Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold410
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: 242728
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:6592 original size:22 final size:23
Alignment explanation
Indices: 6567--6609 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6557 CCTAATTAAC
* *
6567 TAAATAATTATGCA-ATTGAGCT
1 TAAAAAATCATGCATATTGAGCT
6589 TAAAAAATCATGCATATTGAG
1 TAAAAAATCATGCATATTGAG
6610 ATCATTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (23 bp):
TAAAAAATCATGCATATTGAGCT
Found at i:6826 original size:2 final size:2
Alignment explanation
Indices: 6814--6853 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
6804 TTATAGCAAG
6814 TA TA GTA 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 T
6854 TATGTAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7593 original size:32 final size:33
Alignment explanation
Indices: 7536--7597 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
7526 CACCCAAATG
* *
7536 TATCGATACATATTGCTTAGTATCGATACATTA
1 TATCAATACATATTGCATAGTATCGATACATTA
7569 TATCAATACATATT-CATAGTATCGATACA
1 TATCAATACATATTGCATAGTATCGATACA
7598 CCCTGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (33 bp):
TATCAATACATATTGCATAGTATCGATACATTA
Found at i:10469 original size:14 final size:14
Alignment explanation
Indices: 10450--10477 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10440 AGTATGAAAG
10450 TTGTATTTGAATCA
1 TTGTATTTGAATCA
10464 TTGTATTTGAATCA
1 TTGTATTTGAATCA
10478 CAAAATTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
TTGTATTTGAATCA
Found at i:15045 original size:27 final size:24
Alignment explanation
Indices: 14992--15043 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
14982 AATTAATTTC
14992 TTATACAACAAATATTATATATTA
1 TTATACAACAAATATTATATATTA
15016 TTATACAACAAATATTATATATTA
1 TTATACAACAAATATTATATATTA
15040 TTAT
1 TTAT
15044 TAGCCCATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (24 bp):
TTATACAACAAATATTATATATTA
Found at i:17207 original size:2 final size:2
Alignment explanation
Indices: 17200--17258 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
17190 TTATTTAACC
17200 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C- CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17241 CT CT -T CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT C
17259 ATTTTGCTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:18499 original size:12 final size:12
Alignment explanation
Indices: 18481--18510 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18471 ACATGACAGC
18481 ATTATTTATTTA
1 ATTATTTATTTA
*
18493 TTTATTTATTTA
1 ATTATTTATTTA
18505 ATTATT
1 ATTATT
18511 CTTCTTTCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTATTTATTTA
Found at i:21697 original size:151 final size:150
Alignment explanation
Indices: 21275--21697 Score: 560
Period size: 151 Copynumber: 2.8 Consensus size: 150
21265 CAATATTTCC
* * * * * *
21275 TAATATAAATTTCCAACTCTTCTGGCTAAATTGTTGTTTTGAAAGTATTGACAAATCATGATTTG
1 TAATATAAGTTTCAAACTCTTCTGGCTAAATTATTGTTTTGAAAATCTTGACAAATCATGAATTG
* * * * *
21340 TTTGAACATTCAAATGTGCTTGAAATGAAGACATTCTTATTTCTTCTTTACTTTTTCGTGGCTAA
66 TTTGAACATCCAAATGTGCTTGAAATGAAGACATTCTTATTACTTATTTAC-CTTTCATGGCTAA
*
21405 ATTATTTTTCCATCATATTCA
130 ATTATTTTTCCAGCATATTCA
* *
21426 TAATATAAGTTTCAAACTCTTCTGGCTAAATTATTGTTTTGAAAATCTTGAGAAATCATTAATTG
1 TAATATAAGTTTCAAACTCTTCTGGCTAAATTATTGTTTTGAAAATCTTGACAAATCATGAATTG
* * * * *
21491 TTGGAACAACCAAATGTGCTTGAAATGAAGACATTCATATTGCTTATTATCCCTTTCATGGCTAA
66 TTTGAACATCCAAATGTGCTTGAAATGAAGACATTCTTATTACTTATT-TACCTTTCATGGCTAA
*
21556 ATTATTTTTCCAGGGA-ATTCA
130 ATTATTTTTCCA-GCATATTCA
* * *
21577 TAATATAAGTTTTAAACTCTTCTGGCCAAATTATTGTTTTTGAAAATCTTGACAAATCGTGAATT
1 TAATATAAGTTTCAAACTCTTCTGGCTAAATTATTG-TTTTGAAAATCTTGACAAATCATGAATT
* * * *
21642 GTTTGAACATCCAAGTGCGCTTGAAATGAAGACGTTCTTATTACTTATTTTCCTTT
65 GTTTGAACATCCAAATGTGCTTGAAATGAAGACATTCTTATTACTTATTTACCTTT
21698 TACCTTTCAG
Statistics
Matches: 237, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
151 167 0.70
152 70 0.30
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (150 bp):
TAATATAAGTTTCAAACTCTTCTGGCTAAATTATTGTTTTGAAAATCTTGACAAATCATGAATTG
TTTGAACATCCAAATGTGCTTGAAATGAAGACATTCTTATTACTTATTTACCTTTCATGGCTAAA
TTATTTTTCCAGCATATTCA
Found at i:30316 original size:16 final size:16
Alignment explanation
Indices: 30291--30366 Score: 73
Period size: 16 Copynumber: 4.8 Consensus size: 16
30281 TATTTTCAGA
*
30291 TTCGGATCATTTTAGG
1 TTCGGGTCATTTTAGG
30307 TTCGGGTCATTTT-GG
1 TTCGGGTCATTTTAGG
* * *
30322 ATTCGCGTCACTTTAGA
1 -TTCGGGTCATTTTAGG
**
30339 TTCGGGTCATTTCGGG
1 TTCGGGTCATTTTAGG
*
30355 TTCGGATCATTT
1 TTCGGGTCATTT
30367 CAAGTTCAGG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
15 2 0.04
16 45 0.94
17 1 0.02
ACGTcount: A:0.14, C:0.17, G:0.26, T:0.42
Consensus pattern (16 bp):
TTCGGGTCATTTTAGG
Found at i:30325 original size:32 final size:32
Alignment explanation
Indices: 30284--30366 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
30274 TTTGAGTTAT
* *
30284 TTTCAGATTCGGATCATTTTAGGTTCGGGTCA
1 TTTCGGATTCGGATCATTTTAGATTCGGGTCA
* *
30316 TTTTGGATTCGCG-TCACTTTAGATTCGGGTCA
1 TTTCGGATTCG-GATCATTTTAGATTCGGGTCA
*
30348 TTTCGGGTTCGGATCATTT
1 TTTCGGATTCGGATCATTT
30367 CAAGTTCAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
31 1 0.02
32 40 0.95
33 1 0.02
ACGTcount: A:0.16, C:0.17, G:0.25, T:0.42
Consensus pattern (32 bp):
TTTCGGATTCGGATCATTTTAGATTCGGGTCA
Found at i:30367 original size:16 final size:16
Alignment explanation
Indices: 30284--30368 Score: 66
Period size: 16 Copynumber: 5.3 Consensus size: 16
30274 TTTGAGTTAT
30284 TTTCAGATTCGGATCA
1 TTTCAGATTCGGATCA
* * *
30300 TTTTAGGTTCGGGTCA
1 TTTCAGATTCGGATCA
**
30316 TTTTGGATTCGCG-TCA
1 TTTCAGATTCG-GATCA
*
30332 CTTT-AGATTCGGGTCA
1 -TTTCAGATTCGGATCA
* *
30348 TTTCGGGTTCGGATCA
1 TTTCAGATTCGGATCA
30364 TTTCA
1 TTTCA
30369 AGTTCAGGTT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
15 4 0.07
16 47 0.85
17 4 0.07
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.41
Consensus pattern (16 bp):
TTTCAGATTCGGATCA
Found at i:30994 original size:17 final size:17
Alignment explanation
Indices: 30972--31004 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30962 AATAACAATT
*
30972 TAAAAAATTTAAATTAA
1 TAAAAAATTAAAATTAA
30989 TAAAAAATTAAAATTA
1 TAAAAAATTAAAATTA
31005 TTATAATAGA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAAATTAAAATTAA
Found at i:31446 original size:16 final size:16
Alignment explanation
Indices: 31425--31472 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
31415 TTAATTATTA
31425 AGATCATTTCGAGTTC
1 AGATCATTTCGAGTTC
31441 AGATCATTTCG-GATT-
1 AGATCATTTCGAG-TTC
31456 AGAATCATTTCGAGTTC
1 AG-ATCATTTCGAGTTC
31473 GAATTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 3 0.11
16 24 0.86
17 1 0.04
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (16 bp):
AGATCATTTCGAGTTC
Found at i:31476 original size:16 final size:16
Alignment explanation
Indices: 31427--31481 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
31417 AATTATTAAG
31427 ATCATTTCGAGTTC-A
1 ATCATTTCGAGTTCGA
*
31442 GATCATTTCG-GATTAGA
1 -ATCATTTCGAG-TTCGA
31459 ATCATTTCGAGTTCGA
1 ATCATTTCGAGTTCGA
*
31475 ATTATTT
1 ATCATTT
31482 TAAATTTGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.03
16 30 0.91
17 2 0.06
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (16 bp):
ATCATTTCGAGTTCGA
Found at i:39053 original size:20 final size:21
Alignment explanation
Indices: 39008--39062 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
38998 CATTAATGAA
*
39008 TGTATCGATACATGCTTCTAAT
1 TGTATCGATACAT-CATCTAAT
*
39030 TGTATCGATACAT-ATCTCAT
1 TGTATCGATACATCATCTAAT
39050 TGTATCGATACAT
1 TGTATCGATACAT
39063 TTTGGGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 18 0.58
22 13 0.42
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCATCTAAT
Found at i:47544 original size:2 final size:2
Alignment explanation
Indices: 47537--47576 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
47527 GGAGGCAAAG
47537 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
47577 ATATATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:50358 original size:2 final size:2
Alignment explanation
