Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001989.1 Hibiscus syriacus cultivar Beakdansim tig00004063_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 499561
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 1 of 3
Found at i:2085 original size:13 final size:13
Alignment explanation
Indices: 2069--2094 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2059 AAAGTCATCT
2069 AAAATGTTATGTA
1 AAAATGTTATGTA
2082 AAAATGTTATGTA
1 AAAATGTTATGTA
2095 GTATTGTTTG
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:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
AAAATGTTATGTA
Found at i:9063 original size:74 final size:74
Alignment explanation
Indices: 8917--9116 Score: 271
Period size: 74 Copynumber: 2.7 Consensus size: 74
8907 GATTGAATCA
* * *
8917 GTATCGATACCGACAAGGTAGTATCGATACCAT-GTAAGG--GTATCAATACCAGGAAACATCGA
1 GTATCGATACCGA-AAGG-GGTATCGATACCATAGTATGGTAGTATCGATACCAGGAAACATCGA
8979 ATCTAAAATTG
64 ATCTAAAATTG
* * ** *
8990 GTATCGATACCGAAAGGGGTATCGATACCATAGTATGGTAGTGTCGATACTAGGCCACATGGAAT
1 GTATCGATACCGAAAGGGGTATCGATACCATAGTATGGTAGTATCGATACCAGGAAACATCGAAT
9055 CTAAAATTG
66 CTAAAATTG
*
9064 GTATCGATACCGGAAGGGGGTATCGATACCATAGTATGGTAGTATCGATACCA
1 GTATCGATACC-GAAAGGGGTATCGATACCATAGTATGGTAGTATCGATACCA
9117 TGGTAGGGGT
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
71 13 0.12
72 9 0.08
73 13 0.12
74 39 0.35
75 38 0.34
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (74 bp):
GTATCGATACCGAAAGGGGTATCGATACCATAGTATGGTAGTATCGATACCAGGAAACATCGAAT
CTAAAATTG
Found at i:9111 original size:22 final size:20
Alignment explanation
Indices: 9083--9134 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
9073 CCGGAAGGGG
9083 GTATCGATACCATAGTATGGTA
1 GTATCGATACCATAGTA-GG-A
* *
9105 GTATCGATACCATGGTAGGG
1 GTATCGATACCATAGTAGGA
9125 GTATCGATAC
1 GTATCGATAC
9135 TAAAGAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 10 0.36
21 2 0.07
22 16 0.57
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (20 bp):
GTATCGATACCATAGTAGGA
Found at i:9516 original size:59 final size:59
Alignment explanation
Indices: 9459--9914 Score: 587
Period size: 59 Copynumber: 7.7 Consensus size: 59
9449 ATATCACTAA
** * *
9459 GTGTGCAAAAATGACAAGAAATTCATACTAAGTGTATGTATTTTCGTATTGGGCACTAC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTC
*
9518 GTGTGCAAAAATGTTAA-AACATTTATACTAAGTGTATGAA-TTTCTGTATTGGGCACTTC
1 GTGTGCAAAAATGTTAAGAA-ATTCATACTAAGTGTATGAATTTTC-GTATTGGGCACTTC
* * *
9577 GTGTGCAAAAATGTTAAGAAAATCATACTAAGTGTATGAATTTCCGTATTGGGCAGTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTC
* * * *
9636 GTGTGAAAAAAAATGTTAAGAAATTCATACCAAGTGTATGAATTTTCGTATTGGACACTTT
1 GTGTG--CAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTC
* * * **
9697 GTGTGCAAAAATATTAAGAAATTCATACTAAGAGTATGAATTTCCGTATTATGCACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTC
* * * *
9756 GTGTGAAAAAATGTTCAGGAATTCATACTAAGTGTATGAATTTTAGTATTGGGCACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTC
* * *
9815 GTGTGCAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTC
** * * *
9873 GTGTGC-AAACCGTTTAGAGATTCATACTAAGTGTATAAATTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTT
9915 CCATATGGGA
Statistics
Matches: 345, Mismatches: 45, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
57 3 0.01
58 81 0.23
59 204 0.59
60 5 0.01
61 52 0.15
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (59 bp):
GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTC
Found at i:9768 original size:179 final size:176
Alignment explanation
Indices: 9459--9916 Score: 598
Period size: 179 Copynumber: 2.6 Consensus size: 176
9449 ATATCACTAA
* ** * **
9459 GTGTGCAAAAATGACAAGAAATTCATACTAAGTGTATGTATTTTCGTATTGGGCACTACGTGTGC
1 GTGTGAAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGC
* * * *
9524 AAAAATGTTAA-AACATTTATACTAAGTGTATGAATTTCTGTATTGGGCACTTCGTGTGCAAAAA
66 AAAAAT-TTAAGAA-ATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTCGTGTGAAAAAA
* *
9588 TGTTAAGAAAATCATACTAAGTGTATGAATTTCCGTATTGGGCAGTTC
129 TGTTAAGAAAATCATACTAAGTGTATGAATTTCAGTATTGGGCACTTC
* *
9636 GTGTGAAAAAAAATGTTAAGAAATTCATACCAAGTGTATGAATTTTCGTATTGGACACTTTGTGT
1 GTGTG--AAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGT
* *
9701 GCAAAAATATTAAGAAATTCATACTAAGAGTATGAATTTCCGTATTATGCACTTCGTGTGAAAAA
64 GCAAAAAT-TTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTCGTGTGAAAAA
* * * *
9766 ATGTTCAGGAATTCATACTAAGTGTATGAATTTTAGTATTGGGCACTTC
128 ATGTTAAGAAAATCATACTAAGTGTATGAATTTCAGTATTGGGCACTTC
* * *
9815 GTGTGCAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTGTGTGC
1 GTGTGAAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGC
** * *
9879 AAACCGTTT-AGAGATTCATACTAAGTGTATAAATTTCC
66 AAA-AATTTAAGAAATTCATACTAAGTGTATGAATTTCC
9917 ATATGGGAAA
Statistics
Matches: 246, Mismatches: 31, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
175 26 0.11
176 54 0.22
177 11 0.04
179 153 0.62
180 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (176 bp):
GTGTGAAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGC
AAAAATTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTCGTGTGAAAAAATG
TTAAGAAAATCATACTAAGTGTATGAATTTCAGTATTGGGCACTTC
Found at i:12730 original size:96 final size:95
Alignment explanation
Indices: 12506--12723 Score: 265
Period size: 95 Copynumber: 2.3 Consensus size: 95
12496 ATACCGACGA
*
12506 GGTAGTATCGATACCATGATAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTGATATCGG
1 GGTAGTATCGATACCATGATAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTGATATCGA
** *
12571 CAACGGAATGAGGTATCAATACCACAATAT
66 CAACAAAAGGAGGTATCAATACCACAATAT
* * ** * *
12601 GGTAGTATTGATACCATGGTAAGGGTATCGATACCAGGTCACATTGAATCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGATAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTGATATCGA
* * * * * *
12666 TACCAAAAAGGGGGTATCGATACCATAGTAT
66 CAAC-AAAAGGAGGTATCAATACCACAATAT
* *
12697 GGTAGTATCGATACAATGTTAAGGGTA
1 GGTAGTATCGATACCATGATAAGGGTA
12724 AAGATACTGA
Statistics
Matches: 103, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
95 60 0.58
96 43 0.42
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (95 bp):
GGTAGTATCGATACCATGATAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTGATATCGA
CAACAAAAGGAGGTATCAATACCACAATAT
Found at i:13200 original size:59 final size:59
Alignment explanation
Indices: 13061--13458 Score: 579
Period size: 59 Copynumber: 6.8 Consensus size: 59
13051 ATGGCATTAA
* * *** * *
13061 GTGTGTAAAAATGTCAAGAAATTCATACTAAGTGTATGAATTTTTTATATTGGGCACTAC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAA-TTTCCGTATTGGACACTTC
13121 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGACACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGACACTTC
*
13180 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGACACTTC
*
13239 GTGTGCAAAAATGTTAAGAAATTCCTACTAAGTGTATTG-ATTTCCGTATTGGACACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTA-TGAATTTCCGTATTGGACACTTC
* * *
13298 GTGTGTAAAATTGTTAAGGAATTCATACTAAGTGTATGAATTTCCGTATTGAGA-ACTTC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG-GACACTTC
* *
13357 GTGTGCAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGACACTTC
** * *
13415 GTGTGC-AAACCGTTTAGAGATTCATACTAAGTGTATGAATTTCC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCC
13459 ATATGGGAAA
Statistics
Matches: 311, Mismatches: 22, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
57 4 0.01
58 81 0.26
59 184 0.59
60 42 0.14
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (59 bp):
GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGACACTTC
Found at i:13744 original size:14 final size:14
Alignment explanation
Indices: 13725--13751 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13715 TTCATCAGTA
13725 GGTAAAATACCCAT
1 GGTAAAATACCCAT
13739 GGTAAAATACCCA
1 GGTAAAATACCCA
13752 CTGAGTAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (14 bp):
GGTAAAATACCCAT
Found at i:18263 original size:211 final size:211
Alignment explanation
Indices: 17899--18322 Score: 803
Period size: 211 Copynumber: 2.0 Consensus size: 211
17889 AGTTGTTAAG
*
17899 GGTCCAACTCAAAAGAGACAACAATATGTTATAAAGGGTTATTTTCTTGAGATAAATTAGGACAT
1 GGTCCAACTCAAAAGAGACAACAATATGTTATAAAGGGTTATTCTCTTGAGATAAATTAGGACAT
* *
17964 ATAATGAGAAATTGAATTCCACGACAGTAAGCAACTACTTTGGTTATTCTGAGTAATTTAGGGGG
66 ATAATGAGAAATTGAATTCCACAACAGTAAGCAACTACTTTGGTTATTCTGAGAAATTTAGGGGG
18029 TTATAAGTTTTATGATCTTATAATTAGGAATATTTTCAAGGTGAGGTATATAACATTATTTTTGA
131 TTATAAGTTTTATGATCTTATAATTAGGAATATTTTCAAGGTGAGGTATATAACATTATTTTTGA
18094 GGATGTTGAGATTGGA
196 GGATGTTGAGATTGGA
*
18110 GGTCCAACTCAAAAGAGACAACAATATGTTATACAGGGTTATTCTCTTGAGATAAATTAGGACAT
1 GGTCCAACTCAAAAGAGACAACAATATGTTATAAAGGGTTATTCTCTTGAGATAAATTAGGACAT
18175 ATAATGAGAAATTGAATTCCACAACAGTAAGCAACTACTTTGGTTATTCTGAGAAATTTAGGGGG
66 ATAATGAGAAATTGAATTCCACAACAGTAAGCAACTACTTTGGTTATTCTGAGAAATTTAGGGGG
18240 TTATAAGTTTTATGATCTTATAATTAGGAATATTTTCAAGGTGAGGTATATAACATTATTTTTGA
131 TTATAAGTTTTATGATCTTATAATTAGGAATATTTTCAAGGTGAGGTATATAACATTATTTTTGA
*
18305 GGATGTTGAGTTTGGA
196 GGATGTTGAGATTGGA
18321 GG
1 GG
18323 GAGAAATAAG
Statistics
Matches: 208, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
211 208 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (211 bp):
GGTCCAACTCAAAAGAGACAACAATATGTTATAAAGGGTTATTCTCTTGAGATAAATTAGGACAT
ATAATGAGAAATTGAATTCCACAACAGTAAGCAACTACTTTGGTTATTCTGAGAAATTTAGGGGG
TTATAAGTTTTATGATCTTATAATTAGGAATATTTTCAAGGTGAGGTATATAACATTATTTTTGA
GGATGTTGAGATTGGA
Found at i:20379 original size:4 final size:4
Alignment explanation
Indices: 20360--20402 Score: 50
Period size: 4 Copynumber: 9.8 Consensus size: 4
20350 CTCATGCCTG
20360 TTTA GTTTA GTTTA TTTA TTTA TTTA TTTA TTTTA TTTCA TTT
1 TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA -TTTA TTT-A TTT
20403 TGTTTTTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 19 0.53
5 17 0.47
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:20383 original size:8 final size:8
Alignment explanation
Indices: 20360--20402 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 8
20350 CTCATGCCTG
20360 TTTAGTTTA
1 TTTA-TTTA
20369 GTTTATTTA
1 -TTTATTTA
20378 TTTATTTA
1 TTTATTTA
20386 TTTATTTTA
1 TTTA-TTTA
20395 TTTCATTT
1 TTT-ATTT
20403 TGTTTTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 12 0.39
9 14 0.45
10 5 0.16
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (8 bp):
TTTATTTA
Found at i:20442 original size:15 final size:17
Alignment explanation
Indices: 20424--20455 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
20414 TTTTACTATT
20424 TTTTTA-GTT-TGTTTC
1 TTTTTAGGTTATGTTTC
20439 TTTTTAGGTTATGTTTC
1 TTTTTAGGTTATGTTTC
20456 CACATTGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.09, C:0.06, G:0.16, T:0.69
Consensus pattern (17 bp):
TTTTTAGGTTATGTTTC
Found at i:26003 original size:30 final size:30
Alignment explanation
Indices: 25935--26008 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 30
25925 TTGAGTAAAG
* *
25935 AAATAAATACA-AATATATGATTTATTTAC
1 AAATAAATAAATAATATATGATTAATTTAC
*
25964 AAACT-AATAAATAATA-ATAGATTAATTTAT
1 AAA-TAAATAAATAATATAT-GATTAATTTAC
*
25994 AAATAAATAATTAAT
1 AAATAAATAAATAAT
26009 TAATTAAGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
29 11 0.30
30 26 0.70
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (30 bp):
AAATAAATAAATAATATATGATTAATTTAC
Found at i:26010 original size:23 final size:22
Alignment explanation
Indices: 25970--26013 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
25960 TTACAAACTA
25970 ATAAATAATAATAGATTAATTT
1 ATAAATAATAATAGATTAATTT
25992 ATAAATAAATAATTA-ATTAATT
1 ATAAAT-AATAA-TAGATTAATT
26014 AAGGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 12 0.60
