Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168341.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_563, whole genome shotgun sequence
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: 22876
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.66
Found at i:107 original size:38 final size:39
Alignment explanation
Indices: 34--113 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 39
24 TTTGTTTATT
*
34 TTTTATTTTTTTTGTTTTACTTTAATATTCTTTTC-TTA
1 TTTTATTTTTTTTGGTTTACTTTAATATTCTTTTCTTTA
**
72 TTTTATTTTTATTTGGTTTA-TTTTTTATT-TCTTTCTTTA
1 TTTTATTTTT-TTTGGTTTACTTTAATATTCT-TTTCTTTA
111 TTT
1 TTT
114 AAATTTTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 1 0.03
38 21 0.58
39 14 0.39
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (39 bp):
TTTTATTTTTTTTGGTTTACTTTAATATTCTTTTCTTTA
Found at i:348 original size:22 final size:22
Alignment explanation
Indices: 323--367 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
313 TAATCTTTTG
*
323 TCTT-TGATTTTTTATATTGTTT
1 TCTTATGATTTCTTATA-TGTTT
*
345 TCTTATTATTTCTTATATGTTT
1 TCTTATGATTTCTTATATGTTT
367 T
1 T
368 TCAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.71
Consensus pattern (22 bp):
TCTTATGATTTCTTATATGTTT
Found at i:479 original size:9 final size:9
Alignment explanation
Indices: 450--607 Score: 61
Period size: 9 Copynumber: 18.4 Consensus size: 9
440 AATTTTTGTC
450 TTTTTT-TA
1 TTTTTTATA
*
458 TTTTCT-TA
1 TTTTTTATA
*
466 CTTTTTATA
1 TTTTTTATA
475 TTTTTTAT-
1 TTTTTTATA
*
483 TGTATTTT-TG
1 T-T-TTTTATA
*
493 TTTATTTACA
1 TTT-TTTATA
503 --TTTTATA
1 TTTTTTATA
*
510 TTTTTT-TC
1 TTTTTTATA
518 TTATTTT-TA
1 TT-TTTTATA
527 TTTTTTAT-
1 TTTTTTATA
* *
535 TTCTTTCT-
1 TTTTTTATA
*
543 TTATTTATA
1 TTTTTTATA
*
552 -TTTTCATA
1 TTTTTTATA
*
560 ATTTTTATA
1 TTTTTTATA
* **
569 TGTTTTGGA
1 TTTTTTATA
578 TTTTTT-TA
1 TTTTTTATA
*
586 TTTTTTATC
1 TTTTTTATA
*
595 TTTTTTATC
1 TTTTTTATA
604 TTTT
1 TTTT
608 CTTTTTTTAT
Statistics
Matches: 114, Mismatches: 23, Indels: 25
0.70 0.14 0.15
Matches are distributed among these distances:
7 5 0.04
8 46 0.40
9 58 0.51
10 5 0.04
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (9 bp):
TTTTTTATA
Found at i:531 original size:25 final size:26
Alignment explanation
Indices: 469--565 Score: 85
Period size: 25 Copynumber: 3.8 Consensus size: 26
459 TTTCTTACTT
*
469 TTTATATTTTT-TATTGTATTTTTGTTTA
1 TTTATATTTTTATA-T-T-TTTTTCTTTA
*
497 TTTACA-TTTTATATTTTTTTC-TTA
1 TTTATATTTTTATATTTTTTTCTTTA
* *
521 TTTTTATTTTT-TATTTCTTTCTTTA
1 TTTATATTTTTATATTTTTTTCTTTA
* *
546 TTTATATTTTCATAATTTTT
1 TTTATATTTTTATATTTTTT
566 ATATGTTTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
24 16 0.29
25 21 0.38
26 7 0.12
27 5 0.09
28 7 0.12
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTATATTTTTATATTTTTTTCTTTA
Found at i:545 original size:19 final size:19
Alignment explanation
Indices: 504--548 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
494 TTATTTACAT
* *
504 TTTATATTTTTTTCTTATT
1 TTTATTTTTTTTTCTTATC
523 TTTATTTTTTATTTCTT-TC
1 TTTATTTTTT-TTTCTTATC
542 TTTATTT
1 TTTATTT
549 ATATTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTATTTTTTTTTCTTATC
Found at i:591 original size:17 final size:15
Alignment explanation
Indices: 450--619 Score: 80
Period size: 17 Copynumber: 10.7 Consensus size: 15
440 AATTTTTGTC
450 TTTTTTTATTTTCTTA
1 TTTTTTTATTTT-TTA
*
466 CTTTTTATATTTTTTA
1 -TTTTTTTATTTTTTA
* *
482 TTGTATTT-TTGTTTA
1 TT-TTTTTATTTTTTA
*
497 TTTACATTTTA-TATTT-
1 TTT---TTTTATTTTTTA
*
513 TTTTCTTA-TTTTTA
1 TTTTTTTATTTTTTA
*
527 -TTTTTTATTTCTTTC
1 TTTTTTTATTT-TTTA
*
542 TTTATTTATATTTTCATAA
1 TTT-TTT-TATTTT--TTA
* *
561 TTTTTATATGTTTTGGA
1 TTTTTTTAT-TTTT-TA
578 TTTTTTTATTTTTTA
1 TTTTTTTATTTTTTA
* *
593 TCTTTTTTATCTTTTC
1 T-TTTTTTATTTTTTA
609 TTTTTTTATTT
1 TTTTTTTATTT
620 ATCGTTGTTG
Statistics
Matches: 118, Mismatches: 19, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
13 14 0.12
14 3 0.03
15 24 0.20
16 29 0.25
17 34 0.29
18 10 0.08
19 4 0.03
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTTTTTATTTTTTA
Found at i:607 original size:24 final size:23
Alignment explanation
Indices: 451--614 Score: 82
Period size: 24 Copynumber: 6.6 Consensus size: 23
441 ATTTTTGTCT
451 TTTTTTATTTTCTTA-CTTTTTATA
1 TTTTTTATTTT-TTATCTTTTT-TA
* *
475 TTTTTTATTGTATTTTTGTTTATTTACA
1 TTTTTTATT-T-TTTATCTTT-TTT--A
*
503 TTTTATATTTTTT-TCTTATTTTTA
1 TTTTTTATTTTTTATC-T-TTTTTA
*
527 TTTTTTATTTCTT-TCTTTATTTA
1 TTTTTTATTTTTTATCTTT-TTTA
* **
550 TATTTTCATAATTTTTATATGTTTTGGA
1 T-TTTT--T-ATTTTT-TATCTTTTTTA
578 TTTTTTTATTTTTTATCTTTTTTA
1 -TTTTTTATTTTTTATCTTTTTTA
* *
602 TCTTTTCTTTTTT
1 TTTTTTATTTTTT
615 TATTTATCGT
Statistics
Matches: 109, Mismatches: 15, Indels: 33
0.69 0.10 0.21
Matches are distributed among these distances:
22 2 0.02
23 17 0.16
24 35 0.32
25 10 0.09
26 14 0.13
27 10 0.09
28 16 0.15
29 5 0.05
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (23 bp):
TTTTTTATTTTTTATCTTTTTTA
Found at i:1453 original size:12 final size:12
Alignment explanation
Indices: 1431--1485 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
1421 TATCTAATTA
*
1431 AATTCATCTTGT
1 AATTTATCTTGT
* *
1443 ATTTTATCTTGA
1 AATTTATCTTGT
1455 AATTTAT-TT-T
1 AATTTATCTTGT
*
1465 -ATTTATCGTGT
1 AATTTATCTTGT
1476 AATTTATCTT
1 AATTTATCTT
1486 AAATTATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
9 6 0.18
10 1 0.03
11 3 0.09
12 23 0.70
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.58
Consensus pattern (12 bp):
AATTTATCTTGT
Found at i:2401 original size:16 final size:16
Alignment explanation
Indices: 2331--2403 Score: 51
Period size: 17 Copynumber: 4.4 Consensus size: 16
2321 TTTTTCTTTC
*
2331 CTTTTTTCATTTTATTA
1 CTTTTTT-ATTTTCTTA
*
2348 GTTTTTGTATTTT-TTA
1 CTTTTT-TATTTTCTTA
* * *
2364 ATTTTTTCTTTTAACTCA
1 CTTTTTTATTTT--CTTA
2382 -TTTTTTATTTTCTTA
1 CTTTTTTATTTTCTTA
2397 CTTTTTT
1 CTTTTTT
2404 TAATTGCGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
15 8 0.18
16 14 0.31
17 20 0.44
18 3 0.07
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.73
Consensus pattern (16 bp):
CTTTTTTATTTTCTTA
Found at i:2888 original size:24 final size:22
Alignment explanation
Indices: 2832--2888 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
2822 GTGAACTTCC
2832 TTTTGATTTTATTTATATTTTG
1 TTTTGATTTTATTTATATTTTG
* *
2854 TATTGACTTTTATTTTATTTTTTG
1 TTTTGA-TTTTA-TTTATATTTTG
2878 TCTTTGATTTT
1 T-TTTGATTTT
2889 TTATGTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.17
23 5 0.17
24 15 0.52
25 4 0.14
ACGTcount: A:0.16, C:0.04, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTTGATTTTATTTATATTTTG
Found at i:3018 original size:15 final size:16
Alignment explanation
Indices: 3000--3037 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
2990 CGTTTTATAT
3000 TTTTTTATTCTC-TAA
1 TTTTTTATTCTCTTAA
* *
3015 TTTTTTATTTTCTTAC
1 TTTTTTATTCTCTTAA
3031 TTTTTTA
1 TTTTTTA
3038 CTTTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTATTCTCTTAA
Found at i:3034 original size:16 final size:15
Alignment explanation
Indices: 3000--3042 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
2990 CGTTTTATAT
*
3000 TTTTTTATTCTCTAA
1 TTTTTTATTTTCTAA
*
3015 TTTTTTATTTTCTTAC
1 TTTTTTATTTTC-TAA
3031 TTTTTTACTTTT
1 TTTTTTA-TTTT
3043 TGTTTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 9 0.38
17 4 0.17
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTATTTTCTAA
Found at i:3095 original size:8 final size:8
Alignment explanation
Indices: 2992--3112 Score: 56
Period size: 8 Copynumber: 15.5 Consensus size: 8
2982 CATTTTATCG
*
2992 TTTTATAT
1 TTTTTTAT
3000 TTTTTTA-
1 TTTTTTAT
* * *
3007 TTCTCTAA
1 TTTTTTAT
3015 TTTTTTAT
1 TTTTTTAT
* *
