
Found at i:461748 original size:15 final size:14
Alignment explanation
Indices: 461713--461761 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 14
461703 ATATTTCATA
*
461713 TTAAATATTATTA-
1 TTAAATATTAATAT
*
461726 TTAAATATTACTAT
1 TTAAATATTAATAT
461740 TTGAAATATTAATAT
1 TT-AAATATTAATAT
*
461755 TTTAATA
1 TTAAATA
461762 ATAAATAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.39
14 6 0.19
15 13 0.42
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (14 bp):
TTAAATATTAATAT
Found at i:463952 original size:11 final size:11
Alignment explanation
Indices: 463936--463973 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
463926 AATGTTTACA
463936 ATTTAATTTTT
1 ATTTAATTTTT
463947 ATTTAATTTTT
1 ATTTAATTTTT
463958 ATATT--TTTTT
1 AT-TTAATTTTT
463968 ATTTAA
1 ATTTAA
463974 AAAATTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.08
10 7 0.29
11 13 0.54
12 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTAATTTTT
Found at i:464140 original size:15 final size:15
Alignment explanation
Indices: 464120--464149 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
464110 TGGGGATTTA
464120 GAGGGGTCTCTTAGG
1 GAGGGGTCTCTTAGG
464135 GAGGGGTCTCTTAGG
1 GAGGGGTCTCTTAGG
464150 TTTATGCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.47, T:0.27
Consensus pattern (15 bp):
GAGGGGTCTCTTAGG
Found at i:464488 original size:15 final size:16
Alignment explanation
Indices: 464464--464504 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
464454 AACTAATCCC
*
464464 TAATTTTTTTAAA-CA
1 TAATTATTTTAAATCA
464479 TAATTATTTTAAATCA
1 TAATTATTTTAAATCA
*
464495 -CATTATTTTA
1 TAATTATTTTA
464505 TCCATCTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATTATTTTAAATCA
Found at i:465028 original size:27 final size:30
Alignment explanation
Indices: 464989--465056 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 30
464979 GAAAAAATAA
*
464989 AAATAAACAAATG-TGT-ATTAGTCT-AAT
1 AAATAAACAAATGATGTAATTAGTATAAAT
**
465016 AAATAAATTAATGAATGTAATTAGTATAAAT
1 AAATAAACAAATG-ATGTAATTAGTATAAAT
465047 AAAT-AACAAA
1 AAATAAACAAA
465057 AAGAAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 11 0.34
29 3 0.09
30 11 0.34
31 7 0.22
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (30 bp):
AAATAAACAAATGATGTAATTAGTATAAAT
Found at i:466299 original size:26 final size:26
Alignment explanation
Indices: 466263--466318 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
466253 ACTTATCTAG
* * *
466263 AATCTCAGATAAAGTTTAATTTTAAT
1 AATCCCAGATAAAGTTAAACTTTAAT
*
466289 AATCCCAGATAAAGTTAAACTTTATT
1 AATCCCAGATAAAGTTAAACTTTAAT
466315 AATC
1 AATC
466319 ATATCTCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (26 bp):
AATCCCAGATAAAGTTAAACTTTAAT
Found at i:467219 original size:2 final size:2
Alignment explanation
Indices: 467212--467250 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
467202 AGAGTTTTAG
467212 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
467251 GGTGAAAGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:471942 original size:20 final size:20
Alignment explanation
Indices: 471895--471969 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
471885 AAAAAGACAT
*
471895 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
471914 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
471935 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
471955 AATGTATCGATACAT
1 AATGTATCGATACAT
471970 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:471963 original size:40 final size:39
Alignment explanation
Indices: 471892--471969 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
471882 GGTAAAAAGA
* *
471892 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
471931 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
471970 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:472547 original size:32 final size:32
Alignment explanation
Indices: 472498--473131 Score: 1081
Period size: 32 Copynumber: 19.8 Consensus size: 32
472488 AAAATGGTGA
* * **
472498 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
472530 TTTTAAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
472562 TTTGAAATGGGTTGCCGCCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
472594 TTTGAAATGGATTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
472626 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
472658 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
472690 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
472722 TTTGGAATGGGTTTCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
472754 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
472786 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
472818 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
472850 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
472882 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
472914 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
472946 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
