Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009343.1 Hibiscus syriacus cultivar Beakdansim tig00113123_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: 2141224
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 11
Found at i:114068 original size:256 final size:249
Alignment explanation
Indices: 113462--114070 Score: 845
Period size: 257 Copynumber: 2.4 Consensus size: 249
113452 CTTATTTATA
*
113462 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGT
1 TATTGAATAAAAATATTTTATTATTATTTCGGGTC-GGTCGGGTTTCTAATTCATATATTCGGGT
* * *
113527 GGGGTCGAGTGAAACTTTATTTTGGTCGGGTCAGGTCGGTTTTTTTAAGTGTGGTATTCGGGTCG
65 CGGGTCG-GTGAAACTTTATTTTGGTCGGGTCAGGTCGGTTTTTTTAAATGTGATATTCGGGTCG
* *
113592 GATCGAGTTCGGATTTAGGGTGAAAACTACCCGACCCGAAAATATATATAATTTTACGTTATATA
129 GAT---GTTCGGATTTAGGGTGAAAACTACCCGACCCGAAAAAATATATAATTTTACCTTATATA
* * *
113657 TTTAGGAATAATTACTATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCACTATTTT
191 TTTAGGAATAATTACAATAATACCCCTC---ACATAATTTTTTTAAATTAAGTCACTATTTT
*** *
113719 TATTGAATAAAAATATTTTTATT-TTGGGTCGGGTCGGTTCGGATTTCTAATTCATATATTCGGG
1 TATTGAATAAAAATA-TTTTATTATTATTTCGGGTCGG-TCGGGTTTCTAATTCATATATTCGGG
*
113783 TCGGGTCGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGGTTTTTTTAAATGTGATATTCGGGTC
64 TCGGGTCGGTGAAACTTTATTTTGGTCGGGTCAGGTC-GGTTTTTTTAAATGTGATATTCGGGTC
*
113848 GGAT-TTTGG-TTTAGGGTGAAAAATACCTGACCCGACCC-AAAAAATATATAATTTTACCTTAT
128 GGATGTTCGGATTTAGGGTG--AAA-A-CT-ACCCGACCCGAAAAAATATATAATTTTACCTTAT
*
113910 ATATTTAGGAATAATTACAATAATACCCCTC-CAT-ATTTTTTTAAATTAAGTCA-TTTTTT
188 ATATTTAGGAATAATTACAATAATACCCCTCACATAATTTTTTTAAATTAAGTCACTATTTT
*
113969 TATTGAATAAAAATATTTTATTATTATTTAGGGTCAGGTCGGGTTTCTAATTCATATATTCGGGT
1 TATTGAATAAAAATATTTTATTATTATTTCGGGTC-GGTCGGGTTTCTAATTCATATATTCGGGT
*
114034 CGGGTCAGGTGAAACTTTATTTTGGTCGGGTCGGGTC
65 CGGGTC-GGTGAAACTTTATTTTGGTCGGGTCAGGTC
114071 TCGGATGGAT
Statistics
Matches: 320, Mismatches: 21, Indels: 28
0.87 0.06 0.08
Matches are distributed among these distances:
249 7 0.02
250 60 0.19
251 50 0.16
252 11 0.03
253 4 0.01
254 3 0.01
255 1 0.00
256 84 0.26
257 94 0.29
258 6 0.02
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.40
Consensus pattern (249 bp):
TATTGAATAAAAATATTTTATTATTATTTCGGGTCGGTCGGGTTTCTAATTCATATATTCGGGTC
GGGTCGGTGAAACTTTATTTTGGTCGGGTCAGGTCGGTTTTTTTAAATGTGATATTCGGGTCGGA
TGTTCGGATTTAGGGTGAAAACTACCCGACCCGAAAAAATATATAATTTTACCTTATATATTTAG
GAATAATTACAATAATACCCCTCACATAATTTTTTTAAATTAAGTCACTATTTT
Found at i:114434 original size:18 final size:17
Alignment explanation
Indices: 114390--114436 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
114380 TATGGAATTG
*
114390 GATTCCAATTCCTGACA
1 GATTCCAATTCCTCACA
*
114407 GATTCTAATTCCTTCACA
1 GATTCCAATTCC-TCACA
*
114425 TATTCCAATTCC
1 GATTCCAATTCC
114437 CTCAAAACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.28, C:0.30, G:0.06, T:0.36
Consensus pattern (17 bp):
GATTCCAATTCCTCACA
Found at i:121910 original size:16 final size:16
Alignment explanation
Indices: 121889--121927 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
121879 CAAATCCGGG
121889 TACCCGGATTTTTGGA
1 TACCCGGATTTTTGGA
*
121905 TACCC-GATTTTTGGG
1 TACCCGGATTTTTGGA
121920 TACCCGGA
1 TACCCGGA
121928 ACTTCCGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (16 bp):
TACCCGGATTTTTGGA
Found at i:122029 original size:15 final size:15
Alignment explanation
Indices: 121977--122031 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
121967 AGATGTTACA
121977 GGTACCCGGTAATCG
1 GGTACCCGGTAATCG
* ** *
121992 GGTATCCGGATTTTGCT
1 GGTACCCGG-TAAT-CG
122009 GGTACCCGGTAATCG
1 GGTACCCGGTAATCG
122024 GGTACCCG
1 GGTACCCG
122032 ATACCCGGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
15 17 0.57
16 4 0.13
17 9 0.30
ACGTcount: A:0.16, C:0.25, G:0.33, T:0.25
Consensus pattern (15 bp):
GGTACCCGGTAATCG
Found at i:122036 original size:22 final size:22
Alignment explanation
Indices: 122011--122062 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
122001 ATTTTGCTGG
122011 TACCCGGTAATCGGGTACCCGA
1 TACCCGGTAATCGGGTACCCGA
122033 TACCCGGTAATCGGGTACCCGA
1 TACCCGGTAATCGGGTACCCGA
122055 TACCCGGT
1 TACCCGGT
122063 TTTAAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.21, C:0.33, G:0.27, T:0.19
Consensus pattern (22 bp):
TACCCGGTAATCGGGTACCCGA
Found at i:123692 original size:21 final size:21
Alignment explanation
Indices: 123644--123699 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
123634 AAACAACTCC
123644 TCTAAAGGAACGAACTAAAAT
1 TCTAAAGGAACGAACTAAAAT
123665 TCTAAAGGAACGAACT-AAAT
1 TCTAAAGGAACGAACTAAAAT
*
123685 TCTAAAAGAGACGAA
1 TCTAAAGGA-ACGAA
123700 ACATATTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.18
Consensus pattern (21 bp):
TCTAAAGGAACGAACTAAAAT
Found at i:126382 original size:16 final size:17
Alignment explanation
Indices: 126349--126382 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
126339 CCTTATATTT
*
126349 TTATTTTATATTTTAAA
1 TTATTTTATATTTCAAA
126366 TTATTTT-TATTTCAAA
1 TTATTTTATATTTCAAA
126382 T
1 T
126383 AATAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTTATATTTCAAA
Found at i:131195 original size:121 final size:123
Alignment explanation
Indices: 130932--131173 Score: 301
Period size: 121 Copynumber: 2.0 Consensus size: 123
130922 TCCCAAACGT
* * * * * * *
130932 CACAAAATGGTAGCATTAACGGTGTTTTTTCTAGAAATGCTGCTATAGCATCGTCTTTTGTGGCA
1 CACAACATGGTAACATTAGCGGCG-TTTTTCTAGAAACGCCGCTATAGCATCATCTTTTGTGGCA
* * * ** *
130997 TTTTTTAAATAAACGCCGTAATAGATTAGTGCATAAGTGGCATTTTAAAATACAAACAC
65 ATTTTTAAACAAAAGCCACAATAGATCAGTGCATAAGTGGCATTTTAAAATACAAACAC
131056 CACAACATGGTAACATTAGCGGCGTTTTTCTAGAAACGCCGCTATAGCA-CATCTTTTGTGG-AA
1 CACAACATGGTAACATTAGCGGCGTTTTTCTAGAAACGCCGCTATAGCATCATCTTTTGTGGCAA
* * * *
131119 TTTTTAAACAAAAGCCACAATAGGTCAGTGCATTATTGGC-TTTTTAAATACAAAC
66 TTTTTAAACAAAAGCCACAATAGATCAGTGCATAAGTGGCATTTTAAAATACAAAC
131174 GTCGCAATAG
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
120 14 0.14
121 33 0.33
122 11 0.11
123 23 0.23
124 20 0.20
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (123 bp):
CACAACATGGTAACATTAGCGGCGTTTTTCTAGAAACGCCGCTATAGCATCATCTTTTGTGGCAA
TTTTTAAACAAAAGCCACAATAGATCAGTGCATAAGTGGCATTTTAAAATACAAACAC
Found at i:139283 original size:43 final size:43
Alignment explanation
Indices: 139227--139344 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 43
139217 GTTAAGATAC
* * *
139227 TTAGTGGCGTTTTTGAAATAAACGTCACAAAAAATTAGGTCAT
1 TTAGCGGCATTTTTGAAATAAACGCCACAAAAAATTAGGTCAT
* * *
139270 TTAGCGGCATTTTTTAAATAAACGCCGCAAAAAGTTAGGTCAT
1 TTAGCGGCATTTTTGAAATAAACGCCACAAAAAATTAGGTCAT
* **
139313 TTAACAACATTTTTGGAACA-AAACGCCACAAA
1 TTAGCGGCATTTTT-GAA-ATAAACGCCACAAA
139345 TGTTAAGTCA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 48 0.77
44 13 0.21
45 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (43 bp):
TTAGCGGCATTTTTGAAATAAACGCCACAAAAAATTAGGTCAT
Found at i:143066 original size:22 final size:25
Alignment explanation