3023 TTTCTTAC
1 TTTTTTAT
3031 TTTTTTACT
1 TTTTTTA-T
3040 TTTTGTT-T
1 TTTT-TTAT
*
3048 TTGTTTA-
1 TTTTTTAT
3055 -TTTTTA-
1 TTTTTTAT
* *
3061 ATTGTTAT
1 TTTTTTAT
*
3069 TTTTTTAG
1 TTTTTTAT
*
3077 TATTTTAT
1 TTTTTTAT
3085 TTTATTT-T
1 TTT-TTTAT
**
3093 TTTTCAAT
1 TTTTTTAT
3101 TTTTTTAT
1 TTTTTTAT
3109 TTTT
1 TTTT
3113 GATTAATTAT
Statistics
Matches: 82, Mismatches: 23, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
6 5 0.06
7 13 0.16
8 55 0.67
9 7 0.09
10 2 0.02
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (8 bp):
TTTTTTAT
Found at i:3096 original size:53 final size:55
Alignment explanation
Indices: 3014--3171 Score: 130
Period size: 53 Copynumber: 2.9 Consensus size: 55
3004 TTATTCTCTA
* * * * *
3014 ATTTTTTATTTTCTTACTTTTTTA-CTTTTTGTTTTTGTTTATTTTTAATT-GTT
1 ATTTTTTAGTATCTTACTTTTATATTTTTTTGTTTTTGTTTATTTTTAATTAATT
* ** *
3067 ATTTTTTTAGTATTTTA-TTTTAT-TTTTTTTCAATTTT-TTTATTTTTGATTAATT
1 A-TTTTTTAGTATCTTACTTTTATATTTTTTT-GTTTTTGTTTATTTTTAATTAATT
*
3121 ATTTTTTATTATCTTACCTTTTATATTTTTATTGTATTTTCGTTT-TTTTTA
1 ATTTTTTAGTATCTTA-CTTTTATATTTTT-TTGT-TTTT-GTTTATTTTTA
3172 TTTTTTTTGT
Statistics
Matches: 80, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
53 36 0.45
54 19 0.24
55 6 0.08
56 5 0.06
57 6 0.08
58 5 0.06
59 3 0.04
ACGTcount: A:0.17, C:0.05, G:0.04, T:0.73
Consensus pattern (55 bp):
ATTTTTTAGTATCTTACTTTTATATTTTTTTGTTTTTGTTTATTTTTAATTAATT
Found at i:3120 original size:19 final size:20
Alignment explanation
Indices: 3084--3126 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
3074 TAGTATTTTA
*
3084 TTTTATTTTTTTTCAATT-T
1 TTTTATTTTTATTCAATTAT
3103 TTTTATTTTTGATT-AATTAT
1 TTTTATTTTT-ATTCAATTAT
3123 TTTT
1 TTTT
3127 TATTATCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTATTTTTATTCAATTAT
Found at i:3590 original size:9 final size:8
Alignment explanation
Indices: 3574--3651 Score: 54
Period size: 9 Copynumber: 9.2 Consensus size: 8
3564 AATTTTTTGC
3574 TTTT-TTT
1 TTTTATTT
*
3581 TTTTA-CT
1 TTTTATTT
3588 TTTTATATT
1 TTTTAT-TT
3597 TTTTATTGT
1 TTTTATT-T
3606 ATTTT-TTT
1 -TTTTATTT
3614 TATTTATTT
1 T-TTTATTT
3623 TATTTATTCT
1 T-TTTATT-T
*
3633 TTTAATATT
1 TTTTAT-TT
3642 TTTTATTT
1 TTTTATTT
3650 TT
1 TT
3652 ATTTTTATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
7 11 0.19
8 9 0.16
9 31 0.53
10 7 0.12
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (8 bp):
TTTTATTT
Found at i:3613 original size:13 final size:13
Alignment explanation
Indices: 3589--3630 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
3579 TTTTTTACTT
*
3589 TTTATATTTTTTA
1 TTTATTTTTTTTA
3602 TTGTATTTTTTTTA
1 TT-TATTTTTTTTA
*
3616 TTTATTTTATTTA
1 TTTATTTTTTTTA
3629 TT
1 TT
3631 CTTTTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (13 bp):
TTTATTTTTTTTA
Found at i:3659 original size:30 final size:29
Alignment explanation
Indices: 3579--3665 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 29
3569 TTTGCTTTTT
* * *
3579 TTTTTTACTTTTTATATTTT-TTATTGTATT
1 TTTTTTA-TTTTTAT-TTTTATTCTTTTATA
3609 TTTTTTATTTATT-TTATTTATTCTTTTAATA
1 TTTTTTATTT-TTATT-TTTATTCTTTT-ATA
3640 TTTTTTATTTTTATTTTTATTTCTTT
1 TTTTTTATTTTTATTTTTA-TTCTTT
3666 ATTTATATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
28 1 0.02
29 7 0.15
30 20 0.42
31 20 0.42
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.78
Consensus pattern (29 bp):
TTTTTTATTTTTATTTTTATTCTTTTATA
Found at i:3674 original size:33 final size:33
Alignment explanation
Indices: 3574--3675 Score: 97
Period size: 31 Copynumber: 3.1 Consensus size: 33
3564 AATTTTTTGC
* *
3574 TTTTTT-TTTTTACTTTTTATATTTTTTATTGTATT
1 TTTTTTATTTTTA-TTTTTAT-TTCTTTATT-TATA
*
3609 TTTTTTATTTATT-TTATTTA-TTC-TT-TTAATA
1 TTTTTTATTT-TTATT-TTTATTTCTTTATTTATA
3640 TTTTTTATTTTTATTTTTATTTCTTTATTTATA
1 TTTTTTATTTTTATTTTTATTTCTTTATTTATA
3673 TTT
1 TTT
3676 GCATATATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
30 6 0.11
31 17 0.30
32 4 0.07
33 10 0.18
34 2 0.04
35 8 0.14
36 7 0.12
37 2 0.04
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (33 bp):
TTTTTTATTTTTATTTTTATTTCTTTATTTATA
Found at i:3688 original size:52 final size:45
Alignment explanation
Indices: 3587--3675 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 45
3577 TTTTTTTTAC
3587 TTTTT-ATATTTTTTATTGTATTTTTTTTATTTATTTTATTTATT
1 TTTTTAATATTTTTTATTGTATTTTTTTTATTTATTTTATTTATT
* * *
3631 CTTTTAATATTTTTTATTTTTATTTTTATTTCTTTATTTATATTT
1 TTTTTAATATTTTTTA-TTGTATTTTT-TTTATTTATTT-TATTT
3676 GCATATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 4 0.11
45 10 0.26
46 9 0.24
47 10 0.26
48 5 0.13
ACGTcount: A:0.19, C:0.02, G:0.01, T:0.78
Consensus pattern (45 bp):
TTTTTAATATTTTTTATTGTATTTTTTTTATTTATTTTATTTATT
Found at i:3765 original size:18 final size:17
Alignment explanation
Indices: 3723--3765 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
3713 CTACCTCTTC
3723 TTTTTTATTTATCATTG
1 TTTTTTATTTATCATTG
** *
3740 TTGGTTATTTTTCTATTG
1 TTTTTTATTTATC-ATTG
3758 TTTTTTAT
1 TTTTTTAT
3766 AATTTCATTT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.14, C:0.05, G:0.09, T:0.72
Consensus pattern (17 bp):
TTTTTTATTTATCATTG
Found at i:4279 original size:19 final size:20
Alignment explanation
Indices: 4257--4305 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
4247 TTTTCCTTAC
4257 TTTCTTTATTTT-TTATT-TT
1 TTTCTTT-TTTTATTATTATT
4276 TTTCTTTTTTTATTATTATT
1 TTTCTTTTTTTATTATTATT
4296 TTATCTTTTT
1 TT-TCTTTTT
4306 CCTTTTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.15
19 12 0.44
20 4 0.15
21 7 0.26
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTCTTTTTTTATTATTATT
Found at i:4932 original size:16 final size:15
Alignment explanation
Indices: 4881--4986 Score: 77
Period size: 16 Copynumber: 6.5 Consensus size: 15
4871 TATTAGCTAA
4881 TTTTTTTATTTTCTTC
1 TTTTTTTATTTT-TTC
* *
4897 CTTTTTTATTTTTTGT
1 TTTTTTTATTTTTT-C
4913 TTTTGTTTATTTTTTC
1 TTTT-TTTATTTTTTC
4929 TTTTATATTAATATTTTTTC
1 -TTT-T-TT--TATTTTTTC
**
4949 TTAATTTATTTTTTC
1 TTTTTTTATTTTTTC
* *
4964 ATTTTCTTATTTTGTC
1 -TTTTTTTATTTTTTC
4980 TTTTTTT
1 TTTTTTT
4987 TTCCTATTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
15 17 0.24
16 25 0.35
17 15 0.21
18 3 0.04
19 2 0.03
20 9 0.13
ACGTcount: A:0.12, C:0.08, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTTTTATTTTTTC
Found at i:4988 original size:20 final size:19
Alignment explanation
Indices: 4942--4996 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
4932 TATATTAATA
*
4942 TTTTTTCTTAATTTATTTT
1 TTTTTTCTTATTTTATTTT
*
4961 TTCATTTTCTTATTTTGTCTTT
1 TT--TTTTCTTATTTTAT-TTT
*
4983 TTTTTTCCTATTTT
1 TTTTTTCTTATTTT
4997 TTGTTCTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 2 0.07
20 11 0.37
21 12 0.40
22 5 0.17
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTCTTATTTTATTTT
Found at i:5424 original size:7 final size:7
Alignment explanation
Indices: 5414--5528 Score: 74
Period size: 7 Copynumber: 15.9 Consensus size: 7
5404 TTTTGATTAA
5414 TTATTTT
1 TTATTTT
5421 TTATTTT
1 TTATTTT
*
5428 CTTACTTT
1 -TTATTTT
*
5436 TTATATT
1 TTATTTT
*
5443 TTATTGTA
1 TTATT-TT
*
5451 TT-TTGT
1 TTATTTT
5457 TTATTTT
1 TTATTTT
5464 TTATTTT
1 TTATTTT
*
5471 TT-TGTT
1 TTATTTT
*
5477 TTACTTTA
1 TTA-TTTT
*
5485 ATATTCTT
1 TTATT-TT
*
5493 TTCTTATT
1 TTATT-TT
5501 TTA-TTT
1 TTATTTT
5507 TTATTTGGT
1 TTATTT--T
5516 TTATTTT
1 TTATTTT
5523 TTATTT
1 TTATTT
5529 CTTTCTTTAT
Statistics
Matches: 82, Mismatches: 17, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
6 12 0.15
7 42 0.51
8 21 0.26
9 7 0.09
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (7 bp):
TTATTTT
Found at i:5452 original size:27 final size:26
Alignment explanation
Indices: 5422--5475 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
