Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167898.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_164, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61869
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Found at i:329 original size:13 final size:14
Alignment explanation
Indices: 302--331 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
292 CTTCTCTAAA
*
302 TTTTATGTAATTTT
1 TTTTATGGAATTTT
316 TTTTATGGAATTTT
1 TTTTATGGAATTTT
330 TT
1 TT
332 AGGGATAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (14 bp):
TTTTATGGAATTTT
Found at i:7209 original size:20 final size:20
Alignment explanation
Indices: 7172--7210 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7162 TTTTTGTAGT
* *
7172 TTTTTTTTTCTATATTTTCA
1 TTTTTATTTATATATTTTCA
*
7192 TTTTTATTTATATTTTTTC
1 TTTTTATTTATATATTTTC
7211 TCTTTCTAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTATTTATATATTTTCA
Found at i:11663 original size:25 final size:25
Alignment explanation
Indices: 11634--11695 Score: 124
Period size: 25 Copynumber: 2.5 Consensus size: 25
11624 ATATTGAAAC
11634 AATTAAAATTATTAATATCTTTTTT
1 AATTAAAATTATTAATATCTTTTTT
11659 AATTAAAATTATTAATATCTTTTTT
1 AATTAAAATTATTAATATCTTTTTT
11684 AATTAAAATTAT
1 AATTAAAATTAT
11696 ATTTTTCTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (25 bp):
AATTAAAATTATTAATATCTTTTTT
Found at i:14840 original size:6 final size:6
Alignment explanation
Indices: 14831--14893 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
14821 CCATTTTCTT
14831 TTTTTA -TTTTA TTTTTGTA TTTTTGTA TTTTTA -TTTTA TTTTTA -TTTTA
1 TTTTTA TTTTTA -TTTT-TA -TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA
**
14880 TTTACA TTTTTA TT
1 TTTTTA TTTTTA TT
14894 ATTGTTATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
5 15 0.31
6 16 0.33
7 7 0.15
8 10 0.21
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:14872 original size:11 final size:11
Alignment explanation
Indices: 14831--14882 Score: 59
Period size: 11 Copynumber: 4.3 Consensus size: 11
14821 CCATTTTCTT
14831 TTTTTATTTTA
1 TTTTTATTTTA
14842 TTTTTGTATTTTTGTA
1 -TTTT-TA--TTT-TA
14858 TTTTTATTTTA
1 TTTTTATTTTA
14869 TTTTTATTTTA
1 TTTTTATTTTA
14880 TTT
1 TTT
14883 ACATTTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 16 0.44
12 7 0.19
13 2 0.06
14 2 0.06
15 7 0.19
16 2 0.06
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:14961 original size:15 final size:16
Alignment explanation
Indices: 14933--14966 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
14923 TCTTTTAGTT
14933 TTATCTTATGTATTTA
1 TTATCTTATGTATTTA
*
14949 TTAT-TTATTTATTTA
1 TTATCTTATGTATTTA
14964 TTA
1 TTA
14967 CTACTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATCTTATGTATTTA
Found at i:15053 original size:22 final size:22
Alignment explanation
Indices: 15020--15077 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
15010 TTAATATTTA
15020 TATATATTTATCTGATTA-TAAGT
1 TATA-ATTTATCTGATTATTAA-T
15043 TATAATTTATCT-ATTATTTAAT
1 TATAATTTATCTGATTA-TTAAT
*
15065 TTTAATTTATCTG
1 TATAATTTATCTG
15078 TTAATTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 4 0.13
22 20 0.65
23 7 0.23
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
TATAATTTATCTGATTATTAAT
Found at i:15979 original size:4 final size:4
Alignment explanation
Indices: 15972--16001 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
15962 TTTTCTATAT
15972 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
16002 ATTATTAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:16041 original size:6 final size:6
Alignment explanation
Indices: 16030--16126 Score: 71
Period size: 6 Copynumber: 16.5 Consensus size: 6
16020 TTTAATATTC
* *
16030 TTTTAT TTTTAT CTTTA- TTTTAT TTTTAT TTTTAT TTTT-G TTTTACT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T
* * *
16077 TTTT-T TTATTTT TTTTAT TTTCA- CTTTAT TTTGT-T TTATTA- TTTTAT
1 TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTT-TAT TT-TTAT TTTTAT
16124 TTT
1 TTT
16127 CTTTAAATTA
Statistics
Matches: 72, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
5 17 0.24
6 46 0.64
7 9 0.12
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:16050 original size:11 final size:10
