Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 169 of 204
Found at i:50626498 original size:157 final size:157
Alignment explanation
Indices: 50626234--50626572 Score: 660
Period size: 157 Copynumber: 2.2 Consensus size: 157
50626224 ATAAATAGAA
50626234 AAATTATAAATTAATATATAGTAAAATTACACTTTAACTTTTAAAATGAAAAATTTTCAATTCAA
1 AAATTATAAATTAATATATAGTAAAATTACACTTTAACTTTTAAAATGAAAAATTTTCAATTCAA
50626299 TCTTCTTATAAATAAGGAAGTTGTAAATTAATATATAGTAAAATTACACTTTAGCCCCTAAAAAA
66 TCTTCTTATAAATAAGGAAGTTGTAAATTAATATATAGTAAAATTACACTTTAGCCCCTAAAAAA
50626364 TTATGTTTAAACCCTTCAGAAATAATG
131 TTATGTTTAAACCCTTCAGAAATAATG
50626391 AAATTATAAATTAATATATAGTAAAATTACACTTTAACTTTTAAAATGAAAAATTTTCAATTCAA
1 AAATTATAAATTAATATATAGTAAAATTACACTTTAACTTTTAAAATGAAAAATTTTCAATTCAA
50626456 TCTTCTTATAAATAAGGAAGTTGTAAATTAATATATAGTAAAATTACACTTTAGCCCCTAAAAAA
66 TCTTCTTATAAATAAGGAAGTTGTAAATTAATATATAGTAAAATTACACTTTAGCCCCTAAAAAA
50626521 TTATGTTTAAACCCTTCAGAAATAATG
131 TTATGTTTAAACCCTTCAGAAATAATG
* *
50626548 AAATTATAAATTAATACATAATAAA
1 AAATTATAAATTAATATATAGTAAA
50626573 GTTTCTGGAA
Statistics
Matches: 180, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 180 1.00
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.36
Consensus pattern (157 bp):
AAATTATAAATTAATATATAGTAAAATTACACTTTAACTTTTAAAATGAAAAATTTTCAATTCAA
TCTTCTTATAAATAAGGAAGTTGTAAATTAATATATAGTAAAATTACACTTTAGCCCCTAAAAAA
TTATGTTTAAACCCTTCAGAAATAATG
Found at i:50627309 original size:28 final size:27
Alignment explanation
Indices: 50627290--50627347 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
50627280 ACTAAAATGT
*
50627290 TATA-ATTTTTTTTTA-TTTACCAAAA
1 TATATATTTTTATTTATTTTACCAAAA
50627315 TATATATTTTTATTTATTTTACCAAAA
1 TATATATTTTTATTTATTTTACCAAAA
50627342 TATATA
1 TATATA
50627348 ATATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 4 0.13
26 10 0.33
27 16 0.53
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (27 bp):
TATATATTTTTATTTATTTTACCAAAA
Found at i:50627470 original size:27 final size:27
Alignment explanation
Indices: 50627413--50627506 Score: 116
Period size: 27 Copynumber: 3.5 Consensus size: 27
50627403 AGGGAAGCAG
*** **
50627413 GTTGGCGGCACCAAACAAGGGAAGCAG
1 GTTGGCGGCACCAAACAAGGGTTCCCT
***
50627440 GTTGGCGGCACCAGTGAAGGGTTCCCT
1 GTTGGCGGCACCAAACAAGGGTTCCCT
50627467 GTTGGCGGCACCAAACAAGGGTTCCCT
1 GTTGGCGGCACCAAACAAGGGTTCCCT
50627494 GTTGGCGGCACCA
1 GTTGGCGGCACCA
50627507 CTCGTGTTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.22, C:0.27, G:0.35, T:0.16
Consensus pattern (27 bp):
GTTGGCGGCACCAAACAAGGGTTCCCT
Found at i:50628563 original size:18 final size:18
Alignment explanation
Indices: 50628535--50628579 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
50628525 TTGATATGGT
* *
50628535 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
*
50628553 TGGTTGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
50628571 TGGTGGCGA
1 TGGTGGCGA
50628580 TCATTAGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.47, T:0.20
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:50631598 original size:19 final size:20
Alignment explanation
Indices: 50631574--50631615 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
50631564 TATAAAACCC
*
50631574 ATAATAAAACA-TTACAAAA
1 ATAATAAAACATTTAAAAAA
*
50631593 ATAATAAAATATTTAAAAAA
1 ATAATAAAACATTTAAAAAA
50631613 ATA
1 ATA
50631616 CCAAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAATAAAACATTTAAAAAA
Found at i:50631614 original size:20 final size:20
Alignment explanation
Indices: 50631574--50631625 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
50631564 TATAAAACCC
* *
50631574 ATAATAAAACA-TTACAAAA
1 ATAATAAAATATTTAAAAAA
50631593 ATAATAAAATATTTAAAAAA
1 ATAATAAAATATTTAAAAAA
**
50631613 ATACCAAAATATT
1 ATAATAAAATATT
50631626 ATATATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAATAAAATATTTAAAAAA
Found at i:50632348 original size:10 final size:10
Alignment explanation
Indices: 50632333--50632486 Score: 53
Period size: 10 Copynumber: 15.7 Consensus size: 10
50632323 CTTCCTTCCC
50632333 TCTTC-TTCT
1 TCTTCTTTCT
50632342 TCTTTCTTT-T
1 TC-TTCTTTCT
*
50632352 T-TTTTTCTCT
1 TCTTCTT-TCT
*
50632362 TCTCCTTTCCT
1 TCTTCTTT-CT
50632373 T-TTCTTTC-
1 TCTTCTTTCT
*
50632381 -CTTATTT-T
1 TCTTCTTTCT
*
50632389 TCTTTCTTTCC
1 TC-TTCTTTCT
**
50632400 TCCCCTTTCCT
1 TCTTCTTT-CT
50632411 T-TTCTTTC-
1 TCTTCTTTCT
50632419 -CTTCTTT-T
1 TCTTCTTTCT
*
50632427 TCTTTCTTTCC
1 TC-TTCTTTCT
*
50632438 TCTCCTTTCCT
1 TCTTCTTT-CT
*
50632449 T-TTCCTTCT
1 TCTTCTTTCT
*
50632458 TTTTCTTTCT
1 TCTTCTTTCT
50632468 TCCTTTCTTTCT
1 T-C-TTCTTTCT
50632480 TCTTCTT
1 TCTTCTT
50632487 CCCCTCTCCT
Statistics
Matches: 105, Mismatches: 19, Indels: 41
0.64 0.12 0.25
Matches are distributed among these distances:
8 15 0.14
9 10 0.10
10 54 0.51
11 17 0.16
12 9 0.09
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TCTTCTTTCT
Found at i:50632354 original size:38 final size:37
Alignment explanation
Indices: 50632306--50632472 Score: 143
Period size: 38 Copynumber: 4.5 Consensus size: 37
50632296 ATTACCTTAT
50632306 TTTCTTTTTTTTCCTTCCTTCCTTCCCTCTT-CTTCTTC
1 TTTCTTTTTTTTCCTTCCTTCCTTCCCT-TTCCTT-TTC
50632344 TTTCTTTTTTTT--TT-C-T-CTTCTCCTTTCCTTTTC
1 TTTCTTTTTTTTCCTTCCTTCCTTC-CCTTTCCTTTTC
* * * *
50632377 TTTCCTTATTTTTCTTTCTTTCCTCCCCTTTCCTTTTC
1 TTT-CTTTTTTTTCCTTCCTTCCTTCCCTTTCCTTTTC
* * *
50632415 TTTCCTTCTTTTTCTTTCTTTCC-TCTCCTTTCCTTTTC
1 TTT-CTTTTTTTTCCTTCCTTCCTTC-CCTTTCCTTTTC
*
50632453 CTTCTTTTTCTTT-CTTCCTT
1 TTTCTTTTT-TTTCCTTCCTT
50632473 TCTTTCTTCT
Statistics
Matches: 110, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
33 12 0.11
34 15 0.14
35 1 0.01
36 4 0.04
37 11 0.10
38 64 0.58
39 3 0.03
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (37 bp):
TTTCTTTTTTTTCCTTCCTTCCTTCCCTTTCCTTTTC
Found at i:50632394 original size:18 final size:18
Alignment explanation
Indices: 50632373--50632483 Score: 95
Period size: 18 Copynumber: 6.1 Consensus size: 18
50632363 CTCCTTTCCT
*
50632373 TTTCTTTCCTTATTTTTC
1 TTTCTTTCCTTCTTTTTC
* * *
50632391 TTTCTTTCCTCCCCTTTCC
1 TTTCTTTCCT-TCTTTTTC
50632410 TTTTCTTTCCTTCTTTTTC
1 -TTTCTTTCCTTCTTTTTC
*
50632429 TTTCTTTCC-TCTCCTTTC
1 TTTCTTTCCTTCT-TTTTC
*
50632447 -CT-TTTCCTTCTTTTTC
1 TTTCTTTCCTTCTTTTTC
50632463 TTTC-TTCCTTTCTTTCTTC
1 TTTCTTTCC-TTCTTT-TTC
50632482 TT
1 TT
50632484 CTTCCCCTCT
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
16 9 0.12
17 12 0.16
18 29 0.39
19 14 0.19
20 10 0.14
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTCCTTCTTTTTC
Found at i:50632427 original size:14 final size:14
Alignment explanation
Indices: 50632410--50632483 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
50632400 TCCCCTTTCC
50632410 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
50632424 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
50632439 CTCCTTTCCTTTTCCTTCT
1 -T--TTT-C-TTTCCTTCT
50632458 TTTTCTTT-CTTC-
1 TTTTCTTTCCTTCT
*
50632470 CTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
50632483 T
1 T
50632484 CTTCCCCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 11 0.22
13 4 0.08
14 14 0.29
15 3 0.06
16 4 0.08
18 4 0.08
19 3 0.06
20 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:50632427 original size:72 final size:72
Alignment explanation
Indices: 50632305--50632468 Score: 185
Period size: 72 Copynumber: 2.3 Consensus size: 72
50632295 AATTACCTTA
* * * * *
50632305 TTTT-CTTTTTTTTCCTTCCTTCCTTCCCTCTTCTTCTTCTTTCTT-TTTTTTTTCTCTTCTCCT
1 TTTTCCTTATTTTTCTTTCTTTCCTCCCCTCTTCTTCTTCTTTCTTCTTTTTCTT-TCTT-TCCT
* *
50632368 TTCCTTTTC
64 CTCCTTTCC
50632377 -TTTCCTTATTTTTCTTTCTTTCCTCCCCT-TTCCTT-TTCTTTCCTTCTTTTTCTTTCTTTCCT
1 TTTTCCTTATTTTTCTTTCTTTCCTCCCCTCTT-CTTCTTCTTT-CTTCTTTTTCTTTCTTTCCT
50632439 CTCCTTTCC
64 CTCCTTTCC
*
50632448 TTTTCCTTCTTTTTCTTTCTT
1 TTTTCCTTATTTTTCTTTCTT
50632469 CCTTTCTTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
71 22 0.28
72 50 0.63
73 7 0.09
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (72 bp):
TTTTCCTTATTTTTCTTTCTTTCCTCCCCTCTTCTTCTTCTTTCTTCTTTTTCTTTCTTTCCTCT
CCTTTCC
Found at i:50632435 original size:28 final size:28
Alignment explanation
Indices: 50632404--50632483 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
50632394 CTTTCCTCCC
50632404 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
50632432 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTT
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTT
50632466 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
50632484 CTTCCCCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.15
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 18 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTT
Found at i:50632474 original size:38 final size:38
Alignment explanation
Indices: 50632362--50632474 Score: 156
Period size: 38 Copynumber: 3.0 Consensus size: 38
50632352 TTTTTTCTCT
* *
50632362 TCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCC
1 TCTCCTTTCCTTTTCCTTCCTTTTTTTTCTTTCTTTCC
* * *
50632400 TCCCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TCTCCTTTCCTTTTCCTTCCTTTTTTTTCTTTCTTTCC
*
50632438 TCTCCTTTCCTTTTCCTT-CTTTTTCTTTCTTCCTTTC
1 TCTCCTTTCCTTTTCCTTCCTTTTT-TTTCTTTCTTTC
50632475 TTTCTTCTTC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
37 5 0.07
38 63 0.93
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.65
Consensus pattern (38 bp):
TCTCCTTTCCTTTTCCTTCCTTTTTTTTCTTTCTTTCC
Found at i:50632479 original size:22 final size:23
Alignment explanation
Indices: 50632444--50632486 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
50632434 TTCCTCTCCT
*
50632444 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
50632467 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
50632487 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:50632484 original size:28 final size:30
Alignment explanation