5412 AATTATTTTT
5422 TATTTT-CTTACTTTTTATATTTTATTG
1 TATTTTGCTTA-TTTTT-TATTTTATTG
* *
5449 TATTTTGTTTATTTTTTATTTTTTTG
1 TATTTTGCTTATTTTTTATTTTATTG
5475 T
1 T
5476 TTTACTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.42
27 11 0.46
28 3 0.12
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.76
Consensus pattern (26 bp):
TATTTTGCTTATTTTTTATTTTATTG
Found at i:5772 original size:471 final size:456
Alignment explanation
Indices: 5172--6045 Score: 1153
Period size: 471 Copynumber: 1.9 Consensus size: 456
5162 TATTCTTGCT
* * *
5172 TTTCTTTTTATTTCTTATTTGCGTTTTTAAATTCTCGTACTTTTTTTTTCAATTTCTCCTTTGGT
1 TTTCTTTTTATTTCTTATTTGCATTTTCAAATTCTCATACTTTTTTTTTCAATTTCTCCTTTGGT
* *
5237 TTTCATTTTATTTTGCAATAACTTCTCTTTTTTAATTTTTTGTCTTTGACCTTTTCTATTGTTTT
66 TTTCATTTTATTTTGCAATAACTTCTCTTTTTTAATCTTTTGTCTTTGACCTTTTATATTGTTTT
*
5302 CTTGTTATTTCTTATATGTTTTTCAATTTTTTGTA-TTTTTAAAACTA-TTTTTTT-TATTTTGT
131 CTTATTATTTCTTATATGTTTTTCAATTTTTTGTATTTTTTAAAA-TATTTTTTTTCTATTTTGT
*
5364 CA-TTCTTTTTCACTTTCT-AAATTTTTATTCAATTTTTGTATTTTGATTAATTATTTT-TTATT
195 CATTTC-CTTTCA-TTTCTGAAATTTTTATTCAATTTTTGTATTTT--TTAATT-TTTTGTTATT
* *
5426 -TTC-TTACTTTTTATATTTTATTGTA-TTTTGTTTATTTTTTA-T-T-TTTTTGTTTTACTTTA
255 ATTCATTA-TTTTT-TATTTT-CT-TACTTTT-TATATTTTTTATTGTATTTTTG-TTTA-TTT-
* * *
5485 ATATTCTTTTCTTATTTTATTTTTATTTGGTTTATTTTTTATTTCTTTCTTTATTTAAATTTTCA
312 ACA---TTTT-ATATTTT-TTCTTATTT--TTTATTTTTTA-TTCTTTCTTTATTTAAA-TTTCA
5550 TAAATGTTTAGAATGTTTTGGA-TTTTTTATTTTTCATAAATCATCTTTTGTCTTTTCATTTTTA
368 TAAATGTTTAGAATGTTTTGGATTTTTTTATTTTTCATAAATCATCTTTTGTCTTTTCATTTTTA
5614 TTATTTTCTTAATTTTTTCACAAA
433 TTATTTTCTTAATTTTTTCACAAA
* * * * *
5638 TTTCTTTTTATTTCTTATTTTCATTTTCAAATTCTTATAGTTTTTTTGTTGCATTTTCTTCTTTG
1 TTTCTTTTTATTTCTTATTTGCATTTTCAAATTCTCATACTTTTTTT-TT-CAATTTCTCCTTTG
* **
5703 GTTTTCATTTTTATTTTGCATTAACTTTTCTCTTTTTTAATCTTTTGTCTTTGATTTTTTATATT
64 GTTTTCA-TTTTATTTTGCAATAAC--TTCTCTTTTTTAATCTTTTGTCTTTGACCTTTTATATT
5768 GTTTTCTTATTATTTCTTATATGTTTTTCAATTTTTTGTATTTTTTAAAATATTTTTTTTCTATT
126 GTTTTCTTATTATTTCTTATATGTTTTTCAATTTTTTGTATTTTTTAAAATATTTTTTTTCTATT
* * * *
5833 TTGTCATTTCCTTTCATTTTTGAAATTTTTATTCAATTTTTGTCTTTTTTTATTTTTTGTTTTTG
191 TTGTCATTTCCTTTCATTTCTGAAATTTTTATTCAATTTTTGTATTTTTTAATTTTTTGTTATT-
5898 ATTCATTATTTTTTATTTTCTTACTTTTTATATTTTTTATTGTATTTTTGTTTATTTACATTTTA
255 ATTCATTATTTTTTATTTTCTTACTTTTTATATTTTTTATTGTATTTTTGTTTATTTACATTTTA
* * *
5963 TATTTTTTCTTATTTTTTATTTTTTATTCTTTCTTTATTTATATTTCATAAATTTTTATAATGTT
320 TATTTTTTCTTATTTTTTATTTTTTATTCTTTCTTTATTTAAATTTCATAAATGTTTAGAATGTT
6028 TTGGATTTTTTTATTTTT
385 TTGGATTTTTTTATTTTT
6046 TATCTTTTTA
Statistics
Matches: 362, Mismatches: 27, Indels: 42
0.84 0.06 0.10
Matches are distributed among these distances:
461 25 0.07
462 28 0.08
463 11 0.03
465 8 0.02
466 47 0.13
467 6 0.02
468 19 0.05
469 16 0.04
470 18 0.05
471 93 0.26
472 31 0.09
473 54 0.15
474 6 0.02
ACGTcount: A:0.18, C:0.09, G:0.05, T:0.68
Consensus pattern (456 bp):
TTTCTTTTTATTTCTTATTTGCATTTTCAAATTCTCATACTTTTTTTTTCAATTTCTCCTTTGGT
TTTCATTTTATTTTGCAATAACTTCTCTTTTTTAATCTTTTGTCTTTGACCTTTTATATTGTTTT
CTTATTATTTCTTATATGTTTTTCAATTTTTTGTATTTTTTAAAATATTTTTTTTCTATTTTGTC
ATTTCCTTTCATTTCTGAAATTTTTATTCAATTTTTGTATTTTTTAATTTTTTGTTATTATTCAT
TATTTTTTATTTTCTTACTTTTTATATTTTTTATTGTATTTTTGTTTATTTACATTTTATATTTT
TTCTTATTTTTTATTTTTTATTCTTTCTTTATTTAAATTTCATAAATGTTTAGAATGTTTTGGAT
TTTTTTATTTTTCATAAATCATCTTTTGTCTTTTCATTTTTATTATTTTCTTAATTTTTTCACAA
A
Found at i:5775 original size:22 final size:22
Alignment explanation
Indices: 5750--5794 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
5740 TAATCTTTTG
*
5750 TCTT-TGATTTTTTATATTGTTT
1 TCTTATGATTTCTTATA-TGTTT
*
5772 TCTTATTATTTCTTATATGTTT
1 TCTTATGATTTCTTATATGTTT
5794 T
1 T
5795 TCAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.71
Consensus pattern (22 bp):
TCTTATGATTTCTTATATGTTT
Found at i:5888 original size:7 final size:7
Alignment explanation
Indices: 5878--6072 Score: 79
Period size: 7 Copynumber: 25.4 Consensus size: 7
5868 ATTTTTGTCT
5878 TTTTTTA
1 TTTTTTA
*
5885 TTTTTTG
1 TTTTTTA
*
5892 TTTTTGA
1 TTTTTTA
**
5899 TTCATTA
1 TTTTTTA
5906 TTTTTTA
1 TTTTTTA
5913 TTTTCTTA
1 TTTT-TTA
5921 CTTTTTATA
1 -TTTTT-TA
5930 TTTTTTA
1 TTTTTTA
5937 TTGTATTT-
1 TT-T-TTTA
*
5945 TTGTTTA
1 TTTTTTA
**
5952 -TTTACA
1 TTTTTTA
*
5958 TTTTATATT
1 TTTT-T-TA
5967 TTTTCTTA
1 TTTT-TTA
5975 TTTTTTA
1 TTTTTTA
5982 TTTTTTA
1 TTTTTTA
* *
5989 TTCTTTC
1 TTTTTTA
5996 TTTATTTA
1 TTT-TTTA
*
6004 TATTTCATAAA
1 T-TTT--T-TA
6015 TTTTTATAA
1 TTTTT-T-A
*
6024 TGTTTTGGA
1 T-TTTT-TA
6033 TTTTTTTA
1 -TTTTTTA
6041 TTTTTTA
1 TTTTTTA
6048 TCTTTTTA
1 T-TTTTTA
* *
6056 TCTTTTC
1 TTTTTTA
6063 TTTTTTA
1 TTTTTTA
6070 TTT
1 TTT
6073 ATCGTTGTTG
Statistics
Matches: 140, Mismatches: 30, Indels: 36
0.68 0.15 0.17
Matches are distributed among these distances:
6 6 0.04
7 68 0.49
8 32 0.23
9 23 0.16
10 9 0.06
11 2 0.01
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.74
Consensus pattern (7 bp):
TTTTTTA
Found at i:5984 original size:24 final size:23
Alignment explanation
Indices: 5903--6002 Score: 78
Period size: 24 Copynumber: 4.3 Consensus size: 23
5893 TTTTGATTCA
* *
5903 TTATTTTTTATTTTCTTACTTTTT
1 TTATTTTTTATTTT-ATATTTTTT
* * *
5927 ATATTTTTTATTGTAT-TTTTGT
1 TTATTTTTTATTTTATATTTTTT
**
5949 TTA-TTTACATTTTATATTTTTT
1 TTATTTTTTATTTTATATTTTTT
*
5971 CTTATTTTTTATTTTTTATTCTTTCT
1 -TTATTTTTTATTTTATATT-TTT-T
5997 TTATTT
1 TTATTT
6003 ATATTTCATA
Statistics
Matches: 58, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
21 9 0.16
22 11 0.19
23 4 0.07
24 24 0.41
25 9 0.16
26 1 0.02
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (23 bp):
TTATTTTTTATTTTATATTTTTT
Found at i:8337 original size:24 final size:22
Alignment explanation
Indices: 8281--8337 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
8271 GTGAACTTCC
8281 TTTTGATTTTATTTATATTTTG
1 TTTTGATTTTATTTATATTTTG
* *
8303 TATTGACTTTTATTTTATTTTTTG
1 TTTTGA-TTTTA-TTTATATTTTG
8327 TCTTTGATTTT
1 T-TTTGATTTT
8338 TTATGTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.17
23 5 0.17
24 15 0.52
25 4 0.14
ACGTcount: A:0.16, C:0.04, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTTGATTTTATTTATATTTTG
Found at i:8553 original size:17 final size:18
Alignment explanation
Indices: 8511--8554 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
8501 TTATTTTTAA
8511 TTGTA-TTTTTTTAGATT
1 TTGTATTTTTTTTAGATT
* *
8528 TTTTTTTTTTTTTA-ATT
1 TTGTATTTTTTTTAGATT
8545 TTGTATTTTT
1 TTGTATTTTT
8555 GATTAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (18 bp):
TTGTATTTTTTTTAGATT
Found at i:8553 original size:18 final size:18
Alignment explanation
Indices: 8516--8554 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8506 TTTAATTGTA
*
8516 TTTTTTTAGATTTTTTTT
1 TTTTTTTAGATTTTTATT
8534 TTTTTTTA-ATTTTGTATT
1 TTTTTTTAGATTTT-TATT
8552 TTT
1 TTT
8555 GATTAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTTTAGATTTTTATT
Found at i:8588 original size:7 final size:7
Alignment explanation
Indices: 8452--8615 Score: 65
Period size: 7 Copynumber: 23.7 Consensus size: 7
8442 CGTTTTATAT
8452 TTTTTTA
1 TTTTTTA
* *
8459 TTCTCTAA
1 TT-TTTTA
8467 TTTTTTA
1 TTTTTTA
8474 TTTTGTTA
1 TTTT-TTA
*
8482 CTTTTTA
1 TTTTTTA
* *
8489 CTTTTTG
1 TTTTTTA
8496 TTTGTTTA
1 TTT-TTTA
*
8504 TTTTTAA
1 TTTTTTA
* *
8511 TTGTAT-
1 TTTTTTA
8517 TTTTTTA
1 TTTTTTA
**
8524 GATTTT-
1 TTTTTTA
8530 TTTTTT-
1 TTTTTTA
*
8536 TTTTTAA
1 TTTTTTA
*
8543 TTTTGTA
1 TTTTTTA
*
8550 TTTTTGA
1 TTTTTTA
**
8557 TTAATTA
1 TTTTTTA
8564 --TTTTA
1 TTTTTTA
*
8569 TTATTTA
1 TTTTTTA
8576 CCTTTTTTA
1 --TTTTTTA
8585 TTTTTTA
1 TTTTTTA
*
8592 --TTGTA
1 TTTTTTA
8597 TTTTCTT-
1 TTTT-TTA
8604 TTTTTTA
1 TTTTTTA
8611 TTTTT