Alignment explanation
Indices: 16016--16126 Score: 77
Period size: 11 Copynumber: 10.8 Consensus size: 10
16006 TTAGATTAGG
*
16016 TTTATTTAAT
1 TTTATTTTAT
* *
16026 ATTCTTTTATT
1 TTTATTTTA-T
16037 TTTATCTTTAT
1 TTTAT-TTTAT
16048 TTTATTTTTATT
1 TTTA-TTTTA-T
*
16060 TTTATTTTTGT
1 TTTA-TTTTAT
16071 TTTACTTTT-T
1 TTTA-TTTTAT
16081 TTTATTTT-T
1 TTTATTTTAT
*
16090 TTTATTTTCAC
1 TTTATTTT-AT
*
16101 TTTATTTTGT
1 TTTATTTTAT
16111 TTTA--TTAT
1 TTTATTTTAT
16119 TTTATTTT
1 TTTATTTT
16127 CTTTAAATTA
Statistics
Matches: 82, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
8 7 0.09
9 13 0.16
10 17 0.21
11 30 0.37
12 15 0.18
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:16050 original size:17 final size:17
Alignment explanation
Indices: 16030--16089 Score: 79
Period size: 17 Copynumber: 3.6 Consensus size: 17
16020 TTTAATATTC
16030 TTTTATTTTTATCTTTA
1 TTTTATTTTTATCTTTA
*
16047 TTTTATTTTTATTTTTA
1 TTTTATTTTTATCTTTA
*
16064 TTTT-TGTTTTA-CTTTT
1 TTTTAT-TTTTATCTTTA
16080 TTTTATTTTT
1 TTTTATTTTT
16090 TTTATTTTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
16 12 0.32
17 26 0.68
ACGTcount: A:0.13, C:0.03, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTATTTTTATCTTTA
Found at i:16056 original size:23 final size:21
Alignment explanation
Indices: 16030--16126 Score: 83
Period size: 21 Copynumber: 4.4 Consensus size: 21
16020 TTTAATATTC
16030 TTTTATTTTTATCTTTATTTTAT
1 TTTTATTTTTAT-TTT-TTTTAT
16053 TTTTATTTTTATTTTTGTTT-T
1 TTTTATTTTTATTTTT-TTTAT
*
16074 ACTTT-TTTTTATTTTTTTTAT
1 -TTTTATTTTTATTTTTTTTAT
* *
16095 TTTCA-CTTTATTTTGTTTTATT
1 TTTTATTTTTATTTT-TTTTA-T
16117 ATTTTATTTT
1 -TTTTATTTT
16127 CTTTAAATTA
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
20 13 0.22
21 19 0.32
22 10 0.17
23 16 0.27
24 2 0.03
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTATTTTTATTTTTTTTAT
Found at i:16062 original size:29 final size:28
Alignment explanation
Indices: 16030--16126 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 28
16020 TTTAATATTC
16030 TTTTATTTTTATCTTTATTTTATTTTTAT
1 TTTTATTTTTATCTTTATTTT-TTTTTAT
* *
16059 TTTTATTTTTGT-TTTACTTTTTTTTAT
1 TTTTATTTTTATCTTTATTTTTTTTTAT
* *
16086 TTTT-TTTATTTTCACTTTATTTTGTTTTATT
1 TTTTATTT-TTAT--CTTTATTTTTTTTTA-T
16117 ATTTTATTTT
1 -TTTTATTTT
16127 CTTTAAATTA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
26 3 0.05
27 14 0.25
28 7 0.12
29 11 0.20
30 12 0.21
31 1 0.02
32 5 0.09
33 3 0.05
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.79
Consensus pattern (28 bp):
TTTTATTTTTATCTTTATTTTTTTTTAT
Found at i:16127 original size:29 final size:28
Alignment explanation
Indices: 16025--16127 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
16015 GTTTATTTAA
* * *
16025 TATTCTTTTATTTTTATCTTTATTTTATT
1 TATTATTTTATTTTCA-CTTTATTTTTTT
***
16054 T-TTATTTTTATTTTTGTTTTACTTTTTTT
1 TATTA-TTTTATTTTCACTTTA-TTTTTTT
*
16083 TATTTTTTTTATTTTCACTTTATTTTGTTT
1 TA-TTATTTTATTTTCACTTTATTTT-TTT
16113 TATTATTTTATTTTC
1 TATTATTTTATTTTC
16128 TTTAAATTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
28 6 0.10
29 34 0.57
30 18 0.30
31 2 0.03
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.78
Consensus pattern (28 bp):
TATTATTTTATTTTCACTTTATTTTTTT
Found at i:16205 original size:59 final size:57
Alignment explanation
Indices: 16142--16485 Score: 363
Period size: 59 Copynumber: 5.7 Consensus size: 57
16132 AATTAAATCC
16142 AAAAAAATATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
1 AAAAAAA-ATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTT
* * *
16201 AAAAAAAAGT-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTTT
1 AAAAAAAA-TATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT-TAAA--ATAAATTTT
*
16262 -AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
1 AAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTTT
** * * *
16319 CAAAAAAGGGTTTTTTTTTTTGAGGAAAAGTTGAAAGTATCAAATTTT-CTCGAAATTAAAGTTT
1 -AAAAAA----AATATTTTTTG-GGAAAAGTTGAAAGTATC-AATTTTCCT-TAAAATAAA-TTT
16383 T
57 T
*
16384 CAAAAAAATA-TTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 AAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAATTTT
*
16441 CAAAAAAAAAGTATTTTTTTAGGAAAAGTTGAAAGTATCAATTTT
