Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 226 of 240
Found at i:67931352 original size:22 final size:22
Alignment explanation
Indices: 67931309--67931353 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
67931299 ATTTCATTTT
* * * *
67931309 ATAAATTTTGTTTTAATTTTGG
1 ATAAATTTGGCTTGAATCTTGG
67931331 ATAAATTTGGCTTGAATCTTGG
1 ATAAATTTGGCTTGAATCTTGG
67931353 A
1 A
67931354 GGAAGGCATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.49
Consensus pattern (22 bp):
ATAAATTTGGCTTGAATCTTGG
Found at i:67932068 original size:22 final size:22
Alignment explanation
Indices: 67932042--67932088 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
67932032 ACTATTCCGA
*
67932042 TTAAATATGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
67932064 TTAAATAGGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
67932086 TTA
1 TTA
67932089 TTACAGCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (22 bp):
TTAAATAGGTAAGGCGTTTCTG
Found at i:67932325 original size:54 final size:53
Alignment explanation
Indices: 67932266--67932367 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 53
67932256 TTATAGCACA
67932266 TGATTATGTTGTTATGTTCTGAAATAATTG-AGTGGATTTGAAATAATTTGTTTT
1 TGATTATGTTGTTATGTTCTGAAAT-A-TGCAGTGGATTTGAAATAATTTGTTTT
**
67932320 TGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTT
1 TGATTATGTTGTTATGTTCTGAAATATGCAGTGGATTTGAAATAATTT
67932368 CTGAGTCTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
52 2 0.04
53 18 0.40
54 25 0.56
ACGTcount: A:0.27, C:0.03, G:0.20, T:0.50
Consensus pattern (53 bp):
TGATTATGTTGTTATGTTCTGAAATATGCAGTGGATTTGAAATAATTTGTTTT
Found at i:67932588 original size:14 final size:14
Alignment explanation
Indices: 67932569--67932598 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
67932559 ATAAAAGGTT
67932569 TTTAGTTAATCATC
1 TTTAGTTAATCATC
67932583 TTTAGTTAATCATC
1 TTTAGTTAATCATC
67932597 TT
1 TT
67932599 GCTGTTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:67938539 original size:45 final size:43
Alignment explanation
Indices: 67938456--67938539 Score: 96
Period size: 45 Copynumber: 1.9 Consensus size: 43
67938446 AAATTTATAT
* * * * *
67938456 CTTACATTACTTAAATATATATTTTTAAGTATATTTTACATGA
1 CTTACATTACTTAAAAACATATTTTTAACTAAAATTTACATGA
*
67938499 CTTACATTACTTACTAAAACATATTTTTCACTAAAATTTAC
1 CTTACATTACTTA--AAAACATATTTTTAACTAAAATTTAC
67938540 TTGAATATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
43 13 0.39
45 20 0.61
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.45
Consensus pattern (43 bp):
CTTACATTACTTAAAAACATATTTTTAACTAAAATTTACATGA
Found at i:67939237 original size:9 final size:9
Alignment explanation
Indices: 67939223--67939637 Score: 142
Period size: 9 Copynumber: 49.2 Consensus size: 9
67939213 AATAATATAG
67939223 AACTTACAT
1 AACTTACAT
67939232 AACTTACAT
1 AACTTACAT
* *
67939241 ACCCTACAT
1 AACTTACAT
* *
67939250 AAATTAAAT
1 AACTTACAT
*
67939259 AAGTTACAT
1 AACTTACAT
67939268 AA-TAATACAT
1 AACT--TACAT
67939278 -ACTCTACAT
1 AACT-TACAT
* *
67939287 AAATTAAAT
1 AACTTACAT
*
67939296 AAGTTACAT
1 AACTTACAT
*
67939305 AA--TACAC
1 AACTTACAT
**
67939312 AACTTACGC
1 AACTTACAT
*
67939321 ATCTTACAT
1 AACTTACAT
*
67939330 AA--GACAT
1 AACTTACAT
67939337 AACTTACAT
1 AACTTACAT
* *
67939346 --GTGTAAAT
1 AACT-TACAT
67939354 AA--TACAT
1 AACTTACAT
*
67939361 AAATTACAT
1 AACTTACAT
67939370 AACTTACAT
1 AACTTACAT
*
67939379 AA--GACAT
1 AACTTACAT
*
67939386 AACTTTCAT
1 AACTTACAT
*
67939395 AA--TACAC
1 AACTTACAT
**
67939402 AACTTACGC
1 AACTTACAT
67939411 AACTTACAT
1 AACTTACAT
*
67939420 AA--GACAT
1 AACTTACAT
67939427 AACTTACAT
1 AACTTACAT
* *
67939436 --GTGTAAAT
1 AACT-TACAT
67939444 AA--TACAT
1 AACTTACAT
*
67939451 AAATTACAT
1 AACTTACAT
67939460 AACTTACAT
1 AACTTACAT
*
67939469 AA--GACAT
1 AACTTACAT
*
67939476 AACTTTCAT
1 AACTTACAT
*
67939485 AA--TACAC
1 AACTTACAT
**
67939492 AACTTACGC
1 AACTTACAT
67939501 AACTTACAT
1 AACTTACAT
*
67939510 AA--GACAT
1 AACTTACAT
67939517 AACTTACAT
1 AACTTACAT
* *
67939526 --GTGTAAAT
1 AACT-TACAT
67939534 AA--TACAT
1 AACTTACAT
**
67939541 ATTTTACAT
1 AACTTACAT
67939550 AACTTACAT
1 AACTTACAT
*
67939559 AA--GACAT
1 AACTTACAT
67939566 AACTTACAT
1 AACTTACAT
* * *
67939575 AAGTTTCTT
1 AACTTACAT
*
67939584 AA--TACAC
1 AACTTACAT
* **
67939591 ATCTTACGC
1 AACTTACAT
*
67939600 AACTTACAC
1 AACTTACAT
67939609 AACTTACAT
1 AACTTACAT
67939618 AACTTACAT
1 AACTTACAT
67939627 AACTTACAT
1 AACTTACAT
67939636 AA
1 AA
67939638 TGTATATCTT
Statistics
Matches: 299, Mismatches: 68, Indels: 78
0.67 0.15 0.18
Matches are distributed among these distances:
7 75 0.25
8 13 0.04
9 203 0.68
10 8 0.03
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:67939285 original size:37 final size:37
Alignment explanation
Indices: 67939236--67939308 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
67939226 TTACATAACT
67939236 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
*
67939273 TACATACTCTACATAAATTAAATAAGTTACATAATA
1 TACATACCCTACATAAATTAAATAAGTTACATAATA
67939309 CACAACTTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.32
Consensus pattern (37 bp):
TACATACCCTACATAAATTAAATAAGTTACATAATAA
Found at i:67939310 original size:25 final size:25
Alignment explanation
Indices: 67939282--67939638 Score: 104
Period size: 25 Copynumber: 14.0 Consensus size: 25
67939272 ATACATACTC
* *
67939282 TACATAAATTAAATAAGTTACATAA
1 TACATAAATTACATAACTTACATAA
* * ** *
67939307 TACACAACTTACGCATCTTACATAA
1 TACATAAATTACATAACTTACATAA
* * * *
67939332 GACATAACTTACAT--GTGTAAATAA
1 TACATAAATTACATAACT-TACATAA
67939356 TACATAAATTACATAACTTACATAA
1 TACATAAATTACATAACTTACATAA
* * * *
67939381 GACATAACTTTCATAA--TACACAA
1 TACATAAATTACATAACTTACATAA
** * *
67939404 CTTACGCAACTTACATAA--GACATAA
1 --TACATAAATTACATAACTTACATAA
*
67939429 CTTACATGTGTAAATAATACATAAATTACATAA
1 --TACA----TAAAT--TACATAACTTACATAA
* *
67939462 CTTACAT-AA-GACATAACTTTCATAA
1 --TACATAAATTACATAACTTACATAA
* * **
67939487 TACACAACTTACGCAACTTACATAA
1 TACATAAATTACATAACTTACATAA
* * * *
67939512 GACATAACTTACAT--GTGTAAATAA
1 TACATAAATTACATAACT-TACATAA
**
67939536 TACATATTTTACATAACTTACATAA
1 TACATAAATTACATAACTTACATAA
* * * * *
67939561 GACATAACTTACATAAGTTTCTTAA
1 TACATAAATTACATAACTTACATAA
* ** ** *
67939586 TACACATCTTACGCAACTTACACAA
1 TACATAAATTACATAACTTACATAA
*
67939611 CTTACATAACTTACATAACTTACATAA
1 --TACATAAATTACATAACTTACATAA
67939638 T
1 T
67939639 GTATATCTTG
Statistics
Matches: 241, Mismatches: 71, Indels: 40
0.68 0.20 0.11
Matches are distributed among these distances:
23 12 0.05
24 36 0.15
25 146 0.61
26 2 0.01
27 20 0.08
28 2 0.01
29 4 0.02
31 7 0.03
33 12 0.05
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (25 bp):
TACATAAATTACATAACTTACATAA
Found at i:67939344 original size:16 final size:16
Alignment explanation
Indices: 67939323--67939577 Score: 118
Period size: 16 Copynumber: 16.6 Consensus size: 16
67939313 ACTTACGCAT
67939323 CTTACATAAGACATAA
1 CTTACATAAGACATAA
** *
67939339 CTTACATGTGTAAATAA
1 CTTACATAAG-ACATAA
*
67939356 --TACATAAATTACATAA
1 CTTACAT-AA-GACATAA
67939372 CTTACATAAGACATAA
1 CTTACATAAGACATAA
* * *
67939388 CTTTCATAATACACAA
1 CTTACATAAGACATAA
67939404 CTTAC----G-C--AA
1 CTTACATAAGACATAA
67939413 CTTACATAAGACATAA
1 CTTACATAAGACATAA
** *
67939429 CTTACATGTGTAAATAA
1 CTTACATAAG-ACATAA
*
67939446 --TACATAAATTACATAA
1 CTTACAT-AA-GACATAA
67939462 CTTACATAAGACATAA
1 CTTACATAAGACATAA
* * *
67939478 CTTTCATAATACACAA
1 CTTACATAAGACATAA
67939494 CTTAC----G-C--AA
1 CTTACATAAGACATAA
67939503 CTTACATAAGACATAA
1 CTTACATAAGACATAA
** *
67939519 CTTACATGTGTAAATAA
1 CTTACATAAG-ACATAA
**
67939536 --TACATATTTTACATAA
1 CTTACATA--AGACATAA
67939552 CTTACATAAGACATAA
1 CTTACATAAGACATAA
67939568 CTTACATAAG
1 CTTACATAAG
67939578 TTTCTTAATA
Statistics
Matches: 176, Mismatches: 34, Indels: 58
0.66 0.13 0.22
Matches are distributed among these distances:
9 14 0.08
11 2 0.01
13 2 0.01
14 2 0.01
15 15 0.09
16 105 0.60
17 20 0.11
18 16 0.09
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (16 bp):
CTTACATAAGACATAA
Found at i:67939357 original size:49 final size:49
Alignment explanation
Indices: 67939303--67939574 Score: 288
Period size: 49 Copynumber: 5.9 Consensus size: 49
67939293 AATAAGTTAC
* *
67939303 ATAATACACAACTTACGCATCTTACATAAGACATAACTTACATGTGTAA
1 ATAATACACAACTTACACAACTTACATAAGACATAACTTACATGTGTAA
* * * *
67939352 ATAATACATAAATTACATAACTTACATAAGACAT-A---AC-T-T-T-C
1 ATAATACACAACTTACACAACTTACATAAGACATAACTTACATGTGTAA
*
67939393 ATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAA
1 ATAATACACAACTTACACAACTTACATAAGACATAACTTACATGTGTAA
* * * *
67939442 ATAATACATAAATTACATAACTTACATAAGACAT-A---AC-T-T-T-C
1 ATAATACACAACTTACACAACTTACATAAGACATAACTTACATGTGTAA
*
67939483 ATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAA
1 ATAATACACAACTTACACAACTTACATAAGACATAACTTACATGTGTAA
* ** *
67939532 ATAATACATATTTTACATAACTTACATAAGACATAACTTACAT
1 ATAATACACAACTTACACAACTTACATAAGACATAACTTACAT
67939575 AAGTTTCTTA
Statistics
Matches: 181, Mismatches: 26, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
41 60 0.33
42 4 0.02
43 2 0.01
44 2 0.01
45 8 0.04
46 2 0.01
47 2 0.01
48 4 0.02
49 97 0.54
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (49 bp):
