Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1867
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: 55243
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Found at i:683 original size:22 final size:21
Alignment explanation
Indices: 618--687 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 21
608 TAAAATATAG
618 TATTTTT-AATTT-TTATAA-
1 TATTTTTAAATTTATTATAAT
* *
636 AATATTTTAAATGTTA-TATTATT
1 TAT-TTTTAAAT-TTATTA-TAAT
659 TATTTTTAAATTTATTATAGAT
1 TATTTTTAAATTTATTATA-AT
681 TATTTTT
1 TATTTTT
688 TTACTTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
18 2 0.05
19 4 0.10
20 3 0.08
21 9 0.22
22 20 0.50
23 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (21 bp):
TATTTTTAAATTTATTATAAT
Found at i:2034 original size:20 final size:20
Alignment explanation
Indices: 2001--2053 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1991 CATGATTTGC
*
2001 ATTAAATTAAATTTAAATAA
1 ATTAATTTAAATTTAAATAA
2021 ATT-ATTTAATATTTAAATAA
1 ATTAATTTAA-ATTTAAATAA
2041 ATTAATTTAAATT
1 ATTAATTTAAATT
2054 ATTATTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 5 0.17
20 19 0.63
21 6 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTAATTTAAATTTAAATAA
Found at i:2674 original size:13 final size:13
Alignment explanation
Indices: 2656--2682 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2646 CCAATTGTAA
2656 TAAATATTGATAC
1 TAAATATTGATAC
2669 TAAATATTGATAC
1 TAAATATTGATAC
2682 T
1 T
2683 GAAAAAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TAAATATTGATAC
Found at i:3562 original size:15 final size:17
Alignment explanation
Indices: 3524--3559 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
3514 ATTTAGATTA
*
3524 ATATTAAATATAAATAT
1 ATATTTAATATAAATAT
3541 ATATTTAATATAAATAT
1 ATATTTAATATAAATAT
3558 AT
1 AT
3560 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATTTAATATAAATAT
Found at i:3570 original size:23 final size:23
Alignment explanation
Indices: 3521--3594 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 23
3511 TAAATTTAGA
** *
3521 TTAATATTAAATATAAATATATAT
1 TTAATA-TAAATATATTTATTTAT
3545 TTAATATAAATATATTTATTT-T
1 TTAATATAAATATATTTATTTAT
*
3567 TT--TATAAATAT-TTTATTTAC
1 TTAATATAAATATATTTATTTAT
3587 TTAA-ATAA
1 TTAATATAA
3595 TTATTTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 7 0.16
20 11 0.26
21 4 0.09
22 3 0.07
23 12 0.28
24 6 0.14
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (23 bp):
TTAATATAAATATATTTATTTAT
Found at i:3575 original size:37 final size:35
Alignment explanation
Indices: 3532--3603 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 35
3522 TAATATTAAA
3532 TATAAATA-TATATTTAATATAAATATATTTATTTTTT
1 TATAAATATTATATTTAAT-TAAATA-A-TTATTTTTT
* *
3569 TATAAATATTTTATTTACTTAAATAATTATTTTTT
1 TATAAATATTATATTTAATTAAATAATTATTTTTT
3604 AATTTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 9 0.28
36 1 0.03
37 14 0.44
38 8 0.25
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (35 bp):
TATAAATATTATATTTAATTAAATAATTATTTTTT
Found at i:3616 original size:12 final size:12
Alignment explanation
Indices: 3592--3624 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3582 TTTACTTAAA
3592 TAATTAT-TTTT
1 TAATTATATTTT
*
3603 TAATTTTATTTT
1 TAATTATATTTT
3615 TAATTATATT
1 TAATTATATT
3625 AAACATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TAATTATATTTT
Found at i:5281 original size:11 final size:11
Alignment explanation
Indices: 5265--5295 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
5255 GATAAATTAA
5265 ATAATTATTTG
1 ATAATTATTTG
5276 ATAATTATTTG
1 ATAATTATTTG
5287 ATAATTATT
1 ATAATTATT
5296 AATTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
ATAATTATTTG
Found at i:7657 original size:22 final size:19
Alignment explanation
Indices: 7610--7667 Score: 91
Period size: 19 Copynumber: 3.0 Consensus size: 19
7600 ATTTTTTAAA
7610 ATTAATAAAAGATAATATT
1 ATTAATAAAAGATAATATT
7629 ATTAATAAAAGATAATATT
1 ATTAATAAAAGATAATATT
7648 ATT-ATAAATAGAATAATATT
1 ATTAATAAA-AG-ATAATATT
7668 TTTATTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
18 5 0.14
19 24 0.65
20 8 0.22
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
ATTAATAAAAGATAATATT
Found at i:7960 original size:24 final size:24
Alignment explanation
Indices: 7940--8014 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
7930 TTTAATTTAA
*
7940 AATAATTGGATTATTATAATTTTT
1 AATAATTAGATTATTATAATTTTT
* *
7964 AATAATTAGATCATTACAATTTTT
1 AATAATTAGATTATTATAATTTTT
* *
7988 AATAATTAGATTATCATAACTTTT
1 AATAATTAGATTATTATAATTTTT
8012 AAT
1 AAT
8015 TTAAATTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.48
Consensus pattern (24 bp):
AATAATTAGATTATTATAATTTTT
Found at i:8079 original size:14 final size:14
Alignment explanation
Indices: 8042--8092 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
8032 TTAGACAATT
8042 ATAATTTAAATTAA
1 ATAATTTAAATTAA
*
8056 A-ATTTTAAATTAA
1 ATAATTTAAATTAA
*
8069 ATAAATTAAATTAA
1 ATAATTTAAATTAA
*
8083 ATATTTTAAA
1 ATAATTTAAA
8093 ATAATTACAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 12 0.39
14 19 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATTTAAATTAA
Found at i:8200 original size:19 final size:19
Alignment explanation
Indices: 8176--8220 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
8166 AAAATTAATA
8176 TATTAATAATATTAA-CTTT
1 TATTAATAATA-TAATCTTT
8195 TATTAATAATATAATCTTT
1 TATTAATAATATAATCTTT
8214 TATTAAT
1 TATTAAT
8221 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTAATAATATAATCTTT
Found at i:8756 original size:45 final size:45
Alignment explanation
