Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008770.1 Hibiscus syriacus cultivar Beakdansim tig00111873_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: 569103
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:6046 original size:12 final size:13
Alignment explanation
Indices: 6031--6059 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6021 TTTAACTTTA
6031 TTTT-AATTAATT
1 TTTTAAATTAATT
6043 TTTTAAATTAATT
1 TTTTAAATTAATT
6056 TTTT
1 TTTT
6060 TCTCTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTAATT
Found at i:8700 original size:2 final size:2
Alignment explanation
Indices: 8691--8756 Score: 118
Period size: 2 Copynumber: 34.0 Consensus size: 2
8681 TATCATTAAG
8691 TA TA -A TA TA TA TA 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 TA TA TA TA TA TA TA
8732 TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8757 ATTGATTCCT
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 60 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10199 original size:174 final size:173
Alignment explanation
Indices: 9946--10264 Score: 514
Period size: 174 Copynumber: 1.8 Consensus size: 173
9936 TTGAAATTTT
*
9946 TATCGATACTTTTCTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAAAATTCCAA
1 TATCGATACTTTTCTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAAAATTCAAA
*
10011 TAATAGCGCCTATAAAGTATCAATACTTTATAAACATGTATCGATACACGACAATATAACATGTT
66 TAATAGCGCCTATAAAGTATCAATACTTTATAAACATGTATCGATACACGACAATATAACAAGTT
10076 AAAATATGACAAAACCTGTAAAGAGCTACCGGATATGCTGAAGG
131 AAAATATGA-AAAACCTGTAAAGAGCTACCGGATATGCTGAAGG
* * * * * *
10120 TATCGATACTTTTGC-AAGTATATGTATCATATTATCGATAGTTTAGGAATTTAAAAGAATTGAA
1 TATCGATACTTTT-CTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAAAATTCAA
* * *
10184 ATAATAGCTCCTATAAAGTATCGATACTTTATAAACATGTATCGATACATGACAATATAACAAGT
65 ATAATAGCGCCTATAAAGTATCAATACTTTATAAACATGTATCGATACACGACAATATAACAAGT
10249 TAAAATATGAAAAACC
130 TAAAATATGAAAAACC
10265 GGTTTAAATA
Statistics
Matches: 133, Mismatches: 11, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
173 6 0.05
174 126 0.95
175 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (173 bp):
TATCGATACTTTTCTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAAAATTCAAA
TAATAGCGCCTATAAAGTATCAATACTTTATAAACATGTATCGATACACGACAATATAACAAGTT
AAAATATGAAAAACCTGTAAAGAGCTACCGGATATGCTGAAGG
Found at i:31059 original size:12 final size:13
Alignment explanation
Indices: 31044--31072 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
31034 TTTAACTTTA
31044 TTTT-AATTAATT
1 TTTTAAATTAATT
31056 TTTTAAATTAATT
1 TTTTAAATTAATT
31069 TTTT
1 TTTT
31073 TTCTCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTAATT
Found at i:33717 original size:2 final size:2
Alignment explanation
Indices: 33708--33761 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
33698 TATCATTAAG
33708 TA TA -A TA TA TA TA 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 TA TA TA TA TA TA TA
33749 TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA
33762 ATTGATTCCT
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 48 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:35173 original size:174 final size:173
Alignment explanation
Indices: 34952--35270 Score: 514
Period size: 174 Copynumber: 1.8 Consensus size: 173
34942 TTGAAATTTT
*
34952 TATCGATACTTTTCTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAAAATTCCAA
1 TATCGATACTTTTCTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAAAATTCAAA
*
35017 TAATAGCGCCTATAAAGTATCAATACTTTATAAACATGTATCGATACACGACAATATAACATGTT
66 TAATAGCGCCTATAAAGTATCAATACTTTATAAACATGTATCGATACACGACAATATAACAAGTT
35082 AAAATATGACAAAACCTGTAAAGAGCTACCGGATATGCTGAAGG
131 AAAATATGA-AAAACCTGTAAAGAGCTACCGGATATGCTGAAGG
* * * * * *
35126 TATCGATACTTTTGC-AAGTATATGTATCATATTATCGATAGTTTAGGAATTTAAAAGAATTGAA
1 TATCGATACTTTT-CTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAAAATTCAA
* * *
35190 ATAATAGCTCCTATAAAGTATCGATACTTTATAAACATGTATCGATACATGACAATATAACAAGT
65 ATAATAGCGCCTATAAAGTATCAATACTTTATAAACATGTATCGATACACGACAATATAACAAGT
35255 TAAAATATGAAAAACC
130 TAAAATATGAAAAACC
35271 GGTTTAAATA
Statistics
Matches: 133, Mismatches: 11, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
173 6 0.05
174 126 0.95
175 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (173 bp):
TATCGATACTTTTCTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAAAATTCAAA
TAATAGCGCCTATAAAGTATCAATACTTTATAAACATGTATCGATACACGACAATATAACAAGTT
AAAATATGAAAAACCTGTAAAGAGCTACCGGATATGCTGAAGG
Found at i:56074 original size:12 final size:13
Alignment explanation
Indices: 56059--56087 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
56049 TTTAACTTTA
56059 TTTT-AATTAATT
1 TTTTAAATTAATT
56071 TTTTAAATTAATT
1 TTTTAAATTAATT
56084 TTTT
1 TTTT
56088 TCTCTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTAATT
Found at i:58732 original size:2 final size:2
Alignment explanation
Indices: 58727--58762 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
58717 TATCATTAAG
58727 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58763 ATTGATTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60174 original size:174 final size:173
Alignment explanation
Indices: 59953--60271 Score: 514
Period size: 174 Copynumber: 1.8 Consensus size: 173
59943 TTGAAATTTT
*
59953 TATCGATACTTTTCTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAAAATTCCAA
1 TATCGATACTTTTCTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAAAATTCAAA
*
60018 TAATAGCGCCTATAAAGTATCAATACTTTATAAACATGTATCGATACACGACAATATAACATGTT
66 TAATAGCGCCTATAAAGTATCAATACTTTATAAACATGTATCGATACACGACAATATAACAAGTT
60083 AAAATATGACAAAACCTGTAAAGAGCTACCGGATATGCTGAAGG
131 AAAATATGA-AAAACCTGTAAAGAGCTACCGGATATGCTGAAGG
* * * * * *
60127 TATCGATACTTTTGC-AAGTATATGTATCATATTATCGATAGTTTAGGAATTTAAAAGAATTGAA
1 TATCGATACTTTT-CTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAAAATTCAA
* * *
60191 ATAATAGCTCCTATAAAGTATCGATACTTTATAAACATGTATCGATACATGACAATATAACAAGT
65 ATAATAGCGCCTATAAAGTATCAATACTTTATAAACATGTATCGATACACGACAATATAACAAGT
60256 TAAAATATGAAAAACC
130 TAAAATATGAAAAACC
60272 GGTTTAAATA
Statistics
Matches: 133, Mismatches: 11, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
173 6 0.05
174 126 0.95
175 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (173 bp):
TATCGATACTTTTCTAAGTATATGCACCAAATTATCGATACTTTAGGAATTTAAAAAAATTCAAA
TAATAGCGCCTATAAAGTATCAATACTTTATAAACATGTATCGATACACGACAATATAACAAGTT
AAAATATGAAAAACCTGTAAAGAGCTACCGGATATGCTGAAGG
Found at i:62315 original size:24 final size:24
Alignment explanation
Indices: 62288--62337 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
62278 TGGTGGTTGA
62288 TTTAATGGTTGT-TTGAACTTTATT
1 TTTAATGG-TGTATTGAACTTTATT
* *
62312 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTGAACTTTATT
62336 TT
1 TT
62338 GGTTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTATTGAACTTTATT
Found at i:69185 original size:20 final size:20
Alignment explanation
Indices: 69160--69235 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 20
69150 TAACTTTTTC
69160 TTTTCTCTTTCTTTATTAAT
1 TTTTCTCTTTCTTTATTAAT
* * *
69180 TTTTCTATTTCATTTTAACTTTTAC
1 TTTTCTCTTTC--TTT-A--TTAAT
*
69205 TTTTCTCTTCCTTTATTAAT
1 TTTTCTCTTTCTTTATTAAT
69225 TTTTCTCTTTC
1 TTTTCTCTTTC
69236 ATTTTAACTT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
20 23 0.53
22 4 0.09
23 4 0.09
25 12 0.28
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTCTCTTTCTTTATTAAT
Found at i:69199 original size:45 final size:45
Alignment explanation
Indices: 69147--69264 Score: 200
Period size: 45 Copynumber: 2.6 Consensus size: 45
69137 CCTCTTAAAT
*
69147 TTTTAACTTTTTCTTTTCTCTTTCTTTATTAATTTTTCTATTTCA
1 TTTTAACTTTTACTTTTCTCTTTCTTTATTAATTTTTCTATTTCA
* *
69192 TTTTAACTTTTACTTTTCTCTTCCTTTATTAATTTTTCTCTTTCA
1 TTTTAACTTTTACTTTTCTCTTTCTTTATTAATTTTTCTATTTCA
69237 TTTTAACTTTTACTTTTTCTCTTTCTTT
1 TTTTAACTTTTAC-TTTTCTCTTTCTTT
69265 TACTCATCTT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
45 55 0.81
46 13 0.19
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (45 bp):
TTTTAACTTTTACTTTTCTCTTTCTTTATTAATTTTTCTATTTCA
Found at i:69208 original size:26 final size:25
Alignment explanation
Indices: 69147--69266 Score: 93
Period size: 26 Copynumber: 5.2 Consensus size: 25
69137 CCTCTTAAAT
*
69147 TTTTAACTTTTTC-TTTTCTCTTTC
1 TTTTAACTTTTACTTTTTCTCTTTC
* *
69171 -TTT-A---TTAATTTTTCTATTTC
1 TTTTAACTTTTACTTTTTCTCTTTC
69191 ATTTTAACTTTTAC-TTTTCTC-TTC
1 -TTTTAACTTTTACTTTTTCTCTTTC
* *
69215 CTTT-A---TTAATTTTTCTCTTTC
1 TTTTAACTTTTACTTTTTCTCTTTC
69236 ATTTTAACTTTTACTTTTTCTCTTTC
1 -TTTTAACTTTTACTTTTTCTCTTTC
69262 TTTTA
1 TTTTA
69267 CTCATCTTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 27
0.67 0.08 0.25
Matches are distributed among these distances:
19 5 0.07
20 17 0.23
21 3 0.04
22 8 0.11
23 8 0.11
24 3 0.04
25 11 0.15
26 18 0.25
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTAACTTTTACTTTTTCTCTTTC
Found at i:69247 original size:20 final size:20
Alignment explanation
Indices: 69160--69247 Score: 63
Period size: 20 Copynumber: 4.2 Consensus size: 20
69150 TAACTTTTTC
*
69160 TTTTCTCTTTCTTTATTAAT
1 TTTTCTCTTTCATTATTAAT
*
69180 TTTTCTATTTCATT-TTAACTTTT
1 TTTTCTCTTTCATTATTAA----T
* *
69203 ACTTTTCTCTTCCTTTATTAAT
1 --TTTTCTCTTTCATTATTAAT
*
69225 TTTTCTCTTTCATT-TTAAC
1 TTTTCTCTTTCATTATTAAT
69244 TTTT
1 TTTT
69248 ACTTTTTCTC
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
19 12 0.23
20 24 0.45
22 1 0.02
23 1 0.02
25 11 0.21
26 4 0.08
ACGTcount: A:0.16, C:0.17, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTCTCTTTCATTATTAAT
Found at i:69255 original size:20 final size:20
Alignment explanation
Indices: 69187--69255 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
69177 AATTTTTCTA
69187 TTTCATTTTAACTTTTACTT
1 TTTCATTTTAACTTTTACTT
* * * *
69207 TTCTCTTCCTTTATTAATTTTTCTC
1 TT-TCAT--TTTA--ACTTTTACTT
69232 TTTCATTTTAACTTTTACTT
1 TTTCATTTTAACTTTTACTT
69252 TTTC
1 TTTC
69256 TCTTTCTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 13 0.36
21 3 0.08
22 4 0.11
23 4 0.11
24 3 0.08
25 9 0.25
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTCATTTTAACTTTTACTT
Found at i:72276 original size:24 final size:24
Alignment explanation
Indices: 72249--72298 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
72239 TGGTGGTTGA
72249 TTTAATGGTTGT-TTGAACTTTATT
1 TTTAATGG-TGTATTGAACTTTATT
* *
72273 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTGAACTTTATT
72297 TT
1 TT
72299 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTATTGAACTTTATT
Found at i:81175 original size:27 final size:27
Alignment explanation
Indices: 81137--81196 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
81127 TTAACTTAAA
* *
81137 GTAATAGGTAAATTTACAATGTTAGCG
1 GTAAAAGGTAAATTTACAATCTTAGCG
81164 GTAAAAGGTAAATTTACAATCTTAGCG
1 GTAAAAGGTAAATTTACAATCTTAGCG
81191 GTAAAA
1 GTAAAA
81197 AGCTATCGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (27 bp):
GTAAAAGGTAAATTTACAATCTTAGCG
Found at i:81396 original size:158 final size:155
Alignment explanation
Indices: 81224--81512 Score: 389
Period size: 158 Copynumber: 1.8 Consensus size: 155
81214 AAAATACATT
* * * *
81224 AACATAAAGTATCGATACTTTTTGTATGTGTATCGATATTTTTTTCCAGTATACTTCCCAAACTT
1 AACATAAAGTATCGATACTTTTTATATGTGTATCAATATTTTTGTCCAGTATACATCCCAAAC--
* * *
81289 AAGTAAGTAAAAAGAAAGTATCGATACAAGTATGAAAAATATCGATTCTTAAAACTTCGAAACTG
64 AA-TAAGCAAAAAGAAAGTATCGATACAAGTATGAAAAATATCGATTCTTAAAACTTCAAAACCG
81354 ATTATTCAAAACTGATACAAGATACGTA
128 ATTATTCAAAACTGATACAAGATACGTA
* * *
81382 AACATAAAGTATCGATACTTTTTATATTTGTATCAATATTTTTGTCCAGTATGCATCCCAAACGA
1 AACATAAAGTATCGATACTTTTTATATGTGTATCAATATTTTTGTCCAGTATACATCCCAAACAA
* *** * * * *
81447 TATGCACGCATAAAGTATCGATACACGTATGAAAAGTATTGATTCTTAAAACTTCAAAACCGATT
66 TAAGCAAAAAGAAAGTATCGATACAAGTATGAAAAATATCGATTCTTAAAACTTCAAAACCGATT
81512 A
131 A
81513 GTATAAAGTA
Statistics
Matches: 113, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
155 55 0.49
156 1 0.01
158 57 0.50
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (155 bp):
AACATAAAGTATCGATACTTTTTATATGTGTATCAATATTTTTGTCCAGTATACATCCCAAACAA
TAAGCAAAAAGAAAGTATCGATACAAGTATGAAAAATATCGATTCTTAAAACTTCAAAACCGATT
ATTCAAAACTGATACAAGATACGTA
Found at i:81894 original size:381 final size:374
Alignment explanation
Indices: 81411--82946 Score: 1421
Period size: 380 Copynumber: 4.0 Consensus size: 374
81401 TTTTATATTT
* *
81411 GTATCAATA-TTTTTGTCCAGTATGCATCCCAAACGATATGCACGCATAAAGTATCGATACACGT
1 GTATCAATACTTTTTGTCCAGTATGCATCCCAAACGAGATGCACGCATAAAGTATCGATACACAT