24 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAAATAATAATAGATTAATTT
Found at i:26227 original size:18 final size:17
Alignment explanation
Indices: 26202--26245 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
26192 TATACACAAC
26202 TATAATATATATAAATAG
1 TATAATATATAT-AATAG
* *
26220 TCTAATATATATACTAG
1 TATAATATATATAATAG
26237 TATAATATA
1 TATAATATA
26246 CACAAACAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (17 bp):
TATAATATATATAATAG
Found at i:29332 original size:16 final size:15
Alignment explanation
Indices: 29313--29354 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
29303 CATTAGATTA
29313 GTTTTCATTTTTATTT
1 GTTTT-ATTTTTATTT
*
29329 GTTTTAGATTTTATTT
1 GTTTTA-TTTTTATTT
29345 -TTTTATTTTT
1 GTTTTATTTTT
29355 TTCTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.17
15 6 0.26
16 13 0.57
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.76
Consensus pattern (15 bp):
GTTTTATTTTTATTT
Found at i:30323 original size:18 final size:18
Alignment explanation
Indices: 30300--30340 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
30290 CAAGCTAAGA
*
30300 TCCTTACTCCAATCAATC
1 TCCTTACTACAATCAATC
*
30318 TCCTTACTACAATCGATC
1 TCCTTACTACAATCAATC
30336 TCCTT
1 TCCTT
30341 TTCATACGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.37, G:0.02, T:0.37
Consensus pattern (18 bp):
TCCTTACTACAATCAATC
Found at i:34095 original size:6 final size:6
Alignment explanation
Indices: 34080--35024 Score: 650
Period size: 6 Copynumber: 157.7 Consensus size: 6
34070 TTTTAAGTCC
* * * * * *
34080 ATATAT ATATAC ATATAT ACATAT ATACAT ATATAC ATATAC ATACAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * *
34128 ATATAT ATATAT ACATAT ATA-AT GTGTAT ATGTAT ATGTAT ATGTAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
34175 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT GTATAT GTATAT GTATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
34223 GTATAT GTATAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
34271 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * * *
34319 ATGTAT GTATAT GTATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
34367 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
34415 GTATAT GTATAT GTATAT GTATAT ATGTAT GTATAT GTATAT GTATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * * *
34463 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATGT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * * *
34511 ATATGT ATATGT ATATGT ATATGT ATGTAT GTATAT GTATAT GTATGT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
34559 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
34607 ATATGT ATATGT ATATGT ATATGT ATATGT ATGTAT ATGTAT GTATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
34655 GTATAT GTATAT GTATGT ATATGT ATATGT ATATGT ATATGT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
34703 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * * *
34751 ATGTAT ATGTAT GTATAT GTATAT GTATAT GTATGT ATATGT ATATGT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * *
34799 ATATGT ATATGT ATATGT ATATGT ATGTAT ATGTAT ATATAT ATATGT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * *
34847 ATATGT ATATGT ATGTAT ATATGT ATATAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
34895 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * *
34943 ATATAT ATATAT ATATAT ATATAT ATATGT ATGTGT ATATAT ATATGT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* *
34991 ATATAT GTATAT GTATAT ATATAT ATATAT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
35025 TGGTTTCTCT
Statistics
Matches: 870, Mismatches: 68, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
5 3 0.00
6 867 1.00
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (6 bp):
ATATAT
Found at i:34097 original size:8 final size:8
Alignment explanation
Indices: 34084--34148 Score: 103
Period size: 8 Copynumber: 7.9 Consensus size: 8
34074 AAGTCCATAT
34084 ATATATAC
1 ATATATAC
34092 ATATATAC
1 ATATATAC
34100 ATATATAC
1 ATATATAC
34108 ATATATAC
1 ATATATAC
34116 ATATACATAC
1 ATAT--ATAC
*
34126 ATATATAT
1 ATATATAC
34134 ATATATAC
1 ATATATAC
34142 ATATATA
1 ATATATA
34149 ATGTGTATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
8 45 0.85
10 8 0.15
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATATAC
Found at i:34167 original size:12 final size:12
Alignment explanation
Indices: 34152--35020 Score: 1245
Period size: 12 Copynumber: 74.1 Consensus size: 12
34142 ATATATAATG
34152 TGTATATGTATA
1 TGTATATGTATA
34164 TGTATATGTATA
1 TGTATATGTATA
34176 TGTATATGTATA
1 TGTATATGTATA
34188 TGTATATGTATA
1 TGTATATGTATA
34200 TG--TATGTATA
1 TGTATATGTATA
34210 TGTATATGTATA
1 TGTATATGTATA
34222 TGTATATGTATATA
1 TGTATATG--TATA
34236 TGTATATGTATA
1 TGTATATGTATA
34248 TGTATATGTATA
1 TGTATATGTATA
34260 TGTATATGTATA
1 TGTATATGTATA
34272 TGTATATGTATA
1 TGTATATGTATA
34284 TGTATATGTATA
1 TGTATATGTATA
34296 TGTATATGTATA
1 TGTATATGTATA
34308 TGTATATGTATA
1 TGTATATGTATA
34320 TG--TATGTATA
1 TGTATATGTATA
34330 TG--TATGTATA
1 TGTATATGTATA
34340 TGTATATGTATA
1 TGTATATGTATA
34352 TGTATATGTATA
1 TGTATATGTATA
34364 TG--TATGTATA
1 TGTATATGTATA
34374 TGTATATGTATA
1 TGTATATGTATA
34386 TGTATATGTATA
1 TGTATATGTATA
34398 TGTATATGTATA
1 TGTATATGTATA
34410 TG--TATGTATA
1 TGTATATGTATA
34420 TGTATATGTATA
1 TGTATATGTATA
* *
34432 TGTATATATGTA
1 TGTATATGTATA
34444 TGTATATGTATA
1 TGTATATGTATA
34456 TGTATATGTATA
1 TGTATATGTATA
34468 TGTATATGTATA
1 TGTATATGTATA
34480 TGTATATGTATA
1 TGTATATGTATA
34492 TGTATATGTATA
1 TGTATATGTATA
34504 TG--TATGTATA
1 TGTATATGTATA
34514 TGTATATGTATA
1 TGTATATGTATA
34526 TGTATATGTATGTA
1 TGTATATGTA--TA
34540 TGTATATGTATA
1 TGTATATGTATA
34552 TG--TATGTATA
1 TGTATATGTATA
34562 TGTATATGTATA
1 TGTATATGTATA
34574 TGTATATGTATA
1 TGTATATGTATA
34586 TGTATATGTATA
1 TGTATATGTATA
34598 TGTATATGTATA
1 TGTATATGTATA
34610 TGTATATGTATA
1 TGTATATGTATA
34622 TGTATATGTATA
1 TGTATATGTATA
34634 TG--TATGTATA
1 TGTATATGTATA
34644 TG--TATGTATA
1 TGTATATGTATA
34654 TGTATATGTATA
1 TGTATATGTATA
34666 TG--TATGTATA
1 TGTATATGTATA
34676 TGTATATGTATA
1 TGTATATGTATA
34688 TGTATATGTATA
1 TGTATATGTATA
34700 --TATATGTATA
1 TGTATATGTATA
34710 TGTATATGTATA
1 TGTATATGTATA
34722 TGTATATGTATA
1 TGTATATGTATA
34734 TGTATATGTATA
1 TGTATATGTATA
34746 TGTATATGTATA
1 TGTATATGTATA
34758 TG--TATGTATA
1 TGTATATGTATA
34768 TGTATATGTATA
1 TGTATATGTATA
34780 TG--TATGTATA
1 TGTATATGTATA
34790 TGTATATGTATA
1 TGTATATGTATA
34802 TGTATATGTATA
1 TGTATATGTATA
34814 TGTATATG--TA
1 TGTATATGTATA
34824 TGTATATGTATATA
1 TGTATATG--TATA
*
34838 TATATATGTATA
1 TGTATATGTATA
*
34850 TGTATATGTATG
1 TGTATATGTATA
*
34862 TATATATGTATA
1 TGTATATGTATA
* *
34874 TATATATATATA
1 TGTATATGTATA
* *
34886 TATATATATATA
1 TGTATATGTATA
* *
34898 TATATATATATA
1 TGTATATGTATA
* *
34910 TATATATATATA
1 TGTATATGTATA
* *
34922 TATATATATATA
1 TGTATATGTATA
* *
34934 TATATATATATA
1 TGTATATGTATA
* *
34946 TATATATATATA
1 TGTATATGTATA
* *
34958 TATATATATATA
1 TGTATATGTATA
*
34970 TGTATGTGTATA
1 TGTATATGTATA
*
34982 TATATATGTATATA
1 TGTATATG--TATA
34996 TGTATATGTATA
1 TGTATATGTATA
* *
35008 TATATATATATA
1 TGTATATGTATA
35020 T
1 T
35021 ATATTGGTTT
Statistics
Matches: 807, Mismatches: 18, Indels: 64
0.91 0.02 0.07
Matches are distributed among these distances:
10 140 0.17
12 623 0.77
14 44 0.05
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (12 bp):
TGTATATGTATA
Found at i:34175 original size:18 final size:18
Alignment explanation
Indices: 34152--35020 Score: 1245
Period size: 18 Copynumber: 49.4 Consensus size: 18
34142 ATATATAATG
34152 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34170 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34188 TGTATATGTATATG--TA
1 TGTATATGTATATGTATA
34204 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34222 TGTATATGTATATATGTATA
1 TGTATATG--TATATGTATA
34242 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34260 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34278 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34296 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34314 TGTATATG--TATGTATA
1 TGTATATGTATATGTATA
34330 TG--TATGTATATGTATA
1 TGTATATGTATATGTATA
34346 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34364 TG--TATGTATATGTATA
1 TGTATATGTATATGTATA
34380 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34398 TGTATATGTATATG--TA
1 TGTATATGTATATGTATA
34414 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
* *
34432 TGTATATATGTATGTATA
1 TGTATATGTATATGTATA
34450 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34468 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34486 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34504 TG--TATGTATATGTATA
1 TGTATATGTATATGTATA
34520 TGTATATGTATATGTATGTA
1 TGTATATGTATATGTA--TA
34540 TGTATATGTATATG--TA
1 TGTATATGTATATGTATA
34556 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34574 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34592 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34610 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34628 TGTATATG--TATGTATA
1 TGTATATGTATATGTATA
34644 TG--TATGTATATGTATA
1 TGTATATGTATATGTATA
34660 TGTATATG--TATGTATA
1 TGTATATGTATATGTATA
34676 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34694 TGTATA--TATATGTATA
1 TGTATATGTATATGTATA
34710 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34728 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34746 TGTATATGTATATG--TA
1 TGTATATGTATATGTATA
34762 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34780 TG--TATGTATATGTATA
1 TGTATATGTATATGTATA
34796 TGTATATGTATATGTATA
1 TGTATATGTATATGTATA
34814 TGTATATG--TATGTATA
1 TGTATATGTATATGTATA
*
34830 TGTATATATATATATGTATA
1 TG--TATATGTATATGTATA
* *
34850 TGTATATGTATGTATATA
1 TGTATATGTATATGTATA
* *
34868 TGTATATATATATATATA
1 TGTATATGTATATGTATA
* * *
34886 TATATATATATATATATA
1 TGTATATGTATATGTATA
* * *
34904 TATATATATATATATATA
1 TGTATATGTATATGTATA
* * *
34922 TATATATATATATATATA
1 TGTATATGTATATGTATA
* * *
34940 TATATATATATATATATA
1 TGTATATGTATATGTATA
* * *
34958 TATATATATATATGTATG
1 TGTATATGTATATGTATA
*
34976 TGTATATATATATGTATATA
1 TGTATATGTATATG--TATA
*
34996 TGTATATGTATATATATA
1 TGTATATGTATATGTATA
*
35014 TATATAT
1 TGTATAT
35021 ATATTGGTTT
Statistics
Matches: 797, Mismatches: 18, Indels: 72
0.90 0.02 0.08
Matches are distributed among these distances:
14 8 0.01
16 194 0.24
18 536 0.67
20 59 0.07
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (18 bp):
TGTATATGTATATGTATA
Found at i:35967 original size:26 final size:26
Alignment explanation
Indices: 35927--35978 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
35917 GCATCATGTT
*
35927 CTTATTTAGTTTTATAATAGACCATA
1 CTTATTTAGTCTTATAATAGACCATA
35953 CTTATTTAGTCTTATAATAGACCATA
1 CTTATTTAGTCTTATAATAGACCATA
35979 ATGTTATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (26 bp):
CTTATTTAGTCTTATAATAGACCATA
Found at i:39242 original size:3 final size:3
Alignment explanation
Indices: 39222--39299 Score: 67
Period size: 3 Copynumber: 26.7 Consensus size: 3
39212 CTTGTTGATT
* *
39222 TTA TTA ATA TTAA TTA TTA TT- TAA TTA TTA TT- TCTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
*
39267 TTA TTA TT- TTA -TA TT- TATA TTA TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT
39300 TCTACAGGGC
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
2 7 0.11
3 49 0.80
4 5 0.08
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:39262 original size:12 final size:11
Alignment explanation
Indices: 39219--39293 Score: 68
Period size: 11 Copynumber: 7.0 Consensus size: 11
39209 GATCTTGTTG
*
39219 ATTTTATTAAT