Indices: 8697--8811 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 45
8687 AACCACCGTG
* * * * * *
8697 TGAACCACCGAAGAAAGAGAAGCCTGAGCCTAAACCACCAGTTTA
1 TGAACCTCCAAAGAAGGAGAAGCCAGAACCTAAACCACCAGTCTA
* * * *
8742 TGAACCTCCAAAGAAGGAAAAACCAGAACCTAAGCCTCCAGTCTA
1 TGAACCTCCAAAGAAGGAGAAGCCAGAACCTAAACCACCAGTCTA
*
8787 TGAACCTCCTAAGAAGGAGAAGCCA
1 TGAACCTCCAAAGAAGGAGAAGCCA
8812 CCCGTCTATG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.41, C:0.27, G:0.19, T:0.13
Consensus pattern (45 bp):
TGAACCTCCAAAGAAGGAGAAGCCAGAACCTAAACCACCAGTCTA
Found at i:8911 original size:27 final size:27
Alignment explanation
Indices: 8878--8934 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
8868 GCCAGAACCC
8878 AAACCACCGG-TGTATGAACCTCCAAAG
1 AAACCACCGGCT-TATGAACCTCCAAAG
*
8905 AAACCACCGGCTTATGGACCTCCAAAG
1 AAACCACCGGCTTATGAACCTCCAAAG
8932 AAA
1 AAA
8935 GAAAAGCCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.39, C:0.30, G:0.18, T:0.14
Consensus pattern (27 bp):
AAACCACCGGCTTATGAACCTCCAAAG
Found at i:8975 original size:45 final size:45
Alignment explanation
Indices: 8908--9509 Score: 873
Period size: 45 Copynumber: 13.4 Consensus size: 45
8898 TCCAAAGAAA
* * *
8908 CCACCGG-CTTATGGACCTCCAAAGAAAGAAAAGCCAGAACCCAAG
1 CCACCGGTC-TATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
* *
8953 CCACCGGTCTATGAACCACCAAAGAAGGAAAAACCTGAACCCAAG
1 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
* * * * *
8998 CCACCGTTCTATGAACCACCAAAGAAGGAAAGGCCACAGCCTAAG
1 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
*
9043 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCTGAACCCAAG
1 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
* * *
9088 CCACCGGCCTATGAACCACCAAAGAAAGAAAAGCCCGAACCCAAG
1 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
* *
9133 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAGCCTAAG
1 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
*
9178 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAGCCCAAG
1 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
** *
9223 CCACCGGTCTATGAACCACCAAAGAAAAAAAAGCCAGAGCCCAAG
1 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
*
9268 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCCGAACCCAAG
1 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
* * *
9313 CCACCGGTTTATGAACCACCAAAGAAAGAAAAGCCTGAACCCAAG
1 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
* * *
9358 CCACCCGTCTGTGAACCACCAAAGAAGGAAAAGCCAGAGCCCAAG
1 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
* * **
9403 CCACCGGTCTATGAACCACCAAAGAAAGAAAAGCCAGAGCATAAG
1 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
* * *
9448 CCACCGGTCTATGAACCACCAAAGAAAGAAGAGCCAGAACCGAAG
1 CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
*
9493 CCACCAGTCTATGAACC
1 CCACCGGTCTATGAACC
9510 TCCTCCAAAG
Statistics
Matches: 504, Mismatches: 52, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
45 503 1.00
46 1 0.00
ACGTcount: A:0.41, C:0.31, G:0.20, T:0.08
Consensus pattern (45 bp):
CCACCGGTCTATGAACCACCAAAGAAGGAAAAGCCAGAACCCAAG
Found at i:8976 original size:72 final size:72
Alignment explanation
Indices: 8806--8978 Score: 238
Period size: 72 Copynumber: 2.4 Consensus size: 72
8796 TAAGAAGGAG
* * * * * *
8806 AAGCCACCCGTCTATGAACCACCAGACAAACCACCAGTTTATGCACCACCGAAGAAAGAGAAGCC
1 AAGCCACCGGTCTATGAACCACCAAAGAAACCACCAGCTTATGCACCACCAAAGAAAGAAAAGCC
8871 AGAACCC
66 AGAACCC
* * * * * *
8878 AAACCACCGGTGTATGAACCTCCAAAGAAACCACCGGCTTATGGACCTCCAAAGAAAGAAAAGCC
1 AAGCCACCGGTCTATGAACCACCAAAGAAACCACCAGCTTATGCACCACCAAAGAAAGAAAAGCC
8943 AGAACCC
66 AGAACCC
8950 AAGCCACCGGTCTATGAACCACCAAAGAA
1 AAGCCACCGGTCTATGAACCACCAAAGAA
8979 GGAAAAACCT
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 86 1.00
ACGTcount: A:0.40, C:0.32, G:0.17, T:0.10
Consensus pattern (72 bp):
AAGCCACCGGTCTATGAACCACCAAAGAAACCACCAGCTTATGCACCACCAAAGAAAGAAAAGCC
AGAACCC
Found at i:10498 original size:22 final size:22
Alignment explanation
Indices: 10465--10506 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
10455 TATTTTTATT
10465 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
10487 TAAATATT-ATTATAAAAATA
1 TAAAT-TTAATTATAAAAATA
10507 ATTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:10554 original size:11 final size:12
Alignment explanation
Indices: 10538--10566 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
10528 AATTAAATAA
10538 TAAATTCAAA-T
1 TAAATTCAAATT
10549 TAAATTCAAATT
1 TAAATTCAAATT
10561 TAAATT
1 TAAATT
10567 TTAATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTCAAATT
Found at i:10572 original size:23 final size:22
Alignment explanation
Indices: 10512--10572 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
10502 AAATAATTTT
*
10512 TTTAATATTTTAATTTAATTAAA
1 TTTAA-ATTTTAATTAAATTAAA
* **
10535 TAATAAATTCAAATTAAATTCAAA
1 T-TTAAATTTTAATTAAATT-AAA
10559 TTTAAATTTTAATT
1 TTTAAATTTTAATT
10573 TTAATTTTTG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
23 22 0.76
24 7 0.24
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTAAATTTTAATTAAATTAAA
Found at i:11997 original size:23 final size:24
Alignment explanation
Indices: 11971--12027 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
11961 TTTTTTATAT
11971 AAAATTAAAAATAAT-AAAACAAA
1 AAAATTAAAAATAATCAAAACAAA
* *
11994 AAAA-TAATAATAATCAAATCAAA
1 AAAATTAAAAATAATCAAAACAAA
*
12017 AAAATCAAAAA
1 AAAATTAAAAA
12028 AAAAGAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 9 0.32
23 15 0.54
24 4 0.14
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (24 bp):
AAAATTAAAAATAATCAAAACAAA