Indices: 50632406--50632487 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 30
50632396 TTCCTCCCCT
*
50632406 TTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTCTTCTTCTTTCTTTCC
*
50632438 TCTCCTTTCCTTT-TCCTTCTT-TTTCTTT-C
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
50632467 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
50632488 CCCTCTCCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 4 0.09
28 13 0.30
29 2 0.05
30 7 0.16
31 6 0.14
32 4 0.09
33 7 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:50632485 original size:18 final size:17
Alignment explanation
Indices: 50632338--50632488 Score: 78
Period size: 18 Copynumber: 8.4 Consensus size: 17
50632328 TTCCCTCTTC
*
50632338 TTCTTCTTTCTTTTT-T
1 TTCTTCCTTCTTTTTCT
*
50632354 TT-TTCTCTTCTCCTTTCCTT
1 TTCTTC-CTTCT--TTTTC-T
*
50632374 TTCTTTCCTTATTTTTCT
1 TTC-TTCCTTCTTTTTCT
* * *
50632392 TTCTTTCCTCCCCTTTCCTT
1 TTC-TTCCT-TCTTTTTC-T
50632412 TTCTTTCCTTCTTTTTCT
1 TTC-TTCCTTCTTTTTCT
* *
50632430 TTCTTTCC-TCTCCTTTCC
1 TTC-TTCCTTCT-TTTTCT
50632448 TT-TTCCTTCTTTTTCT
1 TTCTTCCTTCTTTTTCT
50632464 TTCTTCCTTTCTTTCTTC-
1 TTCTTCC-TTCTTT-TTCT
50632482 TTCTTCC
1 TTCTTCC
50632489 CCTCTCCTTC
Statistics
Matches: 106, Mismatches: 15, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
15 3 0.03
16 16 0.15
17 10 0.09
18 41 0.39
19 16 0.15
20 13 0.12
21 4 0.04
22 3 0.03
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (17 bp):
TTCTTCCTTCTTTTTCT
Found at i:50632497 original size:42 final size:40
Alignment explanation
Indices: 50632305--50632500 Score: 121
Period size: 38 Copynumber: 5.0 Consensus size: 40
50632295 AATTACCTTA
* *
50632305 TTTTCTTTTT-TTTCCTTCCT-TCCTT-CCCTCTTCTTCT
1 TTTTCTTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCT
* *
50632342 TCTTTCTTTTT-TTT-TTCTCTTCTCCTT-TCCT-T--TTCT
1 T-TTTCTTTTTCTTTCTT-TCCTCTCCTTCCCCTCTCCTTCT
* * *
50632378 TTCCTTATTTTTCTTTCTTTCCTCCCCTT-TCCT-T--TTCT
1 TT--TTCTTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCT
* * *
50632416 TTCCTTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCT
1 TT--TTCTTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCT
* *
50632458 TTTTCTTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCT
1 TTTTCTTT-TT-CTTTCTTTCCTCTCCTTCCCCTCTCCTTCT
50632500 T
1 T
50632501 CCCCCCACCA
Statistics
Matches: 131, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
35 1 0.01
36 5 0.04
37 9 0.07
38 63 0.48
39 12 0.09
40 7 0.05
41 2 0.02
42 32 0.24
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (40 bp):
TTTTCTTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCT
Found at i:50632696 original size:28 final size:26
Alignment explanation
Indices: 50632638--50632701 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 26
50632628 TTTTTGATAT
*
50632638 ATTTTGGTAAATAAAAAATTATATAT
1 ATTTTGGTAAATAAAAAATTATATAC
*
50632664 TTTTTGGTAAATAAAAAAAAGTTATA-AC
1 ATTTTGGTAAAT--AAAAAA-TTATATAC
50632692 ATTTTGGTAA
1 ATTTTGGTAA
50632702 TTTTTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 11 0.34
28 16 0.50
29 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.41
Consensus pattern (26 bp):
ATTTTGGTAAATAAAAAATTATATAC
Found at i:50639688 original size:3 final size:3
Alignment explanation
Indices: 50639674--50639708 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
50639664 ATCCCAAAAG
*
50639674 GGT GGG GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
50639709 GAATAACCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.71, T:0.29
Consensus pattern (3 bp):
GGT
Found at i:50639856 original size:12 final size:12
Alignment explanation
Indices: 50639841--50639922 Score: 119
Period size: 12 Copynumber: 6.8 Consensus size: 12
50639831 TAGATGGAAG
*
50639841 TGATGATGATTT
1 TGATGATGAGTT
50639853 TGATGATGAGTT
1 TGATGATGAGTT
* *
50639865 CGATGATGAATT
1 TGATGATGAGTT
50639877 TGATGATGAGTT
1 TGATGATGAGTT
*
50639889 CGATGATGAGTT
1 TGATGATGAGTT
*
50639901 TGATGATGATTT
1 TGATGATGAGTT
50639913 TGATGATGAG
1 TGATGATGAG
50639923 GAATTTGGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 61 1.00
ACGTcount: A:0.27, C:0.02, G:0.30, T:0.40
Consensus pattern (12 bp):
TGATGATGAGTT
Found at i:50640575 original size:30 final size:30
Alignment explanation
Indices: 50640541--50640605 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
50640531 CGGTAAGAAT
*
50640541 ATGGGGCAGATGGG-CCAAATGGGTGGTCAG
1 ATGGGGCACATGGGTCC-AATGGGTGGTCAG
* *
50640571 ATGGGTCACATGGGTTCAATGGGTGGTCAG
1 ATGGGGCACATGGGTCCAATGGGTGGTCAG
50640601 ATGGG
1 ATGGG
50640606 TTATAACATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.22, C:0.12, G:0.45, T:0.22
Consensus pattern (30 bp):
ATGGGGCACATGGGTCCAATGGGTGGTCAG
Found at i:50644408 original size:17 final size:17
Alignment explanation
Indices: 50644386--50644418 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
50644376 CTCTCTCTTT
50644386 TTTTTATTTTTAATTTA
1 TTTTTATTTTTAATTTA
50644403 TTTTTATTTTTAATTT
1 TTTTTATTTTTAATTT
50644419 TTAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTATTTTTAATTTA
Found at i:50653729 original size:16 final size:16
Alignment explanation
Indices: 50653708--50653741 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
50653698 ATTCGCAAAG
50653708 AAAGAAACTGAGTATA
1 AAAGAAACTGAGTATA
50653724 AAAGAAACTGAGTATA
1 AAAGAAACTGAGTATA
50653740 AA
1 AA
50653742 TCAATCAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (16 bp):
AAAGAAACTGAGTATA
Found at i:50659687 original size:49 final size:49
Alignment explanation
Indices: 50659629--50659733 Score: 203
Period size: 49 Copynumber: 2.2 Consensus size: 49
50659619 CAGTCAGGAA
50659629 TTGG-TCCAGATAGATGGTTATAGGCCAAACGAAGAGTTCCCAAGCTCT
1 TTGGTTCCAGATAGATGGTTATAGGCCAAACGAAGAGTTCCCAAGCTCT
50659677 TTGGTTCCAGATAGATGGTTATAGGCCAAACGAAGAGTTCCCAAGCTCT
1 TTGGTTCCAGATAGATGGTTATAGGCCAAACGAAGAGTTCCCAAGCTCT
50659726 TTGGTTCC
1 TTGGTTCC
50659734 TTCATCTTGC
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 4 0.07
49 52 0.93
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (49 bp):
TTGGTTCCAGATAGATGGTTATAGGCCAAACGAAGAGTTCCCAAGCTCT
Found at i:50661027 original size:18 final size:18
Alignment explanation
Indices: 50661004--50661039 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
50660994 GTCACCTCTA
50661004 ACCAATGGGAGGCTTTGC
1 ACCAATGGGAGGCTTTGC
50661022 ACCAATGGGAGGCTTTGC
1 ACCAATGGGAGGCTTTGC
50661040 TGAGAGTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (18 bp):
ACCAATGGGAGGCTTTGC
Found at i:50672210 original size:14 final size:15
Alignment explanation
Indices: 50672178--50672214 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
50672168 AATTTTAAAT
50672178 TTTATATTAAAATTCA
1 TTTAT-TTAAAATTCA
50672194 TTTATTTAAAATT-A
1 TTTATTTAAAATTCA
50672208 TTTATTT
1 TTTATTT
50672215 GTTTGCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.38
15 8 0.38
16 5 0.24
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATTTAAAATTCA
Found at i:50672521 original size:27 final size:27
Alignment explanation
Indices: 50672491--50672555 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
50672481 GGCCTGCCAC
* *
50672491 AGGCGGCACCAATGGTGCCTGTGGTAG
1 AGGCGGCACCAATGGTGCCTGTGGCAA
50672518 AGGCGGCACCAATGGTGCCTGTGGCAA
1 AGGCGGCACCAATGGTGCCTGTGGCAA
50672545 AGGCGGCACCA
1 AGGCGGCACCA
50672556 CTTCAATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.22, C:0.26, G:0.38, T:0.14
Consensus pattern (27 bp):
AGGCGGCACCAATGGTGCCTGTGGCAA
Found at i:50672619 original size:25 final size:25
Alignment explanation
Indices: 50672583--50672630 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
50672573 GATTCAGCCC
50672583 AGCTGAAAGAGAAAAAGAAGAAGAG
1 AGCTGAAAGAGAAAAAGAAGAAGAG
* *
50672608 AGCTGAAGGAGAAGAAGAAGAAG
1 AGCTGAAAGAGAAAAAGAAGAAG
50672631 GAGGAGGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.35, T:0.04
Consensus pattern (25 bp):
AGCTGAAAGAGAAAAAGAAGAAGAG
Found at i:50672998 original size:13 final size:13
Alignment explanation
Indices: 50672980--50673005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50672970 TTTTACATTA
50672980 TATTATTTTTAGT
1 TATTATTTTTAGT
50672993 TATTATTTTTAGT
1 TATTATTTTTAGT
50673006 AAAACCCTAA
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:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (13 bp):
TATTATTTTTAGT
Found at i:50673060 original size:76 final size:80
Alignment explanation
Indices: 50672860--50673067 Score: 223
Period size: 76 Copynumber: 2.6 Consensus size: 80
50672850 GTTATCAATA
*
50672860 ATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATTATAGTTAGTTATTAGGA
1 ATTATTGTTAATTAGTATTATTGTTAGTAAAAAACT-ATATTATTATTATAGTTAGTTATT--GA
50672925 TTAGTAAAAACCCTAATT
63 TTAGTAAAAACCCTAATT
* * *** * * *
50672943 ATTATT-TTAGTTAGTATGATTGTTAGTTTTTACATTATATTATT-TT-TAGTTA-TTATT-TTT
1 ATTATTGTTAATTAGTATTATTGTTAG-TAAAAAACTATATTATTATTATAGTTAGTTATTGATT
50673003 AGT-AAAACCCTAATT
65 AGTAAAAACCCTAATT
*
50673018 ATTATTGTTAATTAGTATTATT-TTGAGTAAAAAACTATTATTATTGTTAT
1 ATTATTGTTAATTAGTATTATTGTT-AGTAAAAAACTA-TATTATTATTAT
50673068 TGTGGTAGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
75 25 0.24
76 27 0.26
77 2 0.02
78 1 0.01
79 5 0.05
80 6 0.06
81 2 0.02
82 26 0.25
83 10 0.10
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (80 bp):
ATTATTGTTAATTAGTATTATTGTTAGTAAAAAACTATATTATTATTATAGTTAGTTATTGATTA
GTAAAAACCCTAATT
Found at i:50675763 original size:21 final size:21
Alignment explanation
Indices: 50675737--50675780 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
50675727 NNNTATATAT
*
50675737 AATATGTACATGTATTTACAA
1 AATATGTACATATATTTACAA
* *
50675758 AATATGTATATATATTTATAA
1 AATATGTACATATATTTACAA
50675779 AA
1 AA
50675781 AAATAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (21 bp):
AATATGTACATATATTTACAA
Found at i:50675881 original size:29 final size:27
Alignment explanation
Indices: 50675835--50675895 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 27