1 ATTTTATTATT
*
39230 A-TTAATTATT
1 ATTTTATTATT
*
39240 ATTTAATTATT
1 ATTTTATTATT
39251 ATTTCTATTATT
1 ATTT-TATTATT
39263 A--TTATTATT
1 ATTTTATTATT
39272 ATTTTA-TATTT
1 ATTTTATTA-TT
*
39283 ATATTATTATT
1 ATTTTATTATT
39294 TTTATTTCTA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
9 8 0.15
10 11 0.20
11 26 0.48
12 9 0.17
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:39290 original size:28 final size:27
Alignment explanation
Indices: 39222--39299 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 27
39212 CTTGTTGATT
* *
39222 TTATTAATATTAATTATTATT-TAATTA
1 TTATTTATATT-ATTATTATTATTATTA
* *
39249 TTATTTCTATTATTATTATTATTATTT
1 TTATTTATATTATTATTATTATTATTA
*
39276 TATATTTATATTATTATTTTTATT
1 T-TATTTATATTATTATTATTATT
39300 TCTACAGGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
26 9 0.21
27 14 0.33
28 20 0.47
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (27 bp):
TTATTTATATTATTATTATTATTATTA
Found at i:41585 original size:131 final size:131
Alignment explanation
Indices: 41195--41576 Score: 559
Period size: 131 Copynumber: 2.9 Consensus size: 131
41185 ATAATAACAT
* *
41195 TCGAATTAATATTGAATTTTAGGATGAAATAGTAATATCTCTTCATTTCGATTAGAGTAATAAAT
1 TCGAATTAATATTAAATTTTAGGATGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
* * *
41260 GACTGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTGGATATTATCATTTTCT
66 GACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTAGAAATAATTAGATATTATCATTTTCT
41325 C
131 C
* * *
41326 TCGGATTAATATTTAATTTTAGGATGAAATAGTAAAATCTCTTCATTTCGATTGGAGTAATAAAT
1 TCGAATTAATATTAAATTTTAGGATGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
* *
41391 GACTGGTTTAAGGCATGAGAGGTCATTTATTCTCGATTAGAAATAATTAGATATTATCGTTTTCT
66 GACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTAGAAATAATTAGATATTATCATTTTCT
41456 C
131 C
* * * * * * *
41457 TCGAATTAATATCAAATTTTAGAAGGAAATAGTAATATTTCTTTATTTTGATTGGAGTAAGAAAT
1 TCGAATTAATATTAAATTTTAGGATGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
* * * *
41522 GACTACTTTAAGGCATGAGAGGTCGTTTCTTCTCGA-TAGAAGATAATTAAATATT
66 GACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTAGAA-ATAATTAGATATT
41577 TACTTTTTCC
Statistics
Matches: 226, Mismatches: 24, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
130 5 0.02
131 221 0.98
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (131 bp):
TCGAATTAATATTAAATTTTAGGATGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
GACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTAGAAATAATTAGATATTATCATTTTCT
C
Found at i:50754 original size:26 final size:26
Alignment explanation
Indices: 50725--50783 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
50715 ACATCTTCCT
50725 ACTCTTCAAGAGTGGAAAATTAATAA
1 ACTCTTCAAGAGTGGAAAATTAATAA
*
50751 ACTCTTCAAGAGTGGAAAATTGATAA
1 ACTCTTCAAGAGTGGAAAATTAATAA
50777 ACTCTTC
1 ACTCTTC
50784 GAGCTTGAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (26 bp):
ACTCTTCAAGAGTGGAAAATTAATAA
Found at i:55928 original size:46 final size:44
Alignment explanation
Indices: 55837--55961 Score: 171
Period size: 46 Copynumber: 2.8 Consensus size: 44
55827 ATAAACTGGC
*
55837 AAATAAGCTTACGAGCTTATGGA-ATAATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGATA-AATGGTAAGTATATTGGTA
* *
55881 AAATAATCTTACAAGCTTATGGCATTAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGG-A-TAAATGGTAAGTATATTGGTA
*
55927 AAATAAGATTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTAT-GGATAAATGGTAAG
55962 AGATTTTATC
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
44 20 0.28
45 12 0.17
46 36 0.51
47 3 0.04
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTA
Found at i:56389 original size:21 final size:21
Alignment explanation
Indices: 56362--56445 Score: 114
Period size: 21 Copynumber: 4.0 Consensus size: 21
56352 TGTAGCAGTT
* *
56362 ATGTAGCAGTGCATCGATGCA
1 ATGTAGCGGTGCATCGATACA
*
56383 TTGTAGCGGTGCATCGATACA
1 ATGTAGCGGTGCATCGATACA
* * *
56404 CTATAGTGGTGCATCGATACA
1 ATGTAGCGGTGCATCGATACA
56425 ATGTAGCGGTGCATCGATACA
1 ATGTAGCGGTGCATCGATACA
56446 CAATTTTAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (21 bp):
ATGTAGCGGTGCATCGATACA
Found at i:62587 original size:19 final size:19
Alignment explanation
Indices: 62563--62611 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
62553 TCGTTTACAA
62563 TTTTTTTAAAATTTTGGCT
1 TTTTTTTAAAATTTTGGCT
**** *
62582 TTTTTTTTTGTTTTTGTCT
1 TTTTTTTAAAATTTTGGCT
62601 TTTTTTTAAAA
1 TTTTTTTAAAA
62612 AATAGCAAAC
Statistics
Matches: 21, Mismatches: 9, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.71
Consensus pattern (19 bp):
TTTTTTTAAAATTTTGGCT
Found at i:69998 original size:2 final size:2
Alignment explanation
Indices: 69991--70018 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
69981 GATCCTTCTC
69991 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
70019 CGCGCGCGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:73604 original size:11 final size:11
Alignment explanation
Indices: 73584--73616 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
73574 TTCACCTAAA
73584 GAAAGAAAAAT
1 GAAAGAAAAAT
73595 GAAAAGAAAAAT
1 G-AAAGAAAAAT
73607 GAAAGAAAAA
1 GAAAGAAAAA
73617 AAAATAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (11 bp):
GAAAGAAAAAT
Found at i:73625 original size:14 final size:15
Alignment explanation
Indices: 73595--73631 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
73585 AAAGAAAAAT
73595 GAAAAGAAAAATGAAA
1 GAAAA-AAAAATGAAA
73611 GAAAAAAAAAT-AAA
1 GAAAAAAAAATGAAA
73625 GAAAAAA
1 GAAAAAA
73632 GAAAAGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 6 0.29
16 5 0.24
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (15 bp):
GAAAAAAAAATGAAA
Found at i:73632 original size:21 final size:21
Alignment explanation
Indices: 73608--73650 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
73598 AAGAAAAATG
73608 AAAGAAAAAAAAATAAAGAAA
1 AAAGAAAAAAAAATAAAGAAA
** *
73629 AAAGAAAAGGAAATAAATAAA
1 AAAGAAAAAAAAATAAAGAAA
73650 A
1 A
73651 GGGGGTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (21 bp):
AAAGAAAAAAAAATAAAGAAA
Found at i:73651 original size:26 final size:24
Alignment explanation
Indices: 73581--73651 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
73571 TACTTCACCT
73581 AAAGAAAG--AAAAATGAAAAGAAA
1 AAAGAAAGAAAAAAAT-AAAAGAAA
* *
73604 AATGAAAGAAAAAAAAATAAAGAAA
1 AAAGAAAGAAAAAAATA-AAAGAAA
*
73629 AAAGAAAAGGAAATAAATAAAAG
1 AAAG-AAA-GAAAAAAATAAAAG
73652 GGGGTTCAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 7 0.18
24 1 0.03
25 15 0.39
26 7 0.18
27 8 0.21
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.07
Consensus pattern (24 bp):
AAAGAAAGAAAAAAATAAAAGAAA
Found at i:75226 original size:133 final size:134
Alignment explanation
Indices: 74944--75244 Score: 345
Period size: 135 Copynumber: 2.2 Consensus size: 134
74934 GCAAATCAAA
* * * * * * *
74944 CTCGATTCAATATTCCCTAAAGAATAGTCGAATGAATCAACATTTCTAGATCAGATTTACCCTGA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATAAATCAACATCTCCAGATCAGATTTACCCTGA
* * * * *
75009 AGAAGCAGCAGAGCAGATCCCATGTTTTTCCAAATTTGATCTTCCCTAAGGAATAGTATAACAAG
66 AGAAGCAGCAGAACAGATCCCA-CTCTTTCCAAATTTGATCTTCCCTAAGGAACAGTAGAACAAG
*
75074 TCTGT
130 TCTGC
* * * *
75079 CTCGATTCAATCTTCCCTGAAGAACAGTGGAGTAAATCAACGTCTCCAGATCTGATTTTCCCTGA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATAAATCAACATCTCCAGATCAGATTTACCCTGA
* *** * * *
75144 ATAAGCATTGGAACAGATCCC-CTCTTTCCAGATTTGATCTTCCCTAAGTG-GCAGTGGAACAAG
66 AGAAGCAGCAGAACAGATCCCACTCTTTCCAAATTTGATCTTCCCTAAG-GAACAGTAGAACAAG
75207 TCTGC
130 TCTGC
*
75212 CTCGATTCAATCTTCACTGAAGAACAGTGGAAT
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAAT
75245 GACATATCCC
Statistics
Matches: 139, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
133 68 0.49
134 1 0.01
135 70 0.50
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATAAATCAACATCTCCAGATCAGATTTACCCTGA
AGAAGCAGCAGAACAGATCCCACTCTTTCCAAATTTGATCTTCCCTAAGGAACAGTAGAACAAGT
CTGC
Found at i:75735 original size:24 final size:24
Alignment explanation
Indices: 75707--75760 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
75697 CATTCTAGTA
* *
75707 TATTTTTGCATTTTG-TTTTATTT
1 TATTTTTGCATGTTGCTTTTATGT
75730 TAATTTTTGCATGTTGCTTTTATGT
1 T-ATTTTTGCATGTTGCTTTTATGT
75755 TATTTT
1 TATTTT
75761 ATTTTAGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 1 0.04
24 18 0.67
25 8 0.30
ACGTcount: A:0.15, C:0.06, G:0.11, T:0.69
Consensus pattern (24 bp):
TATTTTTGCATGTTGCTTTTATGT
Found at i:76450 original size:131 final size:130
Alignment explanation
Indices: 76210--76690 Score: 629
Period size: 131 Copynumber: 3.7 Consensus size: 130
76200 ATAATAACAT
* * * *
76210 TCGAATTAATATTGAATTTTAGGATAAAACAATAATATATCTTCATTTCGATTAGAGTAATAAAT
1 TCGAATTAATATTGAATTTTAGGATAAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
** * * * *
76275 GGTTGTTTTAAGGTATGAGAGGTCATTTATTCTTGATTGCAAATAATTGGATATTATTGTTTTCT
66 GACTGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGAAAATAATT-GATATTATCGTTTTCT
76340 C
130 C
* *
76341 TCGTATTAATATTGAATTTTAGGATGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
1 TCGAATTAATATTGAATTTTAGGATAAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
** * * *
76406 GACTGCTTTAATATATGAGAGGTCATTTATTCTCGATTGGAAATAATCTGATATTACCATTTTCT
66 GACTGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGAAAATAAT-TGATATTATCGTTTTCT
76471 C
130 C
* * *
76472 TCGGATTAATATTTAATTTTAGGAAAAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
1 TCGAATTAATATTGAATTTTAGGATAAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
* *
76537 GAATGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCT
66 GACTGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGAAAATAATT-GATATTATCGTTTTCT
76602 C
130 C
** * ** * * * *
76603 TCGAATTAATATCAAATTTTAGAAGGAAATAGTAATATTTCTTTATTTTGATTGGAGTAAGAAAT
1 TCGAATTAATATTGAATTTTAGGATAAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
* * *
76668 TACTGCTTTAAGGCATGAAAGGT
66 GACTGCTTTAAGGTATGAGAGGT
76691 TGTTTCCTCT
Statistics
Matches: 308, Mismatches: 40, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
130 1 0.00
131 306 0.99
132 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (130 bp):
TCGAATTAATATTGAATTTTAGGATAAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAAT
GACTGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGAAAATAATTGATATTATCGTTTTCTC
Found at i:76704 original size:262 final size:262
Alignment explanation
Indices: 76214--76704 Score: 694
Period size: 262 Copynumber: 1.9 Consensus size: 262
76204 TAACATTCGA
* **
76214 ATTAATATTGAATTTTAGGATAAAACAATAATATATCTTCATTTCGATTAGAGTAATAAATGGTT
1 ATTAATATTGAATTTTAGGAAAAAACAATAATATATCTTCATTTCGATTAGAGTAATAAATGAAT
* * * * * *
76279 GTTTTAAGGTATGAGAGGTCATTTATTCTTGATTGCAAATAATTGGATATTATTGTTTTCTCTCG
66 GCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCTCTCG
* ** * * *
76344 TATTAATATTGAATTTTAGGATGAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGAC
131 AATTAATATCAAATTTTAGAAGGAAATAGTAATATCTCTTCATTTCGATTGGAGTAAGAAATGAC
* * * *
76409 TGCTTTAATATATGAGAGGTCATTTATTCTCGATTGGAAATAATCTGATATTACCATTTTCTCTC
196 TGCTTTAAGACATGAAAGGTCATTTACTCTCGATTGGAAATAATCTGATATTACCATTTTCTCTC
76474 GG
261 GG
* * * * *
76476 ATTAATATTTAATTTTAGGAAAAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGAAT
1 ATTAATATTGAATTTTAGGAAAAAACAATAATATATCTTCATTTCGATTAGAGTAATAAATGAAT
76541 GCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCTCTCG
66 GCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCTCTCG
* * * *
76606 AATTAATATCAAATTTTAGAAGGAAATAGTAATATTTCTTTATTTTGATTGGAGTAAGAAATTAC
131 AATTAATATCAAATTTTAGAAGGAAATAGTAATATCTCTTCATTTCGATTGGAGTAAGAAATGAC
* ** *