472978 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
473010 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
473042 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
473074 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
473106 TTTGAAATGGG-TGCCACGGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
473132 GATTTAAAAG
Statistics
Matches: 579, Mismatches: 23, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
31 13 0.02
32 566 0.98
ACGTcount: A:0.15, C:0.18, G:0.35, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:473148 original size:27 final size:27
Alignment explanation
Indices: 473114--473653 Score: 717
Period size: 27 Copynumber: 19.7 Consensus size: 27
473104 GCTTTGAAAT
473114 GGGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGATTTAAAA
* * *
473141 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGATTTAAAA
*
473168 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGATTTAAAA
*
473195 GGGTGCCACAGAGTTGTGG-TCTTAAAA
1 GGGTGCCACGGAGTTGTGGAT-TTAAAA
*
473222 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGATTTAAAA
*
473250 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGATTTAAAA
*
473277 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGATTTAAAA
* *
473304 GAGTGCCACGGAGTTGTGGACTTAAAGA
1 GGGTGCCACGGAGTTGTGGATTTAAA-A
473332 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-TTTAAAA
* * * *
473360 GAGCGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGATTTAAAA
*
473387 GGGTGCCACGGAGTTGTGGACTTTGAAA
1 GGGTGCCACGGAGTTGTGGA-TTTAAAA
* *
473415 -GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGATTTAAAA
473441 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-TTTAAAA
** *
473469 TAGTGCCACGGAGTTGTGGACTTT-GAA
1 GGGTGCCACGGAGTTGTGGA-TTTAAAA
*
473496 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGATTTAAAA
473523 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-TTTAAAA
*
473551 GAGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-TTTAAAA
*
473579 GAGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGATTTAAAA
* * *
473606 GGGTGCCACAGAATTGTGGACTTAAAAA
1 GGGTGCCACGGAGTTGTGGA-TTTAAAA
* *
473634 GGATGCCACAGAGTTGTGGA
1 GGGTGCCACGGAGTTGTGGA
473654 CTTCAAAAAG
Statistics
Matches: 461, Mismatches: 41, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.02
27 277 0.60
28 172 0.37
29 5 0.01
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGATTTAAAA
Found at i:473249 original size:82 final size:81
Alignment explanation
Indices: 473114--473661 Score: 810
Period size: 82 Copynumber: 6.7 Consensus size: 81
473104 GCTTTGAAAT
* * *
473114 GGGTGCCACGGAGTTGTGGATTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
473179 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* *
473195 GGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
473260 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
473277 GGGTGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAGAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-AGGGTGCCACG
473342 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* * * * *
473360 GAGCGCTACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTGAAA-GGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
473424 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
** **
473441 GGGTGCCACGGAGTTGTGGACTTTAAAATAGTGCCACGGAGTTGTGGACTTTGAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
473506 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
473523 GGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCAC
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCAC
*
473588 GGAGTTGTGGATTTAAAA
64 GGAGTTGTGGACTTAAAA
* * * *
473606 GGGTGCCACAGAATTGTGGACTTAAAAAGGATGCCACAGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACTT-AAAA
473662 AGAAATGCCA
Statistics
Matches: 426, Mismatches: 32, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
81 77 0.18
82 220 0.52
83 125 0.29
84 4 0.01
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:473500 original size:219 final size:218
Alignment explanation
Indices: 473099--473661 Score: 857
Period size: 219 Copynumber: 2.6 Consensus size: 218
473089 CACTGACTTG
* * *
473099 TGTGGGCTTTGAAATGGGTGCCACGGAGTTGTGGA-TTTAAAAGGATGC-CACGAAGTTGTGGAC
1 TGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGACTTTAAAA-GA-GCGCACGGAGTTGTGGAC
*
473162 TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAAGGGA
63 TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA-GGTGCCACAGAGTTGTGGACTTAAAAGGGA
*
473226 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
127 TGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
473291 TGTGGACTTAAAAGAGTGCCACGGAGT
192 TGTGGACTTAAAAGAGTGCCACGGAGT
473318 TGTGGAC-TTAAAGAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGCGCTACGGAGTTGTGGACT
1 TGTGGACTTTAAA-AGGGTGCCACGGAGTTGTGGACTTTAAAAGAGCGC-ACGGAGTTGTGGACT
*
473382 TAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAGGTGCCACAGAGTTGTGGACTTAAAAGGG-TG