Indices: 143034--143093 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 25
143024 GTCTTTCTAT
*
143034 TATATTTTAAAAATATTTT-A-GTA
1 TATATATTAAAAATATTTTAATGTA
*
143057 TA-ATATTAAAAATATTTTAATTTA
1 TATATATTAAAAATATTTTAATGTA
143081 TATATATTAAAAA
1 TATATATTAAAAA
143094 AATAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 15 0.47
23 3 0.09
24 4 0.12
25 10 0.31
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TATATATTAAAAATATTTTAATGTA
Found at i:144494 original size:87 final size:87
Alignment explanation
Indices: 144348--144643 Score: 457
Period size: 87 Copynumber: 3.4 Consensus size: 87
144338 AATTCAAATT
* * *
144348 TATTCGAACATCAGCGATTATAACAGGGTGATTGCACGTGTACTCCTTTGTCAGTCAATAAATAG
1 TATTCGAGCATCAGCGACTATAACAGGGTGATTGCACGTGTACTCCTTTGTTAGTCAATAAATAG
**
144413 CCGGTTTCATTTTTTAAAAAAA
66 CCGGTTTCATTTTAAAAAAAAA
* *
144435 TATTCGAGCATCAGCGACTATAGCAGGGTGATTGCACGTGTACTTCTTTGTTAGTCAATAAATAG
1 TATTCGAGCATCAGCGACTATAACAGGGTGATTGCACGTGTACTCCTTTGTTAGTCAATAAATAG
*
144500 CCAGTTTCATTTTAAAAAAAAA
66 CCGGTTTCATTTTAAAAAAAAA
* *
144522 TATTCGAGCATCAGCGACTATAGCAGGGTGATTGCACGTGTACTCCTTTGTTAGCCAATAAATAG
1 TATTCGAGCATCAGCGACTATAACAGGGTGATTGCACGTGTACTCCTTTGTTAGTCAATAAATAG
144587 CCGGTTTCATTTTCAAAAAAAAA
66 CCGGTTTCATTTT-AAAAAAAAA
* * * *
144610 TATTCAAGCATTAGCGACTACAACAAGGTGATTG
1 TATTCGAGCATCAGCGACTATAACAGGGTGATTG
144644 AGCGGTCATT
Statistics
Matches: 192, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
87 154 0.80
88 38 0.20
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (87 bp):
TATTCGAGCATCAGCGACTATAACAGGGTGATTGCACGTGTACTCCTTTGTTAGTCAATAAATAG
CCGGTTTCATTTTAAAAAAAAA
Found at i:146443 original size:14 final size:14
Alignment explanation
Indices: 146424--146479 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
146414 AAATGAACGC
*
146424 AAACGAACAAACCT
1 AAACGAACAAACAT
146438 AAACGAACAAACAT
1 AAACGAACAAACAT
** *
146452 -AA--AATGAATAT
1 AAACGAACAAACAT
146463 AAACGAACAAACAT
1 AAACGAACAAACAT
146477 AAA
1 AAA
146480 ATTAATTGGG
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
11 6 0.19
12 2 0.06
13 2 0.06
14 22 0.69
ACGTcount: A:0.64, C:0.18, G:0.07, T:0.11
Consensus pattern (14 bp):
AAACGAACAAACAT
Found at i:147686 original size:54 final size:51
Alignment explanation
Indices: 147625--147728 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 51
147615 GCTCATAAGC
147625 TTATTTTTACCAAAATACTTACCATTTAAATTCCATAAGCTCATAAGCTTATTA
1 TTATTTTTACCAAAATACTTACCA-TT--ATTCCATAAGCTCATAAGCTTATTA
** * * *
147679 TTATTTTTTTCAATATACTTGCCATTATTCCGTAAGCTCATAAGCTTATT
1 TTATTTTTACCAAAATACTTACCATTATTCCATAAGCTCATAAGCTTATT
147729 TGCATGGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 23 0.51
53 2 0.04
54 20 0.44
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (51 bp):
TTATTTTTACCAAAATACTTACCATTATTCCATAAGCTCATAAGCTTATTA
Found at i:151536 original size:32 final size:31
Alignment explanation
Indices: 151439--151522 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 31
151429 TCGAATCAAT
* *
151439 TTTTTTATTCAGATCAATATCAGACTGTTAA
1 TTTTTTAATCTGATCAATATCAGACTGTTAA
* * *
151470 TTTTTTAATATGGTCAATATTAGACTGTTAA
1 TTTTTTAATCTGATCAATATCAGACTGTTAA
151501 TTTTTTAATCTGATCAATATCA
1 TTTTTTAATCTGATCAATATCA
151523 AATCGGTTGA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.48
Consensus pattern (31 bp):
TTTTTTAATCTGATCAATATCAGACTGTTAA
Found at i:151550 original size:32 final size:32
Alignment explanation
Indices: 151514--151581 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
151504 TTTAATCTGA
*
151514 TCAATATCAAATCGGTTGATTTTCGAATCGAG
1 TCAATATCAAATAGGTTGATTTTCGAATCGAG
* * * *
151546 TCAATATCATATATGTTGATTTTTGAATCGGG
1 TCAATATCAAATAGGTTGATTTTCGAATCGAG
151578 TCAA
1 TCAA
151582 CCTTTGGATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (32 bp):
TCAATATCAAATAGGTTGATTTTCGAATCGAG
Found at i:154035 original size:58 final size:56
Alignment explanation
Indices: 153910--154055 Score: 150
Period size: 58 Copynumber: 2.5 Consensus size: 56
153900 ATAAACCAGA
* * * *
153910 AAAATAAATTCAACGATTTATTTTCTTTTAAAAAAATAGAATCATATAATATACTTAGG
1 AAAATAAATTCAACGATTTA-TTT-TTTT-ATAAAATAGAATCATATAAGATACATAAG
* ** *
153969 AAAATAAATCCAACGATTTACTTTATTTTATATGATAGAATCAT-TAAAGATTCATAAG
1 AAAATAAATTCAACGATTTA-TTT-TTTTATAAAATAGAATCATAT-AAGATACATAAG
*
154027 AAAATAAATTCAACAATTTATTTTTTTAT
1 AAAATAAATTCAACGATTTATTTTTTTAT
154056 TCACGATTCC
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
56 6 0.08
57 4 0.05
58 38 0.51
59 26 0.35
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (56 bp):
AAAATAAATTCAACGATTTATTTTTTTATAAAATAGAATCATATAAGATACATAAG
Found at i:154170 original size:159 final size:160
Alignment explanation
Indices: 153910--154206 Score: 359
Period size: 159 Copynumber: 1.9 Consensus size: 160
153900 ATAAACCAGA
* * * *
153910 AAAATAAATTCAACGATTTATTTTCTTTTAAAAAAATAGAATCATATAATATACTTAGGAAAATA
1 AAAATAAATTCAACAATTTATTTTCTTTTAAAAAAATAGAATCATATAAGATACTCAAGAAAATA
* * * * *
153975 AATCCAACGATTTACTTTATTTTATATGATAGAATCAT-TAAAGATTCAT-AAGAAAATAAATTC
66 AATCCAACAACTTACTTTATTTTAAAAGATAAAATCATCT-AAGATTC-TCAAGAAAATAAATTC
154038 AACAATTTATTTTTTTATTCACGATTCCTGAG
129 AACAATTTATTTTTTTATTCACGATTCCTGAG
* * * * *
154070 AAAATAAATTTAACAATTTATTTTC-TTTAACAAAATAGAATCATTTAAGATTCTCAATAAAATA
1 AAAATAAATTCAACAATTTATTTTCTTTTAAAAAAATAGAATCATATAAGATACTCAAGAAAATA
** * * **
154134 AATTTAACAACTTA-TTTCTTTATAAAAGATAAAATCATCTACGATTCTCAAGAAAATAAATTGG
66 AATCCAACAACTTACTTTATTT-TAAAAGATAAAATCATCTAAGATTCTCAAGAAAATAAATTCA
154198 ACAATTTAT
130 ACAATTTAT
154207 CTTCCTTACA
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
158 7 0.06
159 83 0.73
160 24 0.21
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.37
Consensus pattern (160 bp):
AAAATAAATTCAACAATTTATTTTCTTTTAAAAAAATAGAATCATATAAGATACTCAAGAAAATA
AATCCAACAACTTACTTTATTTTAAAAGATAAAATCATCTAAGATTCTCAAGAAAATAAATTCAA
CAATTTATTTTTTTATTCACGATTCCTGAG
Found at i:154460 original size:117 final size:115
Alignment explanation
Indices: 154071--154498 Score: 468
Period size: 115 Copynumber: 3.7 Consensus size: 115
154061 ATTCCTGAGA
* * * * *
154071 AAATAAATTTAACAATTTATTTTCTTTAACAAA-ATAGAATCATTTAAGATTCTCAATAAAATAA
1 AAATAAATTCAACAATTTATTTTCCTT-ACAAAGTTAGAATCATTCAAGATTCTCAAGAAAATAA
* * * * * *
154135 ATTTAACAACTTATTTCTTTATAA-AAGATAAAATCATCTACGATTCTCAAGA
65 ATTCAACAATTTATTT-TTT-TAACAAGTTAAAATCATTTAAGATTCTCAAGG
** * *
154187 AAATAAATTGGACAATTTATCTTCCTTACAAAGTTAGAATCATTCAAGATTCTCTAGAAAATAAA
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAAGAAAATAAA
* * *** * *
154252 TTCATCCATTTATTCCGTT-ACAAAGTTAGAATCATTTAAGATTCTCAAAG
66 TTCAACAATTTATTTTTTTAAC-AAGTTAAAATCATTTAAGATTCTCAAGG
* *
154302 AAATAAATTCAACTATTTATTTTCCTTACAAATTTAGAATCATTCAAGATTCTCAACG-AAATAA
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAA-GAAAATAA
* *
154366 ATTCAACAATTTATTTTTTCTAACAATGTTATAATCATTTAAGATTCTCGAGG
65 ATTCAACAATTTATTTTTT-TAACAA-GTTAAAATCATTTAAGATTCTCAAGG
* * * * * * *
154419 AAATAAATTCAACGATTTATTTTTCTTGCAAAGTTAAAATCATTTAAAATTCTTAAGAAAATAAA
