Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold100
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: 904619
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
File 6 of 8
Found at i:687479 original size:79 final size:78
Alignment explanation
Indices: 687311--687530 Score: 329
Period size: 79 Copynumber: 2.8 Consensus size: 78
687301 TTTCGTAATC
* *
687311 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTC--ATCGAGGATACTCCAACC
1 GGGGATACTTCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCAAATCGGGGATACTCCAACC
687374 CCGTTATTTTCGA
66 CCGTTATTTTCGA
687387 GGAGG-TACTTCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 GG-GGATACTTCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCA-AATCGGGGATACTCCAA
687451 CCCCGTTATTTTCGA
64 CCCCGTTATTTTCGA
** * * *
687466 GGGGATACTTCAACCTAGGTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATACTCCAAC
1 GGGGATACTTCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCA-AATCGGGGATACTCCAAC
687531 TCCGATTTTA
Statistics
Matches: 131, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
76 41 0.31
77 2 0.02
78 2 0.02
79 86 0.66
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (78 bp):
GGGGATACTTCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCAAATCGGGGATACTCCAACC
CCGTTATTTTCGA
Found at i:687550 original size:51 final size:51
Alignment explanation
Indices: 687485--687581 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
687475 TCAACCTAGG
* * *
687485 TTTTATTTCTAAAACACC-AATTCTCCACAATCGGGGATACTCCAACTCCGA
1 TTTTACTTCCAAAACACCGAATT-TCCACAATCGAGGATACTCCAACTCCGA
* * *
687536 TTTTACTTCCAAAACACCGACTTTTCACAATCGAGGATACTTCAAC
1 TTTTACTTCCAAAACACCGAATTTCCACAATCGAGGATACTCCAAC
687582 CCCGTTATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 36 0.92
52 3 0.08
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.30
Consensus pattern (51 bp):
TTTTACTTCCAAAACACCGAATTTCCACAATCGAGGATACTCCAACTCCGA
Found at i:687679 original size:76 final size:76
Alignment explanation
Indices: 687565--687734 Score: 277
Period size: 76 Copynumber: 2.2 Consensus size: 76
687555 ACTTTTCACA
* * *
687565 ATCGAGGATACTTCAACCCCGTTATTTCTGAGGAGACACTCCAACCCAGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGAGACACTCCAACCCAGGTTTTATTTCTAAAAC
*
687630 ATCAATTTTTC
66 ATCAACTTTTC
* * *
687641 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGACACTCCAACCCCGGTTTTGTTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGAGACACTCCAACCCAGGTTTTATTTCTAAAAC
687706 ATCAACTTTTC
66 ATCAACTTTTC
687717 ATCGGGGATACTCCAACC
1 ATCGGGGATACTCCAACC
687735 TTGGTTTTAT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 87 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (76 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGAGACACTCCAACCCAGGTTTTATTTCTAAAAC
ATCAACTTTTC
Found at i:687702 original size:206 final size:202
Alignment explanation
Indices: 687307--687943 Score: 732
Period size: 206 Copynumber: 3.1 Consensus size: 202
687297 GAATTTTCGT
* * *
687307 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTT-TC-ATCGAGGATACTCC
1 AATCGGGGATACTCCAA-CCCGGTTTTATTTCTAAAACACCAATTTTCACAATCGAGGATACTTC
*
687370 AACCCCGTTATTT-TCGAGGAGGTACTTCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCAT
65 AACCCCGTTATTTCT-GAGGAGATACTTCAA-CCCGGTTTTATTTCTAAAACATCAATTTTTC--
* **
687434 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTTCAACCTAGGTTTTATTTCTAAAA
126 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
687499 CACCAA-TTCTCCAC
191 CACCAACTT-T--AC
* * * *
687513 AATCGGGGATACTCCAACTCCGATTTTACTTCCAAAACACCGACTTTTCACAATCGAGGATACTT
1 AATCGGGGATACTCCAAC-CCGGTTTTATTTCTAAAACACC-AATTTTCACAATCGAGGATACTT
* *
687578 CAACCCCGTTATTTCTGAGGAGACACTCCAACCCAGGTTTTATTTCTAAAACATCAATTTTTC-A
64 CAACCCCGTTATTTCTGAGGAGATACTTCAACCC-GGTTTTATTTCTAAAACATCAATTTTTCAA
* * *
687642 TCGGGGATACTCCAACCCCGTTATTTCCGAGGGGACACTCCAACCCCGGTTTTGTTTCTAAAACA
128 TCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
* *
687707 TCAACTTTTC
193 CCAACTTTAC
* * *
687717 -ATCGGGGATACTCCAACCTTGGTTTTATTTCTAAAACACCAATTCTTCACAATTGGGGATAC-T
1 AATCGGGGATACTCCAACC-CGGTTTTATTTCTAAAACACCAATT-TTCACAATCGAGGATACTT
* ** * ** *
687780 CAAACCCCATTATTTCCAAGGGGATACTTCAACCTCGGCCTTATTTCTAAATCATCAATTTTTCA
64 C-AACCCCGTTATTTCTGAGGAGATACTTCAACC-CGGTTTTATTTCTAAAACATCAATTTTT--
* * *
687845 CAATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGATTTCATTT-TCAA
125 CAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCT-AA
* * *
687909 AATACCAATTTTTAT
189 AACACCAA-CTTTAC
*
687924 AATCAGGGATACTCCAACCC
1 AATCGGGGATACTCCAACCC
687944 TGTTATTTCC
Statistics
Matches: 367, Mismatches: 47, Indels: 33
0.82 0.11 0.07
Matches are distributed among these distances:
202 6 0.02
203 99 0.27
204 2 0.01
205 3 0.01
206 159 0.43
207 10 0.03
208 21 0.06
209 66 0.18
210 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (202 bp):
AATCGGGGATACTCCAACCCGGTTTTATTTCTAAAACACCAATTTTCACAATCGAGGATACTTCA
ACCCCGTTATTTCTGAGGAGATACTTCAACCCGGTTTTATTTCTAAAACATCAATTTTTCAATCG
GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCA
ACTTTAC
Found at i:687825 original size:79 final size:79
Alignment explanation
Indices: 687720--688016 Score: 271
Period size: 79 Copynumber: 3.8 Consensus size: 79
687710 ACTTTTCATC
* ** *
687720 GGGGATACTCCAACCTTGGTTTTATTTCTAAAACACCAATTCTTCACAATTGGGGATACTCAAAC
1 GGGGATACTCCAACCTCGGCCTTATTTCTAAAACACCAATTCTTCACAATCGGGGATACTCAAAC
687785 CCCATTATTTCCAA
66 CCCATTATTTCCAA
* * * * *
687799 GGGGATACTTCAACCTCGGCCTTATTTCTAAATCATCAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCTCGGCCTTATTTCTAAAACACCAATTCTTCACAATCGGGGATACTCAAAC
* *
687864 CCCATTATTTTCGA
66 CCCATTATTTCCAA
* ** * * * * *
687878 GGGGATACTCCAACC-CCGATTTCATTT-TCAAAATACCAATT-TTTATAATCAGGGATACTCCA
1 GGGGATACTCCAACCTCGGCCTT-ATTTCT-AAAACACCAATTCTTCACAATCGGGGATACTCAA
** *
687940 ACCCTGTTATTTCCGA
64 ACCCCATTATTTCCAA
*** ** *
687956 GGGGATACTCCAATCC-CGATTTTATTTCTGGAACACCAATT-TTCCATAATCGGGGATACTC
1 GGGGATACTCCAA-CCTCGGCCTTATTTCTAAAACACCAATTCTT-CACAATCGGGGATACTC
688017 TAGCCCCGTT
Statistics
Matches: 181, Mismatches: 32, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
78 64 0.35
79 117 0.65
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCTCGGCCTTATTTCTAAAACACCAATTCTTCACAATCGGGGATACTCAAAC
CCCATTATTTCCAA
Found at i:687872 original size:127 final size:122
Alignment explanation
Indices: 687617--687873 Score: 282
Period size: 127 Copynumber: 2.0 Consensus size: 122
687607 AACCCAGGTT
* * * * *
687617 TTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGACACTC
1 TTATTTCTAAAACACCAATTTTACATCGGGGATACTCAAACCCCATTATTTCCAAGGGGACACTC
** * ***
687682 CAACCCCGGTTTTGTTTCTAAAACATCAACTTTTCATCGGGGATACTCCAACCTTGGTT
66 CAACCCCGGCCTTATTTCTAAAACATCAACTTTTCATCGGGGATACTCCAACC-T-CCA
* *
687741 TTATTTCTAAAACACCAATTCTTCACAATTGGGGATACTCAAACCCCATTATTTCCAAGGGGATA
1 TTATTTCTAAAACACCAATT-TT-AC-ATCGGGGATACTCAAACCCCATTATTTCCAAGGGGACA
* * * *
687806 CTTCAACCTCGGCCTTATTTCTAAATCATCAATTTTTCACAATCGGGGATACTCCAACC-CCA
63 CTCCAACCCCGGCCTTATTTCTAAAACATCAACTTTT--C-ATCGGGGATACTCCAACCTCCA
687868 TTATTT
1 TTATTT
687874 TCGAGGGGAT
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
124 19 0.17
125 2 0.02
126 1 0.01
127 69 0.63
129 1 0.01
130 18 0.16
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (122 bp):
TTATTTCTAAAACACCAATTTTACATCGGGGATACTCAAACCCCATTATTTCCAAGGGGACACTC
CAACCCCGGCCTTATTTCTAAAACATCAACTTTTCATCGGGGATACTCCAACCTCCA
Found at i:689492 original size:3 final size:3
Alignment explanation
Indices: 689484--689525 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
689474 TTATTCAAAG
689484 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
689526 GTTTTTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:689737 original size:27 final size:27
Alignment explanation
Indices: 689707--689796 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
689697 TATAAGTATT
*
689707 TGGCACAGGTATTTTGGCATAGGTACC
1 TGGCACAAGTATTTTGGCATAGGTACC
* * *
689734 TGGCACAAGTGTTTTGGTATAGATACC
1 TGGCACAAGTATTTTGGCATAGGTACC
* * * * *
689761 TGGCACAAGCACTTTGGCACATGTACT
1 TGGCACAAGTATTTTGGCATAGGTACC
689788 TGGCACAAG
1 TGGCACAAG
689797 CACTTTGATA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (27 bp):
