Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2308
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: 385994
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
File 1 of 3
Found at i:2828 original size:32 final size:31
Alignment explanation
Indices: 2768--2874 Score: 105
Period size: 32 Copynumber: 3.4 Consensus size: 31
2758 GGATTTGATT
*
2768 ATATAATATAA-A-T-AAATATAAAAAATTTA
1 ATATAATATAATACTAAAATAT-TAAAATTTA
2797 ATATGAATATAATACTAAAATATTAAAATTT-
1 ATAT-AATATAATACTAAAATATTAAAATTTA
* *
2828 ATATAATATAAATTATTAATATATTAAAATTTA
1 ATATAATAT-AA-TACTAAAATATTAAAATTTA
*
2861 AAATACATATAATA
1 ATATA-ATATAATA
2875 TTTTAAAAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 13
0.80 0.05 0.16
Matches are distributed among these distances:
29 4 0.06
30 12 0.18
31 7 0.11
32 27 0.41
33 12 0.18
34 4 0.06
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (31 bp):
ATATAATATAATACTAAAATATTAAAATTTA
Found at i:2863 original size:7 final size:8
Alignment explanation
Indices: 2807--2865 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
2797 ATATGAATAT
*
2807 AATACTAA
1 AATATTAA
2815 AATATTAA
1 AATATTAA
2823 AAT-TTATA
1 AATATTA-A
2831 TAATA-TAA
1 -AATATTAA
*
2839 ATTATTAA
1 AATATTAA
*
2847 TATATTAA
1 AATATTAA
2855 AAT-TTAA
1 AATATTAA
2862 AATA
1 AATA
2866 CATATAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
7 13 0.32
8 23 0.56
9 5 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (8 bp):
AATATTAA
Found at i:3773 original size:16 final size:16
Alignment explanation
Indices: 3734--3764 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3724 TAAAAAAATT
*
3734 AAATTAAATAAATATC
1 AAATAAAATAAATATC
3750 AAATAAAATAAATAT
1 AAATAAAATAAATAT
3765 TTAATAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAAATAAATATC
Found at i:7778 original size:28 final size:29
Alignment explanation
Indices: 7735--7798 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
7725 TGAATAAATT
* *
7735 AAAATATTTAACTATTTATTAAATATAAA
1 AAAATATTTAACTATTAAATAAATATAAA
* * *
7764 AAAAT-TTTAATTATTAAATATATATTAA
1 AAAATATTTAACTATTAAATAAATATAAA
7792 AAAATAT
1 AAAATAT
7799 AATATTCTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (29 bp):
AAAATATTTAACTATTAAATAAATATAAA
Found at i:9691 original size:18 final size:18
Alignment explanation
Indices: 9668--9703 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9658 AACAATTTAC
9668 CAAAAAAAAAAACAAAAA
1 CAAAAAAAAAAACAAAAA
* *
9686 CAAAAAAAGAAAGAAAAA
1 CAAAAAAAAAAACAAAAA
9704 AATTTGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (18 bp):
CAAAAAAAAAAACAAAAA
Found at i:18320 original size:7 final size:7
Alignment explanation
Indices: 18305--18334 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
18295 TTAATAAAAA
18305 TTTATTAT
1 TTTA-TAT
18313 TTTATAT
1 TTTATAT
18320 TTTATAT
1 TTTATAT
18327 TTTATAT
1 TTTATAT
18334 T
1 T
18335 ACAAAATTAA
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATAT
Found at i:18365 original size:17 final size:17
Alignment explanation
Indices: 18340--18378 Score: 64
Period size: 15 Copynumber: 2.4 Consensus size: 17
18330 ATATTACAAA
18340 ATTAAATATAT-TTT-T
1 ATTAAATATATATTTAT
18355 ATTAAATATATATTTAT
1 ATTAAATATATATTTAT
18372 ATTAAAT
1 ATTAAAT
18379 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 11 0.50
16 3 0.14
17 8 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTAAATATATATTTAT
Found at i:19044 original size:19 final size:18
Alignment explanation
Indices: 19022--19074 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
19012 ATATTTTTAT
19022 TTAAATTACATATTTAAAA
1 TTAAATTACA-ATTTAAAA
*
19041 TTAAATATA-AATTTTAAA
1 TTAAAT-TACAATTTAAAA
* *
19059 TTAATTTACAAATTAA
1 TTAAATTACAATTTAA
19075 TTATTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 2 0.07
18 17 0.61
19 7 0.25
20 2 0.07
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAATTACAATTTAAAA
Found at i:19140 original size:82 final size:78
Alignment explanation
Indices: 19038--19200 Score: 220
Period size: 78 Copynumber: 2.0 Consensus size: 78
19028 TACATATTTA
* * *
19038 AAATTAAATATAAATTTTAAATTAATTTACAAATTAATTATTTT-AAATATATTATTTAAAAATA
1 AAATTAAATATAAATATTAAATCAA-TT--AAATTAATT-TTTTAAAATAAATTATTT-AAAATA
*
19102 AAAAATAATAAATTAAAT
61 AAAAATAATAAATAAAAT
*
19120 AAATTAAATATAAATATTAAATCAATTAAATTAATTTTTTAAAATAAATTATTTAAAATAAAAAT
1 AAATTAAATATAAATATTAAATCAATTAAATTAATTTTTTAAAATAAATTATTTAAAATAAAAAA
*
19185 TAATTAATAAAAT
66 TAATAAATAAAAT
19198 AAA
1 AAA
19201 ATTTTAAGAA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
78 28 0.38
79 21 0.28
81 2 0.03
82 23 0.31
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (78 bp):
AAATTAAATATAAATATTAAATCAATTAAATTAATTTTTTAAAATAAATTATTTAAAATAAAAAA
TAATAAATAAAAT
Found at i:19164 original size:14 final size:14
Alignment explanation
Indices: 19147--19181 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
19137 TAAATCAATT
* *
19147 AAATTAATTTTTTA
1 AAATAAATTATTTA
19161 AAATAAATTATTTA
1 AAATAAATTATTTA
19175 AAATAAA
1 AAATAAA
19182 AATTAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:19189 original size:20 final size:19
Alignment explanation
Indices: 19160--19201 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19150 TTAATTTTTT
*
19160 AAAATAAATTATTTAAAATA
1 AAAATAAATTA-ATAAAATA
*
19180 AAAATTAATTAATAAAATA
1 AAAATAAATTAATAAAATA
19199 AAA
1 AAA
19202 TTTTAAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATAAATTAATAAAATA
Found at i:19203 original size:79 final size:82
Alignment explanation
Indices: 19036--19203 Score: 229
Period size: 79 Copynumber: 2.1 Consensus size: 82
19026 ATTACATATT
* * *
19036 TAAAATTAAATATAAATTTTAAATTAATTTACAAATTAATTATTTTAAATATATTATTTAAAAAT
1 TAAAATTAAATATAAATATTAAATCAATTTA-AAATTAATTATTTTAAATAAATTATTTAAAAAT
*
19101 AAAAAATAATAAATTAAA
65 AAAAAATAATAAATAAAA
19119 T-AAATTAAATATAAATATTAAATCAA-TT-AAATTAATT-TTTTAAAATAAATTATTT-AAAAT
1 TAAAATTAAATATAAATATTAAATCAATTTAAAATTAATTATTTT-AAATAAATTATTTAAAAAT
* *
19179 AAAAATTAATTAATAAAA
65 AAAAAATAATAAATAAAA
19197 TAAAATT
1 TAAAATT
19204 TTAAGAATAG
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
78 25 0.32
79 26 0.34
81 2 0.03
82 23 0.30
83 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (82 bp):
TAAAATTAAATATAAATATTAAATCAATTTAAAATTAATTATTTTAAATAAATTATTTAAAAATA
AAAAATAATAAATAAAA
Found at i:19650 original size:19 final size:19
Alignment explanation
Indices: 19606--19651 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19596 ATTGATAAAT
* *
19606 GTAAAATGTTAATATATAA
1 GTAAAATATTAATAAATAA
* *
19625 TTTAAATATTAATAAATAA
1 GTAAAATATTAATAAATAA
19644 GTAAAATA
1 GTAAAATA
19652 AAAAATAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (19 bp):
GTAAAATATTAATAAATAA
Found at i:24038 original size:16 final size:15
Alignment explanation
Indices: 24019--24053 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
24009 TTATTAAATT
24019 TTTAGTTTAAATAAAA
1 TTTAGTTTAAA-AAAA
*
24035 TTTATTTTAAAAAAA
1 TTTAGTTTAAAAAAA
24050 TTTA
1 TTTA
24054 TTAAAGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
TTTAGTTTAAAAAAA
Found at i:24051 original size:15 final size:16
Alignment explanation
Indices: 24019--24055 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
24009 TTATTAAATT
*
24019 TTTAGTTTAAATAAAA
1 TTTATTTTAAATAAAA
24035 TTTATTTTAAA-AAAA
1 TTTATTTTAAATAAAA
24050 TTTATT
1 TTTATT
24056 AAAGAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTATTTTAAATAAAA
Found at i:24140 original size:32 final size:32
Alignment explanation
Indices: 24098--24165 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
24088 ATTAAAAAAA
24098 TTTTTATTAAAAAATTAGTTTAATGG-TTTGAT
1 TTTTTATTAAAAAATTAGTTTAATGGCTTT-AT