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAAGAAAATAAA
154484 TTCAACAATTTATTT
66 TTCAACAATTTATTT
154499 CCCTTACAAA
Statistics
Matches: 261, Mismatches: 43, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
113 1 0.00
114 1 0.00
115 98 0.38
116 66 0.25
117 95 0.36
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.38
Consensus pattern (115 bp):
AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAAGAAAATAAA
TTCAACAATTTATTTTTTTAACAAGTTAAAATCATTTAAGATTCTCAAGG
Found at i:154516 original size:58 final size:58
Alignment explanation
Indices: 154068--154512 Score: 479
Period size: 58 Copynumber: 7.7 Consensus size: 58
154058 ACGATTCCTG
* * *
154068 AGAAAATAAATTTAACAATTTATTTTCTTTAACAAA-ATAGAATCATTTAAGATTCTCA
1 AGAAAATAAATTCAACAATTTATTTTCCTT-ACAAAGTTAGAATCATTTAAGATTCTCA
* * * * * * * * *
154126 ATAAAATAAATTTAACAACTTA-TTTCTTTATAAAAGATAAAATCATCTACGATTCTCA
1 AGAAAATAAATTCAACAATTTATTTTCCTTA-CAAAGTTAGAATCATTTAAGATTCTCA
** * * *
154184 AGAAAATAAATTGGACAATTTATCTTCCTTACAAAGTTAGAATCATTCAAGATTCTCT
1 AGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCA
* *
154242 AGAAAATAAATTCATCCATTTA--TTCCGTTACAAAGTTAGAATCATTTAAGATTCTCA
1 AGAAAATAAATTCAACAATTTATTTTCC-TTACAAAGTTAGAATCATTTAAGATTCTCA
* * *
154299 A-AGAAATAAATTCAACTATTTATTTTCCTTACAAATTTAGAATCATTCAAGATTCTCA
1 AGA-AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCA
* * * * *
154357 ACG-AAATAAATTCAACAATTTATTTTTTCTAACAATGTTATAATCATTTAAGATTCTCG
1 A-GAAAATAAATTCAACAATTTA-TTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCA
* * * * * * *
154416 AGGAAATAAATTCAACGATTTATTTTTCTTGCAAAGTTAAAATCATTTAAAATTCTTA
1 AGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCA
*
154474 AGAAAATAAATTCAACAATTTATTTCCCTTACAAAGTTA
1 AGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTA
154513 AAATTAAAGC
Statistics
Matches: 326, Mismatches: 50, Indels: 22
0.82 0.13 0.06
Matches are distributed among these distances:
56 6 0.02
57 56 0.17
58 206 0.63
59 58 0.18
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (58 bp):
AGAAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCA
Found at i:154530 original size:117 final size:116
Alignment explanation
Indices: 154071--154516 Score: 479
Period size: 117 Copynumber: 3.8 Consensus size: 116
154061 ATTCCTGAGA
* * * * * *
154071 AAATAAATTTAACAATTTATTTTCTTTAACAAA-ATAGAATCATTTAAGATTCTCAATAAAATAA
1 AAATAAATTCAACAATTTATTTTCCTT-ACAAAGTTAGAATCATTCAAGATTCTTAAGAAAATAA
* * * * * * * *
154135 ATTTAACAACTTATTT-CTTTATAAAAGATAAAATCATCTACGATTCTCAAGA
65 ATTCAACAATTTATTTCCCTTA-CAAAGTTAAAATCATTTAAGATTCTCAAGG
** *
154187 AAATAAATTGGACAATTTATCTTCCTTACAAAGTTAGAATCATTCAAGATTCTCT-AGAAAATAA
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCT-TAAGAAAATAA
* * * * *
154251 ATTCATCCATTTA-TTCCGTTACAAAGTTAGAATCATTTAAGATTCTCAAAG
65 ATTCAACAATTTATTTCCCTTACAAAGTTAAAATCATTTAAGATTCTCAAGG
* * *
154302 AAATAAATTCAACTATTTATTTTCCTTACAAATTTAGAATCATTCAAGATTCTCAACG-AAATAA
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTTAA-GAAAATAA
** * * * *
154366 ATTCAACAATTTATTTTTTCTAACAATGTTATAATCATTTAAGATTCTCGAGG
65 ATTCAACAATTTA-TTTCCCTTACAAAGTTAAAATCATTTAAGATTCTCAAGG
* * * * * *
154419 AAATAAATTCAACGATTTATTTTTCTTGCAAAGTTAAAATCATTTAAAATTCTTAAGAAAATAAA
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTTAAGAAAATAAA
154484 TTCAACAATTTATTTCCCTTACAAAGTTAAAAT
66 TTCAACAATTTATTTCCCTTACAAAGTTAAAAT
154517 TAAAGCAAGA
Statistics
Matches: 273, Mismatches: 49, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
115 96 0.35
116 80 0.29
117 97 0.36
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.37
Consensus pattern (116 bp):
AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTTAAGAAAATAAA
TTCAACAATTTATTTCCCTTACAAAGTTAAAATCATTTAAGATTCTCAAGG
Found at i:154734 original size:45 final size:45
Alignment explanation
Indices: 154685--154792 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
154675 TTAAATTTAG
* *
154685 CAACCCAATAATCAAAAGGAACTAATCCTTTGATTTTAATTTCCA
1 CAACCCAATAATCAAAAGGAACTAATCATATGATTTTAATTTCCA
** * **
154730 CAACCCAATAATCGTAAGGAACTAATCATATGATTTTACTTTTGA
1 CAACCCAATAATCAAAAGGAACTAATCATATGATTTTAATTTCCA
*
154775 CAGCCCAATAATCAAAAG
1 CAACCCAATAATCAAAAG
154793 TCTTAGGCTA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (45 bp):
CAACCCAATAATCAAAAGGAACTAATCATATGATTTTAATTTCCA
Found at i:155019 original size:12 final size:12
Alignment explanation
Indices: 154988--155026 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
154978 ATTATATGGT
154988 AATAATATCATAG
1 AATAATATCAT-G
155001 CAATAATATCATG
1 -AATAATATCATG
*
155014 AATAATATTATG
1 AATAATATCATG
155026 A
1 A
155027 TTAACGCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 1 0.04
14 11 0.46
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (12 bp):
AATAATATCATG
Found at i:156433 original size:37 final size:37
Alignment explanation
Indices: 156384--156457 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
156374 ATGTTAAACT
156384 TTTTTTTAGGTGTCTACCATTGAAAAAATAAATAAGC
1 TTTTTTTAGGTGTCTACCATTGAAAAAATAAATAAGC
156421 TTTTTTTAGGTGTCTACCATTGAAAAAATAAATAAGC
1 TTTTTTTAGGTGTCTACCATTGAAAAAATAAATAAGC
156458 GACACATGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (37 bp):
TTTTTTTAGGTGTCTACCATTGAAAAAATAAATAAGC
Found at i:156480 original size:2 final size:2
Alignment explanation
Indices: 156473--156499 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
156463 ATGTCACGTT
156473 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 T
156500 TTTAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:163733 original size:39 final size:41
Alignment explanation
Indices: 163601--163742 Score: 111
Period size: 39 Copynumber: 3.6 Consensus size: 41
163591 CTCTTATTTG
163601 CTCTAACTTTAAATGTTTATGTTACTGCTAATTTAGTTT-TA
1 CTCTAACTTTAAATGTTTATGTTACTGCTAA-TTAGTTTATA
* * * * *
163642 CTAT-TC-TT-GATG-TT-TGTTACTGCTATTTCGTTTTACTA
1 CTCTAACTTTAAATGTTTATGTTACTGCTAATTAG-TTTA-TA
* * *
163680 TTCTTTACTTTAAATGTTTATGTTACTGCTAATT-GTTTATG
1 CTC-TAACTTTAAATGTTTATGTTACTGCTAATTAGTTTATA
*
163721 CTCTAAC-TTAAATGTCTATGTT
1 CTCTAACTTTAAATGTTTATGTT
163743 TATAATTGTC
Statistics
Matches: 78, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
35 3 0.04
36 14 0.18
37 2 0.03
38 6 0.08
39 17 0.22
40 5 0.06
41 8 0.10
42 7 0.09
43 3 0.04
44 13 0.17
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.53
Consensus pattern (41 bp):
CTCTAACTTTAAATGTTTATGTTACTGCTAATTAGTTTATA
Found at i:164190 original size:23 final size:24
Alignment explanation
Indices: 164141--164193 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
164131 CCAAACGAAC
* * *
164141 ATGTTCGCGAACGTTTAAACGAGT
1 ATGTTCGCAAACGTTTAAACAAAT
164165 ATGTTCGCAAACG-TTAAACAAAT
1 ATGTTCGCAAACGTTTAAACAAAT
164188 ATGTTC
1 ATGTTC
164194 ATGAATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
ATGTTCGCAAACGTTTAAACAAAT
Found at i:166558 original size:19 final size:19
Alignment explanation