TGGCACAAGTATTTTGGCATAGGTACC
Found at i:689780 original size:14 final size:14
Alignment explanation
Indices: 689761--689803 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
689751 TATAGATACC
689761 TGGCACAAGCACTT
1 TGGCACAAGCACTT
* *
689775 TGGCACATGTAC-T
1 TGGCACAAGCACTT
689788 TGGCACAAGCACTT
1 TGGCACAAGCACTT
689802 TG
1 TG
689804 ATACAGGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (14 bp):
TGGCACAAGCACTT
Found at i:689801 original size:13 final size:13
Alignment explanation
Indices: 689761--689801 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
689751 TATAGATACC
689761 TGGCACAAGCACTT
1 TGGCACAAGCAC-T
* *
689775 TGGCACATGTACT
1 TGGCACAAGCACT
689788 TGGCACAAGCACT
1 TGGCACAAGCACT
689801 T
1 T
689802 TGATACAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (13 bp):
TGGCACAAGCACT
Found at i:690907 original size:20 final size:20
Alignment explanation
Indices: 690882--690921 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
690872 TATGATTACA
*
690882 ATAAATAAAAATATGTAAAT
1 ATAAATAAAAATATATAAAT
*
690902 ATAAATATAAATATATAAAT
1 ATAAATAAAAATATATAAAT
690922 TACTAAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAAATAAAAATATATAAAT
Found at i:691454 original size:18 final size:19
Alignment explanation
Indices: 691422--691460 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
691412 AAATTTAATT
*
691422 ATAAAATATATAAATATTA
1 ATAAAAAATATAAATATTA
*
691441 ATAAAAAATA-AAATTTTA
1 ATAAAAAATATAAATATTA
691459 AT
1 AT
691461 GAGATGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAAAAAATATAAATATTA
Found at i:693279 original size:5 final size:5
Alignment explanation
Indices: 693269--693318 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
693259 TTTTAATAAT
* * *
693269 TTATA TTATA TTATA TTATA TTTTA TTTTAA TTATTT TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTAT-A TTA-TA TTATA TTATA TTA
693319 ATAACATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 32 0.82
6 6 0.15
7 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
TTATA
Found at i:693295 original size:20 final size:20
Alignment explanation
Indices: 693189--693318 Score: 59
Period size: 22 Copynumber: 6.2 Consensus size: 20
693179 ATGTATTAAC
693189 ATTATATTCATA-TATATTTT
1 ATTATATT-ATATTATATTTT
*
693209 -TTATATTATAATTATATTTAA
1 ATTATATTAT-ATTATATTT-T
* * ***
693230 AATATTTTATATTTATATAAA
1 ATTATATTATA-TTATATTTT
* *
693251 ATT-TAATATTTTAATAATTTAT
1 ATTATATTATATT-AT-ATTT-T
693273 ATTATATTATATTATATTTT
1 ATTATATTATATTATATTTT
* * *
693293 ATTTTAATTATTTTTATATTAT
1 ATTAT-ATTA-TATTATATTTT
693315 ATTA
1 ATTA
693319 ATAACATATT
Statistics
Matches: 81, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
18 2 0.02
19 10 0.12
20 18 0.22
21 14 0.17
22 30 0.37
23 7 0.09
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTATATTATATTATATTTT
Found at i:693298 original size:27 final size:28
Alignment explanation
Indices: 693189--693317 Score: 101
Period size: 27 Copynumber: 4.6 Consensus size: 28
693179 ATGTATTAAC
*
693189 ATTATATTCATA-TATATTTTTTATATTAT
1 ATTATATT-ATATTATATTTTATAT-TTAT
**
693218 AATTATATT-TAAAATATTTTATATTTAT
1 -ATTATATTATATTATATTTTATATTTAT
* *
693246 ATAAAATT-TA--ATATTTTAATAATTTAT
1 ATTATATTATATTATATTTT-AT-ATTTAT
693273 ATTATATTATATTATATTTTAT-TTTA-
1 ATTATATTATATTATATTTTATATTTAT
*
693299 ATTATTTTTATATTATATT
1 ATTA-TATTATATTATATT
693318 AATAACATAT
Statistics
Matches: 85, Mismatches: 7, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
25 7 0.08
26 6 0.07
27 37 0.44
28 8 0.09
29 12 0.14
30 15 0.18
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (28 bp):
ATTATATTATATTATATTTTATATTTAT
Found at i:693340 original size:37 final size:37
Alignment explanation
Indices: 693235--693340 Score: 98
Period size: 37 Copynumber: 2.9 Consensus size: 37
693225 TTTAAAATAT
693235 TTTATATT-TA-TATAA-A-ATTTAATATT-TTAATAA
1 TTTATATTATATTATAACATATTTAATATTATT-ATAA
** * * *
693268 TTTATATTATATTATATTATATTTTATTTTAATTAT-T
1 TTTATATTATATTATAACATATTTAATATT-ATTATAA
693305 TTTATATTATATTAATAACATATTTAATATTATTAT
1 TTTATATTATATT-ATAACATATTTAATATTATTAT
693341 GTCTACTCTA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
33 8 0.14
34 2 0.03
35 4 0.07
36 1 0.02
37 26 0.45
38 15 0.26
39 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (37 bp):
TTTATATTATATTATAACATATTTAATATTATTATAA
Found at i:694899 original size:3 final size:3
Alignment explanation
Indices: 694891--694933 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
694881 AGCAAATCTC
694891 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
694934 GTGGTTGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:695388 original size:2 final size:2
Alignment explanation
Indices: 695381--695419 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
695371 GTCCACAAGC
695381 AT AT AT AT AT 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 AT AT AT AT AT A
695420 AAAGGTGGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:696115 original size:24 final size:25
Alignment explanation
Indices: 696070--696120 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
696060 TTTAATCAAT
* *
696070 AAAATGAACTTATAAACCAAATCTA
1 AAAATGAAATTATAAAACAAATCTA
* *
696095 AAAATGAAATT-TAAAATAAATTTA
1 AAAATGAAATTATAAAACAAATCTA
696119 AA
1 AA
696121 CTACGGCCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (25 bp):
AAAATGAAATTATAAAACAAATCTA
Found at i:697036 original size:12 final size:12
Alignment explanation
Indices: 697019--697074 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
697009 ATATTATTTT
*
697019 AATAATATAATA
1 AATAATAAAATA
697031 AATAATAAAATA
1 AATAATAAAATA
* * *
697043 AATATTTAAATT
1 AATAATAAAATA
*
697055 AA-AATAAATAAA
1 AATAATAAA-ATA
697067 AATAATAA
1 AATAATAA
697075 TTTTTAAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
11 4 0.12
12 25 0.74
13 5 0.15
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAATAAAATA
Found at i:697063 original size:30 final size:30
Alignment explanation
Indices: 697027--697085 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
697017 TTAATAATAT
*
697027 AATAAATAATAA-AATAAATATTTAAATTAA
1 AATAAATAAAAATAAT-AATATTTAAATTAA
*
697057 AATAAATAAAAATAATAATTTTTAAATTA
1 AATAAATAAAAATAATAATATTTAAATTA
697086 CGGTTCGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (30 bp):
AATAAATAAAAATAATAATATTTAAATTAA
Found at i:699206 original size:15 final size:16
Alignment explanation
Indices: 699187--699224 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
699177 TTATTTATTA
699187 ATTTTTT-AAAAAA-T
1 ATTTTTTAAAAAAATT
699201 ATTTTTTAAAAAAATT
1 ATTTTTTAAAAAAATT
699217 ATTTTTTA
1 ATTTTTTA
699225 CTCACGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 7 0.32
15 6 0.27
16 9 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTTTAAAAAAATT
Found at i:699339 original size:3 final size:3
Alignment explanation
Indices: 699331--699378 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
699321 GTTGAGGAGT
699331 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
699379 CTGTGTGGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:699578 original size:2 final size:2
Alignment explanation
Indices: 699571--699602 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
699561 CAATACGTAC
699571 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
699603 TCTATTAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:699873 original size:19 final size:19
Alignment explanation
Indices: 699827--699883 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
699817 TGAATTATTA
*
699827 TTTAATAATAAAAATAATAAT
1 TTTAATAATATAAA-AAT-AT
699848 TTT--TAATATAAAAATAT
1 TTTAATAATATAAAAATAT
699865 TTTAATAATATAATAAATA
1 TTTAATAATATAA-AAATA
699884 GTCAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 5 0.16
18 3 0.09
19 16 0.50
20 5 0.16
21 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTAATAATATAAAAATAT
Found at i:700081 original size:2 final size:2
Alignment explanation
Indices: 700074--700105 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
700064 GGGTAAATAG
700074 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