ATAATACACAACTTACACAACTTACATAAGACATAACTTACATGTGTAA
Found at i:67939406 original size:90 final size:90
Alignment explanation
Indices: 67939302--67939576 Score: 514
Period size: 90 Copynumber: 3.1 Consensus size: 90
67939292 AAATAAGTTA
*
67939302 CATAATACACAACTTACGCATCTTACATAAGACATAACTTACATGTGTAAATAATACATAAATTA
1 CATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAAATAATACATAAATTA
67939367 CATAACTTACATAAGACATAACTTT
66 CATAACTTACATAAGACATAACTTT
67939392 CATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAAATAATACATAAATTA
1 CATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAAATAATACATAAATTA
67939457 CATAACTTACATAAGACATAACTTT
66 CATAACTTACATAAGACATAACTTT
**
67939482 CATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAAATAATACATATTTTA
1 CATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAAATAATACATAAATTA
*
67939547 CATAACTTACATAAGACATAACTTA
66 CATAACTTACATAAGACATAACTTT
67939572 CATAA
1 CATAA
67939577 GTTTCTTAAT
Statistics
Matches: 181, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 181 1.00
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.29
Consensus pattern (90 bp):
CATAATACACAACTTACGCAACTTACATAAGACATAACTTACATGTGTAAATAATACATAAATTA
CATAACTTACATAAGACATAACTTT
Found at i:67942522 original size:21 final size:21
Alignment explanation
Indices: 67942496--67942564 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
67942486 CAACAACTTA
**
67942496 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCCACAGCGAGAG
* *
67942517 AAGCAGAGGCTACAGTGAGAG
1 AAGCAGAGGCCACAGCGAGAG
* *
67942538 AAGCAGGGGCCACAGCGAGAA
1 AAGCAGAGGCCACAGCGAGAG
67942559 AAGCAG
1 AAGCAG
67942565 CGATAGAAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.38, C:0.19, G:0.41, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCACAGCGAGAG
Found at i:67942574 original size:12 final size:12
Alignment explanation
Indices: 67942559--67942588 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
67942549 ACAGCGAGAA
67942559 AAGCAGCGATAG
1 AAGCAGCGATAG
*
67942571 AAGCAGTGATAG
1 AAGCAGCGATAG
67942583 AAGCAG
1 AAGCAG
67942589 AGGTTCAAAA
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:0.43, C:0.13, G:0.33, T:0.10
Consensus pattern (12 bp):
AAGCAGCGATAG
Found at i:67943064 original size:42 final size:43
Alignment explanation
Indices: 67943009--67943294 Score: 257
Period size: 42 Copynumber: 6.7 Consensus size: 43
67942999 GTTTGTGAAA
67943009 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGTATTTTTTAAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGTATTTTTTAAC
* * **
67943052 -AAGCGCCGCTAAAGAACATGATCTTTAGTGGTGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGTATTTTTTAAC
* * **
67943094 TTAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTATTT--C
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGTATTT-TTTAAC
* * ** *
67943136 TAAGCGTCGCTAAAGAACATGATCTTTAGTGGCGTTTTTT-TC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGTATTTTTTAAC
* * * **
67943178 TAAACGCCGCTAAAGAACATGATCATTAGTGGCGTTTATTT--C
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGTATTT-TTTAAC
* * *
67943220 TAAGCGCCGCTAAAGAACATGATCTTTAGTGGCATTTATTT-CC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGTATTT-TTTAAC
* *
67943263 TTAGGGCCGCTAAAGAACATGATCTTTAGCGG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGG
67943295 CGTTTTTTTC
Statistics
Matches: 219, Mismatches: 17, Indels: 14
0.88 0.07 0.06
Matches are distributed among these distances:
41 4 0.02
42 144 0.66
43 68 0.31
44 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGTATTTTTTAAC
Found at i:67943110 original size:85 final size:85
Alignment explanation
Indices: 67943052--67943321 Score: 416
Period size: 84 Copynumber: 3.2 Consensus size: 85
67943042 ATTTTTTAAC
*
67943052 AAGCGCCGCTAAAGAACATGATCTTTAGTGGTGTTTTTTTCCTTAGCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCCTTAGCGCCGCTAAAGAACATGAT
67943117 CTTTAGTGGCGTTTATTTCT
66 CTTTAGTGGCGTTTATTTCT
* * *
67943137 AAGCGTCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTT-CTAAACGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCCTTAGCGCCGCTAAAGAACATGAT
*
67943201 CATTAGTGGCGTTTATTTCT
66 CTTTAGTGGCGTTTATTTCT
* * *
67943221 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCATTTATTTCCTTAGGGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCCTTAGCGCCGCTAAAGAACATGAT
* *
67943286 CTTTAGCGGCGTTTTTTTCTGT
66 CTTTAGTGGCGTTTATTTC--T
*
67943308 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
67943322 TTTGCGACGT
Statistics
Matches: 167, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
84 78 0.47
85 75 0.45
87 14 0.08
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCCTTAGCGCCGCTAAAGAACATGAT
CTTTAGTGGCGTTTATTTCT
Found at i:67943215 original size:84 final size:84
Alignment explanation
Indices: 67943052--67943321 Score: 405
Period size: 85 Copynumber: 3.2 Consensus size: 84
67943042 ATTTTTTAAC
*
67943052 AAGCGCCGCTAAAGAACATGATCTTTAGTGGTGTTTTTTTCCTTAGCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTT-CTTAGCGCCGCTAAAGAACATGAT
67943117 CTTTAGTGGCGTTTATTTCT
65 CTTTAGTGGCGTTTATTTCT
* * *
67943137 AAGCGTCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCTAAACGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCTTAGCGCCGCTAAAGAACATGATC
*
67943202 ATTAGTGGCGTTTATTTCT
66 TTTAGTGGCGTTTATTTCT
* * *
67943221 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCATTTATTTCCTTAGGGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTT-TTTTCTTAGCGCCGCTAAAGAACATGAT
* *
67943286 CTTTAGCGGCGTTTTTTTCTGT
65 CTTTAGTGGCGTTTATTTC--T
*
67943308 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
67943322 TTTGCGACGT
Statistics
Matches: 167, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
84 75 0.45
85 78 0.47
87 14 0.08
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTTCTTAGCGCCGCTAAAGAACATGATC
TTTAGTGGCGTTTATTTCT
Found at i:67944943 original size:19 final size:19
Alignment explanation
Indices: 67944919--67945012 Score: 134
Period size: 19 Copynumber: 4.8 Consensus size: 19
67944909 AATTTTTGAG
*
67944919 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
*
67944938 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
67944957 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
67944976 GATATATATAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
67944997 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
67945013 ATATATGATT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
19 49 0.74
21 17 0.26
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:67945004 original size:40 final size:38
Alignment explanation
Indices: 67944919--67945012 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 38
67944909 AATTTTTGAG
* *
67944919 GATATGCAATTTTAGATATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATACAATCCTAGATAT
* *
67944957 GATATGCAATCTTAGATATGATATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATACAATCCTAGATAT
67944997 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
67945013 ATATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 19 0.38
40 31 0.62
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATACAATCCTAGATAT
Found at i:67946634 original size:98 final size:98
Alignment explanation
Indices: 67946501--67946693 Score: 359
Period size: 98 Copynumber: 2.0 Consensus size: 98
67946491 AAATCATGAC
*
67946501 GGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAA
1 GGAAATATTCCGAGTTCGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAA
67946566 ATCTTGGATGAGTGGATGTTCTTTTAAAGTAAA
66 ATCTTGGATGAGTGGATGTTCTTTTAAAGTAAA
* *
67946599 GGAAATATTCCGAGTTCGGGATTCTAAAGGGATTGTGCCCTAACGTATTGGGTGTGATTTCTTAA
1 GGAAATATTCCGAGTTCGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAA
67946664 ATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 ATCTTGGATGAGTGGATGTTCTTTTAAAGT
67946694 TTTATTGTAT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (98 bp):
GGAAATATTCCGAGTTCGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAA
ATCTTGGATGAGTGGATGTTCTTTTAAAGTAAA
Found at i:67949862 original size:73 final size:73
Alignment explanation
Indices: 67949776--67949961 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
67949766 ACAACTTGAC
*
67949776 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACTTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
67949841 CACTAACA
66 CACTAACA
67949849 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
67949914 CACTAACA
66 CACTAACA
*
67949922 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
67949962 AATAATAATA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 111 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:67949970 original size:3 final size:3
Alignment explanation
Indices: 67949962--67949993 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
67949952 ATTACATCCA
67949962 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
67949994 AACATGTGAT
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:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:67958414 original size:22 final size:24
Alignment explanation
Indices: 67958371--67958414 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
67958361 TAACTAAGCT
67958371 TACTTACTTTTCTAGCTTAATTCA