1 --AAAAAAAA-TA-TTTTTTGGGAAAAGTTGAAAGTATCAATTTT
16486 TTCTTGTACA
Statistics
Matches: 240, Mismatches: 21, Indels: 45
0.78 0.07 0.15
Matches are distributed among these distances:
57 18 0.08
58 37 0.15
59 81 0.34
60 18 0.08
61 8 0.03
62 29 0.12
63 7 0.03
64 30 0.12
65 12 0.05
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.38
Consensus pattern (57 bp):
AAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTT
Found at i:16268 original size:122 final size:118
Alignment explanation
Indices: 16143--16486 Score: 530
Period size: 123 Copynumber: 2.9 Consensus size: 118
16133 ATTAAATCCA
16143 AAAAAATATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT-AAAAAA
1 AAAAAA-ATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAA
16207 AAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTTT
65 AAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATT-AAAATTTT
* *
16262 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAG
1 AAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAA
* * *
16327 GGTTTTTTTTTTTGAGGAAAAGTTGAAAGTATCAAATTTTCTCGAAATTAAAGTTTT
66 AG----TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTT
*
16384 CAAAAAAATA-TTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1 -AAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC-AAAAA
*
16448 AAAGTATTTTTTTAGGAAAAGTTGAAAGTATCAATTTTT
64 AAAGT-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTT
16487 TCTTGTACAA
Statistics
Matches: 206, Mismatches: 11, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
118 50 0.24
119 14 0.07
120 31 0.15
122 53 0.26
123 58 0.28
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (118 bp):
AAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAA
AGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTT
Found at i:21855 original size:2 final size:2
Alignment explanation
Indices: 21848--21874 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21838 TTGTAATTAC
21848 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
21875 CACTAGGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23086 original size:31 final size:31
Alignment explanation
Indices: 23051--23117 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
23041 CTCATTTCTG
23051 TTGGGGAACACCACAGCTT-TGATACCATTTA
1 TTGGGGAACACCACAG-TTCTGATACCATTTA
* *
23082 TTGGGGAATACCACAGTTCTGATACCATTTG
1 TTGGGGAACACCACAGTTCTGATACCATTTA
23113 TTGGG
1 TTGGG
23118 CTAAAAGCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (31 bp):
TTGGGGAACACCACAGTTCTGATACCATTTA
Found at i:23688 original size:52 final size:52
Alignment explanation
Indices: 23602--23706 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
23592 TATAACCATA
* *
23602 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * * *
23654 CAAACTTACCTATTAAGAATCCCTTTCCTTTTAGAATTTTTCTCTTGCAAGT
1 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
23706 C
1 C
23707 TTCTTGTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.38
Consensus pattern (52 bp):
CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:24096 original size:25 final size:25
Alignment explanation
Indices: 24002--24102 Score: 98
Period size: 25 Copynumber: 4.1 Consensus size: 25
23992 AAACTATGCA
* *
24002 CTTCTCACATCTTGAACTTTCAGCT
1 CTTCTCACATCTTGAACCTTCAACT
* * **
24027 CTT-TCACATATCGAACCTTCGGCT
1 CTTCTCACATCTTGAACCTTCAACT
* *
24051 CTTTTCACATCTTGAATCTTCAACT
1 CTTCTCACATCTTGAACCTTCAACT
*
24076 CTTCTCACGT-TTCGAACCTTCAACT
1 CTTCTCACATCTT-GAACCTTCAACT
24101 CT
1 CT
24103 GATACCACTT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
24 22 0.35
25 40 0.65
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.39
Consensus pattern (25 bp):
CTTCTCACATCTTGAACCTTCAACT
Found at i:24688 original size:52 final size:52
Alignment explanation
Indices: 24602--24706 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
24592 TATAACCATA
* *
24602 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * * *
24654 CAAACTTACCTATTAAGAATCCCTTTCCTTTTAGAATTTTTCTCTTGCAAGT
1 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
24706 C
1 C
24707 TTCTTGTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.38
Consensus pattern (52 bp):
CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:24762 original size:11 final size:11