50675825 AAATTGTTAA
* *
50675835 ATATATAAAAAAAATATGAAAATATGT
1 ATATACAAAAAAAATATGAAAATAGGT
* *
50675862 ATATACAAAAAAAATGTATGTATATAGGT
1 ATATACAAAAAAAA--TATGAAAATAGGT
50675891 ATATA
1 ATATA
50675896 TATATGTACG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 13 0.46
29 15 0.54
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (27 bp):
ATATACAAAAAAAATATGAAAATAGGT
Found at i:50678846 original size:313 final size:308
Alignment explanation
Indices: 50678468--50679338 Score: 1327
Period size: 313 Copynumber: 2.8 Consensus size: 308
50678458 TTAGTAAAAA
* * *
50678468 AACC-TTATTTCGGCCTTTTGTTCGTATTTTTTCT-CTAATTTTATTACTTTCAATAAAAATATA
1 AACCATTATTTTGGCCCTTTGTTCGTATTTTTTCTCCAAATTTTATTACTTTCAATAAAAATATA
50678531 TTATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGT
66 TTATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGT
*
50678596 GTGTTTTTAAATAAATTTAAAAAATTAACCCTTATTTCGGTCCTTTGTTCGTATTTTTTTCCCTA
131 GTGTTTTTAAATAAATTTAAAAAATTAACCCTTATTTCGG-CCTTTGTTCGTATTTTTTTCCCTG
*
50678661 ATTTTATTACTTTCAATAAAAATATATTATTTTCTATTTTTATTAGTTTACATTATTTTAGTACA
195 ATTTTATTACTTTCAATAAAAATATATTATTTTCTA-TTTTATTATTTTACATTATTTTAGTACA
50678726 TTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTCAAAAATT
259 TTATGTTTGAAATGTATTAATTTA--GTG-TTTTTAAATAAATTTCAAAAATT
*
50678779 AACTC-TTATTTAT-GCCCTTTGTTCGTATTTTTTTTCCAAATTTTATTACTTTCAATAAAAATA
1 AAC-CATTATTT-TGGCCCTTTGTTCGTATTTTTTCTCCAAATTTTATTACTTTCAATAAAAATA
* *
50678842 TATTATTTTCTATTTTTATTAGTTTACATTATTTTAATACATTATGTTTGAAATGTATTAATTTA
64 TATTATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTA
* *
50678907 GTGTGAGTTTTAAATAAATTTCAAAAATTAACCCTTATTTCGGCCATTTGTTCGTA-TTTTTTCC
129 GTGTG-TTTTTAAATAAATTTAAAAAATTAACCCTTATTTCGGCC-TTTGTTCGTATTTTTTTCC
* * *
50678971 CGGATTTTATTACTTTCAATAAAAATATATTATTTTATAATTTTATAATTTTACATTATTTTAGT
192 CTGATTTTATTACTTTCAATAAAAATATATTATTTTCT-ATTTTATTATTTTACATTATTTTAGT
50679036 ACATTATGTTTGAAATGTATTAATTTAGTGTTTTTAAATAAATTTCAAAAATT
256 ACATTATGTTTGAAATGTATTAATTTAGTGTTTTTAAATAAATTTCAAAAATT
* *
50679089 AACCATTATTTTGGCCCTTTGTTCGTATTCTTTTCCCCGAATTTTATTACTTTCAATAAAAATAT
1 AACCATTATTTTGGCCCTTTGTTCGTATT-TTTTCTCCAAATTTTATTACTTTCAATAAAAATAT
*
50679154 ATTATTTTCTAATTTTATTATTTTACA-T-TTTTAGTACATTATGTTTGAAATGTATTAATTTAG
65 ATTATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAG
*
50679217 TGTGTTTTTAAAATAAATTTAGTAAAA--AACCCTTATTTCGGCCCTTTGTTCGTATTTTTTT--
130 TGTGTTTTT-AAATAAATTTA-AAAAATTAACCCTTATTTCGG-CCTTTGTTCGTATTTTTTTCC
* * *
50679278 CTGGATTTTTTTACTTTC-A-AAAAATATTTTATTTTCGTATTTTATTATTTTACATTCTTTT
192 CT-GATTTTATTACTTTCAATAAAAATATATTATTTTC-TATTTTATTATTTTACATTATTTT
50679339 CATATTTTAT
Statistics
Matches: 517, Mismatches: 28, Indels: 35
0.89 0.05 0.06
Matches are distributed among these distances:
306 36 0.07
307 3 0.01
308 42 0.08
309 58 0.11
310 53 0.10
311 63 0.12
312 27 0.05
313 189 0.37
314 46 0.09
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.53
Consensus pattern (308 bp):
AACCATTATTTTGGCCCTTTGTTCGTATTTTTTCTCCAAATTTTATTACTTTCAATAAAAATATA
TTATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGT
GTGTTTTTAAATAAATTTAAAAAATTAACCCTTATTTCGGCCTTTGTTCGTATTTTTTTCCCTGA
TTTTATTACTTTCAATAAAAATATATTATTTTCTATTTTATTATTTTACATTATTTTAGTACATT
ATGTTTGAAATGTATTAATTTAGTGTTTTTAAATAAATTTCAAAAATT
Found at i:50678861 original size:157 final size:156
Alignment explanation
Indices: 50678470--50679338 Score: 1323
Period size: 156 Copynumber: 5.6 Consensus size: 156
50678460 AGTAAAAAAA
* * *
50678470 CCTTATTTCGGCCTTTTGTTCGTA-TTTTTTCTCTAATTTTATTACTTTCAATAAAAATATATTA
1 CCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTA
50678534 TTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG
66 TTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG
*
50678599 TTTTTAAATAAATTTAAAAAATTAAC
131 TTTTTAAATAAATTTCAAAAATTAAC
* *
50678625 CCTTATTTCGGTCCTTTGTTCGTATTTTTTTCCCTAATTTTATTACTTTCAATAAAAATATATTA
1 CCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTA
*
50678690 TTTTCTATTTTTATTAGTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG
66 TTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG
50678755 TTTTTTAAATAAATTTCAAAAATTAAC
131 -TTTTTAAATAAATTTCAAAAATTAAC
* ** * *
50678782 TCTTATTTATGCCCTTTGTTCGTATTTTTTTTCCAAATTTTATTACTTTCAATAAAAATATATTA
1 CCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTA
* *
50678847 TTTTCTATTTTTATTAGTTTACATTATTTTAATACATTATGTTTGAAATGTATTAATTTAGTGTG
66 TTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG
*
50678912 AGTTTTAAATAAATTTCAAAAATTAAC
131 -TTTTTAAATAAATTTCAAAAATTAAC
* *
50678939 CCTTATTTCGGCCATTTGTTCGTA-TTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTA
1 CCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTA
* * *
50679003 TTTTATAATTTTATAATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTA--GTG
66 TTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG
50679066 TTTTTAAATAAATTTCAAAAATTAAC
131 TTTTTAAATAAATTTCAAAAATTAAC
* * *
50679092 CATTATTTTGGCCCTTTGTTCGTATTCTTTTCCCCGAATTTTATTACTTTCAATAAAAATATATT
1 CCTTATTTCGGCCCTTTGTTCGTATT-TTTTTCCCGAATTTTATTACTTTCAATAAAAATATATT
*
50679157 ATTTTCTAATTTTATTATTTTACA-T-TTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGT
65 ATTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGT
50679220 GTTTTTAAAATAAATTT-AGTAAAA--AAC
130 GTTTTT-AAATAAATTTCA--AAAATTAAC
* * * *
50679247 CCTTATTTCGGCCCTTTGTTCGTATTTTTTT-CTGGATTTTTTTACTTTC-A-AAAAATATTTTA
1 CCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTA
*
50679309 TTTTCGTA-TTTTATTATTTTACATTCTTTT
66 TTTTC-TATTTTTATTATTTTACATTATTTT
50679339 CATATTTTAT
Statistics
Matches: 661, Mismatches: 41, Indels: 26
0.91 0.06 0.04
Matches are distributed among these distances:
151 31 0.05
152 4 0.01
153 99 0.15
154 9 0.01
155 116 0.18
156 205 0.31
157 197 0.30
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.53
Consensus pattern (156 bp):
CCTTATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTA
TTTTCTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG
TTTTTAAATAAATTTCAAAAATTAAC
Found at i:50679666 original size:5 final size:5
Alignment explanation
Indices: 50679656--50679713 Score: 64
Period size: 5 Copynumber: 11.4 Consensus size: 5
50679646 CTTCTTCTTC
* * *
50679656 TCCTT TCCTTT TTCTT T-CTT CTCCTT TCCTT TCCTT TCCTT TCTTT TTCTT
1 TCCTT TCC-TT TCCTT TCCTT -TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
50679707 TCCTT TC
1 TCCTT TC
50679714 TTCCCCAGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
4 3 0.07
5 35 0.78
6 7 0.16
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (5 bp):
TCCTT
Found at i:50679714 original size:15 final size:15
Alignment explanation
Indices: 50679658--50679715 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
50679648 TCTTCTTCTC
50679658 CTTTCCTTT-TTCTTT
1 CTTTCCTTTCTT-TTT
* *
50679673 CTTCTCCTTTCCTTTC
1 CTT-TCCTTTCTTTTT
50679689 CTTTCCTTTCTTTTT
1 CTTTCCTTTCTTTTT
50679704 CTTTCCTTTCTT
1 CTTTCCTTTCTT
50679716 CCCCAGCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 25 0.68
16 11 0.30
17 1 0.03
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTTCCTTTCTTTTT
Found at i:50679799 original size:27 final size:27
Alignment explanation
Indices: 50679752--50679815 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
50679742 TATAAGGGCC
* * * *
50679752 GGTGCCGCCTGTGGCAGTGGCACCATT
1 GGTGCCGCCTCTGCCACTGGCACCACT
*
50679779 GGTGCCGCCTCTGCCACTGGCATCACT
1 GGTGCCGCCTCTGCCACTGGCACCACT
50679806 GGTGCCGCCT
1 GGTGCCGCCT
50679816 ATGGCAGGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.09, C:0.36, G:0.33, T:0.22
Consensus pattern (27 bp):
GGTGCCGCCTCTGCCACTGGCACCACT
Found at i:50682072 original size:3 final size:3
Alignment explanation
Indices: 50682064--50682095 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
50682054 AGACTAGTGT
50682064 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
50682096 GATGGGAATT
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:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:50692359 original size:33 final size:33
Alignment explanation
Indices: 50692317--50692381 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
50692307 TCTTGAAAAT
*
50692317 GAATCTGCCTCAACAAAATGACCTCATTTTTCA
1 GAATCTGCCTCAACAAAATGACATCATTTTTCA
50692350 GAATCTGCCTCAACAAAATGACATCATTTTTC
1 GAATCTGCCTCAACAAAATGACATCATTTTTC
50692382 GACCAACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (33 bp):
GAATCTGCCTCAACAAAATGACATCATTTTTCA
Found at i:50695104 original size:9 final size:9
Alignment explanation
Indices: 50695090--50695192 Score: 52
Period size: 10 Copynumber: 11.4 Consensus size: 9
50695080 CATGTCACAA
50695090 AAAAATTAT
1 AAAAATTAT
50695099 -AAAA--AT
1 AAAAATTAT
50695105 AAAAATTAAT
1 AAAAATT-AT
*
50695115 AAAAGTTAT
1 AAAAATTAT
* *
50695124 AAAAATAGAA
1 AAAAAT-TAT
*
50695134 AAAAATTGT
1 AAAAATTAT
*
50695143 AAAAAATAT
1 AAAAATTAT
* *
50695152 AAAAAAGTGT
1 -AAAAATTAT
**
50695162 AAATTTTTAT
1 AAA-AATTAT
*
50695172 AAAAATCAT
1 AAAAATTAT
50695181 AAAAA-TAT
1 AAAAATTAT
50695189 AAAA
1 AAAA
50695193 TATATAGAAA
Statistics
Matches: 68, Mismatches: 19, Indels: 15
0.67 0.19 0.15
Matches are distributed among these distances:
6 2 0.03
7 4 0.06
8 10 0.15
9 25 0.37
10 27 0.40
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (9 bp):
AAAAATTAT
Found at i:50695162 original size:19 final size:19
Alignment explanation
Indices: 50695105--50695164 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
50695095 TTATAAAAAT
50695105 AAAAAT-TAATAAAAGT-TA
1 AAAAATATAA-AAAAGTGTA
* *
50695123 TAAAAATAGAAAAAAATTGTA
1 -AAAAATA-TAAAAAAGTGTA
50695144 AAAAATATAAAAAAGTGTA
1 AAAAATATAAAAAAGTGTA
50695163 AA
1 AA
50695165 TTTTTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 18 0.53
20 12 0.35
21 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.23
Consensus pattern (19 bp):
AAAAATATAAAAAAGTGTA