* *
24130 TTTTTTTTAAAAAATTATTTTAATGGCTTTAT
1 TTTTTATTAAAAAATTAGTTTAATGGCTTTAT
24162 TTTT
1 TTTT
24166 AATATGCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 30 0.91
33 3 0.09
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.59
Consensus pattern (32 bp):
TTTTTATTAAAAAATTAGTTTAATGGCTTTAT
Found at i:24666 original size:28 final size:28
Alignment explanation
Indices: 24611--24709 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
24601 TTTGATAATT
*
24611 TTATATATAATATAAATAA-AT-TATAAA
1 TTATATATAATATAAA-AATATATAAAAA
*
24638 TTATGATATGATATAAAAATA-ATAAAAA
1 TTAT-ATATAATATAAAAATATATAAAAA
* * * *
24666 TAATTTAAAATAAAAAAATATATAAAAA
1 TTATATATAATATAAAAATATATAAAAA
*
24694 TTTTATATAATATAAA
1 TTATATATAATATAAA
24710 TTATTAATTT
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
27 18 0.32
28 38 0.68
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (28 bp):
TTATATATAATATAAAAATATATAAAAA
Found at i:24675 original size:10 final size:9
Alignment explanation
Indices: 24650--24694 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 9
24640 ATGATATGAT
24650 ATAAAAATA
1 ATAAAAATA
24659 ATAAAAATA
1 ATAAAAATA
*
24668 ATTTAAAATA
1 A-TAAAAATA
24678 A-AAAAATA
1 ATAAAAATA
24686 TATAAAAAT
1 -ATAAAAAT
24695 TTTATATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 6 0.19
9 11 0.35
10 14 0.45
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
ATAAAAATA
Found at i:24703 original size:25 final size:25
Alignment explanation
Indices: 24648--24741 Score: 63
Period size: 25 Copynumber: 3.8 Consensus size: 25
24638 TTATGATATG
24648 ATATAAAAATAATAAAAATAATTTA
1 ATATAAAAATAATAAAAATAATTTA
* *
24673 AAATAAAAA-AATATATAAA-AATTTT
1 ATATAAAAATAATA-A-AAATAATTTA
* ** *
24698 ATAT-AATATAA-ATTATTAATTTA
1 ATATAAAAATAATAAAAATAATTTA
*
24721 A-ATAAAAATATATAAATATAA
1 ATATAAAAATA-ATAAAAATAA
24742 AACACCAACC
Statistics
Matches: 49, Mismatches: 13, Indels: 14
0.64 0.17 0.18
Matches are distributed among these distances:
22 3 0.06
23 11 0.22
24 9 0.18
25 23 0.47
26 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
ATATAAAAATAATAAAAATAATTTA
Found at i:25131 original size:18 final size:18
Alignment explanation
Indices: 25108--25145 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
25098 GGTTTGAAAG
25108 AAGAAAATTCAATAAAAA
1 AAGAAAATTCAATAAAAA
25126 AAGAAAATTCAATAAAAA
1 AAGAAAATTCAATAAAAA
25144 AA
1 AA
25146 AGGTAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
AAGAAAATTCAATAAAAA
Found at i:26000 original size:15 final size:16
Alignment explanation
Indices: 25980--26016 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
25970 TATAAAATTA
25980 AAATATATTT-TTATT
1 AAATATATTTATTATT
25995 AAATATATTTATTATT
1 AAATATATTTATTATT
*
26011 TAATAT
1 AAATAT
26017 TCACTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATATATTTATTATT
Found at i:27504 original size:20 final size:20
Alignment explanation
Indices: 27479--27516 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27469 ACTATTGTTT
**
27479 TTTTAATTTTTATTTCTTAA
1 TTTTAATTAATATTTCTTAA
27499 TTTTAATTAATATTTCTT
1 TTTTAATTAATATTTCTT
27517 TATAAGTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTAATTAATATTTCTTAA
Found at i:28321 original size:18 final size:18
Alignment explanation
Indices: 28298--28333 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
28288 GGAAGAAGAA
28298 ATACGACAGAACAAGGGG
1 ATACGACAGAACAAGGGG
28316 ATACGACAGAACAAGGGG
1 ATACGACAGAACAAGGGG
28334 TGTCTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.33, T:0.06
Consensus pattern (18 bp):
ATACGACAGAACAAGGGG
Found at i:33106 original size:162 final size:162
Alignment explanation
Indices: 32839--33289 Score: 767
Period size: 162 Copynumber: 2.8 Consensus size: 162
32829 AGTCTGAAGC
* *
32839 TTGTAGAGATATACAGCTGTAATAATTTGAAATATCTGTTCCCAACGTCTGTTGCTAATAGCCTT
1 TTGTAGAGATAAACAGCTGTAATAATTTGAAATCTCTGTTCCCAACGTCTGTTGCTAATAGCCTT
32904 GGGCAACTGGAAGCACTGAAGATAAAGAGCTGTTTGGGATTGGAAGAAATAATCCAAGCAACGAC
66 GGGCAACTGGAAGCACTGAAGATAAAGAGCTGTTTGGGATTGGAAGAAATAATCCAAGCAACGAC
32969 AGTCTCAGATACATGTCTTCAAAGCCTGAGGG
131 AGTCTCAGATACATGTCTTCAAAGCCTGAGGG
* *
33001 TTGTAGAGATAGAGAGCTGTAATAATTTGAAATCTCTGTTCCCAACGTCTGTTGCTAATAGCCTT
1 TTGTAGAGATAAACAGCTGTAATAATTTGAAATCTCTGTTCCCAACGTCTGTTGCTAATAGCCTT
*
33066 GGGCAACTGCAAGCACTGAAGATAAAGAGCTGTTTGGGATTGGAAGAAATAATCCAAGCAACGAC
66 GGGCAACTGGAAGCACTGAAGATAAAGAGCTGTTTGGGATTGGAAGAAATAATCCAAGCAACGAC
* * * *
33131 AGTCTCGGATACATGTCTTCAGAGCCTGTGGT
131 AGTCTCAGATACATGTCTTCAAAGCCTGAGGG
* * *
33163 TTGTAGTGATAAACAGATGTAATAATTTGAAATCTCTGTTCCCAACGTCTGATGCTAATAGCCTT
1 TTGTAGAGATAAACAGCTGTAATAATTTGAAATCTCTGTTCCCAACGTCTGTTGCTAATAGCCTT
* * *
33228 GGGCAACTGGAAACACTGAAGATAAAGAGCCGTTTGGGATTGGAGGAAATAATCCAAGCAAC
66 GGGCAACTGGAAGCACTGAAGATAAAGAGCTGTTTGGGATTGGAAGAAATAATCCAAGCAAC
33290 AGAAGTGGCT
Statistics
Matches: 272, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
162 272 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (162 bp):
TTGTAGAGATAAACAGCTGTAATAATTTGAAATCTCTGTTCCCAACGTCTGTTGCTAATAGCCTT
GGGCAACTGGAAGCACTGAAGATAAAGAGCTGTTTGGGATTGGAAGAAATAATCCAAGCAACGAC
AGTCTCAGATACATGTCTTCAAAGCCTGAGGG
Found at i:34022 original size:21 final size:21
Alignment explanation
Indices: 33998--34038 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
33988 TAATTAGACT
33998 GATTCAAGGCTCAGTTAGTTC
1 GATTCAAGGCTCAGTTAGTTC
34019 GATTCAAGGCTCAGTTAGTT
1 GATTCAAGGCTCAGTTAGTT
34039 TGTTCAGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
GATTCAAGGCTCAGTTAGTTC
Found at i:37428 original size:10 final size:11
Alignment explanation
Indices: 37405--37437 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
37395 CTCTCATCTC
37405 TTTATTTATTAT
1 TTTA-TTATTAT
37417 TTTATT-TTAT
1 TTTATTATTAT
37427 TTTATTATTAT
1 TTTATTATTAT
37438 CTTCTGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 6 0.30
12 4 0.20
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:41555 original size:7 final size:8
Alignment explanation
Indices: 41538--41565 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
41528 TATTATGTGT
41538 AAAAATAA
1 AAAAATAA
41546 AAAAATAA
1 AAAAATAA
41554 AAAAATAA
1 AAAAATAA
41562 AAAA
1 AAAA
41566 CTTATCTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:45373 original size:21 final size:21
Alignment explanation
Indices: 45331--45374 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
45321 TATTTTTAAA
* *
45331 ATTTTTAAAAATATATTTTTT
1 ATTTTTAAAAATATACTATTT
45352 ATTTTTAAAAA-ATAACTATTT
1 ATTTTTAAAAATAT-ACTATTT
45373 AT
1 AT
45375 CATCCTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTAAAAATATACTATTT
Found at i:53357 original size:24 final size:26
Alignment explanation
Indices: 53306--53363 Score: 93
Period size: 24 Copynumber: 2.3 Consensus size: 26
53296 TTGGTGGCTA
*
53306 GTCAACAAAAGCCACCCTTTGTGTTT
1 GTCAACAAAAGCCACCCTATGTGTTT
53332 GTCAACAAAAGCCA-CC-ATGTGTTT
1 GTCAACAAAAGCCACCCTATGTGTTT
53356 GTCAACAA
1 GTCAACAA
53364 TGGTGGTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 15 0.48
25 2 0.06
26 14 0.45
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (26 bp):
GTCAACAAAAGCCACCCTATGTGTTT
Found at i:53392 original size:27 final size:27
Alignment explanation
Indices: 53353--53418 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
53343 CCACCATGTG
*
53353 TTTGTCAACAATGGTGGTTACTTTGTA
1 TTTGTCAAAAATGGTGGTTACTTTGTA
* * * *
53380 TTTGTAAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAAATGGTGGTTACTTTGTA
53407 TTTGTCAAAAAT
1 TTTGTCAAAAAT
53419 TATGGCTTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTACTTTGTA
Found at i:55883 original size:24 final size:26