* *
81475 ATGAAAAGTATTGATTCTTAAAACTTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAAT
66 ATGAAAAATATCGATTCTTAAAACTTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAAT
* *
81540 GTATGCAGTAAAAATATACCAGTTTAATGACAAGATACGTAAACATAACGTATCGATACTTTTTT
131 GTAGGCAGTAAAAATATACCAGTTTAATGACAA-ATA--TAAA-AT-ACGTA-C-A-AC--ATTT
*
81605 GTGAGAGTATCAATACTTTTTGTCCAGTATGCATCCCAAACGAGATGAACGCATAAAGTATCGAT
186 GT-AGAGTATCAATACTTTTTGTCCAGTATGCATCCCAAACGAGATGCACGCATAAAGTATCGAT
* ** * *
81670 ACACGTATGAAAAATATTGATTCTTAAAACTTCGAAACCTATTAATATAAAGTAATAGGTAAATT
250 ACACATATGAAAAATATCAATTCTTAAAACTTCGAAACCGATTAGTATAAAGTAATAGGTAAATT
* * * * *
81735 TACAATTTAGGTGGT-AAAATATATTGGTTTAATG-AAA-AAA-ATATGTAA-ACATAAA
315 TACAATGTAGGCGGTAAAAATATACTGGTTTAATGAAAACAAACATACGTAATACGTAAA
* ** * * **
81790 GTATCAATACCTTTTGTAAGAGTATGCGTCCCAAACGAGATGTACAAATAAAGTATCGATACACA
1 GTATCAATACTTTTTGT-CCAGTATGCATCCCAAACGAGATGCACGCATAAAGTATCGATACACA
* ** * *
81855 TATGAAAAATATCAATTCTTAAAACTTTGAAATCGATTAGTATAAAGTAATAGGTTAATTTACAA
65 TATGAAAAATATCGATTCTTAAAACTTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAA
** * ** * *
81920 TGTAGGTGGTGAAAATATACTGGTTTAATGACAAGATACGTAAACATAACATATCGATAATATTT
130 TGTAGGCAGTAAAAATATACCAGTTTAATGACAA-ATA--TAAA-AT-ACGTA-C---AACATTT
* * * * * *
81985 GTAAGAGTATCGATACATTTTGTCTAGTAGGCATCCCAAACGAGATGCACGCATAAAATATTGAT
186 GT-AGAGTATCAATACTTTTTGTCCAGTATGCATCCCAAACGAGATGCACGCATAAAGTATCGAT
* * * *
82050 ACACATATGAAAAGTGTCGATTCTTAAAACTTCAAAACCGATTAGTATAAAGTAATAGGTAAATT
250 ACACATATGAAAAATATCAATTCTTAAAACTTCGAAACCGATTAGTATAAAGTAATAGGTAAATT
* **
82115 TACAATGTATGCGGTAAAAATATACCAGTTTAATGACAAGATACGTAAACATAACGTATCGATAC
315 TACAATGTAGGCGGTAAAAATATACTGGTTTAATG--AA-A-AC--AAACAT-ACGTA---ATAC
*
82180 TTTTTTGTGAGA
370 ------GT-AAA
* *
82192 GTATCAATACTTTTTGTCCAGTATGCATCCCAAACGAGATGAACGCATAAAGTATCGATACACGT
1 GTATCAATACTTTTTGTCCAGTATGCATCCCAAACGAGATGCACGCATAAAGTATCGATACACAT
* * * *
82257 ATGAAAAATATTGATTCTTAAAACTTCGAAACCTATTAATATAAAGTAATAGGTAAATTTACAAT
66 ATGAAAAATATCGATTCTTAAAACTTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAAT
** *** * *
82322 GTAGGTGGT-AAAATATATTGGTTTAATG---AA-A-AAAATATGTA-AACA----TAAAGTATC
131 GTAGGCAGTAAAAATATACCAGTTTAATGACAAATATAAAATACGTACAACATTTGTAGAGTATC
* ** * * **
82376 AATACCTTTTGTAAGAGTATGCGTCCCAAACGAGATGTACAAATAAAGTATCGATACACATATGA
196 AATACTTTTTGT-CCAGTATGCATCCCAAACGAGATGCACGCATAAAGTATCGATACACATATGA
* * *
82441 AAAATATCAATTCTTAAAACTTTGAAATCGATTAGTATAAAGTAATAGGTTAATTTACAATGTAG
260 AAAATATCAATTCTTAAAACTTCGAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTAG
* * *
82506 GTGGTGAAAATATACTGGTTTAATGACAAGATACGTAAACATAACATATCGATAATATTTGTAAG
325 GCGGTAAAAATATACTGGTTTAAT-----G--A---AAACA-AACATA-CG-TAATA--CGTAA-
82571 A
374 A
* * * * * *
82572 GTATCGATACATTTTGTCTAGTAGGCATCCCAAACGAGATGCACGCATAAAATATTGATACACAT
1 GTATCAATACTTTTTGTCCAGTATGCATCCCAAACGAGATGCACGCATAAAGTATCGATACACAT
* *
82637 ATGAAAAGTGTCGATTCTTAAAACTTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAAT
66 ATGAAAAATATCGATTCTTAAAACTTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAAT
* * *
82702 GTAAGCACTAAAAATATACCAGTTTAATGACAAAT-T---AT--GTAC-ACATAT-T---GTATC
131 GTAGGCAGTAAAAATATACCAGTTTAATGACAAATATAAAATACGTACAACATTTGTAGAGTATC
* * * * *
82756 GATACTTTTTGTCCAATATGCATCCCAAACGAGATGCATGCAGAAAGTATCGATACACGTATGAA
196 AATACTTTTTGTCCAGTATGCATCCCAAACGAGATGCACGCATAAAGTATCGATACACATATGAA
* * *
82821 AAGTATCAATTCTTAAAACTTTGAAACAC-ATTAGTATAAAGTAATAGGTAAATTTACAATGTAA
261 AAATATCAATTCTTAAAACTTCGAAAC-CGATTAGTATAAAGTAATAGGTAAATTTACAATGTAG
** * *
82885 GCAATAGAAATATACTGGTGTAAT---AACAAA-ATACGTAA-ACGTAAA
325 GCGGTAAAAATATACTGGTTTAATGAAAACAAACATACGTAATACGTAAA
*
82930 GTATCGATACTTTTTGT
1 GTATCAATACTTTTTGT
82947 ATGTGTATCG
Statistics
Matches: 964, Mismatches: 141, Indels: 125
0.78 0.11 0.10
Matches are distributed among these distances:
358 17 0.02
359 4 0.00
361 1 0.00
362 3 0.00
363 2 0.00
364 3 0.00
365 2 0.00
366 4 0.00
379 129 0.13
380 299 0.31
381 298 0.31
382 3 0.00
383 2 0.00
384 6 0.01
385 6 0.01
386 11 0.01
387 4 0.00
388 1 0.00
389 4 0.00
390 5 0.01
391 6 0.01
392 3 0.00
394 1 0.00
395 3 0.00
396 1 0.00
397 1 0.00
400 18 0.02
401 109 0.11
402 18 0.02
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (374 bp):
GTATCAATACTTTTTGTCCAGTATGCATCCCAAACGAGATGCACGCATAAAGTATCGATACACAT
ATGAAAAATATCGATTCTTAAAACTTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAAT
GTAGGCAGTAAAAATATACCAGTTTAATGACAAATATAAAATACGTACAACATTTGTAGAGTATC
AATACTTTTTGTCCAGTATGCATCCCAAACGAGATGCACGCATAAAGTATCGATACACATATGAA
AAATATCAATTCTTAAAACTTCGAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTAGG
CGGTAAAAATATACTGGTTTAATGAAAACAAACATACGTAATACGTAAA
Found at i:81965 original size:180 final size:179
Alignment explanation
Indices: 81610--82575 Score: 630
Period size: 180 Copynumber: 5.1 Consensus size: 179
81600 TTTTTGTGAG
* ** * * **
81610 AGTATCAATACTTTTTGT-CCAGTATGCATCCCAAACGAGATGAACGCATAAAGTATCGATACAC
1 AGTATCAATACATTTTGTAAGAGTATGCGTCCCAAACGAGATGTACAAATAAAGTATCGATACAC
* ** * * * * *
81674 GTATGAAAAATATTGATTCTTAAAACTTCGAAACCTATTAATATAAAGTAATAGGTAAATTTACA
66 ATATGAAAAATATCAATTCTTAAAACTTTGAAATCGATTAGTATAAAGTAATAGGTTAATTTACA
* * * * *
81739 ATTTAGGTGGTAAAATATATTGGTTTAATGAAAAAAATATGTAAACATAA
131 ATGTAGGTGGTAAAATATACTGGTTTAATG-ACAAGATACGTAAACATAA
*
81789 AGTATCAATACCTTTTGTAAGAGTATGCGTCCCAAACGAGATGTACAAATAAAGTATCGATACAC
1 AGTATCAATACATTTTGTAAGAGTATGCGTCCCAAACGAGATGTACAAATAAAGTATCGATACAC
81854 ATATGAAAAATATCAATTCTTAAAACTTTGAAATCGATTAGTATAAAGTAATAGGTTAATTTACA
66 ATATGAAAAATATCAATTCTTAAAACTTTGAAATCGATTAGTATAAAGTAATAGGTTAATTTACA
81919 ATGTAGGTGGTGAAAATATACTGGTTTAATGACAAGATACGTAAACATAA
131 ATGTAGGTGGT-AAAATATACTGGTTTAATGACAAGATACGTAAACATAA
* * ** * * * *
81969 CA-TATCGATA-ATATTTGTAAGAGTAT-CGAT-ACATTTTGTCTAGTAGGCATCCCAAACGAGA
1 -AGTATCAATACAT-TTTGTAAGAGTATGCG-TCCCA----AACGAG-ATG--T-ACAAA-TA-A
* * * * * *** ** * * **
82030 TGCA-CGCATA-AAATATTGATACACATATGAAAAGTGT-CGATTCTTAAAACTTC-AAAACCG-
53 AGTATCG-ATACACATA-TGA-A-AAATATCAATTCT-TAAAACT-TTGAAA--TCGATTA--GT
* * * * * **
82090 AT-TAGT-ATAAAGTAATAGGTAAATTTACAATGTATGCGGTAAAAATATACCAGTTTAATGACA
108 ATAAAGTAAT-AGGT--TA--A---TTTACAATGTAGGTGGT-AAAATATACTGGTTTAATGACA
82153 AGATACGTAAACATAA
164 AGATACGTAAACATAA
* * * * * *
82169 CGTATCGATACTTTTTTGTGAGAGTAT-CAATACTTTTTGTCCAGTATGCATCCCAAACGAGATG
1 AGTATCAATAC-ATTTTGTAAGAGTATGC-GT-C-------CCA--A---A---C--G--AGATG
* ** * ** * * * *
82233 AACGCATAAAGTATCGATACACGTATGAAAAATATTGATTCTTAAAACTTCGAAACCTATTAATA
44 TACAAATAAAGTATCGATACACATATGAAAAATATCAATTCTTAAAACTTTGAAATCGATTAGTA
* * * * *
82298 TAAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAATATATTGGTTTAATGAAAAAAATATGTA
109 TAAAGTAATAGGTTAATTTACAATGTAGGTGGTAAAATATACTGGTTTAATG-ACAAGATACGTA
82363 AACATAA
173 AACATAA
*
82370 AGTATCAATACCTTTTGTAAGAGTATGCGTCCCAAACGAGATGTACAAATAAAGTATCGATACAC
1 AGTATCAATACATTTTGTAAGAGTATGCGTCCCAAACGAGATGTACAAATAAAGTATCGATACAC
82435 ATATGAAAAATATCAATTCTTAAAACTTTGAAATCGATTAGTATAAAGTAATAGGTTAATTTACA
66 ATATGAAAAATATCAATTCTTAAAACTTTGAAATCGATTAGTATAAAGTAATAGGTTAATTTACA
82500 ATGTAGGTGGTGAAAATATACTGGTTTAATGACAAGATACGTAAACATAA
131 ATGTAGGTGGT-AAAATATACTGGTTTAATGACAAGATACGTAAACATAA
*
82550 CA-TATCGATA-ATATTTGTAAGAGTAT
1 -AGTATCAATACAT-TTTGTAAGAGTAT
82576 CGATACATTT
Statistics
Matches: 599, Mismatches: 120, Indels: 135
0.70 0.14 0.16
Matches are distributed among these distances:
179 23 0.04
180 272 0.45
181 38 0.06
183 3 0.01
184 3 0.01
186 1 0.00
187 5 0.01
188 7 0.01
189 9 0.02
190 2 0.00
191 10 0.02
192 11 0.02
193 8 0.01
194 4 0.01
195 3 0.01
199 1 0.00
200 89 0.15
201 55 0.09
202 1 0.00
206 1 0.00
207 3 0.01
208 9 0.02
209 7 0.01
210 11 0.02
211 1 0.00
212 9 0.02
213 6 0.01
214 3 0.01
217 2 0.00
218 2 0.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (179 bp):
AGTATCAATACATTTTGTAAGAGTATGCGTCCCAAACGAGATGTACAAATAAAGTATCGATACAC
ATATGAAAAATATCAATTCTTAAAACTTTGAAATCGATTAGTATAAAGTAATAGGTTAATTTACA
ATGTAGGTGGTAAAATATACTGGTTTAATGACAAGATACGTAAACATAA
Found at i:82142 original size:581 final size:581
Alignment explanation
Indices: 81370--82947 Score: 2560
Period size: 581 Copynumber: 2.8 Consensus size: 581
81360 CAAAACTGAT
* * * *** * * *
81370 ACAAGATACGTAAACATAA-AGTATCGATACTTTTTATATTTGTATCAATA-TTTTTGTCCAGTA
1 ACAAGATACGTAAACATAACA-TATCGATAATATTTGTAAGAGTATCGATACATTTTGTCTAGTA
* * * * * * *
81433 TGCATCCCAAACGATATGCACGCATAAAGTATCGATACACGTATGAAAAGTATTGATTCTTAAAA
65 GGCATCCCAAACGAGATGCACGCATAAAATATTGATACACATATGAAAAGTGTCGATTCTTAAAA
81498 CTTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTATGCAGTAAAAATATACCAGT
130 CTTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTATGCAGTAAAAATATACCAGT
81563 TTAATGACAAGATACGTAAACATAACGTATCGATACTTTTTTGTGAGAGTATCAATACTTTTTGT
195 TTAATGACAAGATACGTAAACATAACGTATCGATACTTTTTTGTGAGAGTATCAATACTTTTTGT
81628 CCAGTATGCATCCCAAACGAGATGAACGCATAAAGTATCGATACACGTATGAAAAATATTGATTC
260 CCAGTATGCATCCCAAACGAGATGAACGCATAAAGTATCGATACACGTATGAAAAATATTGATTC
*
81693 TTAAAACTTCGAAACCTATTAATATAAAGTAATAGGTAAATTTACAATTTAGGTGGTAAAATATA
325 TTAAAACTTCGAAACCTATTAATATAAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAATATA
81758 TTGGTTTAATGAAAAAAATATGTAAACATAAAGTATCAATACCTTTTGTAAGAGTATGCGTCCCA
390 TTGGTTTAATGAAAAAAATATGTAAACATAAAGTATCAATACCTTTTGTAAGAGTATGCGTCCCA
81823 AACGAGATGTACAAATAAAGTATCGATACACATATGAAAAATATCAATTCTTAAAACTTTGAAAT
455 AACGAGATGTACAAATAAAGTATCGATACACATATGAAAAATATCAATTCTTAAAACTTTGAAAT
81888 CGATTAGTATAAAGTAATAGGTTAATTTACAATGTAGGTGGTGAAAATATACTGGTTTAATG
520 CGATTAGTATAAAGTAATAGGTTAATTTACAATGTAGGTGGTGAAAATATACTGGTTTAATG
81950 ACAAGATACGTAAACATAACATATCGATAATATTTGTAAGAGTATCGATACATTTTGTCTAGTAG
1 ACAAGATACGTAAACATAACATATCGATAATATTTGTAAGAGTATCGATACATTTTGTCTAGTAG
82015 GCATCCCAAACGAGATGCACGCATAAAATATTGATACACATATGAAAAGTGTCGATTCTTAAAAC
66 GCATCCCAAACGAGATGCACGCATAAAATATTGATACACATATGAAAAGTGTCGATTCTTAAAAC
*
82080 TTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTATGCGGTAAAAATATACCAGTT
131 TTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTATGCAGTAAAAATATACCAGTT
82145 TAATGACAAGATACGTAAACATAACGTATCGATACTTTTTTGTGAGAGTATCAATACTTTTTGTC
196 TAATGACAAGATACGTAAACATAACGTATCGATACTTTTTTGTGAGAGTATCAATACTTTTTGTC
82210 CAGTATGCATCCCAAACGAGATGAACGCATAAAGTATCGATACACGTATGAAAAATATTGATTCT
261 CAGTATGCATCCCAAACGAGATGAACGCATAAAGTATCGATACACGTATGAAAAATATTGATTCT
82275 TAAAACTTCGAAACCTATTAATATAAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAATATAT
326 TAAAACTTCGAAACCTATTAATATAAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAATATAT
82340 TGGTTTAATGAAAAAAATATGTAAACATAAAGTATCAATACCTTTTGTAAGAGTATGCGTCCCAA
391 TGGTTTAATGAAAAAAATATGTAAACATAAAGTATCAATACCTTTTGTAAGAGTATGCGTCCCAA
82405 ACGAGATGTACAAATAAAGTATCGATACACATATGAAAAATATCAATTCTTAAAACTTTGAAATC
456 ACGAGATGTACAAATAAAGTATCGATACACATATGAAAAATATCAATTCTTAAAACTTTGAAATC
82470 GATTAGTATAAAGTAATAGGTTAATTTACAATGTAGGTGGTGAAAATATACTGGTTTAATG
521 GATTAGTATAAAGTAATAGGTTAATTTACAATGTAGGTGGTGAAAATATACTGGTTTAATG
82531 ACAAGATACGTAAACATAACATATCGATAATATTTGTAAGAGTATCGATACATTTTGTCTAGTAG
1 ACAAGATACGTAAACATAACATATCGATAATATTTGTAAGAGTATCGATACATTTTGTCTAGTAG
82596 GCATCCCAAACGAGATGCACGCATAAAATATTGATACACATATGAAAAGTGTCGATTCTTAAAAC
66 GCATCCCAAACGAGATGCACGCATAAAATATTGATACACATATGAAAAGTGTCGATTCTTAAAAC
* *
82661 TTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTAAGCACTAAAAATATACCAGTT
131 TTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTATGCAGTAAAAATATACCAGTT
* * *
82726 TAATGACAA-AT---T----AT---GTA-C---AC--ATAT-T----GTATCGATACTTTTTGTC
196 TAATGACAAGATACGTAAACATAACGTATCGATACTTTTTTGTGAGAGTATCAATACTTTTTGTC
* * * * * **
82769 CAATATGCATCCCAAACGAGATGCATGCAGAAAGTATCGATACACGTATGAAAAGTATCAATTCT
261 CAGTATGCATCCCAAACGAGATGAACGCATAAAGTATCGATACACGTATGAAAAATATTGATTCT
* * * ***
82834 TAAAACTTTGAAACAC-ATTAGTATAAAGTAATAGGTAAATTTACAATGTAAGCAATAGAAATAT
326 TAAAACTTCGAAAC-CTATTAATATAAAGTAATAGGTAAATTTACAATGTAGGTGGTA-AAATAT
* * * * * * *
82898 ACTGGTGTAAT-AACAAAATACGTAAACGTAAAGTATCGATACTTTTTGTA
389 ATTGGTTTAATGAAAAAAATATGTAAACATAAAGTATCAATACCTTTTGTA
82948 TGTGTATCGA
Statistics
Matches: 950, Mismatches: 44, Indels: 29
0.93 0.04 0.03
Matches are distributed among these distances:
559 158 0.17
560 16 0.02
563 1 0.00
564 2 0.00
566 2 0.00
569 1 0.00
570 3 0.00
573 2 0.00
577 1 0.00
580 43 0.05
581 721 0.76
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (581 bp):
ACAAGATACGTAAACATAACATATCGATAATATTTGTAAGAGTATCGATACATTTTGTCTAGTAG
GCATCCCAAACGAGATGCACGCATAAAATATTGATACACATATGAAAAGTGTCGATTCTTAAAAC
TTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTATGCAGTAAAAATATACCAGTT
TAATGACAAGATACGTAAACATAACGTATCGATACTTTTTTGTGAGAGTATCAATACTTTTTGTC
CAGTATGCATCCCAAACGAGATGAACGCATAAAGTATCGATACACGTATGAAAAATATTGATTCT
TAAAACTTCGAAACCTATTAATATAAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAATATAT
TGGTTTAATGAAAAAAATATGTAAACATAAAGTATCAATACCTTTTGTAAGAGTATGCGTCCCAA
ACGAGATGTACAAATAAAGTATCGATACACATATGAAAAATATCAATTCTTAAAACTTTGAAATC
GATTAGTATAAAGTAATAGGTTAATTTACAATGTAGGTGGTGAAAATATACTGGTTTAATG
Found at i:82161 original size:200 final size:201
Alignment explanation
Indices: 81818--82734 Score: 1146
Period size: 200 Copynumber: 4.7 Consensus size: 201
81808 AGAGTATGCG
* ** * *
81818 TCCCAAACGAGATGTACAAATAAAGTATCGATACACATATGAAAAATATCAATTCTTAAAACTTT
1 TCCCAAACGAGATGCACGCATAAAGTATCGATACACATATGAAAAATATCGATTCTTAAAACTTC
* * *
81883 GAAATCGATTAGTATAAAGTAATAGGTTAATTTACAATGTAGGTGGTGAAAATATACTGGTTTAA
66 GAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATACTGGTTTAA
81948 TGACAAGATACGTAAACATAACATATCGATA-ATATTTGTAAGAGTATCGATACATTTTGTCTAG
131 TGACAAGATACGTAAACATAACATATCGATACATATTTGTAAGAGTATCGATACATTTTGTCTAG
82012 TAGGCA
196 TAGGCA
* * * *
82018 TCCCAAACGAGATGCACGCATAAAATATTGATACACATATGAAAAGTGTCGATTCTTAAAACTTC
1 TCCCAAACGAGATGCACGCATAAAGTATCGATACACATATGAAAAATATCGATTCTTAAAACTTC
* * * **
82083 AAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTATGCGGTAAAAATATACCAGTTTAA
66 GAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATACTGGTTTAA
* * * * * * *
82148 TGACAAGATACGTAAACATAACGTATCGATACTTTTTTGTGAGAGTATCAATACTTTTTGTCCAG
131 TGACAAGATACGTAAACATAACATATCGATACATATTTGTAAGAGTATCGATACATTTTGTCTAG
*
82213 TATGCA
196 TAGGCA
* * *
82219 TCCCAAACGAGATGAACGCATAAAGTATCGATACACGTATGAAAAATATTGATTCTTAAAACTTC
1 TCCCAAACGAGATGCACGCATAAAGTATCGATACACATATGAAAAATATCGATTCTTAAAACTTC
* * *
82284 GAAACCTATTAATATAAAGTAATAGGTAAATTTACAATGTAGGTGGT-AAAATATATTGGTTTAA
66 GAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATACTGGTTTAA
* * * * *
82348 TGAAAAAAATATGTAAACATAA-AGTATCAATACCT-TTTGT-A-AG-A--G-T--A---TG-C-
131 TG-ACAAGATACGTAAACATAACA-TATCGATACATATTTGTAAGAGTATCGATACATTTTGTCT
82398 -----G--
194 AGTAGGCA
* ** * *
82399 TCCCAAACGAGATGTACAAATAAAGTATCGATACACATATGAAAAATATCAATTCTTAAAACTTT
1 TCCCAAACGAGATGCACGCATAAAGTATCGATACACATATGAAAAATATCGATTCTTAAAACTTC
* * *
82464 GAAATCGATTAGTATAAAGTAATAGGTTAATTTACAATGTAGGTGGTGAAAATATACTGGTTTAA
66 GAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATACTGGTTTAA
82529 TGACAAGATACGTAAACATAACATATCGATA-ATATTTGTAAGAGTATCGATACATTTTGTCTAG
131 TGACAAGATACGTAAACATAACATATCGATACATATTTGTAAGAGTATCGATACATTTTGTCTAG
82593 TAGGCA
196 TAGGCA
* * * *
82599 TCCCAAACGAGATGCACGCATAAAATATTGATACACATATGAAAAGTGTCGATTCTTAAAACTTC
1 TCCCAAACGAGATGCACGCATAAAGTATCGATACACATATGAAAAATATCGATTCTTAAAACTTC
* * *** **
82664 AAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTAAGCACTAAAAATATACCAGTTTAA
66 GAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATACTGGTTTAA
82729 TGACAA
131 TGACAA
82735 ATTATGTACA
Statistics
Matches: 607, Mismatches: 84, Indels: 52
0.82 0.11 0.07
Matches are distributed among these distances:
179 1 0.00
180 129 0.21
181 20 0.03
182 3 0.00
183 1 0.00
185 1 0.00
186 1 0.00
188 2 0.00
189 2 0.00
191 2 0.00
192 1 0.00
194 1 0.00
197 1 0.00
198 3 0.00
199 1 0.00
200 281 0.46
201 157 0.26
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (201 bp):
TCCCAAACGAGATGCACGCATAAAGTATCGATACACATATGAAAAATATCGATTCTTAAAACTTC
GAAACCGATTAGTATAAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATACTGGTTTAA
TGACAAGATACGTAAACATAACATATCGATACATATTTGTAAGAGTATCGATACATTTTGTCTAG
TAGGCA
Found at i:82872 original size:179 final size:179
Alignment explanation
Indices: 82571--82946 Score: 511
Period size: 179 Copynumber: 2.1 Consensus size: 179
82561 TATTTGTAAG
* * * * *
82571 AGTATCGATACATTTTGTCTAGTAGGCATCCCAAACGAGATGCACGCATAAAATATTGATACACA
1 AGTATCGATACTTTTTGTCCAATAGGCATCCCAAACGAGATGCACGCAGAAAATATCGATACACA
* *
82636 TATGAAAAGTGTCGATTCTTAAAACTTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAA
66 TATGAAAAGTATCAATTCTTAAAACTTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAA
* * * * * * *
82701 TGTAAGCACTAAAAATATACCAGTTTAATGACAAATTATGTACACATAT
131 TGTAAGCAATAAAAATATACCAGTGTAATAACAAAATACGTAAACATAA
* * * * *
82750 TGTATCGATACTTTTTGTCCAATATGCATCCCAAACGAGATGCATGCAGAAAGTATCGATACACG
1 AGTATCGATACTTTTTGTCCAATAGGCATCCCAAACGAGATGCACGCAGAAAATATCGATACACA
**
82815 TATGAAAAGTATCAATTCTTAAAACTTTGAAACAC-ATTAGTATAAAGTAATAGGTAAATTTACA
66 TATGAAAAGTATCAATTCTTAAAACTTCAAAAC-CGATTAGTATAAAGTAATAGGTAAATTTACA
* ** *
82879 ATGTAAGCAATAGAAATATACTGGTGTAATAACAAAATACGTAAACGTAA
130 ATGTAAGCAATAAAAATATACCAGTGTAATAACAAAATACGTAAACATAA
82929 AGTATCGATACTTTTTGT
1 AGTATCGATACTTTTTGT
82947 ATGTGTATCG
Statistics
Matches: 170, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
179 169 0.99
180 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (179 bp):
AGTATCGATACTTTTTGTCCAATAGGCATCCCAAACGAGATGCACGCAGAAAATATCGATACACA
TATGAAAAGTATCAATTCTTAAAACTTCAAAACCGATTAGTATAAAGTAATAGGTAAATTTACAA
TGTAAGCAATAAAAATATACCAGTGTAATAACAAAATACGTAAACATAA
Found at i:82974 original size:20 final size:21
Alignment explanation
Indices: 82929--82974 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
82919 GTAAACGTAA
**
82929 AGTATCGATACTTTTTGTATG
1 AGTATCGATACTTTTTGTACC
*
82950 TGTATCGATACTTTTTGT-CC
1 AGTATCGATACTTTTTGTACC
82970 AGTAT
1 AGTAT
82975 GAAAACACTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (21 bp):
AGTATCGATACTTTTTGTACC
Found at i:84579 original size:21 final size:21
Alignment explanation
Indices: 84536--84579 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
84526 CAAGTGCTGA
*
84536 ATGAAGATGACGACATTATAG
1 ATGAAGATGACGACATGATAG
*
84557 ATGATGATGACGACGATGA-AG
1 ATGAAGATGACGAC-ATGATAG
84578 AT
1 AT
84580 CCAAACAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.41, C:0.09, G:0.27, T:0.23
Consensus pattern (21 bp):
ATGAAGATGACGACATGATAG
Found at i:85932 original size:6 final size:6
Alignment explanation
Indices: 85921--86020 Score: 69
Period size: 6 Copynumber: 16.7 Consensus size: 6
85911 TTCATGCAAT
* * *
85921 TTTCAA TTTCAA TTTCAGA -CTGAA TTTC-A TTTCCAA TTTCAA TTTTAA
1 TTTCAA TTTCAA TTTCA-A TTTCAA TTTCAA TTT-CAA TTTCAA TTTCAA
* * * * * * * *
85969 TTTGAG TTTCAA TTTTAA TTTTAG TTTTAG TTTGAA TTTCAA TTTCAA
1 TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
86017 TTTC
1 TTTC
86021 GGCTCCACTA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
5 5 0.07
6 66 0.87
7 5 0.07
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (6 bp):
TTTCAA
Found at i:85970 original size:24 final size:24
Alignment explanation
Indices: 85921--86020 Score: 87
Period size: 24 Copynumber: 4.2 Consensus size: 24
85911 TTCATGCAAT
* * *
85921 TTTCAATTTCAATTTCAGA-CTGAA
1 TTTCAGTTTCAATTTCA-ATTTTAA
85945 TTTCA-TTTCCAATTTCAATTTTAA
1 TTTCAGTTT-CAATTTCAATTTTAA
* * *
85969 TTTGAGTTTCAATTTTAATTTTAG
1 TTTCAGTTTCAATTTCAATTTTAA
* * *
85993 TTTTAGTTTGAATTTCAATTTCAA
1 TTTCAGTTTCAATTTCAATTTTAA
86017 TTTC
1 TTTC
86021 GGCTCCACTA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
23 4 0.06
24 55 0.89
25 3 0.05
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (24 bp):
TTTCAGTTTCAATTTCAATTTTAA
Found at i:85979 original size:30 final size:30
Alignment explanation
Indices: 85921--86020 Score: 105
Period size: 30 Copynumber: 3.3 Consensus size: 30
85911 TTCATGCAAT
* *
85921 TTTCAATTTCAATTTCAGA-CTGAATTTC-A
1 TTTCAATTTCAATTTTA-ATTTGAATTTCAA
*
85950 TTTCCAATTTCAATTTTAATTTGAGTTTCAA
1 TTT-CAATTTCAATTTTAATTTGAATTTCAA
* * * *
85981 TTTTAATTTTAGTTTTAGTTTGAATTTCAA
1 TTTCAATTTCAATTTTAATTTGAATTTCAA
86011 TTTCAATTTC
1 TTTCAATTTC
86021 GGCTCCACTA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
29 4 0.07
30 50 0.86
31 4 0.07
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (30 bp):
TTTCAATTTCAATTTTAATTTGAATTTCAA
Found at i:88226 original size:22 final size:22
Alignment explanation
Indices: 88182--88226 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
88172 TTAACATAAA
*
88182 GTATCGATACTTTTTTGCATAT
1 GTATCGATACTTTTTTCCATAT
88204 GTATCGATA-TTTTTTCCAGTAT
1 GTATCGATACTTTTTTCCA-TAT
88226 G
1 G
88227 CTTCCCAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (22 bp):
GTATCGATACTTTTTTCCATAT
Found at i:88416 original size:20 final size:21
Alignment explanation
Indices: 88378--88416 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
88368 AAACGTCTCG
88378 AAAGTATCGATACCTTCAACA
1 AAAGTATCGATACCTTCAACA
88399 AAAGTATCGATA-CTTCAA
1 AAAGTATCGATACCTTCAA
88417 TAACGGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (21 bp):
AAAGTATCGATACCTTCAACA
Found at i:88519 original size:446 final size:447
Alignment explanation
Indices: 87550--88867 Score: 1970
Period size: 448 Copynumber: 2.9 Consensus size: 447
87540 TCAATATGCC
* *
87550 AATAACTTAACATGTTCAAAATTGACAAAATCAGTTTCCATAATTGTGCCTATAAAGTATCGATA
1 AATAACTTAACAGGTTCAAAATTGACAAAATCAGTTTCCATAATTGCGCCTATAAAGTATCGATA
* * * *
87615 CACGTATGAGAAGTATCGGTTCTTAAAACTTCAAAAC-GAATTACTTTAAAGTAATAAGTAAATT
66 CACGTATGAGAAATATCGATTCTTAAAACTTCGAAACAG-ATTACTTTAAAGTAATAGGTAAATT
* * * * *
87679 TACAATGTAAGCGGTAAAAATATATC-AGTTTAATGAAAAAATATGTTAACATAAAGTATTGATA
130 TACAATGTAAGCAGTAAAAATATACCGA-TTTAATGACAAAATACGTTAACATAAAGTATCGATA
* * * * **
87743 CCTTTTGTATATGTATCGATACTTTTTGTCCAGTATACTTCTCAAACTAGATGCATGCAGAAAAC
194 CTTTTTGTATATGTATCGATACTTTTTGTCCAGTATGCTTCCCAAACTAGATGCACGCAGAAAGT
* * *
87808 ATCGATACCTAATACACATGTATCGATACATGACAATATAAAAGGTTGAAAATTGATCAAACCAG
259 ATCGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAAATTGATAAAACCGG
* * * * *
87873 TTTCAATATGACAAAACATGTAAAAAGATATCGGATTATA-AAAAAAACAAAACTTCTCAAAAGT
324 TTTCAATATGACAAAACAGGTAAAAAGATA-CCGATT-TACAAAAAAACGAAACGTCTCGAAAGT
*
87937 ATCGATACCATACACAAAAGTATCGATACTTAAGTAAGGGTAATGATATCGATTAAATATA
387 ATCGATACCATACACAAAAGTATCGATACTTAAGTAACGGTAATGATATCGATTAAATATA
* * *
87998 AATAACTTAACAGGTTCAAAATTGACAAAACCATTTTCTATAATTGCGCCTATAAAGTATCGATA
1 AATAACTTAACAGGTTCAAAATTGACAAAATCAGTTTCCATAATTGCGCCTATAAAGTATCGATA
* *
88063 CACTTATGAGAAATATCAATTCTTAAAACTTCGAAACAGATTACTTTAAAGTAATAGGTAAATTT
66 CACGTATGAGAAATATCGATTCTTAAAACTTCGAAACAGATTACTTTAAAGTAATAGGTAAATTT
88128 ACAATGTAAGCAGTAAAAATATACCGATTTAATGACAAAATACGTTAACATAAAGTATCGATACT
131 ACAATGTAAGCAGTAAAAATATACCGATTTAATGACAAAATACGTTAACATAAAGTATCGATAC-
* * *
88193 TTTTTGCATATGTATCGATA-TTTTT-TCCAGTATGCTTCCCAAACTAGTTGCAGGCAGAAAGTA
195 TTTTTGTATATGTATCGATACTTTTTGTCCAGTATGCTTCCCAAACTAGATGCACGCAGAAAGTA
**
88256 TCGATACCTAATACACATGTATCGATACATGACAATATAACATATTGAAAATTGATAAAACCGGT
260 TCGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAAATTGATAAAACCGGT
*
88321 TTCAATATGACAAAACAGGTAAAAAGATACCGATTTACAAAAAAATGAAACGTCTCGAAAGTATC
325 TTCAATATGACAAAACAGGTAAAAAGATACCGATTTACAAAAAAACGAAACGTCTCGAAAGTATC
* *
88386 GATACC-TTCAACAAAAGTATCGATACTTCAA-TAACGGTAATGGTATCGATTAAATATA
390 GATACCATAC-ACAAAAGTATCGATACTT-AAGTAACGGTAATGATATCGATTAAATATA
* *
88444 AATAACATAACAGGTTCAAAATTGACAAAATC-GATTTCCATAATTGCGCCTATAAAGTATCAAT
1 AATAACTTAACAGGTTCAAAATTGACAAAATCAG-TTTCCATAATTGCGCCTATAAAGTATCGAT
* *
88508 ACACGTATGAGAATTATCGATTCTTAAAACTTCGAAACATATTACTTTAAAGTAATAGGTAAATT
65 ACACGTATGAGAAATATCGATTCTTAAAACTTCGAAACAGATTACTTTAAAGTAATAGGTAAATT
* ** *
88573 TACAATGTAAG-AGGTAAAAATATACTGGCTTAATGACAAAATACGTTCACATAAAGTATCGATA
130 TACAATGTAAGCA-GTAAAAATATACCGATTTAATGACAAAATACGTTAACATAAAGTATCGATA
* *
88637 CTTGTTGTATATGTATCGACACTTTTTGTCCAGTATGCTTCCCAAACTAGATGCACGCAGAAAGT
194 CTTTTTGTATATGTATCGATACTTTTTGTCCAGTATGCTTCCCAAACTAGATGCACGCAGAAAGT
* *
88702 ATCGATACATAATACACATGTATCGATACATGACAATATAACAGGTTGAAAATTGATAAAAACTG
259 ATCGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAAATTGAT-AAAACCG
* * * *
88767 GTTTCAATATGACAAAACAGGTAAAAATATACCGGTTTACACAAAAACGAAATGTCTCGAAAGTA
323 GTTTCAATATGACAAAACAGGTAAAAAGATACCGATTTACAAAAAAACGAAACGTCTCGAAAGTA
* *
88832 TCGATATCATACACAAAATTATCGATACTTAAGTAA
388 TCGATACCATACACAAAAGTATCGATACTTAAGTAA
88868 GAGTATTCAA
Statistics
Matches: 789, Mismatches: 68, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
445 22 0.03
446 260 0.33
447 213 0.27
448 272 0.34
449 22 0.03
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (447 bp):
AATAACTTAACAGGTTCAAAATTGACAAAATCAGTTTCCATAATTGCGCCTATAAAGTATCGATA
CACGTATGAGAAATATCGATTCTTAAAACTTCGAAACAGATTACTTTAAAGTAATAGGTAAATTT
ACAATGTAAGCAGTAAAAATATACCGATTTAATGACAAAATACGTTAACATAAAGTATCGATACT
TTTTGTATATGTATCGATACTTTTTGTCCAGTATGCTTCCCAAACTAGATGCACGCAGAAAGTAT
CGATACCTAATACACATGTATCGATACATGACAATATAACAGGTTGAAAATTGATAAAACCGGTT
TCAATATGACAAAACAGGTAAAAAGATACCGATTTACAAAAAAACGAAACGTCTCGAAAGTATCG