1 TACTTACTTTTCTAGCTTAATTCA
67958395 TACTT-CTTTTCTA-CTTAATT
1 TACTTACTTTTCTAGCTTAATT
67958415 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.23, C:0.20, G:0.02, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAGCTTAATTCA
Found at i:67959283 original size:3 final size:3
Alignment explanation
Indices: 67959270--67959302 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
67959260 AACTTATTTC
67959270 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
67959303 TTATTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:67960158 original size:20 final size:21
Alignment explanation
Indices: 67960115--67960170 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
67960105 CATATATCTT
67960115 TAAATAATAATCAAATACACTAA
1 TAAATAA-AAT-AAATACACTAA
*
67960138 TAAATAAAATAAATATA-TAA
1 TAAATAAAATAAATACACTAA
* *
67960158 TTAATGAAATAAA
1 TAAATAAAATAAA
67960171 AATAATTAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.47
21 6 0.20
22 3 0.10
23 7 0.23
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAATAAAATAAATACACTAA
Found at i:67962329 original size:16 final size:16
Alignment explanation
Indices: 67962310--67962357 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
67962300 TACTAATTCT
67962310 ACTTTTTCA-TAATTTC
1 ACTTTTTCACT-ATTTC
*
67962326 ACTTTTTCACTTTTTC
1 ACTTTTTCACTATTTC
67962342 ACTTTTAATCACTATT
1 ACTTTT--TCACTATT
67962358 CAATTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 19 0.70
17 1 0.04
18 7 0.26
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.56
Consensus pattern (16 bp):
ACTTTTTCACTATTTC
Found at i:67962347 original size:7 final size:8
Alignment explanation
Indices: 67962322--67962347 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
67962312 TTTTTCATAA
67962322 TTTCACTT
1 TTTCACTT
67962330 TTTCACTT
1 TTTCACTT
67962338 TTTCACTT
1 TTTCACTT
67962346 TT
1 TT
67962348 AATCACTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTCACTT
Found at i:67962400 original size:38 final size:37
Alignment explanation
Indices: 67962331--67962403 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
67962321 ATTTCACTTT
* *
67962331 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
67962368 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
67962404 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:67962434 original size:23 final size:22
Alignment explanation
Indices: 67962391--67962434 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
67962381 TTTCAAGTCA
67962391 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
67962414 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
67962435 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:67962559 original size:23 final size:23
Alignment explanation
Indices: 67962533--67962631 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
67962523 ATAAGTGCCA
*
67962533 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGCAGCCGAAGCTAC
67962556 CACTGATATGCAGCCGAAGCTAC
1 CACTGATATGCAGCCGAAGCTAC
67962579 CACTGATATGCAGCCGAAGCTAC
1 CACTGATATGCAGCCGAAGCTAC
**
67962602 CACTGATATATAGCCGAAGCTAC
1 CACTGATATGCAGCCGAAGCTAC
67962625 CACTGAT
1 CACTGAT
67962632 CAATAACACT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGATATGCAGCCGAAGCTAC
Found at i:67963527 original size:23 final size:24
Alignment explanation
Indices: 67963476--67963528 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
67963466 TTATATGTTG
67963476 AATATGTTAAAAATTATTTAATTAT
1 AATAT-TTAAAAATTATTTAATTAT
67963501 --TATTTAAAAATT-TTCT-ATTAT
1 AATATTTAAAAATTATT-TAATTAT
67963522 AATATTT
1 AATATTT
67963529 GTTTGAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 7 0.28
22 10 0.40
23 8 0.32
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
AATATTTAAAAATTATTTAATTAT
Found at i:67964448 original size:52 final size:53
Alignment explanation
Indices: 67964384--67964489 Score: 135
Period size: 52 Copynumber: 2.0 Consensus size: 53
67964374 GGAATGCATA
* * *
67964384 AAAGTCTATTCAAATCAATTTA-TCTGACCGAAACTGATGTAATCCCTTT-TAT
1 AAAGTCTATTCAAATAAACTTATTCAG-CCGAAACTGATGTAATCCCTTTATAT
* **
67964436 AAAGTCTGTTCAAATAAACTTATTCAGTTGAAACTGATGTAATCCCTTTATAT
1 AAAGTCTATTCAAATAAACTTATTCAGCCGAAACTGATGTAATCCCTTTATAT
67964489 A
1 A
67964490 CATATCTAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 39 0.85
53 7 0.15
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (53 bp):
AAAGTCTATTCAAATAAACTTATTCAGCCGAAACTGATGTAATCCCTTTATAT
Found at i:67965825 original size:14 final size:15
Alignment explanation
Indices: 67965806--67965836 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
67965796 CAAGAAATGG
67965806 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
67965820 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
67965835 GA
1 GA
67965837 TGAACCCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:67968414 original size:22 final size:21
Alignment explanation
Indices: 67968375--67968416 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
67968365 ACATTACATA
*
67968375 AAATAATATACATTTTTAAAT
1 AAATAATATACATCTTTAAAT
*
67968396 AAATAATCATATATCTTTAAA
1 AAATAAT-ATACATCTTTAAA
67968417 CAATAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATAATATACATCTTTAAAT
Found at i:67968456 original size:20 final size:18
Alignment explanation
Indices: 67968433--67968476 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
67968423 TTAAATACAC
67968433 TAATTAATAAAATAAATATA
1 TAATTAATAAAATAAA-A-A
*
67968453 TAATTAATGAAATAAAAA
1 TAATTAATAAAATAAAAA
67968471 TAATTA
1 TAATTA
67968477 GATGTATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 1 0.04
20 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
TAATTAATAAAATAAAAA
Found at i:67969821 original size:3 final size:3
Alignment explanation
Indices: 67969813--67969885 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
67969803 TAATTTGATG
67969813 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
67969861 TTA TTA TTA TTA TTA TTG TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
67969886 CTATGTTTAC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:67974372 original size:14 final size:15
Alignment explanation
Indices: 67974353--67974383 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
67974343 CAAGAAATGG
67974353 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
67974367 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
67974382 GA
1 GA
67974384 TGAACCCGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:67979065 original size:29 final size:30
Alignment explanation
Indices: 67979033--67979092 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
67979023 GTAAATTATA
67979033 TTATTTTAAATGAA-ATTTTTTCAATTTGT
1 TTATTTTAAATGAATATTTTTTCAATTTGT
*
67979062 TTATTTTAAATGAATTTTTTTTCAATTTGT
1 TTATTTTAAATGAATATTTTTTCAATTTGT
67979092 T
1 T
67979093 GTTCCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (30 bp):
TTATTTTAAATGAATATTTTTTCAATTTGT
Found at i:67988183 original size:3 final size:3
Alignment explanation
Indices: 67988175--67988212 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
67988165 AGCACTCTAA
*
67988175 AAT AAT AAT AAT AAAT AGT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT A
67988213 TTATTATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:67988217 original size:3 final size:3
Alignment explanation
Indices: 67988211--67988245 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
67988201 ATAATAATAA
67988211 TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
67988246 TATGTTTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:67988237 original size:13 final size:13
Alignment explanation
Indices: 67988211--67988248 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
67988201 ATAATAATAA
67988211 TATTATTA-TTAT
1 TATTATTATTTAT
67988223 TATTATTATTTAT
1 TATTATTATTTAT
67988236 TATTATTATTTAT
1 TATTATTATTTAT
67988249 GTTTGACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTATTATTTAT
Found at i:67994300 original size:13 final size:13
Alignment explanation
Indices: 67994282--67994306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67994272 TTAAACCAAA
67994282 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
67994295 AAAAAAAGAAAA
1 AAAAAAAGAAAA
67994307 TGAGTTCATG
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:67997170 original size:20 final size:21
Alignment explanation
Indices: 67997134--67997172 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
67997124 TCAGTAAAAT
*
67997134 AAATAATTGTTAAAATATATC
1 AAATAATTGTAAAAATATATC
67997155 AAATAATT-TAAAAATATA
1 AAATAATTGTAAAAATATA
67997173 AATTAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (21 bp):
AAATAATTGTAAAAATATATC
Found at i:67999104 original size:163 final size:162
Alignment explanation
Indices: 67998840--67999327 Score: 560
Period size: 163 Copynumber: 3.0 Consensus size: 162
67998830 CGAGTTTCAA
* * * * *
67998840 CCGAACTTACATGGG-GAAAAAACCGAAATTTTTGGGTTTCAACCTCCCCCTATTAAGTCTTTTT
1 CCGAACTTATATGGGAGAAAAAACTGAACTTTTTGGGTTTCAACCTCACCCTA-TAGGTC--TTT
* * * * * *
67998904 TTTTTTTCTCACAATTGAGGTCGGAGGCTAGGCATGTTGATTTCTTATCTGAAATTTTC-GGGAC
63 CTTTTATCTGACAATCGAGTTCGGAGGCTAGGCATGTTGATTTCTTAGCTGAAATTTTCAGGG-C
*
67998968 AAGTTGTGGGGCAGTTCTAGATAAAATCCACCTTGCC