Alignment explanation
Indices: 55832--55889 Score: 93
Period size: 24 Copynumber: 2.3 Consensus size: 26
55822 TTGGTGGCTA
*
55832 GTCAACAAAAGCCACCCTTTGTGTTT
1 GTCAACAAAAGCCACCCTATGTGTTT
55858 GTCAACAAAAGCCA-CC-ATGTGTTT
1 GTCAACAAAAGCCACCCTATGTGTTT
55882 GTCAACAA
1 GTCAACAA
55890 TGGTGGTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 15 0.48
25 2 0.06
26 14 0.45
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (26 bp):
GTCAACAAAAGCCACCCTATGTGTTT
Found at i:55918 original size:27 final size:27
Alignment explanation
Indices: 55879--55944 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
55869 CCACCATGTG
*
55879 TTTGTCAACAATGGTGGTTACTTTGTA
1 TTTGTCAAAAATGGTGGTTACTTTGTA
* * *
55906 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAAATGGTGGTTACTTTGTA
55933 TTTGTCAAAAAT
1 TTTGTCAAAAAT
55945 TATGGCTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTACTTTGTA
Found at i:55974 original size:24 final size:24
Alignment explanation
Indices: 55906--55975 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
55896 TTACTTTGTA
* *
55906 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAATTGGTGG---CTTGTTG
*
55933 TTTGTCAAAAATT-ATGGCTTGTTG
1 TTTGTC-AAAATTGGTGGCTTGTTG
55957 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAATTGGTGGCT
55976 AATTTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.16
24 17 0.46
27 9 0.24
28 5 0.14
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAATTGGTGGCTTGTTG
Found at i:58291 original size:2 final size:2
Alignment explanation
Indices: 58284--58320 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
58274 AATTGTTAGC
58284 TA TA TA TA TA 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 TA TA TA TA TA T
58321 GGACAATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:58597 original size:84 final size:84
Alignment explanation
Indices: 58485--58654 Score: 340
Period size: 84 Copynumber: 2.0 Consensus size: 84
58475 TCAATTGAAC
58485 TCCACTTCATTCGATACTAGCACCTATTGTTTTTTAGTATTATAATTGTTACAAGAATTCCAAAC
1 TCCACTTCATTCGATACTAGCACCTATTGTTTTTTAGTATTATAATTGTTACAAGAATTCCAAAC
58550 ATCTTTAAGTTCATTCAAT
66 ATCTTTAAGTTCATTCAAT
58569 TCCACTTCATTCGATACTAGCACCTATTGTTTTTTAGTATTATAATTGTTACAAGAATTCCAAAC
1 TCCACTTCATTCGATACTAGCACCTATTGTTTTTTAGTATTATAATTGTTACAAGAATTCCAAAC
58634 ATCTTTAAGTTCATTCAAT
66 ATCTTTAAGTTCATTCAAT
58653 TC
1 TC
58655 AACAAGTCTC
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (84 bp):
TCCACTTCATTCGATACTAGCACCTATTGTTTTTTAGTATTATAATTGTTACAAGAATTCCAAAC
ATCTTTAAGTTCATTCAAT
Found at i:60365 original size:24 final size:20
Alignment explanation
Indices: 60338--60390 Score: 52
Period size: 24 Copynumber: 2.4 Consensus size: 20
60328 CTGATAATTT
60338 AAATATAATATAAATATCAATAAA
1 AAATATAAT-TAAA-AT--ATAAA
*
60362 AAATTTAATTAAAATATAAA
1 AAATATAATTAAAATATAAA
60382 AACATATAA
1 AA-ATATAA
60391 ATTATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 7 0.27
21 5 0.19
22 2 0.08
23 4 0.15
24 8 0.31
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATATAATTAAAATATAAA
Found at i:60391 original size:30 final size:30
Alignment explanation
Indices: 60333--60391 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
60323 TTAATCTGAT
* *
60333 AATTTAAATATAATATAAATATCAATAAAA
1 AATTTAAATAAAATATAAATAACAATAAAA
*
60363 AATTTAATTAAAATATAAA-AACATATAAA
1 AATTTAAATAAAATATAAATAACA-ATAAA
60392 TTATTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (30 bp):
AATTTAAATAAAATATAAATAACAATAAAA
Found at i:60844 original size:10 final size:10
Alignment explanation
Indices: 60800--60877 Score: 56
Period size: 10 Copynumber: 7.8 Consensus size: 10
60790 GCATAATATT
60800 TTTATTTAAA
1 TTTATTTAAA
60810 --T-TTTAAA
1 TTTATTTAAA
60817 TTT-TTTAAAA
1 TTTATTT-AAA
*
60827 TATGATTTAAA
1 T-TTATTTAAA
*
60838 TTTATTTATA
1 TTTATTTAAA
*
60848 TTTATAAATAAA
1 TTTAT--TTAAA
*
60860 TTTATTTAGA
1 TTTATTTAAA
60870 TTTATTTA
1 TTTATTTA
60878 TAATATTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
7 6 0.11
8 1 0.02
9 4 0.07
10 27 0.50
11 5 0.09
12 11 0.20
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.58
Consensus pattern (10 bp):
TTTATTTAAA
Found at i:60935 original size:16 final size:15
Alignment explanation
Indices: 60909--60950 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
60899 TTATTATTTT
60909 TATTT-AATTTTTAA
1 TATTTAAATTTTTAA
60923 TGATTTAAATTTTTTAA
1 T-ATTTAAA-TTTTTAA
60940 TA-TTAAATTTT
1 TATTTAAATTTT
60951 AAAATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.20
15 9 0.36
16 3 0.12
17 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTTAAATTTTTAA
Found at i:61624 original size:24 final size:24
Alignment explanation
Indices: 61559--61634 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 24
61549 TTCGTATTTA
61559 TTATTTATAAAAA-ATAAAAA-ATAT
1 TTATTT-TAAAAATA-AAAAATATAT
*
61583 TT-TTTTAAGCAATTTAAAAAATATAT
1 TTATTTTAA--AA-ATAAAAAATATAT
61609 TTATTTTAAAAAT-AAAAATAT-T
1 TTATTTTAAAAATAAAAAATATAT
61631 TTAT
1 TTAT
61635 GTTTTTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
22 8 0.18
23 11 0.25
24 5 0.11
25 7 0.16
26 7 0.16
27 6 0.14
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (24 bp):
TTATTTTAAAAATAAAAAATATAT
Found at i:61686 original size:22 final size:21
Alignment explanation
Indices: 61661--61702 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
61651 ATAATGAAAA
61661 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
61681 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
61702 A
1 A
61703 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:64123 original size:56 final size:56
Alignment explanation
Indices: 64037--64147 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 56
64027 AATCCTGGAT
*
64037 CTAACCTGAAACACTCCTTTTCAATGTTATACTCACAAGAACTCCAAATTTTATGA
1 CTAACCTAAAACACTCCTTTTCAATGTTATACTCACAAGAACTCCAAATTTTATGA
*
64093 CTAACCTAAAACACTCCTTTTCAATGTTATACTCACAAGAACTCCAGATTTTATG
1 CTAACCTAAAACACTCCTTTTCAATGTTATACTCACAAGAACTCCAAATTTTATG
64148 GCCATTATGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (56 bp):
CTAACCTAAAACACTCCTTTTCAATGTTATACTCACAAGAACTCCAAATTTTATGA
Found at i:64136 original size:28 final size:28
Alignment explanation
Indices: 64049--64137 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
64039 AACCTGAAAC
64049 ACTCCTTTTCAATGTTATACTCACAAGA
1 ACTCCTTTTCAATGTTATACTCACAAGA
* * * *
64077 ACTCC----AAATTTTATGACTAACCTAAAA
1 ACTCCTTTTCAATGTTAT-ACTCA-C-AAGA
64104 CACTCCTTTTCAATGTTATACTCACAAGA
1 -ACTCCTTTTCAATGTTATACTCACAAGA
64133 ACTCC
1 ACTCC
64138 AGATTTTATG
Statistics
Matches: 45, Mismatches: 8, Indels: 16
0.65 0.12 0.23
Matches are distributed among these distances:
24 7 0.16
25 4 0.09
26 1 0.02
27 3 0.07
28 15 0.33
29 3 0.07
30 1 0.02
31 4 0.09
32 7 0.16
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.33
Consensus pattern (28 bp):
ACTCCTTTTCAATGTTATACTCACAAGA
Found at i:64901 original size:16 final size:17
Alignment explanation
Indices: 64882--64934 Score: 65
Period size: 16 Copynumber: 3.1 Consensus size: 17
64872 ATGTTATTAA
64882 AATATTAT-TTTATATT
1 AATATTATATTTATATT
64898 AATATT-TATTTATATT
1 AATATTATATTTATATT
*
64914 TATATTTATATTTATAATT
1 AATA-TTATATTTAT-ATT
64933 AA
1 AA
64935 ATTCAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 1 0.03
16 17 0.55
17 2 0.06
18 7 0.23
19 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATATTATATTTATATT
Found at i:64913 original size:6 final size:6
Alignment explanation
Indices: 64886--64929 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
64876 TATTAAAATA
*
64886 TTAT-T TTATAT TAATA- TT-TAT TTATAT TTATAT TTATAT TTATA
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATA
64930 ATTAAATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
4 2 0.06
5 7 0.21
6 25 0.74
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATAT
Found at i:65703 original size:2 final size:2
Alignment explanation
Indices: 65696--65726 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
65686 ACATGTGATA
*
65696 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65727 GTTATAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:68510 original size:2 final size:2
Alignment explanation
Indices: 68503--68548 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
68493 TAAATTATCA
68503 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
68545 AT AT
1 AT AT
68549 GAATGTAGAA
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:69854 original size:23 final size:23
Alignment explanation
Indices: 69828--69876 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
69818 AGCATAAAGA
*
69828 AAAGATTTAAGAAATATAAGCCT
1 AAAGATTTAAGAAAGATAAGCCT
* *
69851 AAAGATTTAAGATAGATATGCCT
1 AAAGATTTAAGAAAGATAAGCCT
69874 AAA
1 AAA
69877 TATCTTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (23 bp):
AAAGATTTAAGAAAGATAAGCCT
Found at i:70078 original size:19 final size:18
Alignment explanation
Indices: 70054--70101 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
70044 GATAGATGAC
* *
70054 ATAGAAGTATATGAAACAT
1 ATAGAAGTAGAAGAAA-AT
70073 ATAGAA-TAGAAGAAAAT
1 ATAGAAGTAGAAGAAAAT
*
70090 ATAGAAGAAGAA
1 ATAGAAGTAGAA
70102 ATTTTTAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 8 0.32
18 11 0.44
19 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.19, T:0.19
Consensus pattern (18 bp):
ATAGAAGTAGAAGAAAAT
Found at i:72181 original size:7 final size:7
Alignment explanation
Indices: 72169--72202 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
72159 GGATACAAGA
72169 GAGGGAT
1 GAGGGAT
72176 GAGGGAT
1 GAGGGAT
72183 GAGGGAT
1 GAGGGAT
72190 GAGGGAT
1 GAGGGAT
*
72197 TAGGGA
1 GAGGGA
72203 GCCTCTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GAGGGAT
Found at i:72295 original size:17 final size:17
Alignment explanation
Indices: 72270--72308 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
72260 TTGACAAATA
* * *
72270 ACAAGCCACCATTTTTT
1 ACAAACCACCATATTTG
72287 ACAAACCACCATATTTG
1 ACAAACCACCATATTTG
72304 ACAAA
1 ACAAA
72309 TACAAAGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.28, G:0.05, T:0.26
Consensus pattern (17 bp):
ACAAACCACCATATTTG
Found at i:72333 original size:28 final size:28
Alignment explanation
Indices: 72289--72370 Score: 146
Period size: 28 Copynumber: 2.9 Consensus size: 28
72279 CATTTTTTAC
72289 AAACCACCATATTTGACAAATACAAAGG
1 AAACCACCATATTTGACAAATACAAAGG
* *
72317 AAATCACCATATTTGACAAATATAAAGG
1 AAACCACCATATTTGACAAATACAAAGG
72345 AAACCACCATATTTGACAAATACAAA
1 AAACCACCATATTTGACAAATACAAA
72371 TGGTGGCATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.51, C:0.20, G:0.09, T:0.21
Consensus pattern (28 bp):
AAACCACCATATTTGACAAATACAAAGG
Found at i:74314 original size:21 final size:22
Alignment explanation
Indices: 74276--74321 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
74266 ATCTGTTGAA
* **
74276 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
74297 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
74319 ACT
1 ACT
74322 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:76905 original size:17 final size:17
Alignment explanation
Indices: 76880--76918 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
76870 TTGACAAATA
* * *
76880 ACAAGCCACCATTTTTT
1 ACAAACCACCATATTTG
76897 ACAAACCACCATATTTG
1 ACAAACCACCATATTTG
76914 ACAAA
1 ACAAA
76919 TACAAAGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.28, G:0.05, T:0.26
Consensus pattern (17 bp):
ACAAACCACCATATTTG
Found at i:76943 original size:28 final size:28
Alignment explanation
Indices: 76899--76980 Score: 146
Period size: 28 Copynumber: 2.9 Consensus size: 28
76889 CATTTTTTAC
76899 AAACCACCATATTTGACAAATACAAAGG
1 AAACCACCATATTTGACAAATACAAAGG
* *
76927 AAATCACCATATTTGACAAATATAAAGG
1 AAACCACCATATTTGACAAATACAAAGG
76955 AAACCACCATATTTGACAAATACAAA
1 AAACCACCATATTTGACAAATACAAA
76981 TAGTGGCATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.51, C:0.20, G:0.09, T:0.21
Consensus pattern (28 bp):
AAACCACCATATTTGACAAATACAAAGG
Found at i:79299 original size:17 final size:17
Alignment explanation
Indices: 79277--79320 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
79267 TAAAATTAAC
79277 ATATATTTTTA-TCAAAT
1 ATATATTTTTATTC-AAT
*
79294 ATATATTTATATTCAAT
1 ATATATTTTTATTCAAT
*
79311 ATTTATTTTT
1 ATATATTTTT
79321 GAATTCTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATATTTTTATTCAAT
Found at i:85011 original size:2 final size:2
Alignment explanation
Indices: 85006--85030 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
84996 TTTTTATCAT
85006 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 T
85031 TATTGGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85547 original size:12 final size:12
Alignment explanation
Indices: 85530--85568 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
85520 ATTTGAGATG
85530 AATATAGTTTTA
1 AATATAGTTTTA
*
85542 AATATAGTTTAGA
1 AATATAGTTT-TA
*
85555 AATATAATTTTA
1 AATATAGTTTTA
85567 AA
1 AA
85569 GATAATCATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
AATATAGTTTTA
Found at i:85640 original size:24 final size:21
Alignment explanation
Indices: 85596--85644 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
85586 ATTATTAAAA
*
85596 TTTTTAAAAATAATTTTTTAT
1 TTTTTAAAAATAATTTATTAT
85617 TTTTTAAAAATAATAATTGATTAT
1 TTTTTAAAAATAAT--TT-ATTAT
85641 TTTT
1 TTTT
85645 AATTCTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 14 0.58
23 2 0.08
24 8 0.33
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTTAAAAATAATTTATTAT
Found at i:90344 original size:162 final size:161
Alignment explanation
Indices: 90068--90367 Score: 392
Period size: 162 Copynumber: 1.9 Consensus size: 161
90058 CTTCCAAAGT
* * *
90068 CTGAAGGTTGTAGAAATATACGGATGCAATCATTTGAGATATCTCTTCCCAATATTTGTTGCACA
1 CTGAAGGTTGTAGAAATAGACAGATGCAATCAATTGAGATATCTCTTCCC-ATATTTGTTGCACA
* * * *
90133 TAGCCTTGGGCAACTGGAATCCCTAAATATAAAGAACTGCTTAGGATTGGAAGAGATAATCCAAG
65 TAGCCTTGGCCAACTGGAATCACTAAAGATAAAGAACTGCTTAGGATTGGAAGAAATAATCCAAG
90198 CAACGACAGTGTCTGACATAAGTCTCCAAAAC
130 CAACGACAGTGTCTGACATAAGTCTCCAAAAC
* * *
90230 CTGAAGGTTGTAGAAATAGACAGCTGTAA-CAAATTGAGATATGTCTTCCC-TATTTCCGTTGCT
1 CTGAAGGTTGTAGAAATAGACAGATGCAATC-AATTGAGATATCTCTTCCCATATTT--GTTGC-
** * *
90293 A-ATAGCCTTGGCCATTTGGAATCACTAAAGATAAA-AAGCTGCTTGGGATTGGAAGAAATAATT
62 ACATAGCCTTGGCCAACTGGAATCACTAAAGATAAAGAA-CTGCTTAGGATTGGAAGAAATAATC
90356 CAAGCAACGACA
126 CAAGCAACGACA
90368 ACGTCAGGTG
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
160 5 0.04
161 3 0.03
162 110 0.92
163 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (161 bp):
CTGAAGGTTGTAGAAATAGACAGATGCAATCAATTGAGATATCTCTTCCCATATTTGTTGCACAT
AGCCTTGGCCAACTGGAATCACTAAAGATAAAGAACTGCTTAGGATTGGAAGAAATAATCCAAGC
AACGACAGTGTCTGACATAAGTCTCCAAAAC
Found at i:90973 original size:15 final size:16
Alignment explanation
Indices: 90946--90981 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
90936 AAATCCTTGA
*
90946 ATTATATGTATGTATT
1 ATTATATGTATGTACT
90962 ATTATA-GTATGTACT
1 ATTATATGTATGTACT
90977 ATTAT
1 ATTAT
90982 TTTGTAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.53
Consensus pattern (16 bp):
ATTATATGTATGTACT
Found at i:92745 original size:36 final size:34
Alignment explanation
Indices: 92646--92745 Score: 91
Period size: 36 Copynumber: 3.0 Consensus size: 34
92636 TAAAATTTTC