1 TTTTT
8616 GGGTTACTTA
Statistics
Matches: 112, Mismatches: 32, Indels: 26
0.66 0.19 0.15
Matches are distributed among these distances:
5 7 0.06
6 15 0.13
7 66 0.59
8 18 0.16
9 6 0.05
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (7 bp):
TTTTTTA
Found at i:8669 original size:34 final size:34
Alignment explanation
Indices: 8595--8672 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
8585 TTTTTTATTG
8595 TATTTTCTTTTTTTTATTTTTGGGTTACTTAATT
1 TATTTTCTTTTTTTTATTTTTGGGTTACTTAATT
* * **
8629 TGTTTTCTTATTTTTT-TTTATTGGTTTA-TTTTTT
1 TATTTTCTT-TTTTTTATTT-TTGGGTTACTTAATT
8663 TATTTTCTTT
1 TATTTTCTTT
8673 CTATTAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
33 1 0.03
34 23 0.62
35 13 0.35
ACGTcount: A:0.12, C:0.05, G:0.08, T:0.76
Consensus pattern (34 bp):
TATTTTCTTTTTTTTATTTTTGGGTTACTTAATT
Found at i:8910 original size:20 final size:21
Alignment explanation
Indices: 8887--8928 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
8877 TAATTTTTTG
8887 TCTT-TGATTT-TTATATTGTT
1 TCTTATGATTTCTTATA-TGTT
*
8907 TCTTATTATTTCTTATATGTT
1 TCTTATGATTTCTTATATGTT
8928 T
1 T
8929 TTCAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (21 bp):
TCTTATGATTTCTTATATGTT
Found at i:9047 original size:20 final size:20
Alignment explanation
Indices: 9024--9068 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9014 TTTTTCTTAC
9024 TTTTTATATT-TTTTATTGTA
1 TTTTTAT-TTATTTTATTGTA
* *
9044 TTTTTGTTTATTTTATTTTA
1 TTTTTATTTATTTTATTGTA
9064 TTTTT
1 TTTTT
9069 TTCTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (20 bp):
TTTTTATTTATTTTATTGTA
Found at i:9048 original size:31 final size:32
Alignment explanation
Indices: 9012--9099 Score: 83
Period size: 33 Copynumber: 2.7 Consensus size: 32
9002 TTTTTGCCTT
*
9012 TTTTTTTCTTACTTTTTATATTTTTTATT-GTA
1 TTTTTTTCTTA-TTTTTATATTTTTTATTAATA
* * *
9044 TTTTTGT-TTATTTTATTTTATTTTTTTCTTAATA
1 TTTTTTTCTTA-TTT-TTATA-TTTTTTATTAATA
9078 TTTTTTTCTTATTTTTAT-TTTT
1 TTTTTTTCTTATTTTTATATTTT
9100 AATTTCTTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
31 10 0.22
32 10 0.22
33 11 0.24
34 11 0.24
35 3 0.07
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (32 bp):
TTTTTTTCTTATTTTTATATTTTTTATTAATA
Found at i:9079 original size:14 final size:14
Alignment explanation
Indices: 9062--9088 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9052 TATTTTATTT
9062 TATTTTTTTCTTAA
1 TATTTTTTTCTTAA
9076 TATTTTTTTCTTA
1 TATTTTTTTCTTA
9089 TTTTTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTTTTCTTAA
Found at i:9114 original size:25 final size:25
Alignment explanation
Indices: 9052--9123 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 25
9042 TATTTTTGTT
*
9052 TATTTTAT-TTTATTTTT-TTCTTAA
1 TATTTT-TCTTTATTTTTATTTTTAA
*
9076 TATTTTTTTCTTATTTTTATTTTTAA
1 TATTTTTCT-TTATTTTTATTTTTAA
*
9102 T-TTCTTTCTTTATTTATATTTT
1 TATT-TTTCTTTATTTTTATTTT
9124 CATAAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 1 0.02
24 7 0.17
25 22 0.54
26 11 0.27
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (25 bp):
TATTTTTCTTTATTTTTATTTTTAA
Found at i:9810 original size:32 final size:30
Alignment explanation
Indices: 9733--9816 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 30
9723 TTCTTTATTT
* *
9733 TTTTATTTTTTTTCTTTT-TTTATTACTTA
1 TTTTATTTTTTTCCTTTTCTTTAATACTTA
*
9762 TTTTATCTTTTTCCTTTTGCTTTAATACTT-
1 TTTTATTTTTTTCCTTTT-CTTTAATACTTA
9792 TCTCTTATTTTTTTCCTTTTACTTT
1 T-T-TTATTTTTTTCCTTTT-CTTT
9817 TTTTGGTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 16 0.35
30 1 0.02
31 10 0.22
32 19 0.41
ACGTcount: A:0.12, C:0.14, G:0.01, T:0.73
Consensus pattern (30 bp):
TTTTATTTTTTTCCTTTTCTTTAATACTTA
Found at i:10227 original size:20 final size:18
Alignment explanation
Indices: 10180--10229 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
10170 TATTGACTTT
*
10180 TATTTTTTTTATCTTTGA
1 TATTTTTTTTATATTTGA
10198 TATTCCTTTTTTATATTTGTTA
1 TATT--TTTTTTATATTTG--A
10220 TATTTTTTTT
1 TATTTTTTTT
10230 TGTTTCTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 4 0.15
20 18 0.67
22 5 0.19
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (18 bp):
TATTTTTTTTATATTTGA
Found at i:10317 original size:8 final size:8
Alignment explanation
Indices: 10300--10457 Score: 68
Period size: 8 Copynumber: 18.5 Consensus size: 8
10290 TCACTTCGTC
*
10300 TTTTTATA
1 TTTTTTTA
10308 TTTTTTTA
1 TTTTTTTA
*** *
10316 TTAGCTAA
1 TTTTTTTA
10324 TTTTTTTA
1 TTTTTTTA
* *
10332 TTTTCTTC
1 TTTTTTTA
*
10340 CTTTTTTA
1 TTTTTTTA
10348 TTTTTTGT-
1 TTTTTT-TA
10356 TTTTGTTTA
1 TTTT-TTTA
*
10365 TTTTTTTC
1 TTTTTTTA
10373 TTTATATTAATA
1 TTT-T-TT--TA
10385 TTTTTATTAA
1 TTTTT-TT-A
*
10395 TTTATTTCA
1 TTT-TTTTA
10404 TTTATTTT-
1 TTT-TTTTA
*
10412 TATTTTTA
1 TTTTTTTA
*
10420 TTTTTTGAA
1 TTTTTT-TA
10429 TCTTTTTTA
1 T-TTTTTTA
*
10438 TTTTTTCA
1 TTTTTTTA
*
10446 TTTTCTTA
1 TTTTTTTA
10454 TTTT
1 TTTT
10458 GTCTTTTTTT
Statistics
Matches: 111, Mismatches: 26, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
7 4 0.04
8 65 0.59
9 21 0.19
10 13 0.12
11 4 0.04
12 4 0.04
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (8 bp):
TTTTTTTA
Found at i:10894 original size:8 final size:7
Alignment explanation
Indices: 10881--11002 Score: 70
Period size: 7 Copynumber: 16.6 Consensus size: 7
10871 TTTTTATTCA
10881 ATTTTTGT
1 ATTTTT-T
*
10889 ATTTTTG
1 ATTTTTT
**
10896 ATTAATT
1 ATTTTTT
10903 ATTTTTT
1 ATTTTTT
10910 ATTTTCTT
1 ATTTT-TT
*
10918 ACTTTTT
1 ATTTTTT
10925 ATATTTTT
1 AT-TTTTT
10933 ATTGTATTT
1 ATT-T-TTT
*
10942 -TTGTTT
1 ATTTTTT
10948 ATTTTTT
1 ATTTTTT
10955 ATTTTTT
1 ATTTTTT
10962 -TTGTTTT
1 ATT-TTTT
**
10969 ACTTTAAT
1 A-TTTTTT
10977 ATTCTTTT
1 ATT-TTTT
*
10985 CTTATTTT
1 ATT-TTTT
10993 A-TTTTT
1 ATTTTTT
10999 ATTT
1 ATTT
11003 CTTTCTTTAT
Statistics
Matches: 87, Mismatches: 17, Indels: 21
0.70 0.14 0.17
Matches are distributed among these distances:
6 10 0.11
7 39 0.45
8 33 0.38
9 5 0.06
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (7 bp):
ATTTTTT
Found at i:10962 original size:38 final size:38
Alignment explanation
Indices: 10882--10961 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 38
10872 TTTTATTCAA
*
10882 TTTTTGTATTTTTGATTAATTATTTTTTATTTTCTTAC
1 TTTTTATATTTTTGATTAATTATTTTTTATTTTCTTAC
* *
10920 TTTTTATATTTTT-ATTGTATT-TTTGTTTATTTT-TTAT
1 TTTTTATATTTTTGATT-AATTATTT-TTTATTTTCTTAC
10957 TTTTT
1 TTTTT
10962 TTGTTTTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
37 14 0.38
38 23 0.62
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (38 bp):
TTTTTATATTTTTGATTAATTATTTTTTATTTTCTTAC
Found at i:11015 original size:22 final size:20
Alignment explanation
Indices: 10905--11006 Score: 62
Period size: 23 Copynumber: 4.7 Consensus size: 20
10895 GATTAATTAT
*
10905 TTTTTATTTTCTTACTTTTTATA
1 TTTTTA-TTTCTT--TTTTTTTA
* *
10928 TTTTTATTGTATTTTTGTTTA
1 TTTTTATT-TCTTTTTTTTTA
10949 TTTTTTATTT-TTTTTGTTTTA
1 -TTTTTATTTCTTTTT-TTTTA
* *
10970 CTTTAATATTCTTTTCTTATTTTA
1 TTTTTAT-TTC-TTT-TT-TTTTA
10994 TTTTTATTTCTTT
1 TTTTTATTTCTTT
11007 CTTTATTTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
20 10 0.16
21 13 0.21
22 13 0.21
23 15 0.24
24 12 0.19
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTTATTTCTTTTTTTTTA
Found at i:11246 original size:22 final size:22
Alignment explanation
Indices: 11221--11265 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11211 TAATCTTTTG
*
11221 TCTT-TGATTTTTTATATTGTTT
1 TCTTATGATTTCTTATA-TGTTT
*
11243 TCTTATTATTTCTTATATGTTT
1 TCTTATGATTTCTTATATGTTT
11265 T
1 T
11266 TCAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.71
Consensus pattern (22 bp):
TCTTATGATTTCTTATATGTTT
Found at i:11403 original size:35 final size:33
Alignment explanation
