Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1643
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: 48544
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Found at i:3232 original size:17 final size:17
Alignment explanation
Indices: 3210--3265 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
3200 ATTTCATATT
3210 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTTTTTTTTC
* *
3227 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTTTTTTTTC
** * *
3244 TTCATCTTCTTTCTTTC
1 TTTTTCTTTTTTTTTTC
3261 TTTTT
1 TTTTT
3266 TACCTAACCT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:4551 original size:32 final size:32
Alignment explanation
Indices: 4502--5049 Score: 828
Period size: 32 Copynumber: 17.2 Consensus size: 32
4492 AAAATGGTGA
* *
4502 TTTGCAAA-GGGTTGCCACTGACTTGCGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
*
4534 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
4566 TTTGAAAAGGGTTGCCACTGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
4598 TTTGGAATGGGTTTCCACCGACTTGTGTAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4630 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
4662 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4694 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4726 TTTGGAAA-GGGTTGCCACCGACTTGTGTGGGC
1 TTT-GAAATGGGTTGCCACCGACTTGTGTGGGC
* *
4758 TTTGAAAAGGGTTGCCACCAACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4790 TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
4822 TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
*
4854 TTTGAAAAT-GGTTGCCACCGACTTGTGAGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
4886 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4918 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
4950 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4982 TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
*
5014 TTTGAAAAT-GG-TGCCACTGAC-T-TGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
5043 TTTGAAA
1 TTTGAAA
5050 AGGTGCCACA
Statistics
Matches: 484, Mismatches: 26, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.01
29 11 0.02
30 1 0.00
31 20 0.04
32 439 0.91
33 10 0.02
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:5086 original size:27 final size:27
Alignment explanation
Indices: 5018--5703 Score: 980
Period size: 27 Copynumber: 25.2 Consensus size: 27
5008 GTGGGCTTTG
* * * *
5018 AAAATGGTGCCACTGACTTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
* *
5046 GAAAA-GGTGCCACAGATTTGTGGACTT
1 -AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
5073 ACAAGGATGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
5100 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
5127 AAAAAGGGTGCCACGGAGTTGTGGACTT
1 -AAAAGGGTGCCACGGAGTTGTGGACTT
5155 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
5182 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
5209 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
5236 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
5263 AAAAGGGTGCCACGGAATTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
**
5290 AAAAGGGTATCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
5317 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * * *
5344 AAAAGGGTGCCACGAAATTATGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
5371 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
5398 AAAAGGGTGCCACGAAATTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
5425 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
5453 AAAAGGGTGCCA-GAGAGTTGTGGACTT
1 AAAAGGGTGCCACG-GAGTTGTGGACTT
* * *
5480 AAAAGAGATGCCATGGAGTTATGGACTT
1 AAAAG-GGTGCCACGGAGTTGTGGACTT
*
5508 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
5535 AAAAGAGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
5562 AAAAGGGTGCTACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
5589 AAAAGGGTGCCACGGAGTTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
5616 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
*
5644 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
5671 AAAAGGATGCCACAGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
5699 AAAAG
1 AAAAG
5704 AAAATGCCTC
Statistics
Matches: 601, Mismatches: 48, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
26 3 0.00
27 471 0.78
28 122 0.20
29 5 0.01
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:13505 original size:10 final size:10
Alignment explanation
Indices: 13490--13521 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
13480 CTATTTCATA
13490 TTTTTTTTCT
1 TTTTTTTTCT
13500 TTTTTTTTCT
1 TTTTTTTTCT
*
13510 TTTTCTTTCT
1 TTTTTTTTCT
13520 TT
1 TT
13522 CTTCTTCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:13518 original size:20 final size:21
Alignment explanation
Indices: 13483--13548 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 21
13473 AGCCACTCTA
*
13483 TTTCATATTTTT-TTTCTTTT
1 TTTCATCTTTTTCTTTCTTTT
*
13503 TTT-TTCTTTTTCTTTCTTTCT
1 TTTCATCTTTTTCTTTCTTT-T
13524 TCTTCATCTTCTTTCTTTCTTTT
1 T-TTCATCTT-TTTCTTTCTTTT
13547 TT
1 TT
13549 ACCTAACCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 6 0.16
20 10 0.26
21 2 0.05
22 3 0.08