Indices: 166534--166572 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
166524 GCGTCCATAG
166534 GGCTTATCTTAAGCACTCA
1 GGCTTATCTTAAGCACTCA
166553 GGCTTATCTTAAGCACTCA
1 GGCTTATCTTAAGCACTCA
166572 G
1 G
166573 CAAAAAGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (19 bp):
GGCTTATCTTAAGCACTCA
Found at i:167648 original size:29 final size:29
Alignment explanation
Indices: 167615--167796 Score: 176
Period size: 29 Copynumber: 6.4 Consensus size: 29
167605 AACTATTACG
* **
167615 AAAATAACACCTTTTTTAAAATAATTTCT
1 AAAATATCACCTTTTTCGAAATAATTTCT
* ** * *
167644 AAAATAACATTTTTTTCGAAATAATTCCC
1 AAAATATCACCTTTTTCGAAATAATTTCT
167673 AAAATATCA-C-TTTTCGAAATAA-TTCT
1 AAAATATCACCTTTTTCGAAATAATTTCT
* *
167699 CAAAATATCACCTTTTTCGAAATAATTCCC
1 -AAAATATCACCTTTTTCGAAATAATTTCT
*
167729 AAAATATCACC-TTTTCAAAATAA-TTCT
1 AAAATATCACCTTTTTCGAAATAATTTCT
* * * *
167756 CAAAATATCACCGTCTTCGAAATAATTCCC
1 -AAAATATCACCTTTTTCGAAATAATTTCT
167786 AAAATATCACC
1 AAAATATCACC
167797 GGGTCGGGTC
Statistics
Matches: 127, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
26 2 0.02
27 23 0.18
28 23 0.18
29 75 0.59
30 4 0.03
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATATCACCTTTTTCGAAATAATTTCT
Found at i:167752 original size:57 final size:57
Alignment explanation
Indices: 167615--167796 Score: 260
Period size: 57 Copynumber: 3.2 Consensus size: 57
167605 AACTATTACG
* * * **
167615 AAAATAACACCTTTTTTAAAATAATT-TCTAAAATAACATTTTTTTCGAAATAATTCCC
1 AAAATATCACC-TTTTCAAAATAATTCTC-AAAATATCACCTTTTTCGAAATAATTCCC
*
167673 AAAATATCA-CTTTTCGAAATAATTCTCAAAATATCACCTTTTTCGAAATAATTCCC
1 AAAATATCACCTTTTCAAAATAATTCTCAAAATATCACCTTTTTCGAAATAATTCCC
* *
167729 AAAATATCACCTTTTCAAAATAATTCTCAAAATATCACCGTCTTCGAAATAATTCCC
1 AAAATATCACCTTTTCAAAATAATTCTCAAAATATCACCTTTTTCGAAATAATTCCC
167786 AAAATATCACC
1 AAAATATCACC
167797 GGGTCGGGTC
Statistics
Matches: 113, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
56 47 0.42
57 58 0.51
58 8 0.07
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.35
Consensus pattern (57 bp):
AAAATATCACCTTTTCAAAATAATTCTCAAAATATCACCTTTTTCGAAATAATTCCC
Found at i:167797 original size:29 final size:28
Alignment explanation
Indices: 167656--167796 Score: 221
Period size: 29 Copynumber: 5.0 Consensus size: 28
167646 AATAACATTT
167656 TTTTCGAAATAATTCCCAAAATATCA-C
1 TTTTCGAAATAATTCCCAAAATATCACC
*
167683 TTTTCGAAATAATTCTCAAAATATCACC
1 TTTTCGAAATAATTCCCAAAATATCACC
167711 TTTTTCGAAATAATTCCCAAAATATCACC
1 -TTTTCGAAATAATTCCCAAAATATCACC
* *
167740 TTTTCAAAATAATTCTCAAAATATCACC
1 TTTTCGAAATAATTCCCAAAATATCACC
*
167768 GTCTTCGAAATAATTCCCAAAATATCACC
1 -TTTTCGAAATAATTCCCAAAATATCACC
167797 GGGTCGGGTC
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
27 25 0.24
28 27 0.26
29 52 0.50
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (28 bp):
TTTTCGAAATAATTCCCAAAATATCACC
Found at i:175086 original size:29 final size:29
Alignment explanation
Indices: 175034--175154 Score: 129
Period size: 29 Copynumber: 4.2 Consensus size: 29
175024 AATTATTACG
* * *
175034 AAAATAACACTTTTTTTTAAAATAATTCCT
1 AAAATAACA-TCTTTTTCAAAATAATTCCC
* *
175064 AAAATAACATTTTTTTCAAAATAATTCAC
1 AAAATAACATCTTTTTCAAAATAATTCCC
* *
175093 AAAATATCA-CTTTTT-GAAATAATTCCC
1 AAAATAACATCTTTTTCAAAATAATTCCC
* * *
175120 AAAATATCACCTTTTTCGAAATAATTCCC
1 AAAATAACATCTTTTTCAAAATAATTCCC
175149 AAAATA
1 AAAATA
175155 TCACCGTCTT
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
27 19 0.23
28 11 0.13
29 43 0.52
30 9 0.11
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAATAACATCTTTTTCAAAATAATTCCC
Found at i:175124 original size:56 final size:58
Alignment explanation
Indices: 175047--175188 Score: 189
Period size: 56 Copynumber: 2.5 Consensus size: 58
175037 ATAACACTTT
* **
175047 TTTTTAAAATAATTCCTAAAATAACATTTTTTTCAAAATAATTCACAAAATATCA-C-
1 TTTTTGAAATAATTCCTAAAATAACACCTTTTTCAAAATAATTCACAAAATATCACCG
* * * *
175103 TTTTTGAAATAATTCCCAAAATATCACCTTTTTCGAAATAATTCCCAAAATATCACCG
1 TTTTTGAAATAATTCCTAAAATAACACCTTTTTCAAAATAATTCACAAAATATCACCG
* *
175161 TCTTTGAAATAATTCCTAAAATATCACC
1 TTTTTGAAATAATTCCTAAAATAACACC
175189 GGGTCGGGTC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
56 48 0.64
57 1 0.01
58 26 0.35
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.37
Consensus pattern (58 bp):
TTTTTGAAATAATTCCTAAAATAACACCTTTTTCAAAATAATTCACAAAATATCACCG
Found at i:175189 original size:29 final size:28
Alignment explanation
Indices: 175047--175188 Score: 169
Period size: 29 Copynumber: 5.0 Consensus size: 28
175037 ATAACACTTT
* * * **
175047 TTTTTAAAATAATTCCTAAAATAACATT
1 TTTTTGAAATAATTCCCAAAATATCACC
* *
175075 TTTTTCAAAATAATTCACAAAATATCA-C
1 TTTTT-GAAATAATTCCCAAAATATCACC
175103 TTTTTGAAATAATTCCCAAAATATCACC
1 TTTTTGAAATAATTCCCAAAATATCACC
175131 TTTTTCGAAATAATTCCCAAAATATCACC
1 TTTTT-GAAATAATTCCCAAAATATCACC
* *
175160 GTCTTTGAAATAATTCCTAAAATATCACC
1 -TTTTTGAAATAATTCCCAAAATATCACC
175189 GGGTCGGGTC
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
27 19 0.19
28 16 0.16
29 63 0.62
30 4 0.04
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.37
Consensus pattern (28 bp):
TTTTTGAAATAATTCCCAAAATATCACC
Found at i:180547 original size:84 final size:84
Alignment explanation
Indices: 180440--180604 Score: 312
Period size: 84 Copynumber: 2.0 Consensus size: 84
180430 TTTCTTGTCC
* *
180440 ACTAAATTTGAGATGACAGACCTAAGAGAGGTTGATGTAATCTTAAGAGTTAATGTTACCAAAAT
1 ACTAAATTTGAGATGACAAACCTAAGAGAGGTTGATGTAATCTTAAGAGTTAACGTTACCAAAAT
180505 TGAAAAAGATTTTTTTAAA
66 TGAAAAAGATTTTTTTAAA
180524 ACTAAATTTGAGATGACAAACCTAAGAGAGGTTGATGTAATCTTAAGAGTTAACGTTACCAAAAT
1 ACTAAATTTGAGATGACAAACCTAAGAGAGGTTGATGTAATCTTAAGAGTTAACGTTACCAAAAT
180589 TGAAAAAGATTTTTTT
66 TGAAAAAGATTTTTTT
180605 TGAATCAAAC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (84 bp):
ACTAAATTTGAGATGACAAACCTAAGAGAGGTTGATGTAATCTTAAGAGTTAACGTTACCAAAAT
TGAAAAAGATTTTTTTAAA
Found at i:186663 original size:74 final size:74
Alignment explanation
Indices: 186532--186724 Score: 271
Period size: 74 Copynumber: 2.6 Consensus size: 74
186522 TACCCAAATA
* * * * * *
186532 ATACGATATATTCGAATGAATTTTTAAAAAAGCTAAGTCTGATTTTTAGAGGTTTCTTGATGATT
1 ATACGATGTTTTCAAATGAATTTTTAAAGAAGCTAAGTCTGATTTTCAGAGGCTTCTTGATGATT
186597 ACTT-AGTTG
66 ACTTGA-TTG
*
186606 ATACGATGTTTTCAAATGAATTTTTAAAGAAGCTAAGTCTGATTTTCAGATGCTTCTTGATGATT
1 ATACGATGTTTTCAAATGAATTTTTAAAGAAGCTAAGTCTGATTTTCAGAGGCTTCTTGATGATT
186671 ACTTGATTG
66 ACTTGATTG
* * * *
186680 ATATGATGTTTTCAAATGAATTTTTGAAGAAGCCAAGTTTGATTT
1 ATACGATGTTTTCAAATGAATTTTTAAAGAAGCTAAGTCTGATTT
186725 CAAAGGTTTC
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 106 0.99
75 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (74 bp):
ATACGATGTTTTCAAATGAATTTTTAAAGAAGCTAAGTCTGATTTTCAGAGGCTTCTTGATGATT
ACTTGATTG
Found at i:187006 original size:44 final size:44
Alignment explanation
Indices: 186943--187029 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
186933 TTTCTTAAAA
*
186943 CAACATTTCGCTAGATTCCATCACATAAGGAGTTGGATCAACAT