76671 TGCTTTAAGGCATGAAAGGTTGTTTCCTCTCGAT
196 TGCTTTAAGACATGAAAGGTCATTTACTCTCGAT
76705 AGAAGATAAT
Statistics
Matches: 197, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
262 197 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (262 bp):
ATTAATATTGAATTTTAGGAAAAAACAATAATATATCTTCATTTCGATTAGAGTAATAAATGAAT
GCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGAAAATAATTAGATATTATCGTTTTCTCTCG
AATTAATATCAAATTTTAGAAGGAAATAGTAATATCTCTTCATTTCGATTGGAGTAAGAAATGAC
TGCTTTAAGACATGAAAGGTCATTTACTCTCGATTGGAAATAATCTGATATTACCATTTTCTCTC
GG
Found at i:77793 original size:62 final size:61
Alignment explanation
Indices: 77669--77795 Score: 222
Period size: 59 Copynumber: 2.1 Consensus size: 61
77659 AAATTCAATT
*
77669 TCATATCACGACCCTAGCTTTGGTCGAATGCTTCTCTAACTATTTCTAATGGTTTTCAATCA
1 TCATATCACGACCCTAGCTTT-GTCAAATGCTTCTCTAACTATTTCTAATGGTTTTCAATCA
77731 TCATATCACGACCCTAGC-TT-TCAAATGCTTCTCTAACTATTTCTAATGGTTTTCAATCA
1 TCATATCACGACCCTAGCTTTGTCAAATGCTTCTCTAACTATTTCTAATGGTTTTCAATCA
77790 TCATAT
1 TCATAT
77796 AACCATGCAA
Statistics
Matches: 64, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
59 44 0.69
61 2 0.03
62 18 0.28
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.39
Consensus pattern (61 bp):
TCATATCACGACCCTAGCTTTGTCAAATGCTTCTCTAACTATTTCTAATGGTTTTCAATCA
Found at i:81399 original size:26 final size:27
Alignment explanation
Indices: 81369--81428 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
81359 TTTTTTCTTT
**
81369 AACATTAATCGGACCGAAA-TTATTTG
1 AACATTAATCCAACCGAAATTTATTTG
81395 AACATTAATCCAACCGAAATTTATTTG
1 AACATTAATCCAACCGAAATTTATTTG
*
81422 AAAATTA
1 AACATTA
81429 TTAACTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 17 0.57
27 13 0.43
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (27 bp):
AACATTAATCCAACCGAAATTTATTTG
Found at i:81411 original size:95 final size:94
Alignment explanation
Indices: 81304--81596 Score: 343
Period size: 94 Copynumber: 3.0 Consensus size: 94
81294 TCTTTAACCG
* *
81304 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAAATTTTTTTCTTT
1 TTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAAACAAATTAACC-AAATTTTTTTCTTT
* *
81369 AACATTAATCGGACCGAAATTATTTGAACA
65 AACATTAATCGAAACGAAATTATTTGAACA
* * *
81399 TTAATCCAACCGAAATTTATTTGAAAATTATTAACTGAAACAAATTAACCAATTTTTTTTCTTTA
1 TTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAAACAAATTAACCAAATTTTTTTCTTTA
* * *
81464 ACATTAATCGAAACGGAATTATTTGACCG
66 ACATTAATCGAAACGAAATTATTTGAACA
* * * * **
81493 TTAATCAAACCCAATTTTATTTGAAAATTATTAACCGAATTAATCGAATAAAATAAATTATTTTT
1 TTAATCAAACCGAAATTTATTTGAAAATTATTAACCG-A--AA-CAAATTAACCAAATT-TTTTT
* * *
81558 CTTTAACTGTTAATCGAACCGAAATTTATTTGAAAA
61 CTTTAAC-ATTAATCGAAACGAAA-TTATTTGAACA
81594 TTA
1 TTA
81597 TTAACCGAAC
Statistics
Matches: 167, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
94 71 0.43
95 48 0.29
97 2 0.01
98 10 0.06
99 12 0.07
100 13 0.08
101 11 0.07
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (94 bp):
TTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAAACAAATTAACCAAATTTTTTTCTTTA
ACATTAATCGAAACGAAATTATTTGAACA
Found at i:81513 original size:94 final size:95
Alignment explanation
Indices: 81300--81531 Score: 349
Period size: 94 Copynumber: 2.5 Consensus size: 95
81290 TTTTTCTTTA
* *
81300 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAAATTTTTTT
1 ACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAAACAAATTAACCGAAATTTTTTT
* *
81365 CTTTAACATTAATCGGACCGAAATTATTTG
66 CTTTAACATTAATCGAAACGAAATTATTTG
* * * * *
81395 AACATTAATCCAACCGAAATTTATTTGAAAATTATTAACTGAAACAAATTAACC-AATTTTTTTT
1 ACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAAACAAATTAACCGAAATTTTTTT
*
81459 CTTTAACATTAATCGAAACGGAATTATTTG
66 CTTTAACATTAATCGAAACGAAATTATTTG
* *
81489 ACCGTTAATCAAACCCAATTTTATTTGAAAATTATTAACCGAA
1 ACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAA
81532 TTAATCGAAT
Statistics
Matches: 122, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 73 0.60
95 49 0.40
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (95 bp):
ACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAACCGAAACAAATTAACCGAAATTTTTTT
CTTTAACATTAATCGAAACGAAATTATTTG
Found at i:81734 original size:66 final size:68
Alignment explanation
Indices: 81657--81817 Score: 229
Period size: 66 Copynumber: 2.4 Consensus size: 68
81647 AAATTATTTG
* * **
81657 ACCGTTAATCGAATCGAAATTTATTTGAAAATTATTAACCAAATAAAAT-AAATTA-TTTTTTCC
1 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAACAAAATCAAACGATTTTTTTCC
81720 TTA
66 TTA
* * *
81723 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAAACGATTTTTTTCT
1 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAACAAAATCAAACGATTTTTTTCC
81788 TTA
66 TTA
*
81791 ACCATTAATCGAACCGAAA-TTATTTGA
1 ACCGTTAATCGAACCGAAATTTATTTGA
81818 CCGTTAATCG
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
66 45 0.53
67 12 0.14
68 28 0.33
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (68 bp):
ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAACAAAATCAAACGATTTTTTTCC
TTA
Found at i:81785 original size:160 final size:159
Alignment explanation
Indices: 81399--81926 Score: 727
Period size: 160 Copynumber: 3.2 Consensus size: 159
81389 TATTTGAACA
* * * * *
81399 TTAATCCAACCGAAATTTATTTGAAAATTATTAACTGAAACAAATTAACCAATTTTTTTTCTTTA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTT-TTTA
* * * * *
81464 ACATTAATCGAA-ACGGAATTATTTGACCGTTAATCAAACCCAATTTTATTTGAAAATTATTAAC
65 ACATTAATCGAACA-GAAATTATTTGACCGTTAATCGAATCGAAATTTATTTGAAAATTATTAAC
* *
81528 CGAATTAATCGAATAAAATAAATTA-TTTTTCTTTAACTG
129 C------A---AATAAAATAAATTATTTTTTCCTTAACCG
81567 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTTTTTAA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTTTTTAA
*
81632 CTATTAATCGAACAAAAATTATTTGACCGTTAATCGAATCGAAATTTATTTGAAAATTATTAACC
66 C-ATTAATCGAACAGAAATTATTTGACCGTTAATCGAATCGAAATTTATTTGAAAATTATTAACC
81697 AAATAAAATAAATTATTTTTTCCTTAACCG
130 AAATAAAATAAATTATTTTTTCCTTAACCG
* *
81727 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAAACGATTTTTTTCTTTAA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTTTTTAA
* * *
81792 CCATTAATCGAACCGAAATTATTTGACCGTTAATCGAATCGAAATTTATTTCAATATTATTAACC
66 -CATTAATCGAACAGAAATTATTTGACCGTTAATCGAATCGAAATTTATTTGAAAATTATTAACC
* *
81857 GAATAAAATAAATTATTTTTTTCCTTAACCT
130 AAATAAAATAAATTA-TTTTTTCCTTAACCG
*
81888 TTAATCGAACCGAAATTTATTTGAAAATTATTTACCGAA
1 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAA
81927 TTGAATTTGT
Statistics
Matches: 333, Mismatches: 22, Indels: 17
0.90 0.06 0.05
Matches are distributed among these distances:
159 14 0.04
160 148 0.44
161 53 0.16
162 1 0.00
167 6 0.02
168 110 0.33
169 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (159 bp):
TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCGATTTTTTTTTTTAA
CATTAATCGAACAGAAATTATTTGACCGTTAATCGAATCGAAATTTATTTGAAAATTATTAACCA
AATAAAATAAATTATTTTTTCCTTAACCG
Found at i:81835 original size:94 final size:94
Alignment explanation
Indices: 81723--81911 Score: 281
Period size: 94 Copynumber: 2.0 Consensus size: 94
81713 TTTTTCCTTA
* * *
81723 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATCAAACGATTTTTTTCT
1 ACCGTTAATCGAACCGAAATTTATTTCAAAATTATTAACCGAACAAAAT-AAACGATTTTTTTCC
81788 TTAACCATTAATCGAACCGAAA-TTATTTG
65 TTAACCATTAATCGAACCGAAATTTATTTG
* * * **
81817 ACCGTTAATCGAATCGAAATTTATTTCAATATTATTAACCGAATAAAATAAATTATTTTTTTCCT
1 ACCGTTAATCGAACCGAAATTTATTTCAAAATTATTAACCGAACAAAATAAACGATTTTTTTCCT
*
81882 TAACCTTTAATCGAACCGAAATTTATTTG
66 TAACCATTAATCGAACCGAAATTTATTTG
81911 A
1 A
81912 AAATTATTTA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 33 0.39
94 52 0.61
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (94 bp):
ACCGTTAATCGAACCGAAATTTATTTCAAAATTATTAACCGAACAAAATAAACGATTTTTTTCCT
TAACCATTAATCGAACCGAAATTTATTTG
Found at i:90948 original size:45 final size:46
Alignment explanation
Indices: 90899--90986 Score: 142
Period size: 45 Copynumber: 1.9 Consensus size: 46
90889 GAACATCGAA
* * *
90899 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGCACTTAG
1 TGCATTTGATGCATCGATGCACAAGACCAGGCATCGATGCACTTAG
90944 TGCATTTGATGCATCGATGCACAAGACCAGGCATCGATGCACT
1 TGCATTTGATGCATCGATGCACAAGACCAGGCATCGATGCACT
90987 CAGGCTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.54
46 18 0.46
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCAGGCATCGATGCACTTAG
Found at i:92698 original size:22 final size:22
Alignment explanation
Indices: 92649--92692 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
92639 TCAAAAGGTC
92649 AAGGTTCAGTTTAAAGTAGTTA
1 AAGGTTCAGTTTAAAGTAGTTA
92671 AAGGTTCAGTTTAAAGTAGTTA
1 AAGGTTCAGTTTAAAGTAGTTA
92693 GGGGTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (22 bp):
AAGGTTCAGTTTAAAGTAGTTA
Found at i:95446 original size:239 final size:239
Alignment explanation
Indices: 95027--95503 Score: 774
Period size: 239 Copynumber: 2.0 Consensus size: 239
95017 GCAAAGTCTA
* * * *
95027 TAATGGGCCATAATTAATGTCCTTATTTACCTTAGCATGTTGTAAGGAAAATTTGGGAACCTCTC
1 TAATGGGCCAGAATTAAAGTCCTTAATTACCTTAGCATGTTGTAAGGAAAATTTGGGAACCACTC
* *
95092 TTCATAACCGAACTTAATGTAAAGAATTTAGTAAGCCCGCCCCTTTAGAGCCATACGGAAGTATT
66 TTCAGAACCGAACTTAATGTAAAGAATTTAGTAAGCCCACCCCTTTAGAGCCATACGGAAGTATT
*
95157 AAGAGAACTAGAACACATGTGGTTAGGACTCTTAAATTCCTTTGTGTGTTTTATTCACCGTACTT
131 AAGAGAACTAGAACACATGCGGTTAGGACTCTTAAATTCCTTTGTGTGTTTTATTCACCGTACTT
* *
95222 ATTTGCAGTGTCATCTATGAGTTGTATTTGATTATTTATTAATG
196 ATTTGCAATCTCATCTATGAGTTGTATTTGATTATTTATTAATG
95266 TAATGGGCCAGAATTAAAGTCCTTAATTACCTTAGCATGTTGTAAGGAAAATTTGGGAACCACTC
1 TAATGGGCCAGAATTAAAGTCCTTAATTACCTTAGCATGTTGTAAGGAAAATTTGGGAACCACTC
* * * * *
95331 TTCAGAATCGAACTTAATGTAGAGAATTTAGTAAGCCCACCCCTTTAGAGTCATATGGAAGTCTT
66 TTCAGAACCGAACTTAATGTAAAGAATTTAGTAAGCCCACCCCTTTAGAGCCATACGGAAGTATT
* * ***
95396 AAGAGAACTAGAACACTTGCGGTTAGGACTTTTAAATTCCTTTGTGTGTTTTATTCATTTTACTT
131 AAGAGAACTAGAACACATGCGGTTAGGACTCTTAAATTCCTTTGTGTGTTTTATTCACCGTACTT
*
95461 ATTTGCAATCTCATCTTTGAGTTGTATTTGATTATTTATTAAT
196 ATTTGCAATCTCATCTATGAGTTGTATTTGATTATTTATTAAT
95504 TTTACCAGTC
Statistics
Matches: 218, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
239 218 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (239 bp):
TAATGGGCCAGAATTAAAGTCCTTAATTACCTTAGCATGTTGTAAGGAAAATTTGGGAACCACTC
TTCAGAACCGAACTTAATGTAAAGAATTTAGTAAGCCCACCCCTTTAGAGCCATACGGAAGTATT
AAGAGAACTAGAACACATGCGGTTAGGACTCTTAAATTCCTTTGTGTGTTTTATTCACCGTACTT
ATTTGCAATCTCATCTATGAGTTGTATTTGATTATTTATTAATG
Found at i:96068 original size:18 final size:17
Alignment explanation
Indices: 96045--96083 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
96035 ATCAATATCT
* *
96045 TTTACATTTGTATCTACA
1 TTTACATTCGCATC-ACA
96063 TTTACATTCGCATCACA
1 TTTACATTCGCATCACA
96080 TTTA
1 TTTA
96084 TTCAAACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (17 bp):
TTTACATTCGCATCACA
Found at i:100395 original size:61 final size:60
Alignment explanation
Indices: 100256--100426 Score: 191
Period size: 62 Copynumber: 2.8 Consensus size: 60
100246 ACCATTCATC
* * * * *
100256 ATCACATTACCACATTAATTAAGT-TTTTTTACCTCTCATAAGGAATTTTCCCAAATACATGA
1 ATCACATTACCACATTCATTCA-TATTTTTGACCTCTCATGAGG-A-CTTCCCAAATACATGA
** * *
100318 ATCACATTACTGCATTCATTCATATTTCTGACCTCTCATGAGGACTTCCCGAAATTCATGA
1 ATCACATTACCACATTCATTCATATTTTTGACCTCTCATGAGGACTTCCC-AAATACATGA
* *
100379 ATCACATTACCACATTCATTCAAACTTTTTGACCTCTCATGAAGACTT
1 ATCACATTACCACATTCATTCATA-TTTTTGACCTCTCATGAGGACTT
100427 TGCCTGAATA
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
60 5 0.05
61 32 0.35
62 55 0.60
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.36
Consensus pattern (60 bp):
ATCACATTACCACATTCATTCATATTTTTGACCTCTCATGAGGACTTCCCAAATACATGA