700106 CTAATAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:703131 original size:13 final size:13
Alignment explanation
Indices: 703113--703138 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
703103 CAATTTTTTG
703113 TGTATCGATACAT
1 TGTATCGATACAT
703126 TGTATCGATACAT
1 TGTATCGATACAT
703139 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:703203 original size:21 final size:21
Alignment explanation
Indices: 703177--703252 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
703167 CTGCCAAGAA
*
703177 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
703198 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
703218 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
703239 ATGTATCGATACAT
1 ATGTATCGATACAT
703253 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:703223 original size:20 final size:20
Alignment explanation
Indices: 703198--703270 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
703188 CATCTTTTTT
703198 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
703218 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
703239 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
703259 ATGTATCGATAC
1 ATGTATCGATAC
703271 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:703234 original size:41 final size:41
Alignment explanation
Indices: 703177--703270 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
703167 CTGCCAAGAA
*
703177 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
703218 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
703259 ATGTATCGATAC
1 ATGTATCGATAC
703271 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:705731 original size:13 final size:13
Alignment explanation
Indices: 705713--705751 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
705703 ATAATCACCC
*
705713 TGTATCGATACAG
1 TGTATCGATACAA
705726 TGTATCGATACAA
1 TGTATCGATACAA
705739 TGTATCGATACAA
1 TGTATCGATACAA
705752 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:705762 original size:20 final size:20
Alignment explanation
Indices: 705737--705815 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
705727 GTATCGATAC
705737 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
705757 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
705782 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
705802 CATGTATCGATACA
1 AATGTATCGATACA
705816 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:707850 original size:15 final size:15
Alignment explanation
Indices: 707830--707860 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
707820 ATTTCGTTTG
*
707830 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
707845 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
707860 G
1 G
707861 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:711940 original size:13 final size:13
Alignment explanation
Indices: 711922--711947 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
711912 CAATTTTTTG
711922 TGTATCGATACAT
1 TGTATCGATACAT
711935 TGTATCGATACAT
1 TGTATCGATACAT
711948 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:712012 original size:21 final size:21
Alignment explanation
Indices: 711986--712061 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
711976 CTGCCAAGAA
*
711986 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
712007 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
712027 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
712048 ATGTATCGATACAT
1 ATGTATCGATACAT
712062 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:712032 original size:20 final size:20
Alignment explanation
Indices: 712007--712079 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
711997 CATCTTTTTT
712007 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
712027 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
712048 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
712068 ATGTATCGATAC
1 ATGTATCGATAC
712080 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:712043 original size:41 final size:41
Alignment explanation
Indices: 711986--712079 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
711976 CTGCCAAGAA
*
711986 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
712027 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
712068 ATGTATCGATAC
1 ATGTATCGATAC
712080 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:712871 original size:4 final size:4
Alignment explanation
Indices: 712849--712901 Score: 51
Period size: 4 Copynumber: 13.5 Consensus size: 4
712839 TTTCATATTT
712849 TTTC TTT- TTT- TTTC TTTTC TTTC TTTC -TTC -TTC ATCTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC -T-TTC TTTC TTTC
712896 TTTC TT
1 TTTC TT
712902 ACCTAATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
3 12 0.27
4 24 0.55
5 5 0.11
6 3 0.07
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:714201 original size:31 final size:31
Alignment explanation
Indices: 714166--714234 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
714156 GACATCAAGC
*
714166 TTAAAAGAGTTACCACCAACTTGTGTGGGCT
1 TTAAAAGAGTTACCACCAACTTATGTGGGCT
* * * *
714197 TTAAATGGGTTGCCACCAGCTTATGTGGGCT
1 TTAAAAGAGTTACCACCAACTTATGTGGGCT
714228 TTAAAAG
1 TTAAAAG
714235 GGTGCCATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (31 bp):
TTAAAAGAGTTACCACCAACTTATGTGGGCT
Found at i:714262 original size:28 final size:28
Alignment explanation
Indices: 714220--714826 Score: 683
Period size: 28 Copynumber: 21.5 Consensus size: 28
714210 CACCAGCTTA
* *
714220 TGTGGGCTTTAAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** *
714248 TATGGGCTTTGAAAGGAAGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
714276 TATGGACTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
714305 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * *
714334 TGTGAGCTTTGAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
714362 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
714391 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
714420 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
714448 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
714477 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
714505 TGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
714534 TGTGGGCTTTGAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** * *
714562 CATGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
714590 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
714618 TGTGGGCTTTAAAAGGATGCCACTAATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
714646 TGTGAGCTTTGAAAAGATACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
714674 CGTGGGCTTTAAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
714702 TGTGGGCTTTGAAAAGTTACCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
714730 CGTAGGCTTTAAAAGGATGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
714758 TGTGGGCTTTGAAAGGTTGCCACTAATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
714786 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
714814 CGTGGGCTTTGAA
1 TGTGGGCTTTGAA
714827 GAGGTCACAG
Statistics
Matches: 493, Mismatches: 82, Indels: 8
0.85 0.14 0.01
Matches are distributed among these distances:
28 338 0.69
29 155 0.31
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:722634 original size:10 final size:11
Alignment explanation
Indices: 722619--722652 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
722609 CCATTTCACA
722619 TTTTTTTCTTT
1 TTTTTTTCTTT
722630 TTTTTTTCTTT
1 TTTTTTTCTTT
722641 TCTTTCTTTCTT
1 T-TTT-TTTCTT
722653 CTTCATCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 12 0.57
12 3 0.14
13 6 0.29
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:722646 original size:4 final size:4
Alignment explanation
Indices: 722623--722676 Score: 51
Period size: 4 Copynumber: 13.5 Consensus size: 4
722613 TTCACATTTT
*
722623 TTTC TTT- TTTT TTTC TTTTC TTTC TTTC -TTC -TTC ATCTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC -T-TTC TTTC TTTC
722671 TTTC TT
1 TTTC TT
722677 ACCTAACTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
3 9 0.20
4 27 0.61
5 5 0.11
6 3 0.07
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:723174 original size:10 final size:10