Found at i:12005 original size:22 final size:23
Alignment explanation
Indices: 11971--12027 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
11961 TTTTTTATAT
*
11971 AAAATTAAAAATAAT-AAAACAA
1 AAAAATAAAAATAATCAAAACAA
* *
11993 AAAAATAATAATAATCAAATCAA
1 AAAAATAAAAATAATCAAAACAA
12016 AAAAATCAAAAA
1 AAAAAT-AAAAA
12028 AAAAGAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 13 0.45
23 12 0.41
24 4 0.14
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (23 bp):
AAAAATAAAAATAATCAAAACAA
Found at i:15707 original size:21 final size:21
Alignment explanation
Indices: 15683--15722 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15673 TATTATTATT
15683 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAATATA
*
15704 TAAATATTAATGTAAAATA
1 TAAATATTAATATAAAATA
15723 ATTTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:15789 original size:16 final size:16
Alignment explanation
Indices: 15768--15802 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15758 TAAATGATAT
*
15768 AAATAGATCAGATTAA
1 AAATAGATCAGAATAA
*
15784 AAATAGATCTGAATAA
1 AAATAGATCAGAATAA
15800 AAA
1 AAA
15803 ATTTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (16 bp):
AAATAGATCAGAATAA
Found at i:18238 original size:23 final size:23
Alignment explanation
Indices: 18191--18246 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
18181 TTAATTGAGC
* *
18191 TTTTAGTTTAAGTTTAGATGAAT
1 TTTTAGTTTAAGTCTAAATGAAT
* *
18214 TTTTAGTTTAGGTCTAAATGGA-
1 TTTTAGTTTAAGTCTAAATGAAT
*
18236 TTTAAGTTTAA
1 TTTTAGTTTAA
18247 ATTTATATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (23 bp):
TTTTAGTTTAAGTCTAAATGAAT
Found at i:22681 original size:18 final size:19
Alignment explanation
Indices: 22648--22684 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
22638 ATATTTAATT
22648 TTTTAAAATATTAAATAAA
1 TTTTAAAATATTAAATAAA
*
22667 TTTTCAAAT-TTAAATAAA
1 TTTTAAAATATTAAATAAA
22685 CAATTTTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTTAAAATATTAAATAAA
Found at i:24378 original size:6 final size:6
Alignment explanation
Indices: 24367--24428 Score: 54
Period size: 6 Copynumber: 9.5 Consensus size: 6
24357 TATTAATATC
*
24367 ATATTT ATATTT ATAACATT ATATATT A-ATATT ATATTT ATATTT AATATTAT
1 ATATTT ATATTT AT-A-TTT ATAT-TT ATAT-TT ATATTT ATATTT -ATATT-T
24420 ATATTT ATA
1 ATATTT ATA
24429 AAAATTTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
6 26 0.54
7 17 0.35
8 5 0.10
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (6 bp):
ATATTT
Found at i:24394 original size:33 final size:31
Alignment explanation
Indices: 24352--24424 Score: 101
Period size: 33 Copynumber: 2.3 Consensus size: 31
24342 ATACCGTTAT
*
24352 TTATGTATTAATATCATATTTATATTTATAACA
1 TTATATATTAATATCATATTTATA-TT-TAACA
* *
24385 TTATATATTAATATTATATTTATATTTAATA
1 TTATATATTAATATCATATTTATATTTAACA
24416 TTATATATT
1 TTATATATT
24425 TATAAAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 13 0.35
32 2 0.05
33 22 0.59
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (31 bp):
TTATATATTAATATCATATTTATATTTAACA
Found at i:24415 original size:18 final size:19
Alignment explanation
Indices: 24349--24421 Score: 77
Period size: 18 Copynumber: 4.2 Consensus size: 19
24339 TAGATACCGT
* *
24349 TATTTATGTATTAATATCA
1 TATTTATATATTAATATTA
24368 TATTTATAT-TT-ATA--A
1 TATTTATATATTAATATTA
*
24383 CA-TTATATATTAATATTA
1 TATTTATATATTAATATTA
24401 TATTTATAT-TTAATATTA
1 TATTTATATATTAATATTA
24419 TAT
1 TAT
24422 ATTTATAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
14 6 0.13
15 4 0.09
16 3 0.07
17 3 0.07
18 16 0.35
19 14 0.30
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (19 bp):
TATTTATATATTAATATTA
Found at i:24905 original size:12 final size:12
Alignment explanation
Indices: 24876--24917 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
24866 ATGTGATGTA
*
24876 ATATTTTATCTT
1 ATATTTTATTTT
*
24888 GTATTTTAATTTT
1 ATATTTT-ATTTT
24901 A-ATTTTATTTT
1 ATATTTTATTTT
24912 ATATTT
1 ATATTT
24918 GAAATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 6 0.24
12 15 0.60
13 4 0.16
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (12 bp):
ATATTTTATTTT
Found at i:25170 original size:20 final size:18
Alignment explanation
Indices: 25145--25182 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25135 TCACGTAATT
*
25145 TTTATATTTTTTATTATA
1 TTTATATATTTTATTATA
25163 TTTATATATTTTATTATA
1 TTTATATATTTTATTATA
25181 TT
1 TT
25183 ATAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATATATTTTATTATA
Found at i:25802 original size:22 final size:21
Alignment explanation
Indices: 25761--25803 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
25751 ATATTTTTTA
25761 TATAAATTTAATTATTAAAATG
1 TATAAATTTAATTA-TAAAATG
25783 TATAAATATTAATGTA-AAAAT
1 TATAAAT-TTAAT-TATAAAAT
25804 AATATGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 12 0.63
23 5 0.26
24 2 0.11
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (21 bp):
TATAAATTTAATTATAAAATG
Found at i:27505 original size:42 final size:43
Alignment explanation
Indices: 27416--27527 Score: 163
Period size: 42 Copynumber: 2.6 Consensus size: 43
27406 GACTCAAATG
* * *
27416 TATTATTCGATACTTAAATCAATAAATAAAAAAAATTAAGTCA
1 TATTTTTCAATACTTAAATCAATAAATAAAAAAAATTAAATCA
* *
27459 TATTTTTTAATACTTAAATCAATAAAT-AAAAAAATTAAATCG
1 TATTTTTCAATACTTAAATCAATAAATAAAAAAAATTAAATCA
*
27501 TATTTTTCGATACTTAAATCAATAAAT
1 TATTTTTCAATACTTAAATCAATAAAT
27528 GAATATGAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 38 0.61
43 24 0.39
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.38
Consensus pattern (43 bp):
