Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2232
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: 57594
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Found at i:1469 original size:4 final size:4
Alignment explanation
Indices: 1462--1488 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1452 AATATATATA
1462 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
1489 TAACAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:2552 original size:21 final size:23
Alignment explanation
Indices: 2514--2562 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
2504 TTATTTTGAG
2514 TATTTATAGTAGTTTAT-ATTAA
1 TATTTATAGTAGTTTATAATTAA
*
2536 TATTTATA-TATTTTATAATTAA
1 TATTTATAGTAGTTTATAATTAA
2558 -ATTTA
1 TATTTA
2563 AATAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTTATAGTAGTTTATAATTAA
Found at i:3107 original size:16 final size:16
Alignment explanation
Indices: 3080--3121 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
3070 TTTAATAAAA
*
3080 TATTTTATATTTTCA-
1 TATTTTAAATTTTCAT
*
3095 TATTTTTAAATTTTTAT
1 TA-TTTTAAATTTTCAT
3112 TATTTTAAAT
1 TATTTTAAAT
3122 ATATATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 19 0.83
17 2 0.09
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTAAATTTTCAT
Found at i:3128 original size:16 final size:17
Alignment explanation
Indices: 3098--3136 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
3088 ATTTTCATAT
* *
3098 TTTTAAATTTTTA-TTA
1 TTTTAAATATATATTTA
3114 TTTTAAATATATATTTA
1 TTTTAAATATATATTTA
3131 TTTTAA
1 TTTTAA
3137 GATTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTAAATATATATTTA
Found at i:3481 original size:18 final size:19
Alignment explanation
Indices: 3438--3483 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
3428 TATATATAAG
3438 ATATTATATAGATAAATTT
1 ATATTATATAGATAAATTT
*
3457 -TAATATAT-GA-ATAATTT
1 ATATTATATAGATA-AATTT
3474 ATATTATATA
1 ATATTATATA
3484 AATTTTAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
16 1 0.05
17 7 0.32
18 14 0.64
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (19 bp):
ATATTATATAGATAAATTT
Found at i:3485 original size:32 final size:31
Alignment explanation
Indices: 3441--3501 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
3431 ATATAAGATA
*
3441 TTATATAGATAAATTTTAATATATGAATAAT
1 TTATATAGATAAATTTTAACATATGAATAAT
* *
3472 TTATATTATATAAATTTTAACATATTAATA
1 TTATA-TAGATAAATTTTAACATATGAATA
3502 TATTCGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 5 0.19
32 21 0.81
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (31 bp):
TTATATAGATAAATTTTAACATATGAATAAT
Found at i:3490 original size:16 final size:16
Alignment explanation
Indices: 3428--3490 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
3418 TGTTTATTAT
*
3428 TATATATAAGATATTA
1 TATATATAAGATTTTA
*
3444 TATAGATAA-ATTTTA
1 TATATATAAGATTTTA
* *
3459 -ATATATGAATAATTTA
1 TATATAT-AAGATTTTA
3475 TATTATATAA-ATTTTA
1 TA-TATATAAGATTTTA
3491 ACATATTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
14 5 0.13
15 7 0.18
16 18 0.47
17 3 0.08
18 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
TATATATAAGATTTTA
Found at i:3519 original size:14 final size:15
Alignment explanation
Indices: 3500--3540 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
3490 AACATATTAA
*
3500 TATATTCGTATTATT
1 TATATTAGTATTATT
*
3515 T-TATTATTATTATT
1 TATATTAGTATTATT
3529 TATATTA-TATTA
1 TATATTAGTATTA
3541 CGTTTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (15 bp):
TATATTAGTATTATT
Found at i:3706 original size:12 final size:11