Alignment explanation
Indices: 723149--723182 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
723139 AATCTGAAAT
723149 TAGATTTTTC
1 TAGATTTTTC
*
723159 TA-ATTTTTT
1 TAGATTTTTC
723168 TAGATTTTTC
1 TAGATTTTTC
723178 TAGAT
1 TAGAT
723183 CTACAAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.62
Consensus pattern (10 bp):
TAGATTTTTC
Found at i:723296 original size:332 final size:332
Alignment explanation
Indices: 722738--723373 Score: 1069
Period size: 332 Copynumber: 1.9 Consensus size: 332
722728 AAACCGACGA
* * *
722738 CCACCGTTCATCGGTGGCCGTTGGCTCCCAAATTTCAGTTCTAGACTCTTTTCGACATTCTCTTT
1 CCACCGCTCACCGGTGGCCGTTGGCTCCCAAATTTCAGTTCTAGACTCTTTTCGACATCCTCTTT
722803 TCAAATCCAGAATTAGATTTTTCTAATTCTTTTTAGATTTTTCTAGATCTACAAGAGAAATTCGA
66 TCAAATCCAGAATTAGATTTTTCTAATTCTTTTTAGATTTTTCTAGATCTACAAGAGAAATTCGA
* *
722868 ATCTTATACCTCAAATCCGATCATCGTCTACCGTCGGATCGCTCCCAAAATCTAATATGTTCTCA
131 ATCTTATACCTCAAATCCGATCACCGTCTACCGTCAGATCGCTCCCAAAATCTAATATGTTCTCA
* *
722933 CTCTTAGTGTGAACTTCTTTCTCACCGTTCGGATTTTCCAAACAATCACTAGAACCTCCTCAATC
196 CCCTTAGTGTGAACTTCTTTCTCACCGTTCGGATTTTCCAAACAATCACCAGAACCTCCTCAATC
** **
722998 GGAAAACCCACTTTGGTTTTTTTTTTAAAGCTTTTTTTTTCCTCCTTGGTCGGTCGCCGGCGACC
261 GGAAAACCCACTTTAATTTTTTTTGGAAAGC-TTTTTTTTCCTCCTTGGTCGGTCGCCGGCGACC
723063 ACCGTCGG
325 ACCGTCGG
*
723071 CCACCGCTCACCGGTGGCCGTTGGCTCCCAAATTTCAGTTCTAGACTCTTTTCGACCTCCTCTTT
1 CCACCGCTCACCGGTGGCCGTTGGCTCCCAAATTTCAGTTCTAGACTCTTTTCGACATCCTCTTT
*
723136 TCAAAT-CTGAAATTAGATTTTTCTAATT-TTTTTAGATTTTTCTAGATCTACAAGAGAAATTCG
66 TCAAATCCAG-AATTAGATTTTTCTAATTCTTTTTAGATTTTTCTAGATCTACAAGAGAAATTCG
* *
723199 AATCTTATACCTCAAATTCGGTCACCGTCTACCGTCAGATCGCTCCCAAAATCTAATATGTTCTC
130 AATCTTATACCTCAAATCCGATCACCGTCTACCGTCAGATCGCTCCCAAAATCTAATATGTTCTC
* * *
723264 ACCCTTAGTGTGAACTTCTTTCTCATCGTTCGGATTTTCTAAACAATCACCAGAACCTCTTCAAT
195 ACCCTTAGTGTGAACTTCTTTCTCACCGTTCGGATTTTCCAAACAATCACCAGAACCTCCTCAAT
*
723329 CGGAAAACTCACTTTAATTTTTTTTGGAAAGCTTTTTTTTCCTCC
260 CGGAAAACCCACTTTAATTTTTTTTGGAAAGCTTTTTTTTCCTCC
723374 CTTTTTACTC
Statistics
Matches: 283, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
331 13 0.05
332 185 0.65
333 85 0.30
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (332 bp):
CCACCGCTCACCGGTGGCCGTTGGCTCCCAAATTTCAGTTCTAGACTCTTTTCGACATCCTCTTT
TCAAATCCAGAATTAGATTTTTCTAATTCTTTTTAGATTTTTCTAGATCTACAAGAGAAATTCGA
ATCTTATACCTCAAATCCGATCACCGTCTACCGTCAGATCGCTCCCAAAATCTAATATGTTCTCA
CCCTTAGTGTGAACTTCTTTCTCACCGTTCGGATTTTCCAAACAATCACCAGAACCTCCTCAATC
GGAAAACCCACTTTAATTTTTTTTGGAAAGCTTTTTTTTCCTCCTTGGTCGGTCGCCGGCGACCA
CCGTCGG
Found at i:724715 original size:2 final size:2
Alignment explanation
Indices: 724708--724748 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
724698 AGGTTATAAT
724708 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
724749 ACAAAATACA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:726623 original size:2 final size:2
Alignment explanation
Indices: 726616--726652 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
726606 CAAGATTATC
726616 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
726653 TATTACAAAG
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:728481 original size:21 final size:21
Alignment explanation
Indices: 728446--728520 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
728436 ATATGGTAAT
* *
728446 TTTTAATTATAAAAATTTATT-
1 TTTTATTTA-AAAAATATATTC
728467 TTTTCATTTAAAAAATATATTC
1 TTTT-ATTTAAAAAATATATTC
** *
728489 TTTTATTTAACTAATGTA-TC
1 TTTTATTTAAAAAATATATTC
728509 ATTTTATTTAAA
1 -TTTTATTTAAA
728521 TACACATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.04
21 35 0.78
22 8 0.18
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.55
Consensus pattern (21 bp):
TTTTATTTAAAAAATATATTC
Found at i:730027 original size:2 final size:2
Alignment explanation
Indices: 730020--730045 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
730010 AGGCAATGCA
730020 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
730046 TATTAATTTT
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:730924 original size:15 final size:17
Alignment explanation
Indices: 730876--730914 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
730866 ATATTATTCT
* *
730876 TATAAAATAAA-AATTA
1 TATAATATAAATAAATA
730892 TATAATATAAATAAATA
1 TATAATATAAATAAATA
730909 TATAAT
1 TATAAT
730915 TAATACATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAATATAAATAAATA
Found at i:731444 original size:41 final size:42
Alignment explanation
Indices: 731399--731478 Score: 103
Period size: 41 Copynumber: 1.9 Consensus size: 42
731389 ATCTCAATTT
* *
731399 TAAATAAA-AATAATAAA-ATAAA-AATATTATTAATTATTTTA
1 TAAATAAATAA-AATAAACACAAATAATAATATT-ATTATTTTA
731440 TAAATAAATAAAATAAACACAAATAATAATATTATTATT
1 TAAATAAATAAAATAAACACAAATAATAATATTATTATT
731479 AATTAAAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 14 0.41
42 12 0.35
43 8 0.24
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (42 bp):
TAAATAAATAAAATAAACACAAATAATAATATTATTATTTTA
Found at i:732101 original size:1 final size:1
Alignment explanation
Indices: 732097--732122 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
732087 ATGGGGTGAA
732097 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
732123 GTCGAGTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:733378 original size:30 final size:30
Alignment explanation
Indices: 733325--733382 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
733315 TTAATTTATG
**
733325 TTAAAAGTTTATTTAAGTTTAAATTAAAAA
1 TTAAAAGTTTATTTAAGAATAAATTAAAAA
733355 TTAAAAGTTTATTTGAA-AATAAATTAAA
1 TTAAAAGTTTATTT-AAGAATAAATTAAA
733383 GGTTAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (30 bp):
TTAAAAGTTTATTTAAGAATAAATTAAAAA
Found at i:736444 original size:52 final size:50
Alignment explanation
Indices: 736368--736465 Score: 124
Period size: 52 Copynumber: 1.9 Consensus size: 50
736358 TAAAAGATTA
* ** * * *
736368 TATTTTCGTATTTATATTTGAATATGTCTCGAATATAGATATTGAATATAAG
1 TATTTTCATATTTATATTAAAATATATATCGAACAT--ATATTGAATATAAG
736420 TATTTTCATATTTATATTAAAATATATATCGAACATATATTGAATA
1 TATTTTCATATTTATATTAAAATATATATCGAACATATATTGAATA
736466 CAAGCCATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 10 0.25
52 30 0.75
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (50 bp):
TATTTTCATATTTATATTAAAATATATATCGAACATATATTGAATATAAG
Found at i:737296 original size:4 final size:4
Alignment explanation
Indices: 737272--737387 Score: 61
Period size: 4 Copynumber: 29.0 Consensus size: 4
737262 GACATGCTCC
* * * * * *
737272 TATA CATA TAGA TACA TATA TATA TATA TATA TATA TACA TATG TACA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * ** * * ** * * * * *
737320 TATG CACG TATA CATA TATA CACG TGTA TATA TATA CATG TATG TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
737368 TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA
737388 CAATTTAGAT
Statistics
Matches: 81, Mismatches: 31, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
4 81 1.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.41
Consensus pattern (4 bp):
TATA
Found at i:737387 original size:16 final size:16
Alignment explanation
Indices: 737272--737389 Score: 74
Period size: 16 Copynumber: 7.4 Consensus size: 16
737262 GACATGCTCC
* *
737272 TATACATATAGATACA
1 TATACATATATATATA
*
737288 TATATATATATATATA
1 TATACATATATATATA
* * * *
737304 TATATACATATGTACA
1 TATACATATATATATA
* ** *
737320 TATGCACGTATACATA
1 TATACATATATATATA
** *
737336 TATACACGTGTATATA
1 TATACATATATATATA
* * *
737352 TATACATGTATGTATG
1 TATACATATATATATA
*
737368 TATATATATATATATA
1 TATACATATATATATA
737384 TATACA
1 TATACA
737390 ATTTAGATGG
Statistics
Matches: 78, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 78 1.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (16 bp):
TATACATATATATATA
Found at i:738253 original size:30 final size:30
Alignment explanation
Indices: 738218--738329 Score: 102
Period size: 30 Copynumber: 3.7 Consensus size: 30
738208 TTTTAAGTAT
*
738218 AAATTAAAAGATAAAAAATTATTTGGGTAC
1 AAATTAAAAGATAAAAATTTATTTGGGTAC
* * *
738248 AAATT-AAAGATGAAGAATTTATTTGGTTAT
1 AAATTAAAAGAT-AAAAATTTATTTGGGTAC