23 6 0.16
24 11 0.29
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTCATCTTTTTCTTTCTTTT
Found at i:14615 original size:32 final size:32
Alignment explanation
Indices: 14560--15135 Score: 839
Period size: 32 Copynumber: 18.2 Consensus size: 32
14550 AAAATGGTGA
* ** *
14560 TTTGAAAAGGGTTGCCATTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
14592 TTTTAAATGGGTTGCTACCGACTTGTGTAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
14624 TTTGAAAAGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
14656 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
14688 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
14720 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
14752 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
14784 TTTGAAAAGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
14816 ATTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
14848 TTTGAAAAT-GGTTGCCACCGACTTGTGAGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
14880 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
14912 TTTGAAATGGGTTGCCACTGACTTGTGAGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
14944 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
14976 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
15008 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
15040 TTTGAAAAT-GGTTGCCACCGACTTTTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
**
15072 TTTGAAAAT-GG-TGCCACTAAC-T-TGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
* * *
15101 TTTGAAA--GGATACCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
15129 TTTGAAA
1 TTTGAAA
15136 AGGTGCCACA
Statistics
Matches: 505, Mismatches: 35, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
27 2 0.00
28 26 0.05
29 11 0.02
30 1 0.00
31 12 0.02
32 446 0.88
33 7 0.01
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:15179 original size:27 final size:27
Alignment explanation
Indices: 15133--16003 Score: 1228
Period size: 27 Copynumber: 32.0 Consensus size: 27
15123 GTGGGCTTTG
* *
15133 AAAA-GGTGCCACAGATTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
15159 ACAAGGATGCCACTGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
15186 AAAAGGGTGCCACAGAGTTGTGGACTG
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
15213 AAAAGGGTGCCATGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
15240 AAAAGGGTGCCACGGAGTTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
15267 AAAAGGGTGCCACAGAGTTATGGTCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
15294 AAAAGGGATGCCACAGAGTTGTAGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTT
15322 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
15349 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
15376 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
15403 AAAAGAGATGCCACGGAGTTGTGGACTT
1 AAAAG-GGTGCCACGGAGTTGTGGACTT
15431 AAAAGGGATGCCACGGAGTTGTGGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTT
15459 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
15486 AAAAGGGTGCCATGGAATTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
15513 AAAAGGGTGTCACGGAGTTGTAGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
15541 AAAAGGGATGCCACGGAGTTGTGGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTT
15569 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
15596 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
15623 AAAAGGGTGCCACGGTGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
15650 AAAAGGGTGCCACGAAATTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
15677 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
15704 AAAAGGGTGGCACGGAATTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
15731 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
15759 AAAAGGGTGCCA-GAGAGTTGTGGACTT
1 AAAAGGGTGCCACG-GAGTTGTGGACTT
* * *
15786 -AAAGGAGATGCCATGGAGTTATAGACTT
1 AAAAGG-G-TGCCACGGAGTTGTGGACTT
*
15814 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * * *
15841 AAATGAGTGCCACAGAGTTGTGGATTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
15868 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
15895 AAAAGGATGCCACGGAGTTGTGGAC-T
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
15921 ATAAAGGGTGCCACAGAGTTGTTGACTTT
1 A-AAAGGGTGCCACGGAGTTGTGGAC-TT
*
15950 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
15977 AAAAGGATGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
16004 TAAATGAAAA
Statistics
Matches: 761, Mismatches: 69, Indels: 29
0.89 0.08 0.03
Matches are distributed among these distances:
26 10 0.01
27 570 0.75
28 157 0.21
29 24 0.03
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:15663 original size:191 final size:189
Alignment explanation
Indices: 15133--16003 Score: 1255
Period size: 191 Copynumber: 4.6 Consensus size: 189
15123 GTGGGCTTTG
* * * * *
15133 AAAA-GGTGCCACAGATTTGTGGACTTACAAGGATGCCACTGAGTTGTGGACTTAAAAGGGTGCC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCC
* *
15197 ACAGAGTTGTGGACTGAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTG
66 ACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTG
* * * * *
15262 GACTAAAAAGGGTGCCACAGAGTTATGGTCTTAAAAGGGATGCCACAGAGTTGTAGACTT