1 CAACATTTCGCTAGATTCCATCACATAAAGAGTTGGATCAACAT
*
186987 CAACATTTCGCTCGATTCCATCACATAAAGAGTTGGATCAACA
1 CAACATTTCGCTAGATTCCATCACATAAAGAGTTGGATCAACA
187030 CTATCTCACT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (44 bp):
CAACATTTCGCTAGATTCCATCACATAAAGAGTTGGATCAACAT
Found at i:187119 original size:78 final size:79
Alignment explanation
Indices: 186985--187185 Score: 271
Period size: 78 Copynumber: 2.6 Consensus size: 79
186975 TTGGATCAAC
* * * * *
186985 ATCAACATTTCGCTCGATTCCATCACATAAAGAGTTGGATCAACACTATCTCACTGGAGATTGTT
1 ATCATCATTTCGCTTGATTCCATCGCATAAGGAGTTGGATCAACACTATCTCACTGGAGATTATT
* *
187050 TCCCTTGAAGC-AT
66 TCCCTTGAAACAAA
* * * * *
187063 ATCATCATTTCGCTTGATTCCATTGCATAGGGAGTTGGATTAGCATTATCTCACTGGAGATTATT
1 ATCATCATTTCGCTTGATTCCATCGCATAAGGAGTTGGATCAACACTATCTCACTGGAGATTATT
187128 TCCCTTGAAACAAA
66 TCCCTTGAAACAAA
*
187142 AT-TTCATTTCGCTTGATTCCATCGCATAAGGAGTTGGATCAACA
1 ATCATCATTTCGCTTGATTCCATCGCATAAGGAGTTGGATCAACA
187186 TTGATTTTCT
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
78 102 0.97
79 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (79 bp):
ATCATCATTTCGCTTGATTCCATCGCATAAGGAGTTGGATCAACACTATCTCACTGGAGATTATT
TCCCTTGAAACAAA
Found at i:191899 original size:21 final size:21
Alignment explanation
Indices: 191875--191925 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
191865 GAATTGATTA
*
191875 ATCCTTTTCATCG-AGGGATCG
1 ATCCTTTTCAT-GAAGGGACCG
**
191896 ATCCTTTTGGTGAAGGGACCG
1 ATCCTTTTCATGAAGGGACCG
191917 ATCCTTTTC
1 ATCCTTTTC
191926 CTCTAGGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (21 bp):
ATCCTTTTCATGAAGGGACCG
Found at i:191921 original size:42 final size:43
Alignment explanation
Indices: 191875--191966 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 43
191865 GAATTGATTA
*
191875 ATCCTTTTCATCGAGGGATCGATCC-TTTTGGTGAAGGGACCG
1 ATCCTTTTCATCGAGGGATCGATCCATTTTGGTAAAGGGACCG
* * * * * **
191917 ATCCTTTTCCTCTAGGTATTGATCCATTTTTGTAAAGGGATTG
1 ATCCTTTTCATCGAGGGATCGATCCATTTTGGTAAAGGGACCG
191960 ATCCTTT
1 ATCCTTT
191967 GGTCAAAGGG
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 21 0.51
43 20 0.49
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (43 bp):
ATCCTTTTCATCGAGGGATCGATCCATTTTGGTAAAGGGACCG
Found at i:194308 original size:29 final size:29
Alignment explanation
Indices: 194265--194332 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
194255 TTTTGAAAAA
*
194265 GGGATCAATCCTTTTTCAGAAATATGCAG
1 GGGATCAATCATTTTTCAGAAATATGCAG
194294 GGGATCAATCATTTTTCAGAAATATGCAG
1 GGGATCAATCATTTTTCAGAAATATGCAG
194323 GGGATCAATC
1 GGGATCAATC
194333 CTCTTGTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (29 bp):
GGGATCAATCATTTTTCAGAAATATGCAG
Found at i:195881 original size:23 final size:24
Alignment explanation
Indices: 195837--195884 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
195827 GATGCCAACA
*
195837 TCTTTTATCTTCTTCTCTTTCTTT
1 TCTTTTATCTTCTCCTCTTTCTTT
195861 TCTTTT-TCTTGCTCCTC-TTCTTT
1 TCTTTTATCTT-CTCCTCTTTCTTT
195884 T
1 T
195885 ACCATCAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (24 bp):
TCTTTTATCTTCTCCTCTTTCTTT
Found at i:197359 original size:20 final size:20
Alignment explanation
Indices: 197332--197388 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
197322 ACTGGAATCC
197332 AAGGGATCGATCCTTTATCA
1 AAGGGATCGATCCTTTATCA
* **
197352 AGGGGATCGATCCGTTGCTCA
1 AAGGGATCGATCC-TTTATCA
*
197373 AAGGGATTGATCCTTT
1 AAGGGATCGATCCTTT
197389 TGCTAGAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (20 bp):
AAGGGATCGATCCTTTATCA
Found at i:199590 original size:18 final size:19
Alignment explanation
Indices: 199554--199591 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
199544 GTGGTATATG
*
199554 AAAAAATAGATGTTATTAT
1 AAAAAATAGAAGTTATTAT
*
199573 AAAAAATA-AAGTTTTTAT
1 AAAAAATAGAAGTTATTAT
199591 A
1 A
199592 TTATTCTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (19 bp):
AAAAAATAGAAGTTATTAT
Found at i:200074 original size:21 final size:21
Alignment explanation
Indices: 200048--200087 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
200038 TATATTATTA
*
200048 TTATT-ATCATTTTATTTTTCT
1 TTATTAATC-TTTTAGTTTTCT
200069 TTATTAATCTTTTAGTTTT
1 TTATTAATCTTTTAGTTTT
200088 ATAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (21 bp):
TTATTAATCTTTTAGTTTTCT
Found at i:200192 original size:17 final size:16
Alignment explanation
Indices: 200148--200201 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
200138 GAAAAAAATC
*
200148 ATATTTTTATATTTTAA
1 ATATTTTTATA-ATTAA
*
200165 ATTTTTATTATAATTAA
1 ATATTT-TTATAATTAA
200182 TATATTTTTATAATATAA
1 -ATATTTTTATAAT-TAA
200200 AT
1 AT
200202 GAAATAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 18 0.58
18 13 0.42
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTTTTATAATTAA
Found at i:203738 original size:29 final size:29
Alignment explanation
Indices: 203704--203762 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
203694 CCTAAATTAA
203704 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
203733 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
203762 T
1 T
203763 AGGTGAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:208436 original size:29 final size:28
Alignment explanation
Indices: 208400--208458 Score: 109
Period size: 29 Copynumber: 2.1 Consensus size: 28
208390 CCTAAATTAA
208400 TTTTATGTCATTGCTTACATCAATTTAG
1 TTTTATGTCATTGCTTACATCAATTTAG
208428 TTTTGATGTCATTGCTTACATCAATTTAG
1 TTTT-ATGTCATTGCTTACATCAATTTAG
208457 TT
1 TT
208459 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.51
Consensus pattern (28 bp):
TTTTATGTCATTGCTTACATCAATTTAG
Found at i:213335 original size:21 final size:20
Alignment explanation
Indices: 213292--213335 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
213282 TCTATTTTGC
* *
213292 AAAGAATCGATCCCTTTTCA
1 AAAGAATCGATCCCTGTTAA
213312 AAAGAATCGATCCCCTGTTAA
1 AAAGAATCGAT-CCCTGTTAA
213333 AAA
1 AAA
213336 AGACCAATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (20 bp):
AAAGAATCGATCCCTGTTAA
Found at i:216775 original size:20 final size:20
Alignment explanation
Indices: 216724--216859 Score: 91
Period size: 20 Copynumber: 6.8 Consensus size: 20
216714 TCTAGGTTCC
*
216724 AAATTCGCAACACG-AAATT
1 AAATTCGCAACGCGAAAATT
216743 CAAATTCGCAACGCGAAAATT
1 -AAATTCGCAACGCGAAAATT
**
216764 AAATTCGCAACGCG-ATTTT
1 AAATTCGCAACGCGAAAATT
* * * *
216783 AAGATTCGCAACTCGATAGTCC
1 AA-ATTCGCAACGCGAAAAT-T
* * * *
216805 AAAATCGCAACGCGATAGTCG
1 AAATTCGCAACGCGAAAAT-T
*
216826 AAATTCGCAACGCG--ATTT
1 AAATTCGCAACGCGAAAATT
216844 AAGATTCGCAACGCGA
1 AA-ATTCGCAACGCGA
216860 TACTCCAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
18 2 0.02
19 19 0.20
20 38 0.40
21 35 0.36
22 2 0.02
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
AAATTCGCAACGCGAAAATT
Found at i:216790 original size:40 final size:38
Alignment explanation
Indices: 216724--216860 Score: 114
Period size: 40 Copynumber: 3.4 Consensus size: 38