Indices: 50351--50378 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50341 TGAATGAATA
50351 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
50379 GTATGAGTCA
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:50454 original size:2 final size:2
Alignment explanation
Indices: 50441--50517 Score: 127
Period size: 2 Copynumber: 38.5 Consensus size: 2
50431 ACATTCATAC
* * *
50441 AT AT AC AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50483 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 A
50518 CCGGCTGCTT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:50464 original size:18 final size:18
Alignment explanation
Indices: 50441--50518 Score: 147
Period size: 18 Copynumber: 4.3 Consensus size: 18
50431 ACATTCATAC
50441 ATATACATATATATATAT
1 ATATACATATATATATAT
50459 ATATACATATATATATAT
1 ATATACATATATATATAT
50477 ATATACATATATATATAT
1 ATATACATATATATATAT
*
50495 ATATATATATATATATAT
1 ATATACATATATATATAT
50513 ATATAC
1 ATATAC
50519 CGGCTGCTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 58 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATACATATATATATAT
Found at i:53638 original size:12 final size:12
Alignment explanation
Indices: 53621--53645 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53611 TATTCTTTGC
53621 AAAAAAAGGAAA
1 AAAAAAAGGAAA
53633 AAAAAAAGGAAA
1 AAAAAAAGGAAA
53645 A
1 A
53646 TGGAGAATGC
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAGGAAA
Found at i:54361 original size:124 final size:122
Alignment explanation
Indices: 54175--54420 Score: 359
Period size: 124 Copynumber: 2.0 Consensus size: 122
54165 CAAATTGCAG
* * * * *
54175 GTTCTTCACTGTGTACTAGAGAGACATGGGTCCAAAAATTTCATTTATCTTCCGAAACGAGAATA
1 GTTCTTCACTGTGTACTAGAGAAACATAGGTCCAAAAATTTCATTGATCTTCAGAAACGAGAAGA
*
54240 CATGCAGCAAAAACAAATTAATTTGCAACCAAAAGTTTGCATCTTTTAAGATGTAACAA
66 CATGCAGCAAAAACAAACTAATTTGCAACCAAAAGTTT-CATCTTTT-AGATGTAACAA
* * * *
54299 GTTCTTCACTGTGTA-TCGGATAAACATAGGTCCAAACATTTCATTGATCTTCAGAAATGAGAAG
1 GTTCTTCACTGTGTACT-AGAGAAACATAGGTCCAAAAATTTCATTGATCTTCAGAAACGAGAAG
*
54363 ACATGCAGCAAAAACAAACTAATTTGCAACCAAAAGTTTCTTCTTTTAGATGTAACAA
65 ACATGCAGCAAAAACAAACTAATTTGCAACCAAAAGTTTCATCTTTTAGATGTAACAA
54421 ACTTCAAGAG
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
122 11 0.10
123 8 0.07
124 91 0.83
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (122 bp):
GTTCTTCACTGTGTACTAGAGAAACATAGGTCCAAAAATTTCATTGATCTTCAGAAACGAGAAGA
CATGCAGCAAAAACAAACTAATTTGCAACCAAAAGTTTCATCTTTTAGATGTAACAA
Found at i:54741 original size:1 final size:1
Alignment explanation
Indices: 54737--54763 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
54727 TGAAAAACTT
54737 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
54764 GAAGAAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:59598 original size:2 final size:2
Alignment explanation
Indices: 59591--59615 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59581 TGCTTTTTAT
59591 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
59616 TATTCTTTGA
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:59631 original size:84 final size:84
Alignment explanation
Indices: 59531--59699 Score: 329
Period size: 84 Copynumber: 2.0 Consensus size: 84
59521 CAATTACTAC
*
59531 TTATTCTTTGAAAAATTAAATTTACAATTTTGGTGCTAAAATTATTGTTTTGCTTTTTATTATAT
1 TTATTCTTTGAAAAATTAAATTTACAATTTTGGTGCTAAAATGATTGTTTTGCTTTTTATTATAT
59596 ATATATATATATATATATA
66 ATATATATATATATATATA
59615 TTATTCTTTGAAAAATTAAATTTACAATTTTGGTGCTAAAATGATTGTTTTGCTTTTTATTATAT
1 TTATTCTTTGAAAAATTAAATTTACAATTTTGGTGCTAAAATGATTGTTTTGCTTTTTATTATAT
59680 ATATATATATATATATATA
66 ATATATATATATATATATA
59699 T
1 T
59700 GGGCCATTCT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.52
Consensus pattern (84 bp):
TTATTCTTTGAAAAATTAAATTTACAATTTTGGTGCTAAAATGATTGTTTTGCTTTTTATTATAT
ATATATATATATATATATA
Found at i:59682 original size:2 final size:2
Alignment explanation
Indices: 59675--59699 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59665 TGCTTTTTAT
59675 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
59700 GGGCCATTCT
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:64149 original size:3 final size:3
Alignment explanation
Indices: 64141--64182 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
64131 TTTTAGCTTT
* *
64141 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64183 GCCTTAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:67661 original size:12 final size:12
Alignment explanation
Indices: 67644--67670 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
67634 GTGGAAGCCC
67644 TCTTCTCCTTCT
1 TCTTCTCCTTCT
67656 TCTTCTCCTTCT
1 TCTTCTCCTTCT
67668 TCT
1 TCT
67671 AGACTTATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTTCTCCTTCT
Found at i:70691 original size:96 final size:95
Alignment explanation
Indices: 70527--70717 Score: 364
Period size: 96 Copynumber: 2.0 Consensus size: 95
70517 GAAAGAAAGC
70527 ACCGTGAAGAAATTGAAAAGCTTGAAAAAGGTGGCATTCAATAATTGCTAGCTAGATTTTGTGCT
1 ACCGTGAAGAAATTGAAAAGCTTGAAAAAGGTGGCATTCAATAATTGCTAGCTAGATTTTGTGCT
70592 TGCCCCTTCCTTTCTTTTATTTACTTGAGTT
66 TGCCCC-TCCTTTCTTTTATTTACTTGAGTT
70623 ACCGTGAAGAAATTGAAAAGCTTGAAAAAGGTGGCATTCAATAATTGCTAGCTAGATTTTGTGCT
1 ACCGTGAAGAAATTGAAAAGCTTGAAAAAGGTGGCATTCAATAATTGCTAGCTAGATTTTGTGCT
*
70688 TGCCCCTCCTTTCTTTTATTTAGTTGAGTT
66 TGCCCCTCCTTTCTTTTATTTACTTGAGTT
70718 TCTGAAAGTT
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 23 0.24
96 71 0.76
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (95 bp):
ACCGTGAAGAAATTGAAAAGCTTGAAAAAGGTGGCATTCAATAATTGCTAGCTAGATTTTGTGCT
TGCCCCTCCTTTCTTTTATTTACTTGAGTT
Found at i:77982 original size:2 final size:2
Alignment explanation
Indices: 77975--78006 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
77965 GCACTCATAC
77975 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
78007 TAACCTGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:81163 original size:3 final size:3
Alignment explanation
Indices: 81155--81186 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
81145 GGGTTTAAAA
81155 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
81187 AAAACACATA
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:82768 original size:50 final size:50
Alignment explanation
Indices: 82707--82801 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
82697 ATTAATGGCC
*
82707 TTAATTATATTCATCCAAATAAAGATTTAAGTAGCTAAAAATAAAAGCTA
1 TTAACTATATTCATCCAAATAAAGATTTAAGTAGCTAAAAATAAAAGCTA
* *
82757 TTAACTATATTCATCCAAATAAAGATTTAATTGGCTAAAAATAAA
1 TTAACTATATTCATCCAAATAAAGATTTAAGTAGCTAAAAATAAA
82802 TGTTTCAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (50 bp):
TTAACTATATTCATCCAAATAAAGATTTAAGTAGCTAAAAATAAAAGCTA
Found at i:83378 original size:2 final size:2
Alignment explanation
Indices: 83371--83398 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
83361 TAACTCGTCG
83371 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
83399 TCTTCAGCTA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:84076 original size:2 final size:2
Alignment explanation
Indices: 84069--84103 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
84059 CACTAGTATT
84069 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
84104 TTCTTCGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:96524 original size:5 final size:5
Alignment explanation
Indices: 96514--96538 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
96504 AAGAGAAAGC
96514 AGAGG AGAGG AGAGG AGAGG AGAGG
1 AGAGG AGAGG AGAGG AGAGG AGAGG
96539 GGGTTGCGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (5 bp):
AGAGG
Found at i:97236 original size:22 final size:23
Alignment explanation
Indices: 97193--97236 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
97183 ATTTATCTGT
* *
97193 TTAAATTTGAATTATTTTTAAAA
1 TTAAATTTGAAATAATTTTAAAA
97216 TTAAATTT-AAATAATTTTAAA
1 TTAAATTTGAAATAATTTTAAA
97237 TTAGTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAAATTTGAAATAATTTTAAAA
Found at i:98140 original size:18 final size:19
Alignment explanation
Indices: 98119--98154 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
98109 AATTTTAGTA
*
98119 ATTA-TTTAAGAAATAAAT
1 ATTATTTTAAAAAATAAAT
98137 ATTATTTTAAAAAATAAA
1 ATTATTTTAAAAAATAAA
98155 AAGACTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