Found at i:50699359 original size:22 final size:22
Alignment explanation
Indices: 50699309--50699359 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
50699299 ATCATGTAAA
*
50699309 AATAAAAATATTTATTTAAAAT
1 AATATAAATATTTATTTAAAAT
**
50699331 TGT-TAAATAATTT-TTTAAAAT
1 AATATAAAT-ATTTATTTAAAAT
50699352 AATATAAA
1 AATATAAA
50699360 AGACTTGATT
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATAAATATTTATTTAAAAT
Found at i:50705549 original size:31 final size:31
Alignment explanation
Indices: 50705514--50705573 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
50705504 CAAAATAGTT
* *
50705514 ATTGAATTATT-TAAAAATTTTTATTTAAGTC
1 ATTGAACTATTCT-AAAATTTTTAATTAAGTC
*
50705545 ATTGAACTATTCTAAAGTTTTTAATTAAG
1 ATTGAACTATTCTAAAATTTTTAATTAAG
50705574 AAACTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.48
Consensus pattern (31 bp):
ATTGAACTATTCTAAAATTTTTAATTAAGTC
Found at i:50714324 original size:81 final size:81
Alignment explanation
Indices: 50714188--50714348 Score: 261
Period size: 81 Copynumber: 2.0 Consensus size: 81
50714178 ACTCATTGGT
* * *
50714188 CCATCACTTTTTTGCAAACCTTTTCTGCTCTTCAATGGTGACACCAATCTGTTAGCCAAAT-GGG
1 CCATCACTTCTTTGCAAACCTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCC-AATCGGG
*
50714252 AAGGTGAAAATGATCTG
65 AAGGCGAAAATGATCTG
*
50714269 CCATCACTTCTTTGCAAACTTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCCAATCGGGA
1 CCATCACTTCTTTGCAAACCTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCCAATCGGGA
50714334 AGGCGAAAATGATCT
66 AGGCGAAAATGATCT
50714349 CCGTAGCTTC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
80 3 0.04
81 71 0.96
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (81 bp):
CCATCACTTCTTTGCAAACCTTTTCTGCTCTTCAATGGTGAAACCAATCTATTAGCCAATCGGGA
AGGCGAAAATGATCTG
Found at i:50716588 original size:20 final size:20
Alignment explanation
Indices: 50716563--50716605 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
50716553 CAATGTTTTG
**
50716563 TAAGAGATTTGGTAAGTTTA
1 TAAGAGATTCAGTAAGTTTA
*
50716583 TAAGAGATTCAGTAATTTTA
1 TAAGAGATTCAGTAAGTTTA
50716603 TAA
1 TAA
50716606 AAATTTGGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (20 bp):
TAAGAGATTCAGTAAGTTTA
Found at i:50728873 original size:3 final size:3
Alignment explanation
Indices: 50728865--50728911 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
50728855 TTTATGTGTT
50728865 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
50728912 TTGTTCAACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50736331 original size:2 final size:2
Alignment explanation
Indices: 50736324--50736365 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
50736314 AACATATTAA
50736324 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50736366 TATTTTAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50739665 original size:2 final size:2
Alignment explanation
Indices: 50739658--50739688 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
50739648 ACAAGAAGAA
50739658 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
50739689 TAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:50744742 original size:20 final size:22
Alignment explanation
Indices: 50744696--50744742 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
50744686 GAAATGGTAG
50744696 TAAAATAGTGAAAAAATAACAA
1 TAAAATAGTGAAAAAATAACAA
* *
50744718 GAAAATAGT-AATAAA-AACAA
1 TAAAATAGTGAAAAAATAACAA
50744738 TAAAA
1 TAAAA
50744743 AAAAGCAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 9 0.41
21 5 0.23
22 8 0.36
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (22 bp):
TAAAATAGTGAAAAAATAACAA
Found at i:50744745 original size:23 final size:22
Alignment explanation
Indices: 50744697--50744745 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
50744687 AAATGGTAGT
* * *
50744697 AAAATAGTGAAAAAATAACAAG
1 AAAATAGTAAAAAAACAACAAA
*
50744719 AAAATAGTAATAAAAACAATAAA
1 AAAATAGTAA-AAAAACAACAAA
50744742 AAAA
1 AAAA
50744746 AGCAAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.14
Consensus pattern (22 bp):
AAAATAGTAAAAAAACAACAAA
Found at i:50747255 original size:26 final size:27
Alignment explanation
Indices: 50747215--50747265 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
50747205 TACAAATGTG
50747215 TTAAAATCATTAATTAAAAATATTTTT
1 TTAAAATCATTAATTAAAAATATTTTT
*
50747242 TTAAAAT-ATTAATTACAAATATTT
1 TTAAAATCATTAATTAAAAATATTT
50747266 AATGGTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
TTAAAATCATTAATTAAAAATATTTTT
Found at i:50747573 original size:13 final size:13
Alignment explanation
Indices: 50747552--50747617 Score: 96
Period size: 13 Copynumber: 5.1 Consensus size: 13
50747542 TTGAAACTGA
50747552 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
50747565 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * *
50747578 ACTTTTCCACATC
1 ACTTTTCAAAAGC
50747591 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
50747604 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
50747617 A
1 A
50747618 TTGCCAAACT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:50750972 original size:508 final size:508
Alignment explanation
Indices: 50750017--50751038 Score: 1909
Period size: 508 Copynumber: 2.0 Consensus size: 508
50750007 TTGGAAAGGG
*
50750017 GTAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTATTGTAACACCCCCAACCTG
1 GTAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTATTGTAACACCCCCAACCCG
* *
50750082 TATCCCTCGCCGAAACCTGGTTACGGAGCATTATCGGAGATTACATATCAAACAGATAGAAATCT
66 TATCCCTCGCCGAAACCCGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATCT
*
50750147 CAAACATTTTATATCATCAAAATAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAA
131 CAAACATTTTATATCATCAAAACAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAA
50750212 AAATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTA
196 AAATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTA
* *
50750277 CATGCCGACACAAAGAAATAAACATCACCATATTTGAGTTCGGGATCGTTGTTGGATGTTGAATC
261 CATGCCAACACAAAGAAATAAACATCACCATATTTGAGTTCGGGATCGTTGTTGGATGCTGAATC
* *
50750342 AGCGATCAAACTTAAATACTTAACTTGAGCACGAAAAACAAAACCGTATGCTGAGTAAAAACTCA
326 AGCGATCAAACTTAAATACTTAACCTGAGCACGAAAAACAAAACCGTATGCTAAGTAAAAACTCA
50750407 GTGGTATTTCCATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAG
391 GTGGTATTTCCATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAG
*
50750472 CACAATTGAACATTTAAAACCATATGATACTCAATTATCATCACTTGCTATAT
456 CACAATTGAACATTTAAAACCATACGATACTCAATTATCATCACTTGCTATAT
*
50750525 GTAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTGTTGTAACACCCCCAACCCG
1 GTAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTATTGTAACACCCCCAACCCG
* *
50750590 TATCCCTCGTCGAAACCCGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATTT
66 TATCCCTCGCCGAAACCCGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATCT
50750655 CAAACATTTTATATCATCAAAACAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAA
131 CAAACATTTTATATCATCAAAACAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAA
50750720 AAATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTA
196 AAATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTA
50750785 CATGCCAACACAAAGAAATAAACATCACCATATTTGAGTTCGGGATCGTTGTTGGATGCTGAATC
261 CATGCCAACACAAAGAAATAAACATCACCATATTTGAGTTCGGGATCGTTGTTGGATGCTGAATC
*
50750850 AGCGATCAAACTTAAGTACTTAACCTGAGCACGAAAAACAAAACCGTATGCTAAGTAAAAACTCA
326 AGCGATCAAACTTAAATACTTAACCTGAGCACGAAAAACAAAACCGTATGCTAAGTAAAAACTCA
*
50750915 GTGGTATTTCTATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAG
391 GTGGTATTTCCATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAG
50750980 CACAATTGAACATTTAAAACCATACGATACTCAATTATCATCACTTGCTATAT
456 CACAATTGAACATTTAAAACCATACGATACTCAATTATCATCACTTGCTATAT
*
50751033 ATAATA
1 GTAATA
50751039 TAGCTTTCCA
Statistics
Matches: 499, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
508 499 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (508 bp):
GTAATAACCTGCTGGTCTGAAAGAAATTTCAAACTTTGATGATCTATTGTAACACCCCCAACCCG
TATCCCTCGCCGAAACCCGGTTACGGAGCATTACCGGAGATTACATATCAAACAGATAGAAATCT
CAAACATTTTATATCATCAAAACAAGTCATCAAGCATCGTTTTAATCCAAATTATAAACTATCAA
AAATAGATCTTATAACTTCATTTACAATCAAACACAAAATAACTAATATTTAGACACTCTAGGTA
CATGCCAACACAAAGAAATAAACATCACCATATTTGAGTTCGGGATCGTTGTTGGATGCTGAATC
AGCGATCAAACTTAAATACTTAACCTGAGCACGAAAAACAAAACCGTATGCTAAGTAAAAACTCA
GTGGTATTTCCATAATCCGAATATTTAAAAATAAAACAATAAAATATGTATAATAAAATGTCAAG
CACAATTGAACATTTAAAACCATACGATACTCAATTATCATCACTTGCTATAT
Found at i:50751470 original size:17 final size:17
Alignment explanation
Indices: 50751443--50751488 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
50751433 CCGATATAAT
* * *
50751443 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
50751460 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
50751477 AAATATTTTTAA
1 AAATATTTTTAA
50751489 AATACTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:50751513 original size:38 final size:37
Alignment explanation
Indices: 50751465--50751577 Score: 167
Period size: 38 Copynumber: 3.0 Consensus size: 37
50751455 TTTTTAAATT
50751465 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
50751502 CTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAGTT-
1 -TTTTTAATTTTAAAATATTTTTAAAATACTTTTT---TTA
*
50751542 TTTTTAATTTTAAAATAATTTTAAAATA-TTTTTTTA
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
50751578 AATTTTAAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 10
0.86 0.01 0.12
Matches are distributed among these distances:
35 2 0.03
38 39 0.56
39 27 0.39
41 2 0.03
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (37 bp):
TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:50751537 original size:12 final size:11
Alignment explanation
Indices: 50751510--50751574 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
50751500 TACTTTTTAA
50751510 TTTTAAAATAT
1 TTTTAAAATAT
50751521 TTTTAAAATACT
1 TTTTAAAATA-T
*