Alignment explanation
Indices: 3681--3727 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
3671 ATTATGATAA
3681 TTTATTTTTAT
1 TTTATTTTTAT
3692 TTTATTTTATAT
1 TTTATTTT-TAT
*
3704 TTTAGTTATT-T
1 TTTA-TTTTTAT
3715 TTTATATTTTAT
1 TTTAT-TTTTAT
3727 T
1 T
3728 CTTGTTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
10 1 0.03
11 16 0.53
12 10 0.33
13 3 0.10
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:3735 original size:18 final size:16
Alignment explanation
Indices: 3681--3727 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 16
3671 ATTATGATAA
3681 TTTAT-TTTTATTTTAT
1 TTTATATTTTATTTT-T
3697 TTTATATTTTAGTTATTT
1 TTTATATTTTA-TT-TTT
3715 TTTATATTTTATT
1 TTTATATTTTATT
3728 CTTGTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.18
17 7 0.25
18 14 0.50
19 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTATATTTTATTTTT
Found at i:3984 original size:19 final size:18
Alignment explanation
Indices: 3931--3986 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
3921 TATATAAATA
3931 TTAAT-ATAAAAT-TATT
1 TTAATAATAAAATATATT
* **
3947 TTAATATTTTAATATTATT
1 TTAATAATAAAATA-TATT
3966 TTAAATAATAAAATATATT
1 TT-AATAATAAAATATATT
3985 TT
1 TT
3987 TGAATCAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 5 0.17
17 4 0.13
19 12 0.40
20 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATAATAAAATATATT
Found at i:11025 original size:2 final size:2
Alignment explanation
Indices: 11018--11059 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
11008 TTGGTCAAGA
11018 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
11060 TCAATTTTAG
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:12789 original size:23 final size:22
Alignment explanation
Indices: 12763--12809 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
12753 TAAAGTTAAA
*
12763 ATCTTAATATTTATAATTT-TTTT
1 ATCTTAAT-TTGA-AATTTCTTTT
12786 ATCTTAATTTGAAATTTCTTTT
1 ATCTTAATTTGAAATTTCTTTT
12808 AT
1 AT
12810 AAAAAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 9 0.41
23 8 0.36
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (22 bp):
ATCTTAATTTGAAATTTCTTTT
Found at i:15302 original size:14 final size:14
Alignment explanation
Indices: 15272--15322 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
15262 TTTTTAAAAA
* *
15272 TATATTTAAAAAAT
1 TATATTTAAATATT
**
15286 TATATTTTTATATT
1 TATATTTAAATATT
*
15300 TATATTTAAATATA
1 TATATTTAAATATT
15314 TATATTTAA
1 TATATTTAA
15323 CATAAATATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATTTAAATATT
Found at i:15340 original size:13 final size:13
Alignment explanation
Indices: 15305--15343 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
15295 ATATTTATAT
*
15305 TTAAATATATATA
1 TTAAATATAAATA
* *
15318 TTTAACATAAATA
1 TTAAATATAAATA
15331 TTAAATATAAATA
1 TTAAATATAAATA
15344 CATTAAAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAATATAAATA
Found at i:24869 original size:3 final size:3
Alignment explanation
Indices: 24863--24894 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24853 AATTTTTTTT
24863 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24895 GCGTCAGATT
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:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25279 original size:38 final size:37
Alignment explanation
Indices: 25196--25276 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 37
25186 AGAGTTTTTA
* *
25196 AATTTTATAAATAAAATTAGTTAAATAATACATATTT
1 AATTTTATAAATAAAATTACTAAAATAATACATATTT
* **
25233 AGATTTTATAAGTAAAATTACTAAAATAATATTTATTT
1 A-ATTTTATAAATAAAATTACTAAAATAATACATATTT