* * **
738278 GAATTAAAAGTTAAAAATTTATTTGAATAC
1 AAATTAAAAGATAAAAATTTATTTGGGTAC
*
738308 -AATTAAAGTGTATAAAAATTTA
1 AAATTAAA-AG-ATAAAAATTTA
738330 CTTAGATAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
29 13 0.20
30 38 0.58
31 15 0.23
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (30 bp):
AAATTAAAAGATAAAAATTTATTTGGGTAC
Found at i:739002 original size:18 final size:20
Alignment explanation
Indices: 738981--739019 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
738971 TTGTGTTTCT
*
738981 AAAACT-ATATTTAA-AAAA
1 AAAACTAATATCTAACAAAA
738999 AAAACTAATATCTAACAAAA
1 AAAACTAATATCTAACAAAA
739019 A
1 A
739020 GATTATAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAACTAATATCTAACAAAA
Found at i:739018 original size:19 final size:18
Alignment explanation
Indices: 738981--739034 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
738971 TTGTGTTTCT
*
738981 AAAACTATATTTAAAAAA
1 AAAACTATATCTAAAAAA
*
738999 AAAACTAATATCTAACAAA
1 AAAACT-ATATCTAAAAAA
* *
739018 AAGATTATAATCTAAAA
1 AAAACTAT-ATCTAAAA
739035 GTAAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAACTATATCTAAAAAA
Found at i:739638 original size:34 final size:34
Alignment explanation
Indices: 739600--739667 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
739590 CGTGACATAA
*
739600 AATATATCT-AAAT-TTATATATAATATAAATTATT
1 AATAT-TCTAAAATATTATATA-AATATAAAATATT
*
739634 AATATTTTAAAATATTATATAAATATAAAATATT
1 AATATTCTAAAATATTATATAAATATAAAATATT
739668 TTAAATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 2 0.07
34 21 0.70
35 7 0.23
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (34 bp):
AATATTCTAAAATATTATATAAATATAAAATATT
Found at i:739648 original size:28 final size:27
Alignment explanation
Indices: 739617--739709 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 27
739607 CTAAATTTAT
*
739617 ATATAATATAAATTATTAATATTTTAAA
1 ATATAATATAAA-TATAAATATTTTAAA
*
739645 ATATTATATAAATATAAAATATTTT-AA
1 ATATAATATAAATAT-AAATATTTTAAA
* *
739672 ATATAAT-TATAATA-AAATAATATAAA
1 ATATAATATA-AATATAAATATTTTAAA
739698 ATATAATATAAA
1 ATATAATATAAA
739710 ACATAAATTA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
25 7 0.12
26 13 0.23
27 17 0.30
28 19 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
ATATAATATAAATATAAATATTTTAAA
Found at i:739717 original size:28 final size:28
Alignment explanation
Indices: 739617--739723 Score: 96
Period size: 27 Copynumber: 3.9 Consensus size: 28
739607 CTAAATTTAT
* * *
739617 ATATAATATAAATTATTAATATTTTAAA
1 ATATAATATAAAATATAAATAATTTAAA
* *
739645 ATATTATAT-AAATATAAA-ATATTTTAA
1 ATATAATATAAAATATAAATA-ATTTAAA
* *
739672 ATATAAT-TATAATA-AAATAATATAAA
1 ATATAATATAAAATATAAATAATTTAAA
*
739698 ATATAATATAAAACATAAATTAATTT
1 ATATAATATAAAATATAAA-TAATTT
739724 CAAGTCATTA
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
26 17 0.28
27 28 0.46
28 11 0.18
29 5 0.08
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (28 bp):
ATATAATATAAAATATAAATAATTTAAA
Found at i:740284 original size:27 final size:27
Alignment explanation
Indices: 740254--740341 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
740244 GTATTTAAAA
740254 ATATTATATATTTATATAAATTTTAAT
1 ATATTATATATTTATATAAATTTTAAT
*
740281 ATATTAATAATTTATATTATATGAATTTTAAT
1 ATATT-AT-A--TAT-TTATATAAATTTTAAT
* * *
740313 ATATTTTATATTTATATTAATTTTTAT
1 ATATTATATATTTATATAAATTTTAAT
740340 AT
1 AT
740342 TTTAATTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
27 21 0.40
28 5 0.10
29 1 0.02
30 1 0.02
31 4 0.08
32 20 0.38
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (27 bp):
ATATTATATATTTATATAAATTTTAAT
Found at i:740290 original size:18 final size:18
Alignment explanation
Indices: 740259--740322 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
740249 TAAAAATATT
740259 ATATATTTATATAAATTTTA
1 ATATA-TTATAT-AATTTTA
740279 ATATATTA-ATAA--TT-
1 ATATATTATATAATTTTA
740293 -TATATTATATGAATTTTA
1 ATATATTATAT-AATTTTA
*
740311 ATATATTTTATA
1 ATATATTATATA
740323 TTTATATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
13 7 0.19
14 2 0.05
15 4 0.11
17 4 0.11
18 3 0.08
19 12 0.32
20 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATATATTATATAATTTTA
Found at i:740301 original size:32 final size:32
Alignment explanation
Indices: 740254--740371 Score: 112
Period size: 32 Copynumber: 3.5 Consensus size: 32
740244 GTATTTAAAA
740254 ATATTATATATTTATATAAATTTTAATATATTA-
1 ATATT-TATA-TTATATAAATTTTAATATATTAT
* *
740287 ATAATTTATATTATATGAATTTTAATATATTTT
1 AT-ATTTATATTATATAAATTTTAATATATTAT
* * *
740320 ATATTTATATTAATTTTTATATTTTAATTATTTTAT
1 ATATTTATATT-A--TATAAATTTTAA-TATATTAT
740356 ATCATTTATATTATAT
1 AT-ATTTATATTATAT
740372 CATTTAATTA
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
32 29 0.41
33 9 0.13
34 5 0.07
35 9 0.13
36 9 0.13
37 9 0.13
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (32 bp):
ATATTTATATTATATAAATTTTAATATATTAT
Found at i:740326 original size:16 final size:16
Alignment explanation
Indices: 740307--740357 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
740297 TTATATGAAT
740307 TTTAATATATTTTATA
1 TTTAATATATTTTATA
740323 TTT-ATATTAATTTTTATA
1 TTTAATA-T-A-TTTTATA
740341 TTTTAAT-TATTTTATA
1 -TTTAATATATTTTATA
740357 T
1 T
740358 CATTTATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
15 4 0.13
16 11 0.37
17 2 0.07
18 8 0.27
19 3 0.10
20 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTAATATATTTTATA
Found at i:740339 original size:18 final size:18
Alignment explanation
Indices: 740316--740368 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
740306 TTTTAATATA
740316 TTTTATATTTATATTAAT
1 TTTTATATTTATATTAAT
740334 TTTTATATTT-TAATT-AT
1 TTTTATATTTAT-ATTAAT
740351 TTTATATCATTTATATTA
1 TTT-TAT-ATTTATATTA
740369 TATCATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 6 0.20
18 16 0.53
19 7 0.23
20 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATATTTATATTAAT
Found at i:740344 original size:25 final size:25
Alignment explanation
Indices: 740291--740350 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 25
740281 ATATTAATAA
740291 TTTATATTATATGAATTTTAATATAT
1 TTTATATTATATGAATTTT-ATATAT
*
740317 TTTATATTTATATTAATTTT-TATAT
1 TTTATA-TTATATGAATTTTATATAT
740342 TTTA-ATTAT
1 TTTATATTAT
740351 TTTATATCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 4 0.12
24 1 0.03
25 9 0.28
26 6 0.19
27 12 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTATATTATATGAATTTTATATAT
Found at i:740351 original size:27 final size:28
Alignment explanation
Indices: 740262--740384 Score: 92
Period size: 32 Copynumber: 4.2 Consensus size: 28
740252 AAATATTATA
*
740262 TATTTATATAAATTTTAATATATTAATAATT
1 TATTTATATAAATTTT-ATATATT-TTAA-T
*
740293 TATATTATATGAATTTTAATATATTTT-A-
1 TAT-TTATATAAATTTT-ATATATTTTAAT
*
740321 TATTTATATTAATTTT-TATATTTTAAT
1 TATTTATATAAATTTTATATATTTTAAT
*
740348 TATTT-TATATCATTTATATTATATCATTTAAT
1 TATTTATATA-AATTT-TA-TATAT--TTTAAT
740380 TATTT
1 TATTT
740385 TGACTACAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
25 8 0.10
26 4 0.05
27 21 0.27
28 4 0.05
30 6 0.08
31 4 0.05
32 31 0.40
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (28 bp):
TATTTATATAAATTTTATATATTTTAAT
Found at i:740364 original size:14 final size:14
Alignment explanation
Indices: 740312--740382 Score: 57
Period size: 14 Copynumber: 5.6 Consensus size: 14
740302 TGAATTTTAA
*
740312 TATATTTTAT-ATT
1 TATATTATATCATT
*
740325 TATATTA-AT-TTT
1 TATATTATATCATT
*
740337 TATATT-T-T-AAT
1 TATATTATATCATT
*
740348 TATTTTATATCATT
1 TATATTATATCATT
740362 TATATTATATCATT
1 TATATTATATCATT
740376 TA-ATTAT
1 TATATTAT
740383 TTTGACTACA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
11 7 0.15
12 11 0.23
13 12 0.26
14 17 0.36
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
TATATTATATCATT
Found at i:740973 original size:29 final size:29
Alignment explanation
Indices: 740941--741006 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
740931 TTGTAATTTC
* *
740941 TTTTGAATGGAGT-TTAATTTTATAAATAA
1 TTTTGAATGGA-TCTCAAATTTATAAATAA
* * *
740970 TTTTGATTTGATCTCAAATTTATAAATAT
1 TTTTGAATGGATCTCAAATTTATAAATAA
740999 TTTTGAAT
1 TTTTGAAT
741007 TATACAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.52