Found at i:100459 original size:63 final size:61
Alignment explanation
Indices: 100303--100460 Score: 185
Period size: 61 Copynumber: 2.6 Consensus size: 61
100293 ATAAGGAATT
* *
100303 TTCCC-AAATACATGAATCACATTACTGCATTCATTCATATTTCTGACCTCTCATGAGGAC
1 TTCCCGAAATACATGAATCACATTACTGCATTCATTCAAATTTCTGACCTCTCATGAAGAC
* ** *
100363 TTCCCGAAATTCATGAATCACATTACCACATTCATTCAAACTTTTTGACCTCTCATGAAGAC
1 TTCCCGAAATACATGAATCACATTACTGCATTCATTCAAA-TTTCTGACCTCTCATGAAGAC
* * * *
100425 TTTGCCTG-AATAGATGAATCGCATTATTGCATTCAT
1 -TT-CCCGAAATACATGAATCACATTACTGCATTCAT
100461 GAAATTATTA
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
60 5 0.06
61 30 0.37
62 19 0.23
63 24 0.30
64 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (61 bp):
TTCCCGAAATACATGAATCACATTACTGCATTCATTCAAATTTCTGACCTCTCATGAAGAC
Found at i:102146 original size:37 final size:37
Alignment explanation
Indices: 102098--102202 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
102088 CCTTTTCGTC
* *
102098 CTACTAGGATTCAAACTCCAAAAAATAGGATAGAATT
1 CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
102135 TTGCTATGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
102172 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTATGATTCAAACTCCTAAAAATAGGAT
102203 CCCAAGCATT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:102315 original size:37 final size:37
Alignment explanation
Indices: 102273--102366 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
102263 AAATACCAAG
* * *
102273 CAAACTCCAAAAAATAGGATAGAATTTTGCTATGATT
1 CAAACTCCTAAAAATAGGATAGAATTCTACTATGATT
* *
102310 CAAACTCCTAAAAATAGGATAGAGTTCTACTATTATT
1 CAAACTCCTAAAAATAGGATAGAATTCTACTATGATT
* *
102347 TAAACTCCTAAAGATAGGAT
1 CAAACTCCTAAAAATAGGAT
102367 CCACAAGCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (37 bp):
CAAACTCCTAAAAATAGGATAGAATTCTACTATGATT
Found at i:102787 original size:18 final size:20
Alignment explanation
Indices: 102766--102806 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
102756 TATATGTATA
102766 TTATTTA-TATTAT-ATTTT
1 TTATTTATTATTATAATTTT
102784 TTATTTATTTATTATAATTTT
1 TTATTTA-TTATTATAATTTT
102805 TT
1 TT
102807 TCATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATTTATTATTATAATTTT
Found at i:102791 original size:22 final size:23
Alignment explanation
Indices: 102766--102812 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
102756 TATATGTATA
*
102766 TTATTTA-TATTATATTTTTT-AT
1 TTATTTATTATAAT-TTTTTTCAT
102788 TTATTTATTATAATTTTTTTCAT
1 TTATTTATTATAATTTTTTTCAT
102811 TT
1 TT
102813 TTTTCCTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (23 bp):
TTATTTATTATAATTTTTTTCAT
Found at i:102858 original size:25 final size:24
Alignment explanation
Indices: 102826--102874 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
102816 TCCTTTGCGG
* *
102826 ATATTATATTTTTCCTATTATTAT
1 ATATTATATTATTACTATTATTAT
*
102850 ATATATATATTATTATTATTATTAT
1 ATAT-TATATTATTACTATTATTAT
102875 CTAGTTTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (24 bp):
ATATTATATTATTACTATTATTAT
Found at i:103071 original size:10 final size:9
Alignment explanation
Indices: 103052--103119 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
103042 TATACATACA
103052 TTTTTATAT
1 TTTTTATAT
103061 TTTTATATAT
1 TTTT-TATAT
*
103071 TTTTTTTAT
1 TTTTTATAT
*
103080 TATTT-TAT
1 TTTTTATAT
*
103088 TTTATACTAT
1 TTTTTA-TAT
103098 TTATTTAT-T
1 TT-TTTATAT
**
103107 TCATTATAT
1 TTTTTATAT
103116 TTTT
1 TTTT
103120 AGTTTCTTTG
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
8 10 0.22
9 17 0.38
10 15 0.33
11 3 0.07
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTATAT
Found at i:103083 original size:12 final size:13
Alignment explanation
Indices: 103060--103099 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
103050 CATTTTTATA
103060 TTTTTATATATTT
1 TTTTTATATATTT
103073 TTTTTAT-TATTT
1 TTTTTATATATTT
103085 TATTTTATACTATTT
1 T-TTTTATA-TATTT
103100 ATTTATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 13 0.54
15 5 0.21
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTATATATTT
Found at i:103348 original size:19 final size:19
Alignment explanation
Indices: 103308--103347 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
103298 GTTTTGTTAC
*
103308 TTTCTTTTATTATTATTAT
1 TTTCTTTTATTAATATTAT
*
103327 TTTCTTTTA-TAATCTTAT
1 TTTCTTTTATTAATATTAT
103345 TTT
1 TTT
103348 TAAGGGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCTTTTATTAATATTAT
Found at i:107561 original size:14 final size:14
Alignment explanation
Indices: 107534--107601 Score: 75
Period size: 14 Copynumber: 4.6 Consensus size: 14
107524 ATTCAATCAG
*
107534 AACAAAAAGGGAAAA
1 AACAAAAA-AGAAAA
107549 AACAAAAAAGAAAA
1 AACAAAAAAGAAAA
107563 GAAGCAAAAAAGAACAA
1 -AA-CAAAAAAGAA-AA
*
107580 AA-AAAAAAGAAAG
1 AACAAAAAAGAAAA
107593 AACAAAAAA
1 AACAAAAAA
107602 AAAGAAAAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
13 3 0.06
14 20 0.43
15 10 0.21
16 12 0.26
17 2 0.04
ACGTcount: A:0.79, C:0.07, G:0.13, T:0.00
Consensus pattern (14 bp):
AACAAAAAAGAAAA
Found at i:107575 original size:11 final size:10
Alignment explanation
Indices: 107559--107601 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
107549 AACAAAAAAG
107559 AAAAGAAGCAA
1 AAAAGAA-CAA
107570 AAAAGAACAA
1 AAAAGAACAA
107580 AAAA-AA-AA
1 AAAAGAACAA
*
107588 GAAAGAACAA
1 AAAAGAACAA
107598 AAAA
1 AAAA
107602 AAAGAAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 5 0.18
9 4 0.14
10 12 0.43
11 7 0.25
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAGAACAA
Found at i:107599 original size:26 final size:25
Alignment explanation
Indices: 107545--107610 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
107535 ACAAAAAGGG
107545 AAAAAACAAAAAAGAAAAGAAGCAA
1 AAAAAACAAAAAAGAAAAGAAGCAA
*
107570 AAAAGAACAAAAAA-AAAAGAA--AG
1 AAAA-AACAAAAAAGAAAAGAAGCAA
*
107593 AACAAA-AAAAAAGAAAAG
1 AAAAAACAAAAAAGAAAAG
107611 GGGACAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
21 6 0.16
22 7 0.19
23 4 0.11
25 11 0.30
26 9 0.24
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (25 bp):
AAAAAACAAAAAAGAAAAGAAGCAA
Found at i:107603 original size:17 final size:18
Alignment explanation
Indices: 107571--107608 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
107561 AAGAAGCAAA
107571 AAAGAACAAAAAAAAAAG
1 AAAGAACAAAAAAAAAAG
107589 AAAGAAC-AAAAAAAAAG
1 AAAGAACAAAAAAAAAAG
107606 AAA
1 AAA
107609 AGGGGACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAGAACAAAAAAAAAAG
Found at i:107610 original size:18 final size:17
Alignment explanation
Indices: 107545--107610 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 17
107535 ACAAAAAGGG
*
107545 AAAAAACAAAAAAGAA-
1 AAAAAAAAAAAAAGAAC
* **
107561 AAGAAGCAAAAAAGAAC
1 AAAAAAAAAAAAAGAAC
107578 AAAAAAAAAAGAAAGAAC
1 AAAAAAAAAA-AAAGAAC
107596 AAAAAAAAAGAAAAG
1 AAAAAAAAA-AAAAG
107611 GGGACAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 14 0.33
17 7 0.17
18 20 0.48
19 1 0.02
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAGAAC
Found at i:108242 original size:22 final size:22
Alignment explanation
Indices: 108214--108268 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
108204 GCTACCCCAT
108214 CAAACCTTTGAGCATCAAATAC
1 CAAACCTTTGAGCATCAAATAC
*
108236 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATAC
*
108258 TAAACCTTTGA
1 CAAACCTTTGA
108269 CCAAACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATAC
Found at i:108704 original size:18 final size:19
Alignment explanation
Indices: 108681--108717 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
108671 TCAACATCAA
108681 ATATTGGGGCATT-TTTGG
1 ATATTGGGGCATTATTTGG
108699 ATATTGGGGCATTATTTGG
1 ATATTGGGGCATTATTTGG
108718 GGATTCAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.19, C:0.05, G:0.32, T:0.43
Consensus pattern (19 bp):
ATATTGGGGCATTATTTGG
Found at i:110504 original size:106 final size:106
Alignment explanation
Indices: 109229--110503 Score: 1903
Period size: 106 Copynumber: 12.0 Consensus size: 106
109219 ATATCGTTCC
* * * ** * *
109229 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTCGTTGTCAACAAACAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
109294 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
109335 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
109400 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
109441 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
109506 AATTTAAGAGCCAATTTCAATTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
109547 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGTTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
109612 AATTTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
109653 ACTCCAGACAACACAAGTTCAACTTCACGAAGAAGGGACCGCAGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
109718 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
109759 ACTCCAGACACCACAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
109824 GATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
109865 ACTCGAGACAACGCAAGTTCAACTTCACGATGAAGGGACTGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
109930 AATTTCGGAGCCAATTTCAACTTCACATCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
109971 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGAGACCGTTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
110036 AATTTCGGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
110077 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT-GTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* **
110141 AATTTCAGAGCCAATTTCAATTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
110182 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
110247 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
110288 ACTCGAGACAATGCAAGTTCAACTTCACGACGAAGGGACAGTTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * **
110353 AATTTCGGAGCCAATTTCAACTTCACAACAAACCATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
110394 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
* *
110458 CGA-TTCTAGAGACAATTTCAACTTCAC-GAC-AGAGGATATTGG
65 CAATTTC-AGAGCCAATTTCAACTTCACAG-CGA-AGGATATTGG
110500 ACTC
1 ACTC
110504 GGAACAATGC
Statistics
Matches: 1070, Mismatches: 94, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
105 103 0.10
106 967 0.90
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:111310 original size:37 final size:37
Alignment explanation
Indices: 111253--111357 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
111243 CCTTTTCGTC
*
111253 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
111290 TTGCTATGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
111327 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTATGATTCAAACTCCTAAAAATAGGAT
111358 CCACAAGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:111802 original size:23 final size:23
Alignment explanation
Indices: 111774--111820 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
111764 TATATGTATA
111774 TATTTAATTAT-ATTTTATTT-ATT
1 TATTT-ATTATAATTTT-TTTCATT
111797 TATTTATTATAATTTTTTTCATT
1 TATTTATTATAATTTTTTTCATT
111820 T
1 T
111821 TTCTTTGCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTATTATAATTTTTTTCATT
Found at i:111870 original size:13 final size:11
Alignment explanation
Indices: 111833--111881 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
111823 CTTTGCGTTA
111833 TATTATATTAT
1 TATTATATTAT
*
111844 T-TTCCTATTAT
1 TATT-ATATTAT
111855 TA-TATA-TAT
1 TATTATATTAT
111864 ATATTATATTAT
1 -TATTATATTAT
111876 TATTAT
1 TATTAT
111882 TATCTATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
9 3 0.10
10 6 0.19
11 19 0.61
12 3 0.10
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTATATTAT
Found at i:111879 original size:27 final size:26
Alignment explanation
Indices: 111831--111884 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
111821 TTCTTTGCGT
* *
111831 TATATTATATTATTTTCCTATTATTA
1 TATATTATATTATATTACTATTATTA
*
111857 TATATATATATTATATTATTATTATTA
1 TATAT-TATATTATATTACTATTATTA
111884 T
1 T
111885 CTATGTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (26 bp):
TATATTATATTATATTACTATTATTA
Found at i:112104 original size:25 final size:26
Alignment explanation
Indices: 111953--112117 Score: 78
Period size: 27 Copynumber: 6.2 Consensus size: 26
111943 ATTCTTACTT
111953 TATTTTATTTTATATTTTTATGAT-TAC
1 TATTTT-TTTTATATTTTTAT-ATATAC
* * *
111980 TATTTTTTTTAGTTAATATTATATTTA-
1 TATTTTTTTTA--TATTTTTATATATAC
112007 TATTTATTTTTCAT-TTATTTAT-TAT--
1 TATTT-TTTTT-ATATT-TTTATATATAC
* *
112032 TATTACTATTTAGTATTTTATTATATATAC
1 TATT-TTTTTTA-TA-TTT-TTATATATAC
**
112062 -ATACATTTTTATATTTTTATATATA-
1 TAT-TTTTTTTATATTTTTATATATAC
*
112087 TATTTTTTTTAT-TATTTTATTTATAC
1 TATTTTTTTTATAT-TTTTATATATAC
112113 TATTT
1 TATTT
112118 ATTTATTTTC
Statistics
Matches: 107, Mismatches: 13, Indels: 37
0.68 0.08 0.24
Matches are distributed among these distances:
24 2 0.02
25 26 0.24
26 25 0.23
27 27 0.25
28 19 0.18
29 8 0.07
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (26 bp):
TATTTTTTTTATATTTTTATATATAC
Found at i:112122 original size:25 final size:25
Alignment explanation
Indices: 112076--112124 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
112066 ATTTTTATAT
*
112076 TTTTATATATATATTTTTTTTATTA
1 TTTTATATATATATTTTATTTATTA
*
112101 TTTTATTTATACTA-TTTATTTATT
1 TTTTATATATA-TATTTTATTTATT
112125 TTCATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTATATATATATTTTATTTATTA
Found at i:112254 original size:19 final size:20
Alignment explanation
Indices: 112223--112262 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
112213 TTTATCTTCA
*
112223 TTTATTTTATTTTATTCAAT
1 TTTATTTTATTTTATCCAAT
112243 TTTATTTT-TTTTATCCAAT
1 TTTATTTTATTTTATCCAAT
112262 T
1 T
112263 ATTTTATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTATTTTATTTTATCCAAT
Found at i:119571 original size:138 final size:138
Alignment explanation
Indices: 119396--119714 Score: 412
Period size: 138 Copynumber: 2.3 Consensus size: 138
119386 TTAATTAGAA
* * * * *
119396 GAATAATTCGATTTGGTCCTCGCATTAAATGCTCGAGGGTTCTCATC-AAT-TTTGATTCAAATT
1 GAAT-ATTCAATTTAGTCCTCGCATTAAATGCCCGAGGGTTCTCATCGAATATTTGAATC-AATA
* * * * *
119459 ATTGGTAAAAATAAATTAGGTT-TCAATTTAGAGCCTTCACTTTTAGTTTAATTTTATTTTAGTC
64 ATTGGTAAAAATAAATTAGGTTAGC-A-TTAGAACCTTCACTTTAAGTTAAATTTCATTTTAGTC
119523 CTTTAATTTAAG
127 CTTTAATTTAAG
* *
119535 GAATATTTGAA-TTAGTCCTCGCATTAAATGCCCGAGGGTTCTCATCGATTATTTGAATCAATAA
1 GAATA-TTCAATTTAGTCCTCGCATTAAATGCCCGAGGGTTCTCATCGAATATTTGAATCAATAA
** *
119599 TTGGTAAAAATAAATTTTGTTAGCATTAGAACCTTCACTTTAAGTTAAATTTCATTTTATTCCTT
65 TTGGTAAAAATAAATTAGGTTAGCATTAGAACCTTCACTTTAAGTTAAATTTCATTTTAGTCCTT
119664 TAATTTAAG
130 TAATTTAAG
* *
119673 GAATATTCAATTTAGTCCTTGCATTAAATGCCCAAGGGTTCT
1 GAATATTCAATTTAGTCCTCGCATTAAATGCCCGAGGGTTCT
119715 ATTCGATTAT
Statistics
Matches: 157, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
137 4 0.03
138 112 0.71
139 33 0.21
140 8 0.05
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (138 bp):
GAATATTCAATTTAGTCCTCGCATTAAATGCCCGAGGGTTCTCATCGAATATTTGAATCAATAAT
TGGTAAAAATAAATTAGGTTAGCATTAGAACCTTCACTTTAAGTTAAATTTCATTTTAGTCCTTT
AATTTAAG
Found at i:120314 original size:17 final size:19
Alignment explanation
Indices: 120292--120332 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
120282 AACTGGGTAT
120292 TTTTA-TAAAATAAT-CAA
1 TTTTATTAAAATAATCCAA
*
120309 TTTTATTAAAATTATCCAA
1 TTTTATTAAAATAATCCAA
120328 TTTTA
1 TTTTA
120333 GGTGTTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 8 0.38
19 8 0.38
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTTATTAAAATAATCCAA
Found at i:120620 original size:24 final size:25
Alignment explanation
Indices: 120592--120638 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
120582 ACAACTAAAT
120592 ATATTATATATTATT-TACATTATA
1 ATATTATATATTATTATACATTATA
*
120616 ATATTATTTATTATTATACATTA
1 ATATTATATATTATTATACATTA
120639 AACTTATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATTATATATTATTATACATTATA
Found at i:120621 original size:17 final size:16
Alignment explanation
Indices: 120594--120625 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
120584 AACTAAATAT
120594 ATTATATATTATTTAC
1 ATTATATATTATTTAC
120610 ATTATAATATTATTTA
1 ATTAT-ATATTATTTA
120626 TTATTATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATATATTATTTAC
Found at i:123995 original size:25 final size:26
Alignment explanation
Indices: 123963--124012 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
123953 AGAAATAATT
123963 TTTATATTAACTT-A-TTAAATATAG
1 TTTATATTAACTTAATTTAAATATAG
123987 TTTATTATTAACTTAATTTAAATATA
1 TTTA-TATTAACTTAATTTAAATATA
124013 CTTTTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.17
25 9 0.39
26 1 0.04
27 9 0.39
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (26 bp):
TTTATATTAACTTAATTTAAATATAG
Found at i:124097 original size:27 final size:27
Alignment explanation
Indices: 124057--124119 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
124047 AAAATATTTT
*
124057 TATTATTATTTTAAATTT-TTAAACTATA
1 TATTATTATCTT-AATTTATTAAA-TATA
124085 TATT-TTATCTTAATTTATTAAATATA
1 TATTATTATCTTAATTTATTAAATATA
124111 T-TATATTAT
1 TAT-TATTAT
124120 TATTTCAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 1 0.03
26 11 0.35
27 15 0.48
28 4 0.13
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (27 bp):
TATTATTATCTTAATTTATTAAATATA
Found at i:124187 original size:19 final size:21
Alignment explanation
Indices: 124163--124219 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
124153 CTTAACTTCC
*
124163 ATATATTTTAACA-TAAAAT-
1 ATATATTTTAAAATTAAAATA
124182 ATATATTTTAAAATTAAAATA
1 ATATATTTTAAAATTAAAATA
*
124203 AAATATTTTAAAATTAA
1 ATATATTTTAAAATTAA
124220 GTTAATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.35
20 6 0.18
21 16 0.47
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATATTTTAAAATTAAAATA
Found at i:126857 original size:9 final size:9
Alignment explanation
Indices: 126843--126901 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
126833 TTAAATATTA
126843 ATTATTAAT
1 ATTATTAAT
*
126852 ATTATTACT
1 ATTATTAAT
* *
126861 ATTATCATT
1 ATTATTAAT
126870 ATTATTAAT
1 ATTATTAAT
*
126879 ATTAATTAGT
1 ATT-ATTAAT
*
126889 TTTATTACAT
1 ATTATTA-AT
126899 ATT
1 ATT
126902 TTGCAGCCCG
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
9 29 0.74
10 10 0.26
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (9 bp):
ATTATTAAT
Found at i:131451 original size:28 final size:29
Alignment explanation
Indices: 131420--131480 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
131410 AATAAAATAG
* *
131420 TTTAATAT-TTTTATAATTTTAAACTAAA
1 TTTAATATATTTAATAATTTTAAACGAAA
* *
131448 TTTAATATATTTAATATTTTTAAGCGAAA
1 TTTAATATATTTAATAATTTTAAACGAAA
131477 TTTA
1 TTTA
131481 TGAAAGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (29 bp):
TTTAATATATTTAATAATTTTAAACGAAA
Found at i:131719 original size:19 final size:20
Alignment explanation
Indices: 131695--131739 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
131685 TTTAGTTGTC
131695 TTATACTC-ATATAAAAATA
1 TTATACTCTATATAAAAATA
131714 TTATAC-CTATATAAAAATA
1 TTATACTCTATATAAAAATA
131733 TTATACT
1 TTATACT
131740 TATTTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (20 bp):
TTATACTCTATATAAAAATA
Found at i:132131 original size:16 final size:16
Alignment explanation
Indices: 132110--132140 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
132100 GGATAAATTT
132110 TTTTGTTTAACTAAAA
1 TTTTGTTTAACTAAAA
*
132126 TTTTGTTTAATTAAA
1 TTTTGTTTAACTAAA
132141 TACATTAAAA
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:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (16 bp):
TTTTGTTTAACTAAAA
Found at i:138836 original size:13 final size:13
Alignment explanation
Indices: 138818--138846 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
138808 AATAAGAATG
138818 AAGCAACCTCTCA
1 AAGCAACCTCTCA
138831 AAGCAACCTCTCA
1 AAGCAACCTCTCA
138844 AAG
1 AAG
138847 ATGTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.34, G:0.10, T:0.14
Consensus pattern (13 bp):
AAGCAACCTCTCA
Found at i:141218 original size:17 final size:17
Alignment explanation
Indices: 141170--141219 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
141160 TAAGAGTTAA
141170 TTTAATAAACGAACTAG
1 TTTAATAAACGAACTAG
* * *
141187 TTTGATGAATGAACTAG
1 TTTAATAAACGAACTAG
* *
141204 TTTAATTAACAAACTA
1 TTTAATAAACGAACTA
141220 AATTTATTCA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (17 bp):
TTTAATAAACGAACTAG
Found at i:141824 original size:45 final size:45
Alignment explanation
Indices: 141772--141991 Score: 268
Period size: 45 Copynumber: 4.9 Consensus size: 45
141762 AATGAATGAA
* * *
141772 CAAAAGAATAATGCACATTGGTGCATTATCATCATGAAAGGATGC
1 CAAAAGAATAATGCATATGGGTGCATTATCAGCATGAAAGGATGC
* *
141817 CAAAAGAATAATGCATATGGATGCATTATCGGCATGAAAGGATGC
1 CAAAAGAATAATGCATATGGGTGCATTATCAGCATGAAAGGATGC
* *
141862 TAAAAGAATAATGCATATGGGTGCATTACCAGCATGAAAGGATGC
1 CAAAAGAATAATGCATATGGGTGCATTATCAGCATGAAAGGATGC
*
141907 CAAAAGAGA-AATGCATATGGGTACATTATC-GACATGAAAGGATGC
1 CAAAAGA-ATAATGCATATGGGTGCATTATCAG-CATGAAAGGATGC
* * * *
141952 C-ATAG-CTGAAATGAATATGGGTGCATTATCAGCATAAAAG
1 CAAAAGAAT--AATGCATATGGGTGCATTATCAGCATGAAAG
141992 TATGTTATAA
Statistics
Matches: 152, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
44 4 0.03
45 146 0.96
46 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (45 bp):
CAAAAGAATAATGCATATGGGTGCATTATCAGCATGAAAGGATGC
Found at i:142007 original size:45 final size:45
Alignment explanation
Indices: 141781--142035 Score: 207
Period size: 45 Copynumber: 5.6 Consensus size: 45
141771 ACAAAAGAAT
* * * *
141781 AATGCACATTGGTGCATTATCATCATGAAAGGATGCCA-AA-AGAA
1 AATGCATATGGGTGCATTATCAGCATGAAAGGATGCCATAACTG-A
* * **
141825 TAATGCATATGGATGCATTATCGGCATGAAAGGATG-C-TAAAAGAA
1 -AATGCATATGGGTGCATTATCAGCATGAAAGGATGCCATAACTG-A
* * **
141870 TAATGCATATGGGTGCATTACCAGCATGAAAGGATGCCAAAAGAGA
1 -AATGCATATGGGTGCATTATCAGCATGAAAGGATGCCATAACTGA
* *
141916 AATGCATATGGGTACATTATC-GACATGAAAGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATCAG-CATGAAAGGATGCCATAACTGA
* * * ** *
141961 AATGAATATGGGTGCATTATCAGCATAAAAGTATGTTATAATTGAA
1 AATGCATATGGGTGCATTATCAGCATGAAAGGATGCCATAACTG-A
* *
142007 AATGCATAAT-GGTGCATTATAAACATGAA
1 AATGCAT-ATGGGTGCATTATCAGCATGAA
142036 TGGAATACAA
Statistics
Matches: 174, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
44 4 0.02
45 138 0.79
46 26 0.15
47 6 0.03
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAGCATGAAAGGATGCCATAACTGA
Found at i:145235 original size:65 final size:63
Alignment explanation
Indices: 145115--145242 Score: 177
Period size: 65 Copynumber: 2.0 Consensus size: 63
145105 TTTCGAAAGT
*
145115 ATTTTATACACCGATGCACAACCATGCATTGATGCACTCTGGATTTAATTTAAACATCGAATGC
1 ATTTTATACACCGATGCACAACCATGCATTGATGCACTCTGGATTT-ATTGAAACATCGAATGC
* * *
145179 ATTTTATGCATCGATGCACAGACCATGCATTGATGCACTCCTGGCTTGT-TTGAAACATCGAATG
1 ATTTTATACACCGATGCACA-ACCATGCATTGATGCACT-CTGGATT-TATTGAAACATCGAATG
145243 TAATTAGTGT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
64 18 0.32
65 32 0.56
66 6 0.11
67 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (63 bp):
ATTTTATACACCGATGCACAACCATGCATTGATGCACTCTGGATTTATTGAAACATCGAATGC
Found at i:151081 original size:23 final size:22
Alignment explanation
Indices: 151047--151123 Score: 77
Period size: 23 Copynumber: 3.5 Consensus size: 22