25271 AATTTT
1 AATTTT
25277 TATGATATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
37 6 0.16
38 32 0.84
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (37 bp):
AATTTTATAAATAAAATTACTAAAATAATACATATTT
Found at i:26351 original size:2 final size:2
Alignment explanation
Indices: 26344--26390 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
26334 GCACTAGGAT
26344 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26386 TA TA T
1 TA TA T
26391 TTTGAAGGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26492 original size:34 final size:34
Alignment explanation
Indices: 26454--26519 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
26444 TTTTTAAAAG
*
26454 ATATAAAATAAT-TTAATTTATT-AATAATATATAA
1 ATAT-AAATAATATTAATATATTAAAT-ATATATAA
*
26488 ATATATATAATATTAATATATTAAATATATAT
1 ATATAAATAATATTAATATATTAAATATATAT
26520 TTTAAGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 6 0.21
34 19 0.68
35 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (34 bp):
ATATAAATAATATTAATATATTAAATATATATAA
Found at i:26498 original size:28 final size:25
Alignment explanation
Indices: 26472--26519 Score: 80
Period size: 24 Copynumber: 1.9 Consensus size: 25
26462 TAATTTAATT
26472 TATTAATAATATATAAATATATATAA
1 TATTAAT-ATATATAAATATATATAA
26498 TATTAATATAT-TAAATATATAT
1 TATTAATATATATAAATATATAT
26520 TTTAAGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTAATATATATAAATATATATAA
Found at i:26505 original size:15 final size:17
Alignment explanation
Indices: 26477--26518 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
26467 TAATTTATTA
26477 ATAATATATAAATATAT
1 ATAATATATAAATATAT
26494 ATAATAT-T-AATATAT
1 ATAATATATAAATATAT
26509 -TAAATATATA
1 AT-AATATATA
26519 TTTTAAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.05
15 12 0.55
16 2 0.09
17 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAATATATAAATATAT
Found at i:26607 original size:30 final size:30
Alignment explanation
Indices: 26546--26608 Score: 74
Period size: 32 Copynumber: 2.1 Consensus size: 30
26536 AAAATATCAT
26546 AATTTAAAAATTTAAAAAATATTGATGTTAA
1 AATTTAAAAATTTAAAAAATATT-ATGTTAA
* * *
26577 AATTTAAAATTATTAAATAATATT-TTTTAA
1 AATTTAAAAAT-TTAAAAAATATTATGTTAA
26607 AA
1 AA
26609 AATATTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 7 0.25
31 10 0.36
32 11 0.39
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
AATTTAAAAATTTAAAAAATATTATGTTAA
Found at i:26629 original size:23 final size:24
Alignment explanation
Indices: 26577--26630 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
26567 TTGATGTTAA
* *
26577 AATTTAAAATTATTAAATAATATT
1 AATTAAAAAATATTAAATAATATT
**
26601 TTTTAAAAAATATTAAATAA-ATT
1 AATTAAAAAATATTAAATAATATT
26624 AATTAAA
1 AATTAAA
26631 TTAAATTTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AATTAAAAAATATTAAATAATATT
Found at i:26630 original size:13 final size:12
Alignment explanation
Indices: 26583--26643 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 12
26573 TTAAAATTTA
26583 AAATTATTAAAT
1 AAATTATTAAAT
*
26595 AATATTTTTTAAA-
1 AA-A-TTATTAAAT
26608 AAA-TATTAAAT
1 AAATTATTAAAT
26619 AAATTAATTAAATT
1 AAATT-ATTAAA-T
26633 AAATT-TTAAAT
1 AAATTATTAAAT
26644 TTACTGTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
10 6 0.15
11 4 0.10
12 9 0.22
13 9 0.22
14 13 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATTATTAAAT
Found at i:26642 original size:25 final size:24
Alignment explanation
Indices: 26582--26643 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
26572 GTTAAAATTT