50751533 TTTT-AAGT-T
1 TTTTAAAATAT
*
50751542 TTTT----TAA
1 TTTTAAAATAT
*
50751549 TTTTAAAATAA
1 TTTTAAAATAT
50751560 TTTTAAAATAT
1 TTTTAAAATAT
50751571 TTTT
1 TTTT
50751575 TTAAATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
9 5 0.11
11 30 0.67
12 5 0.11
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:50751557 original size:39 final size:38
Alignment explanation
Indices: 50751455--50751575 Score: 174
Period size: 39 Copynumber: 3.1 Consensus size: 38
50751445 ATATATTTAT
50751455 TTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTT-AATTTTTTTAATTTTAAAATATTTTTAAAATAC
50751494 TTTTT--TTACTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTAATT--TTTTTAATTTTAAAATATTTTTAAAATAC
* *
50751532 TTTTTAAGTTTTTTTAATTTTAAAATAATTTTAAAATAT
1 TTTTTAA-TTTTTTTAATTTTAAAATATTTTTAAAATAC
50751571 TTTTT
1 TTTTT
50751576 TAAATTTTAA
Statistics
Matches: 75, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
36 2 0.03
38 34 0.45
39 37 0.49
41 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (38 bp):
TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:50751595 original size:20 final size:20
Alignment explanation
Indices: 50751558--50751596 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50751548 ATTTTAAAAT
**
50751558 AATTTTAAAATATTTTTTTA
1 AATTTTAAAATAAATTTTTA
50751578 AATTTTAAAATAAATTTTT
1 AATTTTAAAATAAATTTTT
50751597 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTTAAAATAAATTTTTA
Found at i:50751729 original size:22 final size:22
Alignment explanation
Indices: 50751704--50751780 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
50751694 TAGCACAAAT
50751704 GTGCTAAACAGAAAGCACTGAC
1 GTGCTAAACAGAAAGCACTGAC
* *
50751726 GTGCTAAATATCAGAGAGCA-TAGAT
1 GTGCT-AA-A-CAGAAAGCACT-GAC
*
50751751 GTGCTAAACAGATAGCACTGAC
1 GTGCTAAACAGAAAGCACTGAC
50751773 GTGCTAAA
1 GTGCTAAA
50751781 TATCAGAGAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
22 23 0.50
23 4 0.09
24 4 0.09
25 15 0.33
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (22 bp):
GTGCTAAACAGAAAGCACTGAC
Found at i:50751745 original size:25 final size:25
Alignment explanation
Indices: 50751712--50751791 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
50751702 ATGTGCTAAA
*
50751712 CAGAAAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCTAAATAT
*
50751737 CAGAGAGCA-TAGATGTGCT-AA-A-
1 CAGAGAGCACT-GACGTGCTAAATAT
*
50751759 CAGATAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGACGTGCTAAATAT
50751784 CAGAGAGC
1 CAGAGAGC
50751792 GCACTAGAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
22 15 0.33
23 4 0.09
24 4 0.09
25 22 0.49
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (25 bp):
CAGAGAGCACTGACGTGCTAAATAT
Found at i:50751771 original size:47 final size:47
Alignment explanation
Indices: 50751702--50751791 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
50751692 TCTAGCACAA
50751702 ATGTGCTAAACAGAAAGCACTGACGTGCTAAATATCAGAGAGCATAG
1 ATGTGCTAAACAGAAAGCACTGACGTGCTAAATATCAGAGAGCATAG
*
50751749 ATGTGCTAAACAGATAGCACTGACGTGCTAAATATCAGAGAGC
1 ATGTGCTAAACAGAAAGCACTGACGTGCTAAATATCAGAGAGC
50751792 GCACTAGAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (47 bp):
ATGTGCTAAACAGAAAGCACTGACGTGCTAAATATCAGAGAGCATAG
Found at i:50752754 original size:5 final size:5
Alignment explanation
Indices: 50752744--50752791 Score: 60
Period size: 5 Copynumber: 9.6 Consensus size: 5
50752734 TTGTTTCTTT
* * * *
50752744 TATAA TATAA TATAA TATAT TATAA TCTAA TATAA TCTAA TCTAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
50752792 TTATACTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:50752767 original size:15 final size:15
Alignment explanation
Indices: 50752744--50752791 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
50752734 TTGTTTCTTT
*
50752744 TATAATATAATATAA
1 TATAATATAATCTAA
*
50752759 TATATTATAATCTAA
1 TATAATATAATCTAA
*
50752774 TATAATCTAATCTAA
1 TATAATATAATCTAA
50752789 TAT
1 TAT
50752792 TTATACTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAATATAATCTAA
Found at i:50781224 original size:3 final size:3
Alignment explanation
Indices: 50781216--50781243 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
50781206 ATTATTCAAA
50781216 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
50781244 CGAAAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:50786954 original size:24 final size:24
Alignment explanation
Indices: 50786922--50786967 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
50786912 TTGAATGTTG
* *
50786922 TATCATGGTAAATCGAAAATTTCT
1 TATCATGGTAAACCAAAAATTTCT
50786946 TATCATGGTAAACCAAAAATTT
1 TATCATGGTAAACCAAAAATTT
50786968 TTTCGTCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (24 bp):
TATCATGGTAAACCAAAAATTTCT
Found at i:50788451 original size:6 final size:7
Alignment explanation
Indices: 50788426--50788475 Score: 56
Period size: 6 Copynumber: 7.9 Consensus size: 7
50788416 TGTAAATGAA
50788426 TCATTTC
1 TCATTTC
50788433 TCATTTC
1 TCATTTC
50788440 TCATTT-
1 TCATTTC
50788446 TCATTT-
1 TCATTTC
*
50788452 TCATTGC
1 TCATTTC
50788459 T-ATTTC
1 TCATTTC
50788465 -CATTTC
1 TCATTTC
50788471 -CATTT
1 TCATTT
50788476 TGAGAAACCC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
6 25 0.64
7 14 0.36
ACGTcount: A:0.16, C:0.24, G:0.02, T:0.58
Consensus pattern (7 bp):
TCATTTC
Found at i:50791632 original size:58 final size:58
Alignment explanation
Indices: 50791567--50791685 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
50791557 CACTCTGGGG
50791567 ATCCCCTAGTGTTATTTGTTAAGAAAAAAAGATGGTTCGGTGCGACTCTACATATTTT
1 ATCCCCTAGTGTTATTTGTTAAGAAAAAAAGATGGTTCGGTGCGACTCTACATATTTT
50791625 ATCCCCTAGTGTTATTTGTTAAGAAAAAAAGATGGTTCGGTGCGACTCTACATATTTT
1 ATCCCCTAGTGTTATTTGTTAAGAAAAAAAGATGGTTCGGTGCGACTCTACATATTTT
50791683 ATC
1 ATC
50791686 GATAATTGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (58 bp):
ATCCCCTAGTGTTATTTGTTAAGAAAAAAAGATGGTTCGGTGCGACTCTACATATTTT
Found at i:50792152 original size:50 final size:50
Alignment explanation
Indices: 50792086--50792184 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
50792076 ATATTATTCT
* * *
50792086 AATCAATGTCATATAGAAGGAGAG-ACGTT-TTATACGGATTCTACTTGTAC
1 AATCAATATCAAATAGAAGAAGAGTA-GTTCTT-TACGGATTCTACTTGTAC
*
50792136 AATCAATATCAAATAGAAGAAGAGTAGTTCTTTACGGATTCTATTTGTA
1 AATCAATATCAAATAGAAGAAGAGTAGTTCTTTACGGATTCTACTTGTA
50792185 TCATTTCTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 40 0.93
51 3 0.07
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.33
Consensus pattern (50 bp):
AATCAATATCAAATAGAAGAAGAGTAGTTCTTTACGGATTCTACTTGTAC
Found at i:50798533 original size:21 final size:21
Alignment explanation
Indices: 50798507--50798566 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
50798497 CGAACACGCC
50798507 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
* *
50798528 AACAGAAGCTCATAATATCTG
1 AACAGAAGCTCATAAGAGCTG
*
50798549 AACAGAAGCTCAAAAGAG
1 AACAGAAGCTCATAAGAG
50798567 TTGATCCACC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:50806571 original size:60 final size:59
Alignment explanation
Indices: 50806467--50806598 Score: 171
Period size: 60 Copynumber: 2.2 Consensus size: 59
50806457 TCCAATAATA
* *
50806467 ATATTATTTTAAT-AGTTTTAATATTAAATATAATTTAATATTTATCTTGTATATAAATATT
1 ATATTAATTTAATAAGTTTTAATATTAAATATAATCTAATATTTATCTTG---ATAAATATT
* *
50806528 CTATTAATTTAATAAG-TTTAA-ATTAAATTTAATCTAATATTTATCTTGATAAATATT
1 ATATTAATTTAATAAGTTTTAATATTAAATATAATCTAATATTTATCTTGATAAATATT
*
50806585 AAATTAATTTAATA
1 ATATTAATTTAATA
50806599 TTAAAGTGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
57 21 0.33
60 25 0.39
61 16 0.25
62 2 0.03
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (59 bp):
ATATTAATTTAATAAGTTTTAATATTAAATATAATCTAATATTTATCTTGATAAATATT
Found at i:50815573 original size:14 final size:15
Alignment explanation
Indices: 50815556--50815592 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
50815546 ATACAGATAC
50815556 AAATATCAAAT-AAT
1 AAATATCAAATAAAT
50815570 AAATA-CAAATAAAT
1 AAATATCAAATAAAT
50815584 AACATATCA
1 AA-ATATCA
50815593 TAAGATATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.25
14 10 0.50
15 3 0.15
16 2 0.10
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATATCAAATAAAT
Found at i:50833945 original size:12 final size:12
Alignment explanation
Indices: 50833928--50833961 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
50833918 CAGTCCTCCC
50833928 ATATTAATTTTT
1 ATATTAATTTTT
*
50833940 ATATTATTTTTT
1 ATATTAATTTTT
50833952 ATA-TAATTTT
1 ATATTAATTTT
50833962 AAAATATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:50837186 original size:20 final size:20
Alignment explanation
Indices: 50837163--50837208 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
50837153 ACAAAAAATA
*
50837163 CAAAATAATTT-TCAAAATTT
1 CAAAAT-ATTTATAAAAATTT
50837183 CAAAATATTTATAAAAATTT
1 CAAAATATTTATAAAAATTT
50837203 CAAAAT
1 CAAAAT
50837209 TTACATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (20 bp):
CAAAATATTTATAAAAATTT
Found at i:50839152 original size:55 final size:55
Alignment explanation
Indices: 50839066--50839174 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
50839056 AAGGAGCCAA
** *
50839066 ATGCTTCTTCTATTCTTTTCCTTGGCGCAGCTGGGCCATCCTAGACTTGAACCAG
1 ATGCTTCTTCTATTCTTTTCCTTGGAACAGCTAGGCCATCCTAGACTTGAACCAG
50839121 ATGCTTCTTCTATTCTTTTCCTTGGAACAGCTAGGCCATCCTAGACTTGAACCA
1 ATGCTTCTTCTATTCTTTTCCTTGGAACAGCTAGGCCATCCTAGACTTGAACCA
50839175 AAGATCCCGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.35
Consensus pattern (55 bp):
ATGCTTCTTCTATTCTTTTCCTTGGAACAGCTAGGCCATCCTAGACTTGAACCAG
Found at i:50839881 original size:17 final size:17
Alignment explanation
Indices: 50839859--50839915 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
50839849 TATCTTTTAA
50839859 TTTCTTTCTGTCAATTC
1 TTTCTTTCTGTCAATTC
* * *
50839876 TTTCTTTATTTC--TGC
1 TTTCTTTCTGTCAATTC
*