Alignment explanation
Indices: 24731--24762 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
24721 GCAATATCTG
*
24731 ACAAATCTCAA
1 ACAAATCTCTA
24742 ACAAATCTCTA
1 ACAAATCTCTA
24753 ACAAATCTCT
1 ACAAATCTCT
24763 TATGAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (11 bp):
ACAAATCTCTA
Found at i:25096 original size:25 final size:25
Alignment explanation
Indices: 25002--25102 Score: 98
Period size: 25 Copynumber: 4.1 Consensus size: 25
24992 AAACTATGCA
* *
25002 CTTCTCACATCTTGAACTTTCAGCT
1 CTTCTCACATCTTGAACCTTCAACT
* * **
25027 CTT-TCACATATCGAACCTTCGGCT
1 CTTCTCACATCTTGAACCTTCAACT
* *
25051 CTTTTCACATCTTGAATCTTCAACT
1 CTTCTCACATCTTGAACCTTCAACT
*
25076 CTTCTCACGT-TTCGAACCTTCAACT
1 CTTCTCACATCTT-GAACCTTCAACT
25101 CT
1 CT
25103 GATACCACTT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
24 22 0.35
25 40 0.65
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.39
Consensus pattern (25 bp):
CTTCTCACATCTTGAACCTTCAACT
Found at i:25392 original size:1000 final size:1001
Alignment explanation
Indices: 23099--26795 Score: 7033
Period size: 1000 Copynumber: 3.7 Consensus size: 1001
23089 ATACCACAGT
* * *
23099 TCTGATACCATTTGTTGGGCTAAAAGCCTCCAATCCAATCACATCAGCGGAAGCGAAATCAAACA
1 TCTGATACCACTTGTTGGGGTAAAAGCCTCCAATCCAATCACACCAGCGGAAGCGAAATCAAACA
*
23164 ATAAATCAAACACATAAGAGACAACAATTTAACGTGGTTCAGTCCAACTGACCTACATCCATGGA
66 ATAAATCAAACACATAAGAAACAACAATTTAACGTGGTTCAGTCCAACTGACCTACATCCATGGA
**
23229 TGAGAAACAAGATTTACTAGTTGTAGAGAATTACAAACTTACATCAAATCATCAACCTCACTCAA
131 TGAGAAACAAGATCCACTAGTTGTAGAGAATTACAAACTTACATCAAATCATCAACCTCACTCAA
*
23294 CAATCAATACTCATAAGACACTCTCAATCTCCTCTAGTCCTATGAAGTATTCTCAACCCAAACAA
196 CAATCAATACTCATAAGACACTCTCAATCTCTTCTAGTCCTATGAAGTATTCTCAACCCAAACAA
*
23359 ACACAAACCCAAACTCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCATAC
261 ACACAAACTCAAACTCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCATAC
* *
23424 ACCATATCTATGTGGACCCTCTCAATCTCCTCTAGTCCACTCACAAACAAATATACACACTCATA
326 ACCATACCTATGTGGACCCTCTCAATCTCCTCTAGTCCACTCACAAACAAACATACACACTCATA
* *
23489 AGACGTAGAGCTCCAATACTCCTATGGGGTGTCTATCCCACAAAATCCTACAACTCTCTTACATC
391 AGACGTAGAGCCCCAATACTCCTATGGGGTGTCTATCCCACAAAACCCTACAACTCTCTTACATC
23554 TTTTTCTCATACCTAACTCTGTAGAGACTTCACCTATTTATAACCATACAAACTTGCCCATTAAG
456 TTTTTCTCATACCTAACTCTGTAGAGACTTCACCTATTTATAACCATACAAACTTGCCCATTAAG
23619 AATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTACCTATTAAGAATCCCTTTCCTT
521 AATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTACCTATTAAGAATCCCTTTCCTT
23684 TTAGAATTTTTCTCTTGCAAGTCTTCTTGTCCATCAAGCAATATCTGACAAATCTCAAACAAATC
586 TTAGAATTTTTCTCTTGCAAGTCTTCTTGTCCATCAAGCAATATCTGACAAATCTCAAACAAATC
*
23749 TCTAATAAATCTCTTATGAGATTTGAGTCAATATTCCCAACAATCTCCACCTTGACTCAAATTTC
651 TCTAACAAATCTCTTATGAGATTTGAGTCAATATTCCCAACAATCTCCACCTTGACTCAAATTTC
*
23814 ATCAATCATCTGTCTTCATGCTAGACATGCTTGGCTCCACTTACAATGGAAGTCTCACAATCATC
716 ATCAATCATCTGTCTTCATGCTAGACATGCTTGGCTCCACCTACAATGGAAGTCTCACAATCATC
* *
23879 TTCTTTTCTCTTGTGTCTTCACGCTTCATACAAACCAATCCTCAATCTTCAAAACTTAAACTCGA
781 TTCTCTTCTCTTGTGTCTTTACGCTTCATACAAACCAATCCTCAATCTTCAAAACTTAAACTCGA
*
23944 ACTCTTCTCTTGAATCGAGCTTTCTGAACTTGCTTCTTCCCATGTCTCAAACTATGCACTTCTCA
846 ACTTTTCTCTTGAATCGAGCTTTCTGAACTTGCTTCTTCCCATGTCTCAAACTATGCACTTCTCA
24009 CATCTTGAACTTTCAGCTCTTTCACATATCGAACCTTCGGCTCTTTTCACATCTTGAATCTTCAA
911 CATCTTGAACTTTCAGCTCTTTCACATATCGAACCTTCGGCTCTTTTCACATCTTGAATCTTCAA
24074 CTCTTCTCACGTTTCGAACCTTCAAC
976 CTCTTCTCACGTTTCGAACCTTCAAC
24100 TCTGATACCACTTGTTGGGGTAAAAGCCTCCAATCCAATCACACCAGCGGAAGCGAAATCAAACA
1 TCTGATACCACTTGTTGGGGTAAAAGCCTCCAATCCAATCACACCAGCGGAAGCGAAATCAAACA
24165 ATAAATCAAACACATAAGAAACAACAATTTAACGTGGTTCAGTCCAACTGACCTACATCCATGGA
66 ATAAATCAAACACATAAGAAACAACAATTTAACGTGGTTCAGTCCAACTGACCTACATCCATGGA
24230 TGAGAAACAAGATCCACTAGTTGTAGAGAATTACAAACTTACATCAAATCATCAACCTCACTCAA
131 TGAGAAACAAGATCCACTAGTTGTAGAGAATTACAAACTTACATCAAATCATCAACCTCACTCAA
*
24295 CAATCAATACTCATAAGACACTCTCAATCTCTTCTAGTCCTATGGAGTATTCTCAACCCAAACAA
196 CAATCAATACTCATAAGACACTCTCAATCTCTTCTAGTCCTATGAAGTATTCTCAACCCAAACAA
*
24360 ACACAAACTCAAACTCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCATTC
261 ACACAAACTCAAACTCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCATAC
*
24425 ACCATACCTATGTGGACCCTCTCAATCT-CTCTAGTCCACTCACAAACAAATATACACACTCATA
326 ACCATACCTATGTGGACCCTCTCAATCTCCTCTAGTCCACTCACAAACAAACATACACACTCATA
24489 AGACGTAGAGCCCCAATACTCCTATGGGGTGTCTATCCCACAAAACCCTACAACTCTCTTACATC
391 AGACGTAGAGCCCCAATACTCCTATGGGGTGTCTATCCCACAAAACCCTACAACTCTCTTACATC
24554 TTTTTCTCATACCTAACTCTGTAGAGACTTCACCTATTTATAACCATACAAACTTGCCCATTAAG
456 TTTTTCTCATACCTAACTCTGTAGAGACTTCACCTATTTATAACCATACAAACTTGCCCATTAAG
24619 AATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTACCTATTAAGAATCCCTTTCCTT
521 AATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTACCTATTAAGAATCCCTTTCCTT
24684 TTAGAATTTTTCTCTTGCAAGTCTTCTTGTCCATCAAGCAATATCTGACAAATCTCAAACAAATC
586 TTAGAATTTTTCTCTTGCAAGTCTTCTTGTCCATCAAGCAATATCTGACAAATCTCAAACAAATC
*
24749 TCTAACAAATCTCTTATGAGATTTGAGTCAATATTCTCAACAATCTCCACCTTGACTCAAATTTC
651 TCTAACAAATCTCTTATGAGATTTGAGTCAATATTCCCAACAATCTCCACCTTGACTCAAATTTC
24814 ATCAATCATCTGTCTTCATGCTAGACATGCTTGGCTCCACCTACAATGGAAGTCTCACAATCATC
716 ATCAATCATCTGTCTTCATGCTAGACATGCTTGGCTCCACCTACAATGGAAGTCTCACAATCATC
24879 TTCTCTTCTCTTGTGTCTTTACGCTTCATACAAACCAATCCTCAATCTTCAAAACTTAAACTCGA
781 TTCTCTTCTCTTGTGTCTTTACGCTTCATACAAACCAATCCTCAATCTTCAAAACTTAAACTCGA
24944 ACTTTTCTCTTGAATCGAGCTTTCTGAACTTGCTTCTTCCCATGTCTCAAACTATGCACTTCTCA
846 ACTTTTCTCTTGAATCGAGCTTTCTGAACTTGCTTCTTCCCATGTCTCAAACTATGCACTTCTCA
25009 CATCTTGAACTTTCAGCTCTTTCACATATCGAACCTTCGGCTCTTTTCACATCTTGAATCTTCAA
911 CATCTTGAACTTTCAGCTCTTTCACATATCGAACCTTCGGCTCTTTTCACATCTTGAATCTTCAA
25074 CTCTTCTCACGTTTCGAACCTTCAAC
976 CTCTTCTCACGTTTCGAACCTTCAAC
25100 TCTGATACCACTTGTTGGGGTAAAAGCCTCCAATCCAATCACACCAGCGGAAGCGAAATCAAACA
1 TCTGATACCACTTGTTGGGGTAAAAGCCTCCAATCCAATCACACCAGCGGAAGCGAAATCAAACA
*
25165 ATAAATCAAACACATAAGAAACAACAATTTAACGTGGTTCAGTCCAACTGACCTACATCCATTGA
66 ATAAATCAAACACATAAGAAACAACAATTTAACGTGGTTCAGTCCAACTGACCTACATCCATGGA
25230 TGAGAAACAAGATCCACTAGTTGTAGAGAATTACAAACTTACATCAAATCATCAACCTCACTCAA
131 TGAGAAACAAGATCCACTAGTTGTAGAGAATTACAAACTTACATCAAATCATCAACCTCACTCAA
25295 CAATCAATACTCATAAGACACTCTCAATCTCTTCTAGTCCTATGAAGTATTCTCAACCCAAACAA
196 CAATCAATACTCATAAGACACTCTCAATCTCTTCTAGTCCTATGAAGTATTCTCAACCCAAACAA
*
25360 ACATAAACTCAAACTCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCATAC
261 ACACAAACTCAAACTCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCATAC
25425 ACCATACCTATGTGGACCCTCTCAATCTCCTCTAGTCCACTCACAAACAAACATACACACTCATA
326 ACCATACCTATGTGGACCCTCTCAATCTCCTCTAGTCCACTCACAAACAAACATACACACTCATA
*
25490 AGACGTAGAGCCCCAATACTCTTATGGGGTGTCTATCCCACAAAACCCTACAACTCTCTTACATC
391 AGACGTAGAGCCCCAATACTCCTATGGGGTGTCTATCCCACAAAACCCTACAACTCTCTTACATC
25555 TTTTTCTCATACCTAACTCTGTAGAGACTTCACCTATTTATAACCATACAAACTTGCCCATTAAG
456 TTTTTCTCATACCTAACTCTGTAGAGACTTCACCTATTTATAACCATACAAACTTGCCCATTAAG
25620 AATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTACCTATTATTAAGAATCCCTTTC
521 AATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTACC---TATTAAGAATCCCTTTC
25685 CTTTTAGAATTTTTCTCTTGCAAGTCTTCTTGTCCATCAAGCAATATCTGACAAATCTCAAACAA
583 CTTTTAGAATTTTTCTCTTGCAAGTCTTCTTGTCCATCAAGCAATATCTGACAAATCTCAAACAA
*
25750 ATCTCTAATAAATCTCTTATGAGATTTGAGTCAATATTCCCAACAATCTCCACCTTGACTCAAAT
648 ATCTCTAACAAATCTCTTATGAGATTTGAGTCAATATTCCCAACAATCTCCACCTTGACTCAAAT
25815 TTCATCAATCATCTGTCTTCATGCTAGACATGCTTGGCTCCACCTACAATGGAAGTCTCACAATC
713 TTCATCAATCATCTGTCTTCATGCTAGACATGCTTGGCTCCACCTACAATGGAAGTCTCACAATC
25880 ATCTTTCTCTTCTCTTGTGTCTTTACGCTTCATACAAACCAATCCTCAATCTTCAAAACTTAAAC
778 ATC-TTCTCTTCTCTTGTGTCTTTACGCTTCATACAAACCAATCCTCAATCTTCAAAACTTAAAC
*
25945 TCGAACTTTTCTCTTGAATCGAGCTTTCTGAACTTGCTTCTTCCCATGTCTCAAACCATGCACTT
842 TCGAACTTTTCTCTTGAATCGAGCTTTCTGAACTTGCTTCTTCCCATGTCTCAAACTATGCACTT
* **
26010 CTCACATCTCGAACTTTCAGCTCTTTCACATATCGAACCTTCGGCTCTTCCCACATCTTGAATCT
907 CTCACATCTTGAACTTTCAGCTCTTTCACATATCGAACCTTCGGCTCTTTTCACATCTTGAATCT
*
26075 TCAACTCTTCTCACGTTTCGAACCTTCAGC
972 TCAACTCTTCTCACGTTTCGAACCTTCAAC
*
26105 TCTGATATCACTTGTTGGGGTAAAAGCCTCCAATCCAATCACACCAGCGGAAGCGAAATCAAACA
1 TCTGATACCACTTGTTGGGGTAAAAGCCTCCAATCCAATCACACCAGCGGAAGCGAAATCAAACA
*
26170 ATAAATCAAACACATAAGAAACAACAATTTAACGTGGTTCAGTCCAACTGACCTACATCCATTGA
66 ATAAATCAAACACATAAGAAACAACAATTTAACGTGGTTCAGTCCAACTGACCTACATCCATGGA