**
26582 AAAATTATTAAATAATATTTTTTAA
1 AAAATT-TTAAATAATATTAATTAA
*
26607 AAAATATTAAATAA-ATTAATTAA
1 AAAATTTTAAATAATATTAATTAA
26630 ATTAAATTTTAAAT
1 A--AAATTTTAAAT
26644 TTACTGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 8 0.26
24 8 0.26
25 15 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AAAATTTTAAATAATATTAATTAA
Found at i:29765 original size:215 final size:216
Alignment explanation
Indices: 29409--29798 Score: 642
Period size: 215 Copynumber: 1.8 Consensus size: 216
29399 AATCGATTTA
*
29409 TCAAAGTTGATGTTGTTTATAATAGATTTGATTTAAATTAGTTATTAACATAAATTTTAGTAAGT
1 TCAAAATTGATGTTGTTTATAATAGATTTGATTTAAATTAGTTATTAACATAAATTTTA-TAAGT
*
29474 TAAGTTAATCTATTTATAATTTATAAAATGAGTAATCAAATCAATTGACTCAATTAATTTATAAT
65 TAAGTTAATCTATTTATAATTTATAAAATGAGTAATCAAATCAATTGACTCAATTAATCTATAAT
*
29539 AAATTATTATTTTTATATATTTTTAAATTTATTTAAAAAAATTATGTTAATAACTAATTTAAATC
130 AAATTATTATTTTTATATATTTTTAAATATATTTAAAAAAATTATGTTAATAACTAATTTAAATC
29604 AAATCTATTAATTTAATTTATC
195 AAATCTATTAATTTAATTTATC
* **
29626 TCAAAATTGATGTTGTTTATAATGGATTTGATTTAAATTAGTTATTAGTATAAATTTT-TAAGTT
1 TCAAAATTGATGTTGTTTATAATAGATTTGATTTAAATTAGTTATTAACATAAATTTTATAAGTT
* * * *
29690 CAGTTAGT-TGATTTATGATTTATAAAATGAGTAATCAAATCAACTT-ACTTAATTAATCTATAA
66 AAGTTAATCT-ATTTATAATTTATAAAATGAGTAATCAAATCAA-TTGACTCAATTAATCTATAA
29753 TAAATTATTATTTTTATATATTTTTAAATATATTTAAAAAAATTAT
129 TAAATTATTATTTTTATATATTTTTAAATATATTTAAAAAAATTAT
29799 ATACAATATA
Statistics
Matches: 161, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
214 1 0.01
215 104 0.65
216 2 0.01
217 54 0.34
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (216 bp):
TCAAAATTGATGTTGTTTATAATAGATTTGATTTAAATTAGTTATTAACATAAATTTTATAAGTT
AAGTTAATCTATTTATAATTTATAAAATGAGTAATCAAATCAATTGACTCAATTAATCTATAATA
AATTATTATTTTTATATATTTTTAAATATATTTAAAAAAATTATGTTAATAACTAATTTAAATCA
AATCTATTAATTTAATTTATC
Found at i:29877 original size:20 final size:19
Alignment explanation
Indices: 29853--29897 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
29843 ATATTTTTGT
29853 ATAATTTTTT-ATATAATTA
1 ATAATTTTTTAATA-AATTA
*
29872 ATTAATATTTTAATAAATTA
1 A-TAATTTTTTAATAAATTA
29892 ATAATT
1 ATAATT
29898 AAATTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 5 0.23
20 14 0.64
21 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAATTTTTTAATAAATTA
Found at i:29885 original size:16 final size:16
Alignment explanation
Indices: 29866--29915 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
29856 ATTTTTTATA
*
29866 TAATTAATTAATATTT
1 TAATTAATTAATAATT
*
29882 TAATAAATTAATAATT
1 TAATTAATTAATAATT
*
29898 AAATTTAATTATATAATT
1 TAA-TTAATTA-ATAATT
29916 ATATTCAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 16 0.57
17 6 0.21
18 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTAATTAATAATT
Found at i:30441 original size:2 final size:2
Alignment explanation
Indices: 30424--30471 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
30414 TAATCAGGAA
* *
30424 AT AT TT AT AT AC 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
30466 AT AT AT
1 AT AT AT
30472 GACAAATGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34380 original size:28 final size:29
Alignment explanation
Indices: 34332--34409 Score: 72
Period size: 28 Copynumber: 2.7 Consensus size: 29
34322 TAAACTTTTA
* *
34332 TTATATAAT-TTTTGACATATTAATA-TAT
1 TTATATAATATTTTTA-TTATTAATATTAT
**
34360 TTATATAATATTTTTATTATTTTTATTAT
1 TTATATAATATTTTTATTATTAATATTAT
*
34389 TT-TATATTATTTTATATTATT
1 TTATATAATATTTT-TATTATT
34410 TTAATTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
28 25 0.60