TATTTTTCAATACTTAAATCAATAAATAAAAAAAATTAAATCA
Found at i:28229 original size:2 final size:2
Alignment explanation
Indices: 28217--28262 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
28207 GTAGGAGCAT
*
28217 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28258 TA TA T
1 TA TA T
28263 TTCCAATTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29280 original size:19 final size:19
Alignment explanation
Indices: 29247--29301 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
29237 TTTTAAAATT
* *
29247 TTAAATTATTTAATATTTA
1 TTAAATTAATAAATATTTA
*
29266 TTAAATTAATAAATAATTA
1 TTAAATTAATAAATATTTA
*
29285 --AAATTATAAAAATATTT
1 TTAAATTA-ATAAATATTT
29302 TTTTCCTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 6 0.20
18 8 0.27
19 16 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAATTAATAAATATTTA
Found at i:29632 original size:31 final size:32
Alignment explanation
Indices: 29559--29632 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 32
29549 AAATTAATAA
29559 TTCATATTATA-TATATTTAAAATATTTATGT
1 TTCATATTATATTATATTTAAAATATTTATGT
* * * * *
29590 AT-ATATCATATTATATTTTAATTATTT-TTT
1 TTCATATTATATTATATTTAAAATATTTATGT
29620 TTCATATTATATT
1 TTCATATTATATT
29633 TATCTAATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (32 bp):
TTCATATTATATTATATTTAAAATATTTATGT
Found at i:29947 original size:3 final size:3
Alignment explanation
Indices: 29939--29968 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
29929 ATTTATTTAT
29939 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
29969 ATCTGAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30160 original size:20 final size:19
Alignment explanation
Indices: 30117--30162 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
30107 AATTATATTA
* *
30117 TAATTTATTTAAAATATTT
1 TAATATATTTAAAAAATTT
30136 T--TATATTTATAAAAATTT
1 TAATATATTTA-AAAAATTT
30154 TAATATATT
1 TAATATATT
30163 AATTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 7 0.32
18 8 0.36
19 1 0.05
20 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATATATTTAAAAAATTT
Found at i:30179 original size:5 final size:5
Alignment explanation
Indices: 30157--30249 Score: 54
Period size: 5 Copynumber: 19.0 Consensus size: 5
30147 AAAATTTTAA
* * * *
30157 TATAT TA-AT TAT-T TATAT TATA- TAAAT TTTAA GATA- TATATT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA-T TATAT
* *
30204 TATAT TATAT TATA- TAT-T AAATAT TTTATT TATAT TATATT TATAT
1 TATAT TATAT TATAT TATAT -TATAT TATA-T TATAT TATA-T TATAT
30250 AAATATATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 20
0.68 0.11 0.20
Matches are distributed among these distances:
4 17 0.25
5 36 0.54
6 14 0.21
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:30184 original size:32 final size:30
Alignment explanation
Indices: 30124--30243 Score: 113
Period size: 32 Copynumber: 3.9 Consensus size: 30
30114 TTATAATTTA
*
30124 TTTAAA-A-TATT-TTTATATTTATAAAAAT
1 TTTAAATATTATTATTTATA-TTATATAAAT
30152 TTTAATATATTAATTATTTATATTATATAAAT
1 TTTAA-ATATT-ATTATTTATATTATATAAAT
*
30184 TTTAAGATATATATTTATATTATATTATATTATAT
1 TTTAA-ATAT-TA-TTAT-TTATATTATA-TAAAT
*
30219 ATTAAATATT-TTATTTATATTATAT
1 TTTAAATATTATTATTTATATTATAT
30244 TTATATAAAT
Statistics
Matches: 79, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
28 5 0.06
29 2 0.03
30 11 0.14
31 5 0.06
32 22 0.28
33 12 0.15
34 14 0.18
35 8 0.10
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (30 bp):
TTTAAATATTATTATTTATATTATATAAAT
Found at i:30310 original size:25 final size:24
Alignment explanation
Indices: 30169--30319 Score: 93
Period size: 23 Copynumber: 6.3 Consensus size: 24
30159 TATTAATTAT
*
30169 TTATA-TTATA-TAAATTTTA-AGA
1 TTATATTTATATTATATTTTATA-A
* *
30191 TATATATTTATATTATATTATATTA
1 T-TATATTTATATTATATTTTATAA
* *
30216 -TATATTAAATATTTTA-TTTAT-A
1 TTATATT-TATATTATATTTTATAA
* *
30238 TTATATTTATATAAATATATTTAAAA
1 TTATATTTATAT-TATAT-TTTATAA
* *
30264 TTATCATATCTATT-T-TTTTATAA
1 TTAT-ATTTATATTATATTTTATAA
30287 TTATATTTATATTATATGTTTATAA
1 TTATATTTATATTATAT-TTTATAA
*
30312 TTGTATTT
1 TTATATTT
30320 TAAAATTAAA
Statistics
Matches: 98, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
22 13 0.13
23 33 0.34
24 14 0.14
25 27 0.28
26 5 0.05
27 6 0.06
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (24 bp):
TTATATTTATATTATATTTTATAA
Found at i:30321 original size:13 final size:13
Alignment explanation
Indices: 30279--30332 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
30269 ATATCTATTT
30279 TTTTATAATTATA
1 TTTTATAATTATA
30292 -TTTAT-ATTATA
1 TTTTATAATTATA
*
30303 TGTTTATAATTGTA
1 T-TTTATAATTATA
* *
30317 TTTTAAAATTAAA
1 TTTTATAATTATA
30330 TTT
1 TTT
30333 ATCTGTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 6 0.18
12 5 0.15
13 17 0.50
14 6 0.18
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (13 bp):
TTTTATAATTATA
Found at i:30449 original size:18 final size:19
Alignment explanation
Indices: 30426--30463 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30416 AAACACAATA
30426 ATATT-ATA-ATATTATTTT
1 ATATTAATATATA-TATTTT
30444 ATATTAATATATATATTTT
1 ATATTAATATATATATTTT
30463 A
1 A
30464 AAAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 10 0.56
20 3 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTAATATATATATTTT
Found at i:30646 original size:23 final size:23
Alignment explanation
Indices: 30618--30669 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
30608 TATTTAAATA
30618 AATTATA-ATATGTTAATA-ATTT
1 AATTATATAT-TGTTAATATATTT
*
30640 ATATTATATATTTTTAATATATTT
1 A-ATTATATATTGTTAATATATTT