ATACCATACACAAAAGTATCGATACTTAAGTAACGGTAATGATATCGATTAAATATA
Found at i:90618 original size:12 final size:12
Alignment explanation
Indices: 90603--90647 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
90593 AACGAGTATC
90603 GGTATTGATACT
1 GGTATTGATACT
* *
90615 GGTATTGATGCA
1 GGTATTGATACT
90627 GGTATTGATACT
1 GGTATTGATACT
90639 GGTATTGAT
1 GGTATTGAT
90648 GCGAGTATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.40
Consensus pattern (12 bp):
GGTATTGATACT
Found at i:90630 original size:24 final size:23
Alignment explanation
Indices: 90602--90662 Score: 95
Period size: 24 Copynumber: 2.6 Consensus size: 23
90592 TAACGAGTAT
90602 CGGTATTGATACTGGTATTGATG
1 CGGTATTGATACTGGTATTGATG
90625 CAGGTATTGATACTGGTATTGATG
1 C-GGTATTGATACTGGTATTGATG
*
90649 CGAGTATCGATACT
1 CG-GTATTGATACT
90663 CCAAGTGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 2 0.06
24 33 0.94
ACGTcount: A:0.25, C:0.11, G:0.28, T:0.36
Consensus pattern (23 bp):
CGGTATTGATACTGGTATTGATG
Found at i:90711 original size:20 final size:20
Alignment explanation
Indices: 90682--90735 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
90672 TTGATAGGAG
*
90682 TATCGGTACTATAAGAACAA
1 TATCGATACTATAAGAACAA
*
90702 TATCGATACTACAAGAACAA
1 TATCGATACTATAAGAACAA
**
90722 TATTAATACTATAA
1 TATCGATACTATAA
90736 CATAGAAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (20 bp):
TATCGATACTATAAGAACAA
Found at i:108155 original size:20 final size:20
Alignment explanation
Indices: 108127--108166 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
108117 TAAGTCATTC
* *
108127 AGTATCAATACTGACCCTTG
1 AGTACCAATACTCACCCTTG
108147 AGTACCAATACTCACCCTTG
1 AGTACCAATACTCACCCTTG
108167 GTATCGATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (20 bp):
AGTACCAATACTCACCCTTG
Found at i:115134 original size:34 final size:34
Alignment explanation
Indices: 115095--115176 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
115085 AACATCCTAG
115095 CTTTTTATTTTATTTGTTCA-TACTAACTTACTAA
1 CTTTTTATTTTATTTGTT-ATTACTAACTTACTAA
* * * *
115129 TTTTTTATTTTACTTGTTATTATTAAGTTACTAA
1 CTTTTTATTTTATTTGTTATTACTAACTTACTAA
*
115163 CCTTTTATTTTATT
1 CTTTTTATTTTATT
115177 GCACAACTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 1 0.03
34 39 0.98
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.61
Consensus pattern (34 bp):
CTTTTTATTTTATTTGTTATTACTAACTTACTAA
Found at i:115284 original size:29 final size:28
Alignment explanation
Indices: 115250--115325 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
115240 TTCAACATTT
* *
115250 TTTAATTTC-AGTACTTTATTTTTCTGTCC
1 TTTAATTTCTAGTA-TTT-TATTTCAGTCC
115279 TTTAATTTTCTAGTATTTTATTTCAGTCC
1 TTTAA-TTTCTAGTATTTTATTTCAGTCC
* *
115308 TTTAATTTCCAGTTTTTT
1 TTTAATTTCTAGTATTTT
115326 TAATTTTCTG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 11 0.27
29 19 0.46
30 7 0.17
31 4 0.10
ACGTcount: A:0.18, C:0.14, G:0.07, T:0.61
Consensus pattern (28 bp):
TTTAATTTCTAGTATTTTATTTCAGTCC
Found at i:115320 original size:15 final size:14
Alignment explanation
Indices: 115250--115316 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 14
115240 TTCAACATTT
*
115250 TTTAATTTCAGTAC
1 TTTAATTTCAGTCC
* *
115264 TTTATTTTTCTGTCC
1 TTTA-ATTTCAGTCC
*
115279 TTTAATTTTCTAGT-A
1 TTTAA-TTTC-AGTCC
*
115294 TTTTATTTCAGTCC
1 TTTAATTTCAGTCC
115308 TTTAATTTC
1 TTTAATTTC
115317 CAGTTTTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
13 3 0.08
14 16 0.40
15 19 0.47
16 2 0.05
ACGTcount: A:0.19, C:0.15, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTAATTTCAGTCC
Found at i:115905 original size:34 final size:30
Alignment explanation
Indices: 115867--115935 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
115857 TTGATATAAC
115867 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
*
115901 AATTT-ATAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
115930 AATTTA
1 AATTTA
115936 TTCAAAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 10 0.30
30 12 0.36
31 5 0.15
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.43
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:115946 original size:29 final size:30
Alignment explanation
Indices: 115877--115936 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
115867 AATTTAAGGC
115877 AAAATGGTTTTTGGACTTGAATTGAATTTAT
1 AAAAT-GTTTTTGGACTTGAATTGAATTTAT
115908 AAAATGTTTTTGGACTT-AATTGAATTTAT
1 AAAATGTTTTTGGACTTGAATTGAATTTAT
115937 TCAAAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 12 0.41
30 12 0.41
31 5 0.17
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTAT
Found at i:116064 original size:22 final size:19
Alignment explanation
Indices: 116015--116093 Score: 86
Period size: 21 Copynumber: 3.8 Consensus size: 19
116005 AGGGTGTCAA
*
116015 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCA--CTTGC
116036 AGTGCATCCATGCACTTGTAC
1 AGTGCATCCATGCACTTG--C
*
116057 TAGTGCATCCATGCACCATGC
1 -AGTGCATCCATGCA-CTTGC
116078 AGTGCATCCATGCACT
1 AGTGCATCCATGCACT
116094 CAAACACCGA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
19 4 0.08
20 14 0.27
21 16 0.31
22 14 0.27
23 3 0.06
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (19 bp):
AGTGCATCCATGCACTTGC
Found at i:116156 original size:20 final size:20
Alignment explanation
Indices: 116112--116165 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
116102 GAATGAAATT
* *
116112 AGTGCATTGATGCATCCTTC
1 AGTGCATCGATGCATCCTGC
*
116132 TGTGCATCGATGCATCCTGC
1 AGTGCATCGATGCATCCTGC
*
116152 AGTGCATCCATGCA
1 AGTGCATCGATGCA
116166 CGAAGGCTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTGC
Found at i:117216 original size:21 final size:21
Alignment explanation
Indices: 117190--117252 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
117180 GCATAGAATT
117190 TGTCCCGAAGGATCACATAGA
1 TGTCCCGAAGGATCACATAGA
117211 TGTCCCGAAGGATCACATAGA
1 TGTCCCGAAGGATCACATAGA
*
117232 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAGGATCACATAGA
117253 CCCTCGACTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.17
Consensus pattern (21 bp):
TGTCCCGAAGGATCACATAGA
Found at i:118113 original size:24 final size:22
Alignment explanation
Indices: 118060--118159 Score: 104
Period size: 24 Copynumber: 4.6 Consensus size: 22
118050 TTCCCATTGA
*
118060 AGTGCATCGGTGCATTCTT--C
1 AGTGCATCGATGCATTCTTAAC
118080 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
*
118103 ATGTGCATCGATGCA--C-TACC
1 A-GTGCATCGATGCATTCTTAAC
118123 A-TGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
118145 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
118160 CTACCATGCA
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
18 12 0.18
20 21 0.31
21 2 0.03
22 5 0.07
23 2 0.03
24 25 0.37
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:118129 original size:18 final size:18
Alignment explanation
Indices: 118106--118178 Score: 83
Period size: 18 Copynumber: 3.7 Consensus size: 18
118096 CTTTAACATG
118106 TGCATCGATGCACTACCA
1 TGCATCGATGCACTACCA
*
118124 TGCATCGATGCATTCTTTAACA
1 TGCATCGATGCA--C--TACCA
118146 TGTGCATCGATGCACTACCA
1 --TGCATCGATGCACTACCA
118166 TGCATCGATGCAC
1 TGCATCGATGCAC
118179 AATTTACATT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
18 25 0.53
20 5 0.11
22 5 0.11
24 12 0.26
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (18 bp):
TGCATCGATGCACTACCA
Found at i:118131 original size:42 final size:42
Alignment explanation
Indices: 118082--118177 Score: 192
Period size: 42 Copynumber: 2.3 Consensus size: 42
118072 CATTCTTCAG
118082 TGCATCGATGCATTCTTTAACATGTGCATCGATGCACTACCA
1 TGCATCGATGCATTCTTTAACATGTGCATCGATGCACTACCA
118124 TGCATCGATGCATTCTTTAACATGTGCATCGATGCACTACCA
1 TGCATCGATGCATTCTTTAACATGTGCATCGATGCACTACCA
118166 TGCATCGATGCA
1 TGCATCGATGCA
118178 CAATTTACAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (42 bp):
TGCATCGATGCATTCTTTAACATGTGCATCGATGCACTACCA
Found at i:121397 original size:21 final size:21
Alignment explanation
Indices: 121373--121435 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
121363 GTGTAGAATT
121373 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAGGACCACATAGA
121394 TGTCCCGAAGGACCACATAGA
1 TGTCCCGAAGGACCACATAGA
*
121415 TGTCCCGAAAGACCACATAGA
1 TGTCCCGAAGGACCACATAGA
121436 CCCTCGAATC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.14
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATAGA
Found at i:122261 original size:20 final size:20
Alignment explanation
Indices: 122236--122313 Score: 111
Period size: 20 Copynumber: 3.7 Consensus size: 20
122226 TTCCCATTGA
*
122236 AGTGCATCGGTGCATTCTTC
1 AGTGCATCGATGCATTCTTC
122256 AGTGCATCGATGCATTCTTC
1 AGTGCATCGATGCATTCTTC
122276 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TT--C
122299 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
122314 CTACCATGCA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
20 36 0.68
21 2 0.04
23 2 0.04
24 13 0.25
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTTC
Found at i:122452 original size:21 final size:21
Alignment explanation
Indices: 122428--122480 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
122418 TATTTGAGAG
122428 TGCATCGATGCACATTGAAGA
1 TGCATCGATGCACATTGAAGA
122449 TGCATCGATGCACATTGAAGA
1 TGCATCGATGCACATTGAAGA
122470 TGCATCGATGC
1 TGCATCGATGC
122481 GCACAACCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (21 bp):
TGCATCGATGCACATTGAAGA
Found at i:126481 original size:20 final size:22
Alignment explanation
Indices: 126443--126482 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
126433 TTTGAGTAGA
126443 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
126465 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
126483 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:126738 original size:34 final size:32
Alignment explanation
Indices: 126694--126765 Score: 90
Period size: 34 Copynumber: 2.2 Consensus size: 32
126684 CCTTTTGTAA
* *
126694 AGGGTAAAGGTTCTAGCTTATCCCGTGTAAAAGCT
1 AGGG-AAAGGTTCTAGCTTAGCCCG-G-AAAAACT
*
126729 AGGGAAAGGTTCTAGTTTAGCCCGGAAAAACT
1 AGGGAAAGGTTCTAGCTTAGCCCGGAAAAACT
126761 AGGGA
1 AGGGA
126766 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 18 0.53
35 4 0.12
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (32 bp):
AGGGAAAGGTTCTAGCTTAGCCCGGAAAAACT
Found at i:133297 original size:30 final size:29
Alignment explanation
Indices: 133263--133365 Score: 80
Period size: 30 Copynumber: 3.2 Consensus size: 29
133253 TTTTTTCTCT
133263 TTTGAGACAGTTTCTCTTGAAACAGAAATC
1 TTTGAGACAGTTTCTCTTGAAACA-AAATC
** * *
133293 TTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTC
1 TTTGAGACAGTTTCTCTTGAAACAAA------ATC
*
133328 TCTTGAGACAATTTCTCTTGAAACAAAAATC
1 T-TTGAGACAGTTTCTCTTGAAAC-AAAATC
133359 TTTGAGA
1 TTTGAGA
133366 TTGTTTTTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
29 2 0.04
30 27 0.48
31 3 0.05
35 3 0.05
36 18 0.32
37 3 0.05
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (29 bp):
TTTGAGACAGTTTCTCTTGAAACAAAATC
Found at i:133334 original size:66 final size:66
Alignment explanation
Indices: 133221--133371 Score: 248
Period size: 66 Copynumber: 2.3 Consensus size: 66
133211 CAAAATTGGT
* * * * *
133221 AAAACCTTTGAGATTGTTTCCCTTGAAACAATTTTTTTCTCTTTTGAGACAGTTTCTCTTGAAAC
1 AAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAAC
133286 A
66 A
*
133287 GAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAAC
1 AAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAAC
133352 A
66 A
133353 AAAATCTTTGAGATTGTTT
1 AAAATCTTTGAGATTGTTT
133372 TTATCTCTCT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 78 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (66 bp):
AAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAAC
A
Found at i:133379 original size:51 final size:50
Alignment explanation
Indices: 133319--133421 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 50
133309 TTGAAACAAA
* *
133319 TTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAAA-ATCTTTGAGATTGT
1 TTTTATCTCTCTTGAGACAATTTCTCTTAAAACAAAACA--TTTGAGATTGT
* *
133370 TTTTATCTCTCTTGAGACAGTTTCTCTTAAAACATAACATTTGAGATTGT
1 TTTTATCTCTCTTGAGACAATTTCTCTTAAAACAAAACATTTGAGATTGT
133420 TT
1 TT
133422 CCCTTGAAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
50 13 0.28
51 33 0.70
52 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.45
Consensus pattern (50 bp):
TTTTATCTCTCTTGAGACAATTTCTCTTAAAACAAAACATTTGAGATTGT
Found at i:133460 original size:116 final size:116
Alignment explanation
Indices: 133252--133470 Score: 343