64 TAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGATG
* **
473446 CCACGGAGTTGTGGACTTTAAAATAGTGCCACGGAGTTGTGGACTTTGAAGGGTGCCACGGAGTT
129 CCACGGAGTTGTGGAC-TTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
*
473511 GTGGACTTAAAAGGGTGCCACGGAGT
193 GTGGACTTAAAAGAGTGCCACGGAGT
* * *
473537 TGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGATTT
1 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGCG-CACGGAGTTGTGGACTT
* * *
473602 AAAAGGGTGCCACAGAATTGTGGACTTAAAAAGGATGCCACAGAGTTGTGGACTTCAAAA
65 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGG-TGCCACAGAGTTGTGGACTT-AAAA
473662 AGAAATGCCA
Statistics
Matches: 317, Mismatches: 17, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
217 5 0.02
218 43 0.14
219 234 0.74
220 31 0.10
221 4 0.01
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.24
Consensus pattern (218 bp):
TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGCGCACGGAGTTGTGGACTTA
AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGATGCC
ACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTG
GACTTAAAAGAGTGCCACGGAGT
Found at i:482165 original size:20 final size:20
Alignment explanation
Indices: 482118--482192 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
482108 AAAAAGACAT
*
482118 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
482137 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
482158 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
482178 AATGTATCGATACAT
1 AATGTATCGATACAT
482193 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:482186 original size:40 final size:39
Alignment explanation
Indices: 482115--482192 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
482105 GGTAAAAAGA
* *
482115 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
482154 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
482193 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:484105 original size:24 final size:23
Alignment explanation
Indices: 484091--484134 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
484081 TTGCATTTGT
*
484091 TTTTTTTT-TATTATTATCATATA
1 TTTTTTTTGTTTTATT-TCATATA
484114 TTTTTTTTGTTTTATTT-ATAT
1 TTTTTTTTGTTTTATTTCATAT
484135 GTATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 9 0.47
24 6 0.32
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTTTTGTTTTATTTCATATA
Found at i:491595 original size:27 final size:27
Alignment explanation
Indices: 491556--492672 Score: 1761
Period size: 27 Copynumber: 41.0 Consensus size: 27
491546 AGTGTGACCT
* * *
491556 CTTTAAAGCCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
491583 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
491610 CTTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
491638 CTTTTAAGTCCACAACTCTGTGG-ACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
491664 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
491692 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
491719 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
491746 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
491773 CTTTTAAGTCCACAACTCTGTGG-ACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
491799 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
491827 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
491854 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
491881 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
491908 CTTTTAAAGACCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
491936 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
491963 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
491990 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
492018 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
492045 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* **
492073 CTTTTTAGTCCACAACTTTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
492100 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
492127 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
492154 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
492181 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
492208 CTTTTAAAGACCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
492236 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
492263 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
492290 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
492318 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
492345 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* **
492373 CTTTTTAGTCCACAACTTTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
492400 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
492427 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
492454 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
492481 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
492509 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
492536 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