30664 AATTAT
1 AATTAT
30670 TTATATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 1 0.04
23 18 0.69
24 7 0.27
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
AATTATATATTGTTAATATATTT
Found at i:30981 original size:16 final size:16
Alignment explanation
Indices: 30934--30967 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30924 ATTTTATATG
30934 TAAAAATATTTATCTT
1 TAAAAATATTTATCTT
* *
30950 TAAAAATTTTTATTTT
1 TAAAAATATTTATCTT
30966 TA
1 TA
30968 TTTTTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TAAAAATATTTATCTT
Found at i:31090 original size:31 final size:33
Alignment explanation
Indices: 31029--31096 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 33
31019 AAATTTTTTA
* * *
31029 AAAATAATATTTATTTTTAATATTATTAAATTT
1 AAAACAATATTTATTCTTAATACTATTAAATTT
31062 AAAACAATATTTA-TCTTAA-ACTATTAAATTT
1 AAAACAATATTTATTCTTAATACTATTAAATTT
31093 AAAA
1 AAAA
31097 TAAAAAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 15 0.47
32 5 0.16
33 12 0.38
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (33 bp):
AAAACAATATTTATTCTTAATACTATTAAATTT
Found at i:31931 original size:21 final size:21
Alignment explanation
Indices: 31906--31947 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
31896 TCATGTTGGT
*
31906 TTAATATAAATTATTATTTAA
1 TTAATAAAAATTATTATTTAA
*
31927 TTAATAAAAATTTTTATTTAA
1 TTAATAAAAATTATTATTTAA
31948 ATTTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAATAAAAATTATTATTTAA
Found at i:34079 original size:20 final size:20
Alignment explanation
Indices: 34051--34094 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
34041 AACTAAATGT
* *
34051 ATATTTTTATTAATAATTTA
1 ATATATTTAATAATAATTTA
* *
34071 ATATATTTAATATTTATTTA
1 ATATATTTAATAATAATTTA
34091 ATAT
1 ATAT
34095 TAAAATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATATTTAATAATAATTTA
Found at i:34118 original size:21 final size:21
Alignment explanation
Indices: 34090--34131 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
34080 ATATTTATTT
*
34090 AATATTAAAAT-TTTTTTAAA
1 AATATTAAAATCTTATTTAAA
34110 AATATTTAAAATCTTATTTAAA
1 AATA-TTAAAATCTTATTTAAA
34132 TTAATCGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 7 0.37
22 8 0.42
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATTAAAATCTTATTTAAA
Found at i:34132 original size:20 final size:19
Alignment explanation
Indices: 34066--34132 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
34056 TTTATTAATA
*
34066 ATTTAATATATTTAATATTT
1 ATTTAA-ATATTTAAAATTT
34086 ATTT-AATA-TTAAAATTT
1 ATTTAAATATTTAAAATTT
*
34103 TTTTAAAAATATTTAAAATCTT
1 ATTT--AAATATTTAAAAT-TT
34125 ATTTAAAT
1 ATTTAAAT
34133 TAATCGACTG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 11 0.28
18 3 0.08
19 1 0.03
20 12 0.31
21 7 0.18
22 5 0.13
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAAATATTTAAAATTT
Found at i:35092 original size:94 final size:94
Alignment explanation
Indices: 34931--35119 Score: 378
Period size: 94 Copynumber: 2.0 Consensus size: 94
34921 GGGTTATTAT
34931 TATTATTATTATTATTTAAAAAATTCTCTTGCTTTCTTTCGTAACCTAGAACAACTTATTTTATG
1 TATTATTATTATTATTTAAAAAATTCTCTTGCTTTCTTTCGTAACCTAGAACAACTTATTTTATG
34996 TCTGAACGGAAGAAGCATTTTTTCTTTTC
66 TCTGAACGGAAGAAGCATTTTTTCTTTTC
35025 TATTATTATTATTATTTAAAAAATTCTCTTGCTTTCTTTCGTAACCTAGAACAACTTATTTTATG
1 TATTATTATTATTATTTAAAAAATTCTCTTGCTTTCTTTCGTAACCTAGAACAACTTATTTTATG
35090 TCTGAACGGAAGAAGCATTTTTTCTTTTC
66 TCTGAACGGAAGAAGCATTTTTTCTTTTC
35119 T
1 T
35120 TTTTGGTTCT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.47
Consensus pattern (94 bp):
TATTATTATTATTATTTAAAAAATTCTCTTGCTTTCTTTCGTAACCTAGAACAACTTATTTTATG
TCTGAACGGAAGAAGCATTTTTTCTTTTC
Found at i:35640 original size:40 final size:40
Alignment explanation
Indices: 35595--35704 Score: 99
Period size: 40 Copynumber: 2.8 Consensus size: 40
35585 AAGTTAATTC
35595 AATTTAGTTTAAATTATTATTTAAATAATAAAAAT-ATTTTT
1 AATTTA-TTT-AATTATTATTTAAATAATAAAAATAATTTTT
*
35636 -ATTTAAATTTAATTATAAATATT-AAT-AT-AAAATAATTTTT
1 AATTT--ATTTAATTAT-TAT-TTAAATAATAAAAATAATTTTT
35676 AATTT-TTTAA-TATTATTTTAAATAATAAA
1 AATTTATTTAATTATTA-TTTAAATAATAAA
35705 TACGGTAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 22
0.70 0.02 0.27
Matches are distributed among these distances:
36 3 0.05
37 7 0.12
38 7 0.12
39 7 0.12
40 18 0.32
41 12 0.21
42 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (40 bp):
AATTTATTTAATTATTATTTAAATAATAAAAATAATTTTT
Found at i:36804 original size:2 final size:2
Alignment explanation
Indices: 36799--36823 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36789 TATATATTCG
36799 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
36824 AATTTTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39662 original size:24 final size:22
Alignment explanation
Indices: 39632--39682 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 22
39622 ATTTAAAAAA
*
39632 TTTTAAAATCTAATTTATTTTTAT
1 TTTTAAAAT-TAATTTA-ATTTAT
39656 TTTTAAAATTAATTTAATTTAT
1 TTTTAAAATTAATTTAATTTAT
39678 TTTTA
1 TTTTA
39683 TGAAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 10 0.38
23 7 0.27
24 9 0.35
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTAAAATTAATTTAATTTAT
Found at i:39688 original size:24 final size:23
Alignment explanation
Indices: 39632--39700 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
39622 ATTTAAAAAA
*
39632 TTTTAAAATCTAATTTATTTTTAT
1 TTTTAAAAT-TAATTTATATTTAT
39656 TTTTAAAATTAATTTA-ATTTAT
1 TTTTAAAATTAATTTATATTTAT
* *
39678 TTTTATGAAATTTATTTTTATTT
1 TTTTA--AAATTAATTTATATTT
39701 TATTATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