127 AAGTTG-GGGGCGGTTCTAGATAAAATCCACCTTGCC
* * *
67999005 CCGAACTTATATGGGAGAAACAATTGAACTTTTTGGGTTTCAACCTCACCCTATAGGGCTTTCTT
1 CCGAACTTATATGGGAGAAAAAACTGAACTTTTTGGGTTTCAACCTCACCCTATAGGTCTTTCTT
* * * * *
67999070 TTATCTGACAATCGAGTTCGGAGGCTAGGCATGTTGGTTTCATAGCTGAAATTTTCATGGCAGGA
66 TTATCTGACAATCGAGTTCGGAGGCTAGGCATGTTGATTTCTTAGCTGAAATTTTCAGGGCAAGT
* *
67999135 TGGGAGTGGTTCTAGATAAAATCCACCTTGCC
131 TGGGGGCGGTTCTAGATAAAATCCACCTTGCC
* ** *
67999167 CCGAACATATATGAGGA-AAAATAACCT-AACTTTTCAGGTTTCAACCTCACCTTATAGGTCTTT
1 CCGAACTTATATG-GGAGAAAA-AA-CTGAACTTTTTGGGTTTCAACCTCACCCTATAGGTCTTT
* * *
67999230 CTTTTATCTGACAATCGAGTTCAGAGGCTAGGCATGTT-AGTTACTTGGCTG-AATTTTCAGGGC
63 CTTTTATCTGACAATCGAGTTCGGAGGCTAGGCATGTTGA-TTTCTTAGCTGAAATTTTCAGGGC
*
67999293 ATA-TTGGGGGCGGTTTTAGATAAAATCC-CCTTGCC
127 A-AGTTGGGGGCGGTTCTAGATAAAATCCACCTTGCC
67999328 TCGACTCAAT
Statistics
Matches: 276, Mismatches: 40, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
161 7 0.03
162 75 0.27
163 141 0.51
164 3 0.01
165 18 0.07
166 32 0.12
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (162 bp):
CCGAACTTATATGGGAGAAAAAACTGAACTTTTTGGGTTTCAACCTCACCCTATAGGTCTTTCTT
TTATCTGACAATCGAGTTCGGAGGCTAGGCATGTTGATTTCTTAGCTGAAATTTTCAGGGCAAGT
TGGGGGCGGTTCTAGATAAAATCCACCTTGCC
Found at i:68000141 original size:21 final size:21
Alignment explanation
Indices: 68000100--68000141 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
68000090 TCGAGGTTCA
* * *
68000100 AATTTTATTTTATATTTTAAT
1 AATTTTATTATAGATTCTAAT
68000121 AATTTTATTATAGATTCTAAT
1 AATTTTATTATAGATTCTAAT
68000142 CATATCCGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
AATTTTATTATAGATTCTAAT
Found at i:68005446 original size:15 final size:15
Alignment explanation
Indices: 68005426--68005458 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
68005416 TCAACTTAAA
68005426 AAAAAAGCTAAAA-AG
1 AAAAAA-CTAAAATAG
68005441 AAAAAACTAAAATAG
1 AAAAAACTAAAATAG
68005456 AAA
1 AAA
68005459 TCAATTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (15 bp):
AAAAAACTAAAATAG
Found at i:68006835 original size:29 final size:28
Alignment explanation
Indices: 68006803--68006862 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
68006793 TTGAAATTTA
68006803 AAAAATAAAAGGAATAAATTCTTAAAAAT
1 AAAAATAAAAGGAATAAATTC-TAAAAAT
* * * *
68006832 AAAAGTAAATGGACTAAATTCTAAAATT
1 AAAAATAAAAGGAATAAATTCTAAAAAT
68006860 AAA
1 AAA
68006863 TATTTTCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.25
Consensus pattern (28 bp):
AAAAATAAAAGGAATAAATTCTAAAAAT
Found at i:68015027 original size:2 final size:2
Alignment explanation
Indices: 68015020--68015046 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
68015010 TTTACTGCTT
68015020 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 T
68015047 TTAAAGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:68015629 original size:32 final size:30
Alignment explanation
Indices: 68015600--68015690 Score: 87
Period size: 30 Copynumber: 3.0 Consensus size: 30
68015590 ACCAAAAATT
68015600 TATTTTAAAAATTAAAATTAAAATTAAAAAAG
1 TATTTTAAAAA-T-AAATTAAAATTAAAAAAG
**
68015632 TATTTTAAAAATATTTTAAAATTAAAAAA-
1 TATTTTAAAAATAAATTAAAATTAAAAAAG
* **
68015661 -ATTTAAAAAAAGTATTTTAAAATTAAAAAA
1 TATTT-TAAAAA-TAAATTAAAATTAAAAAA
68015691 ATAAAAAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
28 4 0.07
29 5 0.09
30 33 0.61
31 1 0.02
32 11 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (30 bp):
TATTTTAAAAATAAATTAAAATTAAAAAAG
Found at i:68015653 original size:30 final size:30
Alignment explanation
Indices: 68015617--68015692 Score: 111
Period size: 30 Copynumber: 2.5 Consensus size: 30
68015607 AAAATTAAAA
*
68015617 TTAAAATTAAAAAAGTATTT-TAAAAA-TATT
1 TTAAAATTAAAAAA--ATTTAAAAAAAGTATT
68015647 TTAAAATTAAAAAAATTTAAAAAAAGTATT
1 TTAAAATTAAAAAAATTTAAAAAAAGTATT
68015677 TTAAAATTAAAAAAAT
1 TTAAAATTAAAAAAAT
68015693 AAAAAATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
28 4 0.09
29 5 0.12
30 34 0.79
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
TTAAAATTAAAAAAATTTAAAAAAAGTATT
Found at i:68015680 original size:41 final size:42
Alignment explanation
Indices: 68015600--68015682 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 42
68015590 ACCAAAAATT
68015600 TATTTTAAAAATTAAAATTAAAATTAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATTAAAA-TAAAATTAAAAAAGTATTTTAAAAA
*
68015643 TATTTT-AAAATTAAAA-AAATTTAAAAAAAGTATTTTAAAA
1 TATTTTAAAAATTAAAATAAAATT-AAAAAAGTATTTTAAAA
68015683 TTAAAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
40 5 0.13
41 17 0.45
42 10 0.26
43 6 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (42 bp):
TATTTTAAAAATTAAAATAAAATTAAAAAAGTATTTTAAAAA
Found at i:68015697 original size:29 final size:29
Alignment explanation
Indices: 68015638--68015704 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 29
68015628 AAAGTATTTT
68015638 AAAAATATTTTAAAATTAAAAAAATTTAAA
1 AAAAATATTTTAAAATTAAAAAAA-TTAAA
* *
68015668 AAAAGTATTTTAAAATTAAAAAAATAAAA
1 AAAAATATTTTAAAATTAAAAAAATTAAA
68015697 AATAAATA
1 AA-AAATA
68015705 AAAATATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 6 0.18
30 27 0.82
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (29 bp):
AAAAATATTTTAAAATTAAAAAAATTAAA
Found at i:68017959 original size:41 final size:41
Alignment explanation
Indices: 68017914--68017995 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
68017904 TTTTTTATCT
*
68017914 AATTGAACAATTTTATATATTTATTGATTTACTTAAAATTA
1 AATTGAACAATTTTATATATTTATCGATTTACTTAAAATTA
68017955 AATTGAACAATTTTATATATTTATCGATTTACTTAAAATTA
1 AATTGAACAATTTTATATATTTATCGATTTACTTAAAATTA
68017996 GGACTAAACT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (41 bp):
AATTGAACAATTTTATATATTTATCGATTTACTTAAAATTA
Found at i:68019730 original size:3 final size:3
Alignment explanation
Indices: 68019722--68019754 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
68019712 GCTTTGAATC
68019722 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
68019755 TCTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:68022910 original size:49 final size:49
Alignment explanation
Indices: 68022853--68022952 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
68022843 TTCAGAATCA
68022853 AACTTACACTCAAACAATCCACTCTTTTTCTTTTTTTATTCGATCTTCT
1 AACTTACACTCAAACAATCCACTCTTTTTCTTTTTTTATTCGATCTTCT
*
68022902 AACTTACACTCAAAGAATCCACTCTTTTTCTTTTTTTATTCGATCTTCT
1 AACTTACACTCAAACAATCCACTCTTTTTCTTTTTTTATTCGATCTTCT
68022951 AA
1 AA
68022953 AGACATAAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.26, C:0.25, G:0.03, T:0.46
Consensus pattern (49 bp):
AACTTACACTCAAACAATCCACTCTTTTTCTTTTTTTATTCGATCTTCT
Found at i:68025321 original size:23 final size:23
Alignment explanation
Indices: 68025291--68025339 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
68025281 AATCCAACCA
68025291 GTTCCACCTATCAATTTAGTCTT
1 GTTCCACCTATCAATTTAGTCTT
68025314 GTTCCACCTATCAATTTAGTCTT
1 GTTCCACCTATCAATTTAGTCTT
68025337 GTT
1 GTT
68025340 GAAACAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.45
Consensus pattern (23 bp):
GTTCCACCTATCAATTTAGTCTT
Found at i:68026954 original size:14 final size:14
Alignment explanation
Indices: 68026937--68026966 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68026927 ATATCCAAAC
68026937 AATAACAATAAAAT
1 AATAACAATAAAAT
*
68026951 AATAACAATATAAT
1 AATAACAATAAAAT
68026965 AA
1 AA
68026967 CGAAATAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAACAATAAAAT
Found at i:68027765 original size:18 final size:19
Alignment explanation
Indices: 68027737--68027773 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
68027727 TTAGACCACC
*
68027737 AAAATTATTTTTTAATAAT
1 AAAATTATTTTATAATAAT
68027756 AAAA-TATTTTATAATAAT
1 AAAATTATTTTATAATAAT
68027774 CAATATCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAAATTATTTTATAATAAT
Found at i:68033731 original size:17 final size:18
Alignment explanation
Indices: 68033698--68033731 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
68033688 TATTTATTAA
*
68033698 TTAAATATAATAATATTT
1 TTAAATATAAAAATATTT
68033716 TTAAATA-AAAAATATT
1 TTAAATATAAAAATATT
68033732 AATTAAAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAATATAAAAATATTT
Found at i:68033737 original size:18 final size:19
Alignment explanation
Indices: 68033692--68033738 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
68033682 AAAAAGTATT
*
68033692 TATTAATTAAATATAATAA
1 TATTAATTAAATATAAAAA
*
68033711 TATT-TTTAAATA-AAAAA
1 TATTAATTAAATATAAAAA
68033728 TATTAATTAAA
1 TATTAATTAAA
68033739 ACGTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 8 0.33
18 12 0.50
19 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TATTAATTAAATATAAAAA
Found at i:68036945 original size:31 final size:31
Alignment explanation
Indices: 68036908--68036972 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
68036898 GGTAGCTTTC
68036908 TGTTTCTCTTCGTCCATTCATTTAATTGTTA
1 TGTTTCTCTTCGTCCATTCATTTAATTGTTA
68036939 TGTTTCTCTTCGTCCATTCATTTAATTGTTA
1 TGTTTCTCTTCGTCCATTCATTTAATTGTTA
68036970 TGT
1 TGT
68036973 ATTTTTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.15, C:0.18, G:0.11, T:0.55
Consensus pattern (31 bp):
TGTTTCTCTTCGTCCATTCATTTAATTGTTA
Found at i:68044957 original size:16 final size:16