ATTATTTTAAAAAATAAAT
Found at i:98608 original size:21 final size:21
Alignment explanation
Indices: 98584--98626 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
98574 CAACGGTGGA
* *
98584 TGTCATCTCTTCAACCAGTTT
1 TGTCAGCTCTGCAACCAGTTT
98605 TGTCAGCTCTGCAACCAGTTT
1 TGTCAGCTCTGCAACCAGTTT
98626 T
1 T
98627 TTTCTCAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.40
Consensus pattern (21 bp):
TGTCAGCTCTGCAACCAGTTT
Found at i:101050 original size:3 final size:3
Alignment explanation
Indices: 101035--101082 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
101025 CATCCACAAA
*
101035 AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
101083 GAAAGTGGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:117571 original size:22 final size:22
Alignment explanation
Indices: 117545--117629 Score: 82
Period size: 22 Copynumber: 3.8 Consensus size: 22
117535 TTAATATTTT
117545 TATTAAGTGTGTTAGGTAAACA
1 TATTAAGTGTGTTAGGTAAACA
* * *
117567 TATTAGGTGTGTTAGGT-GATA
1 TATTAAGTGTGTTAGGTAAACA
*
117588 TGTTAGGTAGTGTGTTAGGTAAACA
1 TATTA---AGTGTGTTAGGTAAACA
**
117613 TATTTGGTGTGTTAGGT
1 TATTAAGTGTGTTAGGT
117630 GAATATATCT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
21 6 0.12
22 27 0.55
24 11 0.22
25 5 0.10
ACGTcount: A:0.26, C:0.02, G:0.31, T:0.41
Consensus pattern (22 bp):
TATTAAGTGTGTTAGGTAAACA
Found at i:117624 original size:24 final size:24
Alignment explanation
Indices: 117551--117624 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
117541 TTTTTATTAA
*
117551 GTGTGTTAGGTAAACATA-TTAG-
1 GTGTGTTAGGTAAACATATTTGGT
* * * *
117573 GTGTGTTAGGT-GATATGTTAGGT
1 GTGTGTTAGGTAAACATATTTGGT
117596 AGTGTGTTAGGTAAACATATTTGGT
1 -GTGTGTTAGGTAAACATATTTGGT
117621 GTGT
1 GTGT
117625 TAGGTGAATA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 3 0.08
22 13 0.33
24 15 0.38
25 8 0.21
ACGTcount: A:0.24, C:0.03, G:0.32, T:0.41
Consensus pattern (24 bp):
GTGTGTTAGGTAAACATATTTGGT
Found at i:117937 original size:27 final size:27
Alignment explanation
Indices: 117906--117958 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
117896 ATTTTTAAAC
117906 CAGTCAACATAATCGTTTTTCCAAAAG
1 CAGTCAACATAATCGTTTTTCCAAAAG
* **
117933 CAGTCAACCTAATTTTTTTTCCAAAA
1 CAGTCAACATAATCGTTTTTCCAAAA
117959 TCTGAATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (27 bp):
CAGTCAACATAATCGTTTTTCCAAAAG
Found at i:118014 original size:2 final size:2
Alignment explanation
Indices: 118009--118033 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
117999 AAAAAGGAAC
118009 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 A
118034 GCAAGGAAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:120957 original size:18 final size:17
Alignment explanation
Indices: 120913--120990 Score: 68
Period size: 19 Copynumber: 4.4 Consensus size: 17
120903 TTATTATTAT
*
120913 TTTTTAAATATT-TATA
1 TTTTTAAATATTAAATA
*
120929 TTTAATAAATATATAAATA
1 TTT-TTAAATAT-TAAATA
120948 TTTTTAAATATTTAAAATA
1 TTTTTAAATA-TT-AAATA
*
120967 TTTTTTAAAAATTAAATA
1 -TTTTTAAATATTAAATA
*
120985 TATTTA
1 TTTTTA
120991 TAATGAATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
16 3 0.06
17 12 0.24
18 13 0.25
19 14 0.27
20 9 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTTAAATATTAAATA
Found at i:120987 original size:20 final size:20
Alignment explanation
Indices: 120943--120989 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
120933 ATAAATATAT
*
120943 AAATA-TTTTTAAATATTTA
1 AAATATTTTTTAAATAATTA
120962 AAATATTTTTTAAA-AATTA
1 AAATATTTTTTAAATAATTA
120981 AATATATTT
1 AA-ATATTT
120990 ATAATGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATATTTTTTAAATAATTA
Found at i:122067 original size:27 final size:25
Alignment explanation
Indices: 122037--122104 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 25
122027 TATTATTTTT
122037 TAATATAATTATATTTAAAATATTAAA
1 TAAT-TAATTATATTTAAAATATT-AA
* * *
122064 TAATTATATAAAATTTAATATATTAA
1 TAATTA-ATTATATTTAAAATATTAA
122090 TAATTTAAATTATAT
1 TAA-TT-AATTATAT
122105 AAATTTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
26 7 0.21
27 25 0.76
28 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TAATTAATTATATTTAAAATATTAA
Found at i:122092 original size:18 final size:20
Alignment explanation
Indices: 122036--122081 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
122026 ATATTATTTT
122036 TTAATATAATTATATTTAAAATA
1 TTAA-ATAATTATA--TAAAATA
122059 TTAAATAATTATATAAAAT-
1 TTAAATAATTATATAAAATA
122078 TTAA
1 TTAA
122082 TATATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.17
20 6 0.26
22 9 0.39
23 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAATAATTATATAAAATA
Found at i:122162 original size:14 final size:14
Alignment explanation
Indices: 122108--122161 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
122098 ATTATATAAA
122108 TTTTTATATATTTA-
1 TTTTTATAT-TTTAT
*
122122 TTTTTATATTCATAT
1 TTTTTATATT-TTAT
122137 TTTTTATATTTTAT
1 TTTTTATATTTTAT
122151 TTTTTAT-TTTT
1 TTTTTATATTTT
122162 TTATAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
13 5 0.14
14 21 0.58
15 10 0.28
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTATATTTTAT
Found at i:122171 original size:20 final size:21
Alignment explanation
Indices: 122134--122172 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
122124 TTTATATTCA
**
122134 TATTTTTTATATTTTATTTTT
1 TATTTTTTATATAATATTTTT
122155 TATTTTTT-TATAATATTT
1 TATTTTTTATATAATATTT
122173 ATATTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (21 bp):
TATTTTTTATATAATATTTTT
Found at i:122685 original size:2 final size:2
Alignment explanation
Indices: 122678--122703 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
122668 AGATAAAATG
122678 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
122704 TATGTGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:124005 original size:24 final size:24
Alignment explanation
Indices: 123978--124041 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
123968 ATAATTACTA
123978 TAAATTATTATAAAATTATAATTT
1 TAAATTATTATAAAATTATAATTT
* * *
124002 TAAAATTTTTA-AAAAATATATTTT
1 T-AAATTATTATAAAATTATAATTT
124026 TAAA-TATTAATAAAAT
1 TAAATTATT-ATAAAAT
124042 CACCGACAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 3 0.09
23 4 0.12
24 17 0.53
25 8 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAATTATTATAAAATTATAATTT
Found at i:124017 original size:25 final size:24
Alignment explanation
Indices: 123979--124040 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
123969 TAATTACTAT
*
123979 AAATTATTATAAAATTATAATTTTA
1 AAATTATTA-AAAAATATAATTTTA
* *
124004 AAATTTTTAAAAAATATATTTTTA
1 AAATTATTAAAAAATATAATTTTA
*
124028 AATATTAATAAAA
1 AA-ATTATTAAAA
124041 TCACCGACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 15 0.48
25 16 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATTATTAAAAAATATAATTTTA
Found at i:124040 original size:23 final size:25
Alignment explanation
Indices: 123978--124041 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 25
123968 ATAATTACTA
123978 TAAATTATT-ATAAAATTATAATTTT
1 TAAATTATTAATAAAA-TATAATTTT
* *
124003 AAAATTTTTAA-AAAATAT-ATTTT
1 TAAATTATTAATAAAATATAATTTT
124026 TAAA-TATTAATAAAAT
1 TAAATTATTAATAAAAT
124042 CACCGACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
22 5 0.15
23 13 0.39
24 3 0.09
25 11 0.33
26 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAATTATTAATAAAATATAATTTT
Found at i:127806 original size:2 final size:2
Alignment explanation
Indices: 127799--127835 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
127789 TTATGTGTAC
127799 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 A
127836 ATTAATTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:130112 original size:40 final size:42
Alignment explanation
Indices: 130062--130174 Score: 117
Period size: 40 Copynumber: 2.8 Consensus size: 42
130052 GTTAGTTTAG
* *
130062 TATTGTTTAAATTTATTATTTAATTAATAAAAATT-TTATTT
1 TATTATTTAAATTTATTATTTAAATAATAAAAATTATTATTT
* * * *
130103 T-TTATTTAAATTAATTATGTAAATGATGAAAAATTATTTTTT
1 TATTATTTAAATTTATTATTTAAATAAT-AAAAATTATTATTT
* *
130145 TATTATTTTAATATA-T-TTTAAATAATAAAA
1 TATTATTTAAATTTATTATTTAAATAATAAAA
130175 TAAATATTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
40 25 0.43
41 16 0.28
42 7 0.12
43 10 0.17