22 10 0.26
23 7 0.18
24 18 0.46
25 4 0.10
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (23 bp):
TTTTAAAATTAATTTATATTTAT
Found at i:42219 original size:20 final size:20
Alignment explanation
Indices: 42173--42246 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
42163 TTTTACCTTG
* *
42173 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGTATCA
* * *
42193 ATATATCGCTACATGTATGA
1 ATGTATCGATACATGTATCA
* *
42213 ATGTATCGATATAT-TCTACA
1 ATGTATCGATACATGTAT-CA
42233 ATGTATCGATACAT
1 ATGTATCGATACAT
42247 TATGTCTTTT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 2 0.05
20 40 0.95
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:42240 original size:40 final size:39
Alignment explanation
Indices: 42173--42250 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
42163 TTTTACCTTG
* * *
42173 ATGTATCGATACATTTTTCAATATATCGCTACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
42213 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
42251 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:43186 original size:22 final size:22
Alignment explanation
Indices: 43160--43214 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
43150 AGCCTTTGAC
43160 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
43182 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
43204 CATGCATTTTT
1 CATGCATTTTT
43215 AACATGTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:43221 original size:20 final size:21
Alignment explanation
Indices: 43160--43221 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
43150 AGCCTTTGAC
**
43160 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
**
43182 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
43204 CATGCA-TTTTTAACATGT
1 CATGCATTTTTTAACATGT
43222 CCAGCATCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.26
22 28 0.74
ACGTcount: A:0.21, C:0.11, G:0.10, T:0.58
Consensus pattern (21 bp):
CATGCATTTTTTAACATGTTT
Found at i:47172 original size:22 final size:21
Alignment explanation
Indices: 47117--47176 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
47107 AATAATTAAT
*
47117 TTTTTAATTTGTT-AATATAA
1 TTTTTAATTTATTAAATATAA
* *
47137 TTTTTAAAACTTATTAAATATTA
1 TTTTT--AATTTATTAAATATAA
47160 TTTTTAATTTTATTAAA
1 TTTTTAA-TTTATTAAA
47177 AAATAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 5 0.16
21 2 0.06
22 14 0.44
23 11 0.34
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTTAATTTATTAAATATAA
Found at i:47200 original size:122 final size:123
Alignment explanation
Indices: 46955--47284 Score: 366
Period size: 124 Copynumber: 2.7 Consensus size: 123
46945 ATTATAAAAC
* * *
46955 TTTAA-TTAAATTTTTGTTTTA-AAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTTT
1 TTTAATTTAAATTTTTATTTTATAAAA-ATAATAATTAATTTTTTAATTTGTTAATATAAATTTT
* *
47018 TTAAACTTAATT-AA-A-TATTTTT-ATTTTATTAAAAATTATAATAAAAAACTTTTTATTT
65 TAAAACTTAATTAAATATTATTTTTAATTTTATTAAAAA-TATAATAAAAAA--TTTAATTT
*
47076 TTTATTTTAAATTTTTATTTTTATAAAATATAATAATTAATTTTTTAATTTGTTAATAT-AATTT
1 TTTAATTTAAATTTTTA-TTTTATAAAA-ATAATAATTAATTTTTTAATTTGTTAATATAAATTT
*
47140 TTAAAACTT-ATTAAATATTATTTTTAATTTTATTAAAAA-ATAAT-AATAA-TTAACTCTT
64 TTAAAACTTAATTAAATATTATTTTTAATTTTATTAAAAATATAATAAAAAATTTAA-T-TT
* * * *
47198 TTTAATTTAATTTTTTATTTT-T-AAAA-AATAGTTAA-TATTTAATTTATTAATATAAATTTTA
1 TTTAATTTAAATTTTTATTTTATAAAAATAATAATTAATTTTTTAATTTGTTAATATAAATTTT-
*
47259 TAAAATTTAATTAAATATTATTTTTA
65 TAAAACTTAATTAAATATTATTTTTA
47285 TAAAAAATAA
Statistics
Matches: 183, Mismatches: 14, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
116 16 0.09
117 14 0.08
118 8 0.04
119 20 0.11
120 4 0.02
121 9 0.05
122 30 0.16
123 24 0.13
124 38 0.21
125 7 0.04
126 13 0.07
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (123 bp):
TTTAATTTAAATTTTTATTTTATAAAAATAATAATTAATTTTTTAATTTGTTAATATAAATTTTT
AAAACTTAATTAAATATTATTTTTAATTTTATTAAAAATATAATAAAAAATTTAATTT
Found at i:47283 original size:26 final size:24
Alignment explanation
Indices: 47238--47289 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
47228 GTTAATATTT
47238 AATTTATTAATATAAATTTTATAA
1 AATTTATTAATATAAATTTTATAA
* *
47262 AATTTAATTAAATATTATTTTTATAA
1 AATTT-ATT-AATATAAATTTTATAA
47288 AA
1 AA
47290 AATAATAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 3 0.12
26 16 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AATTTATTAATATAAATTTTATAA
Found at i:47303 original size:116 final size:118
Alignment explanation
Indices: 46955--47308 Score: 331
Period size: 122 Copynumber: 3.0 Consensus size: 118
46945 ATTATAAAAC
* * *
46955 TTTAA-TTAAATTTTT-GTTTTA-AAAACATAATAATTAATATTTTAATTTGTTAATGTAAATTT
1 TTTAATTTAAATTTTTATTTTTATAAAATATAATAATTAATA-TTTAATTTGTTAATATAAATTT
* * *
47017 TTTAAACTTAATTAAATATTTTTATTTTATTAAAAATTATAATAA-AA-AACTTTTTATTT
65 TTAAAACTTAATTAAATA-TTAT-TTTTATTAAAAA--ATAATAATAATAA---TTAATTT
* *
47076 TTTATTTTAAATTTTTATTTTTATAAAATATAATAATTAATTTTTTAATTTGTTAATAT-AATTT
1 TTTAATTTAAATTTTTATTTTTATAAAATATAATAATTAA-TATTTAATTTGTTAATATAAATTT
*
47140 TTAAAACTT-ATTAAATATTATTTTTAATTTTATTAAAA-AATAATAATAATTAACTCTT
65 TTAAAACTTAATTAAATATTATTTTT-A--TTA-AAAAATAATAATAATAATTAA-T-TT
* * *
47198 TTTAATTTAATTTTTTA-TTTT-T-AAA-A-AATAGTTAATATTTAATTTATTAATATAAATTTT
1 TTTAATTTAAATTTTTATTTTTATAAAATATAATAATTAATATTTAATTTGTTAATATAAATTTT
*
47258 ATAAAATTTAATTAAATATTATTTTTA-TAAAAAATAATAACTAATACATTA
66 -TAAAACTTAATTAAATATTATTTTTATTAAAAAATAATAA-TAATA-ATTA
47309 TTATTTATTA
Statistics
Matches: 199, Mismatches: 16, Indels: 40
0.78 0.06 0.16
Matches are distributed among these distances:
114 4 0.02
115 7 0.04
116 21 0.11
117 18 0.09