Indices: 11350--11445 Score: 104
Period size: 35 Copynumber: 2.7 Consensus size: 33
11340 TTTTTGTCTT
*
11350 TTTTTATTCATTATTTTTTATTTTCTTACTTTTTATA
1 TTTTT-TTC-TTA-TTTTTATTTT-TTACATTTTATA
*
11387 TTTTTTAT-TGTATTTTTGTTTATTTACATTTTATA
1 TTTTTT-TCT-TATTTTTATTT-TTTACATTTTATA
11422 TTTTTTTCTTATTTTTATTTTTTA
1 TTTTTTTCTTATTTTTATTTTTTA
11446 TTTCTTTCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
33 4 0.08
34 11 0.21
35 27 0.52
36 4 0.08
37 6 0.12
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (33 bp):
TTTTTTTCTTATTTTTATTTTTTACATTTTATA
Found at i:11443 original size:25 final size:25
Alignment explanation
Indices: 11346--11467 Score: 97
Period size: 24 Copynumber: 4.8 Consensus size: 25
11336 TCAATTTTTG
* *
11346 TCTTTTTTTATTCATTATTTTTTATTT
1 TCTTTCTTTATTTA-TATTTTTTA-TT
*
11373 TCTTAC-TT-TTTATATTTTTTATTGT
1 TCTTTCTTTATTTATATTTTTTA-T-T
* * * *
11398 ATTTTTGTTTATTTACATTTTATATT
1 -TCTTTCTTTATTTATATTTTTTATT
* *
11424 TTTTTC-TTATTTTTATTTTTTATT
1 TCTTTCTTTATTTATATTTTTTATT
11448 TCTTTCTTTATTTATATTTT
1 TCTTTCTTTATTTATATTTT
11468 CATAAATTTT
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
24 31 0.41
25 21 0.28
26 6 0.08
27 7 0.09
28 11 0.14
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (25 bp):
TCTTTCTTTATTTATATTTTTTATT
Found at i:11457 original size:19 final size:19
Alignment explanation
Indices: 11416--11460 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11406 TTATTTACAT
* *
11416 TTTATATTTTTTTCTTATT
1 TTTATTTTTTTTTCTTATC
11435 TTTATTTTTTATTTCTT-TC
1 TTTATTTTTT-TTTCTTATC
11454 TTTATTT
1 TTTATTT
11461 ATATTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTATTTTTTTTTCTTATC
Found at i:11651 original size:19 final size:18
Alignment explanation
Indices: 11615--11668 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
11605 TTTTTTACTT
* *
11615 ATTTTTTCATGTGCTTTCA
1 ATTTTTTC-TTTGTTTTCA
*
11634 TATTTTTTTTTTGTTTTCA
1 -ATTTTTTCTTTGTTTTCA
*
11653 CTTTTTTCTTTGTTTT
1 ATTTTTTCTTTGTTTT
11669 AAAATTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 14 0.48
19 8 0.28
20 7 0.24
ACGTcount: A:0.09, C:0.11, G:0.07, T:0.72
Consensus pattern (18 bp):
ATTTTTTCTTTGTTTTCA
Found at i:12369 original size:12 final size:12
Alignment explanation
Indices: 12347--12402 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
12337 TATCTAATTA
*
12347 AATTCATCTTGT
1 AATTTATCTTGT
* *
12359 ATTTTATCTTGA
1 AATTTATCTTGT
12371 AATTTAT-TT-T
1 AATTTATCTTGT
* *
12381 TATTTATCGTGT
1 AATTTATCTTGT
12393 AATTTATCTT
1 AATTTATCTT
12403 TTATTTAATA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 24 0.73
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.59
Consensus pattern (12 bp):
AATTTATCTTGT
Found at i:12409 original size:23 final size:23
Alignment explanation
Indices: 12346--12409 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
12336 ATATCTAATT
* * *
12346 AAATTCATCTTGTATTTTATCTTG
1 AAATTTATCTTTTA-TTTATCGTG
12370 AAATTTAT-TTTTATTTATCGTG
1 AAATTTATCTTTTATTTATCGTG
*
12392 TAATTTATCTTTTATTTA
1 AAATTTATCTTTTATTTA
12410 ATAAAATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 15 0.43
23 13 0.37
24 7 0.20
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (23 bp):
AAATTTATCTTTTATTTATCGTG
Found at i:13976 original size:22 final size:20
Alignment explanation
Indices: 13951--13990 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13941 GTTTTTGGTT
13951 TATTTTAATTGTTATTTTTTAG
1 TATTTT-ATT-TTATTTTTTAG
13973 TATTTTATTTTATTTTTT
1 TATTTTATTTTATTTTTT
13991 TTTCCAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (20 bp):
TATTTTATTTTATTTTTTAG
Found at i:14494 original size:7 final size:6
Alignment explanation
Indices: 14484--14572 Score: 58
Period size: 6 Copynumber: 14.5 Consensus size: 6
14474 TTTTTCTTAC
* * *
14484 TTTTAT ATTTTAT TATTTAT TTTTAT TTTTTT TTTTCT TTAATAT TTTT-T
1 TTTTAT -TTTTAT T-TTTAT TTTTAT TTTTAT TTTTAT TT-TTAT TTTTAT
* * *
14534 TCTTA- TTTTAT TTTTAAT TTCTT-T CTTTAT TTATAT TTT
1 TTTTAT TTTTAT TTTT-AT TT-TTAT TTTTAT TTTTAT TTT
14573 CATAAATTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
5 10 0.16
6 32 0.50
7 20 0.31
8 2 0.03
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:14514 original size:37 final size:35
Alignment explanation
Indices: 14473--14548 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 35
14463 AATTTTTGCC
*
14473 TTTTTTCTTACTTTTATATTTTATTAT-TTATTTTTAT
1 TTTTTTCTTACTTTAATATTTT-TT-TCTTA-TTTTAT
* *
14510 TTTTTTTTTTCTTTAATATTTTTTTCTTATTTTAT
1 TTTTTTCTTACTTTAATATTTTTTTCTTATTTTAT
14545 TTTT
1 TTTT
14549 AATTTCTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 11 0.31
36 5 0.14
37 19 0.54
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (35 bp):
TTTTTTCTTACTTTAATATTTTTTTCTTATTTTAT
Found at i:14542 original size:30 final size:29
Alignment explanation
Indices: 14492--14548 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
14482 ACTTTTATAT
* *
14492 TTTATTATTTATTTTTATTTTTTTTTTTC
1 TTTAATATTTATTTTTATTTTATTTTTTC
*
14521 TTTAATATTTTTTTCTTATTTTATTTTT
1 TTTAATATTTATTT-TTATTTTATTTTT
14549 AATTTCTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.81
Consensus pattern (29 bp):
TTTAATATTTATTTTTATTTTATTTTTTC
Found at i:14544 original size:41 final size:40
Alignment explanation
Indices: 14491--14572 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 40
14481 TACTTTTATA
* * *
14491 TTTTATTATTTATTTTT-ATTTTTTTTTTTCTTTAATATTT
1 TTTTATTATTTATTTTTAATTTCTTTCTTTATTT-ATATTT
*
14531 TTTTCTTATTTTATTTTTAATTTCTTTCTTTATTTATATTT
1 TTTTATTA-TTTATTTTTAATTTCTTTCTTTATTTATATTT
14572 T
1 T
14573 CATAAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 7 0.19
41 16 0.44
42 13 0.36
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (40 bp):
TTTTATTATTTATTTTTAATTTCTTTCTTTATTTATATTT
Found at i:14553 original size:23 final size:24
Alignment explanation
Indices: 14489--14570 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 24
14479 CTTACTTTTA
14489 TATTTTATTATTT-ATTTTTATT-T
1 TATTTTATTATTTAATTTTT-TTCT
* *
14512 T-TTTTTTTCTTTAATATTTTTTTCT
1 TATTTTATTATTT-A-ATTTTTTTCT
*
14537 TATTTTATT-TTTAATTTCTTTCTT
1 TATTTTATTATTTAATTTTTTTC-T
14561 TATTTATATT
1 TATTT-TATT
14571 TTCATAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
22 9 0.19
23 9 0.19
24 9 0.19
25 15 0.31
26 6 0.12
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (24 bp):
TATTTTATTATTTAATTTTTTTCT
Found at i:14563 original size:24 final size:24
Alignment explanation
Indices: 14527--14572 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
14517 TTTCTTTAAT
*
14527 ATTTTTTTCTTATTT-TATTTTTA
1 ATTTCTTTCTTATTTATATTTTTA
14550 ATTTCTTTCTTTATTTATATTTT
1 ATTTCTTTC-TTATTTATATTTT
14573 CATAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 6 0.30
25 6 0.30
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (24 bp):
ATTTCTTTCTTATTTATATTTTTA
Found at i:14573 original size:19 final size:19
Alignment explanation
Indices: 14485--14573 Score: 58
Period size: 19 Copynumber: 4.6 Consensus size: 19
14475 TTTTCTTACT
*
14485 TTTATATTTTATTA-TTTA
1 TTTATATTTTCTTATTTTA
* * *
14503 TTTTTATTTT-TTTTTTTC
1 TTTATATTTTCTTATTTTA
14521 TTTAATATTTTTTTCTTATTTTA
1 TTT-ATA---TTTTCTTATTTTA
* *
14544 TTTTTAATTTCTT-TCTTTA
1 TTTATATTTTCTTAT-TTTA
14563 TTTATATTTTC
1 TTTATATTTTC
14574 ATAAATTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
17 2 0.04
18 16 0.30
19 21 0.39
22 6 0.11
23 9 0.17
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATATTTTCTTATTTTA
Found at i:14740 original size:23 final size:23
Alignment explanation
Indices: 14697--14740 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
14687 CCTTTTCCTT
* *
14697 TTTTTACTTATTTTTTTTTTTTG
1 TTTTCACTTATTTTTTGTTTTTG
14720 TTTTCACTT-TTTCTTTGTTTT