Period size: 116 Copynumber: 1.9 Consensus size: 116
133242 CTTGAAACAA
* * *
133252 TTTTTTTCTCTTTTGAGACAGTTTCTCTTGAAACAGAAATCTTTGAGATTGTTTCCCTTGAAACA
1 TTTTTATCTCTCTTGAGACAGTTTCTCTTAAAACAGAAA-CTTTGAGATTGTTTCCCTTGAAACA
*
133317 AATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAAAATCTTTGAGATTG
65 AATTTTGTCTCTCTTCAGACAATTTCTCTTGAAACAAAAATCTTTGAGATTG
*
133369 TTTTTATCTCTCTTGAGACAGTTTCTCTTAAAACA-TAACATTTGAGATTGTTTCCCTTGAAACA
1 TTTTTATCTCTCTTGAGACAGTTTCTCTTAAAACAGAAAC-TTTGAGATTGTTTCCCTTGAAACA
*
133433 AGTTTTGTCTCTCTTCAGACAGA-TTCTCTTGAAACAAA
65 AATTTTGTCTCTCTTCAGACA-ATTTCTCTTGAAACAAA
133471 TTATCCCTAA
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
115 1 0.01
116 60 0.64
117 33 0.35
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.42
Consensus pattern (116 bp):
TTTTTATCTCTCTTGAGACAGTTTCTCTTAAAACAGAAACTTTGAGATTGTTTCCCTTGAAACAA
ATTTTGTCTCTCTTCAGACAATTTCTCTTGAAACAAAAATCTTTGAGATTG
Found at i:133905 original size:209 final size:208
Alignment explanation
Indices: 133525--134551 Score: 1293
Period size: 209 Copynumber: 4.9 Consensus size: 208
133515 GTCATCCACC
* * * *
133525 GACCCGATCTCTTCAACGCGAAGGAGCAGTGTCATCTTCAGAAAATTAGACTTCCTCAACACGAA
1 GACCCGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAACACGAA
* * * * *
133590 GGAACCGTATTGTCTCCAAATTATCTCTTAATTGACCTGATTTTCTCAACGCGAAGCAACAACAT
66 GGAACCGTATTGTCTCCAAATTATCTCCTGATTGACC-GATTTCCTCAACGCGAAGGAACAACGT
* * *
133655 CATCTTCAACAAATAATTT-ACCTGAAAATGACCATATCTCTTCAACACGGATGAGTAATGTCCT
130 CATCTTCAACAAATAATTTAACC-GAAAAAGACCAAATCTCTTCAACACGGATGAGCAATGTCCT
*
133719 TTTCAACATCAAATT
194 CTTCAACATCAAATT
*
133734 GACCCGATCTCCTCAACGTGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAACACGAA
1 GACCCGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAACACGAA
*
133799 GGAATCGTATTGTCTCCAAATTATCTCCTGATTGACTCGATTTCCTCAACGCGAAGGAACAACGT
66 GGAACCGTATTGTCTCCAAATTATCTCCTGATTGAC-CGATTTCCTCAACGCGAAGGAACAACGT
* * * *
133864 CATCTTCAATAAATAATTTAACCGAAAAAGACCACATCTCTTCAACACGGATGAGCAGTATCCTC
130 CATCTTCAACAAATAATTTAACCGAAAAAGACCAAATCTCTTCAACACGGATGAGCAATGTCCTC
133929 TTCAACATCAAATT
195 TTCAACATCAAATT
* * * * * *
133943 GATCCGGTCTCCTCAATGCGAATGAGCAGTGTCACCCTCAGACAATCAGACTTCCTCAACACAAA
1 GACCCGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAACACGAA
* **
134008 GGAACCGTATTGTCTCCAAATTATCTCCTGATTGACCCGATTTCCTCAACGCAAAGGAACATTGT
66 GGAACCGTATTGTCTCCAAATTATCTCCTGATTGA-CCGATTTCCTCAACGCGAAGGAACAACGT
* * * * * * * **
134073 CATTTTTAACAAATAATTTACCCGAAAATGACCAGATCTCTTCAGCACGGATGAGCATTGTTATC
130 CATCTTCAACAAATAATTTAACCGAAAAAGACCAAATCTCTTCAACACGGATGAGCAATGTCCTC
134138 TTCAACATCAAATT
195 TTCAACATCAAATT
* * * * **
134152 GACCCGATCTCCTCAACGCGAAGGAGCAGTGTCATTCTCAGACAACCAAATTTCCTCAATGCGAA
1 GACCCGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAACACGAA
* * * * ** ** *
134217 GGAACTGTGTTGTCTCCAAATTATCTCCTGATTAACCCGATTTACTCAATACGAAGGAACTTCAT
66 GGAACCGTATTGTCTCCAAATTATCTCCTGATTGA-CCGATTTCCTCAACGCGAAGGAACAACGT
* * * * *
134282 CATCTTCAACAAATAATTTACCCGAAAAAGAACAAATCTCTTCAACACAGATGAGCAGTGTCGTC
130 CATCTTCAACAAATAATTTAACCGAAAAAGACCAAATCTCTTCAACACGGATGAGCAATGTCCTC
134347 TTCAACATCAAATT
195 TTCAACATCAAATT
* * * * * * *
134361 GACTCGATCTCCTCAACGCGAAGTAGCAGTGTCATCCTCAGACGATCATATTTCTTCAACATGAA
1 GACCCGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAACACGAA
* * * ** * *
134426 GGAACCGTGTTGTCTCCAAATCATTTCGAGATTGACCTGATTTCCTCAACGCGAACGAACAACGG
66 GGAACCGTATTGTCTCCAAATTATCTCCTGATTGACC-GATTTCCTCAACGCGAAGGAACAACGT
* * * * *
134491 CATCTTCAACAAAAAAATT-ATCTAAAAGCGACCAAATCTCTTCAACACGGATGAGCAATGT
130 CATCTTCAACAAATAATTTAACCGAAAA-AGACCAAATCTCTTCAACACGGATGAGCAATGT
134552 AGTATTTAAC
Statistics
Matches: 708, Mismatches: 105, Indels: 10
0.86 0.13 0.01
Matches are distributed among these distances:
208 7 0.01
209 696 0.98
210 5 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (208 bp):
GACCCGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCAACACGAA
GGAACCGTATTGTCTCCAAATTATCTCCTGATTGACCGATTTCCTCAACGCGAAGGAACAACGTC
ATCTTCAACAAATAATTTAACCGAAAAAGACCAAATCTCTTCAACACGGATGAGCAATGTCCTCT
TCAACATCAAATT
Found at i:136368 original size:14 final size:14
Alignment explanation
Indices: 136351--136393 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
136341 CTTTTTTATT
136351 TATTTATTTTTCAA
1 TATTTATTTTTCAA
*
136365 TATTTTTTAATTTCAA
1 TATTTATT--TTTCAA
136381 TACTTTATTTTTC
1 TA-TTTATTTTTC
136394 TGTCCTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 7 0.29
15 4 0.17
16 8 0.33
17 5 0.21
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTATTTTTCAA
Found at i:136421 original size:15 final size:15
Alignment explanation
Indices: 136403--136451 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
136393 CTGTCCTTCA
136403 ATTTTCCAGTATTTT
1 ATTTTCCAGTATTTT
* *
136418 ATTTT--AGTCCTTTA
1 ATTTTCCAGT-ATTTT
136432 ATTTTCCAGTATTTT
1 ATTTTCCAGTATTTT
136447 ATTTT
1 ATTTT
136452 AGTCCTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
13 3 0.11
14 8 0.30
15 13 0.48
16 3 0.11
ACGTcount: A:0.20, C:0.12, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTTTCCAGTATTTT
Found at i:136427 original size:29 final size:29
Alignment explanation
Indices: 136395--136464 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
136385 TTATTTTTCT
*
136395 GTCCTTCAATTTTCCAGTATTTTATTTTA
1 GTCCTTTAATTTTCCAGTATTTTATTTTA
136424 GTCCTTTAATTTTCCAGTATTTTATTTTA
1 GTCCTTTAATTTTCCAGTATTTTATTTTA
136453 GTCCTTTAATTT
1 GTCCTTTAATTT
136465 CCATCTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.20, C:0.16, G:0.07, T:0.57
Consensus pattern (29 bp):
GTCCTTTAATTTTCCAGTATTTTATTTTA
Found at i:136475 original size:29 final size:29
Alignment explanation
Indices: 136395--136481 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
136385 TTATTTTTCT
* *
136395 GTCCTTCAATTTTCCAGTATTTTATTTTA
1 GTCCTTTAATTTTCCACTATTTTATTTTA
*
136424 GTCCTTTAATTTTCCAGTATTTTATTTTA
1 GTCCTTTAATTTTCCACTATTTTATTTTA
*
136453 GTCCTTTAA-TTTCCATCTTTTTTAATTTT
1 GTCCTTTAATTTTCCA-CTATTTT-ATTTT
136482 CTGTATTTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 6 0.11
29 42 0.79
30 5 0.09
ACGTcount: A:0.20, C:0.16, G:0.06, T:0.59
Consensus pattern (29 bp):
GTCCTTTAATTTTCCACTATTTTATTTTA
Found at i:141721 original size:20 final size:19
Alignment explanation
Indices: 141667--141728 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
141657 ATTGTTGAAT
141667 ATTTAATATATACTATTTA-A
1 ATTTAATATAT--TATTTATA
* *
141687 AGTATAATATATTATTTTTA
1 A-TTTAATATATTATTTATA
141707 ATTTAATATTATTATTTATA
1 ATTTAATA-TATTATTTATA
141727 AT
1 AT
141729 ATTTTAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 11 0.31
20 15 0.43
21 9 0.26
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTTAATATATTATTTATA
Found at i:153987 original size:3 final size:3
Alignment explanation
Indices: 153979--154013 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
153969 AATTTTGTAT
* *
153979 TAA TAA TAA TAA TAA CAA TAA CAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
154014 CTATTTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:154287 original size:40 final size:35
Alignment explanation
Indices: 154196--154292 Score: 97
Period size: 40 Copynumber: 2.6 Consensus size: 35
154186 GTAGTGATAG
*
154196 CACGGTTCCTATGCGATGAGGACGGTTGGGGGTGA
1 CACGGTTCCTATGTGATGAGGACGGTTGGGGGTGA
** *
154231 CACGACTCCTACGTGATGAGGA-GGTCTAGTCGGTGGATGA
1 CACGGTTCCTATGTGATGAGGACGGT-T-G--GG-GG-TGA
154271 CACGGTTCCTATGTGATGAGGA
1 CACGGTTCCTATGTGATGAGGA
154293 TGGCATACCA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
34 3 0.06
35 19 0.39
36 1 0.02
38 2 0.04
39 2 0.04
40 22 0.45
ACGTcount: A:0.21, C:0.19, G:0.37, T:0.24
Consensus pattern (35 bp):
CACGGTTCCTATGTGATGAGGACGGTTGGGGGTGA
Found at i:154421 original size:131 final size:124
Alignment explanation
Indices: 154094--154444 Score: 425
Period size: 125 Copynumber: 2.8 Consensus size: 124
154084 AGTTCTTGTC
* * *
154094 GTCTAAGGATGACACGACTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCTTACG
1 GTCTAAGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGTTCTTATG
* * * *
154159 CGATGAGGATGGCATGCCATCTTTAGGGTAGTGATAGCACGGTTCCTATGCGATGAGGACG
66 CGATGAGGATGGCATACCATCTTTAGGG-A-TGATAACACGATTCCTACGCGATGAGGACG
** * *
154220 GT-TGGGGGTGACACGACTCCTACGTGATGAGGAGGTCTAGTCGGTGGATGACACGGTTCCTATG
1 GTCTAAGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGTTCTTATG
* *
154284 TGATGAGGATGGCATACCATCTTTAGGGATGATAACACGATTCCTACGTGATGAGGACGACTG
66 CGATGAGGATGGCATACCATCTTTAGGGATGATAACACGATTCCTACGCGATGA-G--GAC-G
* * * * **
154347 GTTATCTAAGGGTGATACGACTCCTACATGATGAGGAGGTCTGGTCGGGGGATGATACAATTCTT
1 G---TCTAAGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGTTCTT
* *
154412 ATGCAATGAGGATGGCAGACCATCTTTAGGGAT
63 ATGCGATGAGGATGGCATACCATCTTTAGGGAT
154445 AATGGTTTCA
Statistics
Matches: 191, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
123 21 0.11
124 2 0.01
125 81 0.42
126 5 0.03
127 2 0.01
130 1 0.01
131 79 0.41
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (124 bp):
GTCTAAGGGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGTGGATGACACGGTTCTTATG
CGATGAGGATGGCATACCATCTTTAGGGATGATAACACGATTCCTACGCGATGAGGACG
Found at i:154589 original size:44 final size:45
Alignment explanation
Indices: 154517--154610 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 45
154507 AAAATTTGTT
* *
154517 TCAAGGGAAACGATCTCAAAGATTGGTGTTTCATGAGAAACTATC
1 TCAAGGGAAACGATCTCAAAGATAGGTGTTTCAAGAGAAACTATC
*
154562 TCAAGGGAAACGA-CTCAAAGATAGGTGTTTCAAGAGAAACTGTC
1 TCAAGGGAAACGATCTCAAAGATAGGTGTTTCAAGAGAAACTATC
154606 TCAAG
1 TCAAG
154611 AGAGACTAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 33 0.72
45 13 0.28
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (45 bp):
TCAAGGGAAACGATCTCAAAGATAGGTGTTTCAAGAGAAACTATC
Found at i:154766 original size:36 final size:36
Alignment explanation
Indices: 154712--154783 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
154702 GAAACAATTT
* **
154712 CAAAGTTTGTCTTAAGAAAGACTGTCTCAAGTGAGA
1 CAAAGTTTGTCTTAAGAAAAACAATCTCAAGTGAGA
* *
154748 CAAAGTTTGTTTTGAGAAAAACAATCTCAAGTGAGA
1 CAAAGTTTGTCTTAAGAAAAACAATCTCAAGTGAGA
154784 TCAACTTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (36 bp):
CAAAGTTTGTCTTAAGAAAAACAATCTCAAGTGAGA
Found at i:154886 original size:36 final size:36
Alignment explanation
Indices: 154830--154952 Score: 110
Period size: 35 Copynumber: 3.4 Consensus size: 36
154820 TATCTCCAAG
*
154830 GAAATATGTCTCAAGCGAGACAAAAATTTTTTTGAGA
1 GAAAT-TGTCTCAAGCGAGACAAAAATTTTTTTAAGA
* * * *
154867 GAAATTGTCTTAAGTGAGAC---AATTTATTTTTAGC
1 GAAATTGTCTCAAGCGAGACAAAAATTT-TTTTAAGA
* *
154901 GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTTAAGA
1 G-AAATTGTCTCAAGCGAGACAAAAATT-TTTTTAAGA
154939 -AAACTTGTCTCAAG
1 GAAA-TTGTCTCAAG
154953 TGAGGCGACC
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
33 5 0.07
34 7 0.10
35 16 0.24
36 16 0.24
37 14 0.21
38 9 0.13
39 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (36 bp):
GAAATTGTCTCAAGCGAGACAAAAATTTTTTTAAGA
Found at i:154911 original size:35 final size:36
Alignment explanation
Indices: 154836--154956 Score: 115
Period size: 37 Copynumber: 3.4 Consensus size: 36
154826 CAAGGAAATA
* * *
154836 TGTCTCAAGCGAGACAAAAATT-TTTTTGAGAGAAA-T
1 TGTCTCAAGTGAGAC-AAATTTATTTTTAAGA-AAACT
* *
154872 TGTCTTAAGTGAGAC-AATTTATTTTTAGCGAAAAC-
1 TGTCTCAAGTGAGACAAATTTATTTTTA-AGAAAACT
* *
154907 TGTCTCAAGCGAGACAAAATTTGTTTTTAAGAAAACT
1 TGTCTCAAGTGAGAC-AAATTTATTTTTAAGAAAACT
154944 TGTCTCAAGTGAG
1 TGTCTCAAGTGAG
154957 GCGACCCTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
34 4 0.06
35 21 0.30
36 21 0.30
37 23 0.33
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGTGAGACAAATTTATTTTTAAGAAAACT
Found at i:154928 original size:37 final size:36
Alignment explanation
Indices: 154836--154952 Score: 125
Period size: 36 Copynumber: 3.2 Consensus size: 36
154826 CAAGGAAATA
* *
154836 TGTCTCAAGCGAGACAAAAATTTTTTT-GAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTTTTTTAGAGA-AAAC
* * *
154872 TGTCTTAAGTGAGAC--AATTTATTTTTAGCGAAAAC
1 TGTCTCAAGCGAGACAAAATTT-TTTTTAGAGAAAAC
154907 TGTCTCAAGCGAGACAAAATTTGTTTTTA-AGAAAAC
1 TGTCTCAAGCGAGACAAAATTT-TTTTTAGAGAAAAC
154943 TTGTCTCAAG
1 -TGTCTCAAG
154953 TGAGGCGACC
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
34 4 0.06
35 21 0.31
36 22 0.33
37 20 0.30
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTTTTTTAGAGAAAAC
Found at i:156194 original size:19 final size:19
Alignment explanation
Indices: 156172--156219 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
