Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004774.1 Hibiscus syriacus cultivar Beakdansim tig00010768_pilon, 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: 57980
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:1275 original size:29 final size:29
Alignment explanation
Indices: 1233--1291 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1223 ATTTTCACCT
1233 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1262 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
1291 A
1 A
1292 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:3056 original size:40 final size:40
Alignment explanation
Indices: 2990--3116 Score: 146
Period size: 40 Copynumber: 3.2 Consensus size: 40
2980 TCCAGATTCA
* * *
2990 ATGCAGATAATAACAGAATGATATGCGTCAGAATTTATGG
1 ATGCAGATAATAACAGAATGACATGCGACAGAATTTACGG
* * * * * *
3030 ATGCATATAGTAACATAATGGCATGCGACAAAATTCACGG
1 ATGCAGATAATAACAGAATGACATGCGACAGAATTTACGG
**
3070 ATTTAGATAATAACAGAATGACATGCGACAGAATTTACGG
1 ATGCAGATAATAACAGAATGACATGCGACAGAATTTACGG
*
3110 ATACAGA
1 ATGCAGA
3117 ATAAATGATC
Statistics
Matches: 68, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.24
Consensus pattern (40 bp):
ATGCAGATAATAACAGAATGACATGCGACAGAATTTACGG
Found at i:4887 original size:26 final size:25
Alignment explanation
Indices: 4856--4912 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 25
4846 CAAAACAGCT
4856 AAAACCCATAACCCTAAGCTACGATA
1 AAAACCCA-AACCCTAAGCTACGATA
4882 AAAACCCAAACCCTAAGCTACGATA
1 AAAACCCAAACCCTAAGCTACGATA
4907 AAAACC
1 AAAACC
4913 ATTTTTTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 23 0.74
26 8 0.26
ACGTcount: A:0.49, C:0.32, G:0.07, T:0.12
Consensus pattern (25 bp):
AAAACCCAAACCCTAAGCTACGATA
Found at i:9023 original size:15 final size:15
Alignment explanation
Indices: 9003--9035 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
8993 GCTATTCCTG
9003 CATCCGCCAGCTTCT
1 CATCCGCCAGCTTCT
9018 CATCCGCCAGCTTCT
1 CATCCGCCAGCTTCT
9033 CAT
1 CAT
9036 AGCAATAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.45, G:0.12, T:0.27
Consensus pattern (15 bp):
CATCCGCCAGCTTCT
Found at i:10140 original size:71 final size:71
Alignment explanation
Indices: 9957--10178 Score: 320
Period size: 71 Copynumber: 3.0 Consensus size: 71
9947 CGGACCACGC
*
9957 ATGTCCGAAATCGTGGAAGCTCTGACACTTCTATTACAGAAGATGGGGATGATAAAGAGCAAGA-
1 ATGTCCGAAATCGTGGAAGCTCTGACAC--CTATTACAGAAGATGGGGATGATAAAGAGCAATAC
* *
10021 ATTCCGACCACG
64 A--GC-AACA-G
* *
10033 CATGTTCGAAATCGTGGAAGCTCTGACACCTATTACAGAAGATGGGGATGACAAAGAGCAATACA
1 -ATGTCCGAAATCGTGGAAGCTCTGACACCTATTACAGAAGATGGGGATGATAAAGAGCAATACA
10098 GCAACAG
65 GCAACAG
*
10105 ATGTCCGAAATCGTGGAAGCTCTGACACCTATTACAGAAGATGGGGATAATAAAGAGCAATACAG
1 ATGTCCGAAATCGTGGAAGCTCTGACACCTATTACAGAAGATGGGGATGATAAAGAGCAATACAG
10170 CAACAG
66 CAACAG
10176 ATG
1 ATG
10179 GAACTGAAGT
Statistics
Matches: 136, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
71 71 0.52
72 1 0.01
73 3 0.02
74 1 0.01
75 32 0.24
76 1 0.01
77 27 0.20
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (71 bp):
ATGTCCGAAATCGTGGAAGCTCTGACACCTATTACAGAAGATGGGGATGATAAAGAGCAATACAG
CAACAG
Found at i:15553 original size:39 final size:39
Alignment explanation
Indices: 15498--15572 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
15488 TAACGTCAGT
* *
15498 CGGATAACTCCGAGGGCTTGTCTGTCTAGAAGAGCCAGC
1 CGGATAACTCCAAGGGCTTGTCTGTCGAGAAGAGCCAGC
15537 CGGATAACTCCAAGGGCTTGTCTGTCGAGAAGAGCC
1 CGGATAACTCCAAGGGCTTGTCTGTCGAGAAGAGCC
15573 CAATCTTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.24, C:0.25, G:0.31, T:0.20
Consensus pattern (39 bp):
CGGATAACTCCAAGGGCTTGTCTGTCGAGAAGAGCCAGC
Found at i:16327 original size:19 final size:19
Alignment explanation
Indices: 16303--16351 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
16293 AACTTTGAAA
*
16303 TCAAAGCAGTCTCATTTAT
1 TCAAAGCAGTCCCATTTAT
*
16322 TCAAAGCAGCCCCATTTAT
1 TCAAAGCAGTCCCATTTAT
16341 TCAAAGCAGTC
1 TCAAAGCAGTC
16352 GATGGCTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (19 bp):
TCAAAGCAGTCCCATTTAT
Found at i:16438 original size:2 final size:2
Alignment explanation
Indices: 16431--16476 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