29 17 0.40
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (29 bp):
TTATATAATATTTTTATTATTAATATTAT
Found at i:34390 original size:29 final size:29
Alignment explanation
Indices: 34351--34420 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
34341 TTTTGACATA
34351 TTAATATATTTATATAATATTTT-TATTATT
1 TTAAT-TATTT-TATAATATTTTATATTATT
* *
34381 TTTATTATTTTATATTATTTTATATTATT
1 TTAATTATTTTATAATATTTTATATTATT
34410 TTAATTATTTT
1 TTAATTATTTT
34421 TTATTATGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.28
29 22 0.61
30 4 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (29 bp):
TTAATTATTTTATAATATTTTATATTATT
Found at i:34396 original size:10 final size:10
Alignment explanation
Indices: 34357--34427 Score: 94
Period size: 10 Copynumber: 7.3 Consensus size: 10
34347 CATATTAATA
*
34357 TATTTATATAA
1 TATTT-TATAT
34368 TATTTT-TAT
1 TATTTTATAT
34377 TATTTT-TAT
1 TATTTTATAT
34386 TATTTTATAT
1 TATTTTATAT
34396 TATTTTATAT
1 TATTTTATAT
34406 TATTTTA-AT
1 TATTTTATAT
*
34415 TATTTTTTAT
1 TATTTTATAT
34425 TAT
1 TAT
34428 GTTCGTATTA
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
9 25 0.45
10 26 0.46
11 5 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTTTATAT
Found at i:34398 original size:19 final size:19
Alignment explanation
Indices: 34357--34427 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
34347 CATATTAATA
*
34357 TATTTATATAATATTTTTAT
1 TATTT-TATATTATTTTTAT
34377 TATTTT-TATTATTTTATAT
1 TATTTTATATTATTTT-TAT
*
34396 TATTTTATATTATTTTAAT
1 TATTTTATATTATTTTTAT
*
34415 TATTTTTTATTAT
1 TATTTTATATTAT
34428 GTTCGTATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.17
19 24 0.52
20 14 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTTATATTATTTTTAT
Found at i:34586 original size:18 final size:18
Alignment explanation
Indices: 34565--34599 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34555 TTTTGCATGA
34565 TTTTATATTTTAGTTATT
1 TTTTATATTTTAGTTATT
*
34583 TTTTATATTTTATTTAT
1 TTTTATATTTTAGTTAT
34600 ATTCGTGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTATATTTTAGTTATT
Found at i:34870 original size:39 final size:39
Alignment explanation
Indices: 34750--34871 Score: 110
Period size: 39 Copynumber: 3.2 Consensus size: 39
34740 CAAATTATTG
*
34750 ATTAAATAATAAAA-ATATTTTTATTTAAATTTAA-TTAT
1 ATTAAATAATAAAATATATTTTTAATT-AATTTAATTTAT
* * * *
34788 A-TAAATATTAATATA-ATTTTTTTATT-TTTTAATATTAT
1 ATTAAATAATAAAATATA-TTTTTAATTAATTTAAT-TTAT
* * *
34826 TTTAAATAATAAAATATATTTTAAATTAATTTAATTTAA
1 ATTAAATAATAAAATATATTTTTAATTAATTTAATTTAT
34865 ATTAAAT
1 ATTAAAT
34872 TTTAAAAATA
Statistics
Matches: 64, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
36 5 0.08
37 11 0.17
38 13 0.20
39 28 0.44
40 7 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (39 bp):
ATTAAATAATAAAATATATTTTTAATTAATTTAATTTAT
Found at i:38208 original size:2 final size:2
Alignment explanation
Indices: 38201--38243 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
38191 ACACTATCCT
38201 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38243 T
1 T
38244 GGTAGAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38780 original size:16 final size:15
Alignment explanation
Indices: 38754--38807 Score: 65
Period size: 14 Copynumber: 3.5 Consensus size: 15
38744 ATTAGATTTA
*
38754 AAATATTATATATAT
1 AAATTTTATATATAT
38769 AAATTTTA-ATATAT
1 AAATTTTATATATAT
38783 AAATAATTTATATTATAT
1 AAAT--TTTATA-TATAT
38801 AAATTTT
1 AAATTTT
38808 TACATATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 10 0.29
15 7 0.21
16 7 0.21
17 1 0.03