492564 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
492591 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
492618 CTTTTAAGTCCACAACTCCGTGGCGTC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
492645 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
492672 C
1 C
492673 ATTTCAAAGC
Statistics
Matches: 1010, Mismatches: 67, Indels: 26
0.92 0.06 0.02
Matches are distributed among these distances:
26 14 0.01
27 754 0.75
28 242 0.24
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:492180 original size:300 final size:299
Alignment explanation
Indices: 491556--492672 Score: 1859
Period size: 300 Copynumber: 3.7 Consensus size: 299
491546 AGTGTGACCT
* * *
491556 CTTTAAAGCCCACAACT-TCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCT-GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGA
* *
491620 CCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGG-ACCCTTTTAAAGTCCACAACTCC
65 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCC
* *
491684 GTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTT
129 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTT
* * *
491749 TT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGG-ACCCTTTTAAAGTCCA
194 TTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTTTGTGGCACCCTTTT-AAGTCCA
* *
491812 CAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACC
258 CAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
491854 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGAC
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGAC
491919 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
66 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
* *
491984 GGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTT
131 GGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCTGTGGCACCCTTT
492049 TAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTTTGTGGCACCCTTTTAAGTCCACA
195 TAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTTTGTGGCACCCTTTTAAGTCCACA
492114 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
260 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
492154 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGAC
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGAC
492219 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
66 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
* *
492284 GGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTT
131 GGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCTGTGGCACCCTTT
492349 TAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTTTGTGGCACCCTTTTAAGTCCACA
195 TAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTTTGTGGCACCCTTTTAAGTCCACA
*
492414 ACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACC
260 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
492454 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTT-AAGT
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAAGA
* * *
492518 CCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCT
65 CCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
* **
492583 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCGTCCTT
129 GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTT
*
492648 TTAAA-TCCACAACTCTGTGGCACCC
194 TTAAAGTCCACAACTCCGTGGCACCC
492673 ATTTCAAAGC
Statistics
Matches: 782, Mismatches: 30, Indels: 13
0.95 0.04 0.02
Matches are distributed among these distances:
298 141 0.18
299 61 0.08
300 495 0.63
301 85 0.11
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (299 bp):
CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGAC
CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
GGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
AAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTTTGTGGCACCCTTTTAAGTCCACAA
CTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:492714 original size:32 final size:32
Alignment explanation
Indices: 492655--493386 Score: 1231
Period size: 32 Copynumber: 22.8 Consensus size: 32
492645 CTTTTAAATC
* *
492655 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
492686 CACAAGTTGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
492718 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
492750 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
492782 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
492814 CACAAGTCGGTGGCAACCCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
492847 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
492879 CACAAGTCGGTGGCAACCCATTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCA-TTTCAAAGCCCA
492912 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
492944 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
492976 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
493008 CACAGGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
493040 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
**
493072 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