50839891 TTTTCTTGCTGTCAATTC
1 -TTTCTTTCTGTCAATTC
50839909 TTTCTTT
1 TTTCTTT
50839916 ATTTCTGCTT
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
15 2 0.07
16 9 0.31
17 16 0.55
18 2 0.07
ACGTcount: A:0.09, C:0.21, G:0.07, T:0.63
Consensus pattern (17 bp):
TTTCTTTCTGTCAATTC
Found at i:50839896 original size:33 final size:33
Alignment explanation
Indices: 50839859--50839925 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
50839849 TATCTTTTAA
*
50839859 TTTCTTTCTGTCAATTCTTTCTTTATTTCTGCT
1 TTTCTTGCTGTCAATTCTTTCTTTATTTCTGCT
50839892 TTTCTTGCTGTCAATTCTTTCTTTATTTCTGCT
1 TTTCTTGCTGTCAATTCTTTCTTTATTTCTGCT
50839925 T
1 T
50839926 GTGCTGAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.09, C:0.21, G:0.07, T:0.63
Consensus pattern (33 bp):
TTTCTTGCTGTCAATTCTTTCTTTATTTCTGCT
Found at i:50840960 original size:21 final size:22
Alignment explanation
Indices: 50840901--50840964 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
50840891 CAGAAGCAGT
* *
50840901 ATACAACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
** *
50840923 A-ACGACACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
50840943 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
50840965 TCGGCAAAGC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:50841917 original size:20 final size:20
Alignment explanation
Indices: 50841885--50841923 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
50841875 TCTTTCCTTA
50841885 ATTTGTTTCTCTTTTATTTC
1 ATTTGTTTCTCTTTTATTTC
50841905 ATTTCGTTT-TCTTTTATTT
1 ATTT-GTTTCTCTTTTATTT
50841924 GTCTATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.10, C:0.13, G:0.05, T:0.72
Consensus pattern (20 bp):
ATTTGTTTCTCTTTTATTTC
Found at i:50842246 original size:14 final size:17
Alignment explanation
Indices: 50842227--50842264 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
50842217 ATTTATTTCT
50842227 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
50842241 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
50842258 TAATATA
1 TAATATA
50842265 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:50842282 original size:11 final size:11
Alignment explanation
Indices: 50842244--50842282 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
50842234 ATATTTATAA
50842244 TATAATTAATT
1 TATAATTAATT
*
50842255 TAATAATATACTT
1 T-ATAAT-TAATT
50842268 TATAATTAATT
1 TATAATTAATT
50842279 TATA
1 TATA
50842283 TATATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:50842300 original size:17 final size:17
Alignment explanation
Indices: 50842268--50842301 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50842258 TAATATACTT
* *
50842268 TATAATTAATTTATATA
1 TATAATTAAATCATATA
50842285 TATAATTAAATCATATA
1 TATAATTAAATCATATA
50842302 AAAATTTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TATAATTAAATCATATA
Found at i:50849330 original size:4 final size:4
Alignment explanation
Indices: 50849321--50849345 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
50849311 AACTCACTTG
50849321 TATC TATC TATC TATC TATC TATC T
1 TATC TATC TATC TATC TATC TATC T
50849346 CTATATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TATC
Found at i:50858451 original size:25 final size:25
Alignment explanation
Indices: 50858415--50858462 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
50858405 TAAATAAATT
*
50858415 ATATTTATTTTTATT-AAAATTAAA
1 ATATTTACTTTTATTGAAAATTAAA
50858439 ATATTTAACTTTTATTGAAAATTA
1 ATATTT-ACTTTTATTGAAAATTA
50858463 TCTCACATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 8 0.38
26 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
ATATTTACTTTTATTGAAAATTAAA
Found at i:50859764 original size:2 final size:2
Alignment explanation
Indices: 50859750--50859795 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
50859740 CAAATAATCA
*
50859750 AT AT AT TT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50859791 AT AT A
1 AT AT A
50859796 CACCAATTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50859828 original size:24 final size:24
Alignment explanation
Indices: 50859800--50859846 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
50859790 TATATACACC
50859800 AATTCAATCA-ATA-TAAATTCAATA
1 AATTC-ATCACATATTAAA-TCAATA
50859824 AATTCATCACATATTAAATCAAT
1 AATTCATCACATATTAAATCAAT
50859847 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCATCACATATTAAATCAATA
Found at i:50860647 original size:19 final size:20
Alignment explanation
Indices: 50860623--50860661 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
50860613 ATTAATAAGC
50860623 AATACATAT-TTTATTATTA
1 AATACATATATTTATTATTA
50860642 AATACATATATTTATTATTA
1 AATACATATATTTATTATTA
50860662 TTACACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
AATACATATATTTATTATTA
Found at i:50860669 original size:21 final size:20
Alignment explanation
Indices: 50860626--50860676 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
50860616 AATAAGCAAT
*
50860626 ACATAT-TTTATTATTAAAT
1 ACATATATTTATTATTAAAC
*
50860645 ACATATATTTATTATTATTAC
1 ACATATATTTATTATTA-AAC
*
50860666 ACATGTATTTA
1 ACATATATTTA
50860677 CCAACACCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 6 0.22
20 10 0.37
21 11 0.41
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (20 bp):
ACATATATTTATTATTAAAC
Found at i:50861641 original size:14 final size:14
Alignment explanation
Indices: 50861622--50861670 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
50861612 TTTGATTTAT
50861622 TTAATTTTATATTA
1 TTAATTTTATATTA
*
50861636 TTAATTTTTTATT-
1 TTAATTTTATATTA
* *
50861649 TTCA--TAATATTA
1 TTAATTTTATATTA
50861661 TTAATTTTAT
1 TTAATTTTAT
50861671 TGTATATTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
11 5 0.19
12 3 0.12
13 3 0.12
14 15 0.58
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TTAATTTTATATTA
Found at i:50861659 original size:22 final size:23
Alignment explanation
Indices: 50861616--50861660 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
50861606 TATGATTTTG
*
50861616 ATTTATTTAATTTTATATTATTA
1 ATTTATTTAATTTTATAATATTA
50861639 ATTT-TTT-ATTTTCATAATATTA
1 ATTTATTTAATTTT-ATAATATTA
50861661 TTAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTATTTAATTTTATAATATTA
Found at i:50861681 original size:22 final size:23
Alignment explanation
Indices: 50861630--50861692 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
50861620 ATTTAATTTT
*
50861630 ATATTATTAATTTTTTATTTTCATA
1 ATATTATTAA--TTTTATTGTCATA
50861655 ATATTATTAATTTTATTGT-ATA
1 ATATTATTAATTTTATTGTCATA
*
50861677 TTATT-TATAATTTTAT
1 ATATTAT-TAATTTTAT
50861693 AAATTTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 1 0.03
22 16 0.46
23 8 0.23
25 10 0.29
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
ATATTATTAATTTTATTGTCATA
Found at i:50869560 original size:7 final size:7
Alignment explanation
Indices: 50869499--50869564 Score: 53
Period size: 8 Copynumber: 8.6 Consensus size: 7
50869489 AAGGTTAAAA
50869499 TATATAT
1 TATATAT
50869506 TATAATAT
1 TAT-ATAT
50869514 TATAATAT
1 TAT-ATAT
*
50869522 TATATCT
1 TATATAT
50869529 TA-ATTAT
1 TATA-TAT
50869536 TAAGTATAT
1 T-A-TATAT
50869545 ATATCATAT
1 -TAT-ATAT
50869554 TATATAT
1 TATATAT
50869561 TATA
1 TATA
50869565 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
6 1 0.02
7 19 0.38
8 20 0.40
9 8 0.16
10 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (7 bp):
TATATAT
Found at i:50869577 original size:30 final size:32
Alignment explanation
Indices: 50869509--50869577 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
50869499 TATATATTAT
* *
50869509 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
50869542 TATATATCATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
50869572 AATATA
1 AATATA
50869578 ATAAAAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:50869638 original size:11 final size:11
Alignment explanation
Indices: 50869580--50869648 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 11
50869570 TAAATATAAT
*
50869580 AAAAGAAAAAGA
1 AAAAGAAAGA-A
50869592 AAAAGAAAGAA
1 AAAAGAAAGAA
* *
50869603 AGAACAAATG-A
1 AAAAGAAA-GAA
* * *
50869614 AACAGAAGGGA
1 AAAAGAAAGAA
50869625 AAAAGAAAGAA
1 AAAAGAAAGAA
*
50869636 AAAGGAAAGAA
1 AAAAGAAAGAA
50869647 AA
1 AA
50869649 GGAGAAAGAC
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
10 1 0.02
11 33 0.75
12 10 0.23
ACGTcount: A:0.74, C:0.03, G:0.22, T:0.01
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:50869655 original size:29 final size:29
Alignment explanation
Indices: 50869597--50869655 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
50869587 AAAGAAAAAG
* *
50869597 AAAGAAAGAACAAATGAAACAGAAGGGAA
1 AAAGAAAGAACAAAGGAAACAAAAGGGAA
*
50869626 AAAGAAAGAA-AAAGGAAAGAAAAGGAGAA
1 AAAGAAAGAACAAAGGAAACAAAAGG-GAA
50869655 A
1 A
50869656 GACCAAAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.69, C:0.03, G:0.25, T:0.02
Consensus pattern (29 bp):
AAAGAAAGAACAAAGGAAACAAAAGGGAA
Found at i:50874433 original size:158 final size:158
Alignment explanation
Indices: 50874171--50874555 Score: 580
Period size: 158 Copynumber: 2.4 Consensus size: 158
50874161 TAAAATATGA
* ** *
50874171 AAAATAAATAAAAAACAAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAA-AAGAAAAAT
1 AAAAT-AATAAAAAACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAAT
* * *
50874235 ACGGACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATAC
65 ACGAACAAAGGGCAAAAATAAGGGGTTTTCACTAAATTTATATAAAAAACACACTAAAATAATAC
*
50874300 ATTTC-AAACACTATGTACTAAAATAATAT
130 ATTTCGAAA-ACTATGTACTAAAATAAAAT
*
50874329 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATA
1 AAAATAATAAAAAACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATA
50874394 CGAACAAAGGGCAAAAATAAGGGGTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACA
66 CGAACAAAGGGCAAAAATAAGGGGTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACA
*
50874459 TTTCGAAAATTATGTACTAAAATAAAAT