* *
92646 TTTTATATTAAAATTT-AA-TATATA-AATA-AT
1 TTTTATTTTATAATTTAAAGTATATATAATATAT
* * * *
92676 TTTTATTTTATTATTTATATTATAATATTATATAT
1 TTTTATTTTATAATTTAAAGTAT-ATATAATATAT
92711 TTATTATTTATATAATTTAAAGTATATATAATATA
1 TT-TTATTT-TATAATTTAAAGTATATATAATATA
92746 AAATAATATA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
30 13 0.24
31 1 0.02
32 3 0.06
33 3 0.06
34 3 0.06
35 4 0.07
36 15 0.28
37 12 0.22
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (34 bp):
TTTTATTTTATAATTTAAAGTATATATAATATAT
Found at i:92756 original size:17 final size:16
Alignment explanation
Indices: 92719--92763 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
92709 ATTTATTATT
* *
92719 TATATAATTTAAAGTA
1 TATATAATATAAAATA
92735 TATATAATATAAAATAA
1 TATATAATATAAAAT-A
*
92752 TATATTATATAA
1 TATATAATATAA
92764 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
TATATAATATAAAATA
Found at i:98007 original size:10 final size:10
Alignment explanation
Indices: 97988--98023 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
97978 TTTTCTACCT
97988 TCTC-TTCTC
1 TCTCTTTCTC
97997 TCTCTTTCTC
1 TCTCTTTCTC
*
98007 TCTCTGTCTC
1 TCTCTTTCTC
98017 TCTCTTT
1 TCTCTTT
98024 TCAATGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 4 0.17
10 20 0.83
ACGTcount: A:0.00, C:0.39, G:0.03, T:0.58
Consensus pattern (10 bp):
TCTCTTTCTC
Found at i:98819 original size:6 final size:6
Alignment explanation
Indices: 98803--98835 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
98793 ATATAATTAT
98803 ATTTAA TATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA -ATTTAA ATTTAA ATTTAA ATTTAA AT
98836 AATATAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:100616 original size:33 final size:32
Alignment explanation
Indices: 100551--100624 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 32
100541 ATATTATTTT
* * * *
100551 TATTTTGAATTTAATAGTATTATGAATGAATA
1 TATTTTTAATTTAAAAATATTATGAATAAATA
100583 TCATTTTTAATTTAAAAATATT-TGAGATAAATA
1 T-ATTTTTAATTTAAAAATATTATGA-ATAAATA
*
100616 TATTATTAA
1 TATTTTTAA
100625 AAATAGTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 11 0.31
33 24 0.69
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.47
Consensus pattern (32 bp):
TATTTTTAATTTAAAAATATTATGAATAAATA
Found at i:100649 original size:25 final size:26
Alignment explanation
Indices: 100593--100652 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
100583 TCATTTTTAA
100593 TTTAAAAATATTTGAGATAAATATAT
1 TTTAAAAATATTTGAGATAAATATAT
**
100619 TATTAAAAATAGTTT-AGATGTATA-AT
1 T-TTAAAAATA-TTTGAGATAAATATAT
100645 TTTAAAAA
1 TTTAAAAA
100653 ACAATAGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 7 0.23
26 4 0.13
27 16 0.53
28 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (26 bp):
TTTAAAAATATTTGAGATAAATATAT
Found at i:103821 original size:2 final size:2
Alignment explanation
Indices: 103814--103839 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
103804 TAGATGTTTC
103814 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
103840 TAATGATGCA
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):
AT
Found at i:109146 original size:162 final size:161
Alignment explanation
Indices: 108973--109689 Score: 902
Period size: 162 Copynumber: 4.4 Consensus size: 161
108963 AAAATTTGAT
* * *
108973 GATAAAGAGCTGCTTGGGATTGGAAGAAATAATCCAAGCAAAGATAGTGTCTGATATAAGTCTCC
1 GATAAAGAGCTGCTTGGGATTGGAAGAAATAATCCAAGCAAGGACAGTGTCAGATATAAGTCTCC
* *
109038 AAAGCCTGAAGTTTGTAGAAATAGACAGCTGTAATAAATTGAGATATGTCTTCCCTATGTCCGTT
66 AAAGCCTGAAG-TTGTAGAAATAGACAGCTGTAATAAATTGAAATATGTCTTCCCTATGTCCGTC
*
109103 GCTAATAGCCTTGGACATTTGGAATCACTAAG
130 GCTAATAGCCTTGGACATTTGGAATCACTAAA
* * * * * ** * *
109135 GATAGAGAGCTGCTTGAGATTGGAAGAAATGATTCAAGCAACGACAACGTCAGGTGTAAGTCTCC
1 GATAAAGAGCTGCTTGGGATTGGAAGAAATAATCCAAGCAAGGACAGTGTCAGATATAAGTCTCC
* * * * * * *
109200 AAAACCTGAAGGTTGTAGAAATAGACAGCTGCAATATATT-AAGATATCTCTTTCCAATGTCCAT
66 AAAGCCTGAA-GTTGTAGAAATAGACAGCTGTAATAAATTGAA-ATATGTCTTCCCTATGTCCGT
* *
109264 TGCTAATAGCCTTGCG-CGA-CTGGAATCACTAAA
129 CGCTAATAGCCTTG-GAC-ATTTGGAATCACTAAA
* * * * *
109297 TATAAAGAACTGCTTTGGATTGGAAGAGATAATCCAAGCAAGGACAGTGTCAGATATATGTCTCC
1 GATAAAGAGCTGCTTGGGATTGGAAGAAATAATCCAAGCAAGGACAGTGTCAGATATAAGTCTCC
*
109362 AAAGCCTGAACGTTGTAGAAATAGCCAGCTGTAATAAATTGAAATATGTCTTCCCCT-TGTCCGT
66 AAAGCCTGAA-GTTGTAGAAATAGACAGCTGTAATAAATTGAAATATGTCTT-CCCTATGTCCGT
* *
109426 CGCTAGTGGCCTTGGACATTTGGAATCACTAAA
129 CGCTAATAGCCTTGGACATTTGGAATCACTAAA
* * * *
109459 GATAAAGAGCTGCCTGGGATTGGAAGAGATAATCCAAGCAAGGACAGTGTCAGATATATGTCTTC
1 GATAAAGAGCTGCTTGGGATTGGAAGAAATAATCCAAGCAAGGACAGTGTCAGATATAAGTCTCC
* **
109524 AAAGCTTGAAAGTTGTAGAAATAGACAGCTGTAATAAATTGAAATATGTCTTCGGTATGTCCGTC
66 AAAGCCTG-AAGTTGTAGAAATAGACAGCTGTAATAAATTGAAATATGTCTTCCCTATGTCCGTC
* *
109589 GCTAGTAACCTTGGACATTTGGAATCACTAAA
130 GCTAATAGCCTTGGACATTTGGAATCACTAAA
* * ** * * *
109621 GATAAAGAGCTGCCTGGGATTGGAAGAAATAATTCAAGCAACAACAATGTCAGATGTAAATCTCC
1 GATAAAGAGCTGCTTGGGATTGGAAGAAATAATCCAAGCAAGGACAGTGTCAGATATAAGTCTCC
109686 AAAG
66 AAAG
109690 TCTAAGAAAA
Statistics
Matches: 477, Mismatches: 68, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
161 5 0.01
162 463 0.97
163 9 0.02
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (161 bp):
GATAAAGAGCTGCTTGGGATTGGAAGAAATAATCCAAGCAAGGACAGTGTCAGATATAAGTCTCC
AAAGCCTGAAGTTGTAGAAATAGACAGCTGTAATAAATTGAAATATGTCTTCCCTATGTCCGTCG
CTAATAGCCTTGGACATTTGGAATCACTAAA
Found at i:111028 original size:34 final size:34
Alignment explanation
Indices: 110961--111177 Score: 310
Period size: 34 Copynumber: 6.4 Consensus size: 34
110951 TGGATATCTG
* * *
110961 TGTTGATTAAAT-GGTGATTTAGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
110994 TGTTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
111028 TGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
111062 TGTTGATTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
111096 TGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
111130 TGTTGACTAAATGGGAGATTTGGTAGGTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
111164 TGTTGATTAAATGG
1 TGTTGATTAAATGG
111178 TAGTTTTTAC
Statistics
Matches: 165, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
33 12 0.07
34 153 0.93
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:111107 original size:102 final size:101
Alignment explanation
Indices: 110961--111178 Score: 366
Period size: 102 Copynumber: 2.1 Consensus size: 101
110951 TGGATATCTG
* * *
110961 TGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 TGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
111026 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
66 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
*
111062 TGTTGATTAAATGG-GAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
1 TGTTGATTAAATGGTG--ATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
*
111126 CCATTGTTGACTAAATGGGAGATTTGGTAGGTTACCAT
64 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
111164 TGTTGATTAAATGGT
1 TGTTGATTAAATGGT
111179 AGTTTTTACC
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
100 1 0.01
101 14 0.13
102 94 0.86
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (101 bp):
TGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:111508 original size:19 final size:19
Alignment explanation
Indices: 111484--111527 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
111474 TGGTTGTCGA
*
111484 GGTACTATTCACGTATACG
1 GGTACTATTCAAGTATACG
111503 GGTACTATTCAAGTATACG
1 GGTACTATTCAAGTATACG
*
111522 GTTACT
1 GGTACT
111528 GTACACGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (19 bp):
GGTACTATTCAAGTATACG