493104 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
493136 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
493168 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
493200 CACAGGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
493232 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
**
493264 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
493296 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
493328 CGA-AAGTCGGTGGCAACCCATTTAAAAGCCCA
1 C-ACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
493360 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
493387 TCACCATTTT
Statistics
Matches: 665, Mismatches: 25, Indels: 21
0.94 0.04 0.03
Matches are distributed among these distances:
31 20 0.03
32 571 0.86
33 74 0.11
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:493466 original size:45 final size:47
Alignment explanation
Indices: 493407--493537 Score: 133
Period size: 45 Copynumber: 2.8 Consensus size: 47
493397 TGTCATCTTA
* * *
493407 AAGTCCGATATCGCTGGCCTTGAATCAGCATATTGG-CACCTTT-CT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCCACCTTTCCT
* *
493452 AAGTCCAATGTCGCTGGCCTTGAGTCAGCACATTGGTCCACTTTTCCCT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG-CCACCTTT-CCT
* * * *
493501 TAGTCCAATGTCGTTGACCTTGAAAT-GGCACATTGGC
1 AAGTCCAATGTCGCTGGCCTTG-AATCAGCACATTGGC
493538 ACTCCTCTCA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
45 32 0.45
47 6 0.08
48 1 0.01
49 30 0.42
50 2 0.03
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (47 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCCACCTTTCCT
Found at i:495035 original size:24 final size:23
Alignment explanation
Indices: 495021--495064 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
495011 TTGCATTTGT
*
495021 TTTTTTTT-TATTATTATCATATA
1 TTTTTTTTGTTTTATT-TCATATA
495044 TTTTTTTTGTTTTATTT-ATAT
1 TTTTTTTTGTTTTATTTCATAT
495065 GTATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 9 0.47
24 6 0.32
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTTTTGTTTTATTTCATATA
Found at i:497397 original size:23 final size:23
Alignment explanation
Indices: 497379--497427 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
497369 AAAATATTAA
497379 AAATATTTTTAT-ATTAATAATT
1 AAATATTTTTATAATTAATAATT
* *
497401 ATATATTTTTATAATTAA-AGTT
1 AAATATTTTTATAATTAATAATT
497423 AAATA
1 AAATA
497428 AAAAATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
AAATATTTTTATAATTAATAATT
Found at i:497782 original size:175 final size:173
Alignment explanation
Indices: 497483--498090 Score: 932
Period size: 175 Copynumber: 3.5 Consensus size: 173
497473 GTAAAACTTT
* * *
497483 TATCTAAAATTTGACCCGAACGAATAGCCTAACTCACTTATGATAAGTCTAATCCTTAACTATTA
1 TATCTAAAATTTGACCCGGACGAATAGCCTAACACACCTATGATAAGTCTAATCCTTAACTATTA
* *
497548 AATGGTATTTAAATAATAATTATGAATTTTATGATTCACTTCAACTTATAAGTATTCACAGTTCC
66 AATGGTATTTAAATAATAATTATAAATTTTATGATTCACTTCAAC-T-TAAGCATTCACAGTTCC
* *
497613 CAATCTCCCTTCTATATAAAACGTCTTTCCATGCAATAATTTATG
129 CAATCTCCCTTCTATATAAAACGCCTTTCCATGCAATAGTTTATG
* * *
497658 TATCTAAAATTTGACTCAGACGAATAGCCTAACCCACCTATGATAAGTCTAATCCTTAACTATTA
1 TATCTAAAATTTGACCCGGACGAATAGCCTAACACACCTATGATAAGTCTAATCCTTAACTATTA
* *
497723 AATGGTATTTAAATAATAATTATAAATTGTATGATTCATTTCAACGTGTAAGCATTCACAGTTCC
66 AATGGTATTTAAATAATAATTATAAATTTTATGATTCACTTCAAC-T-TAAGCATTCACAGTTCC
* * *
497788 TAATCTCCCTTTTATATAAAACGCCTTTCTATGCAATAGTTTATG
129 CAATCTCCCTTCTATATAAAACGCCTTTCCATGCAATAGTTTATG
*
497833 TATCTAAAATTTGACCCGGACGAATAGCCTAACACACCTATAATAAGTCTAATCCTTAACTATTA
1 TATCTAAAATTTGACCCGGACGAATAGCCTAACACACCTATGATAAGTCTAATCCTTAACTATTA
* *
497898 AATGGTATTTAAATAATAATTATTAATTTTATGATTCACTTCAACTT--GCATTCACAGTTCTCA
66 AATGGTATTTAAATAATAATTATAAATTTTATGATTCACTTCAACTTAAGCATTCACAGTTCCCA
* * *
497961 ATCTCCATTCTTTATAAAATGCCTTTCCATGCAATAGTTTATG
131 ATCTCCCTTCTATATAAAACGCCTTTCCATGCAATAGTTTATG
** * *
498004 TATCTAAAATTTGACCCGGATAAATAGCCTAACGCACCTATGATAAGCCTAATCCTTAACTATTA
1 TATCTAAAATTTGACCCGGACGAATAGCCTAACACACCTATGATAAGTCTAATCCTTAACTATTA
*
498069 AATGATATTTAAATAATAATTA
66 AATGGTATTTAAATAATAATTA
498091 AATGGTATTT
Statistics
Matches: 397, Mismatches: 36, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
171 133 0.34
173 1 0.00
174 1 0.00
175 262 0.66
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (173 bp):
TATCTAAAATTTGACCCGGACGAATAGCCTAACACACCTATGATAAGTCTAATCCTTAACTATTA
AATGGTATTTAAATAATAATTATAAATTTTATGATTCACTTCAACTTAAGCATTCACAGTTCCCA
ATCTCCCTTCTATATAAAACGCCTTTCCATGCAATAGTTTATG
Found at i:498082 original size:11 final size:11
Alignment explanation
Indices: 498066--498104 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
498056 TCCTTAACTA
498066 TTAAATGATAT
1 TTAAATGATAT
* *
498077 TTAAATAATAA
1 TTAAATGATAT
*
498088 TTAAATGGTAT
1 TTAAATGATAT
498099 TTAAAT
1 TTAAAT
498105 AATAATTATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
TTAAATGATAT
Found at i:498093 original size:22 final size:22
Alignment explanation