118 9 0.05
119 19 0.10
120 8 0.04
121 18 0.09
122 38 0.19
123 23 0.12
124 33 0.17
125 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (118 bp):
TTTAATTTAAATTTTTATTTTTATAAAATATAATAATTAATATTTAATTTGTTAATATAAATTTT
TAAAACTTAATTAAATATTATTTTTATTAAAAAATAATAATAATAATTAATTT
Found at i:47494 original size:24 final size:22
Alignment explanation
Indices: 47460--47510 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 22
47450 ATAAATTTCA
47460 TAAAAATAAATTAAATTA-ATTT
1 TAAAAATAAA-TAAATTAGATTT
47482 TAAAAATAAAAATAAATTAGATTT
1 TAAAAAT--AAATAAATTAGATTT
47506 TAAAA
1 TAAAA
47511 TTTTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.27
23 7 0.27
24 12 0.46
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAAAATAAATAAATTAGATTT
Found at i:47497 original size:23 final size:23
Alignment explanation
Indices: 47460--47510 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
47450 ATAAATTTCA
*
47460 TAAAAATAAATTAAATTA-ATTT
1 TAAAAATAAAATAAATTAGATTT
47482 TAAAAATAAAAATAAATTAGATTT
1 TAAAAAT-AAAATAAATTAGATTT
47506 TAAAA
1 TAAAA
47511 TTTTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAAAATAAAATAAATTAGATTT
Found at i:47895 original size:15 final size:15
Alignment explanation
Indices: 47844--47899 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
47834 ATTTTAATAT
47844 TTTAT-ATTATTAATA
1 TTTATAATTATT-ATA
* *
47859 TTCATAATTAATATGA
1 TTTATAATTATTAT-A
*
47875 -TAATAATTATTATA
1 TTTATAATTATTATA
47889 TTTATAATTAT
1 TTTATAATTAT
47900 AATAAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 1 0.03
15 26 0.79
16 6 0.18
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
TTTATAATTATTATA
Found at i:48632 original size:15 final size:15
Alignment explanation
Indices: 48582--48665 Score: 50
Period size: 16 Copynumber: 5.4 Consensus size: 15
48572 GTATTTTTAT
48582 ATTTTA-TTATATTATA
1 ATTTTATTTATA-TA-A
48598 ATTTTATTTA-A-AA
1 ATTTTATTTATATAA
48611 TATTTTTATTTATATAA
1 -A-TTTTATTTATATAA
*
48628 ATTTTGATATAT-TAA
1 ATTTT-ATTTATATAA
* *
48643 TAATTTATATTATATAG
1 -ATTTTAT-TTATATAA
48660 ATTTTA
1 ATTTTA
48666 AAAAATATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 18
0.70 0.06 0.23
Matches are distributed among these distances:
13 1 0.02
14 2 0.04
15 18 0.33
16 26 0.48
17 7 0.13
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
ATTTTATTTATATAA
Found at i:49387 original size:2 final size:2
Alignment explanation
Indices: 49358--49412 Score: 58
Period size: 2 Copynumber: 27.5 Consensus size: 2
49348 AATTTAATTT
* * *
49358 TA TA TA AA TA TA -A GTA TA TC TT 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
*
49400 TA TT TA TA TA TA T
1 TA TA TA TA TA TA T
49413 TTTGGGCCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
1 1 0.02
2 42 0.95
3 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:49544 original size:32 final size:31
Alignment explanation
Indices: 49508--49570 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
49498 TCTAAGTCAA
*
49508 ATTTAAATATAATATTAATATTATATATATTT
1 ATTTAAATATAATATTAAT-TTATATAAATTT
* * *
49540 ATTTAAATTTAATTTTACTTTATATAAATTT
1 ATTTAAATATAATATTAATTTATATAAATTT
49571 TAAGTCTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (31 bp):
ATTTAAATATAATATTAATTTATATAAATTT
Found at i:50226 original size:27 final size:29
Alignment explanation
Indices: 50196--50249 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
50186 TTCAAAAATA
*
50196 TTAAT-AAATTAAAAATATTT-TTATATT
1 TTAATAAAAATAAAAATATTTGTTATATT
50223 TTAATAAAAATAAAAATATTTGTTATA
1 TTAATAAAAATAAAAATATTTGTTATA
50250 AATTATGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.21
28 14 0.58
29 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
TTAATAAAAATAAAAATATTTGTTATATT
Found at i:51148 original size:20 final size:20
Alignment explanation
Indices: 51125--51162 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51115 TATTTTATAA
51125 TTATATAATATATAATAATT
1 TTATATAATATATAATAATT
**
51145 TTATATTTTATATAATAA
1 TTATATAATATATAATAA
51163 ATAATTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATATAATATATAATAATT
Found at i:51159 original size:27 final size:26
Alignment explanation
Indices: 51116--51167 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
51106 AATCTTATAT
*
51116 ATTTTATAATTATATAATATATAATA
1 ATTTTATAATTATATAATAAATAATA
*
51142 ATTTTATATTTTATATAATAAATAAT
1 ATTTTATA-ATTATATAATAAATAAT
51168 TTTTATCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTTTATAATTATATAATAAATAATA
Found at i:51273 original size:16 final size:16
Alignment explanation
Indices: 51224--51310 Score: 58
Period size: 16 Copynumber: 5.6 Consensus size: 16
51214 TTAAAAACAT
* *
51224 ATTAAATTATTTAAAT
1 ATTAAATTATTAAAAA
* *
51240 TTTATAATTTAATAAAAA
1 ATTA-AA-TTATTAAAAA
51258 ATTAAATTATT-AAAA
1 ATTAAATTATTAAAAA
51273 ATTAAA-T-TTAAAAA
1 ATTAAATTATTAAAAA
* *
51287 ATATTACTT-TTAAAAA
1 AT-TAAATTATTAAAAA
51303 A-TAAATTA
1 ATTAAATTA
51311 AAATAAATTA
Statistics
Matches: 55, Mismatches: 10, Indels: 13
0.71 0.13 0.17
Matches are distributed among these distances:
13 2 0.04
14 11 0.20
15 12 0.22
16 16 0.29
17 4 0.07
18 10 0.18
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTAAATTATTAAAAA
Found at i:51274 original size:15 final size:14
Alignment explanation
Indices: 51254--51309 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
51244 TAATTTAATA
51254 AAAAATTAAATTATT
1 AAAAATTAAATT-TT
*
51269 AAAAATTAAATTTA
1 AAAAATTAAATTTT
* *
51283 AAAAATATTACTTTT
1 AAAAAT-TAAATTTT
*
51298 AAAAAATAAATT
1 AAAAATTAAATT
51310 AAAATAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
14 11 0.33