Found at i:112313 original size:21 final size:20
Alignment explanation
Indices: 112289--112327 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
112279 GGCAAGAAAG
*
112289 GGCACATTAAGAAAGAGTGTT
1 GGCAAATTAA-AAAGAGTGTT
*
112310 GGCAAATTAAAAGGAGTG
1 GGCAAATTAAAAAGAGTG
112328 GAGAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.08, G:0.31, T:0.21
Consensus pattern (20 bp):
GGCAAATTAAAAAGAGTGTT
Found at i:115663 original size:34 final size:34
Alignment explanation
Indices: 115594--115812 Score: 314
Period size: 34 Copynumber: 6.5 Consensus size: 34
115584 AAGTGGGAGA
* * *
115594 ATTGTTGATTAAAT-GGTGATTTAGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
115627 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
115661 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
115695 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
115729 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
115763 ATTGTTGACTAAATGGGAGATTTGGTAGGTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
115797 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
115813 TAGTTTTTAC
Statistics
Matches: 167, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
33 14 0.08
34 153 0.92
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:115744 original size:102 final size:101
Alignment explanation
Indices: 115594--115813 Score: 370
Period size: 102 Copynumber: 2.2 Consensus size: 101
115584 AAGTGGGAGA
* * *
115594 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
115659 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
*
115695 ATTGTTGATTAAATGG-GAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCT
1 ATTGTTGATTAAATGGTG--ATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCT
*
115759 TACCATTGTTGACTAAATGGGAGATTTGGTAGGTTACC
64 TACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
115797 ATTGTTGATTAAATGGT
1 ATTGTTGATTAAATGGT
115814 AGTTTTTACC
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
100 1 0.01
101 16 0.14
102 94 0.85
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (101 bp):
ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:117791 original size:2 final size:2
Alignment explanation
Indices: 117784--117812 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
117774 GAGGGTTGGG
117784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
117813 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:117817 original size:2 final size:2
Alignment explanation
Indices: 117812--117845 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
117802 ATATATATAT
117812 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
117846 TTATTCACCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:118867 original size:20 final size:22
Alignment explanation
Indices: 118844--118891 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
118834 TATTTATTTG
118844 ATATAAATTA-CATA-TATATA
1 ATATAAATTAGCATATTATATA
*
118864 ATATAAATTAGTATATTATATA
1 ATATAAATTAGCATATTATATA
118886 AT-TAAA
1 ATATAAA
118892 AAATAAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 10 0.40
21 7 0.28
22 8 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
ATATAAATTAGCATATTATATA
Found at i:122055 original size:16 final size:16
Alignment explanation
Indices: 122007--122067 Score: 59
Period size: 18 Copynumber: 3.6 Consensus size: 16
121997 TGATTAAAAA
* *
122007 ATTTATTTTACTATTT
1 ATTTATATTAATATTT
*
122023 ATTATATTATTAAAATATT
1 ATT-TA-TATTAATAT-TT
122042 ATTTTATATTAATATTT
1 A-TTTATATTAATATTT
122059 ATTTATATT
1 ATTTATATT
122068 TATAATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 11 0.30
17 5 0.14
18 14 0.38
19 5 0.14
20 2 0.05
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTATATTAATATTT
Found at i:122903 original size:27 final size:27
Alignment explanation
Indices: 122869--122945 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
122859 GCCACCCATT
122869 TGTTTGTCAAAAATGGTGGTTAT-TTTG
1 TGTTTGTCAAAAATGGTGGTT-TCTTTG
*
122896 TGTTTGTCAAAAATAGTGGTTTCCTTTG
1 TGTTTGTCAAAAATGGTGGTTT-CTTTG
* * *
122924 TATTTGTCAAATATGGAGGTTT
1 TGTTTGTCAAAAATGGTGGTTT
122946 GTTTATTGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 20 0.47
28 22 0.51
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.47
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTTCTTTG
Found at i:122924 original size:28 final size:27
Alignment explanation
Indices: 122869--122934 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
122859 GCCACCCATT
*
122869 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATAGTGGTTATTTTG
122896 TGTTTGTCAAAAATAGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATAGTGGTTAT--TTTG
*
122924 TATTTGTCAAA
1 TGTTTGTCAAA
122935 TATGGAGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 1 0.03
27 20 0.57
28 14 0.40
ACGTcount: A:0.24, C:0.08, G:0.21, T:0.47
Consensus pattern (27 bp):
TGTTTGTCAAAAATAGTGGTTATTTTG
Found at i:125549 original size:21 final size:22
Alignment explanation
Indices: 125520--125565 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
125510 TGTTCAAACA
** *
125520 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
125542 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
125563 AGT
1 AGT
125566 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:127504 original size:28 final size:27
Alignment explanation
Indices: 127449--127519 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
127439 GCCACCCATT
127449 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
127476 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
127504 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
127520 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:127850 original size:2 final size:2
Alignment explanation
Indices: 127843--127873 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
127833 ATAGGTATTT
127843 TA TA TA TA TA TA TA TA TA TA TA GTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
127874 ATTTTGACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:130452 original size:17 final size:17
Alignment explanation
Indices: 130432--130475 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
130422 AAAAACTCAA
130432 ATATATTTTTATTAAAT
1 ATATATTTTTATTAAAT
* *
130449 ATATATTTATATTCAAT
1 ATATATTTTTATTAAAT
*
130466 ATTTATTTTT
1 ATATATTTTT
130476 GAATTTAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATATTTTTATTAAAT
Found at i:134287 original size:37 final size:37
Alignment explanation
Indices: 134210--134296 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
134200 TCCAGCCCCA
* *
134210 TGAAAGAAAGAAAGAAAATTGGGGTGGCGGCTTCACG
1 TGAAAGAAAGAAAGAAAATTAGGGTGGCGGCTCCACG
* *
134247 TGAAAGAAAGAAAGAAAATTAGGGTGGC-GATCCCATG
1 TGAAAGAAAGAAAGAAAATTAGGGTGGCGGCT-CCACG
134284 TGAAAGAAAGAAA
1 TGAAAGAAAGAAA
134297 AATTGAGGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 2 0.04
37 43 0.96
ACGTcount: A:0.45, C:0.09, G:0.31, T:0.15
Consensus pattern (37 bp):
TGAAAGAAAGAAAGAAAATTAGGGTGGCGGCTCCACG
Found at i:134902 original size:44 final size:43
Alignment explanation
Indices: 134790--134905 Score: 223
Period size: 43 Copynumber: 2.7 Consensus size: 43
134780 TATTATTTAC
134790 ATTTTTCGTGGATTGGCATAGCCACCCAATTGCATATTTATTT
1 ATTTTTCGTGGATTGGCATAGCCACCCAATTGCATATTTATTT
134833 ATTTTTCGTGGATTGGCATAGCCACCCAATTGCATATTTATTT
1 ATTTTTCGTGGATTGGCATAGCCACCCAATTGCATATTTATTT
134876 ATTTTTCCGTGGATTGGCATAGCCACCCAA
1 ATTTTT-CGTGGATTGGCATAGCCACCCAA
134906 ATTCTAACAA
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
43 49 0.68
44 23 0.32
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (43 bp):
ATTTTTCGTGGATTGGCATAGCCACCCAATTGCATATTTATTT