Indices: 498065--498112 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
498055 ATCCTTAACT
498065 ATTAAATGATATTTAAATAATA
1 ATTAAATGATATTTAAATAATA
*
498087 ATTAAATGGTATTTAAATAATA
1 ATTAAATGATATTTAAATAATA
498109 ATTA
1 ATTA
498113 TGAATTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (22 bp):
ATTAAATGATATTTAAATAATA
Found at i:500914 original size:22 final size:22
Alignment explanation
Indices: 500867--500915 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
500857 ACTTTAAATC
* **
500867 ATAATAAATGATTAAATTAAGG
1 ATAATAAAGGATTAAATTAAAA
500889 ATAATATAAGGATTAAA-TAAAA
1 ATAATA-AAGGATTAAATTAAAA
500911 ATAAT
1 ATAAT
500916 TGTTATTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (22 bp):
ATAATAAAGGATTAAATTAAAA
Found at i:504355 original size:11 final size:11
Alignment explanation
Indices: 504339--504423 Score: 75
Period size: 11 Copynumber: 7.5 Consensus size: 11
504329 TGATATAATT
504339 ATATAATATAA
1 ATATAATATAA
504350 ATATAA-ATATA
1 ATATAATATA-A
*
504361 ATATAAAAATAA
1 ATAT-AATATAA
* *
504373 TTAAAATAT-A
1 ATATAATATAA
504383 ATATAATATAA
1 ATATAATATAA
* *
504394 AAATAATATTA
1 ATATAATATAA
504405 ATATAATATTAAA
1 ATATAATA-T-AA
504418 ATATAA
1 ATATAA
504424 ATATTTTAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
10 11 0.19
11 32 0.54
12 6 0.10
13 10 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAATATAA
Found at i:504361 original size:17 final size:17
Alignment explanation
Indices: 504339--504427 Score: 85
Period size: 17 Copynumber: 5.2 Consensus size: 17
504329 TGATATAATT
504339 ATATAATATAAATATAA
1 ATATAATATAAATATAA
*
504356 ATATAATATAAAAATAA
1 ATATAATATAAATATAA
* *
504373 TTAAAATAT-AATAT-A
1 ATATAATATAAATATAA
* *
504388 ATATAA-AAATAATATTA
1 ATATAATATA-AATATAA
504405 ATATAATATTAAAATATAA
1 ATATAATA-T-AAATATAA
504424 ATAT
1 ATAT
504428 TTTAAATTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
14 1 0.02
15 5 0.09
16 9 0.16
17 30 0.53
18 1 0.02
19 10 0.18
20 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAATATAAATATAA
Found at i:504379 original size:22 final size:23
Alignment explanation
Indices: 504331--504427 Score: 88
Period size: 27 Copynumber: 3.9 Consensus size: 23
504321 ATTAAACATG
*
504331 ATATAATTATATAATATAAATATAA
1 ATATAA-TATA-AAAATAAATATAA
*
504356 ATATAATATAAAAATAATTAAAATATA
1 ATATAATATAAAAAT-A--AATATA-A
*
504383 ATATAATATAAAAAT-AATATTA
1 ATATAATATAAAAATAAATATAA
504405 ATATAATATTAAAATATAAATAT
1 ATATAATA-TAAAA-ATAAATAT
504428 TTTAAATTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
22 9 0.15
23 13 0.21
24 7 0.11
25 11 0.18
26 5 0.08
27 16 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATATAATATAAAAATAAATATAA
Found at i:504385 original size:27 final size:27
Alignment explanation
Indices: 504348--504447 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 27
504338 TATATAATAT
504348 AAATATAAATATAATATAAAAATAATTA
1 AAATAT-AATATAATATAAAAATAATTA
504376 AAATATAATATAATATAAAAATAA-TA
1 AAATATAATATAATATAAAAATAATTA
* * * * *
504402 TTAATATAATATTAAAATATAAATATTTT
1 -AAATATAATA-TAATATAAAAATAATTA
*
504431 AAAT-T-TTATAATATAAA
1 AAATATAATATAATATAAA
504448 TTATTAACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
25 7 0.12
26 4 0.07
27 28 0.47
28 20 0.33
29 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
AAATATAATATAATATAAAAATAATTA
Found at i:504681 original size:11 final size:11
Alignment explanation
Indices: 504665--504714 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
504655 TAAATTTTTA
504665 TATATTTATAT
1 TATATTTATAT
*
504676 TATATTAATAT
1 TATATTTATAT
*
504687 TATTTTTTATAT
1 TA-TATTTATAT
*
504699 TATAATTATAT
1 TATATTTATAT
504710 TATAT
1 TATAT
504715 AAATTTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 23 0.72
12 9 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATTTATAT
Found at i:504696 original size:23 final size:23
Alignment explanation
Indices: 504669--504712 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
504659 TTTTTATATA
504669 TTTATATTAT-ATTAATATTATTT
1 TTTATATTATAATT-ATATTATTT
504692 TTTATATTATAATTATATTAT
1 TTTATATTATAATTATATTAT
504713 ATAAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATATTATAATTATATTATTT
Found at i:504754 original size:16 final size:16
Alignment explanation
Indices: 504709--504760 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
504699 TATAATTATA
504709 TTATATAAATTTT-AT
1 TTATATAAATTTTAAT
*
504724 TGTAT-TAATAATTTAAT
1 T-TATATAA-ATTTTAAT
504741 TTATATAAATTTTAAT
1 TTATATAAATTTTAAT
504757 TTAT
1 TTAT
504761 TTATTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 4 0.13
16 21 0.68
17 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTATATAAATTTTAAT
Found at i:506239 original size:12 final size:12
Alignment explanation
Indices: 506222--506257 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
506212 AATTTAAACG
506222 ATTTGATTTTTT
1 ATTTGATTTTTT
*
506234 ATTTGATTTTTG
1 ATTTGATTTTTT
*
506246 ATTTAATTTTTT
1 ATTTGATTTTTT
506258 TTAATGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (12 bp):