16421 ATCTATTGTA
16431 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16473 AT AT
1 AT AT
16477 TTAAAGTCAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20071 original size:24 final size:23
Alignment explanation
Indices: 20035--20111 Score: 79
Period size: 24 Copynumber: 3.4 Consensus size: 23
20025 ATTTTTTCCG
**
20035 AAAATA-AAAATATTTTAAATTT
1 AAAATATAAAATATTCAAAATTT
20057 AAAATATAGAAATATTCAAAATTT
1 AAAATATA-AAATATTCAAAATTT
* * *
20081 TAAATATAAAA-ATTAAAAATTA
1 AAAATATAAAATATTCAAAATTT
20103 AAAAT-TAAA
1 AAAATATAAA
20112 TTTCTGTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
21 4 0.09
22 19 0.40
23 4 0.09
24 20 0.43
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (23 bp):
AAAATATAAAATATTCAAAATTT
Found at i:20098 original size:6 final size:7
Alignment explanation
Indices: 20082--20111 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
20072 TCAAAATTTT
20082 AAATATAA
1 AAAT-TAA
20090 AAATTAA
1 AAATTAA
20097 AAATTAA
1 AAATTAA
20104 AAATTAA
1 AAATTAA
20111 A
1 A
20112 TTTCTGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATTAA
Found at i:20539 original size:21 final size:20
Alignment explanation
Indices: 20515--20583 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
20505 GCTTTTGGTA
20515 TTTTAAATATATATTTTACAT
1 TTTTAAATATATATTTTA-AT
* *
20536 TTTT-AGTATTTTATTTTAAT
1 TTTTAAATA-TATATTTTAAT
*
20556 TTTTATATATAT-TTTTATAT
1 TTTTAAATATATATTTTA-AT
*
20576 TTTAAAAT
1 TTTTAAAT
20584 TAAAATATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
19 5 0.13
20 19 0.50
21 14 0.37
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (20 bp):
TTTTAAATATATATTTTAAT
Found at i:21188 original size:30 final size:31
Alignment explanation
Indices: 21133--21190 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
21123 CAGAGCGGTC
*
21133 AAATTGAGATTTTATCTAAAATTTAAGGGTT
1 AAATTGAGATTTTATATAAAATTTAAGGGTT
* *
21164 AAATTGATATTTTATAT-GAATTTAAGG
1 AAATTGAGATTTTATATAAAATTTAAGG
21191 TCAAACTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.43
Consensus pattern (31 bp):
AAATTGAGATTTTATATAAAATTTAAGGGTT
Found at i:22498 original size:228 final size:222
Alignment explanation
Indices: 22101--22544 Score: 746
Period size: 228 Copynumber: 2.0 Consensus size: 222
22091 GTAAATTATC
* *
22101 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATTTATTATTATCTTTAGTTA
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATTTATTATTATATTTAGTTA
*
22166 ATATTGTTAAATTTAAAATCTAAATATATTTTATAAAATATCAAAACAATCAATAATTTTTTGTG
66 ATATTGTTAAATTTAAAATCTAAATATATTTTATAAAATATCAAAACAATCAATAATATTTTGTG
22231 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
131 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
22296 ATAAATTACATAACTTTCAAAAAGTATA
196 ATAAATTACATAACTTT-AAAAAGTATA
*
22324 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TG-AAA-ATATTTATTATTATATTTAG
*
22389 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA-ATATAAT
63 TTAATATTGTTAAATTTAAAATCTAAAT-ATATTTTATAAAATATCAAAACAATCAATA-AT-AT
* * *
22453 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAAATAAAT
125 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
22518 TGAAACATAAATTACATAACTTTAAAA
190 TGAAACATAAATTACATAACTTTAAAA
22545 GCAGTTTTAA
Statistics
Matches: 207, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
223 36 0.17
224 2 0.01
225 3 0.01
226 46 0.22
227 34 0.16
228 86 0.42
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (222 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATTTATTATTATATTTAGTTA
ATATTGTTAAATTTAAAATCTAAATATATTTTATAAAATATCAAAACAATCAATAATATTTTGTG
TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
ATAAATTACATAACTTTAAAAAGTATA
Found at i:22633 original size:20 final size:19
Alignment explanation
Indices: 22610--22655 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
22600 CGATATACCA
22610 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
22630 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
22650 GGTAAA
1 GGTAAA
22656 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:25098 original size:21 final size:21
Alignment explanation
Indices: 25051--25115 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
