Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2358
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: 48681
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Found at i:266 original size:22 final size:20
Alignment explanation
Indices: 227--267 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
217 ATTATTAGTG
227 AAAGATTTATTGACAGAAGT
1 AAAGATTTATTGACAGAAGT
*
247 AAAGAGTTTCTTGAGCAGAAG
1 AAAGA-TTTATTGA-CAGAAG
268 CAAGGTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.27
Consensus pattern (20 bp):
AAAGATTTATTGACAGAAGT
Found at i:5690 original size:46 final size:46
Alignment explanation
Indices: 5637--5809 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
5627 TAGTTGAGCA
*
5637 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
5683 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
5730 TTCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
5776 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
5810 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:6070 original size:19 final size:20
Alignment explanation
Indices: 6033--6070 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
6023 ATAAGGTGGT
6033 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
6053 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
6071 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:7732 original size:5 final size:5
Alignment explanation
Indices: 7722--7750 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7712 TTTTTCTTGC
7722 AATTT AATTT AATTT AATTT AATTT AATT
1 AATTT AATTT AATTT AATTT AATTT AATT
7751 ATTTATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
AATTT
Found at i:14028 original size:7 final size:7
Alignment explanation
Indices: 14016--14048 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
14006 TTTAGAAATA
14016 ATTATTT
1 ATTATTT
14023 ATTATTT
1 ATTATTT
14030 ATTATTT
1 ATTATTT
*
14037 -TTACTT
1 ATTATTT
14043 ATTATT
1 ATTATT
14049 GAAACTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTATTT
Found at i:16475 original size:14 final size:13
Alignment explanation
Indices: 16454--16486 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
16444 AGATATTTAA
16454 CTTGTTCTTAATT
1 CTTGTTCTTAATT
16467 CTATGTTCTTAATT
1 CT-TGTTCTTAATT
16481 CTTGTT
1 CTTGTT
16487 TTGATATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:18885 original size:40 final size:40
Alignment explanation
Indices: 18794--18973 Score: 197
Period size: 40 Copynumber: 4.5 Consensus size: 40
18784 ACCCAAGTAT
** * *
18794 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
18832 CTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
18872 CTTTGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
18912 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
18952 CTTCGGGACTTAGCCCGAATAT
1 CTTCGGGTCTTAGCCCGGATAT
18974 CATTCGAATA
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.09
39 17 0.14
40 89 0.75
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:18943 original size:80 final size:79
Alignment explanation
Indices: 18794--18973 Score: 236
Period size: 80 Copynumber: 2.3 Consensus size: 79
18784 ACCCAAGTAT
* * *
18794 CTTCGGGATTTAG-CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTC
* *
18858 GCTAGCACAAATGC
66 ACTAGCACAAAAGC
* * * * *
18872 CTTTGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAGT
*
18937 CACTAGCATAAAAGC
65 CACTAGCACAAAAGC
*
18952 CTTCGGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATAT
18974 CATTCGAATA
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 10 0.12
79 18 0.21
80 58 0.67
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTC
ACTAGCACAAAAGC
Found at i:27180 original size:37 final size:37
Alignment explanation
Indices: 27130--27208 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
27120 TTATTACGAA
* * *
27130 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
27167 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
27204 GTCTT
1 GTCTT
27209 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:27430 original size:47 final size:46
Alignment explanation
Indices: 27326--27641 Score: 528
Period size: 47 Copynumber: 6.7 Consensus size: 46
27316 GCCCTTCGGG
27326 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGG-CCTATCAC--ATATATAC
27376 ACTTTCACATTCATCACATCGGCCATTAGGCC-ATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTATCAC--ATATATAC
27423 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAC
27470 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-TATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAC
27516 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAC
27563 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAC
27610 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
27642 ATACTATCAT
Statistics
Matches: 263, Mismatches: 0, Indels: 9
0.97 0.00 0.03
Matches are distributed among these distances:
46 46 0.17
47 180 0.68
48 2 0.01
49 31 0.12
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (46 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATAC
Found at i:27550 original size:93 final size:94
Alignment explanation
Indices: 27326--27641 Score: 557
Period size: 93 Copynumber: 3.3 Consensus size: 94
27316 GCCCTTCGGG
*
27326 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
27391 ACATCGGCCATTAGGCC--ATCACATATATATAC
63 ACATCGGCCATTAGGCCTTATCAC--ATATATAC
27423 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
27488 TCGGCCATTAGGCCTTATCAC-TATATAC
66 TCGGCCATTAGGCCTTATCACATATATAC
27516 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
27581 TCGGCCATTAGGCCTTATCACATATATAC
66 TCGGCCATTAGGCCTTATCACATATATAC
27610 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
27642 ATACTATCAT
Statistics
Matches: 215, Mismatches: 1, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
93 93 0.43
94 79 0.37
96 39 0.18
97 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (94 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATAC
Found at i:27586 original size:140 final size:140
Alignment explanation
Indices: 27326--27641 Score: 555
Period size: 140 Copynumber: 2.2 Consensus size: 140
27316 GCCCTTCGGG
27326 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATACACTTTCACATTCATC
27391 ACATCGGCCATTAGGCCATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
63 ACATCGGCCATTAGGCCATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
27456 TATCACATATATAC
127 TATCACATATATAC
*
27470 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-TATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCACA
27534 TCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 TCGGCCATTAGGCC--ATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
27598 TCACATATATAC
129 TCACATATATAC
27610 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
27642 ATACTATCAT
Statistics
Matches: 169, Mismatches: 1, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
140 126 0.75
142 5 0.03
143 34 0.20
144 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (140 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
ACATATATAC
Found at i:31444 original size:40 final size:40
Alignment explanation
Indices: 31158--31498 Score: 384
Period size: 40 Copynumber: 8.5 Consensus size: 40
31148 AGCATGATTA
* * * *
31158 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* ** * *
31198 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
*
31238 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * *
31278 CTCCTCGGGACTTAGCCCGGATATATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
31318 CTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
31358 CTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
** * * *
31398 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATG
* ** *
31439 C-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAG
1 CTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATG
31479 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
31499 CATCATTCGA
Statistics
Matches: 259, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.01
40 237 0.92
41 19 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
Found at i:31841 original size:29 final size:29
Alignment explanation
Indices: 31802--31879 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
31792 CTTAATAATC
*
31802 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
31832 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
31861 AGCCCGCACA-TTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31880 ATCTCACACC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 12 0.28
29 28 0.65
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:32016 original size:42 final size:43
Alignment explanation
Indices: 31862--32004 Score: 265
Period size: 42 Copynumber: 3.4 Consensus size: 43
31852 TGCATTTCAA
31862 GCCCGCACA-TTAGTGCCAATCTCAC-ACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
31903 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACA-TTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
31945 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
31988 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
32005 TGAAAACCAA
Statistics
Matches: 99, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
41 9 0.09
42 58 0.59
43 32 0.32
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:33910 original size:36 final size:37
Alignment explanation
Indices: 33863--33940 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
33853 TTATTACGAA
* * *
33863 GTCTTACCCGGACATAATCTCCACACGAAGTTATC-G
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
33899 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
33936 GTCTT
1 GTCTT
33941 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 31 0.84
37 6 0.16
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:34215 original size:47 final size:47
Alignment explanation
Indices: 34057--34372 Score: 530
Period size: 47 Copynumber: 6.7 Consensus size: 47
34047 GCCCTTCGGG
*
34057 ACTTATCACATTCATCAC-TCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
**
34106 AC-TTCACATTCATCACATCGGCCATTAGGCCCAATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
34154 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
34201 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACCTATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
34248 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
34294 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
34341 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
34373 ATACTATCAT
Statistics
Matches: 259, Mismatches: 5, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
46 45 0.17
47 145 0.56
48 33 0.13
49 36 0.14
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:34326 original size:93 final size:94
Alignment explanation
Indices: 34057--34372 Score: 530
Period size: 93 Copynumber: 3.3 Consensus size: 94
34047 GCCCTTCGGG
*
34057 ACTTATCACATTCATCAC-TCGGCCATTAGGCCCTATCACATATATATACAC-TTCACATTCATC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
**
34120 ACATCGGCCATTAGGCCCAATCACATATATATAC
63 ACATCGGCCATTAGGCCTTATCAC--ATATATAC
34154 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
34219 TCGGCCATTAGGCCTTATCACCTATATAC
66 TCGGCCATTAGGCCTTATCACATATATAC
34248 ACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
34312 TCGGCCATTAGGCCTTATCACATATATAC
66 TCGGCCATTAGGCCTTATCACATATATAC
34341 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
34373 ATACTATCAT
Statistics
Matches: 212, Mismatches: 5, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
93 88 0.42
94 43 0.20
95 10 0.05
96 47 0.22
97 24 0.11
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (94 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATAC
Found at i:34327 original size:140 final size:142
Alignment explanation
Indices: 34057--34372 Score: 532
Period size: 140 Copynumber: 2.2 Consensus size: 142
34047 GCCCTTCGGG
34057 ACTTATCACATTCATCAC-TCGGCCATTAGGCCCTATCACATATATATACACTTCACATTCATCA
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATACACTTCACATTCATCA
34121 CATCGGCCATTAGGCCCAATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
64 CATCGGCCATTAGGCCCAATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
34186 TTATCACATATATAC
128 TTATCACATATATAC
* *
34201 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-CTATATACACTTTCACATTCATCAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACAC-TTCACATTCATCAC
**
34265 ATCGGCCATTAGGCCTTAT-AC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
65 ATCGGCCATTAGGCCCAATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
34328 ATCACATATATAC
130 ATCACATATATAC
34341 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
34373 ATACTATCAT
Statistics
Matches: 166, Mismatches: 4, Indels: 8
0.93 0.02 0.04
Matches are distributed among these distances:
140 87 0.52
142 11 0.07
143 44 0.27
144 24 0.14
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (142 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACACTTCACATTCATCACA
TCGGCCATTAGGCCCAATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACATATATAC
Done.