ATTTGATTTTTT
Found at i:506576 original size:2 final size:2
Alignment explanation
Indices: 506569--506593 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
506559 CCACTTATTC
506569 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
506594 TTCCCGAAAT
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:512025 original size:21 final size:23
Alignment explanation
Indices: 512001--512045 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
511991 GGATAATTAG
512001 TGCAAAATTGTTTA-A-ATTTTA
1 TGCAAAATTGTTTATATATTTTA
* *
512022 TGCATAATTTTTTATATATTTTA
1 TGCAAAATTGTTTATATATTTTA
512045 T
1 T
512046 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (23 bp):
TGCAAAATTGTTTATATATTTTA
Found at i:518797 original size:24 final size:24
Alignment explanation
Indices: 518766--518816 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
518756 ATAAAAATAA
*
518766 TATAAAA-TTAATTTAATTTAAATT
1 TATAAAATTTAATTTAAATT-AATT
*
518790 TATAAAATTTAGTTTAAATTAATT
1 TATAAAATTTAATTTAAATTAATT
518814 TAT
1 TAT
518817 TTTATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TATAAAATTTAATTTAAATTAATT
Found at i:519573 original size:22 final size:22
Alignment explanation
Indices: 519539--519582 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
519529 AATTTAAATA
519539 TTAATATTAAAAATAAA-TATAT
1 TTAATATTAAAAA-AAATTATAT
* *
519561 TTAATTTTTAAAAAAATTATAT
1 TTAATATTAAAAAAAATTATAT
519583 ATTTTAGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAATATTAAAAAAAATTATAT
Found at i:520680 original size:23 final size:22
Alignment explanation
Indices: 520630--520680 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
520620 TATTTAATTT
520630 TTAAATTTTTTTATGTATTTAAA
1 TTAAATTTTTTTA-GTATTTAAA
*
520653 -AAAATTATTTTTA-TATTTATAA
1 TTAAATT-TTTTTAGTATTTA-AA
520675 TTAAAT
1 TTAAAT
520681 ATAAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
21 6 0.26
22 7 0.30
23 10 0.43
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTAAATTTTTTTAGTATTTAAA
Found at i:521462 original size:40 final size:39
Alignment explanation
Indices: 521412--521491 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 39
521402 GATATAATTA
* *
521412 ATATATTTAAAATTGATCTTTTAA-ATTTAATACGATTACG
1 ATATAATTAAAATTGATCTGTTAATATTT-ATACGA-TACG
521452 ATATAATTAAAATTGATCTGTTAATATTTATACGATACG
1 ATATAATTAAAATTGATCTGTTAATATTTATACGATACG
521491 A
1 A
521492 CACAACATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 5 0.14
40 28 0.76
41 4 0.11
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.42
Consensus pattern (39 bp):
ATATAATTAAAATTGATCTGTTAATATTTATACGATACG
Found at i:521760 original size:15 final size:14
Alignment explanation
Indices: 521740--521789 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 14
521730 TATATTTATA
521740 ATATAAAATATAATT
1 ATATAAAATAT-ATT
*
521755 ATATAAAATTTATAT
1 ATATAAAATATAT-T
521770 ATAATTAAAATATATT
1 AT-A-TAAAATATATT
521786 ATAT
1 ATAT
521790 TTTTATATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 3 0.10
15 14 0.47
16 4 0.13
17 9 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATAAAATATATT
Found at i:521791 original size:26 final size:28
Alignment explanation
Indices: 521730--521797 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 28
521720 ACATATTTTA
*
521730 TATATTTATAATATAAAATATAATTATAT
1 TATATTTAT-ATATAAAATATAAATATAT
* * *
521759 AAAATTTATATAT-AATTA-AAATATAT
1 TATATTTATATATAAAATATAAATATAT
*
521785 TATATTTTTATAT
1 TATATTTATATAT
521798 CGTATTTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 17 0.53
27 4 0.12
28 4 0.12
29 7 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
TATATTTATATATAAAATATAAATATAT
Found at i:522117 original size:17 final size:17
Alignment explanation
Indices: 522095--522127 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
522085 AAAATAAATA
522095 ATAAAAAATATTATTAT
1 ATAAAAAATATTATTAT
522112 ATAAAAAATATTATTA
1 ATAAAAAATATTATTA
522128 ATTAGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAAAAAATATTATTAT
Found at i:522577 original size:22 final size:22
Alignment explanation
Indices: 522550--522613 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
522540 AAATTTTAAA
522550 AAATATTTTTATATTAATATTT
1 AAATATTTTTATATTAATATTT
*
522572 ATATATTTTTATAATTAA-ATTT
1 AAATATTTTTAT-ATTAATATTT
*
522594 AAATAATTTTTTTATTAATA
1 AAAT-ATTTTTATATTAATA
522614 AATATTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 23 0.64
23 13 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATATTTTTATATTAATATTT
Found at i:524097 original size:20 final size:20
Alignment explanation
Indices: 524069--524106 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
524059 AATTAAATTT
*
524069 AAAATATTTTGTGAAATAAC
1 AAAAAATTTTGTGAAATAAC
524089 AAAAAATTTTGTGAAATA
1 AAAAAATTTTGTGAAATA
524107 TTATGCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.34
Consensus pattern (20 bp):
AAAAAATTTTGTGAAATAAC
Found at i:525274 original size:23 final size:25
Alignment explanation