26235 TGAGAAACAAGATCCACTAGTTGTAGAGAATTACAAACTTACATCAAATCATCAACCTCACTCAA
131 TGAGAAACAAGATCCACTAGTTGTAGAGAATTACAAACTTACATCAAATCATCAACCTCACTCAA
26300 CAATCAATACTCATAAGACACTCTCAATCTCTTCTAGTCCTATGAAGTATTCTCAACCCAAACAA
196 CAATCAATACTCATAAGACACTCTCAATCTCTTCTAGTCCTATGAAGTATTCTCAACCCAAACAA
26365 ACACAAACTCAAACTCTT-TGCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCATAC
261 ACACAAACTCAAACTCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCATAC
26429 ACCATACCTATGTGGACCCTCTCAATCTCCTCTAGTCCACTCACAAACAAACATACACACTCATA
326 ACCATACCTATGTGGACCCTCTCAATCTCCTCTAGTCCACTCACAAACAAACATACACACTCATA
26494 AGACGTAGAGCCCCAATACT-CTATGGGGTGTCTATCCCACAAAACCCTACAACTCTCTTACATC
391 AGACGTAGAGCCCCAATACTCCTATGGGGTGTCTATCCCACAAAACCCTACAACTCTCTTACATC
26558 TTTTTCTCATACCTAACTCTGTAGAGACTTCACCTATTTATAACCATACAAACTTGCCCATTAAG
456 TTTTTCTCATACCTAACTCTGTAGAGACTTCACCTATTTATAACCATACAAACTTGCCCATTAAG
26623 AATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTACCTA-TAAGAATCCCTTTCCTT
521 AATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTACCTATTAAGAATCCCTTTCCTT
*
26687 TTAGAATTCTTCTCTTGCAAGTCTTCTTGTCCATCAAGCAATATCTGACAAATCTCAAACAAATC
586 TTAGAATTTTTCTCTTGCAAGTCTTCTTGTCCATCAAGCAATATCTGACAAATCTCAAACAAATC
26752 TCTAACAAATCTCTTATGAGATTTGAGTCAATATTCCCAACAAT
651 TCTAACAAATCTCTTATGAGATTTGAGTCAATATTCCCAACAAT
26796 TTCTTTTTTC
Statistics
Matches: 2654, Mismatches: 37, Indels: 12
0.98 0.01 0.00
Matches are distributed among these distances:
999 124 0.05
1000 990 0.37
1001 551 0.21
1003 153 0.06
1004 344 0.13
1005 492 0.19
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.30
Consensus pattern (1001 bp):
TCTGATACCACTTGTTGGGGTAAAAGCCTCCAATCCAATCACACCAGCGGAAGCGAAATCAAACA
ATAAATCAAACACATAAGAAACAACAATTTAACGTGGTTCAGTCCAACTGACCTACATCCATGGA
TGAGAAACAAGATCCACTAGTTGTAGAGAATTACAAACTTACATCAAATCATCAACCTCACTCAA
CAATCAATACTCATAAGACACTCTCAATCTCTTCTAGTCCTATGAAGTATTCTCAACCCAAACAA
ACACAAACTCAAACTCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCATAC
ACCATACCTATGTGGACCCTCTCAATCTCCTCTAGTCCACTCACAAACAAACATACACACTCATA
AGACGTAGAGCCCCAATACTCCTATGGGGTGTCTATCCCACAAAACCCTACAACTCTCTTACATC
TTTTTCTCATACCTAACTCTGTAGAGACTTCACCTATTTATAACCATACAAACTTGCCCATTAAG
AATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTACCTATTAAGAATCCCTTTCCTT
TTAGAATTTTTCTCTTGCAAGTCTTCTTGTCCATCAAGCAATATCTGACAAATCTCAAACAAATC
TCTAACAAATCTCTTATGAGATTTGAGTCAATATTCCCAACAATCTCCACCTTGACTCAAATTTC
ATCAATCATCTGTCTTCATGCTAGACATGCTTGGCTCCACCTACAATGGAAGTCTCACAATCATC
TTCTCTTCTCTTGTGTCTTTACGCTTCATACAAACCAATCCTCAATCTTCAAAACTTAAACTCGA
ACTTTTCTCTTGAATCGAGCTTTCTGAACTTGCTTCTTCCCATGTCTCAAACTATGCACTTCTCA
CATCTTGAACTTTCAGCTCTTTCACATATCGAACCTTCGGCTCTTTTCACATCTTGAATCTTCAA
CTCTTCTCACGTTTCGAACCTTCAAC
Found at i:26101 original size:25 final size:25
Alignment explanation
Indices: 26007--26107 Score: 107
Period size: 25 Copynumber: 4.1 Consensus size: 25
25997 AAACCATGCA
* *
26007 CTTCTCACATCTCGAACTTTCAGCT
1 CTTCTCACATTTCGAACCTTCAGCT
* *
26032 CTT-TCACATATCGAACCTTCGGCT
1 CTTCTCACATTTCGAACCTTCAGCT
* * *
26056 CTTCCCACATCTT-GAATCTTCAACT
1 CTTCTCACAT-TTCGAACCTTCAGCT
*
26081 CTTCTCACGTTTCGAACCTTCAGCT
1 CTTCTCACATTTCGAACCTTCAGCT
26106 CT
1 CT
26108 GATATCACTT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
24 23 0.38
25 37 0.61
26 1 0.02
ACGTcount: A:0.20, C:0.36, G:0.09, T:0.36
Consensus pattern (25 bp):
CTTCTCACATTTCGAACCTTCAGCT
Found at i:26107 original size:50 final size:49
Alignment explanation
Indices: 26007--26107 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 49
25997 AAACCATGCA
* * *
26007 CTTCTCACATCTCGAACTTTCAGCTCTTTCACATATCGAACCTTCGGCT
1 CTTCCCACATCTCGAACTTTCAACTCTTTCACATATCGAACCTTCAGCT
* * *
26056 CTTCCCACATCTTGAA-TCTTCAACTCTTCTCACGTTTCGAACCTTCAGCT
1 CTTCCCACATCTCGAACT-TTCAACTCTT-TCACATATCGAACCTTCAGCT
26106 CT
1 CT
26108 GATATCACTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
48 1 0.02
49 23 0.52
50 20 0.45
ACGTcount: A:0.20, C:0.36, G:0.09, T:0.36
Consensus pattern (49 bp):
CTTCCCACATCTCGAACTTTCAACTCTTTCACATATCGAACCTTCAGCT
Found at i:26765 original size:11 final size:11
Alignment explanation
Indices: 26734--26765 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
26724 GCAATATCTG
*
26734 ACAAATCTCAA