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (42 bp):
TATTATTTAAATTTATTATTTAAATAATAAAAATTATTATTT
Found at i:133039 original size:22 final size:23
Alignment explanation
Indices: 133011--133066 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 23
133001 TGGACATGTT
*
133011 AAAAATGCATGAAATATAAT-AA
1 AAAAATGCATGAAACATAATAAA
133033 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
133056 AAAAATGCATG
1 AAAAATGCATG
133067 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 19 0.59
23 13 0.41
ACGTcount: A:0.62, C:0.07, G:0.11, T:0.20
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:134024 original size:20 final size:20
Alignment explanation
Indices: 133977--134051 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
133967 AAAAAGACAT
*
133977 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
133996 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
134017 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
*
134037 AATGCATCGATACAT
1 AATGTATCGATACAT
134052 CAGGGTATGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:134046 original size:40 final size:39
Alignment explanation
Indices: 133974--134051 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
133964 GGTAAAAAGA
* * *
133974 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATACATCGATACATT
* *
134013 CATACATGTATCGATATATTGAAAAATGCATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATACATCGATACAT
134052 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATACATCGATACATT
Found at i:134921 original size:29 final size:29
Alignment explanation
Indices: 134528--135712 Score: 1056
Period size: 28 Copynumber: 41.9 Consensus size: 29
134518 ACAGTGGTGA
* *
134528 TTTGAAAAGGGTTGCCATTGACTTGCATGGGC
1 TTTGAAAAGAG-TGCCACTGACTTG--TGGGC
* *
134560 TTT-AAAAGGGTGCCACTGACGTGCGTGGGC
1 TTTGAAAAGAGTGCCACTGAC-T-TGTGGGC
* * * *
134590 TTTG-AAAGAATGCCACTAACTCGTGGGT
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
134618 TTTGAAAGGA-TGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
134646 TTTG-AAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
134674 TTTGAAAAG-GTACCACTGACTTGCGTGAGC
1 TTTGAAAAGAGTGCCACTGACTT--GTGGGC
134704 TTT-AAAAGGAGTGCCACTGACTTGTGTGAGC
1 TTTGAAAA-GAGTGCCACTGACTTGTG-G-GC
* * *
134735 TTT-AAAAGGGTGCCACTGATTTATGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
134763 TTTG-AAAGAGTGCCACTGAATTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
134791 TTCGCAATG-GTGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
134819 TTCG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
134847 TCTG-AAAGGGTGCCACTAACTTGTGGAC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
134875 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
134903 TTTGAAAAGAGCGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
134932 TTTGAAAAGAGTGCTACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
134961 TTTGAAAATAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
134990 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
135019 TTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
135048 TTTG-AAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
135076 TTTGAAATGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
135105 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
135133 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
135162 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
135190 TTTGAAAGGAGTGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
135219 TTTG-AAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
135247 TTTGAAAAGAATGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
135276 TTTGAAAAGAATGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
135305 TTTG-AAAGGGTGCCACTGAGTTGT-GGA
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
135332 TTT-AAAAG-GATGCCAC-GAAGTTGTGGAC
1 TTTGAAAAGAG-TGCCACTG-ACTTGTGGGC
* * * *
135360 -TT-AAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
135387 -TT-AAAAGGGTGCCACAGAGTTGTGGTC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
135414 -TT-AAAAGGGATGCCACGGAGTTGTGGAC
1 TTTGAAAAGAG-TGCCACTGACTTGTGGGC
* * * *
135442 -TT-AAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
135469 -TT-AAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
135496 -TT-AAAAGAGTGCCACGGAGTTGTGGAC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
135523 -TT-AAAGAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAA-AGAGTGCCACTGACTTGTGGGC
* * * * *
135551 TTT-AAAAGAGCGCTACGGAGTTGTGGAC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
135579 -TT-AAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
135606 TTT-AAAAG-GTGCCACAGAGTTGTGGAC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
135633 -TT-AAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
135660 TTT-AAAAGAGTGCCACGGAGTTGT-GGA
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
135687 TTT-AAAAGGGTGCCACAGAATTGTGG
1 TTTGAAAAGAGTGCCACTGACTTGTGG
135713 ACTTAAAAAG
Statistics
Matches: 1031, Mismatches: 89, Indels: 70
0.87 0.07 0.06
Matches are distributed among these distances:
26 9 0.01
27 243 0.24
28 403 0.39
29 289 0.28
30 54 0.05
31 29 0.03
32 4 0.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
TTTGAAAAGAGTGCCACTGACTTGTGGGC
Found at i:135088 original size:57 final size:57
Alignment explanation
Indices: 134528--135740 Score: 1058
Period size: 57 Copynumber: 21.5 Consensus size: 57
134518 ACAGTGGTGA
* * *
134528 TTTGAAAAGGGTTGCCATTGACTTGCATGGGCTTT-AAAAGGGTGCCACTGACGTGCGTGGGC
1 TTTG-AAAGGG-TGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCCACTGAC-T-TGTGGGC
** * * * *
134590 TTTGAAAGAATGCCACTAACTCGTGGGTTTTGAAAGGA-TGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
134646 TTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTACCACTGACTTGCGTGAGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGC
* * * *
134704 TTTAAAAGGAGTGCCACTGACTTGTGTGAGCTTT-AAAAGGGTGCCACTGATTTATGGGC
1 TTTGAAAGG-GTGCCACTGACTTGTG-G-GCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * * * *
134763 TTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATG-GTGCCACTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * * *
134819 TTCGAAAGGGTGCCACTGACTTGTGGGCTCTG-AAAGGGTGCCACTAACTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
134875 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGCGCCACTGATTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
134932 TTTGAAAAGAGTGCTACTGACTTGTGGGCTTTGAAAATAGTGCCACTGATTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
134990 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
135048 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAATGAGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
135105 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
135162 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
135219 TTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGATTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
** * * * *
135276 TTTGAAAAGAATGCCACTGATTTGTGGGCTTTG-AAAGGGTGCCACTGAGTTGT-GGA
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * * * * * *
135332 TTTAAAAGGATGCCAC-GAAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTG-ACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * * * * * *
135387 -TTAAAAGGGTGCCACAGAGTTGTGGTC-TT-AAAAGGGATGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGC
* * * * * * * *
135442 -TTAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * * * * * * *
135496 -TTAAAAGAGTGCCACGGAGTTGTGGAC-TT-AAAGAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-AGAGTGCCACTGACTTGTGGGC
* * * * * * * * * * *
135551 TTTAAAAGAGCGCTACGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * * * * * *
135606 TTT-AAAAGGTGCCACAGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * * * * * * *
135660 TTTAAAAGAGTGCCACGGAGTTGT-GGATTT-AAAAGGGTGCCACAGAATTGTGGAC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
** * * *
135715 TTAAAAAGGATGCCACAGAGTTGTGG
1 TTTGAAAGGGTGCCACTGACTTGTGG
135741 ACTTCAAAAA
Statistics
Matches: 1027, Mismatches: 101, Indels: 52
0.87 0.09 0.04
Matches are distributed among these distances:
54 153 0.15
55 185 0.18
56 180 0.18
57 261 0.25
58 177 0.17
59 31 0.03
60 16 0.02
61 20 0.02
62 4 0.00
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (57 bp):
TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
Found at i:143286 original size:24 final size:22
Alignment explanation
Indices: 143230--143278 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
143220 TGGACATGTT
*
143230 AAAAATGCATGAAATATAATAA
1 AAAAATGCATGAAACATAATAA
143252 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
143274 AAAAA
1 AAAAA
143279 AATGCATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.67, C:0.06, G:0.08, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:144244 original size:20 final size:20
Alignment explanation
Indices: 144197--144271 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
144187 AAAAAGACAT
*
144197 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
144216 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
144237 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
*
144257 AATGCATCGATACAT
1 AATGTATCGATACAT
144272 CAGGGTATGA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:144266 original size:40 final size:39
Alignment explanation
Indices: 144194--144271 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
144184 GGTAAAAAGA
* * *
144194 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATACATCGATACATT
* *
144233 CATACATGTATCGATATATTGAAAAATGCATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATACATCGATACAT
144272 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATACATCGATACATT
Found at i:146174 original size:22 final size:22
Alignment explanation
Indices: 146149--146190 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
146139 ATAATCAAAG
*
146149 ATATACTAATAAGGCATTGATA
1 ATATACTAACAAGGCATTGATA
* *
146171 ATATGCTCACAAGGCATTGA
1 ATATACTAACAAGGCATTGA
146191 CAATGCAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (22 bp):
ATATACTAACAAGGCATTGATA
Found at i:146263 original size:17 final size:17
Alignment explanation
Indices: 146241--146283 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
146231 GTAATTTATA
146241 TTTCTTTCAATCTAAAT
1 TTTCTTTCAATCTAAAT
* * *
146258 TTTCTTTTAATTTAAGT
1 TTTCTTTCAATCTAAAT
146275 TTT-TTTCAA
1 TTTCTTTCAA
146284 CGGTGATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTCTTTCAATCTAAAT
Found at i:146452 original size:10 final size:11
Alignment explanation
Indices: 146425--146453 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
146415 ATATAATTTT
146425 TTAATTTTTAA
1 TTAATTTTTAA
146436 TTAATTTTTAA
1 TTAATTTTTAA
146447 TT-ATTTT
1 TTAATTTT
146454 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTAATTTTTAA
Found at i:146483 original size:40 final size:40
Alignment explanation
Indices: 146428--146505 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
146418 TAATTTTTTA
* *
146428 ATTTTTAATTAATTTTTAATTATTTTGAAAATTAAAAAAC
1 ATTTTTAATTAATTTTTAATTATTCTCAAAATTAAAAAAC
146468 ATTTTTAATTAATTTTTAATTATTCTCAAAATTAAAAA
1 ATTTTTAATTAATTTTTAATTATTCTCAAAATTAAAAA
146506 GTATTACATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (40 bp):
ATTTTTAATTAATTTTTAATTATTCTCAAAATTAAAAAAC
Found at i:146638 original size:2 final size:2
Alignment explanation
Indices: 146631--146665 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
146621 AGAATATCTT
146631 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 T
146666 TATGTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:147217 original size:12 final size:12
Alignment explanation
Indices: 147200--147229 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
147190 CACAACTGTT
*
147200 TATATACGTGTG
1 TATATACGTGTA
147212 TATATACGTGTA
1 TATATACGTGTA
147224 TATATA
1 TATATA
147230 TATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (12 bp):
TATATACGTGTA
Found at i:148086 original size:401 final size:401
Alignment explanation
Indices: 147343--148148 Score: 1585
Period size: 401 Copynumber: 2.0 Consensus size: 401
147333 TCTTTGTTTA
147343 TTACCTACTGTTTTTAGTTCATAGCAATGCTAATTATTTTTTTACGAGGCAAATTAATTAAGCAA
1 TTACCTACTGTTTTTAGTTCATAGCAATGCTAATTATTTTTTTACGAGGCAAATTAATTAAGCAA
147408 ACTAATTAGGTATAGTTTTATGAAAAACTATACCTACTTATGCAAGGAAATGAAACAAATGAGAC
66 ACTAATTAGGTATAGTTTTATGAAAAACTATACCTACTTATGCAAGGAAATGAAACAAATGAGAC
147473 TGCAGTTTTTCAGGGACCATTTTCCTTGAAGAGTGAAAATAAGGTTTCCAGTTAATAATATAAAT
131 TGCAGTTTTTCAGGGACCATTTTCCTTGAAGAGTGAAAATAAGGTTTCCAGTTAATAATATAAAT
* *
147538 TTCTGGAAGTTTTAGTTGATTAATTATGGCAATAAAGAGCTCTGGGGGAACAAATCTAGTACTTG
196 TTATGGAAGTTTTAGTTGATTAATTATGGCAATAAAGAGCTCTGGGGGAACAAATCTAGTACTTA
147603 AATAGATAGGGGAATTTCTAATGTAAATCTTGCAAGCACAACAAGAAGTGACAACAATGCTCTGA
261 AATAGATAGGGGAATTTCTAATGTAAATCTTGCAAGCACAACAAGAAGTGACAACAATGCTCTGA
147668 AATGTGATATGCATCAAATTCTTGATGATGCACAGCAGAAAGGAAGGGAGAGATAAGATTGTCGA
326 AATGTGATATGCATCAAATTCTTGATGATGCACAGCAGAAAGGAAGGGAGAGATAAGATTGTCGA
147733 TAATATCAATG
391 TAATATCAATG
147744 TTACCTACTGTTTTTAGTTCATAGCAATGCTAATTATTTTTTTACGAGGCAAATTAATTAAGCAA
1 TTACCTACTGTTTTTAGTTCATAGCAATGCTAATTATTTTTTTACGAGGCAAATTAATTAAGCAA
147809 ACTAATTAGGTATAGTTTTATGAAAAACTATACCTACTTATGCAAGGAAATGAAACAAATGAGAC
66 ACTAATTAGGTATAGTTTTATGAAAAACTATACCTACTTATGCAAGGAAATGAAACAAATGAGAC
147874 TGCAGTTTTTCAGGGACCATTTTCCTTGAAGAGTGAAAATAAGGTTTCCAGTTAATAATATAAAT
131 TGCAGTTTTTCAGGGACCATTTTCCTTGAAGAGTGAAAATAAGGTTTCCAGTTAATAATATAAAT
*
147939 TTATGGAAGTTTTAGTTGATTAATTATGGTAATAAAGAGCTCTGGGGGAACAAATCTAGTACTTA
196 TTATGGAAGTTTTAGTTGATTAATTATGGCAATAAAGAGCTCTGGGGGAACAAATCTAGTACTTA
148004 AATAGATAGGGGAATTTCTAATGTAAATCTTGCAAGCACAACAAGAAGTGACAACAATGCTCTGA
261 AATAGATAGGGGAATTTCTAATGTAAATCTTGCAAGCACAACAAGAAGTGACAACAATGCTCTGA
148069 AATGTGATATGCATCAAATTCTTGATGATGCACAGCAGAAAGGAAGGGAGAGATAAGATTGTCGA
326 AATGTGATATGCATCAAATTCTTGATGATGCACAGCAGAAAGGAAGGGAGAGATAAGATTGTCGA
148134 TAATATCAATG
391 TAATATCAATG
148145 TTAC
1 TTAC
148149 TGGTAAGATT
Statistics
Matches: 402, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
401 402 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (401 bp):
TTACCTACTGTTTTTAGTTCATAGCAATGCTAATTATTTTTTTACGAGGCAAATTAATTAAGCAA
ACTAATTAGGTATAGTTTTATGAAAAACTATACCTACTTATGCAAGGAAATGAAACAAATGAGAC
TGCAGTTTTTCAGGGACCATTTTCCTTGAAGAGTGAAAATAAGGTTTCCAGTTAATAATATAAAT
TTATGGAAGTTTTAGTTGATTAATTATGGCAATAAAGAGCTCTGGGGGAACAAATCTAGTACTTA
AATAGATAGGGGAATTTCTAATGTAAATCTTGCAAGCACAACAAGAAGTGACAACAATGCTCTGA
AATGTGATATGCATCAAATTCTTGATGATGCACAGCAGAAAGGAAGGGAGAGATAAGATTGTCGA
TAATATCAATG
Found at i:149409 original size:46 final size:46
Alignment explanation
Indices: 149356--149448 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
149346 TTCTACTTGA
* *
149356 GCCTCTCCAATTCCATTATCATTTACCAATGTTCCAATGACAGACT
1 GCCTCTCCAATTCCATTACCATTTACCAACGTTCCAATGACAGACT
*
149402 GCCTCTCCAATTCCATTACCATTTACCAACGTTCGAATGACAGACT
1 GCCTCTCCAATTCCATTACCATTTACCAACGTTCCAATGACAGACT
149448 G
1 G
149449 GTTTTGCCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (46 bp):
GCCTCTCCAATTCCATTACCATTTACCAACGTTCCAATGACAGACT
Found at i:151477 original size:12 final size:12
Alignment explanation
Indices: 151460--151488 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
151450 TAGAAATCAC
151460 TTAGAAACTGTT
1 TTAGAAACTGTT
151472 TTAG-AACTGTT
1 TTAGAAACTGTT
151483 TTAGAA
1 TTAGAA
151489 TTTCTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (12 bp):
TTAGAAACTGTT
Found at i:151722 original size:64 final size:64
Alignment explanation
Indices: 151648--151779 Score: 212
Period size: 64 Copynumber: 2.1 Consensus size: 64
151638 GATAATATTT
* *
151648 AAATAACAAAT-CCTATAATTTAAGGAAAGCTAATCCCCTTAAATCAAGGAATCCCATAATTTAG
1 AAATAACAAATCCCT-TAACTTAAGGAAAGCTAATCCCCTTAAATCAAAGAATCCCATAATTTAG
* *
151712 AAATAACAAATCCCTTAACTTAAGGAAAGCTAATCTCCTTAAATCAAAGAATCCCATACTTTAG
1 AAATAACAAATCCCTTAACTTAAGGAAAGCTAATCCCCTTAAATCAAAGAATCCCATAATTTAG
151776 AAAT
1 AAAT
151780 TCTGAAGAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 60 0.95
65 3 0.05
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (64 bp):
AAATAACAAATCCCTTAACTTAAGGAAAGCTAATCCCCTTAAATCAAAGAATCCCATAATTTAG
Found at i:152929 original size:28 final size:30
Alignment explanation
Indices: 152884--152939 Score: 98
Period size: 28 Copynumber: 1.9 Consensus size: 30
152874 TCGATGATTA
152884 GAAAATAAATCGAGATTGGAGTATCCCCTC
1 GAAAATAAATCGAGATTGGAGTATCCCCTC
152914 GAAAAT-AA-CGAGATTGGAGTATCCCC
1 GAAAATAAATCGAGATTGGAGTATCCCC
152940 AATTATGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 18 0.69