151037 CTAGACAGTT
*
151047 CATCGATTCATCCCTTGAATGTG
1 CATCGATACAT-CCTTGAATGTG
*
151070 CATCGATACAT-CATGAA-GATG
1 CATCGATACATCCTTGAATG-TG
* *
151091 CACCGATGCATTCCTTGAATGTG
1 CATCGATACA-TCCTTGAATGTG
151114 CATCGATACA
1 CATCGATACA
151124 CTCTGTTATG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 1 0.02
21 15 0.35
22 1 0.02
23 25 0.58
24 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (22 bp):
CATCGATACATCCTTGAATGTG
Found at i:153970 original size:90 final size:89
Alignment explanation
Indices: 153875--154049 Score: 248
Period size: 90 Copynumber: 2.0 Consensus size: 89
153865 ACTGATGGGG
153875 TATCGATACTAAAAGGAAA-GTATCGATACCATGGATTACAGAATGCCA-AAATAGTATCGATAC
1 TATCGATACTAAAA-GAAAGGTATCGATACCATGGATTACAGAATG-CAGAAATAGTATCGATAC
153938 T-GAAAGGGAGTATCAATAACATATTAA
64 TAG-AAGGG-GTATCAATAACATATTAA
* * * *
153965 TATCGATACTTAGAGAAAGGTATCGATACCATGGATTACAGAATGTAGAAATGGTATCGATACTA
1 TATCGATACTAAAAGAAAGGTATCGATACCATGGATTACAGAATGCAGAAATAGTATCGATACTA
*
154030 GAAGGGGTATCAATACCATA
66 GAAGGGGTATCAATAACATA
154050 GTATAGAAGT
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
89 18 0.23
90 58 0.75
91 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (89 bp):
TATCGATACTAAAAGAAAGGTATCGATACCATGGATTACAGAATGCAGAAATAGTATCGATACTA
GAAGGGGTATCAATAACATATTAA
Found at i:154530 original size:45 final size:45
Alignment explanation
Indices: 154432--154714 Score: 282
Period size: 45 Copynumber: 6.3 Consensus size: 45
154422 GTTTTTATCA
* * * * **
154432 CATAAATGAAATGTATAACGGTTCATCAAAGGCAT-AAAAGGATTA
1 CATAAATGAAATGCATAACGGTGCATTAAAGCCATGAAAA-GATGC
* * *
154477 AATGAATGAAATGCATAACGGTGCATTAAAGCCATGAAAATATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGCCATGAAAAGATGC
** *
154522 CATAAATGAAATGCATAGTGGTGCATTAAAGCCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGCCATGAAAAGATGC
* * * ** * *
154567 CATAAATGAAATGTATAGCGGTGTATTAAAGGTATGAAAGGATTC
1 CATAAATGAAATGCATAACGGTGCATTAAAGCCATGAAAAGATGC
** * **
154612 CATAAATGAAATGCATAATTGTGCATTAAAGCCATGAAAGGATAT
1 CATAAATGAAATGCATAACGGTGCATTAAAGCCATGAAAAGATGC
* * *
154657 CGTAAATGAAATGCATAACGGTGCATTAAAGGCATG-AATGAATGC
1 CATAAATGAAATGCATAACGGTGCATTAAAGCCATGAAAAG-ATGC
154702 CATAAATGGAAAT
1 CATAAAT-GAAAT
154715 AATGAATAAT
Statistics
Matches: 197, Mismatches: 38, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
44 3 0.02
45 185 0.94
46 9 0.05
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.24
Consensus pattern (45 bp):
CATAAATGAAATGCATAACGGTGCATTAAAGCCATGAAAAGATGC
Found at i:154589 original size:90 final size:89
Alignment explanation
Indices: 154432--154714 Score: 325
Period size: 90 Copynumber: 3.1 Consensus size: 89
154422 GTTTTTATCA
* * * * * * * *
154432 CATAAATGAAATGTATAACGGTTCATCAAAGGCATAAAAGGATTA-AATGAATGAAATGCATAAC
1 CATAAATGAAATGCATAATGGTGCATTAAAGCCATGAAAGGA-TACCATAAATGAAATGCATAAC
*
154496 GGTGCATTAAAGCCATGAAAATATGC
65 GGTGCATTAAAGGCATGAAAA-ATGC
* * * *
154522 CATAAATGAAATGCATAGTGGTGCATTAAAGCCATGAAAGGATGCCATAAATGAAATGTATAGCG
1 CATAAATGAAATGCATAATGGTGCATTAAAGCCATGAAAGGATACCATAAATGAAATGCATAACG
* * * *
154587 GTGTATTAAAGGTATGAAAGGATTC
66 GTGCATTAAAGGCATGAAA-AATGC
* * *
154612 CATAAATGAAATGCATAATTGTGCATTAAAGCCATGAAAGGATATCGTAAATGAAATGCATAACG
1 CATAAATGAAATGCATAATGGTGCATTAAAGCCATGAAAGGATACCATAAATGAAATGCATAACG
*
154677 GTGCATTAAAGGCATGAATGAATGC
66 GTGCATTAAAGGCATGAA-AAATGC
154702 CATAAATGGAAAT
1 CATAAAT-GAAAT
154715 AATGAATAAT
Statistics
Matches: 160, Mismatches: 29, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
89 1 0.01
90 154 0.96
91 5 0.03
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.24
Consensus pattern (89 bp):
CATAAATGAAATGCATAATGGTGCATTAAAGCCATGAAAGGATACCATAAATGAAATGCATAACG
GTGCATTAAAGGCATGAAAAATGC
Found at i:154680 original size:135 final size:134
Alignment explanation
Indices: 154432--154714 Score: 372
Period size: 135 Copynumber: 2.1 Consensus size: 134
154422 GTTTTTATCA
*
154432 CATAAATGAAATGTATAACGGTTCATCAAAGGCATAAAAGGATTAAATGAATGAAATGCATAACG
1 CATAAATGAAATGTATAACGGTTCATCAAAGGCATAAAAGGATTAAATAAATGAAATGCATAACG
**
154497 GTGCATTAAAGCCATGAAAATATGCCATAAATGAAATGCATAGTGGTGCATTAAAGCCATGAAAG
66 GTGCATTAAAGCCATGAAAATAT-CCATAAATGAAATGCATAACGGTGCATTAAAGCCATGAAAG
*
154562 GATGC
130 AATGC
* * * * ** *
154567 CATAAATGAAATGTATAGCGGTGT-ATTAAAGGTATGAAAGGATTCCATAAATGAAATGCATAAT
1 CATAAATGAAATGTATAACGGT-TCATCAAAGGCATAAAAGGATTAAATAAATGAAATGCATAAC
* * *
154631 TGTGCATTAAAGCCATGAAAGGATAT-CGTAAATGAAATGCATAACGGTGCATTAAAGGCATGAA
65 GGTGCATTAAAGCCATGAAA--ATATCCATAAATGAAATGCATAACGGTGCATTAAAGCCATGAA
*
154695 TGAATGC
128 AGAATGC
154702 CATAAATGGAAAT
1 CATAAAT-GAAAT
154715 AATGAATAAT
Statistics
Matches: 129, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
135 119 0.92
136 6 0.05
137 4 0.03
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.24
Consensus pattern (134 bp):
CATAAATGAAATGTATAACGGTTCATCAAAGGCATAAAAGGATTAAATAAATGAAATGCATAACG
GTGCATTAAAGCCATGAAAATATCCATAAATGAAATGCATAACGGTGCATTAAAGCCATGAAAGA
ATGC
Found at i:161134 original size:66 final size:67
Alignment explanation
Indices: 161043--161202 Score: 171
Period size: 67 Copynumber: 2.4 Consensus size: 67
161033 TGAGATCAAT
* * * * * *
161043 TTTGTTTCAAGTGAAATAAATTCAAA-ATTTGA-GCTTCAAGAGAAATTGTCTCAAGCAAGACAA
1 TTTGTTTCGAGAGAAACAAACTCAAAGATTT-ATGCTTCAAGAGAAACTGTCTCAAACAAGACAA
161106 AAC
65 AAC
* * * ** *
161109 TTTGTTTCGAGAGAAACAAACTCAAAGGTTTATGTTTCAATAGAAACTGTCTCAAATGAGACTAA
1 TTTGTTTCGAGAGAAACAAACTCAAAGATTTATGCTTCAAGAGAAACTGTCTCAAACAAGACAAA
161174 AC
66 AC
* *
161176 TTTATTTCGAGAGAAACAATCTCAAAG
1 TTTGTTTCGAGAGAAACAAACTCAAAG
161203 GTGACAAACA
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
66 23 0.29
67 55 0.71
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (67 bp):
TTTGTTTCGAGAGAAACAAACTCAAAGATTTATGCTTCAAGAGAAACTGTCTCAAACAAGACAAA
AC
Found at i:161160 original size:67 final size:67
Alignment explanation
Indices: 161077--161204 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 67
161067 AAATTTGAGC
* * *
161077 TTCAAGAGAAATTGTCTCAAGCAAGACAAAACTTTGTTTCGAGAGAAACAAACTCAAAGGTTTAT
1 TTCAAGAGAAACTGTCTCAAACAAGACAAAACTTTATTTCGAGAGAAACAAACTCAAAGGTTTAT
161142 GT
66 GT
* ** * *
161144 TTCAATAGAAACTGTCTCAAATGAGACTAAACTTTATTTCGAGAGAAACAATCTCAAAGGT
1 TTCAAGAGAAACTGTCTCAAACAAGACAAAACTTTATTTCGAGAGAAACAAACTCAAAGGT
161205 GACAAACAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 53 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (67 bp):
TTCAAGAGAAACTGTCTCAAACAAGACAAAACTTTATTTCGAGAGAAACAAACTCAAAGGTTTAT
GT
Found at i:170544 original size:98 final size:100
Alignment explanation
Indices: 170362--170561 Score: 361
Period size: 98 Copynumber: 2.0 Consensus size: 100
170352 AAGTGTAACA
170362 AGTCAATCCTATCTTAATTAAACTTTAGTTGACTAAAGTGTATCATTTTTAAACTTAGTTCAAAA
1 AGTCAATCCTA-CTTAATTAAACTTTAGTTGACTAAAGTGTATCATTTTTAAACTTAGTTCAAAA
170427 AGTTGTTTTATGTTAATTTTATC-TTTTTCACTTGC
65 AGTTGTTTTATGTTAATTTTATCTTTTTTCACTTGC
170462 AGTCAATCCTA-TTAATTAAACTTTAGTTGACTAAAGTGTATCATTTTTAAACTTAGTTCAAAAA
1 AGTCAATCCTACTTAATTAAACTTTAGTTGACTAAAGTGTATCATTTTTAAACTTAGTTCAAAAA
170526 G-TGTTTTTATGTTAATTTTATCTTTTTTCACTTGC
66 GTTG-TTTTATGTTAATTTTATCTTTTTTCACTTGC
170561 A
1 A
170562 TTAATGGTTC
Statistics
Matches: 98, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
97 2 0.02
98 72 0.73
99 13 0.13
100 11 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (100 bp):
AGTCAATCCTACTTAATTAAACTTTAGTTGACTAAAGTGTATCATTTTTAAACTTAGTTCAAAAA
GTTGTTTTATGTTAATTTTATCTTTTTTCACTTGC
Found at i:193294 original size:2 final size:2
Alignment explanation
Indices: 193287--193314 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
193277 TGAGGTACAT
193287 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
193315 GCATCCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:193838 original size:26 final size:26
Alignment explanation
Indices: 193809--193861 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
193799 CGTTAAATTT
193809 CATTTTATTTATGGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATG
*
193835 CATTTTATTTATGGCATCCTTTTATG
1 CATTTTATTTATGGCATCCTTTCATG
193861 C
1 C
193862 CAATAATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (26 bp):
CATTTTATTTATGGCATCCTTTCATG
Found at i:193902 original size:34 final size:34
Alignment explanation
Indices: 193853--194154 Score: 127
Period size: 34 Copynumber: 7.9 Consensus size: 34
193843 TTATGGCATC
* *
193853 CTTTTATGCCAATAATTCACACATATGCATTATT
1 CTTTTATACCAATAATGCACACATATGCATTATT
* *
193887 CTTTTATACCGATAATGCACCCATATGCATTTCATCTAT
1 CTTTTATACCAATAATGCACACATATGCA-TT-A--T-T
* *
193926 GGCGTCATTTCATGCCAATAATGCACCCATATGCATTATT
1 --C-T--TTT-ATACCAATAATGCACACATATGCATTATT
* * *
193966 CTTTTATGCTAATAATGCACCCATATGCATTTCAGCTAT
1 CTTTTATACCAATAATGCACACATATGCA-TT-A--T-T
* * *
194005 GACATCCTTTCATGCCAATAATGCACCCATATGCAATATT
1 --C-T--TTT-ATACCAATAATGCACACATATGCATTATT
* * *
194045 CTTTTATGCCGATAATGCACTCATATGCATTTCAGCTAT
1 CTTTTATACCAATAATGCACACATATGCA-TT-A--T-T
* *
194084 GACATCCTTTCATGCCAATAATGCACCCATATGCATTATT
1 --C-T--TTT-ATACCAATAATGCACACATATGCATTATT
* * *
194124 CTTTTATGCCGATAATGCACCCATATGCATT
1 CTTTTATACCAATAATGCACACATATGCATT
194155 TCAACTATGG
Statistics
Matches: 220, Mismatches: 15, Indels: 66
0.73 0.05 0.22
Matches are distributed among these distances:
34 95 0.43
35 14 0.06
36 3 0.01
37 3 0.01
38 6 0.03
39 3 0.01
40 3 0.01
41 6 0.03
42 3 0.01
43 3 0.01
44 14 0.06
45 67 0.30
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.36
Consensus pattern (34 bp):
CTTTTATACCAATAATGCACACATATGCATTATT
Found at i:193927 original size:79 final size:79
Alignment explanation
Indices: 193844--194288 Score: 728
Period size: 79 Copynumber: 5.6 Consensus size: 79
193834 GCATTTTATT
* * * *
193844 TATGGCATCCTTTTATGCCAATAATTCACACATATGCATTATTCTTTTATACCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
*
193909 ATATGCATTTCATC
66 ATATGCATTTCAGC
* * **
193923 TATGGCGTCATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTAATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
193988 ATATGCATTTCAGC
66 ATATGCATTTCAGC
* * *
194002 TATGACATCCTTTCATGCCAATAATGCACCCATATGCAATATTCTTTTATGCCGATAATGCACTC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
194067 ATATGCATTTCAGC
66 ATATGCATTTCAGC
*
194081 TATGACATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
*
194146 ATATGCATTTCAAC
66 ATATGCATTTCAGC
* * *
194160 TATGGCATCCTTTCATGTCAATAATGCACTCATATGCATTATACTTTTATGCCGATAATGCACCC
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
194225 ATATGCATTTCAGC
66 ATATGCATTTCAGC
*
194239 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTTTTTTAT
1 TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAT
194289 TCATTCGTTC
Statistics
Matches: 338, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 338 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.36
Consensus pattern (79 bp):
TATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGCACCC
ATATGCATTTCAGC
Found at i:194186 original size:45 final size:45
Alignment explanation
Indices: 194124--194278 Score: 179
Period size: 45 Copynumber: 3.7 Consensus size: 45
194114 ATGCATTATT
* *
194124 CTTTTATGCCGATAATGCACCCATATGCATTTCAACTATGGCATC
1 CTTTCATGCCAATAATGCACCCATATGCATTTCAACTATGGCATC
* *
194169 CTTTCATGTCAATAATGCACTCATATGCA-TT--A-TA---C-T-
1 CTTTCATGCCAATAATGCACCCATATGCATTTCAACTATGGCATC
* *
194205 -TTT-ATGCCGATAATGCACCCATATGCATTTCAGCTATGGCATC
1 CTTTCATGCCAATAATGCACCCATATGCATTTCAACTATGGCATC
194248 CTTTCATGCCAATAATGCACCCATATGCATT
1 CTTTCATGCCAATAATGCACCCATATGCATT
194279 ATTTTTTTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 22
0.74 0.07 0.18
Matches are distributed among these distances:
34 21 0.23
35 5 0.06
37 1 0.01
38 3 0.03