156162 GTGCTTCTTA
* * *
156172 TCTTTTTTTTCTTTGTTTT
1 TCTTTTCTTTATTTCTTTT
*
156191 TCTTCTCTTTATTTCTTTT
1 TCTTTTCTTTATTTCTTTT
*
156210 TCTTTGCTTT
1 TCTTTTCTTT
156220 TCTCTATGCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.77
Consensus pattern (19 bp):
TCTTTTCTTTATTTCTTTT
Found at i:158589 original size:16 final size:17
Alignment explanation
Indices: 158548--158590 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
158538 AATTAGTAAC
*
158548 TAGCGGTTAGAAAAGGT
1 TAGCGGTTAGAAAAGAT
**
158565 TAGTTGTTAGAAAA-AT
1 TAGCGGTTAGAAAAGAT
158581 TAGCGGTTAG
1 TAGCGGTTAG
158591 CAGAGTCTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (17 bp):
TAGCGGTTAGAAAAGAT
Found at i:160248 original size:21 final size:23
Alignment explanation
Indices: 160204--160250 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
160194 TAATAAAATA
*
160204 TTTATATTAGATATTTCTTATTTT
1 TTTATATTAGA-ATGTCTTATTTT
160228 TTTATATTAG-ATGTC-TATTTT
1 TTTATATTAGAATGTCTTATTTT
160249 TT
1 TT
160251 AATTTTCGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 4 0.18
24 10 0.45
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.66
Consensus pattern (23 bp):
TTTATATTAGAATGTCTTATTTT
Found at i:161286 original size:14 final size:14
Alignment explanation
Indices: 161267--161294 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
161257 GTGAATGTTC
161267 GGTTATGTTCGTTT
1 GGTTATGTTCGTTT
161281 GGTTATGTTCGTTT
1 GGTTATGTTCGTTT
161295 ATGTTCGTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.29, T:0.57
Consensus pattern (14 bp):
GGTTATGTTCGTTT
Found at i:161288 original size:24 final size:24
Alignment explanation
Indices: 161261--161313 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
161251 ACGTTTGTGA
* *
161261 ATGTTCGGTTATGTTCGTTTGGTT
1 ATGTTCGGTTATGTTCGTTCGATT
*
161285 ATGTTCGTTTATGTTCGTTCGATT
1 ATGTTCGGTTATGTTCGTTCGATT
161309 ATGTT
1 ATGTT
161314 TAACACAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.11, C:0.09, G:0.25, T:0.55
Consensus pattern (24 bp):
ATGTTCGGTTATGTTCGTTCGATT
Found at i:162052 original size:10 final size:10
Alignment explanation
Indices: 162037--162095 Score: 62
Period size: 10 Copynumber: 6.7 Consensus size: 10
162027 GGGTCTCCAA
162037 CGTTTATGTT
1 CGTTTATGTT
162047 CGTTTATGTT
1 CGTTTATGTT
162057 CG----TGTT
1 CGTTTATGTT
162063 CGTTTATGTT
1 CGTTTATGTT
162073 CG----TGTT
1 CGTTTATGTT
162079 CGTTTATGTT
1 CGTTTATGTT
162089 CGTTTAT
1 CGTTTAT
162096 TTATTAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
6 12 0.29
10 29 0.71
ACGTcount: A:0.08, C:0.12, G:0.22, T:0.58
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:162064 original size:16 final size:16
Alignment explanation
Indices: 162043--162091 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
162033 CCAACGTTTA
162043 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
162059 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
162075 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
162091 T
1 T
162092 TTATTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:162088 original size:26 final size:26
Alignment explanation
Indices: 162037--162095 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
162027 GGGTCTCCAA
* *
162037 CGTTTATGTTCGTTTATGTTCGTGTT
1 CGTTTATGTTCGTTTACGTTCATGTT
*
162063 CGTTTATGTTCGTGTT-CGTTTATGTT
1 CGTTTATGTTCGT-TTACGTTCATGTT
162089 CGTTTAT
1 CGTTTAT
162096 TTATTAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.08, C:0.12, G:0.22, T:0.58
Consensus pattern (26 bp):
CGTTTATGTTCGTTTACGTTCATGTT
Found at i:165410 original size:59 final size:59
Alignment explanation
Indices: 165337--165915 Score: 894
Period size: 59 Copynumber: 9.8 Consensus size: 59
165327 TATATTTCCC
* * * *
165337 ATACTGAAATTCATACACTTAGTATGAATTTCTTAACATGTTAGCACACGAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
* * *
165396 ATAAGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTA-CAACACCAATTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGC-ACACCAAGTGCCCT
* * *
165455 ATACGGAAATTCATACATTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGGCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
* *
165514 ATACAGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGTACACCAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
** * *
165573 ATACATAAATTCATACACTTAATATGAATTTCTTATCATTTTAGCACAACAAGTG-CCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
*
165631 -TACTGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACC-AAGTGCCCT
*
165690 ATATGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
*
165749 ATACGGAAATCCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
* *
165808 ATACGGAAATTCATACACTTAGTATGATTTTCTTATCATTTTAGCACACCAAGTGCCTT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
* * * *
165867 ATACTGAAATTCATACAATTAGTATGAATTTCTTAACATTTTAGTACAC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC
165916 TTAGTGCCAT
Statistics
Matches: 477, Mismatches: 38, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
57 45 0.09
58 9 0.02
59 375 0.79
60 48 0.10
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (59 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
Found at i:165833 original size:294 final size:293
Alignment explanation
Indices: 165338--165910 Score: 952
Period size: 294 Copynumber: 2.0 Consensus size: 293
165328 ATATTTCCCA
*
165338 TACTGAAATTCATACACTTAGTATGAATTTCTTAACATGTTAGCACACGAAGTGCCCTATAAGGA
1 TACTGAAATTCATACACTTAGTATGAATTTCTTAACATGTTAGCACACAAAGTGCCCTATAAGGA
* *
165403 AATTCATACACTTAGTATGAATTTCTTATCATTTTACAACACCAATTGCCCAATACGGAAATTCA
66 AATTCATACACTTAGTATGAATTTCTTATCATTTTACAACACCAAGTGCCCAATACGGAAATCCA
* * *
165468 TACATTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGGCCTATACAGAAATTCATACACT
131 TACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACAGAAATTCATACACT
* *
165533 TAGTATGAATTTCTTATCATTTTAGTACACCAAGTGCCCTATACAT-AAATTCATACACTTAATA
196 TAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATAC-TGAAATTCATACAATTAATA
*
165597 TGAATTTCTTATCATTTTAGCACAACAAGTGCCT
260 TGAATTTCTTAACATTTTAGCACAACAAGTGCCT
* * *
165631 TACTGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAAGTGCCCTATATGG
1 TACTGAAATTCATACACTTAGTATGAATTTCTTAACATGTTAGCACA-CAAAGTGCCCTATAAGG
*
165696 AAATTCATACACTTAGTATGAATTTCTTATCATTTTAGC-ACACCAAGTGCCCTATACGGAAATC
65 AAATTCATACACTTAGTATGAATTTCTTATCATTTTA-CAACACCAAGTGCCCAATACGGAAATC
*
165760 CATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACGGAAATTCATACA
129 CATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACAGAAATTCATACA
* * *
165825 CTTAGTATGATTTTCTTATCATTTTAGCACACCAAGTGCCTTATACTGAAATTCATACAATTAGT
194 CTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACTGAAATTCATACAATTAAT
165890 ATGAATTTCTTAACATTTTAG
259 ATGAATTTCTTAACATTTTAG
165911 TACACTTAGT
Statistics
Matches: 260, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
293 46 0.18
294 213 0.82
295 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (293 bp):
TACTGAAATTCATACACTTAGTATGAATTTCTTAACATGTTAGCACACAAAGTGCCCTATAAGGA
AATTCATACACTTAGTATGAATTTCTTATCATTTTACAACACCAAGTGCCCAATACGGAAATCCA
TACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACAGAAATTCATACACT
TAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACTGAAATTCATACAATTAATAT
GAATTTCTTAACATTTTAGCACAACAAGTGCCT
Found at i:166271 original size:20 final size:22
Alignment explanation
Indices: 166246--166297 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
166236 TGATTCCTCA
166246 GTATCGATACT-CCC-ACCATG
1 GTATCGATACTACCCTACCATG
*
166266 GTATCGATACTACCCTACTATG
1 GTATCGATACTACCCTACCATG
166288 GTATCGATAC
1 GTATCGATAC
166298 CCCTTCCGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 11 0.38
21 3 0.10
22 15 0.52
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (22 bp):
GTATCGATACTACCCTACCATG
Found at i:167568 original size:11 final size:11
Alignment explanation
Indices: 167543--167597 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
167533 TCATTTTTCG
167543 ATATTATTAATA
1 ATATTATT-ATA
*
167555 ATATTGTTATA
1 ATATTATTATA
167566 ATATTATTATA
1 ATATTATTATA
* *
167577 TTATTAATATA
1 ATATTATTATA
*
167588 TTATTATTAT
1 ATATTATTAT
167598 TAACAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
11 31 0.82
12 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (11 bp):
ATATTATTATA
Found at i:167592 original size:14 final size:14
Alignment explanation
Indices: 167544--167596 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
167534 CATTTTTCGA
167544 TATTATTAATAATAT
1 TATTATTAAT-ATAT
*
167559 TGTTA-TAATATTATT
1 TATTATTAATA-TA-T
167574 ATATTATTAATATAT
1 -TATTATTAATATAT
167589 TATTATTA
1 TATTATTA
167597 TTAACAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.03
14 14 0.44
15 6 0.19
16 6 0.19
17 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TATTATTAATATAT
Found at i:179996 original size:42 final size:41
Alignment explanation
Indices: 179927--180042 Score: 103
Period size: 42 Copynumber: 2.8 Consensus size: 41
179917 TTATAAGTCC
* *
179927 TTCGGGCCATCAGTAAGTCTTCCGAGCATGATGCATAAATCA
1 TTCGGGCCATCAGTAAGTCTTCAGAGCAGGATG-ATAAATCA
* * * *
179969 TTCGGGTCATCTGTAAGTCTAT-AGAGCAGGATGATAAGTCC
1 TTCGGGCCATCAGTAAGTCT-TCAGAGCAGGATGATAAATCA
* *
180010 TTTGGGCCATCCA-TAAGTCCTTC-GGGCAGGATG
1 TTCGGGCCAT-CAGTAAGT-CTTCAGAGCAGGATG
180043 TTTTCAAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
41 29 0.48
42 30 0.50
43 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (41 bp):
TTCGGGCCATCAGTAAGTCTTCAGAGCAGGATGATAAATCA
Found at i:180206 original size:42 final size:41
Alignment explanation
Indices: 180160--180261 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 41
180150 TTATAAGTCA
* * *
180160 TTTGGGCCATCAGTAAGTCTTCCGAGCATGATGTTTAAATCC
1 TTTGGGCCATCAGTAAGTCTTCCAAGCAAGATG-ATAAATCC
* * * *
180202 TTTGGGCCATCTGTATGTCTTTCAAGCAAGATGATAAGTCC
1 TTTGGGCCATCAGTAAGTCTTCCAAGCAAGATGATAAATCC
*
180243 TTTAGGCCATCCA-TAAGTC
1 TTTGGGCCAT-CAGTAAGTC
180262 CTTCGGGTAG
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 20 0.41
42 29 0.59
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (41 bp):
TTTGGGCCATCAGTAAGTCTTCCAAGCAAGATGATAAATCC
Found at i:180237 original size:233 final size:233
Alignment explanation
Indices: 179828--180536 Score: 1073
Period size: 233 Copynumber: 3.0 Consensus size: 233
179818 TAAAAAAAAT
* * *
179828 AAAATGAGAAAAGTTTCTCATTTAAATATGAGATTTGAAATTTTTGAAAAGTAAGAAAGTTTTTT
1 AAAATGAGAAAAGTTTCTCATTTAAATTTGAGATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCT
* *
179893 TACTTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTCCGAGCATGA
66 TACCTAGTAAACTATTTCCAAAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTCCGAGCATGA
** * * *
179958 TGCATAAATCATTCGGGTCATCTGTAAGTCTAT-AGAGCAGGATGATAAGTCCTTTGGGCCATCC
131 TGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTCA-AGCAAGATGATAAGTCCTTTGGGCCATCC
180022 ATAAGTCCTTCGGGCAGGATGTTTTCAAATATCTTTTAA
195 ATAAGTCCTTCGGGCAGGATGTTTTCAAATATCTTTTAA
180061 AAAATGAGAAAAGTTTCTCATTTAAATTTGAGATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCT
1 AAAATGAGAAAAGTTTCTCATTTAAATTTGAGATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCT
* *
180126 TACCTAGTAAACTACTTCCAAAATTTATAAGTCATTTGGGCCATCAGTAAGTCTTCCGAGCATGA
66 TACCTAGTAAACTATTTCCAAAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTCCGAGCATGA
* * * *
180191 TGTTTAAATCCTTTGGGCCATCTGTATGTCTTTCAAGCAAGATGATAAGTCCTTTAGGCCATCCA
131 TGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTCAAGCAAGATGATAAGTCCTTTGGGCCATCCA
* * *
180256 TAAGTCCTTCGGGTAGGATGTTTTCAAATGTCTATT-A
196 TAAGTCCTTCGGGCAGGATGTTTTCAAATATCTTTTAA
* * *
180293 AAAATGAGAAATGTTTCTCATTTAAATTTGAAAATTGAAATTTTTGAAAAGTAAGAAAGGTTTCT
1 AAAATGAGAAAAGTTTCTCATTTAAATTTGAGATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCT
* * * * *
180358 TACCAAGTAAATTATTTCCAAAATTTATAAGTCATCCGGGCCATCAGTAAGCCTTTCGAGCATGA
66 TACCTAGTAAACTATTTCCAAAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTCCGAGCATGA
* **
180423 TGTTTAAATCCTTCAGGTCATCTGTAAGTCTTTCAAGCAAGATGATAACACCTTTGGGCCATCCA
131 TGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTCAAGCAAGATGATAAGTCCTTTGGGCCATCCA
* * *
180488 TAAGTCCTTCGTGCAGGATGTTTTCACATGAT-TTTTCAG
196 TAAGTCCTTCGGGCAGGATGTTTTCAAAT-ATCTTTT-AA
180527 AAAATGAGAA
1 AAAATGAGAA
180537 TATAATTTCC
Statistics
Matches: 430, Mismatches: 42, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
232 208 0.48
233 211 0.49
234 11 0.03
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (233 bp):