29 2 0.08
30 6 0.23
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (30 bp):
GAAAATAAATCGAGATTGGAGTATCCCCTC
Found at i:152935 original size:78 final size:79
Alignment explanation
Indices: 152853--153021 Score: 189
Period size: 79 Copynumber: 2.2 Consensus size: 79
152843 ACGGGGCTGA
* *
152853 AGTATCCCCGATTGTGAGAAATCGATGA-TTAGAAAATAAA-TCGAGATTGGAGTATCCCCTCGA
1 AGTATCCCCGATTATGAGAAATCAAT-ATTTAGAAAATAAAGTCGAGATTGGAGTATCCCCTCGA
152916 AAATAACGAGATTGG
65 AAATAACGAGATTGG
* * ** * * * *
152931 AGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGTCGGGGTTGGAGTATCCCCTTGGA
1 AGTATCCCCGATTATGAGAAATCAATATTTAGAAAATAAAGTCGAGATTGGAGTATCCCCTCGAA
* * *
152996 AGTAACGGGGTTGG
66 AATAACGAGATTGG
*
153010 AGTATCCTCGAT
1 AGTATCCCCGAT
153022 GAAATAACGA
Statistics
Matches: 74, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
77 1 0.01
78 32 0.43
79 41 0.55
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
AGTATCCCCGATTATGAGAAATCAATATTTAGAAAATAAAGTCGAGATTGGAGTATCCCCTCGAA
AATAACGAGATTGG
Found at i:153047 original size:28 final size:29
Alignment explanation
Indices: 152976--153049 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
152966 ATAAAGTCGG
** * *
152976 GGTTGGAGTATCC-CCTTGGAAGTAACGG
1 GGTTGGAGTATCCTCGATGGAAATAACGA
153004 GGTTGGAGTATCCTCGAT-GAAATAACGA
1 GGTTGGAGTATCCTCGATGGAAATAACGA
153032 GGTTGGAGTATCCTCGAT
1 GGTTGGAGTATCCTCGAT
153050 TATGAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 39 0.95
29 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
GGTTGGAGTATCCTCGATGGAAATAACGA
Found at i:153189 original size:52 final size:52
Alignment explanation
Indices: 153032--153258 Score: 197
Period size: 52 Copynumber: 4.3 Consensus size: 52
153022 GAAATAACGA
* * * * * *
153032 GGTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAAAT--TA--GTGTTTTGAAAATAAAACCGG
* * **
153088 AGTTGGAGTATCCCCGATTAAAGGGAAAATTAGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAAATTAGTGTTTTGAAAATAAAACCGG
* * *
153141 GGTTAGAGTATCCCCGATTGTGAAAAAATTAGTGTTTT-AGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAAATTAGTGTTTTGA-AAATAAAACCGG
* * * * * * **
153193 GATTGGAGTATCCCCGATTATG-AAAAATCAATATTTTGGAGATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAAATTAGTGTTTTGAAAATAAAACCGG
153244 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
153259 TCGGAAATAA
Statistics
Matches: 139, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
51 35 0.25
52 45 0.32
53 34 0.24
55 2 0.01
56 17 0.12
57 6 0.04
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTATGAAAAAATTAGTGTTTTGAAAATAAAACCGG
Found at i:153250 original size:51 final size:51
Alignment explanation
Indices: 153032--153419 Score: 214
Period size: 53 Copynumber: 7.4 Consensus size: 51
153022 GAAATAACGA
* * * *
153032 GGTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAA-T--TA--GTGTTTTGGAAATAAAACCGG
* * * *
153088 AGTTGGAGTATCCCCGATTAAAGGGAAAATTAGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTAGTGTTTTGGAAATAAAACCGG
* * * *
153141 GGTTAGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATG-AAAAATTAGTGTTTTGGAAATAAAACCGG
* * * * * **
153193 GATTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAGATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
** * **** * *
153244 GGTTGGAGTATCCCC---TCGGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TT--AGTGTTTTGGA-AATAAAACCGG
* * * *
153299 GGTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTG--TTTTGGAAATAAAACCGG
* * * *
153352 AGTTGGAGTATCCCCGATTA-G-AAAATTAGTGTCTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
* *
153401 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
153420 GTGGAGAATT
Statistics
Matches: 257, Mismatches: 56, Indels: 45
0.72 0.16 0.13
Matches are distributed among these distances:
48 5 0.02
49 36 0.14
50 2 0.01
51 46 0.18
52 52 0.20
53 55 0.21
54 1 0.00
55 20 0.08
56 24 0.09
57 5 0.02
58 11 0.04
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
Found at i:153304 original size:27 final size:28
Alignment explanation
Indices: 153241--153316 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
153231 GAGATAAAGT
***
153241 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
153269 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
153296 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
153317 TGTGAAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:153395 original size:49 final size:52
Alignment explanation
Indices: 153300--153420 Score: 167
Period size: 49 Copynumber: 2.4 Consensus size: 52
153290 GATTAACGGG
* * * *
153300 GTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAATTTAGTG-TTCTTGAAAATAAAATCGGA
153353 GTTGGAGTATCCCCGATT-AGAAAA-TTAGTG-TCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAATTTAGTGTTCTTGAAAATAAAATCGGA
*
153402 GTTGGAATATCCCCGATTG
1 GTTGGAGTATCCCCGATTG
153421 TGGAGAATTG
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
49 34 0.55
51 5 0.08
52 5 0.08
53 18 0.29
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGAGAAAATTTAGTGTTCTTGAAAATAAAATCGGA
Found at i:155809 original size:13 final size:13
Alignment explanation
Indices: 155791--155816 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
155781 ACAAAGATCC
155791 ATGTATCGATACA
1 ATGTATCGATACA
155804 ATGTATCGATACA
1 ATGTATCGATACA
155817 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:155812 original size:33 final size:33
Alignment explanation
Indices: 155770--155836 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
155760 AAAATTTCCA
***
155770 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
155803 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
155836 A
1 A
155837 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:155880 original size:19 final size:18
Alignment explanation
Indices: 155856--155923 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
155846 CAGTAGCTAA
155856 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
155875 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
155890 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
155907 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
155924 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:155896 original size:13 final size:13
Alignment explanation
Indices: 155878--155902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
155868 ACAATACTTA
155878 TGTATCGATACAT
1 TGTATCGATACAT
155891 TGTATCGATACA
1 TGTATCGATACA
155903 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:155900 original size:32 final size:32
Alignment explanation
Indices: 155859--155921 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
155849 TAGCTAATTA
*
155859 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
155891 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
155922 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:160659 original size:12 final size:12
Alignment explanation
Indices: 160642--160671 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
160632 TAGAAATCAC
160642 TTAGAAACTGTT
1 TTAGAAACTGTT
160654 TTAGAAACTGTT
1 TTAGAAACTGTT
160666 TTAGAA
1 TTAGAA
160672 TTTCTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (12 bp):
TTAGAAACTGTT
Found at i:160905 original size:64 final size:64
Alignment explanation
Indices: 160831--160962 Score: 219
Period size: 64 Copynumber: 2.1 Consensus size: 64
160821 GATAATATTT
* * *
160831 AAATAACAAATCCCTTAATTTAAGGAAAGCTAATCCCCTTAAATCAAGGAATCCCATAATTTAG
1 AAATAACAAATCCCTTAACTTAAGGAAAGCTAATCCCCTCAAATCAAAGAATCCCATAATTTAG
* *
160895 AAATAACAAATCCCTTAACTTAAGGAAAGCTAATCTCCTCAAATCAAAGAATCCCATACTTTAG
1 AAATAACAAATCCCTTAACTTAAGGAAAGCTAATCCCCTCAAATCAAAGAATCCCATAATTTAG
160959 AAAT
1 AAAT
160963 TCTGAAAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (64 bp):
AAATAACAAATCCCTTAACTTAAGGAAAGCTAATCCCCTCAAATCAAAGAATCCCATAATTTAG
Found at i:161455 original size:15 final size:15
Alignment explanation
Indices: 161435--161464 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
161425 GGCAATGAAG
161435 CCACAAATATTACAC
1 CCACAAATATTACAC
161450 CCACAAATATTACAC
1 CCACAAATATTACAC
161465 AGCTGGAAGC
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:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (15 bp):
CCACAAATATTACAC
Found at i:173852 original size:3 final size:3