1 ACAAATCTCTA
26745 ACAAATCTCTA
1 ACAAATCTCTA
26756 ACAAATCTCT
1 ACAAATCTCT
26766 TATGAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (11 bp):
ACAAATCTCTA
Found at i:28540 original size:16 final size:14
Alignment explanation
Indices: 28502--28552 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
28492 AATTTGATTT
28502 AACAAAAAA-AA-A
1 AACAAAAAATAATA
28514 AA-AAGAAAATAACTA
1 AACAA-AAAATAA-TA
28529 TAACAAAAAATAATA
1 -AACAAAAAATAATA
28544 AACAAAAAA
1 AACAAAAAA
28553 GAATCTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
11 2 0.06
12 6 0.18
13 2 0.06
14 9 0.27
15 3 0.09
16 9 0.27
17 2 0.06
ACGTcount: A:0.80, C:0.08, G:0.02, T:0.10
Consensus pattern (14 bp):
AACAAAAAATAATA
Found at i:29557 original size:13 final size:14
Alignment explanation
Indices: 29533--29561 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
29523 CTTCCCTAAA
29533 TTTTATGTAATTTT
1 TTTTATGTAATTTT
29547 TTTTATG-AATTTT
1 TTTTATGTAATTTT
29560 TT
1 TT
29562 AGGGATAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
TTTTATGTAATTTT
Found at i:29696 original size:30 final size:31
Alignment explanation
Indices: 29656--29737 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 31
29646 AAATCTTCTA
*
29656 TTTCAAATCAATTAAACCTTTGA-ATATATTT
1 TTTC-AATCAATTAAACCTTTGACATATATAT
* *
29687 TTTCAATCAATTAAA-CTTTTACATATCTAT
1 TTTCAATCAATTAAACCTTTGACATATATAT
*
29717 TTTCATTCAATTAAACTCTTT
1 TTTCAATCAATTAAAC-CTTT
29738 ATTGGATGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
29 5 0.11
30 31 0.70
31 4 0.09
32 4 0.09
ACGTcount: A:0.35, C:0.16, G:0.01, T:0.48
Consensus pattern (31 bp):
TTTCAATCAATTAAACCTTTGACATATATAT
Found at i:33504 original size:163 final size:163
Alignment explanation
Indices: 33234--33564 Score: 662
Period size: 163 Copynumber: 2.0 Consensus size: 163
33224 ACTGAATTTT
33234 TACAATCACCTCCCTTAAGTTCTAGAATATAACTCAGAAAATTTGAAAGCATCAGAATCATGCAT
1 TACAATCACCTCCCTTAAGTTCTAGAATATAACTCAGAAAATTTGAAAGCATCAGAATCATGCAT
33299 TTTTTATTAATTTTTTCTGTTCATTGCGGATTGAGACATGGCTCTAATTGTAGTTTGAAATCATA
66 TTTTTATTAATTTTTTCTGTTCATTGCGGATTGAGACATGGCTCTAATTGTAGTTTGAAATCATA
33364 TACAGTTCAATGCCATGCATAACAAGGATAAAC
131 TACAGTTCAATGCCATGCATAACAAGGATAAAC
33397 TACAATCACCTCCCTTAAGTTCTAGAATATAACTCAGAAAATTTGAAAGCATCAGAATCATGCAT
1 TACAATCACCTCCCTTAAGTTCTAGAATATAACTCAGAAAATTTGAAAGCATCAGAATCATGCAT
33462 TTTTTATTAATTTTTTCTGTTCATTGCGGATTGAGACATGGCTCTAATTGTAGTTTGAAATCATA
66 TTTTTATTAATTTTTTCTGTTCATTGCGGATTGAGACATGGCTCTAATTGTAGTTTGAAATCATA
33527 TACAGTTCAATGCCATGCATAACAAGGATAAAC
131 TACAGTTCAATGCCATGCATAACAAGGATAAAC
33560 TACAA
1 TACAA
33565 AAAATTCAGA
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 168 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (163 bp):
TACAATCACCTCCCTTAAGTTCTAGAATATAACTCAGAAAATTTGAAAGCATCAGAATCATGCAT
TTTTTATTAATTTTTTCTGTTCATTGCGGATTGAGACATGGCTCTAATTGTAGTTTGAAATCATA
TACAGTTCAATGCCATGCATAACAAGGATAAAC
Found at i:38946 original size:13 final size:16
Alignment explanation
Indices: 38915--38947 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
38905 AAAAAAAAAG
38915 AAAATAACTATAACAA
1 AAAATAACTATAACAA
38931 AAAATAA-TA-AACAA
1 AAAATAACTATAACAA
38945 AAA
1 AAA
38948 GGAATCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAATAACTATAACAA
Found at i:39327 original size:10 final size:11
Alignment explanation
Indices: 39312--39340 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
39302 AGTTTCTCTA
39312 AATTTTTT-GT
1 AATTTTTTCGT
39322 AATTTTTTCGT
1 AATTTTTTCGT
39333 AATTTTTT
1 AATTTTTT
39341 TTCATTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.21, C:0.03, G:0.07, T:0.69
Consensus pattern (11 bp):
AATTTTTTCGT
Found at i:39995 original size:13 final size:14
Alignment explanation
Indices: 39971--39999 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
39961 CTTCTCTAAA
39971 TTTTATGTAATTTT
1 TTTTATGTAATTTT
39985 TTTTATG-AATTTT
1 TTTTATGTAATTTT
39998 TT
1 TT
40000 AGGGATAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
TTTTATGTAATTTT
Found at i:40134 original size:30 final size:31
Alignment explanation
Indices: 40094--40175 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 31
40084 AAATCTTCTA
*
40094 TTTCAAATCAATTAAACCTTTGA-ATATATTT