1 TTTTCACTTATTT-TTTGTTTT
14741 AAAATTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.80
Consensus pattern (23 bp):
TTTTCACTTATTTTTTGTTTTTG
Found at i:15762 original size:8 final size:8
Alignment explanation
Indices: 15745--15895 Score: 83
Period size: 8 Copynumber: 18.5 Consensus size: 8
15735 TCACTTCGTC
*
15745 TTTTTATA
1 TTTTTTTA
15753 TTTTTTTA
1 TTTTTTTA
*** *
15761 TTAGCTAA
1 TTTTTTTA
15769 TTTTTTTA
1 TTTTTTTA
* *
15777 TTTTCTTC
1 TTTTTTTA
*
15785 CTTTTTTA
1 TTTTTTTA
15793 TTTTTTGT-
1 TTTTTT-TA
15801 TTTTGTTTA
1 TTTT-TTTA
15810 TTTTTTCT-
1 TTTTTT-TA
*
15818 TTTATATTA
1 TTT-TTTTA
* *
15827 ATATTTTA
1 TTTTTTTA
**
15835 TTAATTTA
1 TTTTTTTA
15843 -TTTTTTA
1 TTTTTTTA
15850 TTTTTTTA
1 TTTTTTTA
*
15858 TTTTTTGAA
1 TTTTTT-TA
15867 TCTTTTTTA
1 T-TTTTTTA
*
15876 TTTTTTCA
1 TTTTTTTA
*
15884 TTTTCTTA
1 TTTTTTTA
15892 TTTT
1 TTTT
15896 GTCTTTTTTT
Statistics
Matches: 106, Mismatches: 28, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
7 5 0.05
8 81 0.76
9 15 0.14
10 5 0.05
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (8 bp):
TTTTTTTA
Found at i:16689 original size:21 final size:22
Alignment explanation
Indices: 16651--16708 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
16641 ACTTTTCTCT
*
16651 TTTTTA-ATTTTTTGTCTT-TGA
1 TTTTTATATTGTTT-TCTTATGA
*
16672 TTTTTATATTGTTTTCTTATTA
1 TTTTTATATTGTTTTCTTATGA
16694 TTTCTTATA-TGTTTT
1 TTT-TTATATTGTTTT
16709 TCAATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 10 0.31
22 17 0.53
23 5 0.16
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (22 bp):
TTTTTATATTGTTTTCTTATGA
Found at i:16712 original size:465 final size:452
Alignment explanation
Indices: 16092--16954 Score: 1163
Period size: 465 Copynumber: 1.9 Consensus size: 452
16082 TATTCTTGCT
* * *
16092 TTTCTTTTTATTTCTTATTTGCGTTTTTAAATTCTCGTACTTTTTTTTCAATTTCTCCTTTGGTT
1 TTTCTTTTTATTTCTTATTTGCATTTTCAAATTCTCATACTTTTTTTTCAATTTCTCCTTTGGTT
*
16157 TTCATTTTTATTTTGCAATAACTTCTCTTTTTTAATTTTTTGTCTTTGACCTTTTCTATTGTTTT
66 TTCATTTTTATTTTGCAATAACTTCTCTTTTTTAATTTTTTGTCTTTGACCTTTTATATTGTTTT
*
16222 CTTGTTATTTCTTATATGTTTTTCAATTTTTTGTA-TTTTTAAAACTAATTTTTTT-TATTTTGT
131 CTTATTATTTCTTATATGTTTTTCAATTTTTTGTATTTTTTAAAA-TAATTTTTTTCTATTTTGT
* *
16285 CA-TTCTTTTTCACTTTCT-AAATTTTTATTCAATTTTTGTATTTTTGATTAATTATTTTTTATT
195 CATTTC-CTTTCA-TTT-TGAAATTTTTATTCAATTTTTGTATTTTTGATTAATTATTTTTGA--
* * * * *
16348 TTC-TTACTTTTTATATTT-TTATTGTATTTTTGTTTTTTTTTGT-TTTACT-TTAATATT-CTT
255 TTCATTACTTTTTAT-TTTCTTACT-T-TTTATATTTTTTATTGTATTT-CTGTTAAT-TTAC-A
16408 TTCTTATTTTATTT-TTATTTGGTTTATTTTTTATTTCTTTCTTTATTTAAATTTTCATAAATGT
314 TT-TTATTTT-TTTCTTA-TT--TTTA-TTTTTATTTCTTTCTTTATTTAAATTTTCATAAAT-T
16472 TTAGAATGTTTTGGATTTTTTATTTTTCATAAATCATCTTTTGTCTTTTCATTTTTATTATTTTC
372 TTAGAATGTTTTGGATTTTTTATTTTTCATAAATCATCTTTTGTCTTTTCATTTTTATTATTTTC
16537 TTAATTTTTTCACAAA
437 TTAATTTTTTCACAAA
* * * * *
16553 TTTCTTTTTATTTCTTATTTTCATTTTCAAATTCTTATAGTTTTTTTGTTGCATTTTCTTCTTTG
1 TTTCTTTTTATTTCTTATTTGCATTTTCAAATTCTCATA-CTTTTTT-TT-CAATTTCTCCTTTG
* *
16618 GTTTTCATTTTTATTTTGCATTAACTTTTCTCTTTTTTAATTTTTTGTCTTTGA-TTTTTATATT
63 GTTTTCATTTTTATTTTGCAATAAC--TTCTCTTTTTTAATTTTTTGTCTTTGACCTTTTATATT
*
16682 GTTTTCTTATTATTTCTTATATGTTTTTCAATTTTTTGTATTTTTTAAAATATTTTTTTTCTATT
126 GTTTTCTTATTATTTCTTATATGTTTTTCAATTTTTTGTATTTTTTAAAATAATTTTTTTCTATT
* * ** *
16747 TTGTCATTTCCTTTCATTTTGAAATTTTTATTCAATTTTTGTCTTTTTTATTTTTTGTTTTTGAT
191 TTGTCATTTCCTTTCATTTTGAAATTTTTATTCAATTTTTGTATTTTTGATTAATTATTTTTGAT
* * *
16812 TCATTATTTTTTATTTTCTTACTTTTTATATTTTTTATTGTATTTTTGTTTATTTACATTTTATT
256 TCATTACTTTTTATTTTCTTACTTTTTATATTTTTTATTGTATTTCTGTTAATTTACATTTTATT
* *
16877 TTTTTCTTATTTTTATTTTTATTTCTTTCTTTATTTATATTTTCATAAATTTTATAATGTTTTGG
321 TTTTTCTTATTTTTATTTTTATTTCTTTCTTTATTTAAATTTTCATAAATTTTAGAATGTTTTGG
16942 ATTTTTTATTTTT
386 ATTTTTTATTTTT
16955 TATCTTTTTA
Statistics
Matches: 357, Mismatches: 30, Indels: 35
0.85 0.07 0.08
Matches are distributed among these distances:
456 27 0.08
457 34 0.10
458 4 0.01
460 5 0.01
461 44 0.12
462 25 0.07
463 17 0.05
464 51 0.14
465 96 0.27
466 51 0.14
467 3 0.01
ACGTcount: A:0.18, C:0.09, G:0.05, T:0.68
Consensus pattern (452 bp):
TTTCTTTTTATTTCTTATTTGCATTTTCAAATTCTCATACTTTTTTTTCAATTTCTCCTTTGGTT
TTCATTTTTATTTTGCAATAACTTCTCTTTTTTAATTTTTTGTCTTTGACCTTTTATATTGTTTT
CTTATTATTTCTTATATGTTTTTCAATTTTTTGTATTTTTTAAAATAATTTTTTTCTATTTTGTC
ATTTCCTTTCATTTTGAAATTTTTATTCAATTTTTGTATTTTTGATTAATTATTTTTGATTCATT
ACTTTTTATTTTCTTACTTTTTATATTTTTTATTGTATTTCTGTTAATTTACATTTTATTTTTTT
CTTATTTTTATTTTTATTTCTTTCTTTATTTAAATTTTCATAAATTTTAGAATGTTTTGGATTTT
TTATTTTTCATAAATCATCTTTTGTCTTTTCATTTTTATTATTTTCTTAATTTTTTCACAAA
Found at i:16800 original size:7 final size:7
Alignment explanation
Indices: 16790--16981 Score: 77
Period size: 7 Copynumber: 25.4 Consensus size: 7
16780 AATTTTTGTC
16790 TTTTTTA
1 TTTTTTA
*
16797 TTTTTTG
1 TTTTTTA
*
16804 TTTTTGA
1 TTTTTTA
**
16811 TTCATTA
1 TTTTTTA
16818 TTTTTTA
1 TTTTTTA
16825 TTTTCTTA
1 TTTT-TTA
16833 CTTTTTATA
1 -TTTTT-TA
16842 TTTTTTA
1 TTTTTTA
16849 TTGTATTT-
1 TT-T-TTTA
*
16857 TTGTTTA
1 TTTTTTA
**
16864 -TTTACA
1 TTTTTTA
*
16870 TTTTATTT
1 TTTT-TTA
16878 TTTTCTTA
1 TTTT-TTA
16886 -TTTTTA
1 TTTTTTA
16892 -TTTTTA
1 TTTTTTA
*
16898 TTTCTTTC
1 TTT-TTTA
16906 TTTATTTA
1 TTT-TTTA
16914 TATTTTCATAAA
1 T-TTTT--T--A
*
16926 TTTTATAA
1 TTTT-TTA
*
16934 TGTTTTGGA
1 T-TTTT-TA
16943 TTTTTTA
1 TTTTTTA
16950 TTTTTTA
1 TTTTTTA
16957 TCTTTTTA
1 T-TTTTTA
* *
16965 TCTTTTC
1 TTTTTTA
16972 TTTTTTA
1 TTTTTTA
16979 TTT
1 TTT
16982 ATCGTTGTTG
Statistics
Matches: 139, Mismatches: 27, Indels: 38
0.68 0.13 0.19
Matches are distributed among these distances:
6 15 0.11
7 57 0.41
8 44 0.32
9 16 0.12
10 1 0.01
11 3 0.02
12 3 0.02
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.74
Consensus pattern (7 bp):
TTTTTTA
Found at i:16879 original size:22 final size:21
Alignment explanation
Indices: 16847--16919 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 21
16837 TTATATTTTT
* *
16847 TATTGTATTTTTGTTTATTTA
1 TATTTTATTTTTTTTTATTTA
* *
16868 CATTTTATTTTTTTCTTATTTT
1 TATTTTATTTTTTT-TTATTTA
16890 TATTTTTATTTCTTTCTTTATTTA
1 TA-TTTTATTT-TTT-TTTATTTA
16914 TATTTT
1 TATTTT
16920 CATAAATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
21 11 0.26
22 7 0.17
23 12 0.29
24 11 0.26
25 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.75
Consensus pattern (21 bp):
TATTTTATTTTTTTTTATTTA
Found at i:16891 original size:24 final size:24
Alignment explanation
Indices: 16815--16912 Score: 64
Period size: 24 Copynumber: 4.2 Consensus size: 24
16805 TTTTGATTCA
* * *
16815 TTATTTTTTATTTTCTTACTTT-T
1 TTATTTTTAATTTTATTTCTTTCT
* * *
16838 TATATTTTTTATTGTA-TT-TTTGT
1 T-TATTTTTAATTTTATTTCTTTCT
*
16861 TTA--TTTACATTTTATTTTTTTC-
1 TTATTTTTA-ATTTTATTTCTTTCT
*
16883 TTATTTTTATTTTTATTTCTTTCT
1 TTATTTTTAATTTTATTTCTTTCT
16907 TTATTT
1 TTATTT
16913 ATATTTTCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
20 3 0.05
21 5 0.08
22 10 0.17
23 19 0.32
24 22 0.37
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (24 bp):
TTATTTTTAATTTTATTTCTTTCT
Found at i:16914 original size:50 final size:52
Alignment explanation
Indices: 16817--16914 Score: 114
Period size: 52 Copynumber: 1.9 Consensus size: 52
16807 TTGATTCATT
* * *
16817 ATTTTTTATTTTCTTACTTTTTATATTTTTTATTGTATTTTTGTTTATTTAC
1 ATTTTTTATTTTCTTACTTTTTATATTTTATATTCTATTTTTATTTATTTAC
*
16869 ATTTTATTTTTTTCTTA-TTTTTAT-TTTTAT-TTCT-TTCTTTATTTAT
1 ATTTT-TTATTTTCTTACTTTTTATATTTTATATTCTATT-TTTATTTAT
16915 ATTTTCATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
49 2 0.05
50 11 0.28
51 5 0.12
52 12 0.30
53 10 0.25
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (52 bp):