131 TTTCGAAAACTATGTACTAAAATAAAAT
* * * *
50874487 AAAATAA-ATAGACACGAAGATAGTATATATTTTGAAAGTAATAAAATCCT-AAAATAAGAAAAA
1 AAAATAATA-AAAAACGAAAATAGTATATTTTTTGAAAGTAATAAAAT-CTGAAAATAAGAAAAA
50874550 TACGAA
64 TACGAA
50874556 TTTATCATTT
Statistics
Matches: 209, Mismatches: 14, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
157 45 0.22
158 159 0.76
159 5 0.02
ACGTcount: A:0.56, C:0.09, G:0.10, T:0.25
Consensus pattern (158 bp):
AAAATAATAAAAAACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATA
CGAACAAAGGGCAAAAATAAGGGGTTTTCACTAAATTTATATAAAAAACACACTAAAATAATACA
TTTCGAAAACTATGTACTAAAATAAAAT
Found at i:50874875 original size:27 final size:27
Alignment explanation
Indices: 50874828--50874894 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
50874818 AACAAATGGG
* * *
50874828 GGTGCCGCCTGTGGCAGTGGCACCTTT
1 GGTGCCGCCTGTGCCACTGGCACCATT
*
50874855 GGTGCCGCCTTTGCCACTGGCACCATT
1 GGTGCCGCCTGTGCCACTGGCACCATT
50874882 GGTGCCGCCTGTG
1 GGTGCCGCCTGTG
50874895 GCAGTCCCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.07, C:0.33, G:0.34, T:0.25
Consensus pattern (27 bp):
GGTGCCGCCTGTGCCACTGGCACCATT
Found at i:50877630 original size:43 final size:43
Alignment explanation
Indices: 50877574--50877663 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
50877564 CATTACCCAA
50877574 ACACATAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
1 ACACATAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
*
50877617 ACACATAAAAAAAATCTACTAACTATGATTGGTTTTATCAAAC
1 ACACATAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
50877660 ACAC
1 ACAC
50877664 GTAACATAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.28
Consensus pattern (43 bp):
ACACATAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
Found at i:50881159 original size:73 final size:75
Alignment explanation
Indices: 50881072--50881245 Score: 207
Period size: 73 Copynumber: 2.4 Consensus size: 75
50881062 TTTGGAAGAT
* *
50881072 GTAAAAGTTTTGGGGAGAAAGTAAAAGGAAAAAA-TTTTGGGGGGTTGGGA-GGAAGTAAAATTC
1 GTAAAAGTTTTGGGGAGAAAGTAAAAGGAAAAAAGTTTTGGAGGGTTGGGAGGGAAATAAAATT-
50881135 TCTAGGGG-AA
65 TCTAGGGGAAA
* * *
50881145 GTAAAAGTTGTGGGGAGAAAATAACAA--AAAAAAGTTTTGGAGGGTTTGGAGGGAAATAAAATT
1 GTAAAAGTTTTGGGGAGAAAGTAA-AAGGAAAAAAGTTTTGGAGGGTTGGGAGGGAAATAAAATT
* *
50881208 TTTGGGGGAAA
65 TCTAGGGGAAA
* *
50881219 GTAAAATTTTTAGGG-GAAAGTAAAAGG
1 GTAAAAGTTTTGGGGAGAAAGTAAAAGG
50881246 GTTTAAAGGA
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
72 8 0.10
73 49 0.58
74 27 0.32
ACGTcount: A:0.41, C:0.02, G:0.33, T:0.24
Consensus pattern (75 bp):
GTAAAAGTTTTGGGGAGAAAGTAAAAGGAAAAAAGTTTTGGAGGGTTGGGAGGGAAATAAAATTT
CTAGGGGAAA
Found at i:50881223 original size:19 final size:19
Alignment explanation
Indices: 50881189--50881243 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
50881179 TTTTGGAGGG
50881189 TTTGGAGGGAAA-TAAAATT
1 TTTGG-GGGAAAGTAAAATT
50881208 TTTGGGGGAAAGTAAAATT
1 TTTGGGGGAAAGTAAAATT
*
50881227 TTTAGGGGAAAGTAAAA
1 TTTGGGGGAAAGTAAAA
50881244 GGGTTTAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 6 0.18
19 28 0.82
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (19 bp):
TTTGGGGGAAAGTAAAATT
Found at i:50881250 original size:20 final size:19
Alignment explanation
Indices: 50881212--50881250 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
50881202 AAAATTTTTG
**
50881212 GGGGAAAGTAAAATTTTTA
1 GGGGAAAGTAAAAGGTTTA
50881231 GGGGAAAGTAAAAGGGTTTA
1 GGGGAAAGTAAAA-GGTTTA
50881251 AAGGAGTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (19 bp):
GGGGAAAGTAAAAGGTTTA
Found at i:50881413 original size:23 final size:22
Alignment explanation
Indices: 50881370--50881413 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
50881360 AAAAAATATC
*
50881370 TAGTTGATTCGATTAACTCGAT
1 TAGTTGATTCGAATAACTCGAT
* *
50881392 TAGTTCGATTTGAATAATTCGA
1 TAGTT-GATTCGAATAACTCGA
50881414 AATTCGAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (22 bp):
TAGTTGATTCGAATAACTCGAT
Found at i:50882970 original size:2 final size:2
Alignment explanation
Indices: 50882963--50882991 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
50882953 AACAATACAA
50882963 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 A
50882992 ATAAATACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50885006 original size:20 final size:19
Alignment explanation
Indices: 50884923--50885015 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 19
50884913 GTGGGACATG
* * *
50884923 GTATCAATACTTTGAGGAAG
1 GTATCGATACTTTG-GTAAA
*
50884943 GTATTGATACTTTGGGTAAA
1 GTATCGATACTTT-GGTAAA
* *
50884963 GTATAGATACTCTGAGTAAA
1 GTATCGATACTTTG-GTAAA
*
50884983 GTATCGATACTTTGTTAAA
1 GTATCGATACTTTGGTAAA
*
50885002 GGTATCAATACTTT
1 -GTATCGATACTTT
50885016 TTTATTTTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 5 0.08
20 54 0.90
21 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (19 bp):
GTATCGATACTTTGGTAAA
Found at i:50885013 original size:40 final size:41
Alignment explanation
Indices: 50884922--50885013 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 41
50884912 GGTGGGACAT
* * *
50884922 GGTATCAATACTTTGAGGAAGGTATTGATACTTTGGGTAAA
1 GGTATCAATACTCTGAGGAAAGTATCGATACTTTGGGTAAA
* *
50884963 -GTAT-AGATACTCTGAGTAAAGTATCGATACTTT-GTTAAA
1 GGTATCA-ATACTCTGAGGAAAGTATCGATACTTTGGGTAAA
50885002 GGTATCAATACT
1 GGTATCAATACT
50885014 TTTTTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
39 6 0.14
40 36 0.84
41 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.35
Consensus pattern (41 bp):
GGTATCAATACTCTGAGGAAAGTATCGATACTTTGGGTAAA
Found at i:50886256 original size:20 final size:21
Alignment explanation
Indices: 50886231--50886272 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
50886221 CCTCACGTTC
50886231 CATTTTT-CTTTTCTTTCTTT
1 CATTTTTCCTTTTCTTTCTTT
*
50886251 CATTTTTCCTTTTGTTTCTTT
1 CATTTTTCCTTTTCTTTCTTT
50886272 C
1 C
50886273 TCTTTCTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.71
Consensus pattern (21 bp):
CATTTTTCCTTTTCTTTCTTT
Found at i:50887000 original size:29 final size:29
Alignment explanation
Indices: 50886957--50887012 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
50886947 GTGTCTGGCC
* *
50886957 GTGTGCCAGGTTGTGTAAGCCACACGGAT
1 GTGTACCAGGCTGTGTAAGCCACACGGAT
**
50886986 GTGTACCAGGCTGTGTGGGCCACACGG
1 GTGTACCAGGCTGTGTAAGCCACACGG
50887013 GCTGTGCCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.18, C:0.23, G:0.38, T:0.21
Consensus pattern (29 bp):
GTGTACCAGGCTGTGTAAGCCACACGGAT
Found at i:50888745 original size:11 final size:11
Alignment explanation
Indices: 50888731--50888755 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50888721 TTTTTAATTA
50888731 TTTAATAATAT
1 TTTAATAATAT
50888742 TTTAATAATAT
1 TTTAATAATAT
50888753 TTT
1 TTT
50888756 TATGCAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:50891665 original size:21 final size:21
Alignment explanation
Indices: 50891641--50891684 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50891631 AATGCATGTG
50891641 TATAT-ATAGGTAAAATAATAA
1 TATATAAT-GGTAAAATAATAA
* *
50891662 TATATAATGTTATAATAATAA
1 TATATAATGGTAAAATAATAA
50891683 TA
1 TA
50891685 GCAATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (21 bp):
TATATAATGGTAAAATAATAA
Found at i:50893190 original size:89 final size:88
Alignment explanation
Indices: 50893010--50894201 Score: 1211
Period size: 89 Copynumber: 13.5 Consensus size: 88
50893000 CAGCTTTCCT
* * *** *
50893010 CTTTGATCTACTTCACACCAATACATGAAGACAAGATCCATTTTCTT-GATCTAATCCACCACCA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCA
50893074 GTATGGGGAGACAAGATCTGTTGA
66 GTATGGGGAGACAAGATCTGTT-A
* *
50893098 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACTA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCA
50893163 GTATGGGGAGACAAGATCTGTTGA
66 GTATGGGGAGACAAGATCTGTT-A
* * * *
50893187 CTTTGATCTACTTCACGCCAATACATGAAGATAAGATCTACTTTCTTCAATCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCA
50893252 GTATGGGGAGACAAGATCTGTTGA
66 GTATGGGGAGACAAGATCTGTT-A
* * * ** *
50893276 CTTTGATCTACTTCACTCCAATACATGAAGATAAGATCTATTTTCTTCAATCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCA
*
50893341 GTATGGGGAGACAAGATCTGCTA
66 GTATGGGGAGACAAGATCTGTTA
** * *
50893364 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCTACTTCGCCACC
1 -CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACC
*
50893429 AGTATGGGAAGACAAGATCTAG-TA
65 AGTATGGGGAGACAAGATCT-GTTA
*** * * * **
50893453 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGAAATCTACAATCTATTCCA-CTGC
1 -CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACC
* **** * *
50893517 TGCCCAGGGAGA-TAGAATTACTG--G
65 AGTATGGGGAGACAAG-A-T-CTGTTA
** * * * * * * ** * ** * * *
50893541 CTTCAATATACTCCACTGCAACCT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTA-
1 CTTTGATCTACTTCAC-GCCA-GTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCAC
* * * *
50893604 CTGCT-TAGGGAGATAAGATCTGTAA
64 CAG-TATGGGGAGACAAGATCTGTTA
* * * *** * * * * * * * * *
50893629 TCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAAATCTG-TATATTTGATCCACTTCGCTAC
1 -CTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCAC
* * * * *
50893693 C-GATATAGGAAGATAGGACCTGTTA
64 CAG-TATGGGGAGACAAGATCTGTTA
* *
50893718 CCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTACTCCACCACC
1 -CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACC
*
50893783 AGTATGGGGAGACAAGA-CTTGTTT
65 AGTATGGGGAGACAAGATC-TGTTA
* * *
50893807 CTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCA
* *
50893872 GTATGGGGAGACAAGATTTGTTT
66 GTATGGGGAGACAAGATCTGTTA
* * *
50893895 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTATCTTTGATCTACTCCACCACTA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCA
*
50893960 GTATGGGGAGACAAGATCTGTTT
66 GTATGGGGAGACAAGATCTGTTA
* *
50893983 CTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCA
* * *