131 GACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTT
15322 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCC
*
15387 ACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTG
66 ACAGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTG
* * * *
15452 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAATTGTGGACTA
129 TGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
15513 AAAAGGGTGTCACGGAGTTGTAGACTTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTG
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGG-TGCCACAGAGTTGTGGACTTAAAAGGGTG
* *
15578 CCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGTGTTG
64 CCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTG
* *
15643 TGGACTTAAAAGGGTGCCAC-GAAATTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTT
129 TGGACTTAAAAGGGTGCCACAG-AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
* * * *
15704 AAAAGGGTGGCACGGAATTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGC
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGGTGC
* * * *
15769 CAGAGAGTTGTGGACTT-AAAGGAGATGCCATGGAGTTATAGACTTAAAAGGGTGCCACGGAGTT
65 CACAGAGTTGTGGACTTAAAAGG-G-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT
* * * *
15833 ATGGACTTAAATGAGTGCCACAGAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTT
128 GTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
* *
15895 AAAAGGATGCCACGGAGTTGTGGAC-TATAAAGGGTGCCACAGAGTTGTTGACTTTAAAAGGGTG
1 AAAAGGGTGCCACGGAGTTGTGGACTTA-AAAGGGTGCCACAGAGTTGTGGAC-TTAAAAGGGTG
* *
15959 CCACAGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTT
64 CCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
16004 TAAATGAAAA
Statistics
Matches: 614, Mismatches: 56, Indels: 23
0.89 0.08 0.03
Matches are distributed among these distances:
189 27 0.04
190 129 0.21
191 315 0.51
192 93 0.15
193 50 0.08
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (189 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCC
ACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTG
GACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:17089 original size:10 final size:11
Alignment explanation
Indices: 17060--17088 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
17050 GGTGAAAAGG
17060 TTTTTTTTGTT
1 TTTTTTTTGTT
17071 TTTTTTTTGTT
1 TTTTTTTTGTT
17082 TTTTTTT
1 TTTTTTT
17089 GGATTAGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:23835 original size:10 final size:10
Alignment explanation
Indices: 23820--23851 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
23810 CTATTTCATA
23820 TTTTTTTTCT
1 TTTTTTTTCT
23830 TTTTTTTTCT
1 TTTTTTTTCT
*
23840 TTTTCTTTCT
1 TTTTTTTTCT
23850 TT
1 TT
23852 CTTCTTCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:23848 original size:20 final size:21
Alignment explanation
Indices: 23813--23878 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 21
23803 AGCCACTCTA
*
23813 TTTCATATTTTT-TTTCTTTT
1 TTTCATCTTTTTCTTTCTTTT
*
23833 TTT-TTCTTTTTCTTTCTTTCT
1 TTTCATCTTTTTCTTTCTTT-T
23854 TCTTCATCTTCTTTCTTTCTTTT
1 T-TTCATCTT-TTTCTTTCTTTT
23877 TT
1 TT
23879 ACCTAACCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 6 0.16
20 10 0.26
21 2 0.05
22 3 0.08
23 6 0.16
24 11 0.29
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTCATCTTTTTCTTTCTTTT
Found at i:24923 original size:32 final size:32
Alignment explanation
Indices: 24868--25475 Score: 851
Period size: 32 Copynumber: 19.2 Consensus size: 32
24858 AAAATGGTGA
* ** *
24868 TTTGAAAAGGGTTGCCATTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * *
24900 TTTTAAATGGGTTGCTATCGACTTGTGTAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
24932 TTTGAAAAGGGTTGCCACCAACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
24964 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
24996 TTTGAAATGGGTTGCCACCGACTTGTTTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
25028 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
25060 TTTGAAATGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
25092 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
25124 ATTGAAAAGGGTTGCCACCGACTTGTTTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
25156 TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
*
25188 TTTGAAAAT-GGTTGCCACCGACTTGTGAGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
25220 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
25252 TTTGAAATGGGTTTCCACTGACTTGTGAGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
25284 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
25316 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
25348 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
25380 TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
**
25412 TTTGAAAAT-GG-TGCCACTAAC-T-TGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
* * *
25441 TTTGAAA--GGATACCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
25469 TTTGAAA
1 TTTGAAA
25476 AGGTGCCACA
Statistics
Matches: 530, Mismatches: 42, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
27 2 0.00
28 26 0.05
29 11 0.02
30 1 0.00
31 12 0.02
32 471 0.89
33 7 0.01
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:25519 original size:27 final size:27