Found at i:137884 original size:28 final size:28
Alignment explanation
Indices: 137844--137899 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
137834 CAATTTTTAC
137844 AAACCACCATATTTGACAAATACAAAGG
1 AAACCACCATATTTGACAAATACAAAGG
137872 AAACCACCATATTTGACAAATACAAAGG
1 AAACCACCATATTTGACAAATACAAAGG
137900 GTGGCATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.21, G:0.11, T:0.18
Consensus pattern (28 bp):
AAACCACCATATTTGACAAATACAAAGG
Found at i:138977 original size:10 final size:10
Alignment explanation
Indices: 138951--138983 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
138941 ATTAATTAAA
138951 ATATAAATA-
1 ATATAAATAT
*
138960 AAATAAATAT
1 ATATAAATAT
138970 ATATAAATAT
1 ATATAAATAT
138980 ATAT
1 ATAT
138984 TTAAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATATAAATAT
Found at i:139038 original size:19 final size:20
Alignment explanation
Indices: 138988--139038 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
138978 ATATATTTAA
*
138988 ATAATTAAATT-TAAAATTT
1 ATAATTTAATTATAAAATTT
139007 ATATATTT-A-TATAAAATTT
1 ATA-ATTTAATTATAAAATTT
139026 A-AATTTAATTATA
1 ATAATTTAATTATA
139039 TAAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
17 4 0.15
18 3 0.11
19 17 0.63
20 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATTTAATTATAAAATTT
Found at i:139615 original size:18 final size:17
Alignment explanation
Indices: 139585--139656 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 17
139575 ATTTATAATA
*
139585 TAATAT-TATATATTAAT
1 TAATATATA-ATATAAAT
*
139602 TAATTATATGATATAAAT
1 TAA-TATATAATATAAAT
*
139620 TACATATATAATATAAAA
1 TA-ATATATAATATAAAT
*
139638 TAATATATTATAT-AAT
1 TAATATATAATATAAAT
139654 TAA
1 TAA
139657 AAAATAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
16 5 0.11
17 13 0.28
18 26 0.57
19 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (17 bp):
TAATATATAATATAAAT
Found at i:143833 original size:21 final size:21
Alignment explanation
Indices: 143808--143852 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
143798 ATTAAAATAT
*
143808 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTAAA
143829 TATTTTATAATTAAATTTAAA
1 TATTTTATAATTAAATTTAAA
143850 TAT
1 TAT
143853 AAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTATAATTAAATTTAAA
Found at i:144601 original size:16 final size:16
Alignment explanation
Indices: 144556--144603 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
144546 TTTAATTCAA
144556 TAAAAA-AATTT-AAT
1 TAAAAATAATTTAAAT
144570 TAAAAATTAATTTAAAT
1 TAAAAA-TAATTTAAAT
*
144587 TCAAAATAATTTAAAT
1 TAAAAATAATTTAAAT
144603 T
1 T
144604 TGAACAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 6 0.20
16 16 0.53
17 8 0.27
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAAATAATTTAAAT
Found at i:145160 original size:47 final size:47
Alignment explanation
Indices: 145104--145200 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
145094 AAAGAGTGAG
145104 AGGAATTTCAAATTTGAATGTAAAAGAATTTAGGAAAAAAAAAACTA
1 AGGAATTTCAAATTTGAATGTAAAAGAATTTAGGAAAAAAAAAACTA
145151 AGGAATTTCAAATTTGAATGTAAAAGAATTTAGGAAAAAAAAAACTA
1 AGGAATTTCAAATTTGAATGTAAAAGAATTTAGGAAAAAAAAAACTA
145198 AGG
1 AGG
145201 TTAAAATGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.55, C:0.04, G:0.16, T:0.25
Consensus pattern (47 bp):
AGGAATTTCAAATTTGAATGTAAAAGAATTTAGGAAAAAAAAAACTA
Found at i:145937 original size:20 final size:21
Alignment explanation
Indices: 145914--145955 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
145904 CGAGTTAATC
*
145914 TAATTAAATTAT-TATTTAAA
1 TAATAAAATTATATATTTAAA
*
145934 TAATAAAATTTTATATTTAAA
1 TAATAAAATTATATATTTAAA
145955 T
1 T
145956 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATAAAATTATATATTTAAA
Found at i:149399 original size:18 final size:18
Alignment explanation
Indices: 149376--149425 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
149366 TATAAGGTAG
149376 TTTTTT-TTCTTCTTTATA
1 TTTTTTATT-TTCTTTATA
*
149394 TTTTTTATTTTCTTTTTA
1 TTTTTTATTTTCTTTATA
149412 TTCATTTTATTTTC
1 TT--TTTTATTTTC
149426 ATTTCTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 16 0.57
19 2 0.07
20 10 0.36
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTATTTTCTTTATA
Found at i:149411 original size:20 final size:21
Alignment explanation
Indices: 149376--149425 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
149366 TATAAGGTAG
*
149376 TTTT-TTTTCTTCTTTATAT-T
1 TTTTATTTTCTTCTTTAT-TCA
149396 TTTTATTTTCTT-TTTATTCA
1 TTTTATTTTCTTCTTTATTCA
149416 TTTTATTTTC
1 TTTTATTTTC
149426 ATTTCTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 7 0.26
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTTTCTTCTTTATTCA
Found at i:151945 original size:19 final size:19
Alignment explanation
Indices: 151923--151964 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
151913 ATTAAATTAA
* *
151923 TTTTATATATTTTTTATAT
1 TTTTATATAATTTATATAT
*
151942 TTTTATGTAATTTATATAT
1 TTTTATATAATTTATATAT
151961 TTTT
1 TTTT
151965 TAATTTGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTATATAATTTATATAT
Found at i:156291 original size:28 final size:27
Alignment explanation
Indices: 156237--156307 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
156227 GCCACCCATT
* *
156237 TGTTTGTAAAAAATAGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
156264 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
156292 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
156308 AGGCTTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 19 0.50
28 18 0.47
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:158924 original size:21 final size:22
Alignment explanation
Indices: 158895--158940 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
158885 TGTTCAGACA
** *
158895 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
158917 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
158938 AGT
1 AGT
158941 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:160879 original size:28 final size:27
Alignment explanation
Indices: 160824--160894 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
160814 GCCACCCATT
160824 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTTATTTTG
160851 TGTTTGTCAAAAATGGTGGTT-TCCTTTG
1 TGTTTGTCAAAAATGGTGGTTAT--TTTG
* *
160879 TATTTGTCAAATATGG
1 TGTTTGTCAAAAATGG
160895 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.23, C:0.07, G:0.24, T:0.46
Consensus pattern (27 bp):
TGTTTGTCAAAAATGGTGGTTATTTTG
Found at i:161620 original size:10 final size:9
Alignment explanation
Indices: 161602--161627 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
161592 AGATATTTTC
161602 AACAAAAAA
1 AACAAAAAA
161611 AACAAAAAA
1 AACAAAAAA
161620 AACAAAAA
1 AACAAAAA
161628 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
AACAAAAAA
Found at i:161918 original size:2 final size:2
Alignment explanation
Indices: 161911--161935 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
161901 TGATGATAAA
161911 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
161936 ATTTGACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:164203 original size:19 final size:18
Alignment explanation
Indices: 164181--164233 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
164171 ATATTTTTAT
164181 TTAAATTACATATTTAAAA
1 TTAAATTACA-ATTTAAAA
*
164200 TTAAATATA-AATTTTAAA
1 TTAAAT-TACAATTTAAAA
* *
164218 TTAATTTACAAATTAA
1 TTAAATTACAATTTAA
164234 TTATTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 2 0.07
18 17 0.61
19 7 0.25
20 2 0.07
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAATTACAATTTAAAA
Found at i:164227 original size:37 final size:37