ATTTTTTATTTTCTTACTTTTTATATTTTATATTCTATTTTTATTTATTTAC
Found at i:17100 original size:19 final size:18
Alignment explanation
Indices: 17064--17117 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
17054 TTTTTTACTT
* *
17064 ATTTTTTCATGTGCTTTCA
1 ATTTTTTC-TTTGTTTTCA
*
17083 TATTTTTTTTTTGTTTTCA
1 -ATTTTTTCTTTGTTTTCA
*
17102 CTTTTTTCTTTGTTTT
1 ATTTTTTCTTTGTTTT
17118 AAAATTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 14 0.48
19 8 0.28
20 7 0.24
ACGTcount: A:0.09, C:0.11, G:0.07, T:0.72
Consensus pattern (18 bp):
ATTTTTTCTTTGTTTTCA
Found at i:17798 original size:12 final size:12
Alignment explanation
Indices: 17776--17831 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
17766 TATCTAATTA
*
17776 AATTCATCTTGT
1 AATTTATCTTGT
* *
17788 ATTTTATCTTGA
1 AATTTATCTTGT
17800 AATTTAT-TT-T
1 AATTTATCTTGT
* *
17810 TATTTATCGTGT
1 AATTTATCTTGT
17822 AATTTATCTT
1 AATTTATCTT
17832 TTATTTAATA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 24 0.73
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.59
Consensus pattern (12 bp):
AATTTATCTTGT
Found at i:17838 original size:23 final size:23
Alignment explanation
Indices: 17775--17838 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
17765 ATATCTAATT
* * *
17775 AAATTCATCTTGTATTTTATCTTG
1 AAATTTATCTTTTA-TTTATCGTG
17799 AAATTTAT-TTTTATTTATCGTG
1 AAATTTATCTTTTATTTATCGTG
*
17821 TAATTTATCTTTTATTTA
1 AAATTTATCTTTTATTTA
17839 ATAAAATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 15 0.43
23 13 0.37
24 7 0.20
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (23 bp):
AAATTTATCTTTTATTTATCGTG
Found at i:18600 original size:15 final size:15
Alignment explanation
Indices: 18547--18605 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
18537 TTCTTTTGTT
*
18547 TTTATTTTTTATAAC
1 TTTATTTTTTATATC
* *
18562 TTTTTTTTTTTTAATC
1 TTTATTTTTTAT-ATC
*
18578 ATTGATTTTTTATATC
1 -TTTATTTTTTATATC
*
18594 TTTATTTCTTAT
1 TTTATTTTTTAT
18606 TATTTGTTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
15 20 0.59
16 5 0.15
17 9 0.26
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTTTATATC
Found at i:19235 original size:24 final size:22
Alignment explanation
Indices: 19179--19235 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
19169 GTGAACTTCC
19179 TTTTGATTTTATTTATATTTTG
1 TTTTGATTTTATTTATATTTTG
* *
19201 TATTGACTTTTATTTTATTTTTTG
1 TTTTGA-TTTTA-TTTATATTTTG
19225 TCTTTGATTTT
1 T-TTTGATTTT
19236 TTATGTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.17
23 5 0.17
24 15 0.52
25 4 0.14
ACGTcount: A:0.16, C:0.04, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTTGATTTTATTTATATTTTG
Found at i:19369 original size:15 final size:16
Alignment explanation
Indices: 19351--19388 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
19341 CGTTTTATAT
19351 TTTTTTATTCTC-TAA
1 TTTTTTATTCTCTTAA
* *
19366 TTTTTTATTTTCTTAC
1 TTTTTTATTCTCTTAA
19382 TTTTTTA
1 TTTTTTA
19389 CTTTTTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTATTCTCTTAA
Found at i:19385 original size:16 final size:15
Alignment explanation
Indices: 19351--19393 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
19341 CGTTTTATAT
*
19351 TTTTTTATTCTCTAA
1 TTTTTTATTTTCTAA
*
19366 TTTTTTATTTTCTTAC
1 TTTTTTATTTTC-TAA
19382 TTTTTTACTTTT
1 TTTTTTA-TTTT
19394 TGTTTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 9 0.38
17 4 0.17
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTATTTTCTAA
Found at i:19445 original size:23 final size:22
Alignment explanation
Indices: 19365--19445 Score: 58
Period size: 24 Copynumber: 3.4 Consensus size: 22
19355 TTATTCTCTA
*
19365 ATTTTTTATTTT-CTTACTTTTTT
1 ATTTTTT-TTTTGTTTA-TTTTTT
*
19388 ACTTTTTGTTTTTGTTTATTTTTA
1 A-TTTTT-TTTTTGTTTATTTTTT
19412 ATTGTTATTTTTTAGTATT-TTTTTT
1 ATT-TT-TTTTTT-GT-TTATTTTTT
19437 ATTTTTTTT
1 ATTTTTTTT
19446 CAATTTTCGT
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
23 7 0.15
24 24 0.50
25 15 0.31
26 2 0.04
ACGTcount: A:0.14, C:0.04, G:0.05, T:0.78
Consensus pattern (22 bp):
ATTTTTTTTTTGTTTATTTTTT
Found at i:19526 original size:17 final size:19
Alignment explanation
Indices: 19495--19532 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
19485 ACCTTTTATA
19495 TTTTTATTGTATTTTTGTT
1 TTTTTATTGTATTTTTGTT
19514 TTTTTATT-T-TTTTTGTT
1 TTTTTATTGTATTTTTGTT
19531 TT
1 TT
19533 ACTTTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 1 0.05
19 8 0.42
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (19 bp):
TTTTTATTGTATTTTTGTT
Found at i:19830 original size:22 final size:23
Alignment explanation
Indices: 19792--19849 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
19782 CTTTTCTCTC
*
19792 TTTTA-ATTTTTTGTCTT-TGATT
1 TTTTATATTGTTT-TCTTATGATT
*
19814 TTTTATATTGTTTTCTTATTATT
1 TTTTATATTGTTTTCTTATGATT
*
19837 TCTTATA-TGTTTT
1 TTTTATATTGTTTT
19850 TCAATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (23 bp):
TTTTATATTGTTTTCTTATGATT
Found at i:19992 original size:14 final size:14
Alignment explanation
Indices: 19923--20016 Score: 59
Period size: 14 Copynumber: 6.5 Consensus size: 14
19913 TTTTATTCAA
*
19923 TTTTTGTCTTT-TT
1 TTTTTTTCTTTATT
*
19936 TTTTCTTACTTT-TT
1 TTTT-TTTCTTTATT
*
19950 ATATTTTTTATTGTATT
1 -T-TTTTTTCTT-TATT
* *
19967 TTTGTTTATTTATT
1 TTTTTTTCTTTATT
*
19981 TTTTTTTCTTTAATA
1 TTTTTTTCTTT-ATT
19996 TTTTTTTC-TTATT
1 TTTTTTTCTTTATT
20009 TTTATTTT
1 TTT-TTTT
20017 AATTTCTTTC
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
13 9 0.14
14 26 0.40
15 23 0.35
16 5 0.08
17 2 0.03
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTTTTCTTTATT
Found at i:19992 original size:18 final size:18
Alignment explanation
Indices: 19965--20033 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
19955 TTTTATTGTA
*
19965 TTTTTGTTTATTTATTTT
1 TTTTTCTTTATTTATTTT
*
19983 TTTTTCTTTA---ATATT
1 TTTTTCTTTATTTATTTT
*
19998 TTTTTCTTATTTTTATTTT
1 TTTTTCTT-TATTTATTTT
** *
20017 AATTTCTTTCTTTATTT
1 TTTTTCTTTATTTATTT
20034 ATATTTTCAT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
15 12 0.30
16 1 0.03
18 17 0.43
19 10 0.25
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTATTTATTTT
Found at i:20000 original size:42 final size:41
Alignment explanation
Indices: 19911--20000 Score: 92
Period size: 42 Copynumber: 2.1 Consensus size: 41
19901 CATTTTTGAA
*
19911 ATTTTTATTCAATTTTTGTCTTTTTTTTTCTTACTTTTTAT
1 ATTTTTATTCAATTTTTGTCTTTTTTTTTCTTACTTTTAAT
** * * *
19952 ATTTTTTATTGTATTTTTGTTTATTTATTTTTTTTTC-TTTAAT
1 A-TTTTTATTCAATTTTTGTCT-TTT-TTTTTCTTACTTTTAAT
19995 ATTTTT
1 ATTTTT
20001 TTCTTATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.03
42 22 0.55
43 9 0.22
44 8 0.20
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.76
Consensus pattern (41 bp):
ATTTTTATTCAATTTTTGTCTTTTTTTTTCTTACTTTTAAT
Found at i:20021 original size:23 final size:24
Alignment explanation
Indices: 19995--20040 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19985 TTTCTTTAAT
* *
19995 ATTTTTTTC-TTATTTTTATTTTA
1 ATTTCTTTCTTTATTTATATTTTA
20018 ATTTCTTTCTTTATTTATATTTT
1 ATTTCTTTCTTTATTTATATTTT
20041 CATAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (24 bp):
ATTTCTTTCTTTATTTATATTTTA
Found at i:21288 original size:8 final size:8
Alignment explanation
Indices: 21259--21395 Score: 73
Period size: 8 Copynumber: 16.6 Consensus size: 8
21249 TTATTAGCTA
21259 ATTTTTTT
1 ATTTTTTT
*
21267 ATTTTCTT
1 ATTTTTTT
**
21275 CCTTTTTT
1 ATTTTTTT
21283 ATTTTTTGT
1 ATTTTTT-T
21292 -TTTTGTTT
1 ATTTT-TTT
21300 ATTTTTTT
1 ATTTTTTT
*
21308 CTTTTATATT
1 ATTTT-T-TT
* *
21318 AATATTTT
1 ATTTTTTT
**
21326 ATTAATTT
1 ATTTTTTT
*
21334 A-TTTTTC
1 ATTTTTTT
21341 ATTTATTTT
1 ATTT-TTTT
*
21350 -TATTTTT
1 ATTTTTTT
*
21357 ATTTTTTGA
1 ATTTTTT-T