Alignment explanation
Indices: 173837--173866 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
173827 TACCTACTTT
*
173837 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
173867 GTGGAGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:177738 original size:2 final size:2
Alignment explanation
Indices: 177733--177762 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
177723 CACCGATATA
177733 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
177763 GATATAATCT
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:179225 original size:16 final size:16
Alignment explanation
Indices: 179206--179270 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
179196 TATTTTTTAT
179206 TTTATATATTATATAA
1 TTTATATATTATATAA
*
179222 TTTATAT-TATATAAAGA
1 TTTATATAT-TATATA-A
*
179239 TTAATATA-TATAT-A
1 TTTATATATTATATAA
*
179253 TTTATATAATATTATAA
1 TTTATATATTA-TATAA
179270 T
1 T
179271 ACAAATATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
14 8 0.21
15 3 0.08
16 19 0.49
17 9 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTATATATTATATAA
Found at i:189053 original size:24 final size:22
Alignment explanation
Indices: 189019--189062 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
189009 CTGATTATCA
* *
189019 AACTTTAAAAAGAATAAAATAG
1 AACTTTAAAAAAAAAAAAATAG
189041 AACTATTAGAAAAAAAAAAAAT
1 AACT-TTA-AAAAAAAAAAAAT
189063 TAAACAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 3 0.17
24 11 0.61
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (22 bp):
AACTTTAAAAAAAAAAAAATAG
Found at i:191920 original size:17 final size:18
Alignment explanation
Indices: 191883--191920 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
191873 AGCATTCAAA
*
191883 TAATTTTTTTAATATTGT
1 TAATTTTTTTAATATTAT
*
191901 TAATTTTTTTTAT-TTAT
1 TAATTTTTTTAATATTAT
191918 TAA
1 TAA
191921 AATTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TAATTTTTTTAATATTAT
Found at i:191976 original size:14 final size:14
Alignment explanation
Indices: 191937--191976 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
191927 AAAAATATAA
191937 AAATTAAAATA-AT
1 AAATTAAAATACAT
*
191950 AAATTTAATATACAT
1 AAA-TTAAAATACAT
191965 AAATTAAAATAC
1 AAATTAAAATAC
191977 TTTTTTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 3 0.13
14 15 0.65
15 5 0.22
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATTAAAATACAT
Found at i:192671 original size:12 final size:12
Alignment explanation
Indices: 192643--192680 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
192633 ATATAAATAT
*
192643 TATAAAAAATAA
1 TATAAAATATAA
192655 T-TAAAATATAA
1 TATAAAATATAA
192666 TATAAAATATAA
1 TATAAAATATAA
192678 TAT
1 TAT
192681 TAACGTGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TATAAAATATAA
Found at i:194794 original size:370 final size:365
Alignment explanation
Indices: 193984--194677 Score: 1129
Period size: 370 Copynumber: 1.9 Consensus size: 365
193974 ATCGGATGTT
* *** * *
193984 GATTATAGAACCTAAATGCACTAATCTCAA-CACTTTTATTTCATGAGAGACCTTATATTCAAGA
1 GATTATAGAACCTAAATGCACTAATCT-AAGCACTTTGAAGGCAGGAGAGACCTTATATTAAAGA
194048 AAAAGAAACTAGCTTTCTTGTTAAGGGTCTTGTAATATAAACTTTGTTGAATTTAATACAAGGCA
65 AAAAGAAACTAGCTTTCTTGTTAAGGGTCTTGTAATATAAACTTTGTTGAATTTAATACAAGGCA
* *
194113 ACAAGACAATGAGTTTTGATTTAAGAACCAAAGCTTAACTCGATTTATGTAATCGTGTTTAAAGA
130 ACAAGACAATGAGTTTTGATTTAAGAACCAAAGCTTAACTCGATTCATGTAATCATGTTTAAAGA
194178 GCGAGTTTTTGATAACTTACTTTTTGTACCAAGAAATGAGTTTTGATCTAATGGACTATTTTCTT
195 GCGAGTTTTTGATAACTTACTTTTTGTACCAAGAAATGAGTTTTGATCTAATGGACTATTTTCTT
194243 GAGAGTTGACCAAATTTTGACATTGACTTCACCATGTTTAATGTTTACTCAATTTAAAAAAGAAA
260 GAGAGTTGACCAAATTTTGACATTGACTTCACCATGTTTAATGTTTACTCAATTTAAAAAAG--A
* * **** *
194308 AACCAGAAGACGAATACTCGTTGCAGCGGGCATTGATTGGATATA
323 AA-CAGAAGACGAATACTC-TTACAGCAGGCATTGAAACAATACA
* * *** * *
194353 GATTATAGAACCTAAATGCACTAATCTCAGCACTTTTATTTCATGAGAGACCTTATATTCAAGAA
1 GATTATAGAACCTAAATGCACTAATCTAAGCACTTTGAAGGCAGGAGAGACCTTATATTAAAGAA
194418 AAAGAAACTAGCTTTCTTGTTAAGGGTCTTGTAATATAAACTTTGTTGAATTTAATACAAGGCAA
66 AAAGAAACTAGCTTTCTTGTTAAGGGTCTTGTAATATAAACTTTGTTGAATTTAATACAAGGCAA
194483 CAAGACAATGAGTTTTGATTTAAGAATCCAAAGCTTAACTCGATTCATGTAATCATGTTTAAAGA
131 CAAGACAATGAGTTTTGATTTAAGAA-CCAAAGCTTAACTCGATTCATGTAATCATGTTTAAAGA
194548 GCGAGTTTTTGATAACTTACTTTTTGTACCAAGAAATGAGTTTTGATCTAATGGACTATTTTCTT
195 GCGAGTTTTTGATAACTTACTTTTTGTACCAAGAAATGAGTTTTGATCTAATGGACTATTTTCTT
194613 GAGAGTTGACCAAATTTTGACATTGACTTCACCATGTTTAATGTTTACTCAATTTAAAAAAGAAA
260 GAGAGTTGACCAAATTTTGACATTGACTTCACCATGTTTAATGTTTACTCAATTTAAAAAAGAAA
194678 AAACAATTAT
Statistics
Matches: 320, Mismatches: 3, Indels: 5
0.98 0.01 0.02
Matches are distributed among these distances:
368 4 0.01
369 153 0.48
370 163 0.51
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (365 bp):
GATTATAGAACCTAAATGCACTAATCTAAGCACTTTGAAGGCAGGAGAGACCTTATATTAAAGAA
AAAGAAACTAGCTTTCTTGTTAAGGGTCTTGTAATATAAACTTTGTTGAATTTAATACAAGGCAA
CAAGACAATGAGTTTTGATTTAAGAACCAAAGCTTAACTCGATTCATGTAATCATGTTTAAAGAG
CGAGTTTTTGATAACTTACTTTTTGTACCAAGAAATGAGTTTTGATCTAATGGACTATTTTCTTG
AGAGTTGACCAAATTTTGACATTGACTTCACCATGTTTAATGTTTACTCAATTTAAAAAAGAAAC
AGAAGACGAATACTCTTACAGCAGGCATTGAAACAATACA
Found at i:199591 original size:42 final size:42
Alignment explanation
Indices: 199528--199613 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
199518 ATACCTTCGG
* * * *
199528 AAGCAATTTAAAGGAGGATCAATTATAATCTTGGACTTGACT
1 AAGCAATTTAAAGAAGGATCAACTATAATCCTGAACTTGACT
* * *
199570 AAGCAATTTCAAGAAGTATCAACTATAGTCCTGAACTTGACT
1 AAGCAATTTAAAGAAGGATCAACTATAATCCTGAACTTGACT
199612 AA
1 AA
199614 TCATGGCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (42 bp):
AAGCAATTTAAAGAAGGATCAACTATAATCCTGAACTTGACT
Found at i:200304 original size:2 final size:2
Alignment explanation
Indices: 200297--200321 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
200287 AAACACTAAA
200297 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 A
200322 AATAAAAGAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:200713 original size:3 final size:3
Alignment explanation
Indices: 200705--200751 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
200695 ACACAAATAC
*
200705 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
200752 AAACTATAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:201170 original size:20 final size:20
Alignment explanation
Indices: 201147--201185 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
201137 TCTTATTCAT
201147 TATAAATATAAATTATATAA
1 TATAAATATAAATTATATAA
* * *
201167 TATAATTTTACATTATATA
1 TATAAATATAAATTATATA
201186 TTTATATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAAATATAAATTATATAA
Found at i:201484 original size:14 final size:14
Alignment explanation
Indices: 201465--201511 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
201455 TAATTATATA
201465 TATATTTAAATAAT
1 TATATTTAAATAAT
* *
201479 TATATTTTTAATATT
1 TATA-TTTAAATAAT
201494 TATATTTAAA-AA-
1 TATATTTAAATAAT
201506 TATATT
1 TATATT
201512 AAACATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 1 0.04
14 9 0.32
15 12 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATTTAAATAAT
Found at i:205986 original size:26 final size:28
Alignment explanation
Indices: 205952--206023 Score: 67
Period size: 32 Copynumber: 2.5 Consensus size: 28
205942 GTAATAAAAT
*
205952 AATTTTTTAATTTTTTTTAA-AAA-TTA
1 AATTATTTAATTTTTTTTAATAAATTTA
*
205978 AATTATTTATTATTAATTTTTAATTAAATTTA
1 AATTATTTA--ATT-TTTTTTAA-TAAATTTA
*
206010 AATAATTTAATTTT
1 AATTATTTAATTTT
206024 AAATTCAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
26 8 0.22
28 3 0.08
29 8 0.22
30 3 0.08
31 3 0.08
32 11 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
AATTATTTAATTTTTTTTAATAAATTTA
Found at i:206011 original size:32 final size:32
Alignment explanation
Indices: 205958--206018 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
205948 AAATAATTTT
* *
205958 TTAATTTTTTTTAAAAATTAAATTATTTATTA
1 TTAATTTTTATTAAAAATTAAATAATTTATTA
*
205990 TTAATTTTTAATT-AAATTTAAATAATTTA
1 TTAATTTTT-ATTAAAAATTAAATAATTTA
206019 ATTTTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.92
33 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
TTAATTTTTATTAAAAATTAAATAATTTATTA
Found at i:210746 original size:18 final size:18
Alignment explanation