18 9 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATTTTATATATAT
Found at i:38783 original size:18 final size:17
Alignment explanation
Indices: 38760--38807 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
38750 TTTAAAATAT
38760 TATATATATAAATTTTA
1 TATATATATAAATTTTA
*
38777 -ATATATA-AATAATTTA
1 TATATATATAA-ATTTTA
38793 TAT-TATATAAATTTT
1 TATATATATAAATTTT
38808 TACATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 2 0.08
16 20 0.77
17 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATATATAAATTTTA
Found at i:38814 original size:14 final size:14
Alignment explanation
Indices: 38762--38814 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
38752 TAAAATATTA
38762 TATATATAAATTTT
1 TATATATAAATTTT
*
38776 AATATATAAATAATTT
1 TATATATAAAT--TTT
38792 ATATTATATAAATTTT
1 -TA-TATATAAATTTT
*
38808 TACATAT
1 TATATAT
38815 TAATATATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 14 0.44
15 2 0.06
16 6 0.19
17 1 0.03
18 9 0.28
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
TATATATAAATTTT
Found at i:38857 original size:17 final size:16
Alignment explanation
Indices: 38837--38870 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
38827 ATTGTGTTAT
*
38837 TATTACTTTTTATATTA
1 TATTACATTTTA-ATTA
38854 TATTACATTTTAATTA
1 TATTACATTTTAATTA
38870 T
1 T
38871 TTTTTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTACATTTTAATTA
Found at i:38905 original size:21 final size:21
Alignment explanation
Indices: 38862--38905 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
38852 TATATTACAT
* *
38862 TTTAATTATTTTTTTAATATA
1 TTTAATTATTTCTTAAATATA
38883 TTTATATTATTTCTTAAAT-TA
1 TTTA-ATTATTTCTTAAATATA
38904 TT
1 TT
38906 ATTTCTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTAATTATTTCTTAAATATA
Found at i:39241 original size:14 final size:15
Alignment explanation
Indices: 39224--39264 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
39214 AAAAATATTT
*
39224 TTATTTAAAT-TTAA
1 TTATATAAATATTAA
39238 TTATATAAATATTAA
1 TTATATAAATATTAA
*
39253 -TATAAAAATATT
1 TTATATAAATATT
39265 TTTAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTATATAAATATTAA
Found at i:39294 original size:40 final size:38
Alignment explanation
Indices: 39198--39313 Score: 110
Period size: 42 Copynumber: 2.9 Consensus size: 38
39188 TGATCCAAGT
*
39198 TATTA-TTTAAATAATAAAAAATATTTTTATTTAAATTTA
1 TATTATTTTAAATAATAAAAAATATTTTTA-AT-AATTTA
* * *
39237 -ATTATATAAATATTAATATAAAAATATTTTTAATATTTTAA
1 TATTATTTTAA-A-TAATA-AAAAATATTTTTAATAATTT-A
*
39278 TATTATTTTAAATAATAAAATATATTTTTGAATAAT
1 TATTATTTTAAATAATAAAAAATATTTTT-AATAAT
39314 CTAATTTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
38 4 0.06
39 14 0.23
40 15 0.24
41 8 0.13
42 21 0.34
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (38 bp):
TATTATTTTAAATAATAAAAAATATTTTTAATAATTTA
Found at i:39306 original size:20 final size:19
Alignment explanation
Indices: 39249--39313 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
39239 TATATAAATA
39249 TTAAT-ATAAAA-ATATTT
1 TTAATAATAAAATATATTT
* **
39266 TTAATATTTTAATATTATTT
1 TTAATAATAAAATA-TATTT
*
39286 TAAATAATAAAATATATTT
1 TTAATAATAAAATATATTT
39305 TTGAATAAT
1 TT-AATAAT
39314 CTAATTTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
17 5 0.14
18 3 0.08
19 7 0.19
20 21 0.58
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TTAATAATAAAATATATTT
Found at i:39328 original size:39 final size:38
Alignment explanation
Indices: 39204--39328 Score: 101
Period size: 39 Copynumber: 3.1 Consensus size: 38
39194 AAGTTATTAT
* *