Consensus pattern (29 bp):
TTTTGAATGGATCTCAAATTTATAAATAA
Found at i:742239 original size:29 final size:30
Alignment explanation
Indices: 742139--742251 Score: 133
Period size: 29 Copynumber: 3.8 Consensus size: 30
742129 AATTTTTTTA
* *
742139 TTATATTTAAATAAA-TGCTTAACCTTTAAT
1 TTATATCTAAATAAACT-CTTAATCTTTAAT
*
742169 TTACATCTAAATAAAACTCTTAATCTTTAAT
1 TTATATCTAAAT-AAACTCTTAATCTTTAAT
*
742200 TTATA-CTTAAATAAGCTCTTAATC-TTAAT
1 TTATATC-TAAATAAACTCTTAATCTTTAAT
*
742229 TTTTATCTAAATAAACTCTTAAT
1 TTATATCTAAATAAACTCTTAAT
742252 ATAAATCTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
29 24 0.33
30 23 0.32
31 24 0.33
32 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (30 bp):
TTATATCTAAATAAACTCTTAATCTTTAAT
Found at i:742452 original size:194 final size:193
Alignment explanation
Indices: 742201--742565 Score: 489
Period size: 194 Copynumber: 1.9 Consensus size: 193
742191 ATCTTTAATT
* * * *
742201 TATACTTAAATAAGCTCTTAATCTTAATTTTTATCTAAATAAACTCTTAATATAAATCTACATTT
1 TATACTAAAATAAACTATTAATCTTAATTTTTATCTAAATAAACTCTTAATATAAATCTACGTTT
* * ** *
742266 -TGTTGAACTAAATATTTGTTTACATATAAATAAAAAGGTAAGAAATTATTTTAAATAAAATAAA
66 GT-TTAAACTAAAGATTAATTTACATATAAATAAAAAGATAAGAAATTA-TTTAAATAAAATAAA
*
742330 ATATAAAGACATGCATAAAACCATGAAATAATTGAAGAATTTTATAAAACACGTAATATATAACC
129 ATATAAAGACATGCATAAAACCATGAAATAATTAAAGAATTTTATAAAACACGTAATATATAACC
*
742395 TATACTAAAATAAACTATTAATCTTAATTTTTATTTAAATAAACTCTTAATATAAATCTACGTTT
1 TATACTAAAATAAACTATTAATCTTAATTTTTATCTAAATAAACTCTTAATATAAATCTACGTTT
* * * ** ** *
742460 GTTTAAACTAAGGATTAATTTGCTTATAAATCGAAAGATAAGAGTTTATTTAAATAAATTAAAAT
66 GTTTAAACTAAAGATTAATTTACATATAAATAAAAAGATAAGAAATTATTTAAATAAAATAAAAT
* * ***
742525 ATAAAGACTTGTATAAAAGGGTGAAATAATTAAAGAATTTT
131 ATAAAGACATGCATAAAACCATGAAATAATTAAAGAATTTT
742566 TTTTAATAAT
Statistics
Matches: 146, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
193 51 0.35
194 94 0.64
195 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (193 bp):
TATACTAAAATAAACTATTAATCTTAATTTTTATCTAAATAAACTCTTAATATAAATCTACGTTT
GTTTAAACTAAAGATTAATTTACATATAAATAAAAAGATAAGAAATTATTTAAATAAAATAAAAT
ATAAAGACATGCATAAAACCATGAAATAATTAAAGAATTTTATAAAACACGTAATATATAACC
Found at i:743040 original size:22 final size:20
Alignment explanation
Indices: 742976--743044 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 20
742966 ATACGATTAC
742976 ATAACATAAATATAATAAAAA
1 ATAACATAAA-ATAATAAAAA
*
742997 ATAA-TTAAAATACGATAAAAAA
1 ATAACATAAAATA--AT-AAAAA
743019 ATAACATAAACATAATATAAAA
1 ATAACATAAA-ATAATA-AAAA
743041 ATAA
1 ATAA
743045 AAATATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 3 0.08
20 4 0.10
21 7 0.17
22 19 0.47
23 4 0.10
24 3 0.08
ACGTcount: A:0.70, C:0.06, G:0.01, T:0.23
Consensus pattern (20 bp):
ATAACATAAAATAATAAAAA
Found at i:743443 original size:2 final size:2
Alignment explanation
Indices: 743401--743425 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
743391 TTATCCTTAA
743401 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
743426 ATAATTTAGG
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:745621 original size:16 final size:17
Alignment explanation
Indices: 745576--745620 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
745566 AATTATTTGG
745576 AATTTTATTTTTAATTA
1 AATTTTATTTTTAATTA
745593 AATTTTATTTTTAATTA
1 AATTTTATTTTTAATTA
*
745610 ATTTTTTATTT
1 A-ATTTTATTT
745621 AGTAAAGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
AATTTTATTTTTAATTA
Found at i:745987 original size:24 final size:24
Alignment explanation
Indices: 745960--746007 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
745950 TACAATAGAC
745960 TTCCTACTCCTTTGAATGAATACA
1 TTCCTACTCCTTTGAATGAATACA
745984 TTCCTACTCCTTTGAATGAATACA
1 TTCCTACTCCTTTGAATGAATACA
746008 AATATAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (24 bp):
TTCCTACTCCTTTGAATGAATACA
Found at i:746398 original size:20 final size:19
Alignment explanation
Indices: 746373--746444 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
746363 TACTCGGATT
*
746373 TATCGATACATTTTTCAATA
1 TATCGATACATTTAT-AATA
*
746393 TATCGATACATGTATGAATA
1 TATCGATACATTTAT-AATA
* * *
746413 TATCGATATATTCTGTAATG
1 TATCGATACATT-TATAATA
746433 TATCGATACATT
1 TATCGATACATT
746445 ATCTCTTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (19 bp):
TATCGATACATTTATAATA
Found at i:749986 original size:7 final size:7
Alignment explanation
Indices: 749974--750021 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
749964 TTTGAATACG
749974 ATATAAT
1 ATATAAT
*
749981 ATATAAG
1 ATATAAT
749988 ATATAAT
1 ATATAAT
749995 -TA-AA-
1 ATATAAT
749999 ATATAAT
1 ATATAAT
750006 ATA-AA-
1 ATATAAT
750011 ATATAAT
1 ATATAAT
750018 ATAT
1 ATAT
750022 TGTAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
5 7 0.21
6 8 0.24
7 19 0.56
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (7 bp):
ATATAAT
Found at i:750012 original size:12 final size:12
Alignment explanation
Indices: 749974--750020 Score: 69
Period size: 12 Copynumber: 3.8 Consensus size: 12
749964 TTTGAATACG
749974 ATATAATATATAA
1 ATATAATATA-AA
749987 GATATAAT-TAAA
1 -ATATAATATAAA
749999 ATATAATATAAA
1 ATATAATATAAA
750011 ATATAATATA
1 ATATAATATA
750021 TTGTAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 7 0.22
12 16 0.50
13 2 0.06
14 7 0.22
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATATAATATAAA
Found at i:750977 original size:12 final size:12
Alignment explanation
Indices: 750943--750987 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
750933 TTGAGTGCGT
750943 TATAATATAAAAA
1 TATAATAT-AAAA
750956 TATAAT-TAAAA
1 TATAATATAAAA
750967 TATAATATAAAA
1 TATAATATAAAA
750979 TATAATATA
1 TATAATATA
750988 TTATAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.32
12 15 0.48
13 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TATAATATAAAA
Found at i:751003 original size:14 final size:17
Alignment explanation
Indices: 750965--751013 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
750955 ATATAATTAA
*
750965 AATATAATATAAAATAT
1 AATATATTATAAAATAT
750982 AATATATTATAAAA-A-
1 AATATATTATAAAATAT
750997 AAT-TATTA-AAAATAT
1 AATATATTATAAAATAT
751012 AA
1 AA
751014 AATAAATCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 5 0.17
16 1 0.03
17 13 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATATATTATAAAATAT
Found at i:751444 original size:2 final size:2
Alignment explanation
Indices: 751437--751505 Score: 84
Period size: 2 Copynumber: 34.5 Consensus size: 2
751427 TTTTTAAACC
* * * * *
751437 TA TA TA TA TA TA TA TA TA CA CA TA TA TA TA CA TA TC CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
751479 TA TA TA TA TA TA TA TA TA CA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
751506 TAGGGACGGT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:754509 original size:23 final size:23
Alignment explanation
Indices: 754482--754534 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
754472 ACATGATTAC
* *
754482 ATAATAACATA-AATATTTAAAAA
1 ATAATAAAATATAATA-TAAAAAA
754505 ATAATAAAAATATAATATAAAAAA
1 ATAAT-AAAATATAATATAAAAAA
754529 ATAATA
1 ATAATA
754535 TTAATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 6 0.23
24 16 0.62
25 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (23 bp):
ATAATAAAATATAATATAAAAAA
Found at i:754574 original size:14 final size:14
Alignment explanation
Indices: 754557--754607 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
754547 AAATACATAA
754557 ATATATTAAAATTT
1 ATATATTAAAATTT
754571 ATATAATTGAAAATATT
1 ATAT-ATT-AAAAT-TT
*
754588 AATATATTAAATTTT
1 -ATATATTAAAATTT
754603 ATATA
1 ATATA
754608 AATATAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 9 0.28
15 5 0.16
16 9 0.28
17 5 0.16
18 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:755162 original size:15 final size:16
Alignment explanation
Indices: 755142--755175 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
755132 AAAAAATAAT
755142 TAAA-TTTATATTAAA
1 TAAATTTTATATTAAA
755157 TAAATTTTTATATTAAA
1 TAAA-TTTTATATTAAA
755174 TA
1 TA
755176 TTAGATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
17 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAATTTTATATTAAA
Found at i:755460 original size:18 final size:19
Alignment explanation
Indices: 755437--755475 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
755427 TCTCCTAACA
755437 TAATTTTTT-TATAAATAT
1 TAATTTTTTATATAAATAT
755455 TAATTTTTTATATAAATAT
1 TAATTTTTTATATAAATAT
755474 TA
1 TA
755476 CTTAGACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TAATTTTTTATATAAATAT
Found at i:756318 original size:19 final size:19
Alignment explanation
Indices: 756294--756330 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
756284 CACAAAACGT
756294 TTAATAAATATATAAATAA
1 TTAATAAATATATAAATAA
756313 TTAATAAATATATAAATA
1 TTAATAAATATATAAATA
756331 GTATAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAATAAATATATAAATAA
Found at i:756580 original size:30 final size:30
Alignment explanation
Indices: 756544--756602 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
756534 ATTAATTTAT
*
756544 ATTAAAAGTTTACTT-AATTATAAATTAAAA
1 ATTAAAAATTTACTTGAA-TATAAATTAAAA
* *
756574 ATTAAAAATTTATTTGAATATGAATTAAA
1 ATTAAAAATTTACTTGAATATAAATTAAA
756603 TTTCAATAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (30 bp):
ATTAAAAATTTACTTGAATATAAATTAAAA
Found at i:756874 original size:3 final size:3
Alignment explanation
Indices: 756866--756917 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
756856 AAATGAACTC
* *
756866 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA GAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
756914 TAA T
1 TAA T
756918 TTAACTTATG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:757144 original size:17 final size:16
Alignment explanation
Indices: 757071--757144 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
757061 ATAAATTTTT
*
757071 TAATATTTAA-AT-AC
1 TAATATTTAATATAAA
757085 TAA-ATTTAATACTAAA
1 TAATATTTAATA-TAAA
* *
757101 TAAATATTAAATATAAT
1 T-AATATTTAATATAAA
* *
757118 TAATAATTAATAAAAA
1 TAATATTTAATATAAA
757134 TATATATTTAA
1 TA-ATATTTAA
757145 ATTAAAGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
13 6 0.13
14 4 0.09
15 1 0.02
16 15 0.33
17 13 0.28
18 7 0.15
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATATTTAATATAAA
Found at i:757574 original size:16 final size:16
Alignment explanation
Indices: 757553--757584 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
757543 ACCTACCTAT
757553 TAACGAGTGTACATAC
1 TAACGAGTGTACATAC
757569 TAACGAGTGTACATAC
1 TAACGAGTGTACATAC
757585 GATAGTCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (16 bp):
TAACGAGTGTACATAC
Found at i:760780 original size:13 final size:13
Alignment explanation
Indices: 760764--760799 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
760754 TAATATAAAA
760764 TAAATTATTATTT
1 TAAATTATTATTT
*
760777 TAAATTATGATTT
1 TAAATTATTATTT
*
760790 TAAATAATTA
1 TAAATTATTA
760800 AAAAATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
TAAATTATTATTT
Found at i:761764 original size:21 final size:22
Alignment explanation
Indices: 761740--761795 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
761730 ATAGAATTGT
** *
761740 AATAAAATAATTATT-TTATGA
1 AATAAAATAATTATTGAAATAA
*
761761 AATAAAAT-ATAATTGAAATAA
1 AATAAAATAATTATTGAAATAA
761782 AATAAAATAATTAT
1 AATAAAATAATTAT
761796 AACAATAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 5 0.18
21 19 0.68
22 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
AATAAAATAATTATTGAAATAA
Found at i:762235 original size:23 final size:22
Alignment explanation
Indices: 762198--762267 Score: 65
Period size: 25 Copynumber: 3.1 Consensus size: 22
762188 CTTTTTTTAA
762198 TATTTAAAATT--TAAATATTT
1 TATTTAAAATTAGTAAATATTT
762218 TATTTGAAAATTAGTAAAAATATTT
1 TATTT-AAAATTAGT--AAATATTT
*
762243 TATTTTAATAATTAGT-ATTATTT
1 TA-TTTAA-AATTAGTAAATATTT
762266 TA
1 TA
762268 ATAACTAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
20 5 0.12
21 6 0.14
23 9 0.21
25 12 0.29
26 10 0.24
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TATTTAAAATTAGTAAATATTT
Found at i:762238 original size:25 final size:26
Alignment explanation
Indices: 762210--762259 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
762200 TTTAAAATTT
762210 AAATATTTTATTTGAA-AATTAGTAA
1 AAATATTTTATTTGAATAATTAGTAA
*
762235 AAATATTTTATTTTAATAATTAGTA
1 AAATATTTTATTTGAATAATTAGTA
762260 TTATTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (26 bp):
AAATATTTTATTTGAATAATTAGTAA
Found at i:762318 original size:9 final size:9
Alignment explanation
Indices: 762301--762350 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
762291 ATTTTAATAA
*
762301 TAATTTTTT
1 TAATATTTT
762310 TAATATTTT
1 TAATATTTT
*
762319 AAATA-TTT
1 TAATATTTT
762327 TAATCATTTCT
1 TAAT-ATTT-T
762338 TAATATTTT
1 TAATATTTT
762347 TAAT
1 TAAT
762351 TTAAATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
8 6 0.17
9 18 0.51
10 6 0.17
11 5 0.14
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (9 bp):
TAATATTTT
Found at i:762329 original size:17 final size:17
Alignment explanation
Indices: 762307--762358 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 17
762297 ATAATAATTT
762307 TTTTAATATTTTAAATA
1 TTTTAATATTTTAAATA
*
762324 TTTTAATCATTTCTTAATA
1 TTTTAAT-ATTT-TAAATA
*
762343 TTTT--TAATTTAAATA
1 TTTTAATATTTTAAATA
762358 T
1 T
762359 ATAATATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.20
16 3 0.10
17 8 0.27
18 4 0.13
19 9 0.30
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTAATATTTTAAATA
Found at i:762347 original size:20 final size:18
Alignment explanation
Indices: 762301--762350 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
762291 ATTTTAATAA
*
762301 TAATTTTTTTAATATTTT
1 TAATATTTTTAATATTTT
*
762319 AAATA-TTTTAATCATTTCT
1 TAATATTTTTAAT-ATTT-T
762338 TAATATTTTTAAT
1 TAATATTTTTAAT
762351 TTAAATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 7 0.27
18 7 0.27
19 5 0.19
20 7 0.27
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
TAATATTTTTAATATTTT
Found at i:762482 original size:25 final size:24
Alignment explanation
Indices: 762453--762501 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
762443 ATATGTTCCA
762453 TATAAAAACA-TTAATATTTTAATAG
1 TATAAAAA-ATTTAATA-TTTAATAG
762478 TATAAAAAATTTTAATATTTAATA
1 TATAAAAAA-TTTAATATTTAATA
762502 ATAAATATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 1 0.05
25 15 0.68
26 6 0.27
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TATAAAAAATTTAATATTTAATAG
Found at i:762581 original size:20 final size:21
Alignment explanation
Indices: 762544--762582 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
762534 ATAGAAATAA
*
762544 TATTTTAATTATAATAATACC
1 TATTTTAATGATAATAATACC
*
762565 TATTTTAA-GATATTAATA
1 TATTTTAATGATAATAATA
762583 TGATTAATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (21 bp):
TATTTTAATGATAATAATACC
Found at i:762598 original size:46 final size:46
Alignment explanation
Indices: 762541--762629 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
762531 TTGATAGAAA
* *
762541 TAATATTTTAATTAT-AATAATACCTATTTTAAGATA-TTAATATGAT
1 TAATATTTTAATAATAAAAAATA-CTATTTTAA-ATATTTAATATGAT
* *
762587 TAATGTTTTAATAATAAAAAATATTATTTTAAATATTTAATAT
1 TAATATTTTAATAATAAAAAATACTATTTTAAATATTTAATAT
762630 TAATATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 3 0.08
46 28 0.76
47 6 0.16
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (46 bp):
TAATATTTTAATAATAAAAAATACTATTTTAAATATTTAATATGAT
Found at i:763914 original size:9 final size:9
Alignment explanation
Indices: 763900--763930 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
763890 TAAATAAAAT
*
763900 ATTTTTTAA
1 ATTTTTTTA
763909 ATTTTTTTA
1 ATTTTTTTA
763918 ATTTTTTTA
1 ATTTTTTTA
763927 ATTT
1 ATTT
763931 CATAGTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:764523 original size:8 final size:8
Alignment explanation
Indices: 764510--764534 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
764500 AATACAGAAA
764510 AAAATAAT
1 AAAATAAT
764518 AAAATAAT
1 AAAATAAT
764526 AAAATAAT
1 AAAATAAT
764534 A
1 A
764535 GAGAATTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATAAT
Found at i:764886 original size:14 final size:15
Alignment explanation
Indices: 764851--764884 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