Indices: 210719--210756 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
210709 AGACATAATG
210719 AATAAAAT-AATATATAAA
1 AATAAAATAAATAT-TAAA
*
210737 AATAATATAAATATTAAA
1 AATAAAATAAATATTAAA
210755 AA
1 AA
210757 ATTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAAAATAAATATTAAA
Found at i:210785 original size:32 final size:31
Alignment explanation
Indices: 210740--210816 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 31
210730 ATATAAAAAT
*
210740 AATATAAAT-ATTAAAAAATTAAAATTTATA
1 AATATAAATAATTAAAAAATTAAAATTGATA
* *
210770 GAATATAAATAATTAATATATTAAAATTGATA
1 -AATATAAATAATTAAAAAATTAAAATTGATA
210802 AATTATATAATAATT
1 AA-TATA-AATAATT
210817 TAAATAGAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
31 11 0.28
32 22 0.55
33 7 0.17
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (31 bp):
AATATAAATAATTAAAAAATTAAAATTGATA
Found at i:210804 original size:25 final size:25
Alignment explanation
Indices: 210774--210821 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
210764 TTTATAGAAT
210774 ATAAATAAT-TAATATATTAAAATTG
1 ATAAATAATATAATA-ATTAAAATTG
* *
210799 ATAAATTATATAATAATTTAAAT
1 ATAAATAATATAATAATTAAAAT
210822 AGAATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATAAATAATATAATAATTAAAATTG
Found at i:212421 original size:42 final size:42
Alignment explanation
Indices: 212369--212475 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
212359 GAAGCAAAAT
* *
212369 GGTTTTCTTTCATCTTCTCATGGAGGTATT-TCTATGCAAAGA
1 GGTTTACTTTCATCTTCTCATGGAGGT-TTGTCAATGCAAAGA
* * *
212411 GGTTTACTTTCATCTCCTCATGGTGGTTTGTCAATGCAAAGC
1 GGTTTACTTTCATCTTCTCATGGAGGTTTGTCAATGCAAAGA
* *
212453 GGTTTACTTCCATCGTCTCATGG
1 GGTTTACTTTCATCTTCTCATGG
212476 TGGAATACCG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 2 0.04
42 54 0.96
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (42 bp):
GGTTTACTTTCATCTTCTCATGGAGGTTTGTCAATGCAAAGA
Found at i:216097 original size:18 final size:20
Alignment explanation
Indices: 216070--216111 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
216060 CGTACAATGA
216070 TAAATATAATTA-TATT-AT
1 TAAATATAATTATTATTCAT
*
216088 TAAATTTAATTATTATTCAT
1 TAAATATAATTATTATTCAT
216108 TAAA
1 TAAA
216112 ATATGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 4 0.19
20 6 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAATATAATTATTATTCAT
Found at i:220508 original size:2 final size:2
Alignment explanation
Indices: 220503--220564 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
220493 ATATATATGT
220503 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
220545 AG TG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG
220565 GACATAATCT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.48, C:0.00, G:0.50, T:0.02
Consensus pattern (2 bp):
AG
Found at i:222713 original size:3 final size:3
Alignment explanation
Indices: 222700--222732 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
222690 AAAAATCGTC
*
222700 GAA GCA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
222733 AATGGATTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:229613 original size:12 final size:12
Alignment explanation
Indices: 229596--229653 Score: 70
Period size: 12 Copynumber: 5.1 Consensus size: 12
229586 CATGATCATA
229596 AAAATATAATAT
1 AAAATATAATAT
229608 AAAATATAATAT
1 AAAATATAATAT
229620 AAAATAT-A-A-
1 AAAATATAATAT
229629 AAAATATGAATAT
1 AAAATAT-AATAT
*
229642 AATATA-AATAT
1 AAAATATAATAT
229653 A
1 A
229654 TTAAAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
9 7 0.17
10 1 0.02
11 8 0.20
12 20 0.49
13 5 0.12
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AAAATATAATAT
Found at i:229627 original size:19 final size:19
Alignment explanation
Indices: 229596--229674 Score: 70
Period size: 19 Copynumber: 4.1 Consensus size: 19
229586 CATGATCATA
229596 AAAATATAATATAAAATAT
1 AAAATATAATATAAAATAT
* * *
229615 AATATAAAATATAAAAAAT
1 AAAATATAATATAAAATAT
*
229634 ATGAATATAATATAAATATATT
1 A-AAATATAATATAAA-ATA-T
* *
229656 AAAAT-TTATATAATATAT
1 AAAATATAATATAAAATAT
229674 A
1 A
229675 TTATTTTAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.04
19 20 0.43
20 18 0.38
21 5 0.11
22 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAATATAATATAAAATAT
Found at i:229685 original size:25 final size:25
Alignment explanation
Indices: 229611--229672 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
229601 ATAATATAAA
* *
229611 ATATAATATAAA-ATATAAAAAATATGA
1 ATATAATATAAATATAT-TAAAAT-T-T
229638 ATATAATATAAATATATTAAAATTT
1 ATATAATATAAATATATTAAAATTT
229663 ATATAATATA
1 ATATAATATA
229673 TATTATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 10 0.31
26 1 0.03
27 17 0.53
28 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
ATATAATATAAATATATTAAAATTT
Found at i:230202 original size:19 final size:19
Alignment explanation
Indices: 230180--230233 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
230170 TAATTCTTAA
230180 TAATAAAATATATAAATTT
1 TAATAAAATATATAAATTT
*
230199 TAATATATAAT-TA-ATATTT
1 TAATA-A-AATATATAAATTT
*
230218 TAATAATATA-ATAAAT
1 TAATAAAATATATAAAT
230234 AATAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 9
0.70 0.08 0.22
Matches are distributed among these distances:
17 3 0.11
18 4 0.14
19 15 0.54
20 3 0.11
21 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAATAAAATATATAAATTT
Found at i:230983 original size:14 final size:15
Alignment explanation
Indices: 230958--230986 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
230948 GAATTACTAT
230958 TTAATAATAAAAATA
1 TTAATAATAAAAATA
230973 TTAAT-ATAAAAATA
1 TTAATAATAAAAATA
230987 AAATTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAATAATAAAAATA
Found at i:231005 original size:19 final size:19
Alignment explanation
Indices: 230959--231007 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
230949 AATTACTATT
230959 TAATAATAAAAATATTAATA
1 TAATAAT-AAAATATTAATA
* *
230979 TAAAAATAAAATTTTAATA
1 TAATAATAAAATATTAATA
230998 -ATATAATAAA
1 TA-ATAATAAA
231008 TAATAAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 18 0.72
20 6 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAATAATAAAATATTAATA
Found at i:232410 original size:3 final size:3
Alignment explanation
Indices: 232404--232432 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
232394 ATAATAATAA
232404 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
232433 ATAATTAGAG
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:234456 original size:15 final size:14
Alignment explanation
Indices: 234436--234469 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
234426 TTATTTAAAA
234436 TATATTAAAATATTT
1 TATATTAAAAT-TTT
*
234451 TATATTAATATTTT
1 TATATTAAAATTTT
234465 TATAT
1 TATAT
234470 ATTTTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATTAAAATTTT
Found at i:234462 original size:21 final size:22
Alignment explanation
Indices: 234437--234489 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
234427 TATTTAAAAT
234437 ATATTAAAATATTTTAT-ATTA
1 ATATTAAAATATTTTATAATTA
* *
234458 ATATTTTTATATATTTTATAATTA
1 ATA--TTAAAATATTTTATAATTA
*
234482 ATTTTAAA
1 ATATTAAA
234490 TAAAAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
21 3 0.12
22 3 0.12
23 12 0.50
24 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATTAAAATATTTTATAATTA
Found at i:234707 original size:24 final size:22
Alignment explanation
Indices: 234663--234705 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
234653 ATATATTGAA
234663 ATATTTTTATATTAATATTTAT
1 ATATTTTTATATTAATATTTAT
234685 ATATATTTTATAATTAA-ATTT
1 ATAT-TTTTAT-ATTAATATTT
234706 TAAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTATATTAATATTTAT
Found at i:235435 original size:29 final size:29
Alignment explanation
Indices: 235394--235488 Score: 120
Period size: 29 Copynumber: 3.2 Consensus size: 29
235384 TATTACACTG
*
235394 AAATAAATCTTTAACTTTTAATTTTTATTT
1 AAATAAAT-TTTAACTTTTAATTTGTATTT
*
235424 AAATAAATTTTAACATTTAATTTGTATTT
1 AAATAAATTTTAACTTTTAATTTGTATTT
* **
235453 AAATAAATTTTGAAC-TTTACTTTGTACCT
1 AAATAAATTTT-AACTTTTAATTTGTATTT
235482 AAATAAA
1 AAATAAA
235489 CCTATAACAT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
29 48 0.81
30 11 0.19
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (29 bp):
AAATAAATTTTAACTTTTAATTTGTATTT
Done.