39204 TTAAATAATAAAAAATATTTTTATTTAAATTTAATTATATAAA
1 TTAAATAAT-AAAAATATTTTTA-AT-AATCTAA-TAT-TAAA
* * * **
39247 TATTAAT-ATAAAAATATTTTTAATATTTTAATATTATT
1 T-TAAATAATAAAAATATTTTTAATAATCTAATATTAAA
39285 TTAAATAATAAAATATATTTTTGAATAATCTAAT-TTAAA
1 TTAAATAATAAAA-ATATTTTT-AATAATCTAATATTAAA
39324 TTAAA
1 TTAAA
39329 ATTTAAAAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
37 4 0.06
38 9 0.13
39 19 0.28
40 15 0.22
41 1 0.01
42 13 0.19
43 3 0.04
44 4 0.06
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (38 bp):
TTAAATAATAAAAATATTTTTAATAATCTAATATTAAA
Found at i:44365 original size:23 final size:24
Alignment explanation
Indices: 44323--44367 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
44313 ATTTTTAAAA
*
44323 TTAAAATATATATATTTAAATATT
1 TTAAAATATAAATATTTAAATATT
*
44347 TTAAAA-ATAAATTTTTAAATA
1 TTAAAATATAAATATTTAAATA
44368 AAATATGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTAAAATATAAATATTTAAATATT
Found at i:47531 original size:4 final size:4
Alignment explanation
Indices: 47524--47550 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
47514 AATATATATA
47524 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
47551 TTAACAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:48602 original size:12 final size:10
Alignment explanation
Indices: 48563--48613 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
48553 TGGTATGAAT
48563 TTATTTTATTA
1 TTATTTTA-TA
*
48574 TT-TGTTATA
1 TTATTTTATA
48583 TTATTTTATA
1 TTATTTTATA
48593 TTAATATTTATA
1 TT-AT-TTTATA
48605 -TATTTTATA
1 TTATTTTATA
48614 ATTAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
9 10 0.29
10 14 0.40
11 5 0.14
12 6 0.17
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATTTTATA
Found at i:48610 original size:21 final size:22
Alignment explanation
Indices: 48578--48623 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
48568 TTATTATTTG
48578 TTATATTATTTTAT-ATTAATAT
1 TTATATTATTTTATAATTAA-AT
48600 TTATA-TATTTTATAATTAAAT
1 TTATATTATTTTATAATTAAAT
48621 TTA
1 TTA
48624 AATAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATATTATTTTATAATTAAAT
Found at i:49181 original size:17 final size:16
Alignment explanation
Indices: 49170--49214 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
49160 ATTTTCATAT
49170 TTTTAAATTTTTATTA
1 TTTTAAATTTTTATTA
* *
49186 TTTTAAATATATATTTA
1 TTTTAAATTTTTA-TTA
49203 TTTTAAGATTTT
1 TTTTAA-ATTTT
49215 AATTTCAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 11 0.48
17 9 0.39
18 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTAAATTTTTATTA
Found at i:49567 original size:16 final size:16
Alignment explanation
Indices: 49504--49567 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
49494 GTTTTATTAT
*
49504 TATATATAAGATATTA
1 TATATATAAGATTTTA
49520 TATATATAA-ATTTT-
1 TATATATAAGATTTTA
* *
49534 TAATATATTAATAATTTA
1 T-ATATA-TAAGATTTTA
49552 TATTATATAA-ATTTTA
1 TA-TATATAAGATTTTA
49568 ACATATTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 1 0.03
15 9 0.22
16 17 0.43
17 8 0.20
18 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TATATATAAGATTTTA
Found at i:49567 original size:32 final size:32
Alignment explanation
Indices: 49517--49578 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
49507 ATATAAGATA
*
49517 TTATATATATAAATTTTTAATATATTAATAAT
1 TTATATATATAAATTTTTAACATATTAATAAT
49549 TTATATTATATAAA-TTTTAACATATTAATA
1 TTATA-TATATAAATTTTTAACATATTAATA
49579 TATTCGTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 20 0.71
33 8 0.29
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (32 bp):