216714 TCTAGGTTCC
* *
216724 AAATTCGCAACACGAAATTCAAATTCGCAACGCGAAAATT
1 AAATTCGCAACGCG-ATTTCAAATTCGCAACGCG-AAATT
* * * *
216764 AAATTCGCAACGCGATTTTAAGATTCGCAACTCGATAGTCC
1 AAATTCGCAACGCGATTTCAA-ATTCGCAACGCGA-AAT-T
* * *
216805 AAAATCGCAACGCGATAGTCGAAATTCGCAACGCG-ATTT
1 AAATTCGCAACGCGAT-TTC-AAATTCGCAACGCGAAATT
216844 AAGATTCGCAACGCGAT
1 AA-ATTCGCAACGCGAT
216861 ACTCCAAAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
39 8 0.10
40 41 0.53
41 15 0.19
42 12 0.15
43 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (38 bp):
AAATTCGCAACGCGATTTCAAATTCGCAACGCGAAATT
Found at i:216814 original size:21 final size:21
Alignment explanation
Indices: 216788--216875 Score: 92
Period size: 21 Copynumber: 4.3 Consensus size: 21
216778 ATTTTAAGAT
*
216788 TCGCAACTCGATAGTCCAAAA
1 TCGCAACGCGATAGTCCAAAA
* *
216809 TCGCAACGCGATAGTCGAAAT
1 TCGCAACGCGATAGTCCAAAA
* *
216830 TCGCAACGCGAT--T-TAAGAT
1 TCGCAACGCGATAGTCCAA-AA
*
216849 TCGCAACGCGATACTCCAAAA
1 TCGCAACGCGATAGTCCAAAA
216870 TCGCAA
1 TCGCAA
216876 TGCATTTATT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
18 2 0.04
19 15 0.26
21 38 0.67
22 2 0.04
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGATAGTCCAAAA
Found at i:216819 original size:61 final size:61
Alignment explanation
Indices: 216726--216875 Score: 196
Period size: 61 Copynumber: 2.5 Consensus size: 61
216716 TAGGTTCCAA
* * *
216726 ATTCGCAACACGA-AATTCAAATTCGCAACGCGAAAAT-TAAATTCGCAACGCGATTTTAAG
1 ATTCGCAACACGATAATCCAAAATCGCAACGCGAAAATCGAAATTCGCAACGCGA-TTTAAG
* * * *
216786 ATTCGCAACTCGATAGTCCAAAATCGCAACGCGATAGTCGAAATTCGCAACGCGATTTAAG
1 ATTCGCAACACGATAATCCAAAATCGCAACGCGAAAATCGAAATTCGCAACGCGATTTAAG
* *
216847 ATTCGCAACGCGATACTCCAAAATCGCAA
1 ATTCGCAACACGATAATCCAAAATCGCAA
216876 TGCATTTATT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
60 12 0.15
61 52 0.66
62 15 0.19
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (61 bp):
ATTCGCAACACGATAATCCAAAATCGCAACGCGAAAATCGAAATTCGCAACGCGATTTAAG
Found at i:219787 original size:47 final size:47
Alignment explanation
Indices: 219723--219815 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
219713 TGAATTATTC
*
219723 AAATTTGATTTAATTAAAGT-ATGATAAATTCTT-GAATTGAATTCAAA
1 AAATATGATTTAATTAAAGTAATG-TAAATTCTTAG-ATTGAATTCAAA
* *
219770 AAATATGATTTAGTTAAAGTAATGTCAATTCTTAGATTGAATTCAA
1 AAATATGATTTAATTAAAGTAATGTAAATTCTTAGATTGAATTCAA
219816 TTTGAATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 37 0.90
48 4 0.10
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (47 bp):
AAATATGATTTAATTAAAGTAATGTAAATTCTTAGATTGAATTCAAA
Found at i:219883 original size:2 final size:2
Alignment explanation
Indices: 219876--219900 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
219866 ACATATTTTA
219876 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
219901 ATTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:221643 original size:21 final size:21
Alignment explanation
Indices: 221618--221684 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
221608 GTAAAGGATG
221618 ATTTCTAGCTAAAGAAGCTTA
1 ATTTCTAGCTAAAGAAGCTTA
* * **
221639 ATTTC-AGGATTCAATCAG--TA
1 ATTTCTA-G-CTAAAGAAGCTTA
221659 ATTTCTAGCTAAAGAAGCTTA
1 ATTTCTAGCTAAAGAAGCTTA
221680 ATTTC
1 ATTTC
221685 AGGATTCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
19 5 0.15
20 9 0.27
21 14 0.42
22 5 0.15
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (21 bp):
ATTTCTAGCTAAAGAAGCTTA
Found at i:221675 original size:41 final size:41
Alignment explanation
Indices: 221618--221700 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
221608 GTAAAGGATG
221618 ATTTCTAGCTAAAGAAGCTTAATTTCAGGATTCAATCAGTA
1 ATTTCTAGCTAAAGAAGCTTAATTTCAGGATTCAATCAGTA
221659 ATTTCTAGCTAAAGAAGCTTAATTTCAGGATTCAATCAGTA
1 ATTTCTAGCTAAAGAAGCTTAATTTCAGGATTCAATCAGTA
221700 A
1 A
221701 GGTAGTGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.34
Consensus pattern (41 bp):
ATTTCTAGCTAAAGAAGCTTAATTTCAGGATTCAATCAGTA
Found at i:228552 original size:32 final size:32
Alignment explanation
Indices: 228511--228588 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
228501 GCCAGTATTG
* *
228511 CATTCAGATAATGCACACCAGAGTTAGCATCA
1 CATTTAGATAATGCACACCAGAGTTAGCACCA
** *
228543 CATTTAGATAATGCACAGTAGAGTTAGTACCA
1 CATTTAGATAATGCACACCAGAGTTAGCACCA
*
228575 CATATAGATAATGC
1 CATTTAGATAATGC
228589 GTAACAGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (32 bp):
CATTTAGATAATGCACACCAGAGTTAGCACCA
Found at i:240537 original size:21 final size:23
Alignment explanation
Indices: 240493--240540 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
240483 CGTATAATTA
*
240493 TAAATTAGTTGAAAATTTAAAGG
1 TAAATTAGTTGAAAATTGAAAGG
*
240516 TAAATTA-TTTAAAA-TGAAAGG
1 TAAATTAGTTGAAAATTGAAAGG
240537 TAAA
1 TAAA
240541 ATATAACAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
22 6 0.26
23 7 0.30
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (23 bp):
TAAATTAGTTGAAAATTGAAAGG
Found at i:245192 original size:2 final size:2
Alignment explanation
Indices: 245143--245176 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
245133 GCATGAAGAA
245143 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
245177 TGTATATGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:246011 original size:51 final size:50
Alignment explanation
Indices: 245956--246075 Score: 150
Period size: 51 Copynumber: 2.4 Consensus size: 50
245946 GTAAAGCGTG
** * *
245956 CCCCTGCACCGCGCTATACGATGATTTGGCGCCACGTGGAGTATAGCGCGC
1 CCCCTGCACCGCGCTATACGATGAGCTGGCACCACGTGG-GTATAGCGCGA
* * *
246007 CCCCTGAACCGCGCTATACGGTGAGCTGGCACCACGTGGGTATAGTGCGA
1 CCCCTGCACCGCGCTATACGATGAGCTGGCACCACGTGGGTATAGCGCGA
* *
246057 CCCCTACAGCGCGCTATAC
1 CCCCTGCACCGCGCTATAC
246076 CTGTATATAT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 25 0.42
51 34 0.58
ACGTcount: A:0.19, C:0.34, G:0.28, T:0.18
Consensus pattern (50 bp):
CCCCTGCACCGCGCTATACGATGAGCTGGCACCACGTGGGTATAGCGCGA
Found at i:246217 original size:20 final size:19
Alignment explanation
Indices: 246186--246224 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
246176 TTATCACACC
*
246186 AAATTTTCTCAAATTCTCT
1 AAATTTTCTCAAATACTCT
246205 AAATTTCTCTCAAATACTCT
1 AAATTT-TCTCAAATACTCT
246225 CTTTTTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTTTCTCAAATACTCT
Found at i:247976 original size:18 final size:18
Alignment explanation
Indices: 247953--247992 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
247943 CCAGCAGCCA
247953 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
247971 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
247989 CCGC
1 CCGC
247993 CATCGCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:248343 original size:3 final size:3
Alignment explanation
Indices: 248335--248364 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
248325 TGCGCAAGAT
*
248335 GAC GAC GAC GAC GAC GAC GAG GAC GAC GAC
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC
248365 AATGACAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.30, G:0.37, T:0.00
Consensus pattern (3 bp):
GAC
Found at i:248575 original size:26 final size:24
Alignment explanation
Indices: 248502--248575 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 24
248492 TTATATTTGT
248502 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
** *
248527 ATTTTTTTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
248551 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
248576 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
24 4 0.11
25 17 0.46
26 16 0.43
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.64
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:253280 original size:50 final size:51
Alignment explanation
Indices: 253205--253325 Score: 165
Period size: 51 Copynumber: 2.4 Consensus size: 51
253195 TACAAAACGT
* *
253205 GGTACCTGATCCGTGCTATATAAAATTATGTC-AGAGTAAAGGTAT-GTCGC
1 GGTACCTGACCCGCGCTATATAAAATTATGTCGAGAGTAAAGGTATAG-CGC
* *
253255 GGTACCTGCCCCGCGCTATATAAAATTATGTCGGGAGTAAAGGTATAGCGC
1 GGTACCTGACCCGCGCTATATAAAATTATGTCGAGAGTAAAGGTATAGCGC
**
253306 GGTACCTGATTCGCGCTATA
1 GGTACCTGACCCGCGCTATA
253326 CCCCTACGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 29 0.47
51 32 0.52
52 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (51 bp):
GGTACCTGACCCGCGCTATATAAAATTATGTCGAGAGTAAAGGTATAGCGC
Found at i:253415 original size:50 final size:51
Alignment explanation
Indices: 253337--253465 Score: 134
Period size: 51 Copynumber: 2.5 Consensus size: 51
253327 CCCTACGTGG
* * * * * **
253337 CGTATAGCGTGCTTCAGGGGCCGTGCTATA-CCCACGTGGCGCCAGTTCAC
1 CGTATAGCGCGGTCCAGGGGACGCGCTATACCCCACGTGGCGCCAAATCAC
* *
253387 CGTATAGCGCGGTCCAGGGGACGCGCTATACCCCACGTGGTGCCAAATCAT
1 CGTATAGCGCGGTCCAGGGGACGCGCTATACCCCACGTGGCGCCAAATCAC
* * *
253438 CATATAGCGCGGTGCAAGGGGGCGCGCT
1 CGTATAGCGCGGT-CCAGGGGACGCGCT
253466 TTACTGCTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 25 0.38
51 28 0.43
52 12 0.18
ACGTcount: A:0.19, C:0.30, G:0.33, T:0.19
Consensus pattern (51 bp):
CGTATAGCGCGGTCCAGGGGACGCGCTATACCCCACGTGGCGCCAAATCAC
Found at i:257293 original size:23 final size:23
Alignment explanation
Indices: 257267--257311 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
257257 CACCACAGCT
*
257267 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
257290 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
257312 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:257549 original size:149 final size:149
Alignment explanation
Indices: 257292--257593 Score: 550
Period size: 149 Copynumber: 2.0 Consensus size: 149
257282 AAGTGCCCCG
* *
257292 TAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCTTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
257357 TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAAACTTCACACATGTTCCAAAGAATATACA
66 TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAAACTTCACACATGTTCCAAAGAATATACA
257422 TATGTCCCGAAGAACCGCA
131 TATGTCCCGAAGAACCGCA
257441 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
* *
257506 TATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATACA
66 TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAAACTTCACACATGTTCCAAAGAATATACA
* *
257571 TATGTCTCGAAGAACCGCG
131 TATGTCCCGAAGAACCGCA
257590 TAGA
1 TAGA
257594 CCCTCGACTC
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 147 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAATCA
TATACATATGCTAGGGATCAAGTATGTGTCTTTCCAAACTTCACACATGTTCCAAAGAATATACA
TATGTCCCGAAGAACCGCA
Found at i:258424 original size:18 final size:18
Alignment explanation
Indices: 258401--258436 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
258391 TCCCATCTAG
258401 CTTATC-TTATATGTTCAA
1 CTTATCATT-TATGTTCAA
258419 CTTATCATTTATGTTCAA
1 CTTATCATTTATGTTCAA
258437 ATCTCCTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (18 bp):
CTTATCATTTATGTTCAA
Found at i:259045 original size:21 final size:21
Alignment explanation
Indices: 259015--259059 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
259005 ATTCTGTCGT
* *
259015 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
259036 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
259057 TTG
1 TTG
259060 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:262887 original size:75 final size:76
Alignment explanation
Indices: 262802--262963 Score: 220
Period size: 76 Copynumber: 2.1 Consensus size: 76
262792 ATCTTATTGG
* *
262802 AGATTGTTTTTCTTAAAACGGA-ATTTGTCTCACTTGAGAC-TGTTTTACTCGAAAGAAGACATT
1 AGATTGTTTTTCTTAAAA-GAAGATTTGTCTCACTTGAGACATGTTTTACTCAAAAGAAGACATT
*
262865 TCATTTGACTCA
65 TCATTTCACTCA
* * * * * *
262877 AGATTATTTTTCTTAAAATAAGATTTGTCTCTCTTGAGACATTTTTTACTCAAAATAATACATTT
1 AGATTGTTTTTCTTAAAAGAAGATTTGTCTCACTTGAGACATGTTTTACTCAAAAGAAGACATTT
262942 CATTTCACTCA
66 CATTTCACTCA
262953 AGATTGTTTTT
1 AGATTGTTTTT
262964 AAAGAATATT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
74 1 0.01
75 34 0.45
76 40 0.53
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (76 bp):
AGATTGTTTTTCTTAAAAGAAGATTTGTCTCACTTGAGACATGTTTTACTCAAAAGAAGACATTT
CATTTCACTCA
Found at i:263030 original size:39 final size:39
Alignment explanation
Indices: 262966--263200 Score: 310
Period size: 39 Copynumber: 6.0 Consensus size: 39
262956 TTGTTTTTAA
* * *
262966 AGAATATTGTATCTCGCTT-ATGATAGTTTCCCTTGAAAT
1 AGAAGATTTTATCTCGCTTGA-GATAGTTTCCCTTGAAAC
263005 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC
* *
263044 AGAAGATTTTATCTCGGTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC
* * * *
263083 AGAAGAGTTTGTCTCGTTTGAGATAATTTCCCTTGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC
* *
263122 AGAATATTTTATCTCGTTTGAGATAGTTTCCCTTGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC
* * * **
263161 AGAAGATCTTGTCTCTCTTGAGGCAGTTTCCCTTGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC
263200 A
1 A
263201 CCAATCTTTG
Statistics
Matches: 174, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 173 0.99
40 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (39 bp):
AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC
Found at i:263448 original size:21 final size:20
Alignment explanation
Indices: 263388--263517 Score: 76
Period size: 21 Copynumber: 7.0 Consensus size: 20
263378 AAAATGTTTC
263388 CCTTGAAACGAA-TTTTGTCT
1 CCTTGAAAC-AAGTTTTGTCT
*
263408 CTCTTGAAAC-CG--TT-TC-
1 C-CTTGAAACAAGTTTTGTCT
263424 CCTTGAAACAAGTTTTGTCT
1 CCTTGAAACAAGTTTTGTCT
*
263444 CCCTTGAGAC-A--TTT-TCT
1 -CCTTGAAACAAGTTTTGTCT
263461 -CTTGAAACAAGTTTTGTCT
1 CCTTGAAACAAGTTTTGTCT
*
263480 CTCTTGAGAC-AG--TT-TCT
1 C-CTTGAAACAAGTTTTGTCT
263497 -CTTGAAACAAAGTTTTGTCT
1 CCTTGAAAC-AAGTTTTGTCT
263517 C
1 C
263518 TTTAGAGACA
Statistics
Matches: 84, Mismatches: 6, Indels: 39
0.65 0.05 0.30
Matches are distributed among these distances:
15 22 0.26
16 3 0.04
17 10 0.12
18 12 0.14
19 7 0.08
20 7 0.08
21 23 0.27
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (20 bp):