15 22 0.67
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAAATTAAATTTT
Found at i:51284 original size:29 final size:29
Alignment explanation
Indices: 51252--51325 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
51242 TATAATTTAA
*
51252 TAAAAAATTAAATTATTAAAAATTAAATT
1 TAAAAAATTAAATTATTAAAAAATAAATT
* *
51281 TAAAAAATATTACTT-TTAAAAAATAAATT
1 TAAAAAAT-TAAATTATTAAAAAATAAATT
* *
51310 AAAATAAATTATATTA
1 TAAA-AAATTAAATTA
51326 ATAAGCTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
29 27 0.77
30 8 0.23
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (29 bp):
TAAAAAATTAAATTATTAAAAAATAAATT
Found at i:51387 original size:15 final size:14
Alignment explanation
Indices: 51359--51394 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
51349 GATAAAATCA
51359 AAAT-TAAATATAT
1 AAATATAAATATAT
51372 AAATATAAACTATAT
1 AAATATAAA-TATAT
51387 AAATATAA
1 AAATATAA
51395 TACTTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.19
14 4 0.19
15 13 0.62
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATATAAATATAT
Found at i:51641 original size:13 final size:13
Alignment explanation
Indices: 51623--51665 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
51613 TATTATATAT
51623 ATTTAATAATTAA
1 ATTTAATAATTAA
* *
51636 ATTTAAATAAATAT
1 ATTT-AATAATTAA
51650 ATTTAATAATTAA
1 ATTTAATAATTAA
51663 ATT
1 ATT
51666 ATTTTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTAATAATTAA
Found at i:51661 original size:50 final size:47
Alignment explanation
Indices: 51566--51677 Score: 120
Period size: 50 Copynumber: 2.3 Consensus size: 47
51556 TATTTATATT
* *
51566 TATTATTTATAATTAATAAAAAATTAAAAAATATATTTTTAAATTAA
1 TATTATATATAATTAATAAAAAATTAAAAAATATATTTATAAATTAA
* *
51613 TATTATATATATTTAATAATTAAATTTAAATAAATATATTTA-ATAATTAA
1 TATTATATATAATTAATAA--AAAATTAAA-AAATATATTTATA-AATTAA
*
51663 -ATTATTTTATAATTA
1 TATTA-TATATAATTA
51678 TTATTTATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
47 17 0.31
49 13 0.24
50 24 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (47 bp):
TATTATATATAATTAATAAAAAATTAAAAAATATATTTATAAATTAA
Found at i:51674 original size:16 final size:15
Alignment explanation
Indices: 51649--51724 Score: 65
Period size: 13 Copynumber: 5.4 Consensus size: 15
51639 TAAATAAATA
*
51649 TATTTAATAATTAAAT
1 TATTTTATAATT-AAT
51665 TATTTTATAATT-AT
1 TATTTTATAATTAAT
51679 TA-TTTATAATT-AT
1 TATTTTATAATTAAT
51692 TATTTT-TAATT-AT
1 TATTTTATAATTAAT
* * *
51705 TAATTTA-AATAAAA
1 TATTTTATAATTAAT
51719 TATTTT
1 TATTTT
51725 TTTATTATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
13 28 0.54
14 13 0.25
16 11 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTTATAATTAAT
Found at i:51679 original size:27 final size:28
Alignment explanation
Indices: 51604--51705 Score: 85
Period size: 27 Copynumber: 3.8 Consensus size: 28
51594 AAATATATTT
*
51604 TTAAATTAATATTAT-ATATATTTAATAA
1 TTAAATT-ATTTTATAATATATTTAATAA
**
51632 TTAAA-T-TTAAATAAATATATTTAATAA
1 TTAAATTATTTTAT-AATATATTTAATAA
51659 TTAAATTATTTTATAATTATTATTT-ATAA
1 TTAAATTATTTTATAA-TA-TATTTAATAA
51688 TT--ATTATTTT-TAAT-TATT
1 TTAAATTATTTTATAATATATT
51706 AATTTAAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
23 4 0.06
25 4 0.06
26 3 0.05
27 27 0.43
28 8 0.13
29 12 0.19
30 5 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TTAAATTATTTTATAATATATTTAATAA
Found at i:51686 original size:13 final size:13
Alignment explanation
Indices: 51649--51711 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
51639 TAAATAAATA
51649 TATTTAATAATTAAAT
1 TATTT-ATAATT--AT
51665 TATTTTATAATTAT
1 TA-TTTATAATTAT
51679 TATTTATAATTAT
1 TATTTATAATTAT
*
51692 TATTTTTAATTAT
1 TATTTATAATTAT
51705 TAATTTA
1 T-ATTTA
51712 AATAAAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
13 24 0.56
14 8 0.19
16 8 0.19
17 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTTATAATTAT
Found at i:52012 original size:16 final size:16
Alignment explanation
Indices: 51991--52028 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
51981 TTTGGGTTGG
51991 ATATATAAATA-TATAC
1 ATATATAAA-AGTATAC
*
52007 ATATATAAAAGTATAT
1 ATATATAAAAGTATAC
52023 ATATAT
1 ATATAT
52029 TTTTTCTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (16 bp):
ATATATAAAAGTATAC
Found at i:54448 original size:22 final size:21
Alignment explanation
Indices: 54441--54490 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
54431 GATTTTATTT
*
54441 TTTATTATTAT-ATTA-TTAA
1 TTTATTATTATAATTATTTTA
54460 TTTATTATTATAATTAATTTTA
1 TTTATTATTATAATT-ATTTTA
54482 TCTTATTAT
1 T-TTATTAT
54491 CTTTTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 11 0.42
20 3 0.12
21 1 0.04
22 4 0.15
23 7 0.27
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTATTATTATAATTATTTTA
Found at i:54463 original size:19 final size:17
Alignment explanation
Indices: 54441--54479 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
54431 GATTTTATTT
54441 TTTATTATTATATTATTAA
1 TTTATTATTATA--ATTAA
54460 TTTATTATTATAATTAA
1 TTTATTATTATAATTAA
54477 TTT
1 TTT
54480 TATCTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
19 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTATTATTATAATTAA
Found at i:54910 original size:24 final size:25
Alignment explanation
Indices: 54883--54934 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
54873 AATATGATAT
*
54883 AATTACATAACATAAAT-ATAAAAA
1 AATTACATAAAATAAATAATAAAAA
** *
54907 AATTATTTAAAATATATAATAAAAA
1 AATTACATAAAATAAATAATAAAAA
54932 AAT
1 AAT
54935 ATGAATATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (25 bp):
AATTACATAAAATAAATAATAAAAA
Done.