Alignment explanation
Indices: 68044936--68044992 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
68044926 TTTGGTTTGC
*
68044936 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
68044952 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
68044968 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
68044984 TGTAATGGA
1 TGTAATGGA
68044993 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:68045259 original size:18 final size:17
Alignment explanation
Indices: 68045238--68045272 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
68045228 TTATTATTAA
*
68045238 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
68045256 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
68045273 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:68045409 original size:16 final size:16
Alignment explanation
Indices: 68045372--68045413 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
68045362 TTAATCATAT
*
68045372 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
68045388 TT-AAATATATTATAA
1 TTAAAATATATTATAA
68045403 TTAAAATATAT
1 TTAAAATATAT
68045414 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:68045411 original size:154 final size:156
Alignment explanation
Indices: 68045125--68045438 Score: 569
Period size: 154 Copynumber: 2.0 Consensus size: 156
68045115 TAGAATACCC
68045125 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
68045190 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
68045255 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAAAAA
* *
68045282 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
68045345 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
68045410 ATATAATTTAATAAAATTCTTAAAAA
131 ATATAATTTAATAAAATTCTTAAAAA
68045436 TTA
1 TTA
68045439 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
154 92 0.60
155 1 0.01
157 60 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAAAAA
Found at i:68045420 original size:14 final size:15
Alignment explanation
Indices: 68045381--68045422 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
68045371 TTTAAACATA
*
68045381 ATTATTATTAAATAT
1 ATTATAATTAAATAT
68045396 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
68045410 A-TATAATTTAATA
1 ATTATAATTAAATA
68045423 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:68045509 original size:120 final size:121
Alignment explanation
Indices: 68045370--68045666 Score: 462
Period size: 120 Copynumber: 2.5 Consensus size: 121
68045360 ATTTAATCAT
*
68045370 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-A
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
68045434 AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 AA-TAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
68045492 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
68045555 AATAAAATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
68045611 ATTTCAA-ATAATTAATATTAAATATGATT-TAATT-AAATATATGATTTAATAAAATT
1 ATTTCAACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATT
68045667 TAAAATTATT
Statistics
Matches: 165, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
119 24 0.15
120 130 0.79
121 10 0.06
122 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (121 bp):
ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:68045540 original size:14 final size:15
Alignment explanation
Indices: 68045491--68045542 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
68045481 GTAAAATATA
68045491 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
68045506 TATTAAATATATTAT
1 AATTAAATATATTAT
68045521 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
68045534 AATTTAATA
1 AATTAAATA
68045543 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:68045557 original size:44 final size:43
Alignment explanation
Indices: 68045468--68045558 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
68045458 CTCAAATCAT
* * *
68045468 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
68045511 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
68045555 AATA
1 AATA
68045559 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:68045593 original size:59 final size:59
Alignment explanation
Indices: 68045410--68045593 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
68045400 TAATTAAAAT
68045410 ATATAATTTAATAAAATTCTTAA-AAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAA-TAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * *
68045469 ATAT-ATGATACTGTAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-ATAA-TATTCTTATATGA-ATT-TACTCAAATCA
68045529 T-
58 TA
* *
68045530 ATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
68045589 ATATA
1 ATATA
68045594 TGATACTATA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 8 0.09
61 11 0.12
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
Found at i:68045647 original size:15 final size:15
Alignment explanation
Indices: 68045627--68045665 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
68045617 AATAATTAAT
68045627 ATTAAATATGATTTA
1 ATTAAATATGATTTA
68045642 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
68045659 ATAAAAT
1 ATTAAAT
68045666 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:68045652 original size:17 final size:17
Alignment explanation
Indices: 68045632--68045665 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
68045622 TTAATATTAA
*
68045632 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
68045649 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
68045666 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:68045808 original size:93 final size:92
Alignment explanation
Indices: 68045698--68045892 Score: 277
Period size: 93 Copynumber: 2.1 Consensus size: 92
68045688 GATTATAGTT
* * *
68045698 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* * *
68045761 ATAAAATTCTTGATAATAGCAATTTTCTTA
64 ATAAAATTCTTAATAATA-AAATGTTCTTA
* *
68045791 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
68045856 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
68045883 TATGAATTTA
1 TATGAATTTA
68045893 CTAAAATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
92 19 0.21
93 69 0.75
94 4 0.04
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:68047303 original size:11 final size:11
Alignment explanation
Indices: 68047289--68047315 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
68047279 AAAAATCAAT
68047289 ACAAAAGTTTC
1 ACAAAAGTTTC
68047300 ACAAAAGTTTC
1 ACAAAAGTTTC
68047311 ACAAA
1 ACAAA
68047316 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:68052350 original size:15 final size:15
Alignment explanation
Indices: 68052330--68052375 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
68052320 AATAGTAAAA
68052330 GTAATATTAATTAAT
1 GTAATATTAATTAAT
*
68052345 GTAATAGTATATTAAT
1 GTAATATTA-ATTAAT
*
68052361 GTGATATTAATTAAT
1 GTAATATTAATTAAT
68052376 TTGGTCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (15 bp):
GTAATATTAATTAAT
Found at i:68052458 original size:28 final size:28
Alignment explanation
Indices: 68052427--68052482 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
68052417 AATATATTAT
*
68052427 TAATT-AATAAAATTATAAATCT-ATAAAA
1 TAATTGAAT-AAATTAAAAAT-TAATAAAA
68052455 TAATTGAATAAATTAAAAATTAATAAAA
1 TAATTGAATAAATTAAAAATTAATAAAA
68052483 AATCAAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 1 0.04
28 21 0.84
29 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (28 bp):
TAATTGAATAAATTAAAAATTAATAAAA
Found at i:68052518 original size:5 final size:5
Alignment explanation
Indices: 68052508--68052534 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
68052498 TAAATAAATA
68052508 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
68052535 AATATGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:68058282 original size:29 final size:30
Alignment explanation
Indices: 68058224--68058283 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
68058214 TTATTTTAAA
* *
68058224 TTAACCCCATTTTTCCGTTTTTAATTCAAT
1 TTAACCCCATTTTTCAGTTTTTAATACAAT
*
68058254 TTAA-CCCATTTTTTAGTTTTT-ATCACAAT
1 TTAACCCCATTTTTCAGTTTTTAAT-ACAAT
68058283 T
1 T
68058284 ACGCCATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 2 0.08
29 20 0.77
30 4 0.15
ACGTcount: A:0.25, C:0.20, G:0.03, T:0.52
Consensus pattern (30 bp):
TTAACCCCATTTTTCAGTTTTTAATACAAT
Found at i:68061556 original size:17 final size:17
Alignment explanation
Indices: 68061513--68061916 Score: 73
Period size: 18 Copynumber: 23.2 Consensus size: 17
68061503 TTTTTTTGTT
*
68061513 TTTTA-AAAAACG-AAA
1 TTTTAGAAACACGAAAA
68061528 TTTTAG-AACACGAAAA
1 TTTTAGAAACACGAAAA
***
68061544 TTTTAGAAACACGATTTT
1 TTTTAGAAACACGA-AAA
*
68061562 TTTTA-AAACACGACAA
1 TTTTAGAAACACGAAAA
* *
68061578 TTTTTGAAACACGAGAAT
1 TTTTAGAAACACGA-AAA
68061596 TTTTCA-AAACAC--AAA
1 TTTT-AGAAACACGAAAA
* * * *
68061611 TTTAAAAAAAACATGACAA
1 TTT--TAGAAACACGAAAA
** * *
68061630 TTTGT-GAAACATTAGAG
1 TTT-TAGAAACACGAAAA
* *
68061647 TCATT-GAAAACACGGAAA
1 T-TTTAG-AAACACGAAAA
* *
68061665 TTTGT-GAAAAAACGAAAT
1 TTT-TAG-AAACACGAAAA
* *
68061683 TTTTTGAAACACAGAAAT
1 TTTTAGAAACAC-GAAAA
*
68061701 TTTTAGAAAACAAGAAAA
1 TTTTAG-AAACACGAAAA
* *
68061719 TTTT-GAATCACCG-GAA
1 TTTTAGAAACA-CGAAAA
* * *