21366 ATCTTTTTT
1 AT-TTTTTT
*
21375 ATTTTTTC
1 ATTTTTTT
*
21383 ATTTTCTT
1 ATTTTTTT
21391 ATTTT
1 ATTTT
21396 GTCTTTTTTT
Statistics
Matches: 96, Mismatches: 23, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
7 8 0.08
8 63 0.66
9 16 0.17
10 9 0.09
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (8 bp):
ATTTTTTT
Found at i:21380 original size:6 final size:6
Alignment explanation
Indices: 21278--21362 Score: 52
Period size: 6 Copynumber: 13.8 Consensus size: 6
21268 TTTTCTTCCT
* * * *
21278 TTTTTA TTTTT- TGTTTT- TGTTTA TTTTTT TCTTTTA TATTAA TATTTTA
1 TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA T-TTTTA TTTTTA T-TTTTA
21327 TTAATTTA TTTTTCA --TTTA TTTTTA TTTTTA TTTTT
1 TT--TTTA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTT
21363 TGAATCTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
4 1 0.02
5 7 0.11
6 38 0.61
7 10 0.16
8 6 0.10
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:21870 original size:8 final size:7
Alignment explanation
Indices: 21818--21938 Score: 54
Period size: 8 Copynumber: 16.7 Consensus size: 7
21808 TTTTTATTCA
21818 ATTTTTGT
1 ATTTTT-T
*
21826 ATTTTTG
1 ATTTTTT
**
21833 ATTAATT
1 ATTTTTT
21840 ATTTTTT
1 ATTTTTT
21847 ATTTTCTT
1 ATTTT-TT
*
21855 ACTTTTT
1 ATTTTTT
21862 ATATTTTT
1 AT-TTTTT
*
21870 A--TTGT
1 ATTTTTT
21875 ATTTTTGT
1 ATTTTT-T
21883 -TTCTATTT
1 ATT-T-TTT
21891 ATTTTTT
1 ATTTTTT
*
21898 -TGTTTT
1 ATTTTTT
*
21904 ATTTTAAT
1 ATTTT-TT
21912 ATTCTTTT
1 ATT-TTTT
*
21920 CTTATTTT
1 ATT-TTTT
21928 A-TTTTT
1 ATTTTTT
21934 ATTTT
1 ATTTT
21939 GGTTTTTTAT
Statistics
Matches: 84, Mismatches: 17, Indels: 25
0.67 0.13 0.20
Matches are distributed among these distances:
5 4 0.05
6 10 0.12
7 31 0.37
8 33 0.39
9 6 0.07
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (7 bp):
ATTTTTT
Found at i:21948 original size:24 final size:23
Alignment explanation
Indices: 21893--21950 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
21883 TTCTATTTAT
*
21893 TTTTTTGTTTTATTTTAATATTC
1 TTTTTTATTTTATTTTAATATTC
* * *
21916 TTTTCTTATTTTATTTTTATTTTGG
1 TTTT-TTATTTTATTTTAATATT-C
21941 TTTTTTATTT
1 TTTTTTATTT
21951 CTTTCTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.14
24 21 0.72
25 4 0.14
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (23 bp):
TTTTTTATTTTATTTTAATATTC
Found at i:22307 original size:7 final size:7
Alignment explanation
Indices: 22297--22427 Score: 56
Period size: 7 Copynumber: 18.7 Consensus size: 7
22287 ATTTTTGTCT
22297 TTTTTTA
1 TTTTTTA
*
22304 -TTTTTG
1 TTTTTTA
*
22310 TTTTTGA
1 TTTTTTA
**
22317 TTCATTA
1 TTTTTTA
22324 TTTTTTA
1 TTTTTTA
*
22331 TTTCTTA
1 TTTTTTA
22338 CTTTTTATA
1 -TTTTT-TA
22347 TTTTTTA
1 TTTTTTA
*
22354 --TTGTA
1 TTTTTTA
**
22359 TTTTTGC
1 TTTTTTA
*
22366 TTATTTA
1 TTTTTTA
**
22373 CATTTTA
1 TTTTTTA
*
22380 TATTTT-
1 TTTTTTA
*
22386 TTTCTTA
1 TTTTTTA
22393 -TTTTTA
1 TTTTTTA
22399 TTTTTTA
1 TTTTTTA
*
22406 TTTCTTTC
1 TTT-TTTA
22414 TTTATTTA
1 TTT-TTTA
22422 TATTTT
1 T-TTTT
22428 CATAAATTTT
Statistics
Matches: 88, Mismatches: 27, Indels: 17
0.67 0.20 0.13
Matches are distributed among these distances:
5 4 0.05
6 14 0.16
7 45 0.51
8 21 0.24
9 4 0.05
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (7 bp):
TTTTTTA
Found at i:22386 original size:24 final size:23
Alignment explanation
Indices: 22357--22427 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
22347 TTTTTTATTG
* *
22357 TATTTTTGCTTATTTACATTTTA
1 TATTTTTTCTTATTTATATTTTA
* *
22380 TATTTTTTTCTTATTTTTATTTTT
1 TA-TTTTTTCTTATTTATATTTTA
22404 TATTTCTTTCTTTATTTATATTTT
1 TATTT-TTTC-TTATTTATATTTT
22428 CATAAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.12
24 23 0.57
25 12 0.30
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.75
Consensus pattern (23 bp):
TATTTTTTCTTATTTATATTTTA
Found at i:22417 original size:19 final size:19
Alignment explanation
Indices: 22376--22420 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
22366 TTATTTACAT
* *
22376 TTTATATTTTTTTCTTATT
1 TTTATTTTTTTTTCTTATC
22395 TTTATTTTTTATTTCTT-TC
1 TTTATTTTTT-TTTCTTATC
22414 TTTATTT
1 TTTATTT
22421 ATATTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTATTTTTTTTTCTTATC
Found at i:22436 original size:468 final size:461
Alignment explanation
Indices: 21594--22447 Score: 1114
Period size: 468 Copynumber: 1.8 Consensus size: 461
21584 TATTCTTGCT
* * *
21594 TTTCTTTTTATTTCTTATTTGCGTTTTTAAATTCTCGTACTTTTTTTTTCAATTTCTCCTTTGGT
1 TTTCTTTTTATTTCTTATTTGCATTTTCAAATTCTCATACTTTTTTTTTCAATTTCTCCTTTGGT
* *
21659 TTTCATTTTTATTTTGCAATAACTTCTCTTTTTTAATTTTTTGTCTTTGACCTTTTCTATTGTTT
66 TTTCATTTTTATTTTGCAATAACTTCTCTTTTTTAATCTTTTGTCTTTGACCTTTTATATTGTTT
*
21724 TCTTGTTATTTCTTATATGTTTTTCAATTTTTTGTATTTTTAAAACTATTTTTTTTATTTTGTCA
131 TCTTATTATTTCTTATATGTTTTTCAATTTTTTGTATTTTTAAAACTATTTTTTTTATTTTGTCA
*
21789 TTCTTTTTCACTTTCTAAATTTTTATTCAATTTTTGTATTTTTGATTAATTATTTTTTATTTTCT
196 TTCTCTTTCACTTTCTAAATTTTTATTCAATTTTTGTATTTTT-ATTAATTATTTTTTATTTTCT
* *
21854 TACTTTTTATATTTTTATTGTATTTTTGTTTCTATTTATTTTTTTGTTTTATTTTAATATTCTTT
260 TACTTTTTATATTTTTATTGTATTTTTGTTTCTATTTATTTTTTTATTTCATTTTAATATTCTTT
* * *
21919 TCTTATTTTATTTTTATTTTGGTTTTTTATTTCTTTCTTTATTTAAATTTTCATAAATGTTTAGA
325 TCTTATTTTATTTTTATTTT-GTTCTTTATTTATTTCTTCA-TTAAATTTTCAT-AATGTTTAGA
21984 ATGTTTTGGATTTTTTATTTTTCATAAATCATCTTTGTCTTTTCATTTTTATTATTTTCTTAATT
387 ATGTTTTGGATTTTTTATTTTTCATAAATCATCTTTGTCTTTTCATTTTTATTATTTTCTTAATT
22049 TTTTCACAAA
452 TTTTCACAAA
* * * * *
22059 TTTCTTTTTATTTCTTATTTTCATTTTCAAATTCTTATAGTTTTTTTTTGCATTTTCTTCTTTGG
1 TTTCTTTTTATTTCTTATTTGCATTTTCAAATTCTCATACTTTTTTTTT-CAATTTCTCCTTTGG
* **
22124 TTTTCATTTTTATTTTGCATTAACTTTTCTCTTTTTTAATCTTTTGTCTTTGATTTTTTATATTG
65 TTTTCATTTTTATTTTGCAATAAC--TTCTCTTTTTTAATCTTTTGTCTTTGACCTTTTATATTG
22189 TTTTCTTATT-TTTCTTATATGTTTTTCAATTTTTTGTATTTTTTAAAA-TATTTTTTTTCTATT
128 TTTTCTTATTATTTCTTATATGTTTTTCAATTTTTTGTA-TTTTTAAAACTA-TTTTTTT-TATT
* *
22252 TTGTCATT-TCCTTTCA-TTTTTGAAATTTTTATTCAATTTTTGTCTTTTT-TT-ATT-TTTGTT
190 TTGTCATTCT-CTTTCACTTTCT-AAATTTTTATTCAATTTTTGTATTTTTATTAATTATTT-TT
22312 T-TTGATTCATTA-TTTTT-TATTTCTTACTT-T-TTATATT-TTT-TATTGTATTTTTGCTTAT
252 TATT--TTC-TTACTTTTTATATTT-TTA-TTGTATT-T-TTGTTTCTATT-TATTTTT--TTAT
*
22370 TTACATTTT-ATATTTTTTTCTTATTTTTATTTTTTATTTCT-TTCTTTATTTATATT-TTCA-T
307 TT-CATTTTAATATTCTTTTCTTA-TTTTA-TTTTTATTT-TGTTCTTTATTTAT-TTCTTCATT
*
22431 AAATTTTTATAATGTTT
367 AAATTTTCATAATGTTT
22448 TGGATTTTTT
Statistics
Matches: 341, Mismatches: 24, Indels: 46
0.83 0.06 0.11
Matches are distributed among these distances:
465 48 0.14
466 53 0.16
467 62 0.18
468 82 0.24
469 61 0.18
470 23 0.07
471 11 0.03
472 1 0.00
ACGTcount: A:0.18, C:0.09, G:0.05, T:0.68
Consensus pattern (461 bp):
TTTCTTTTTATTTCTTATTTGCATTTTCAAATTCTCATACTTTTTTTTTCAATTTCTCCTTTGGT
TTTCATTTTTATTTTGCAATAACTTCTCTTTTTTAATCTTTTGTCTTTGACCTTTTATATTGTTT
TCTTATTATTTCTTATATGTTTTTCAATTTTTTGTATTTTTAAAACTATTTTTTTTATTTTGTCA
TTCTCTTTCACTTTCTAAATTTTTATTCAATTTTTGTATTTTTATTAATTATTTTTTATTTTCTT
ACTTTTTATATTTTTATTGTATTTTTGTTTCTATTTATTTTTTTATTTCATTTTAATATTCTTTT
CTTATTTTATTTTTATTTTGTTCTTTATTTATTTCTTCATTAAATTTTCATAATGTTTAGAATGT
TTTGGATTTTTTATTTTTCATAAATCATCTTTGTCTTTTCATTTTTATTATTTTCTTAATTTTTT
CACAAA
Found at i:22605 original size:19 final size:18
Alignment explanation
Indices: 22569--22622 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
22559 TTTTTTACTT
* *
22569 ATTTTTTCATGTGCTTTCA
1 ATTTTTTC-TTTGTTTTCA
*
22588 TATTTTTTTTTTGTTTTCA
1 -ATTTTTTCTTTGTTTTCA
*
22607 CTTTTTTCTTTGTTTT
1 ATTTTTTCTTTGTTTT
22623 AAAATTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 14 0.48
19 8 0.28
20 7 0.24
ACGTcount: A:0.09, C:0.11, G:0.07, T:0.72
Consensus pattern (18 bp):
ATTTTTTCTTTGTTTTCA
Done.