50894048 GTATGGGGTGGCAAGATCTGTTT
66 GTATGGGGAGACAAGATCTGTTA
* * * *
50894071 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCTTCGATCTACTTCGCCACCA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCA
* *
50894136 GTACGGGAAGACAAGATCTGTTA
66 GTATGGGGAGACAAGATCTGTTA
*
50894159 TCTTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCT
1 -CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
50894202 GCTTTTCAAC
Statistics
Matches: 950, Mismatches: 131, Indels: 45
0.84 0.12 0.04
Matches are distributed among these distances:
86 3 0.00
87 15 0.02
88 457 0.48
89 470 0.49
90 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (88 bp):
CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCA
GTATGGGGAGACAAGATCTGTTA
Found at i:50893490 original size:44 final size:43
Alignment explanation
Indices: 50893009--50894199 Score: 644
Period size: 44 Copynumber: 27.0 Consensus size: 43
50892999 TCAGCTTTCC
* * *
50893009 TCTTTGATCTACTTCACACCAATACATGAAGACAAGATCCAT-TT
1 TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGAT-C-TGTT
* * * ** *
50893053 TC-TTGATCTAATCCACCACCAGTATGGGGAGACAAGATCTGTT
1 TCTTTGATCTACTTCA-CGCCAGTACAGGAAGACAAGATCTGTT
* * *
50893096 GACTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 -TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATCTG-TT
* * ** *
50893141 TCTTCGATCTACTCCAC-CACTAGTATGGGGAGACAAGATCTGTT
1 TCTTTGATCTACTTCACGC-C-AGTACAGGAAGACAAGATCTGTT
* * * * *
50893185 GACTTTGATCTACTTCACGCCAATACATGAAGATAAGATCTACTT
1 -TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATCT-GTT
** * * ** *
50893230 TCTTCAATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTT
1 TCTTTGATCTACTTCA-CGCCAGTACAGGAAGACAAGATCTGTT
* * * * * *
50893274 GACTTTGATCTACTTCACTCCAATACATGAAGATAAGATCTATTT
1 -TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATCT-GTT
** * * ** * *
50893319 TCTTCAATCTACTCCACCACCAGTATGGGGAGACAAGATCTGCTA
1 TCTTTGATCTACTTCA-CGCCAGTACAGGAAGACAAGATCTG-TT
* *
50893364 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTT
1 TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATCT-GTT
* * * ** *
50893408 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAGTA
1 TCTTTGATCTACTTC-ACGCCAGTACAGGAAGACAAGATCT-GTT
* **
50893453 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGAAA
1 TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATCTG-TT
*** * ** * *
50893497 TCTACAATCTA-TTCCACTG-CTGCCCAGGGAGA-TAGAATTACTG--
1 TCTTTGATCTACTT-CAC-GCCAGTACAGGAAGACAAG-A-T-CTGTT
* ** * * * * * ** * **
50893540 GCTTCAATATACTCCACTGCAACCT-CAGGGAGGTAAAATCTGCCA
1 TCTTTGATCTACTTCAC-GCCA-GTACAGGAAGACAAGATCTG-TT
* * ** * * * * *
50893585 TCTTTGATCTGCTCCACTACTGCT-TAGGGAGATAAGATCTGTAA
1 TCTTTGATCTACTTCACGCCAG-TACAGGAAGACAAGATCTGT-T
* * * ** * * *
50893629 TCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAAATCTGTA
1 TCTTTGATCTACTTC-ACGCCAGTACAGGAAGACAAGATCTGTT
* * * * * * * *
50893673 TATTTGATCCACTTCGCTACC-GATATAGGAAGATAGGACCTGTT
1 TCTTTGATCTACTTCAC-GCCAG-TACAGGAAGACAAGATCTGTT
* *
50893717 ACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
1 -TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATCTG-TT
* * ** *
50893762 TCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGA-CTTGTT
1 TCTTTGATCTACTTCA-CGCCAGTACAGGAAGACAAGATC-TGTT
* *
50893806 TCTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTGTTT
1 TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATCTG-TT
* * ** * *
50893850 TCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATTTGTT
1 TCTTTGATCTACTTCA-CGCCAGTACAGGAAGACAAGATCTGTT
* *
50893894 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATCTG-TT
* ** *
50893938 TCTTTGATCTACTCCAC-CACTAGTATGGGGAGACAAGATCTGTT
1 TCTTTGATCTACTTCACGC-C-AGTACAGGAAGACAAGATCTGTT
* *
50893982 TCTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATCTG-TT
* * ** ** *
50894026 TCTTTGATCTACTCCACCACCAGTATGGGGTGGCAAGATCTGTT
1 TCTTTGATCTACTTCA-CGCCAGTACAGGAAGACAAGATCTGTT
* *
50894070 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTT
1 TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATCTG-TT
* * * *
50894114 TCTTCGATCTACTTCGCCACCAGTACGGGAAGACAAGATCTGTT
1 TCTTTGATCTACTTC-ACGCCAGTACAGGAAGACAAGATCTGTT
* *
50894158 ATCTTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTG
1 -TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATCTG
50894200 CTGCTTTTCA
Statistics
Matches: 863, Mismatches: 231, Indels: 106
0.72 0.19 0.09
Matches are distributed among these distances:
42 4 0.00
43 107 0.12
44 449 0.52
45 299 0.35
46 4 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
TCTTTGATCTACTTCACGCCAGTACAGGAAGACAAGATCTGTT
Found at i:50900798 original size:21 final size:21
Alignment explanation
Indices: 50900774--50900817 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
50900764 AATGCATGTG
50900774 TATAT-ATAGGTATAATAATAA
1 TATATAAT-GGTATAATAATAA
*
50900795 TATATAATGTTATAATAATAA
1 TATATAATGGTATAATAATAA
50900816 TA
1 TA
50900818 GCAATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
TATATAATGGTATAATAATAA
Found at i:50902095 original size:18 final size:17
Alignment explanation
Indices: 50902069--50902104 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
50902059 TTTGGTTATA
50902069 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
50902087 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
50902104 T
1 T
50902105 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:50902264 original size:47 final size:47
Alignment explanation
Indices: 50902195--50902290 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
50902185 TTTGGTCTTC
*
50902195 AAACAATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
1 AAACAATATTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
50902242 AAACAATATTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
1 AAACAATATTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
50902289 AA
1 AA
50902291 CACTACAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (47 bp):
AAACAATATTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
Found at i:50905419 original size:42 final size:42
Alignment explanation
Indices: 50905373--50905459 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
50905363 GATGTTGAGG
50905373 ATGTAGCTACTACAAATACTCATGAAGAAAGAAACAATTTCT
1 ATGTAGCTACTACAAATACTCATGAAGAAAGAAACAATTTCT
50905415 ATGTAGCTACTACAAATACTCATGAAGAAAGAAACAATTTCT
1 ATGTAGCTACTACAAATACTCATGAAGAAAGAAACAATTTCT
50905457 ATG
1 ATG
50905460 GATGCGAAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (42 bp):
ATGTAGCTACTACAAATACTCATGAAGAAAGAAACAATTTCT
Found at i:50906238 original size:21 final size:21
Alignment explanation
Indices: 50906197--50906239 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
50906187 AATAAAGTAG
*
50906197 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
50906218 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
50906239 A
1 A
50906240 AATTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:50906264 original size:36 final size:38
Alignment explanation
Indices: 50906222--50906303 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
50906212 TATAGTATTA
*
50906222 TATATTATG-ATTTTAGTAAATT-TATATAATAATAAT
1 TATATTAAGAATTTTAGTAAATTATATATAATAATAAT
* * *
50906258 TATATTAAGAATTTTATTAAATTATATTTAATAATAGT
1 TATATTAAGAATTTTAGTAAATTATATATAATAATAAT
*
50906296 TATGTTAA
1 TATATTAA
50906304 AATATGGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 8 0.21
37 12 0.31
38 19 0.49
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (38 bp):
TATATTAAGAATTTTAGTAAATTATATATAATAATAAT
Found at i:50907783 original size:20 final size:21
Alignment explanation
Indices: 50907760--50907802 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
50907750 ATTGTTATAG
50907760 TTAAAATTTT-AAAATA-TTT
1 TTAAAATTTTAAAAATACTTT
*
50907779 TTTAAATTTTAAAAATACTTT
1 TTAAAATTTTAAAAATACTTT
50907800 TTA
1 TTA
50907803 TTAATTACGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 6 0.30
21 5 0.25
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAAAATTTTAAAAATACTTT
Found at i:50907785 original size:19 final size:20
Alignment explanation
Indices: 50907763--50907802 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
50907753 GTTATAGTTA
*
50907763 AAATTTT-AAAATATTTTTT
1 AAATTTTAAAAATACTTTTT
50907782 AAATTTTAAAAATACTTTTT
1 AAATTTTAAAAATACTTTTT
50907802 A
1 A
50907803 TTAATTACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTTTAAAAATACTTTTT
Found at i:50913256 original size:19 final size:19
Alignment explanation
Indices: 50913232--50913363 Score: 201
Period size: 19 Copynumber: 6.8 Consensus size: 19
50913222 AATTTTTGAG
50913232 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
50913251 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
50913270 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
50913289 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
50913310 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
** *
50913329 GATATATAATCTTAAATAT
1 GATATGCAATCTTAGATAT
50913348 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
50913364 ATATATGATT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 84 0.82
21 19 0.18
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:50913297 original size:59 final size:57
Alignment explanation
Indices: 50913232--50913370 Score: 201
Period size: 59 Copynumber: 2.4 Consensus size: 57
50913222 AATTTTTGAG
* *
50913232 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAAATAT
* * *
50913289 GATATATGCAATCTTAGATATGATATGTAATCTTAGATATGATATATAATCTTAAATAT
1 G--ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAAATAT
50913348 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
50913371 ATTTTGTAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 16 0.21
59 52 0.69
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.37
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAAATAT
Done.