68061735 TTTTTGAAAACATGAAGA
1 TTTTAG-AAACACGAAAA
* *
68061753 TTTTTGAAACACCGAAAT
1 TTTTAGAAACA-CGAAAA
* **
68061771 TTTTAAAAACACGAGGA
1 TTTTAGAAACACGAAAA
* *
68061788 TTTTTGAAACAC--AAC
1 TTTTAGAAACACGAAAA
* * *
68061803 TTTTATTTTGAAAATAGGAAAC
1 TTTTA----G-AAACACGAAAA
* *
68061825 TTTTTGAAAACACAGAAAT
1 TTTTAG-AAACAC-GAAAA
*
68061844 TTTTA-AAACACGAGAA
1 TTTTAGAAACACGAAAA
* * *
68061860 TTTTTGAAACACTAGAA
1 TTTTAGAAACACGAAAA
* *
68061877 TTTTTGAAAACACGAGAA
1 TTTTAG-AAACACGAAAA
*
68061895 TTTTTGAAAACACGAAAA
1 TTTTAG-AAACACGAAAA
68061913 TTTT
1 TTTT
68061917 TGAATCAATG
Statistics
Matches: 287, Mismatches: 69, Indels: 63
0.68 0.16 0.15
Matches are distributed among these distances:
15 19 0.07
16 31 0.11
17 90 0.31
18 117 0.41
19 19 0.07
20 4 0.01
22 7 0.02
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.30
Consensus pattern (17 bp):
TTTTAGAAACACGAAAA
Found at i:68061606 original size:35 final size:34
Alignment explanation
Indices: 68061534--68061920 Score: 225
Period size: 35 Copynumber: 11.0 Consensus size: 34
68061524 GAAATTTTAG
* ** *
68061534 AACACGAAAATTTTAGAAACACGA-TTTTTTTTAA
1 AACACG-AAATTTTTGAAACACGAGAATTTTTGAA
*
68061568 AACACGACAATTTTTGAAACACGAGAATTTTTCAA
1 AACACGA-AATTTTTGAAACACGAGAATTTTTGAA
*** * * *
68061603 AACAC-AAATTTAAAAAAAACATGACAATTTGTG-A
1 AACACGAAATTT--TTGAAACACGAGAATTTTTGAA
** * ** *
68061637 AACATTAGAGTCATTGAAAACACG-GAAATTTGTGAA
1 AACACGA-AATTTTTG-AAACACGAG-AATTTTTGAA
*
68061673 AAAACGAAATTTTTTGAAACAC-AGAAATTTTTAGAA
1 AACACGAAA-TTTTTGAAACACGAG-AATTTTT-GAA
* * *
68061709 AACAAGAAAATTTTGAATCACCG-GAATTTTTGAA
1 AACACGAAATTTTTGAAACA-CGAGAATTTTTGAA
* *
68061743 AACATGAAGATTTTTGAAACACCGA-AATTTTTAAA
1 AACACGAA-ATTTTTGAAACA-CGAGAATTTTTGAA
* * ***
68061778 AACACGAGGATTTTTGAAACACAACTTTTATTTTGAA
1 AACACGA-AATTTTTGAAACACGA-GAAT-TTTTGAA
* *
68061815 AATAGGAAACTTTTTGAAAACAC-AGAAATTTTT-AA
1 AACACGAAA-TTTTTG-AAACACGAG-AATTTTTGAA
*
68061850 AACACGAGAATTTTTGAAACACTAGAATTTTTGAA
1 AACACGA-AATTTTTGAAACACGAGAATTTTTGAA
*
68061885 AACACGAGAATTTTTGAAAACACGAAAATTTTTGAA
1 AACACGA-AATTTTTG-AAACACGAGAATTTTTGAA
68061921 TCAATGGATT
Statistics
Matches: 275, Mismatches: 51, Indels: 52
0.73 0.13 0.14
Matches are distributed among these distances:
33 6 0.02
34 52 0.19
35 144 0.52
36 48 0.17
37 19 0.07
38 6 0.02
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.30
Consensus pattern (34 bp):
AACACGAAATTTTTGAAACACGAGAATTTTTGAA
Found at i:68061672 original size:18 final size:17
Alignment explanation
Indices: 68061650--68061920 Score: 214
Period size: 18 Copynumber: 15.3 Consensus size: 17
68061640 ATTAGAGTCA
68061650 TTGAAAACACGGAAATTT
1 TTGAAAACAC-GAAATTT
* *
68061668 GTGAAAAAACGAAATTTT
1 TTGAAAACACGAAA-TTT
68061686 TTG-AAACACAGAAATTT
1 TTGAAAACAC-GAAATTT
* *
68061703 TTAGAAAACAAGAAAATT
1 TT-GAAAACACGAAATTT
* *
68061721 TTG-AATCACCGGAATTT
1 TTGAAAACA-CGAAATTT
*
68061738 TTGAAAACATGAAGATTT
1 TTGAAAACACGAA-ATTT
68061756 TTG-AAACACCGAAATTT
1 TTGAAAACA-CGAAATTT
* *
68061773 TTAAAAACACGAGGATTT
1 TTGAAAACACGA-AATTT
*
68061791 TTG-AAACAC-AACTTTTATT
1 TTGAAAACACGAA---AT-TT
* *
68061810 TTGAAAATAGGAAACTTT
1 TTGAAAACACGAAA-TTT
68061828 TTGAAAACACAGAAATTT
1 TTGAAAACAC-GAAATTT
68061846 TT-AAAACACGAGAATTT
1 TTGAAAACACGA-AATTT
*
68061863 TTG-AAACACTAGAATTT
1 TTGAAAACACGA-AATTT
68061880 TTGAAAACACGAGAATTT
1 TTGAAAACACGA-AATTT
68061898 TTGAAAACACGAAAATTT
1 TTGAAAACACG-AAATTT
68061916 TTGAA
1 TTGAA
68061921 TCAATGGATT
Statistics
Matches: 205, Mismatches: 26, Indels: 44
0.75 0.09 0.16
Matches are distributed among these distances:
16 7 0.03
17 75 0.37
18 101 0.49
19 16 0.08
20 4 0.02
21 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.31
Consensus pattern (17 bp):
TTGAAAACACGAAATTT
Found at i:68061963 original size:22 final size:19
Alignment explanation
Indices: 68061928--68061973 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
68061918 GAATCAATGG
68061928 ATTTTTTAAAACACGAGAAAA
1 ATTTTTTAAAACAC--GAAAA
*
68061949 ATTTTTTGAAGACACGAAAA
1 ATTTTTT-AAAACACGAAAA
68061969 ATTTT
1 ATTTT
68061974 GAAAGATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 7 0.30
22 6 0.26
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.35
Consensus pattern (19 bp):
ATTTTTTAAAACACGAAAA
Found at i:68062161 original size:22 final size:22
Alignment explanation
Indices: 68062135--68062184 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
68062125 TTAAAAGTAT
68062135 TTAAAATAAAATAAAATAAAAA
1 TTAAAATAAAATAAAATAAAAA
* * *
68062157 TTAAATTAAATTAAATTAAAAA
1 TTAAAATAAAATAAAATAAAAA
68062179 TTAAAA
1 TTAAAA
68062185 ATATAAATGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
TTAAAATAAAATAAAATAAAAA
Found at i:68062509 original size:18 final size:18
Alignment explanation
Indices: 68062500--68062535 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
68062490 TTTGTTTTGT
68062500 TTTGCTTTTTTTTTGGGC
1 TTTGCTTTTTTTTTGGGC
*
68062518 TTTGCTTTTTTTTAGGGC
1 TTTGCTTTTTTTTTGGGC
68062536 CTGAAGCTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.03, C:0.11, G:0.22, T:0.64
Consensus pattern (18 bp):
TTTGCTTTTTTTTTGGGC
Found at i:68062555 original size:5 final size:5
Alignment explanation
Indices: 68062545--68062598 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
68062535 CCTGAAGCTG
* * *
68062545 CGGGT CGGGT CGTCAGT CGGGT C-GGC CGGTT CGGGT CGGGT CGGGT CGGGT
1 CGGGT CGGGT CG--GGT CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT
68062596 CGG
1 CGG
68062599 TTTGACCCGA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
4 3 0.08
5 33 0.82
7 4 0.10
ACGTcount: A:0.02, C:0.24, G:0.54, T:0.20
Consensus pattern (5 bp):
CGGGT
Found at i:68062648 original size:15 final size:14
Alignment explanation
Indices: 68062626--68062665 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
68062616 AAAAATTTTA
68062626 TTTTTTTCTTCTTT
1 TTTTTTTCTTCTTT
68062640 TTCTTTTTCTTCTTT
1 TT-TTTTTCTTCTTT
*
68062655 TTTCTTTCTTC
1 TTTTTTTCTTC
68062666 CTCCCCGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTTCTTCTTT
Found at i:68063179 original size:30 final size:30
Alignment explanation
Indices: 68063143--68063271 Score: 74
Period size: 30 Copynumber: 4.4 Consensus size: 30
68063133 AAATGCAGTA
* *
68063143 AAAGTTTTGGGGCTGAAATGTAATTTTGAG
1 AAAGTTTTGGGGCTAAAATATAATTTTGAG
* *
68063173 AAAGTTTAAT-TGTC-AAAATATAATTTT-AGG
1 AAAGTTT--TGGGGCTAAAATATAATTTTGA-G
* * * *
68063203 AAAGTTTAGGAGTTAAAATGTAA-TTTGA-
1 AAAGTTTTGGGGCTAAAATATAATTTTGAG
* * *
68063231 AAAG-TTTAGGGTTGAAATATAATTTTGAG
1 AAAGTTTTGGGGCTAAAATATAATTTTGAG
68063260 AAA-TTTTAGGGG
1 AAAGTTTT-GGGG
68063272 TCAAAATGTA
Statistics
Matches: 73, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
27 13 0.18
28 9 0.12
29 10 0.14
30 38 0.52
31 2 0.03
32 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (30 bp):
AAAGTTTTGGGGCTAAAATATAATTTTGAG
Found at i:68063248 original size:27 final size:29
Alignment explanation
Indices: 68063158--68063270 Score: 115
Period size: 30 Copynumber: 3.9 Consensus size: 29
68063148 TTTGGGGCTG
* ** *
68063158 AAATGTAATTTTGAGAAAGTTTAATTGTCA
1 AAATATAATTTTGAGAAAGTTT-AGGGTTA
68063188 AAATATAATTTT-AGGAAAGTTTAGGAGTTA
1 AAATATAATTTTGA-GAAAGTTTAGG-GTTA
* *
68063218 AAATGTAA-TTTGA-AAAGTTTAGGGTTG
1 AAATATAATTTTGAGAAAGTTTAGGGTTA
*
68063245 AAATATAATTTTGAGAAATTTTAGGG
1 AAATATAATTTTGAGAAAGTTTAGGG
68063271 GTCAAAATGT
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
27 10 0.14
28 15 0.21
29 15 0.21
30 30 0.43
ACGTcount: A:0.41, C:0.01, G:0.20, T:0.38
Consensus pattern (29 bp):
AAATATAATTTTGAGAAAGTTTAGGGTTA
Found at i:68063638 original size:16 final size:16
Alignment explanation
Indices: 68063617--68063650 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
68063607 CCAATATCCA
* *
68063617 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
68063633 ATTATCACATTTACAC
1 ATTATCACATTTACAC
68063649 AT
1 AT
68063651 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:68064540 original size:26 final size:25
Alignment explanation
Indices: 68064493--68064541 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
68064483 CTTATTTGTT
* *
68064493 TTATTATAGTTACTTTATTATTATA
1 TTATTATAGTTACTTAAATATTATA
*
68064518 TTATATATATTTACTTAAATATTA
1 TTAT-TATAGTTACTTAAATATTA
68064542 AGTAAAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
TTATTATAGTTACTTAAATATTATA
Found at i:68064601 original size:29 final size:30
Alignment explanation
Indices: 68064551--68064613 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
68064541 AAGTAAAACA
***
68064551 TATTATAATATATATTTTAATTTTA-A-TT
1 TATTATAATATATATAACAATTTTACACTT
68064579 TATTAATAATATATATAACAATTTTACACTT
1 TATT-ATAATATATATAACAATTTTACACTT
68064610 TATT
1 TATT
68064614 CTGGCTCACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 4 0.14
29 18 0.62
30 1 0.03
31 6 0.21
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (30 bp):
TATTATAATATATATAACAATTTTACACTT
Found at i:68065513 original size:24 final size:24
Alignment explanation
Indices: 68065457--68065502 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
68065447 AGTTTTAATA
68065457 TTAA-ATTAAATTTAATAATTATC
1 TTAATATTAAATTTAATAATTATC
*
68065480 TTAATATTAAATTTAATATTTAT
1 TTAATATTAAATTTAATAATTAT
68065503 GTTATAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