AAAATGAGAAAAGTTTCTCATTTAAATTTGAGATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCT
TACCTAGTAAACTATTTCCAAAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTCCGAGCATGA
TGTTTAAATCCTTCGGGTCATCTGTAAGTCTTTCAAGCAAGATGATAAGTCCTTTGGGCCATCCA
TAAGTCCTTCGGGCAGGATGTTTTCAAATATCTTTTAA
Found at i:180920 original size:115 final size:115
Alignment explanation
Indices: 180714--181497 Score: 1130
Period size: 115 Copynumber: 6.9 Consensus size: 115
180704 TTTAATTTGT
* *
180714 AGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTCCCAAGATTTGATATTCCTTT
1 AGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTT
* * * *
180779 CAGAATAAGTTGAACAAGTCTTCCCCGATTCAATGGATCAAACTCCTCCA
66 CAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCCTTCA
* *
180829 AGATCTGATATTCCCTTCAGAGTAAGCGAAACAGGTCTCTCTTTTCCAAGATTTGATATTCCCTT
1 AGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTT
* *
180894 CAGAGTAAGTGGAACAAGTTTGCCCCGATTCAATGGATCAAACTCCTCCA
66 CAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCCTTCA
* * * ** * * *
180944 ATATATGATATTCCCTTTAGAGTAAGCATAACAGGTCTCTCTTTCCCAAGATTTGATATTCTCTT
1 AGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTT
* *
181009 CAGAGTAAGTGGAACAAGTCTACCTCGATTCAATGGATCAAACTCCTTCA
66 CAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCCTTCA
* *
181059 A-ATCTGATATTCCCTTCAGAGTTAGCGGAACATGTCTCT-TTTTCCCAAGATTTGATATTCCTT
1 AGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTT-CCAAGATTTGATATTCCCT
*
181122 TCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTTCTTCA
65 TCAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCCTTCA
* * *
181173 AGATATGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTTCCCAAGATTTGATATTCCCTT
1 AGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTT
* * * * *
181238 AAGAGTAAGTGGAACAAGTCTGCCCCAATT-TATGGCTCAAACTCCTT-T
66 CAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCCTTCA
*** *
181286 AGATCTGATATTCCCTTCAGAGTAAGAATAACATGTCTCTCTTTTCCATGATTTGATATTCCCTT
1 AGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTT
* *
181351 AAGAGTAAGTGGAACAAGTCTGCCTCGATTCAATGGATCAAACTCCTTC-
66 CAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCCTTCA
* * * *
181400 AGATATGATATTCCCTTTAGAGTAAGTGGAACATGTCTCTCTTTTCCAATATTTGATATTCCCTT
1 AGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTT
* *
181465 AAGAGTAAGTGGAACAAGTCTGCCTC-ATTCAAT
66 CAGAGTAAGTGGAACAAGTCTGCCCCGATTCAAT
181498 CTTCCCTGAA
Statistics
Matches: 604, Mismatches: 60, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
113 96 0.16
114 211 0.35
115 294 0.49
116 3 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (115 bp):
AGATCTGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTT
CAGAGTAAGTGGAACAAGTCTGCCCCGATTCAATGGATCAAACTCCTTCA
Found at i:181856 original size:11 final size:11
Alignment explanation
Indices: 181831--181890 Score: 75
Period size: 11 Copynumber: 5.3 Consensus size: 11
181821 CCATTTTTCG
181831 ATATTATTAATA
1 ATATTATT-ATA
*
181843 ATATTGTTATA
1 ATATTATTATA
181854 ATATTATTATA
1 ATATTATTATA
*
181865 ATATTAATATA
1 ATATTATTATA
*
181876 TTATTATTATTA
1 ATATTATTA-TA
181888 ATA
1 ATA
181891 ATAAAATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
11 30 0.73
12 11 0.27
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
ATATTATTATA
Found at i:182797 original size:8 final size:8
Alignment explanation
Indices: 182780--182813 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
182770 GGGAGAGTTT
182780 TCCCTCTC
1 TCCCTCTC
*
182788 TCCCTATC
1 TCCCTCTC
182796 TCCCTCTC
1 TCCCTCTC
182804 TCCCTCTC
1 TCCCTCTC
182812 TC
1 TC
182814 ATTTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.03, C:0.59, G:0.00, T:0.38
Consensus pattern (8 bp):
TCCCTCTC
Found at i:184954 original size:23 final size:23
Alignment explanation
Indices: 184912--184980 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
184902 CACCACAACT
* * *
184912 CATATAAATGCACTGGAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
* * *
184935 CGTAGAATTGCACCGAAGTGCCG
1 CATAGAAATGCACCGAAGTGCCA
*
184958 CATAGAAATGCACCGTAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
184981 TATAAGATGT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (23 bp):
CATAGAAATGCACCGAAGTGCCA
Found at i:186553 original size:20 final size:23
Alignment explanation
Indices: 186519--186599 Score: 105
Period size: 24 Copynumber: 3.6 Consensus size: 23
186509 TCCCATTGAA
* *
186519 GTGCATCGGTACATTC-T-ACA-
1 GTGCATCGATGCATTCTTAACAT
186539 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTC-TTAACAT
186563 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTC-TTAACAT
186587 GTGCATCGATGCA
1 GTGCATCGATGCA
186600 CTACTCATGC
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
20 14 0.25
22 1 0.02
23 3 0.05
24 37 0.67
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (23 bp):
GTGCATCGATGCATTCTTAACAT
Found at i:186571 original size:24 final size:24
Alignment explanation
Indices: 186539--186599 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
186529 ACATTCTACA
186539 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
186563 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
186587 GTGCATCGATGCA
1 GTGCATCGATGCA
186600 CTACTCATGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (24 bp):
GTGCATCGATGCATTCTTTAACAT
Found at i:189136 original size:13 final size:13
Alignment explanation
Indices: 189120--189144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
189110 TTCACTTCGA
189120 CAATTTCTATAAC
1 CAATTTCTATAAC
189133 CAATTTCTATAA
1 CAATTTCTATAA
189145 ATGATGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (13 bp):
CAATTTCTATAAC
Found at i:190719 original size:2 final size:2
Alignment explanation
Indices: 190707--190739 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
190697 ATATTATACT
*
190707 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
190740 TACTTCTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:190834 original size:22 final size:20
Alignment explanation
Indices: 190809--190848 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
190799 ACTCCTATAA
*
190809 TTTTCTCATATCACTCAATAGC
1 TTTTATCATA-CACT-AATAGC
190831 TTTTATCATACACTAATA
1 TTTTATCATACACTAATA
190849 TATCATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.42
Consensus pattern (20 bp):
TTTTATCATACACTAATAGC
Found at i:191565 original size:20 final size:22
Alignment explanation
Indices: 191530--191587 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
191520 TTCCCATTGA
* *
191530 AGTGCATCGGTACATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
191550 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
191573 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
191588 CTACTCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.47
22 1 0.03
23 3 0.09
24 13 0.41
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:197233 original size:68 final size:68
Alignment explanation
Indices: 197120--197256 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
197110 GGCGACTCTG
* *
197120 ACTCGATGTCTGATTATCTCCTTACTCAGCTGGTATTCCATCTACGCGTGAAATAAACACATGTT
1 ACTCGATGTCTGATTATCTCCTTAATCAGCTGGTATTCCACCTACGCGTGAAATAAACACATGTT
197185 AGT
66 AGT
197188 ACTCGATGTCTGATTATCTCCTTAATCAGCTGGTATTCCACCTACGCGTGAAATAAACACATGTT
1 ACTCGATGTCTGATTATCTCCTTAATCAGCTGGTATTCCACCTACGCGTGAAATAAACACATGTT
197253 AGT
66 AGT
197256 A
1 A
197257 TTACTTAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (68 bp):
ACTCGATGTCTGATTATCTCCTTAATCAGCTGGTATTCCACCTACGCGTGAAATAAACACATGTT
AGT
Found at i:197518 original size:59 final size:59
Alignment explanation
Indices: 197450--198204 Score: 1040
Period size: 59 Copynumber: 12.7 Consensus size: 59
197440 TTCCCATACT
* * *
197450 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCGCACGAAGTGCCCTATATG
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATG
* * *
197509 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAATTACCCTATATA
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATG
* * *
197568 GAAATTCATACACTTAGTATGATTTTCTTATCATTTTAGCACACGAAGTGACCTATACT-
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATA-TG
197627 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACT-
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATA-TG
* * **
197686 GAAATTCATACACTTAGTATGATTTTCTTATCATTTTAGCACACCAACTGCCCTATACA
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATG
* *
197745 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTATCACACCAAGTGCCCTATACG
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATG
*
197804 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACG
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATG
* * * *
197863 AAAATTCTTACAATTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCTTATACT-
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATA-TG
**
197922 GAAATTCATACACTTA--A-GAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACA
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATG
* * * * **
197978 AAAATTAATACACTTAATATGAATTTCTTATCATTGTAGCACACCAAGTTTCCTATATG
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATG
* * *
198037 AAAATTCATACACTTAGTATG-ATTCCTTATCATTTTAGCACACCAAGTGCCCTATACG
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATG
* * *
198095 GAAATTAATACACTTTGTATGAATTTTTTATCATTTTAGCACACCAAGTGCCATATACCCTATAC
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTG-------CCCTATA-
198160 T-
58 TG
*
198161 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC
198205 GTAGTGCCAT
Statistics
Matches: 624, Mismatches: 56, Indels: 25
0.89 0.08 0.04
Matches are distributed among these distances:
56 50 0.08
57 1 0.00
58 51 0.08
59 474 0.76
60 1 0.00
66 47 0.08
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.36
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATG
Found at i:198196 original size:66 final size:66
Alignment explanation
Indices: 198086--198214 Score: 195
Period size: 66 Copynumber: 2.0 Consensus size: 66
198076 ACACCAAGTG
* * *
198086 CCCTATACGGAAATTAATACACTTTGTATGAATTTTTTATCATTTTAGCACACCAAGTGCCATAT
1 CCCTATACGGAAATTAATACACTTAGTATGAATTTCTTAACATTTTAGCACACCAAGTGCCATAT
198151 A
66 A
* * **
198152 CCCTATACTGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGTAGTGCCAT
1 CCCTATACGGAAATTAATACACTTAGTATGAATTTCTTAACATTTTAGCACACCAAGTGCCAT
198215 TTGGTAATCA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (66 bp):
CCCTATACGGAAATTAATACACTTAGTATGAATTTCTTAACATTTTAGCACACCAAGTGCCATAT
A
Found at i:199243 original size:3 final size:3
Alignment explanation
Indices: 199235--199265 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
199225 GACTAGGGTT
199235 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
199266 ATGGCTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:199593 original size:22 final size:20
Alignment explanation
Indices: 199548--199618 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 20
199538 TGGTTCCTCC
199548 GTATCGATACTCCCACCATG
1 GTATCGATACTCCCACCATG
*
199568 GTATCGATACTACCCTACTATG
1 GTATCGATACT-CCC-ACCATG
* * **
199590 GTATTGATACCCCCTTC-TG
1 GTATCGATACTCCCACCATG
199609 GTATCGATAC
1 GTATCGATAC
199619 CAAAATTAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
19 11 0.26
20 11 0.26
21 6 0.14
22 14 0.33
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (20 bp):
GTATCGATACTCCCACCATG
Found at i:199694 original size:95 final size:95
Alignment explanation
Indices: 199562--199769 Score: 299
Period size: 95 Copynumber: 2.2 Consensus size: 95
199552 CGATACTCCC
* ** *
199562 ACCATGGTATCGATACTACCCTACTATGGTATTGATACCCCCTTCTGGTATCGATACCAAAATTA
1 ACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTATGGTATCGATACCAAAATTA
*
199627 GATTCGATGTGGCCCAGTATCAATACCCTT
66 GATTCGATGTGACCCAGTATCAATACCCTT
* * *
199657 ACCATGGTATCGATACTACTATATTATGGTACCGATACCCCTTTATGGTATCGATACCAAAATTA
1 ACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTATGGTATCGATACCAAAATTA
* ** *
199722 GATTCGATGTTACCTGGTATCGATACCCTT
66 GATTCGATGTGACCCAGTATCAATACCCTT
*
199752 ACCATGGTATTGATACTA
1 ACCATGGTATCGATACTA
199770 GCTCGTCGGT
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 100 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (95 bp):
ACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTATGGTATCGATACCAAAATTA
GATTCGATGTGACCCAGTATCAATACCCTT
Found at i:207780 original size:12 final size:13
Alignment explanation
Indices: 207758--207799 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
207748 TAAATAGACC
207758 TATTAAATAAAAT
1 TATTAAATAAAAT
207771 TATT-AATAAAATT