25041 AAGACAATCA
* *
25051 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
25073 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
25093 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
25114 AG
1 AG
25116 GAATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:25191 original size:33 final size:33
Alignment explanation
Indices: 25149--25214 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
25139 AAATAGATGG
*
25149 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
25182 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
25215 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:26843 original size:183 final size:183
Alignment explanation
Indices: 26535--27080 Score: 1092
Period size: 183 Copynumber: 3.0 Consensus size: 183
26525 ATTCTAATAT
26535 TGTAATAGATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTAC
1 TGTAATAGATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTAC
26600 AACCTTTATCGACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGT
66 AACCTTTATCGACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGT
26665 CGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAA
131 CGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAA
26718 TGTAATAGATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTAC
1 TGTAATAGATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTAC
26783 AACCTTTATCGACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGT
66 AACCTTTATCGACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGT
26848 CGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAA
131 CGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAA
26901 TGTAATAGATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTAC
1 TGTAATAGATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTAC
26966 AACCTTTATCGACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGT
66 AACCTTTATCGACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGT
27031 CGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTA
131 CGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTA
27081 AGGTTATCTT
Statistics
Matches: 363, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 363 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (183 bp):
TGTAATAGATAATTTTGTAATATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTAC
AACCTTTATCGACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGT
CGATACCATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAA
Found at i:30213 original size:23 final size:23
Alignment explanation
Indices: 30182--30244 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
30172 ATAGGTAAAC
*
30182 ATATGATGTAATAGGTACCCCTT
1 ATATAATGTAATAGGTACCCCTT
* **
30205 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTACCCCTT
30228 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
30245 GTGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTACCCCTT
Found at i:30252 original size:23 final size:23
Alignment explanation
Indices: 30182--30254 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
30172 ATAGGTAAAC
* * **
30182 ATATGATGTAATAGGTACCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
30205 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
30228 ATATAATGTAATAGGTAGT-GGTT
1 ATATAATGTAATAGGTA-TCGGTT
30251 ATAT
1 ATAT
30255 TATAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 43 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:30279 original size:20 final size:21
Alignment explanation
Indices: 30254--30296 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
30244 AGTGGTTATA
* *
30254 TTAT-AAAGTGTCTATCCTTT
1 TTATAAAAGTGTCCATACTTT
30274 TTATAAAAGTGTCCATACTTT
1 TTATAAAAGTGTCCATACTTT
30295 TT
1 TT
30297 TCACTGTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (21 bp):
TTATAAAAGTGTCCATACTTT
Found at i:30644 original size:23 final size:23
Alignment explanation
Indices: 30613--30675 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
30603 ATAGGTAAAC
*
30613 ATATGATGTAATAGGTACCCCTT
1 ATATAATGTAATAGGTACCCCTT
* **
30636 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTACCCCTT
30659 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
30676 GTGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTACCCCTT
Found at i:30683 original size:23 final size:23
Alignment explanation
Indices: 30613--30685 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
30603 ATAGGTAAAC
* * **
30613 ATATGATGTAATAGGTACCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
30636 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
30659 ATATAATGTAATAGGTAGT-GGTT
1 ATATAATGTAATAGGTA-TCGGTT
30682 ATAT
1 ATAT
30686 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 43 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:31072 original size:23 final size:23
Alignment explanation
Indices: 31041--31103 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
31031 ATAGTTAAAC
*
31041 ATATGATGTAATAGGTACCCCTT
1 ATATAATGTAATAGGTACCCCTT
* **
31064 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTACCCCTT
31087 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
31104 GTGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTACCCCTT
Found at i:31111 original size:23 final size:23
Alignment explanation
Indices: 31041--31113 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
31031 ATAGTTAAAC
* * **
31041 ATATGATGTAATAGGTACCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
31064 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
31087 ATATAATGTAATAGGTAGT-GGTT
1 ATATAATGTAATAGGTA-TCGGTT
31110 ATAT
1 ATAT
31114 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 43 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:31189 original size:428 final size:431
Alignment explanation
Indices: 30083--31350 Score: 2416
Period size: 431 Copynumber: 2.9 Consensus size: 431
30073 AATTCGCAGT
30083 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
*
30148 AAAAGTATAGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTACCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTACCCCTTATATAATG
*
30213 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTATAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
30278 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
*
30343 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTCTTACGTTACGATATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATT
30408 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
*
30473 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAAGTGGAAAACATGAA
30514 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
30579 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTACCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTACCCCTTATATAATG
30644 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
30709 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
*
30774 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATT
30839 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
30904 AATGAAATTATTAAATCAATATTGTAAGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAAGTGGAAAACATGAA
30945 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCC-TTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
*
31007 AAAAGTATGGACACTTTCAATATAATAGTTAAACATATGATGTAATAGGTACCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTACCCCTTATATAATG
*
31072 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
31137 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
*
31202 AAGATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATT
* *
31267 ATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
31332 AATGAAATTATTAAATCAA
391 AATGAAATTATTAAATCAA
31351 ATAATTCAAA
Statistics
Matches: 825, Mismatches: 12, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
428 345 0.42
429 16 0.02
430 31 0.04
431 433 0.52
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (431 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTACCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATT
ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATCAATATTGTAAGTGGAAAACATGAA
Found at i:31416 original size:25 final size:25
Alignment explanation
Indices: 31382--31432 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
31372 ACAACAAATC
*
31382 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
31407 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
31432 A
1 A