TTAATATTAAATTTAATAATTATC
Found at i:68065837 original size:12 final size:12
Alignment explanation
Indices: 68065820--68065866 Score: 69
Period size: 12 Copynumber: 3.8 Consensus size: 12
68065810 ACTAAAAATT
68065820 TATTTTAAAAA-
1 TATTTTAAAAAG
68065831 TATTTTTTAAAAAG
1 TA--TTTTAAAAAG
68065845 TATTTTAAAAAG
1 TATTTTAAAAAG
68065857 TATTTTAAAA
1 TATTTTAAAA
68065867 TTAAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.06
12 20 0.61
13 9 0.27
14 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (12 bp):
TATTTTAAAAAG
Found at i:68074721 original size:16 final size:15
Alignment explanation
Indices: 68074702--68074732 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
68074692 AAAATATTAA
68074702 TTTTTAATTGATTTAT
1 TTTTTAA-TGATTTAT
68074718 TTTTTAATGATTTAT
1 TTTTTAATGATTTAT
68074733 CAAACAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTTAATGATTTAT
Found at i:68075022 original size:15 final size:15
Alignment explanation
Indices: 68074999--68075035 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
68074989 TTGCCTGAGA
*
68074999 TTACATTTTAGTCAC
1 TTACGTTTTAGTCAC
*
68075014 TTACGTTTTAGTTAC
1 TTACGTTTTAGTCAC
68075029 TTACGTT
1 TTACGTT
68075036 ATCGTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (15 bp):
TTACGTTTTAGTCAC
Found at i:68077162 original size:10 final size:10
Alignment explanation
Indices: 68077147--68077171 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
68077137 TTCAGTTTAG
68077147 CTCTCCCTCT
1 CTCTCCCTCT
68077157 CTCTCCCTCT
1 CTCTCCCTCT
68077167 CTCTC
1 CTCTC
68077172 GCCAATTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (10 bp):
CTCTCCCTCT
Found at i:68081595 original size:32 final size:33
Alignment explanation
Indices: 68081551--68081617 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
68081541 TTTTAATATG
* *
68081551 TATTTATTAAAATA-A-TTATAATTACTTATTTT
1 TATTAATTAAAATATAGTTAAAATTA-TTATTTT
68081583 TATTAATTAAAATATAGTTAAAATTATTATTTT
1 TATTAATTAAAATATAGTTAAAATTATTATTTT
68081616 TA
1 TA
68081618 AATCACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 13 0.42
33 10 0.32
34 8 0.26
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (33 bp):
TATTAATTAAAATATAGTTAAAATTATTATTTT
Found at i:68084540 original size:30 final size:30
Alignment explanation
Indices: 68084506--68084562 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
68084496 GATCATCATA
68084506 GTATATGA-GTTCATTAATCTTATTCTTGAC
1 GTATAT-ACGTTCATTAATCTTATTCTTGAC
*
68084536 GTATATACGTTGATTAATCTTATTCTT
1 GTATATACGTTCATTAATCTTATTCTT
68084563 CTTATTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.49
Consensus pattern (30 bp):
GTATATACGTTCATTAATCTTATTCTTGAC
Found at i:68094816 original size:105 final size:105
Alignment explanation
Indices: 68094634--68094847 Score: 428
Period size: 105 Copynumber: 2.0 Consensus size: 105
68094624 CATACCTTAA
68094634 GAAAACAAACTCTGGGTTCTTTCATGGTTTAATGTAGGGGCCTGGGGAGGCTTTAAACCAAATCA
1 GAAAACAAACTCTGGGTTCTTTCATGGTTTAATGTAGGGGCCTGGGGAGGCTTTAAACCAAATCA
68094699 ACTTTTACCATTTTTAGAAGCTGGGAAAGAGATTCTATAG
66 ACTTTTACCATTTTTAGAAGCTGGGAAAGAGATTCTATAG
68094739 GAAAACAAACTCTGGGTTCTTTCATGGTTTAATGTAGGGGCCTGGGGAGGCTTTAAACCAAATCA
1 GAAAACAAACTCTGGGTTCTTTCATGGTTTAATGTAGGGGCCTGGGGAGGCTTTAAACCAAATCA
68094804 ACTTTTACCATTTTTAGAAGCTGGGAAAGAGATTCTATAG
66 ACTTTTACCATTTTTAGAAGCTGGGAAAGAGATTCTATAG
68094844 GAAA
1 GAAA
68094848 TGCTGCAATA
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 109 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (105 bp):
GAAAACAAACTCTGGGTTCTTTCATGGTTTAATGTAGGGGCCTGGGGAGGCTTTAAACCAAATCA
ACTTTTACCATTTTTAGAAGCTGGGAAAGAGATTCTATAG
Found at i:68102258 original size:18 final size:18
Alignment explanation
Indices: 68102235--68102275 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
68102225 TAATTCAGTT
68102235 CGAAATCGGTCGGTTAAC
1 CGAAATCGGTCGGTTAAC
*
68102253 CGAAATTGGTCGGTTAAC
1 CGAAATCGGTCGGTTAAC
68102271 CGAAA
1 CGAAA
68102276 AAATTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (18 bp):
CGAAATCGGTCGGTTAAC
Found at i:68102355 original size:39 final size:40
Alignment explanation
Indices: 68102310--68102408 Score: 139
Period size: 39 Copynumber: 2.5 Consensus size: 40
68102300 CCCAGCCCAA
**
68102310 ACCCAATTACCCAACCCAATAAAACTAAAACT-AAAGTTT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAAGACT
* *
68102349 ACCCAATTACCAAATCCAATAAAACTAAAACTAAAAGACT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAAGACT
68102389 ACCCAATTTA-CCAACCCAAT
1 ACCCAA-TTACCCAACCCAAT
68102409 TTACTAAAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
39 30 0.58
40 19 0.37
41 3 0.06
ACGTcount: A:0.49, C:0.29, G:0.02, T:0.19
Consensus pattern (40 bp):
ACCCAATTACCCAACCCAATAAAACTAAAACTAAAAGACT
Found at i:68106784 original size:18 final size:17
Alignment explanation
Indices: 68106761--68106801 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
68106751 TCATTAAATT
68106761 ATTATTTTTTTCAATTTA
1 ATTATTTTTTT-AATTTA
68106779 ATTA-TTTTTTAATTTA
1 ATTATTTTTTTAATTTA
*
68106795 AATATTT
1 ATTATTT
68106802 GGTCACTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 8 0.38
18 4 0.19
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTATTTTTTTAATTTA
Found at i:68117302 original size:31 final size:29
Alignment explanation
Indices: 68117240--68117303 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
68117230 TAAAAGTATA
*
68117240 GGACTAAATTGATCCATTTAATAATAGAG
1 GGACTAAATTGATCCATTTAATAATACAG
*
68117269 GGACTAATTTGATCCAGTTCCT-ATAATACAG
1 GGACTAAATTGATCCA-TT--TAATAATACAG
68117300 GGAC
1 GGAC
68117304 CTCCCTGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 15 0.50
30 2 0.07
31 12 0.40
32 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (29 bp):
GGACTAAATTGATCCATTTAATAATACAG
Found at i:68120299 original size:92 final size:91
Alignment explanation
Indices: 68120133--68120326 Score: 221
Period size: 92 Copynumber: 2.1 Consensus size: 91
68120123 CCTTAAACCA
* * * *
68120133 GTGGATCTTGAACCCGAAAAAGCACTCTTATAAGGCCAGCCAGACTAAAAACAATCTAGTGTCCC
1 GTGGATCTTGAACCCGAAAAAGCACTCCTACAAGGCCAGCCAGACTAAAAACAACCTAGTCTCCC
* * *
68120198 AGGCCAAGACTTGAGCTCTATGCCTGT
66 AGGCCAAGACTAGA-CTCTAAGCCTGC
* * * *
68120225 GTGGATCTTGAACCC-AAAAATGCACTCCTCCAAGTCCAGCCAGCCTAAAAACAACCTTGTCTCA
1 GTGGATCTTGAACCCGAAAAA-GCACTCCTACAAGGCCAGCCAGACTAAAAACAACCTAGTCTC-
**
68120289 CC-GGTGAAGACTAGACTCTAAGCCTGC
64 CCAGGCCAAGACTAGACTCTAAGCCTGC
*
68120316 GCGGATCTTGA
1 GTGGATCTTGA
68120327 GCTGGAAATG
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
91 25 0.29
92 59 0.69
93 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (91 bp):
GTGGATCTTGAACCCGAAAAAGCACTCCTACAAGGCCAGCCAGACTAAAAACAACCTAGTCTCCC
AGGCCAAGACTAGACTCTAAGCCTGC
Found at i:68132274 original size:15 final size:16
Alignment explanation
Indices: 68132248--68132314 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 16
68132238 TAGTGTTTAG
68132248 GTGGGTTATTGGGTTT
1 GTGGGTTATTGGGTTT
68132264 GTGGG-TATTGGGTTAGGCT
1 GTGGGTTATTGGGTT----T
68132283 AGTTGGGTTATTGGGTTT
1 -G-TGGGTTATTGGGTTT
68132301 GTGGG-TATTGGGTT
1 GTGGGTTATTGGGTT
68132315 AGGCTAGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
15 18 0.41
16 9 0.20
17 1 0.02
18 1 0.02
19 1 0.02
20 1 0.02
21 4 0.09
22 9 0.20
ACGTcount: A:0.09, C:0.01, G:0.45, T:0.45
Consensus pattern (16 bp):
GTGGGTTATTGGGTTT
Found at i:68132297 original size:37 final size:37
Alignment explanation
Indices: 68132249--68132326 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
68132239 AGTGTTTAGG
68132249 TGGGTTATTGGGTTTGTGGGTATTGGGTTAGGCTAGT
1 TGGGTTATTGGGTTTGTGGGTATTGGGTTAGGCTAGT
68132286 TGGGTTATTGGGTTTGTGGGTATTGGGTTAGGCTAGT
1 TGGGTTATTGGGTTTGTGGGTATTGGGTTAGGCTAGT
68132323 TGGG
1 TGGG
68132327 CCTGGGTAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.10, C:0.03, G:0.45, T:0.42
Consensus pattern (37 bp):
TGGGTTATTGGGTTTGTGGGTATTGGGTTAGGCTAGT
Found at i:68132957 original size:43 final size:43
Alignment explanation
Indices: 68132863--68133312 Score: 245
Period size: 43 Copynumber: 10.5 Consensus size: 43
68132853 ATCTACTCTG
* * * *
68132863 CTGTAACCTCAGAGAGATAAGAT-C---CTTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGATACTGTCTTCAATCTGCTCCA
* * * * *
68132902 CCGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATACTGTCTTCAATCTGCTCCA
* * * *
68132945 CTGTAATCTCAGGG-GATAAGAT-CTCTTATTTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGATACT-GT-CTTCAATCTGCTCCA
* * * *
68132988 CTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATACTGTCTTCAATCTGCTCCA
* *
68133031 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGAT-ACTGTCTTCAATCTGCTCCA
* *** *
68133075 CTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATACTG----TCTTCAATCTGCTCCA
* * * * *
68133121 CTGTAATCTCAGGGAGATAAGA-CCTGAT-GT-GATCTTCTCTA
1 CTGTAATCTCAGGGAGATAAGATACTG-TCTTCAATCTGCTCCA
* * *
68133162 CTGTAA-CTTCAGAGAGATAAGAT-C---CTTTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATACTGTCTTCAATCTGCTCCA
* * * * *
68133201 TTGTAATCTCAAGGAGATAGGATTACTATCCTT-GATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGA-TACTGT-CTTCAATCTGCTCCA
*** *
68133245 CTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATACTG----TCTTCAATCTGCTCCA