Alignment explanation
Indices: 25473--26451 Score: 1433
Period size: 27 Copynumber: 36.0 Consensus size: 27
25463 GTGGGCTTTG
* *
25473 AAAA-GGTGCCACAGATTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
25499 ACAAGGATGCCACTGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
25526 AAAAGGGTGCCACAGAGTTGTGGACTG
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
25553 AAAAGGGTGCCATGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
25580 AAAAGGGTGCCACGGAGTTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
** * *
25607 AAAAGGGTGCCATAGAGTTATGGTCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
25634 AAAAGGGATGCCACAGAGTTGTAGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTT
*
25662 AAAAGGGTGCCACGGAGTTGTCGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
25689 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
25716 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
25743 AAAAAGGTGCCACGGAGTTGTGGTCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
25770 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
25797 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
25824 AAAAGGGTGCCATGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
**
25851 AAAAGGGTGCCACATAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
25878 AAAAGAGATGCCACGGAGTTGTGGACGT
1 AAAAG-GGTGCCACGGAGTTGTGGACTT
25906 AAAAGGGATGCCACGGAGTTGTGGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTT
25934 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
25961 AAAAGGGTGCCACGGAATTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
25988 AAAAGGGTGTCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
26016 AAAAGGGATGCCACGGAGTTGTGGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTT
26044 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
26071 AAAAGGGTGCCACGGTGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
26098 AAAAGGGTGCCACGAAATTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
26125 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
26152 AAAAGGGTGGCACGGAATTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
26179 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
26207 AAAAGGGTGCCA-GAGAGTTGTGGACTT
1 AAAAGGGTGCCACG-GAGTTGTGGACTT
* *
26234 -AAAGGAGATGCCATGGAGTTATGGACTT
1 AAAAGG-G-TGCCACGGAGTTGTGGACTT
*
26262 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
26289 AAAAGAGTGCCACGGAGTTGTGGATTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
26316 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
26343 AAAAGGGTGCCACGGAGTTGTGGACTA
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
26370 AAAAGGGTGCCACAGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
**
26398 AAAAGGGTGCCACAAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
26425 AAAAGGATGCCACAGAGTTGTGAACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
26452 TAAATGAAAA
Statistics
Matches: 867, Mismatches: 73, Indels: 25
0.90 0.08 0.03
Matches are distributed among these distances:
26 8 0.01
27 680 0.78
28 156 0.18
29 23 0.03
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:27535 original size:10 final size:10
Alignment explanation
Indices: 27506--27534 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
27496 AGGGTGAAAA
27506 GGTTTTTTTT
1 GGTTTTTTTT
27516 GGTTTTTTTT
1 GGTTTTTTTT
27526 -GTTTTTTTT
1 GGTTTTTTTT
27535 TAGGATTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (10 bp):
GGTTTTTTTT
Found at i:31080 original size:21 final size:21
Alignment explanation
Indices: 31056--31112 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
31046 AATTTATCCA
31056 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
31077 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
31098 AATGTATCGATACAT
1 AATGTATCGATACAT
31113 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:31192 original size:19 final size:19
Alignment explanation
Indices: 31168--31235 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
31158 AATTCAACAA
31168 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
31187 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
31202 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
31219 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
31236 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:31207 original size:13 final size:13
Alignment explanation
Indices: 31189--31213 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31179 ACATAAGTTT
31189 TGTATCGATACAA
1 TGTATCGATACAA
31202 TGTATCGATACA
1 TGTATCGATACA
31214 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:31211 original size:32 final size:32
Alignment explanation
Indices: 31170--31232 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
31160 TTCAACAATT
*
31170 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
31202 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
31233 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:31293 original size:13 final size:13
Alignment explanation
Indices: 31275--31300 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31265 CATTTTTCTG
31275 TGTATCGATACAT
1 TGTATCGATACAT
31288 TGTATCGATACAT
1 TGTATCGATACAT