1 TATTAAATAAAA-T
*
207784 TCTTAAATATAAAT
1 TATTAAATA-AAAT
207798 TA
1 TA
207800 GATAAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 6 0.25
15 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
TATTAAATAAAAT
Found at i:207855 original size:23 final size:23
Alignment explanation
Indices: 207829--207877 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
207819 TACAAAGGAA
207829 AAATAATATACATTAATTTATAT
1 AAATAATATACATTAATTTATAT
* **
207852 AAATTATATAGTTTAATTTATAT
1 AAATAATATACATTAATTTATAT
207875 AAA
1 AAA
207878 GAAAAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
AAATAATATACATTAATTTATAT
Found at i:208478 original size:20 final size:20
Alignment explanation
Indices: 208453--208505 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
208443 CAATAGGCAA
* *
208453 GAAGCAGCAGCAGGCAGTAG
1 GAAGCAGCAACAGGCAGCAG
*
208473 GAAGCATCAACAGGCAGCAG
1 GAAGCAGCAACAGGCAGCAG
208493 GAAGCAGCAACAG
1 GAAGCAGCAACAG
208506 CAATAGCAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.23, G:0.34, T:0.04
Consensus pattern (20 bp):
GAAGCAGCAACAGGCAGCAG
Found at i:208860 original size:6 final size:6
Alignment explanation
Indices: 208849--208877 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
208839 TAGCACCCTA
208849 AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAAT
208878 AATTAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:211256 original size:102 final size:102
Alignment explanation
Indices: 211037--211257 Score: 381
Period size: 102 Copynumber: 2.2 Consensus size: 102
211027 AATGAACAAC
*
211037 CAACAGTAGCTAA-AAATTAAACAGTTTATTTAAAGTGTAAATAAAGGCATCTAACAACCTTATA
1 CAACAGTAG-TAACAAATTAAACAGTTTATTTAAAGTGTAAATAAAGGCAGCTAACAACCTTATA
*
211101 AAAGCAATCTGAATGAACAACCAACAACACAAACAAAT
65 AAAGCAATCTAAATGAACAACCAACAACACAAACAAAT
* *
211139 CAACAGTAGTTACAAATTAAACAGTTTATTTAAATTGTAAATAAAGGCAGCTAACAACCTTATAA
1 CAACAGTAGTAACAAATTAAACAGTTTATTTAAAGTGTAAATAAAGGCAGCTAACAACCTTATAA
211204 AAGCAATCTAAATGAACAACCAACAACACAAACAAAT
66 AAGCAATCTAAATGAACAACCAACAACACAAACAAAT
*
211241 CAACAGTAGAAACAAAT
1 CAACAGTAGTAACAAAT
211258 CAACAGTAGC
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
101 2 0.02
102 110 0.98
ACGTcount: A:0.52, C:0.18, G:0.10, T:0.21
Consensus pattern (102 bp):
CAACAGTAGTAACAAATTAAACAGTTTATTTAAAGTGTAAATAAAGGCAGCTAACAACCTTATAA
AAGCAATCTAAATGAACAACCAACAACACAAACAAAT
Found at i:211274 original size:17 final size:17
Alignment explanation
Indices: 211233--211266 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
211223 CCAACAACAC
211233 AAACAAATCAACAGTAG
1 AAACAAATCAACAGTAG
211250 AAACAAATCAACAGTAG
1 AAACAAATCAACAGTAG
211267 CTACAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.18, G:0.12, T:0.12
Consensus pattern (17 bp):
AAACAAATCAACAGTAG
Found at i:211554 original size:31 final size:31
Alignment explanation
Indices: 211502--211574 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
211492 AAGATGCTCG
211502 GTTAGGGTTTTTTAGGTTTAGGTTAGAATTTGA
1 GTTAGGG--TTTTAGGTTTAGGTTAGAATTTGA
* * * *
211535 GTTAGGGTTTTGGGTTTAGGTTTGGATTTGG
1 GTTAGGGTTTTAGGTTTAGGTTAGAATTTGA
*
211566 GTTCGGGTT
1 GTTAGGGTT
211575 ATGGTTCAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 28 0.80
33 7 0.20
ACGTcount: A:0.14, C:0.01, G:0.37, T:0.48
Consensus pattern (31 bp):
GTTAGGGTTTTAGGTTTAGGTTAGAATTTGA
Found at i:211647 original size:6 final size:6
Alignment explanation
Indices: 211615--211731 Score: 76
Period size: 6 Copynumber: 19.7 Consensus size: 6
211605 TCAAATTCGA
* * * * * ***
211615 GTTTGG GTTCGG G-TTGG GTCTGG GTTTGG GTTT-A ATTAGG GTTCAA
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
* * * *
211661 GTTTAG GTTAGG GTTTAG GTTTAG GTTTGG GTTTGG GTTTGG GTTTGG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
** *
211709 GTTCAG GTTTTG GTTTAGG GTTT
1 GTTTGG GTTTGG GTTT-GG GTTT
211732 AGGTGACAGA
Statistics
Matches: 84, Mismatches: 24, Indels: 5
0.74 0.21 0.04
Matches are distributed among these distances:
5 6 0.07
6 73 0.87
7 5 0.06
ACGTcount: A:0.09, C:0.03, G:0.41, T:0.46
Consensus pattern (6 bp):
GTTTGG
Found at i:211723 original size:18 final size:18
Alignment explanation
Indices: 211543--211735 Score: 79
Period size: 18 Copynumber: 10.7 Consensus size: 18
211533 GAGTTAGGGT
*
211543 TTTGGGTTTAGG-TTTGG
1 TTTGGGTTCAGGTTTTGG
* *
211560 ATTTGGGTTCGGGTTATGG
1 -TTTGGGTTCAGGTTTTGG
**
211579 TTCAGGTTCAGGTTTTGG
1 TTTGGGTTCAGGTTTTGG
** ** *
211597 ATTCAGGTTCA-AATTCGAG
1 -TTTGGGTTCAGGTTTTG-G
* *
211616 TTTGGGTTC-GGGTTGGG
1 TTTGGGTTCAGGTTTTGG
* * * **
211633 TCTGGGTT-TGGGTTTAA
1 TTTGGGTTCAGGTTTTGG
* * *
211650 TTAGGGTTCAAGTTTAGG
1 TTTGGGTTCAGGTTTTGG
* * *
211668 TTAGGGTTTAGGTTTAGG
1 TTTGGGTTCAGGTTTTGG
** *
211686 TTTGGGTTTGGGTTTGGG
1 TTTGGGTTCAGGTTTTGG
211704 TTTGGGTTCAGGTTTTGG
1 TTTGGGTTCAGGTTTTGG
*
211722 TTTAGGGTTTAGGT
1 TTT-GGGTTCAGGT
211736 GACAGAAGAT
Statistics
Matches: 132, Mismatches: 36, Indels: 13
0.73 0.20 0.07
Matches are distributed among these distances:
17 19 0.14
18 89 0.67
19 24 0.18
ACGTcount: A:0.12, C:0.05, G:0.38, T:0.45
Consensus pattern (18 bp):
TTTGGGTTCAGGTTTTGG
Found at i:212427 original size:14 final size:14
Alignment explanation
Indices: 212399--212476 Score: 56
Period size: 14 Copynumber: 5.4 Consensus size: 14
212389 CATCCCTTTA
212399 TAAT-TTTATTAAT
1 TAATATTTATTAAT
212412 TAACTATTTA-TAAT
1 TAA-TATTTATTAAT
* *
212426 TAATATTACAATAAT
1 TAATATT-TATTAAT
212441 T-ATATATTA-TAAT
1 TAATAT-TTATTAAT
212454 TAATATTAATATTAAT
1 TAATATT--TATTAAT
212470 ATAATAT
1 -TAATAT
212477 AGTTTATAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
13 13 0.25
14 18 0.34
15 12 0.23
16 4 0.08
17 6 0.11
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATTTATTAAT
Found at i:212461 original size:6 final size:6
Alignment explanation
Indices: 212410--212536 Score: 60
Period size: 6 Copynumber: 19.3 Consensus size: 6
212400 AATTTTATTA
*
212410 ATTAACT ATTTAT AATTAAT ATTACAAT AATTATAT ATT-AT AATTAAT
1 ATTAA-T ATTAAT -ATTAAT ATT--AAT -ATTA-AT ATTAAT -ATTAAT
* * * *
212458 ATTAAT ATTAAT ATAATAT AGTTTAT AATTTAT AATTAAT ATTAAT A-TAAA
1 ATTAAT ATTAAT ATTA-AT A-TTAAT -ATTAAT -ATTAAT ATTAAT ATTAAT
* *
212509 ATATAGT ATATAAC ATTAAT ATTAAT AT
1 AT-TAAT AT-TAAT ATTAAT ATTAAT AT
212537 AAACTATATG
Statistics
Matches: 96, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
5 6 0.06
6 40 0.42
7 40 0.42
8 7 0.07
9 3 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (6 bp):
ATTAAT
Found at i:212463 original size:34 final size:33
Alignment explanation
Indices: 212424--212608 Score: 141
Period size: 34 Copynumber: 5.5 Consensus size: 33
212414 ACTATTTATA
212424 ATTAATATTACA-ATAATTATATATTATAATTAAT
1 ATTAATATTA-ATATAA-TATATATTATAATTAAT
*
212458 ATTAATATTAATATAATATAGT-TTATAATTTAT
1 ATTAATATTAATATAATATA-TATTATAATTAAT
* * *
212491 AATTAATATTAATATAAAATATAGTAT-A-TAAC
1 -ATTAATATTAATATAATATATATTATAATTAAT
*
212523 ATTAATATTAATATAAACTATATGTTATAAATTATAT
1 ATTAATATTAATAT-AA-TATATATTAT-AATTA-AT
* * *
212560 AGT-ATAGTTTATA-AACTATAGTTAATATAATTAAT
1 ATTAATA-TTAATATAA-TATA--TATTATAATTAAT
212595 ATTAATA-TAATATA
1 ATTAATATTAATATA
212609 GTTTATAAAC
Statistics
Matches: 121, Mismatches: 15, Indels: 29
0.73 0.09 0.18
Matches are distributed among these distances:
31 14 0.12
32 4 0.03
33 24 0.20
34 41 0.34
35 13 0.11
36 13 0.11
37 12 0.10
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (33 bp):
ATTAATATTAATATAATATATATTATAATTAAT
Found at i:212468 original size:40 final size:40
Alignment explanation
Indices: 212395--212505 Score: 120
Period size: 40 Copynumber: 2.7 Consensus size: 40
212385 ATTTCATCCC
*
212395 TTTATAATTTTATTAATTAACTATTTATAATTAATATTACA-ATAA
1 TTTATAA-TTTA-TAATTAA-TATTAAT-ATTAATA-TA-ATATAA
*
212440 -TTAT-ATATTATAATTAATATTAATATTAATATAATATAG
1 TTTATAAT-TTATAATTAATATTAATATTAATATAATATAA
212479 TTTATAATTTATAATTAATATTAATAT
1 TTTATAATTTATAATTAATATTAATAT
212506 AAAATATAGT
Statistics
Matches: 60, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
38 1 0.02
39 5 0.08
40 30 0.50
41 8 0.13
42 8 0.13
43 4 0.07
44 4 0.07
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (40 bp):
TTTATAATTTATAATTAATATTAATATTAATATAATATAA
Found at i:212571 original size:14 final size:14
Alignment explanation
Indices: 212554--212615 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
212544 ATGTTATAAA
*
212554 TTATATAGTATAGT
1 TTATATAATATAGT
212568 TTATA-AACTATAGT
1 TTATATAA-TATAGT
*
212582 TAATATAATTAATA-T
1 TTATATAA-T-ATAGT
*
212597 TAATATAATATAGT
1 TTATATAATATAGT
212611 TTATA
1 TTATA
212616 AACTATATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.10
14 21 0.52
15 12 0.30
16 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (14 bp):
TTATATAATATAGT
Found at i:212650 original size:100 final size:96
Alignment explanation
Indices: 212488--212665 Score: 250
Period size: 100 Copynumber: 1.8 Consensus size: 96
212478 GTTTATAATT
*
212488 TATAATTAATATTAATATAAAATATAGTATATAACATTAATATTAATATAAACTATATGTTATAA
1 TATAATTAATATTAATAT-AAATATAGTATATAACATTAATATTAATATAAACTATAGGTTATAA
* *
212553 ATTATATAGTATAGTTTATAAACTATAGTTAA
65 AGTATATACTATAGTTTATAAACTATAGTTAA
* *
212585 TATAATTAATATTAATAT-AATATAGTTTATAAACTATATACTATATTAATATAAATTATAGGTT
1 TATAATTAATATTAATATAAATATAGTATAT-AAC-AT-TA--ATATTAATATAAACTATAGGTT
212649 ATAAAGTATATACTATA
61 ATAAAGTATATACTATA
212666 CATAGTTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
95 11 0.15
96 3 0.04
97 20 0.28
98 2 0.03
100 35 0.49
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (96 bp):
TATAATTAATATTAATATAAATATAGTATATAACATTAATATTAATATAAACTATAGGTTATAAA
GTATATACTATAGTTTATAAACTATAGTTAA
Found at i:212651 original size:36 final size:35
Alignment explanation
Indices: 212462--212665 Score: 127
Period size: 34 Copynumber: 6.1 Consensus size: 35
212452 ATTAATATTA
* ** *
212462 ATATTAATAT-AATATAGTTTATAATTTATA-ATT
1 ATATTAATATAAATATAGGTTATAAACTATATACT
212495 AATATTAATATAAAATATA-G-TATATAAC-AT-TA--
1 -ATATTAATAT-AAATATAGGTTATA-AACTATATACT
* * *
212527 ATATTAATATAAACTATATGTTATAAATTATATAGT
1 ATATTAATATAAA-TATAGGTTATAAACTATATACT
*
212563 ATAGTT--TATAAACTATA-G-T-T-AA-TATA-ATT
1 ATA-TTAATATAAA-TATAGGTTATAAACTATATACT
*
212592 AATATTAATAT-AATATAGTTTATAAACTATATACT
1 -ATATTAATATAAATATAGGTTATAAACTATATACT
*
212627 ATATTAATATAAATTATAGGTTATAAAGTATATACT
1 ATATTAATATAAA-TATAGGTTATAAACTATATACT
212663 ATA
1 ATA
212666 CATAGTTTAT
Statistics
Matches: 138, Mismatches: 9, Indels: 44
0.72 0.05 0.23
Matches are distributed among these distances:
29 8 0.06
30 12 0.09
31 20 0.14
32 5 0.04
33 9 0.07
34 34 0.25
35 16 0.12
36 32 0.23
37 2 0.01
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (35 bp):
ATATTAATATAAATATAGGTTATAAACTATATACT
Found at i:212820 original size:14 final size:14
Alignment explanation
Indices: 212803--212840 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
212793 GTGATTACAT
212803 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAGG
212817 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAGG
*
212831 TTTAGAGTTT
1 TTTAGGGTTT
212841 TTATAAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTAAGG
Found at i:213234 original size:2 final size:2
Alignment explanation
Indices: 213227--213417 Score: 134
Period size: 2 Copynumber: 98.0 Consensus size: 2
213217 TATTTCTTTA
213227 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
213269 AT AT AT AT AT AT AT AT -T CT AT AT AT -T ACT -T GT AT -T AGT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT
* * *
213308 AT AC AT AC AT AT AT AT ACT AT AT -T A- AT AT AA AT -T AT A- AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
213347 AT AT AA ACT AT AT AT -T TT AA AT A- AT TT AT AC AT AT AT AGT TT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* *
213389 AT AT AC AT AC AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
213418 TAATATAAAT
Statistics
Matches: 149, Mismatches: 23, Indels: 34
0.72 0.11 0.17
Matches are distributed among these distances:
1 11 0.07
2 130 0.87
3 8 0.05
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:213370 original size:25 final size:24
Alignment explanation
Indices: 213342--213409 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 24
213332 AATATAAATT
*
213342 ATAATATATAAACTATATATTTTAA
1 ATAATATATAAA-TATATAGTTTAA
* * *
213367 ATAATTTATACATATATAGTTTAT
1 ATAATATATAAATATATAGTTTAA
* *
213391 ATACATACATATATATATA
1 ATA-ATATATAAATATATA
213410 TACTATATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
24 13 0.37
25 22 0.63
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (24 bp):
ATAATATATAAATATATAGTTTAA
Done.