Indices: 525229--525285 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 25
525219 AAATAGTACA
* *
525229 TTATATTAATATAAATATTTTAATAT
1 TTATA-TAATATAAATATATTAAAAT
525255 TTATATAATA-AAA-ATATTAAAAT
1 TTATATAATATAAATATATTAAAAT
525278 TTATATAA
1 TTATATAA
525286 AATATAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 16 0.55
24 3 0.10
25 5 0.17
26 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TTATATAATATAAATATATTAAAAT
Found at i:525289 original size:25 final size:25
Alignment explanation
Indices: 525229--525294 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 25
525219 AAATAGTACA
* * * *
525229 TTATATTAATATAAATATTTTAATAT
1 TTATA-TAAAATAAAAATATTAAAAT
525255 TTATAT--AATAAAAATATTAAAAT
1 TTATATAAAATAAAAATATTAAAAT
525278 TTATATAAAATATAAAA
1 TTATATAAAATA-AAAA
525295 CACTTTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 19 0.58
25 5 0.15
26 9 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TTATATAAAATAAAAATATTAAAAT
Found at i:525301 original size:21 final size:20
Alignment explanation
Indices: 525261--525314 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
525251 ATATTTATAT
*
525261 AATAAAAATATTAAAATTTA
1 AATAAAAATATAAAAATTTA
*
525281 TAT-AAAATATAAAACACTTTA
1 AATAAAAATATAAAA-A-TTTA
525302 AATAAAAATATAA
1 AATAAAAATATAA
525315 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.36
20 3 0.11
21 6 0.21
22 9 0.32
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
AATAAAAATATAAAAATTTA
Found at i:529318 original size:2 final size:2
Alignment explanation
Indices: 529311--529340 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
529301 ATAAGGCTTA
529311 AT 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 AT
529341 TTTTAACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:533712 original size:16 final size:16
Alignment explanation
Indices: 533688--533722 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
533678 AATTCAAGTA
*
533688 TTAATTTTAAAATATT
1 TTAAATTTAAAATATT
*
533704 TTAAATTTAAATTATT
1 TTAAATTTAAAATATT
533720 TTA
1 TTA
533723 TATTCAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTAAATTTAAAATATT
Found at i:533968 original size:23 final size:22
Alignment explanation
Indices: 533942--533985 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
533932 AATAATTAAA
* *
533942 AATATTTTTTTAATTAATATTTG
1 AATATTTATATAATTAA-ATTTG
533965 AATATTTATATAATTAAATTT
1 AATATTTATATAATTAAATTT
533986 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
AATATTTATATAATTAAATTTG
Found at i:540171 original size:29 final size:30
Alignment explanation
Indices: 540133--540204 Score: 67
Period size: 29 Copynumber: 2.4 Consensus size: 30
540123 TATTATTTTT
* *
540133 TTATTAATTAAAAAATA-ATTAAATTAA-TA
1 TTATAAATTAATAAA-ATATTAAATTAATTA
* *
540162 TTATAAATTAATTAAATATTAATTTAATTA
1 TTATAAATTAATAAAATATTAAATTAATTA
*
540192 TTAAAATATTAAT
1 TTATAA-ATTAAT
540205 TTAAAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 1 0.03
29 21 0.60
30 7 0.20
31 6 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
TTATAAATTAATAAAATATTAAATTAATTA
Found at i:540212 original size:33 final size:32
Alignment explanation
Indices: 540134--540212 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 32
540124 ATTATTTTTT
* *
540134 TATTAATTAAAAAATAATTAAATTAATATTATAA
1 TATTAATT-TAAAAT-ATTAAATTAATATTAAAA
*
540168 -ATTAA-TT-AAATATTAATTTAATTATTAAAA
1 TATTAATTTAAAATATTAAATTAA-TATTAAAA
540198 TATTAATTTAAAATA
1 TATTAATTTAAAATA
540213 AAATATAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
29 9 0.24
30 11 0.29
31 5 0.13
32 3 0.08
33 10 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
TATTAATTTAAAATATTAAATTAATATTAAAA
Found at i:540231 original size:16 final size:15
Alignment explanation
Indices: 540207--540243 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
540197 ATATTAATTT
540207 AAAAT-AAAATATAA
1 AAAATAAAAATATAA
540221 ATAAATAAAAATATAA
1 A-AAATAAAAATATAA
540237 AAAATAA
1 AAAATAA
540244 TTTAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 10 0.48
16 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAATAAAAATATAA
Found at i:540561 original size:22 final size:21
Alignment explanation
Indices: 540536--540579 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
540526 ATCAATTTAG
540536 TTATTTAATATTATAAATTTTT
1 TTATTTAATATT-TAAATTTTT
* *
540558 TTATTTATTATTTTAATTTTT
1 TTATTTAATATTTAAATTTTT
540579 T
1 T
540580 AAAAAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTATTTAATATTTAAATTTTT
Found at i:543594 original size:6 final size:6
Alignment explanation
Indices: 543557--543630 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
543547 ATTTTTAAAA
* * * *
543557 AAATAT AAATTT AATTTTT ATAA-TT AATTTT AAATTT AATTATTT ATATTT
1 AAATTT AAATTT AA-ATTT A-AATTT AAATTT AAATTT AA--ATTT AAATTT
*
543608 AAATTT TAATTT AAATTT AAATT
1 AAATTT AAATTT AAATTT AAATT
543631 AAAAATTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
5 1 0.02
6 43 0.80
7 4 0.07
8 6 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
AAATTT
Done.