68133291 CTGTAATCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
68133313 CCTGTATAAT
Statistics
Matches: 315, Mismatches: 62, Indels: 61
0.72 0.14 0.14
Matches are distributed among these distances:
38 2 0.01
39 41 0.13
40 3 0.01
41 29 0.09
42 15 0.05
43 76 0.24
44 75 0.24
45 7 0.02
46 67 0.21
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (43 bp):
CTGTAATCTCAGGGAGATAAGATACTGTCTTCAATCTGCTCCA
Found at i:68132985 original size:86 final size:87
Alignment explanation
Indices: 68132887--68133180 Score: 346
Period size: 86 Copynumber: 3.4 Consensus size: 87
68132877 AGATAAGATC
*
68132887 CTTTAATCCGCTCCACCGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
1 CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
*
68132952 CTCAGGG-GATAAGATCTCTTA
66 CTCAGGGAGATAAGATCTCTGA
*
68132973 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
1 CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
*
68133038 CTCAGGGAGATAAGATCTCTGG
66 CTCAGGGAGATAAGATCTCTGA
* * * * * * * * *
68133060 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCACTG
1 CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTG----TCTTCGATCTGCTCCGCTG
68133124 TAATCTCAGGGAGATAAGA-C-CTGA
62 TAATCTCAGGGAGATAAGATCTCTGA
* * ** * *
68133148 -TGTGATCTTCTCTACTGTAACTTCAGAGAGATA
1 CTTTAATCCGCTCCACTGTAACTTCAGGGAGATA
68133181 AGATCCTTTA
Statistics
Matches: 181, Mismatches: 22, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
86 72 0.40
87 71 0.39
88 3 0.02
89 1 0.01
90 34 0.19
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (87 bp):
CTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
CTCAGGGAGATAAGATCTCTGA
Found at i:68133079 original size:44 final size:42
Alignment explanation
Indices: 68132863--68133312 Score: 273
Period size: 44 Copynumber: 10.5 Consensus size: 42
68132853 ATCTACTCTG
* * * *
68132863 CTGTAACCTCAGAGAGATAAGATC-C-T-TTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTCTTCTTGATCTGCTCCA
* * * * *
68132902 CCGTAA-CTTCAGGGAGATAGGATAGT-GTCTTCGATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGAT-CTCTTCTT-GATCTGCTCCA
* * *
68132945 CTGTAATCTCAGGG-GATAAGATCTCTTATTTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTC-T-TCTTGATCTGCTCCA
* * * *
68132988 CTGTAA-CTTCAGGGAGATAGGATAGT-GTCTTCGATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGAT-CTCTTCTT-GATCTGCTCCA
* *
68133031 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTCT-TCTT-GATCTGCTCCA
* * * *
68133075 CTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---CTTC-TTGATCTGCTCCA
** * *
68133121 CTGTAATCTCAGGGAGATAAGA-C-CTGATGTGATCTTCTCTA
1 CTGTAATCTCAGGGAGATAAGATCTCTTCT-TGATCTGCTCCA
* * *
68133162 CTGTAA-CTTCAGAGAGATAAGATC-C-T-TTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATCTCTTCTTGATCTGCTCCA
* * *
68133201 TTGTAATCTCAAGGAGATAGGAT-TACTATCCTTGATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCT-CT-T-CTTGATCTGCTCCA
* * *
68133245 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---CTTC-TTGATCTGCTCCA
68133291 CTGTAATCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
68133313 CCTGTATAAT
Statistics
Matches: 316, Mismatches: 60, Indels: 63
0.72 0.14 0.14
Matches are distributed among these distances:
38 1 0.00
39 43 0.14
40 5 0.02
41 30 0.09
42 17 0.05
43 67 0.21
44 80 0.25
45 4 0.01
46 64 0.20
47 5 0.02
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
CTGTAATCTCAGGGAGATAAGATCTCTTCTTGATCTGCTCCA
Found at i:68145803 original size:14 final size:12
Alignment explanation
Indices: 68145791--68145836 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
68145781 CACGTATATG
68145791 TATATAAAAATA
1 TATATAAAAATA
68145803 TATATAAAAATTA
1 TATATAAAAA-TA
*
68145816 TAAAATATAAAATA
1 T-ATATA-AAAATA
68145830 TATATAA
1 TATATAA
68145837 GTATGTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 11 0.38
13 7 0.24
14 7 0.24
15 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATATAAAAATA
Found at i:68145850 original size:27 final size:26
Alignment explanation
Indices: 68145791--68145853 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
68145781 CACGTATATG
68145791 TATATA-AAAATATATATAAAAATTA
1 TATATATAAAATATATATAAAAATTA
* **
68145816 TAAAATATAAAATATATATAAGTATGTA
1 T-ATATATAAAATATATATAAAAAT-TA
68145844 TATATATAAA
1 TATATATAAA
68145854 TGAGGAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 4 0.13
27 23 0.74
28 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (26 bp):
TATATATAAAATATATATAAAAATTA
Found at i:68158124 original size:12 final size:13
Alignment explanation
Indices: 68158107--68158140 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
68158097 CCAAATAAGT
68158107 AATAAA-TAATAA
1 AATAAAGTAATAA
68158119 AATAAAGTAAT-A
1 AATAAAGTAATAA
68158131 AATAAAGTAA
1 AATAAAGTAA
68158141 AGAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (13 bp):
AATAAAGTAATAA
Found at i:68158136 original size:17 final size:15
Alignment explanation
Indices: 68158114--68158157 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
68158104 AGTAATAAAT
68158114 AATAAAATAAAGTAATA
1 AATAAAATAAAG-AA-A
*
68158131 AATAAAGTAAAGAAA
1 AATAAAATAAAGAAA
68158146 AATAATAATAAA
1 AATAA-AATAAA
68158158 AATTGGGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 7 0.29
17 11 0.46
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
AATAAAATAAAGAAA
Found at i:68166745 original size:27 final size:27
Alignment explanation
Indices: 68166715--68166768 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
68166705 AATAAGCTAA
68166715 AACATAAGGATTAGATAAATTTAATTC
1 AACATAAGGATTAGATAAATTTAATTC
*
68166742 AACATAAGGATTAGATGAATTTAATTC
1 AACATAAGGATTAGATAAATTTAATTC
68166769 TTACTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.33
Consensus pattern (27 bp):
AACATAAGGATTAGATAAATTTAATTC
Found at i:68168195 original size:14 final size:15
Alignment explanation
Indices: 68168169--68168199 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
68168159 TCCAGGTTCA
68168169 TCAACACATTTTTCT
1 TCAACACATTTTTCT
68168184 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
68168198 TC
1 TC
68168200 CCATTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:68180066 original size:87 final size:87
Alignment explanation
Indices: 68179911--68180077 Score: 282
Period size: 87 Copynumber: 1.9 Consensus size: 87
68179901 TTCAGCACTA
* *
68179911 TTAATGCATTCATATTCTCGGCCAATTTGAAGCAGTTAATGGCTCTAAAGGCACCCGAACCTATT
1 TTAATGCATTCATATTCTCAGCCAATTTGAAGCAGTTAATGGCTCTAAAGGCACCCGAACCTACT
68179976 AAATTGCATACTTCACGTAGTG
66 AAATTGCATACTTCACGTAGTG
* *
68179998 TTAATGCATTGATATTCTCAGCCAATTTGAAGCAGTTAATGGCTCTAAAGGCAGCCGAATCC-AC
1 TTAATGCATTCATATTCTCAGCCAATTTGAAGCAGTTAATGGCTCTAAAGGCACCCGAA-CCTAC
68180062 TAAATTGCATACTTCA
65 TAAATTGCATACTTCA
68180078 AGTGCAGAAC
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
87 73 0.97
88 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (87 bp):
TTAATGCATTCATATTCTCAGCCAATTTGAAGCAGTTAATGGCTCTAAAGGCACCCGAACCTACT
AAATTGCATACTTCACGTAGTG
Found at i:68181566 original size:20 final size:21
Alignment explanation
Indices: 68181541--68181581 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
68181531 GAAAATATAT
*
68181541 TTTCCATTCAA-TTTTCCATC
1 TTTCCAGTCAAGTTTTCCATC
68181561 TTTCCAGTCAAGTTTTCCATC
1 TTTCCAGTCAAGTTTTCCATC
68181582 CCCTCAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.20, C:0.29, G:0.05, T:0.46
Consensus pattern (21 bp):
TTTCCAGTCAAGTTTTCCATC
Found at i:68181760 original size:36 final size:36
Alignment explanation
Indices: 68181720--68181792 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
68181710 AATTTATATG
68181720 TATGTTTTCTTACCTTTTATTGTCGATGATCATACC
1 TATGTTTTCTTACCTTTTATTGTCGATGATCATACC
68181756 TATGTTTTCTTACCTTTTATTGTCGATGATCATACC
1 TATGTTTTCTTACCTTTTATTGTCGATGATCATACC
68181792 T
1 T
68181793 TCAATCACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (36 bp):
TATGTTTTCTTACCTTTTATTGTCGATGATCATACC
Found at i:68182237 original size:14 final size:15
Alignment explanation
Indices: 68182211--68182241 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
68182201 TCCAGGTTCA
68182211 TCAACACATTTTTCT
1 TCAACACATTTTTCT
68182226 TCAACA-ATTTTTCT
1 TCAACACATTTTTCT
68182240 TC
1 TC
68182242 CCATTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (15 bp):
TCAACACATTTTTCT
Found at i:68196173 original size:14 final size:15
Alignment explanation
Indices: 68196149--68196177 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
68196139 CAGGTTCATT
68196149 AACACATTTTTCTTC
1 AACACATTTTTCTTC
68196164 AACA-ATTTTTCTTC
1 AACACATTTTTCTTC
68196178 CCATTTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (15 bp):
AACACATTTTTCTTC
Found at i:68199825 original size:35 final size:34
Alignment explanation
Indices: 68199786--68199865 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 34
68199776 AATTTAATTT
68199786 ATATTTTATTATTTGATTCA-AATATAATCTGT-AAA
1 ATATTTTATTATTTGATT-AGAATATAAT-T-TAAAA
*
68199821 ATATTTTGA-TATTTTATTATGAATATAATTTAAAA
1 ATATTTT-ATTATTTGATTA-GAATATAATTTAAAA
68199856 ATATTTTATT
1 ATATTTTATT
68199866 GTATATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
34 3 0.08
35 27 0.69
36 9 0.23
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (34 bp):
ATATTTTATTATTTGATTAGAATATAATTTAAAA
Done.