31433 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:31702 original size:18 final size:18
Alignment explanation
Indices: 31681--31717 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
31671 GTAATTGGAG
31681 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
31699 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
31717 T
1 T
31718 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:31725 original size:24 final size:24
Alignment explanation
Indices: 31673--31719 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
31663 TTTCATATGT
* *
31673 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
31697 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
31720 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:32019 original size:39 final size:39
Alignment explanation
Indices: 31976--32101 Score: 234
Period size: 39 Copynumber: 3.2 Consensus size: 39
31966 TCCGATGCTC
* *
31976 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
32015 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
32054 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
32093 ATCAAAATC
1 ATCAAAATC
32102 TACAACTTGA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
Found at i:32536 original size:23 final size:23
Alignment explanation
Indices: 32505--32568 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
32495 ATAGGTAAAC
*
32505 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
32528 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
32551 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
32569 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:32575 original size:23 final size:23
Alignment explanation
Indices: 32505--32577 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
32495 ATAGGTAAAC
* **
32505 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
32528 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
32551 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
32574 ATAT
1 ATAT
32578 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:39603 original size:21 final size:20
Alignment explanation
Indices: 39566--39604 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39556 TAAAAACATT
* *
39566 TTTTTTAAAATATTTTTATC
1 TTTTATAAAATAATTTTATC
39586 TTTTATAAAATAAATTTTA
1 TTTTATAAAAT-AATTTTA
39605 AAAAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTATAAAATAATTTTATC
Found at i:39953 original size:18 final size:18
Alignment explanation
Indices: 39930--39971 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
39920 CCAAAAACTC
*
39930 AATAAAACATTTTCCTAT
1 AATAAAACATCTTCCTAT
39948 AATAAAACATCTTCCTAT
1 AATAAAACATCTTCCTAT
39966 AATAAA
1 AATAAA
39972 GATTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAAACATCTTCCTAT
Found at i:40543 original size:19 final size:19
Alignment explanation
Indices: 40501--40543 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
40491 TTAATTTAAG
*
40501 ATTATAATTATAAATTTTT
1 ATTATAATTATAAATTATT
40520 ATTATAATTATAAATATATT
1 ATTATAATTATAAAT-TATT
40540 -TTAT
1 ATTAT
40544 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATAATTATAAATTATT
Found at i:40546 original size:27 final size:28
Alignment explanation
Indices: 40516--40570 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
40506 AATTATAAAT
* *
40516 TTTTATTATAATTAT-AAATATATTTTA
1 TTTTAATAAAATTATAAAATATATTTTA
40543 TTTTAATAAAATTATAAAAATATATTTT
1 TTTTAATAAAATTAT-AAAATATATTTT
40571 CGAAAAGAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.54
29 11 0.46
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTTAATAAAATTATAAAATATATTTTA
Found at i:44442 original size:60 final size:60
Alignment explanation
Indices: 44376--44506 Score: 172
Period size: 60 Copynumber: 2.2 Consensus size: 60
44366 TATGATCTTA
* ** * *
44376 ATTTTAAATTAATCATTAAACTTTTGAATGTTTTAATTTTATCCCTAAACTATGACCATC
1 ATTTTAAATTAATCATTAAACTTTTAAACATTTCAATTTCATCCCTAAACTATGACCATC
* * **
44436 ATTTTAAATTAGTCCTTAAACTTTTAAACATTTCAATTTCATCCCTAAACTATGACTTTC
1 ATTTTAAATTAATCATTAAACTTTTAAACATTTCAATTTCATCCCTAAACTATGACCATC
*
44496 ATTCTAAATTA
1 ATTTTAAATTA
44507 TTCCCCAAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (60 bp):