1 TTTC-AATCAATTAAACCTTTGACATATATAT
* *
40125 TTTCAATCAATTAAA-CTTTTACATATCTAT
1 TTTCAATCAATTAAACCTTTGACATATATAT
*
40155 TTTCATTCAATTAAACTCTTT
1 TTTCAATCAATTAAAC-CTTT
40176 ATTGGATGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
29 5 0.11
30 31 0.70
31 4 0.09
32 4 0.09
ACGTcount: A:0.35, C:0.16, G:0.01, T:0.48
Consensus pattern (31 bp):
TTTCAATCAATTAAACCTTTGACATATATAT
Found at i:42661 original size:12 final size:11
Alignment explanation
Indices: 42633--42660 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
42623 TTTCTCTAAA
42633 TTTTTTGTAAT
1 TTTTTTGTAAT
42644 TTTTTTGTAAT
1 TTTTTTGTAAT
42655 TTTTTT
1 TTTTTT
42661 TCTCATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (11 bp):
TTTTTTGTAAT
Found at i:44698 original size:3 final size:3
Alignment explanation
Indices: 44683--44739 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
44673 TCATTTCACT
* *
44683 ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA AT- TTA ATA A-A A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44728 A-A ATA A-A ATA AT
1 ATA ATA ATA ATA AT
44740 TTTAAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 9 0.20
3 37 0.80
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:45453 original size:52 final size:52
Alignment explanation
Indices: 45370--45469 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
45360 AGTATAAAAG
* **
45370 CTTGCCTATTAAGAATCTTTTTTCTCTTAAAATTCTTCTTCTACAAGTCAAA
1 CTTGCCTATTAAAAATCCCTTTTCTCTTAAAATTCTTCTTCTACAAGTCAAA
* *
45422 CTTGTCTATTAAAAATCCCTTTTCTCTTAAAATTCTTTTTCTACAAGT
1 CTTGCCTATTAAAAATCCCTTTTCTCTTAAAATTCTTCTTCTACAAGT
45470 TTTTTTGTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (52 bp):
CTTGCCTATTAAAAATCCCTTTTCTCTTAAAATTCTTCTTCTACAAGTCAAA
Found at i:46736 original size:14 final size:15
Alignment explanation
Indices: 46705--46736 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
46695 AAAAAAAAAG
46705 AAAATAACTATAGCA
1 AAAATAACTATAGCA
46720 AAAATAA-TA-AGCA
1 AAAATAACTATAGCA
46733 AAAA
1 AAAA
46737 GAGTCTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 2 0.12
15 7 0.41
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAAATAACTATAGCA
Found at i:47064 original size:16 final size:16
Alignment explanation
Indices: 47045--47086 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
47035 ACGTTCATAG
**
47045 ATTTTTATATAACTTC
1 ATTTTTATATAAAATC
47061 ATTTTTATATAAAATC
1 ATTTTTATATAAAATC
*
47077 ATGTTTATAT
1 ATTTTTATAT
47087 TTGAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTTATATAAAATC
Found at i:47236 original size:16 final size:16
Alignment explanation
Indices: 47208--47245 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
47198 GCTTCTTTAA
*
47208 ATTTTTTGTAA-TTTT
1 ATTTTTTCTAATTTTT
47223 ATTTTTTCTAAATTTTT
1 ATTTTTTCT-AATTTTT
47240 ATTTTT
1 ATTTTT
47246 AATTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 2 0.10
17 10 0.50
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
ATTTTTTCTAATTTTT
Found at i:51868 original size:43 final size:43
Alignment explanation
Indices: 51818--51902 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
51808 ATTAAAAATC
* * *
51818 AAATCTAAATCATCATAAAAAATTTTAGTCGTATTTTTCTTTT
1 AAATCTAAATCATCATAAAAAAATTTAATCGCATTTTTCTTTT
51861 AAATCTAAATCATCATAAAAAAATTTAATCGCATTTTTCTTT
1 AAATCTAAATCATCATAAAAAAATTTAATCGCATTTTTCTTT
51903 CTCTTTTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.44
Consensus pattern (43 bp):
AAATCTAAATCATCATAAAAAAATTTAATCGCATTTTTCTTTT
Found at i:57165 original size:22 final size:22
Alignment explanation
Indices: 57137--57180 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
57127 ACAATTGTAG
*
57137 AATTTAAATGGACCATATATGC
1 AATTTAAATGGACCATAAATGC
57159 AATTTAAATGGACCATAAATGC
1 AATTTAAATGGACCATAAATGC
57181 TTCCCGTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (22 bp):
AATTTAAATGGACCATAAATGC
Found at i:57757 original size:12 final size:12
Alignment explanation
Indices: 57740--57764 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57730 CACCGCATGC
57740 TGAATGGGATGT
1 TGAATGGGATGT
57752 TGAATGGGATGT
1 TGAATGGGATGT
57764 T
1 T
57765 TACATTCGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (12 bp):
TGAATGGGATGT
Done.