41 3 0.03
42 2 0.02
44 5 0.06
45 50 0.56
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (45 bp):
CTTTCATGCCAATAATGCACCCATATGCATTTCAACTATGGCATC
Found at i:194814 original size:20 final size:21
Alignment explanation
Indices: 194789--194839 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
194779 CTTTGAAATT
*
194789 GTATCGATACCTTCCC-TTCG
1 GTATCGATACCTACCCTTTCG
194809 GTATCGATA-CTACCCTTTCG
1 GTATCGATACCTACCCTTTCG
*
194829 GCATCGATACC
1 GTATCGATACC
194840 GATTGAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 21 0.78
21 1 0.04
ACGTcount: A:0.20, C:0.33, G:0.16, T:0.31
Consensus pattern (21 bp):
GTATCGATACCTACCCTTTCG
Found at i:196553 original size:25 final size:25
Alignment explanation
Indices: 196515--196564 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
196505 AGAAGATCAA
196515 TAATCATTTCATAACTTTTAAAAAT
1 TAATCATTTCATAACTTTTAAAAAT
*
196540 TAATCATTTTATAACTTTTAAAAAT
1 TAATCATTTCATAACTTTTAAAAAT
196565 ATATTCGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATCATTTCATAACTTTTAAAAAT
Found at i:199242 original size:15 final size:15
Alignment explanation
Indices: 199222--199251 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
199212 GAATAGGCAT
199222 AGGGTTACACGGAAG
1 AGGGTTACACGGAAG
*
199237 AGGGTTACAGGGAAG
1 AGGGTTACACGGAAG
199252 GAAAAAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.43, T:0.13
Consensus pattern (15 bp):
AGGGTTACACGGAAG
Found at i:200797 original size:25 final size:25
Alignment explanation
Indices: 200768--200820 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
200758 TTGTCAGAGG
200768 CCTAAAAACTACACTATTCGAAAGC
1 CCTAAAAACTACACTATTCGAAAGC
200793 CCTAAAAACTACACTATTCGAAAGC
1 CCTAAAAACTACACTATTCGAAAGC
200818 CCT
1 CCT
200821 TTTCTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.42, C:0.30, G:0.08, T:0.21
Consensus pattern (25 bp):
CCTAAAAACTACACTATTCGAAAGC
Found at i:202116 original size:14 final size:15
Alignment explanation
Indices: 202089--202118 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
202079 TAAGGGAAAT
202089 AAATGAGATTTTAGA
1 AAATGAGATTTTAGA
202104 AAATGAG-TTTTAGA
1 AAATGAGATTTTAGA
202118 A
1 A
202119 TGATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
AAATGAGATTTTAGA
Found at i:202522 original size:20 final size:20
Alignment explanation
Indices: 202494--202544 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
202484 AATGTAATCA
202494 GTATCGATACCGAGA-GAGAG
1 GTATCGATACCGAGAGGA-AG
* *
202514 GTTTCGATACTGAGAGGAAG
1 GTATCGATACCGAGAGGAAG
202534 GTATCGATACC
1 GTATCGATACC
202545 ATTAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (20 bp):
GTATCGATACCGAGAGGAAG
Found at i:203031 original size:58 final size:58
Alignment explanation
Indices: 202967--203413 Score: 677
Period size: 58 Copynumber: 7.7 Consensus size: 58
202957 ATGGCACTAA
* *
202967 GTGTGAAAAAAGTTAAGAAATTCATACTAAGTGCATGAATTTCTGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
*
203025 GTGTGAAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
* *
203083 GTGTGCAAAAAGTTAACAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
* * * ** *
203141 GAGT-TAAAAA-TTAAGAAAATCATACTAAGTGTATGAATTTCCATATTGGGTACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
*
203197 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTT-TCATATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCT-GTATTGGGCACTTT
* *
203255 GTGTGGAAAAAGTTAAGAAATTCATAATAAGTGTATGAATTT-TCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCT-GTATTGGGCACTTT
* * *
203313 GTATGCAAAAAGTTAAGAAATTTCATACTAAGTGTATAAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAA-TTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
*
203372 GTGTGCAAAAAGTTAAGAGATTCATACTAAGTGTATGAATTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTT
203414 TCGTATGAGA
Statistics
Matches: 358, Mismatches: 26, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
56 45 0.13
57 10 0.03
58 251 0.70
59 52 0.15
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (58 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
Found at i:203267 original size:172 final size:175
Alignment explanation
Indices: 202973--203415 Score: 707
Period size: 172 Copynumber: 2.5 Consensus size: 175
202963 CTAAGTGTGA
* * *
202973 AAAAAGTTAAGAAATTCATACTAAGTGCATGAATTTCTGTATTGGGCACTTTGTGTGAAAAAAGT
1 AAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAAGT
*
203038 TAAGAAATTCATACTAAGTGTATGAA-TTTCTGTATTGGGCACTTTGTGTGCAAAAAGTTAACAA
66 TAAGAAATTCATACTAAGTGTATGAATTTTCTATATTGGGCACTTTGTGTGCAAAAAGTTAACAA
* *
203102 ATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTG-A-GTT
131 ATTCATAATAAGTGTATGAATTTCCGTATTGGGCACTTTGTATG-C
* * *
203146 AAAAA-TTAAGAAAATCATACTAAGTGTATGAATTTCCATATTGGGTACTTTGTGTGCAAAAAGT
1 AAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAAGT
* *
203210 TAAGAAATTCATACTAAGTGTATGAATTTTC-ATATTGGGCACTTTGTGTGGAAAAAGTTAAGAA
66 TAAGAAATTCATACTAAGTGTATGAATTTTCTATATTGGGCACTTTGTGTGCAAAAAGTTAACAA
*
203274 ATTCATAATAAGTGTATGAATTTTCGTATTGGGCACTTTGTATGC
131 ATTCATAATAAGTGTATGAATTTCCGTATTGGGCACTTTGTATGC
*
203319 AAAAAGTTAAGAAATTTCATACTAAGTGTATAAATTTCCGTATTGGGCACTTTGTGTGCAAAAAG
1 AAAAAGTTAAGAAA-TTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAAG
*
203384 TTAAGAGATTCATACTAAGTGTATGAATTTTC
65 TTAAGAAATTCATACTAAGTGTATGAATTTTC
203416 GTATGAGAAA
Statistics
Matches: 248, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
172 147 0.59
173 15 0.06
174 9 0.04
175 77 0.31
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (175 bp):
AAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAAGT
TAAGAAATTCATACTAAGTGTATGAATTTTCTATATTGGGCACTTTGTGTGCAAAAAGTTAACAA
ATTCATAATAAGTGTATGAATTTCCGTATTGGGCACTTTGTATGC
Found at i:203448 original size:230 final size:229
Alignment explanation
Indices: 202973--203433 Score: 667
Period size: 230 Copynumber: 2.0 Consensus size: 229
202963 CTAAGTGTGA
*
202973 AAAAAGTTAAGAAATTCATACTAAGTGCATGAATTTCTGTATTGGGCACTTTGTGTGAAAAAAGT
1 AAAAAG-TAAGAAATTCATACTAAGTGCATGAATTTCTATATTGGGCACTTTGTGTGAAAAAAGT
* *
203038 TAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTTGTGTGCAAAAAGTTAACAAA
65 TAAGAAATTCATAATAAGTGTATGAATTTCTGTATTGGGCACTTTGTATGCAAAAAGTTAACAAA
* *
203103 TTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGAGTTAAAAATTAAGAAAATCATACTA
130 TTCATACTAAGTGTATAAATTTCCGTATTGGGCACTTTGAGTCAAAAATTAAGAAAATCATACTA
* * * * * *
203168 AGTGTATGAATTTCCATATTGGGTACTTTGTGTGC
195 AGTGTATGAATTTCCATATTGAGAAATATCTATGC
* *
203203 AAAAAGTTAAGAAATTCATACTAAGTGTATGAATTT-TCATATTGGGCACTTTGTGTGGAAAAAG
1 AAAAAG-TAAGAAATTCATACTAAGTGCATGAATTTCT-ATATTGGGCACTTTGTGTGAAAAAAG
*
203267 TTAAGAAATTCATAATAAGTGTATGAATTT-TCGTATTGGGCACTTTGTATGCAAAAAGTTAAGA
64 TTAAGAAATTCATAATAAGTGTATGAATTTCT-GTATTGGGCACTTTGTATGCAAAAAGTTAACA
* * *
203331 AATTTCATACTAAGTGTATAAATTTCCGTATTGGGCACTTTGTGTGCAAAAAGTTAAGAGATTCA
128 AA-TTCATACTAAGTGTATAAATTTCCGTATTGGGCACTTTGAGT-CAAAAA-TTAAGAAAATCA
* *
203396 TACTAAGTGTATGAATTTTCGTA-TGAGAAATATCTATG
190 TACTAAGTGTATGAATTTCCATATTGAGAAATATCTATG
203434 TAGACATAAG
Statistics
Matches: 207, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
229 2 0.01
230 120 0.58
231 40 0.19
232 14 0.07
233 31 0.15
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (229 bp):
AAAAAGTAAGAAATTCATACTAAGTGCATGAATTTCTATATTGGGCACTTTGTGTGAAAAAAGTT
AAGAAATTCATAATAAGTGTATGAATTTCTGTATTGGGCACTTTGTATGCAAAAAGTTAACAAAT
TCATACTAAGTGTATAAATTTCCGTATTGGGCACTTTGAGTCAAAAATTAAGAAAATCATACTAA
GTGTATGAATTTCCATATTGAGAAATATCTATGC
Found at i:209525 original size:21 final size:21
Alignment explanation
Indices: 209499--209547 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
209489 TCAACTAAGT
209499 AGTATCGGTATTGAA-GTAATC
1 AGTATCGGTATT-AATGTAATC
209520 AGTATCGGTATTAATGTAATC
1 AGTATCGGTATTAATGTAATC
209541 AGTATCG
1 AGTATCG
209548 ATACCGGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (21 bp):
AGTATCGGTATTAATGTAATC
Found at i:210595 original size:12 final size:12
Alignment explanation
Indices: 210560--210597 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
210550 TGGATAACTA
210560 TCTCTCTCTTTT
1 TCTCTCTCTTTT
* *
210572 TCTAT-TCCTTT
1 TCTCTCTCTTTT
210583 TCTCTCTCTTTT
1 TCTCTCTCTTTT
210595 TCT
1 TCT
210598 GTATTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (12 bp):
TCTCTCTCTTTT
Found at i:212670 original size:20 final size:22
Alignment explanation
Indices: 212647--212699 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
212637 CCTAGATGTT
*
212647 AGTATCAATACTCAA-GGG-TC
1 AGTATCGATACTCAAGGGGATC
*
212667 AGTATCGATACTTAAGGGGATC
1 AGTATCGATACTCAAGGGGATC
212689 AGTATCGATAC
1 AGTATCGATAC
212700 CCACACATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 13 0.45
21 3 0.10
22 13 0.45
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (22 bp):
AGTATCGATACTCAAGGGGATC
Found at i:213759 original size:24 final size:24
Alignment explanation
Indices: 213732--213814 Score: 139
Period size: 24 Copynumber: 3.5 Consensus size: 24
213722 ATGCTACATG
*
213732 GTATCAATACCACTATGTAAAGTA
1 GTATCGATACCACTATGTAAAGTA
*
213756 GTATTGATACCACTATGTAAAGTA
1 GTATCGATACCACTATGTAAAGTA
213780 GTATCGATACCACTATGTAAAGTA
1 GTATCGATACCACTATGTAAAGTA
*
213804 GTATCGCTACC
1 GTATCGATACC
213815 CCCTTGAGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (24 bp):
GTATCGATACCACTATGTAAAGTA
Found at i:216895 original size:18 final size:18
Alignment explanation
Indices: 216872--216907 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
216862 AAACATTTTG
216872 CCTTAATTTTTTATATCA
1 CCTTAATTTTTTATATCA
216890 CCTTAATTTTTTATATCA
1 CCTTAATTTTTTATATCA
216908 AAACATTATA
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:0.28, C:0.17, G:0.00, T:0.56
Consensus pattern (18 bp):
CCTTAATTTTTTATATCA
Found at i:218421 original size:41 final size:40
Alignment explanation
Indices: 218359--218724 Score: 366
Period size: 41 Copynumber: 9.1 Consensus size: 40
218349 TATTAAGTGA
* *
218359 CATGATTGAATTGAACTGAATTATGAATTATTGCATGCTGC
1 CATGATTGAATT-AAGTGAATTGTGAATTATTGCATGCTGC
* * *
218400 CATGATTGAATTAAGTCGAATTGTGAATAATTGAATGTTGC
1 CATGATTGAATTAAGT-GAATTGTGAATTATTGCATGCTGC
* * *
218441 CATTATCGAATTAAGTTGAATTGTGAATTATTGCATGCTAC
1 CATGATTGAATTAAG-TGAATTGTGAATTATTGCATGCTGC
* * *
218482 CATGATTGAATTGAACTGAATTGTGAATTATTTCATGTTGC
1 CATGATTGAATT-AAGTGAATTGTGAATTATTGCATGCTGC
*
218523 CATGGTTGAATTAAGTTGAATTGTGAATTATTGCATGCTGC
1 CATGATTGAATTAAG-TGAATTGTGAATTATTGCATGCTGC
* * * *
218564 CACGATTGAA-T---TGAATTATGAATTATTACATGATGC
1 CATGATTGAATTAAGTGAATTGTGAATTATTGCATGCTGC
* * *
218600 CATGATTGAATTGAA-TCGAATTGTGGATTATTGCATACTGT
1 CATGATTGAATT-AAGT-GAATTGTGAATTATTGCATGCTGC
* * * *
218641 CATGATCGAATTGAGTTGAATGGTGAATTATTGCATGTTGC
1 CATGATTGAATTAAG-TGAATTGTGAATTATTGCATGCTGC
* * *
218682 CATGATTGAACTGAA-TCGAATTGTTAATTAATGCATGCTGC
1 CATGATTGAA-TTAAGT-GAATTGTGAATTATTGCATGCTGC
218723 CA
1 CA
218725 AGATCGAACT
Statistics
Matches: 265, Mismatches: 47, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
36 31 0.12
37 1 0.00
40 9 0.03
41 218 0.82
42 6 0.02
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (40 bp):
CATGATTGAATTAAGTGAATTGTGAATTATTGCATGCTGC
Found at i:218574 original size:31 final size:32
Alignment explanation
Indices: 218538--218613 Score: 82
Period size: 36 Copynumber: 2.3 Consensus size: 32
218528 TTGAATTAAG
* *
218538 TTGAATTG-TGAATTATTGCATGCTGCCACGA
1 TTGAATTGATGAATTATTACATGATGCCACGA
*
218569 TTGAATTGAATTATGAATTATTACATGATGCCATGA
1 TTGAATTG----ATGAATTATTACATGATGCCACGA
218605 TTGAATTGA
1 TTGAATTGA
218614 ATCGAATTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
31 8 0.22
32 1 0.03
36 28 0.76
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (32 bp):
TTGAATTGATGAATTATTACATGATGCCACGA
Done.