ATTTTAAATTAATCATTAAACTTTTAAACATTTCAATTTCATCCCTAAACTATGACCATC
Found at i:44546 original size:60 final size:59
Alignment explanation
Indices: 44393--44548 Score: 170
Period size: 60 Copynumber: 2.6 Consensus size: 59
44383 ATTAATCATT
* * * **
44393 AAACTTTTGAATGTTTTAATTTTATCCCTAAACTATGACCATCATTTTAAATTAGTCCTT
1 AAACTTTTGAAT-ATTTAATTTCATCCCTAAACTATGACCATCATTCTAAATTAGTCCCC
* * ** *
44453 AAACTTTTAAACATTTCAATTTCATCCCTAAACTATGACTTTCATTCTAAATTATTCCCC
1 AAACTTTTGAATATTT-AATTTCATCCCTAAACTATGACCATCATTCTAAATTAGTCCCC
*
44513 AAACTTTTTGAATATTATAGTTTCATCCC-AAACTAT
1 AAAC-TTTTGAATATT-TAATTTCATCCCTAAACTAT
44549 ACGTATAAAC
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
59 3 0.04
60 57 0.71
61 19 0.24
62 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.42
Consensus pattern (59 bp):
AAACTTTTGAATATTTAATTTCATCCCTAAACTATGACCATCATTCTAAATTAGTCCCC
Found at i:47549 original size:78 final size:78
Alignment explanation
Indices: 47420--47580 Score: 277
Period size: 78 Copynumber: 2.1 Consensus size: 78
47410 AAGTCTAAGC
47420 TTTTTAATAGTAATATACTTGACAAGTCTGCTATCCTACAGTTGTTCACAGGGTGATTTTTTCTT
1 TTTTTAATAGTAATATACTTGACAAGTCTGCTATCCTACAGTTGTTCACAGGGTGATTTTTTCTT
47485 CTTCTAATTTCAT
66 CTTCTAATTTCAT
* * * *
47498 TTTTTAATAGTAATATATTTGACAAGTCTGTTATCCTAGAGTTGTTCACAGGGTGATTTTTTTTT
1 TTTTTAATAGTAATATACTTGACAAGTCTGCTATCCTACAGTTGTTCACAGGGTGATTTTTTCTT
*
47563 CTTCTAATTTGAT
66 CTTCTAATTTCAT
47576 TTTTT
1 TTTTT
47581 CCTCGATAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.24, C:0.13, G:0.14, T:0.50
Consensus pattern (78 bp):
TTTTTAATAGTAATATACTTGACAAGTCTGCTATCCTACAGTTGTTCACAGGGTGATTTTTTCTT
CTTCTAATTTCAT
Found at i:51393 original size:18 final size:19
Alignment explanation
Indices: 51352--51390 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
51342 AATATTAAAA
* *
51352 TTAAAATCTAATTATTTTT
1 TTAAAATATAAATATTTTT
51371 TTAAAATATAAATATTTTT
1 TTAAAATATAAATATTTTT
51390 T
1 T
51391 AAATAAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAAAATATAAATATTTTT
Found at i:51636 original size:14 final size:14
Alignment explanation
Indices: 51617--51645 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51607 TAACTAAAAC
51617 TCATTTTCTGAATT
1 TCATTTTCTGAATT
51631 TCATTTTCTGAATT
1 TCATTTTCTGAATT
51645 T
1 T
51646 GAATAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (14 bp):
TCATTTTCTGAATT
Found at i:53893 original size:32 final size:32
Alignment explanation
Indices: 53853--53918 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
53843 AATTTCTAAC
*
53853 CTTTCAATGTTTCAGATTTAACCTAAGCTGCA
1 CTTTCAATGTTTCAAATTTAACCTAAGCTGCA
53885 CTTTCAATGTTTCAAATTTAACCTAAGCTGCA
1 CTTTCAATGTTTCAAATTTAACCTAAGCTGCA
53917 CT
1 CT
53919 CTATAAGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (32 bp):
CTTTCAATGTTTCAAATTTAACCTAAGCTGCA
Found at i:56710 original size:28 final size:28
Alignment explanation
Indices: 56625--56715 Score: 92
Period size: 29 Copynumber: 3.2 Consensus size: 28
56615 AAATTGGTCA
*
56625 TTAAACTTTTGAATATTCTAATTTCATCC
1 TTAAA-TTTTGAACATTCTAATTTCATCC
* * * * *
56654 TTAAAATATGACTCATTCTAAATTAATCC
1 TTAAATTTTGA-ACATTCTAATTTCATCC
*
56683 TTAAATTTTTAACATTCTAATTTCATCC
1 TTAAATTTTGAACATTCTAATTTCATCC
*
56711 ATAAA
1 TTAAA
56716 CTATGGTATT
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
28 22 0.46
29 26 0.54
ACGTcount: A:0.37, C:0.16, G:0.02, T:0.44
Consensus pattern (28 bp):
TTAAATTTTGAACATTCTAATTTCATCC
Found at i:57130 original size:60 final size:59
Alignment explanation
Indices: 56976--57130 Score: 163
Period size: 60 Copynumber: 2.6 Consensus size: 59
56966 AGAATGTTCA
* * * *
56976 AAAAGTTTGGGGACCAATTTAGAATGAAGGTCATAGTTAGGGAATAAAATTGTAATATTT
1 AAAAGTTT-GAGACCAATTTAAAATTAAGGTCATAGTTAAGGAATAAAATTGTAATATTT
* * *
57036 AAAAGTCTGAGAACTAATTT-AAATTGATA-ATCATAGTTTAAGG-ATAAAATTGTAATATTT
1 AAAAGTTTGAG-ACCAATTTAAAATT-A-AGGTCATAG-TTAAGGAATAAAATTGTAATATTT
*
57096 AAAAGTTTAGAGACCATTTTAAAATTAAGGTCATA
1 AAAAGTTT-GAGACCAATTTAAAATTAAGGTCATA
57131 CCTTGAATAC
Statistics
Matches: 77, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
59 6 0.08
60 57 0.74
61 14 0.18
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (59 bp):
AAAAGTTTGAGACCAATTTAAAATTAAGGTCATAGTTAAGGAATAAAATTGTAATATTT
Done.