TTATATATATAAATTTTTAACATATTAATAAT
Found at i:49589 original size:33 final size:33
Alignment explanation
Indices: 49522--49590 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
49512 AGATATTATA
* *
49522 TATATAAATTTTTAATATATTAATAATTTATAT
1 TATATAAATTTTTAACATATTAATAATTCATAT
*
49555 TATATAAA-TTTTAACATATTAATATATTCGTAT
1 TATATAAATTTTTAACATATTAATA-ATTCATAT
49588 TAT
1 TAT
49591 TTTATTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (33 bp):
TATATAAATTTTTAACATATTAATAATTCATAT
Found at i:49596 original size:14 final size:15
Alignment explanation
Indices: 49577--49617 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
49567 AACATATTAA
*
49577 TATATTCGTATTATT
1 TATATTAGTATTATT
*
49592 T-TATTATTATTATT
1 TATATTAGTATTATT
49606 TATATTA-TATTA
1 TATATTAGTATTA
49618 CGTTTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (15 bp):
TATATTAGTATTATT
Found at i:49616 original size:34 final size:38
Alignment explanation
Indices: 49577--49655 Score: 94
Period size: 39 Copynumber: 2.2 Consensus size: 38
49567 AACATATTAA
49577 TATATT-CGTATT-ATT-TTATTATTAT-TATTTATAT
1 TATATTACGTATTAATTATTATTATTATATATTTATAT
* * *
49611 TATATTACGTTTTAATTATTTTTTTTATCATATTTATAT
1 TATATTACGTATTAATTATTATTATTAT-ATATTTATAT
49650 TATATT
1 TATATT
49656 TTAAATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 6 0.16
35 5 0.14
36 3 0.08
37 8 0.22
39 15 0.41
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.65
Consensus pattern (38 bp):
TATATTACGTATTAATTATTATTATTATATATTTATAT
Found at i:49784 original size:18 final size:19
Alignment explanation
Indices: 49761--49802 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
49751 TATGATAATT
49761 TATTTTTA-TT-TTATTTTA
1 TATTTTTAGTTATT-TTTTA
49779 TA-TTTTAGTTATTTTTTA
1 TATTTTTAGTTATTTTTTA
49797 TATTTT
1 TATTTT
49803 ATCTTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TATTTTTAGTTATTTTTTA
Found at i:50071 original size:20 final size:19
Alignment explanation
Indices: 50014--50071 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
50004 TATATAAATA
50014 TTAAT-ATAAAAT-TATTT
1 TTAATAATAAAATATATTT
* **
50031 TTAATATTTTAATATTATTT
1 TTAATAATAAAATA-TATTT
*
50051 TAAATAATAAAATATATTT
1 TTAATAATAAAATATATTT
50070 TT
1 TT
50072 GAATCAATCT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
17 5 0.17
18 4 0.13
19 6 0.20
20 15 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAATAATAAAATATATTT
Found at i:56227 original size:16 final size:17
Alignment explanation
Indices: 56197--56229 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
56187 TTATGATATA
*
56197 ATTTTATATATTTAAAT
1 ATTTTATATAATTAAAT
56214 ATTTT-TATAATTAAAT
1 ATTTTATATAATTAAAT
56230 TTAAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTATATAATTAAAT
Found at i:56270 original size:29 final size:28
Alignment explanation
Indices: 56201--56271 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
56191 GATATAATTT
*
56201 TATATATTTAAATATTTTTATAATTAAA
1 TATAAATTTAAATATTTTTATAATTAAA
* ** *
56229 TTTAAATAAAAATATTATTTATTATTAAA
1 TATAAATTTAAATATT-TTTATAATTAAA
56258 TA-ATAATTTAAATA
1 TATA-AATTTAAATA
56272 GTATCGATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
28 13 0.39
29 20 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TATAAATTTAAATATTTTTATAATTAAA
Found at i:57088 original size:2 final size:2
Alignment explanation
Indices: 57081--57108 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
57071 TTGGTCAAGA
57081 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
57109 TCAATTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.