764841 TTCCAAATTC
*
764851 AAAAATTTAATTGTG
1 AAAAATTTAATTATG
*
764866 AAAAATTTTATTATG
1 AAAAATTTAATTATG
764881 AAAA
1 AAAA
764885 TTATAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (15 bp):
AAAAATTTAATTATG
Found at i:765549 original size:23 final size:23
Alignment explanation
Indices: 765521--765583 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
765511 AATTATAAGT
* *
765521 TTATTATTTTTATTTATTTTAAA
1 TTATTATTTATATTGATTTTAAA
* *
765544 TTATTAGTTATATTGATTTTGAA
1 TTATTATTTATATTGATTTTAAA
* * *
765567 TTAATATTAATTTTGAT
1 TTATTATTTATATTGAT
765584 GTAACAAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (23 bp):
TTATTATTTATATTGATTTTAAA
Found at i:766694 original size:17 final size:20
Alignment explanation
Indices: 766653--766694 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
766643 ATTGAATTTC
766653 TTAATTTATATAATTAAAGTT
1 TTAATTTATATAA-TAAAGTT
766674 TTAATTTATA-AA-AAA-TT
1 TTAATTTATATAATAAAGTT
766691 TTAA
1 TTAA
766695 AAAATCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
18 3 0.14
20 2 0.10
21 10 0.48
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTAATTTATATAATAAAGTT
Found at i:768088 original size:32 final size:31
Alignment explanation
Indices: 768026--768089 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
768016 ATATGTTATG
* * *
768026 TAATTTATATCATATAAAGATTAAATATATA
1 TAATTTATAACATATAAAAATTAAAAATATA
768057 TAATATTATAACATA-AAAAATTAAAAAATATA
1 TAAT-TTATAACATATAAAAATT-AAAAATATA
768089 T
1 T
768090 TAAATTGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (31 bp):
TAATTTATAACATATAAAAATTAAAAATATA
Found at i:768160 original size:19 final size:19
Alignment explanation
Indices: 768136--768193 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
768126 TATAATTACT
768136 AAATATTAAATAAAAAATA
1 AAATATTAAATAAAAAATA
***
768155 AAATATTTTTTAAAAAATTA
1 AAATATTAAATAAAAAA-TA
*
768175 AAAT-TTAAA-AAAAATTA
1 AAATATTAAATAAAAAATA
768192 AA
1 AA
768194 TCTTTTACTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 4 0.13
18 5 0.16
19 16 0.52
20 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATATTAAATAAAAAATA
Found at i:768788 original size:22 final size:22
Alignment explanation
Indices: 768763--768810 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
768753 ATATATAATA
768763 AAATAATAAT-TTATCAAAAAGT
1 AAATAAT-ATCTTATCAAAAAGT
* *
768785 AAATTATATCTTATCAAAAATT
1 AAATAATATCTTATCAAAAAGT
768807 AAAT
1 AAAT
768811 TCTATCATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATAATATCTTATCAAAAAGT
Found at i:768811 original size:22 final size:22
Alignment explanation
Indices: 768773--768816 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
768763 AAATAATAAT
768773 TTATCAAAAAGTAAATTATATC
1 TTATCAAAAAGTAAATTATATC
* *
768795 TTATCAAAAATTAAATTCTATC
1 TTATCAAAAAGTAAATTATATC
768817 ATGAGCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (22 bp):
TTATCAAAAAGTAAATTATATC
Found at i:769719 original size:15 final size:15
Alignment explanation
Indices: 769689--769748 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
769679 ATATAATTAA
769689 TTTGTAAT-ATATAAT
1 TTTGTAATAATA-AAT
769704 TTTGTAATAATAAAT
1 TTTGTAATAATAAAT
* *
769719 TATT-TAAAAATTAAT
1 T-TTGTAATAATAAAT
*
769734 TTTAT-ATAATAAAT
1 TTTGTAATAATAAAT
769748 T
1 T
769749 AATTTTATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 10 0.26
15 23 0.61
16 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TTTGTAATAATAAAT
Found at i:770770 original size:24 final size:24
Alignment explanation
Indices: 770742--770791 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
770732 TAAACTTTAC
*
770742 TTGCTCAACATGTGTTGGGCTCTT
1 TTGCTCAACATGTGCTGGGCTCTT
** *
770766 TTGCTTGACATGTGCTGGGCTTTT
1 TTGCTCAACATGTGCTGGGCTCTT
770790 TT
1 TT
770792 ATTAAATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.10, C:0.18, G:0.26, T:0.46
Consensus pattern (24 bp):
TTGCTCAACATGTGCTGGGCTCTT
Found at i:771735 original size:12 final size:11
Alignment explanation
Indices: 771715--771753 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
771705 ATTCATTCAT
771715 ATTATTTTTTA
1 ATTATTTTTTA
771726 ATTGATTTTTTAA
1 ATT-ATTTTTT-A
771739 ATATATTTTTTA
1 AT-TATTTTTTA
771751 ATT
1 ATT
771754 TAATCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.16
12 10 0.40
13 10 0.40
14 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (11 bp):
ATTATTTTTTA
Found at i:772898 original size:20 final size:21
Alignment explanation
Indices: 772869--772907 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
772859 AATTTAAATT
772869 AAAATAATTTTAAATGTTAAA
1 AAAATAATTTTAAATGTTAAA
*
772890 AAAAT-ATTTTTAATGTTA
1 AAAATAATTTTAAATGTTA
772908 TATAAGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
AAAATAATTTTAAATGTTAAA
Found at i:775423 original size:13 final size:14
Alignment explanation
Indices: 775392--775421 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
775382 AAATTCGTAG
*
775392 CCCAATGACAGACC
1 CCCAATGAAAGACC
775406 CCCAATGAAAGACC
1 CCCAATGAAAGACC
775420 CC
1 CC
775422 AAAGGAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.43, G:0.13, T:0.07
Consensus pattern (14 bp):
CCCAATGAAAGACC
Found at i:780337 original size:17 final size:17
Alignment explanation
Indices: 780311--780347 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
780301 TTTTTGGCTG
*
780311 AAAATTAAAAAAAAATA
1 AAAATAAAAAAAAAATA
*
780328 AAAATAAAAAGAAAATA
1 AAAATAAAAAAAAAATA
780345 AAA
1 AAA
780348 GAATATTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAATAAAAAAAAAATA
Found at i:780647 original size:21 final size:21
Alignment explanation
Indices: 780618--780670 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
780608 TTTAATAAGT
780618 TTTTATATATTAATATTT-TATA
1 TTTT-TATATTAATATTTATA-A
780640 TTTTTATATT-ATATTTATAA
1 TTTTTATATTAATATTTATAA
780660 TTTTT-TATTAA
1 TTTTTATATTAA
780671 AAATTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.14
20 13 0.45
21 8 0.28
22 4 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTATATTAATATTTATAA
Found at i:780681 original size:20 final size:21
Alignment explanation
Indices: 780652--780692 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
780642 TTTATATTAT
* *
780652 ATTTATAATTTTTTATTAAAA
1 ATTTATAATTTGTAATTAAAA
780673 ATTTA-AATTTGTAATTAAAA
1 ATTTATAATTTGTAATTAAAA
780693 GATGAGTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTTATAATTTGTAATTAAAA
Found at i:783854 original size:158 final size:158
Alignment explanation
Indices: 783563--783867 Score: 375
Period size: 158 Copynumber: 1.9 Consensus size: 158
783553 TATCTATTAC
* * * *
783563 ATTTTTATTATCTATATATAATTTAAATTTTGAGTAAATTTAAAAAAATACCTTATAATTTTAGT
1 ATTTTTATTATCTATATATAATTTAAATTTTGAGCAAACTTAAAAAAACACCTTATAATTTTAAT
* *
783628 AAAAATCAATTAAACCCCTCGTGCTTTAAAAATTATTACTTTACTCCATAATGATATATTTCCAT
66 AAAAATCAATTAAACCCCTCATGCTTTAAAAATTATTACTTTACTCCACAATGATATATTTCCAT
* *
783693 CCAAAATTGGTTTAACGTGATTTAAAAA
131 CCAAAACTGATTTAACGTGATTTAAAAA
* * * *
783721 ATTTTTATTGTCT-TCATGTAATTTAAATTTTG-GACAAACTTCAAAAAGCACCTTATAATTTTA
1 ATTTTTATTATCTAT-ATATAATTTAAATTTTGAG-CAAACTTAAAAAAACACCTTATAATTTTA
* * ** * *
783784 ATAATATTCAATTAAGTCCCTCATG-TTATAAAAATTATTACTTTACTTCCCCAATGAT-TTTTT
64 ATAAAAATCAATTAAACCCCTCATGCTT-TAAAAATTATTACTTTAC-TCCACAATGATATATTT
*
783847 CCGTCCAAAACTGATTTAACG
127 CCATCCAAAACTGATTTAACG
783868 ACGTTTAAAA
Statistics
Matches: 124, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
157 4 0.03
158 111 0.90
159 9 0.07
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.41
Consensus pattern (158 bp):
ATTTTTATTATCTATATATAATTTAAATTTTGAGCAAACTTAAAAAAACACCTTATAATTTTAAT
AAAAATCAATTAAACCCCTCATGCTTTAAAAATTATTACTTTACTCCACAATGATATATTTCCAT
CCAAAACTGATTTAACGTGATTTAAAAA
Found at i:784755 original size:19 final size:18
Alignment explanation
Indices: 784727--784764 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
784717 GTTATTTGTC
*
784727 TTTTATATGCTGTCATTA
1 TTTTATATGCTCTCATTA
784745 TTTTAATATGCTCTCATTA
1 TTTT-ATATGCTCTCATTA
784764 T
1 T
784765 GTGTTACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.24, C:0.13, G:0.08, T:0.55
Consensus pattern (18 bp):
TTTTATATGCTCTCATTA
Done.