31301 GGATCTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:36167 original size:17 final size:17
Alignment explanation
Indices: 36145--36200 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
36135 ATTTCATATT
36145 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTTTTTTTTC
* *
36162 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTTTTTTTTC
** * *
36179 TTCATCTTCTTTCTTTC
1 TTTTTCTTTTTTTTTTC
36196 TTTTT
1 TTTTT
36201 TACCTAACCC
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:36902 original size:23 final size:22
Alignment explanation
Indices: 36867--36911 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
36857 CTTATTTTCG
*
36867 TCCTTTTT-TTTTTCTTTTTGTT
1 TCCTTTTTATTTTT-TTGTTGTT
36889 TCCTTTTTGATTTTTTTGTTGTT
1 TCCTTTTT-ATTTTTTTGTTGTT
36912 GGCTTATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.02, C:0.11, G:0.09, T:0.78
Consensus pattern (22 bp):
TCCTTTTTATTTTTTTGTTGTT
Found at i:38223 original size:34 final size:34
Alignment explanation
Indices: 38184--38366 Score: 285
Period size: 34 Copynumber: 5.4 Consensus size: 34
38174 AAATATCTTA
* * *
38184 CTCACCTAACACATTACCTAACACACCTAATATT
1 CTCACCAAATACATCACCTAACACACCTAATATT
* * *
38218 TTCACCAAATACATTACCTAACACATCTAATATT
1 CTCACCAAATACATCACCTAACACACCTAATATT
*
38252 CTCACCAAATACATCACCTAACACACCTAACATT
1 CTCACCAAATACATCACCTAACACACCTAATATT
*
38286 CTCACCAAATACATCACCTAACACACTTAATATT
1 CTCACCAAATACATCACCTAACACACCTAATATT
*
38320 CTCACCAAATACATCACCTAACACACCTAACATT
1 CTCACCAAATACATCACCTAACACACCTAATATT
38354 CTCACCAAATACA
1 CTCACCAAATACA
38367 CTTAACAAAG
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 137 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.25
Consensus pattern (34 bp):
CTCACCAAATACATCACCTAACACACCTAATATT
Found at i:43112 original size:34 final size:34
Alignment explanation
Indices: 43073--43255 Score: 258
Period size: 34 Copynumber: 5.4 Consensus size: 34
43063 AAATATCTTA
* * * *
43073 CTCACCTAACACATTACCTAACACACCTAATATT
1 CTCACCAAATACATCACCTAACACACCTAACATT
* * * *
43107 TTCACCAAATACATTACCTAACACATCTAATATT
1 CTCACCAAATACATCACCTAACACACCTAACATT
43141 CTCACCAAATACATCACCTAACACACCTAACATT
1 CTCACCAAATACATCACCTAACACACCTAACATT
* *
43175 CTCACCAAATACATCACCTAACATACTTAACATT
1 CTCACCAAATACATCACCTAACACACCTAACATT
* *
43209 CTCACCAAATATATCACCTAACACATCTAACATT
1 CTCACCAAATACATCACCTAACACACCTAACATT
43243 CTCACCAAATACA
1 CTCACCAAATACA
43256 CTTAACAAAA
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 134 1.00
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.26
Consensus pattern (34 bp):
CTCACCAAATACATCACCTAACACACCTAACATT
Found at i:43925 original size:19 final size:19
Alignment explanation
Indices: 43869--43932 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
43859 GTATTAATTA
* *
43869 TTAAAAATTTATTTAT-TT
1 TTAAAAATTAATTAATATT
* *
43887 TTAAATATCATATGTAATATT
1 TTAAAAATTA-AT-TAATATT
43908 TTAAAAATTAATTAATATT
1 TTAAAAATTAATTAATATT
*
43927 ATAAAA
1 TTAAAA
43933 TAAGATAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
18 7 0.19
19 14 0.39
20 5 0.14
21 10 0.28
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAAAATTAATTAATATT
Found at i:44233 original size:15 final size:16
Alignment explanation
Indices: 44199--44244 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
44189 TTATTTTATT
*
44199 AATTAAATAATAATTTA
1 AATTAAAT-ATAAATTA
44216 AATTAAAT-TAAATTA
1 AATTAAATATAAATTA
*
44231 AATTAATTATAAAT
1 AATTAAATATAAAT
44245 AATTTTATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 13 0.50
16 5 0.19
17 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAATATAAATTA
Found at i:44839 original size:7 final size:8
Alignment explanation
Indices: 44817--44852 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
44807 AAATATATTA
44817 AAATTTTT
1 AAATTTTT
44825 AAATTTTT
1 AAATTTTT
44833 AAATTTTT
1 AAATTTTT
*
44841 AATATATTT
1 AA-ATTTTT
44850 AAA
1 AAA
44853 AATTATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
AAATTTTT
Found at i:44850 original size:17 final size:17
Alignment explanation
Indices: 44808--44852 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
44798 GTTGGCCATA
*
44808 AATATATTAAAATTTTT
1 AATATATTTAAATTTTT
*
44825 AA-ATTTTTAAATTTTT
1 AATATATTTAAATTTTT
44841 AATATATTTAAA
1 AATATATTTAAA
44853 AATTATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATATATTTAAATTTTT
Found at i:44863 original size:33 final size:35
Alignment explanation
Indices: 44808--44880 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 35
44798 GTTGGCCATA
* *
44808 AATATATTAAAATTTTTAAATTTT-TA-AATTTTT
1 AATATATTAAAAATTATAAATTTTATATAATTTTT
*
44841 AATATATTTAAAAATTAT-AATTTTATATTATTTTT
1 AATATA-TTAAAAATTATAAATTTTATATAATTTTT
44876 AATAT
1 AATAT
44881 CTATTGAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 12 0.35
34 11 0.32
35 11 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (35 bp):
AATATATTAAAAATTATAAATTTTATATAATTTTT
Found at i:47451 original size:2 final size:2
Alignment explanation
Indices: 47444--47469 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47434 ATCACAGAAT
47444 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
47470 GATAAGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.