Alignment explanation
Indices: 164157--164227 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
164147 TATTTTTTAA
* * * * *
164157 TTAAAATTTATTATATATTTTTATTTAAATTACATAT
1 TTAAAATTAAATATAAATTTTAAATTAAATTACATAT
*
164194 TTAAAATTAAATATAAATTTTAAATTAATTTACA
1 TTAAAATTAAATATAAATTTTAAATTAAATTACA
164228 AATTAATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (37 bp):
TTAAAATTAAATATAAATTTTAAATTAAATTACATAT
Found at i:164261 original size:18 final size:18
Alignment explanation
Indices: 164240--164296 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
164230 TTAATTATTT
164240 TAAATATATTATTTAAAA
1 TAAATATATTATTTAAAA
* *
164258 TAAAAATAATTA-ATAAAA
1 TAAATAT-ATTATTTAAAA
*
164276 TAAATTTA-T-TTTAAAA
1 TAAATATATTATTTAAAA
164292 TAAAT
1 TAAAT
164297 TAAATATGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 11 0.34
17 1 0.03
18 16 0.50
19 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATATATTATTTAAAA
Found at i:164337 original size:14 final size:14
Alignment explanation
Indices: 164320--164354 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
164310 TAAATCAATT
* *
164320 AAATTAATTTTTTA
1 AAATAAATTATTTA
164334 AAATAAATTATTTA
1 AAATAAATTATTTA
164348 AAATAAA
1 AAATAAA
164355 AATTAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:164344 original size:93 final size:96
Alignment explanation
Indices: 164197--164373 Score: 272
Period size: 93 Copynumber: 1.9 Consensus size: 96
164187 TACATATTTA
* * *
164197 AAATTAAATATAAATTTTAAATTAATTTACAAATTAATTATTTTAAATATATTATTTAAAATAAA
1 AAATTAAATATAAATATTAAATCAATTTA-AAATTAATTATTTTAAATAAATTATTTAAAATAAA
164262 AA-TAATTAATAAAATAAATTTATTTTAAAAT
65 AATTAATTAATAAAATAAATTTATTTTAAAAT
*
164293 AAATTAAATATGAATATTAAATCAA-TT-AAATTAATT-TTTTAAAATAAATTATTTAAAATAAA
1 AAATTAAATATAAATATTAAATCAATTTAAAATTAATTATTTT-AAATAAATTATTTAAAATAAA
164355 AATTAATTAATAAAATAAA
65 AATTAATTAATAAAATAAA
164374 ATTTTAAGAG
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
92 4 0.05
93 31 0.41
94 16 0.21
95 2 0.03
96 22 0.29
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (96 bp):
AAATTAAATATAAATATTAAATCAATTTAAAATTAATTATTTTAAATAAATTATTTAAAATAAAA
ATTAATTAATAAAATAAATTTATTTTAAAAT
Found at i:164362 original size:20 final size:19
Alignment explanation
Indices: 164333--164374 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
164323 TTAATTTTTT
*
164333 AAAATAAATTATTTAAAATA
1 AAAATAAATTA-ATAAAATA
*
164353 AAAATTAATTAATAAAATA
1 AAAATAAATTAATAAAATA
164372 AAA
1 AAA
164375 TTTTAAGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATAAATTAATAAAATA
Found at i:164821 original size:19 final size:19
Alignment explanation
Indices: 164780--164822 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
164770 GATAAATGTA
* * * *
164780 AAATGTTAATATATAATTT
1 AAATATTAATAAATAAGTG
164799 AAATATTAATAAATAAGTG
1 AAATATTAATAAATAAGTG
164818 AAATA
1 AAATA
164823 AAAATATAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (19 bp):
AAATATTAATAAATAAGTG
Found at i:167251 original size:32 final size:31
Alignment explanation
Indices: 167187--167251 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
167177 AATATAATAG
* *
167187 ATATAAATTTATTTAACATGATTGAATAAAA
1 ATATAAATTTATATAACATGATTAAATAAAA
*
167218 ATATAAATTTATAATAACATCGA-TAAATCAAA
1 ATATAAATTTAT-ATAACAT-GATTAAATAAAA
167250 AT
1 AT
167252 GAATATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 12 0.41
32 15 0.52
33 2 0.07
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.35
Consensus pattern (31 bp):
ATATAAATTTATATAACATGATTAAATAAAA
Found at i:167489 original size:22 final size:22
Alignment explanation
Indices: 167464--167506 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
167454 TATTAAAATA
*
167464 TTATTTTTAT-ATTAATATTTAT
1 TTATATTTATAATTAA-ATTTAT
167486 TTATATTTATAATTAAATTTA
1 TTATATTTATAATTAAATTTA
167507 AATAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATATTTATAATTAAATTTAT
Found at i:170178 original size:5 final size:5
Alignment explanation
Indices: 170168--170195 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
170158 ATAAATAGAT
170168 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
170196 GCTTCTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:170377 original size:24 final size:24
Alignment explanation
Indices: 170335--170386 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
170325 TATTATTTAT
*
170335 TTTTAATTTTTAATTAATATTTTC
1 TTTTAATTTTTAATAAATATTTTC
170359 TTTTAATTTTTTAA-AAATATTTTC
1 TTTTAA-TTTTTAATAAATATTTTC
170383 TTTT
1 TTTT
170387 TATCTCGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTAATTTTTAATAAATATTTTC
Found at i:179408 original size:30 final size:31
Alignment explanation
Indices: 179374--179442 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 31
179364 TTATTGTCCT
179374 AAAATATT-AAGTATTTACTCGGATTGAT-AA
1 AAAATATTGAA-TATTTACTCGGATTGATCAA
* *
179404 AAAATATTGAATATTTATTTGGATTGATCAA
1 AAAATATTGAATATTTACTCGGATTGATCAA
179435 ATAAATAT
1 A-AAATAT
179443 CTTAAGATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 23 0.68
31 5 0.15
32 6 0.18
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (31 bp):
AAAATATTGAATATTTACTCGGATTGATCAA
Found at i:179454 original size:32 final size:30
Alignment explanation
Indices: 179374--179451 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 30
179364 TTATTGTCCT
* *
179374 AAAATATT-AAGTATTTACTCGGATTGATAA
1 AAAATATTGAAG-ATTTATTTGGATTGATAA
*
179404 AAAATATTGAATATTTATTTGGATTGATCAA
1 AAAATATTGAAGATTTATTTGGATTGAT-AA
*
179435 ATAAATATCTTAAGATT
1 A-AAATAT-TGAAGATT
179452 ATTAGTAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 22 0.56
31 5 0.13
32 6 0.15
33 6 0.15
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (30 bp):
AAAATATTGAAGATTTATTTGGATTGATAA
Found at i:182718 original size:21 final size:21
Alignment explanation
Indices: 182694--182740 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
182684 TAATTAGACT
*
182694 GATTCAAGGCTCGGTTAGTTC
1 GATTCAAGGCTCAGTTAGTTC
182715 GATTCAAGGCTCAGTTAGTTC
1 GATTCAAGGCTCAGTTAGTTC
182736 G-TTCA
1 GATTCA
182741 GCTTGTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (21 bp):
GATTCAAGGCTCAGTTAGTTC
Found at i:182863 original size:23 final size:23
Alignment explanation
Indices: 182830--182886 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
182820 TGTTTTAAGT
*
182830 TAAA-TTTAATAATAAAAATACA
1 TAAATTTTAATAATAAAAATAAA
*
182852 TAAATTTTAAT-ATAAATATAAA
1 TAAATTTTAATAATAAAAATAAA
182874 TAATATTTTAATA
1 TAA-ATTTTAATA
182887 TAATTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 16 0.53
23 14 0.47
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAATTTTAATAATAAAAATAAA
Found at i:182868 original size:12 final size:12
Alignment explanation
Indices: 182851--182896 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
182841 ATAAAAATAC
182851 ATAAATTTTAAT
1 ATAAATTTTAAT
*
182863 ATAAA-TATAA-
1 ATAAATTTTAAT
182873 ATAATATTTTAAT
1 ATAA-ATTTTAAT
*
182886 ATAATTTTTAA
1 ATAAATTTTAA
182897 ATAGTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
10 4 0.14
11 5 0.18
12 15 0.54
13 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAAATTTTAAT
Found at i:182887 original size:23 final size:22
Alignment explanation
Indices: 182830--182889 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
182820 TGTTTTAAGT
*
182830 TAAA-TTTAATAATAAAAATACA
1 TAAATTTTAAT-ATAAAAATAAA
*
182852 TAAATTTTAATATAAATATAAA
1 TAAATTTTAATATAAAAATAAA
182874 TAATATTTTAATATAA
1 TAA-ATTTTAATATAA
182890 TTTTTAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 16 0.47
23 18 0.53
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATTTTAATATAAAAATAAA
Done.