CCTTGAAACAAGTTTTGTCT
Found at i:263530 original size:20 final size:20
Alignment explanation
Indices: 263470--263531 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
263460 TCTTGAAACA
263470 AGTTTTGTCTCTCTT-GAGAC
1 AGTTTTGTCTCT-TTAGAGAC
* * * *
263490 AG--TT-TCTCTTGAAACAA
1 AGTTTTGTCTCTTTAGAGAC
263507 AGTTTTGTCTCTTTAGAGAC
1 AGTTTTGTCTCTTTAGAGAC
263527 AGTTT
1 AGTTT
263532 CCCTCGAAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
16 1 0.03
17 9 0.30
18 2 0.07
19 2 0.07
20 16 0.53
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.44
Consensus pattern (20 bp):
AGTTTTGTCTCTTTAGAGAC
Found at i:263544 original size:37 final size:36
Alignment explanation
Indices: 263383--263543 Score: 218
Period size: 36 Copynumber: 4.4 Consensus size: 36
263373 CTTTGAAAAT
* *
263383 GTTTCCCTTGAAACGAA-TTTTGTCTCTCTTGAAACC
1 GTTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGAGACA
*
263419 GTTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACA
* *
263455 TTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACA
*
263491 GTTTCTCTTGAAACAAAGTTTTGTCTCT-TTAGAGACA
1 GTTTCCCTTGAAAC-AAGTTTTGTCTCTCTT-GAGACA
*
263528 GTTTCCCTCGAAACAA
1 GTTTCCCTTGAAACAA
263544 ATCTCACTTG
Statistics
Matches: 113, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
35 2 0.02
36 80 0.71
37 31 0.27
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACA
Found at i:264031 original size:44 final size:43
Alignment explanation
Indices: 263874--264042 Score: 130
Period size: 44 Copynumber: 3.9 Consensus size: 43
263864 AGAGATTGTT
* * ** *
263874 CAACTGTTT-GCTTGATTCTATCACAGAATGAGGTAAATCAGCAC
1 CAACT-TTTCGCTTGATTCCATCACAGAAGGAGGTGGATCAG-GC
* *
263918 CAACATTTCGTTTGATTCCATCACAGAAGGAGGTGGATC-GG-
1 CAACTTTTCGCTTGATTCCATCACAGAAGGAGGTGGATCAGGC
* ** * * *
263959 C-ATTTGTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGTGC
1 CAACTT-TTCGCTTGATTCCATCACAGAAGGAGGTGGATCAG-GC
* * *
264003 CAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCA
1 CAACTTTTCGCTTGATTCCATCACAGAAGGAGGTGGATCA
264043 ACATCGACGC
Statistics
Matches: 95, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
40 2 0.02
41 28 0.29
42 1 0.01
43 5 0.05
44 56 0.59
45 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
CAACTTTTCGCTTGATTCCATCACAGAAGGAGGTGGATCAGGC
Found at i:264272 original size:132 final size:131
Alignment explanation
Indices: 263873--264779 Score: 1160
Period size: 132 Copynumber: 6.9 Consensus size: 131
263863 AAGAGATTGT
* * * * * * *
263873 TCAACTGTTTGCTTGATTCTATCACAGAATGAGGTAAATCAGCACCAACATTTCGTTTGATTCCA
1 TCAACT-TTTACTCGATTCTATCACAGAATGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
* *
263938 TCACAGAAGGAGGTGGATCGGCA--TTT-GTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
65 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
*
264000 TG
130 CG
* * * * *
264002 CCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACATCGAC-GCATCGTTCGATTTC
1 TCAACTTTTA-CTCGATTCTATCACAGAATGAGGTAGATCAGCATCGACATC-TCGTTCGA-TTC
* ** * ** *
264066 CATAACAGAAATAGGTGGATCGATATTTTTATTTTCGCTCAAATCCATAACAGAATGAGTTGGAT
63 CATCACAGAAGGAGGTGGATCGACATTTTTA-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
264131 CAGCG
127 CAGCG
* * * * *
264136 TCAACTTTTTACTCGTTTCTATCACAAAATGAGGTAGATCAGCACCAACATCTCATTCGATTCCA
1 TCAAC-TTTTACTCGATTCTATCACAGAATGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
** * * *
264201 TCGTAGAAGGAGGTGGATCGATATTTTTATTTCACTCAAATCCATCACAGAAGGAGTTGGATCAG
65 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
264266 CG
130 CG
* * *
264268 TCAACTTTTAGCTTGATTCTATCATAGAA-GAAGGTAGATCAGCATCGACATCTTGTTCGATTCC
1 TCAACTTTTA-CTCGATTCTATCACAGAATG-AGGTAGATCAGCATCGACATCTCGTTCGATTCC
264332 ATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTT-GATCA
64 ATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
*
264396 GTG
129 GCG
* * * * * *
264399 TCAACTTTTTTCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACGTCTCGTTCGATTCCA
1 TCAAC-TTTTACTCGATTCTATCACAGAATGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
* ** *
264464 TCACAGAAGGAGGTGGATCGATATTTTTATTTAACTCAAATCTATCGCAGAAGGAGTTGGATCAG
65 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
*
264529 CA
130 CG
* * *
264531 TCAACTTTTTGCTCGATTCTATCACAGAATGAGGTAGATCAACATCGACATCTTGTTCGATTCCA
1 TCAAC-TTTTACTCGATTCTATCACAGAATGAGGTAGATCAGCATCGACATCTCGTTCGATTCCA
* *
264596 TCACAAAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAG
65 TCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
264661 CG
130 CG
* * *
264663 TCAACTTTTGCTCGATTCTATCACCGAATGAGGTAGATCAGGATCGACATCTCGTTCGATTCCAT
1 TCAACTTTTACTCGATTCTATCACAGAATGAGGTAGATCAGCATCGACATCTCGTTCGATTCCAT
* *
264728 CACAGAATGAGGTGGATTGACATTTTTATTTTCGCTCAAATCCATCGCAGAA
66 CACAGAAGGAGGTGGATCGACATTTTTA-TTTCGCTCAAATCCATCGCAGAA
264780 AGAGGTAGAT
Statistics
Matches: 674, Mismatches: 89, Indels: 27
0.85 0.11 0.03
Matches are distributed among these distances:
128 3 0.00
129 45 0.07
130 23 0.03
131 198 0.29
132 295 0.44
133 29 0.04
134 75 0.11
135 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (131 bp):
TCAACTTTTACTCGATTCTATCACAGAATGAGGTAGATCAGCATCGACATCTCGTTCGATTCCAT
CACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGC
G
Found at i:264377 original size:44 final size:44
Alignment explanation
Indices: 264327--265012 Score: 200
Period size: 44 Copynumber: 15.6 Consensus size: 44
264317 ATCTTGTTCG
264327 ATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCA
1 ATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCA
* * * * ** *
264371 AATCCATCGCAGAAGGA-GTTGATCAGTGTCAACTTT-TTT--CTCG
1 ATTCCATCACAGAAGGAGGTGGATC---GACATTTTTATTTCGCTCA
* * * ****** * * *
264414 TTTCTATCACAGAAGGAGGTAGATC-AGCACCAACGTCTCGTTCG
1 ATTCCATCACAGAAGGAGGTGGATCGA-CATTTTTATTTCGCTCA
* **
264458 ATTCCATCACAGAAGGAGGTGGATCGATATTTTTATTTAACTCA
1 ATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCA
* * * * ** *
264502 AATCTATCGCAGAAGGAGTTGGATC-AGCATCAACTT-TTT-GCTCG
1 ATTCCATCACAGAAGGAGGTGGATCGA-CAT--TTTTATTTCGCTCA
* * * * **** * *
264546 ATTCTATCACAGAATGAGGTAGATCAACATCGACATCTT-GTTCG
1 ATTCCATCACAGAAGGAGGTGGATCGACATTTTTAT-TTCGCTCA
*
264590 ATTCCATCACAAAAGGAGGTGGATCGACATTTTTATTTCGCTCA
1 ATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCA
* ** * * ** * *
264634 AATCCATCGTAGAAGGAGTTGGATC-AGC--GTCAACTTTTGCTCG
1 ATTCCATCACAGAAGGAGGTGGATCGA-CATTTTTA-TTTCGCTCA
* * * * * **** * * *
264677 ATTCTATCACCGAATGAGGTAGATC-AGGATCGACATCTCGTTCG
1 ATTCCATCACAGAAGGAGGTGGATCGA-CATTTTTATTTCGCTCA
* *
264721 ATTCCATCACAGAATGAGGTGGATTGACATTTTTATTTTCGCTCA
1 ATTCCATCACAGAAGGAGGTGGATCGACATTTTTA-TTTCGCTCA
* * * * * **** * * *
264766 AATCCATCGCAGAAAGAGGTAGATCAACATCGACATCTCGTTCG
1 ATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCA
* *
264810 ATTTCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCACTCA
1 ATTCCATCACAGAAGGAGGTGGATCGACATTTTTA-TTTCGCTCA
* * * *** *
264855 AATCCATCACAGAAGGAGTTGGATC-AGC-GTCAAATTTTGCT-A
1 ATTCCATCACAGAAGGAGGTGGATCGA-CATTTTTATTTCGCTCA
* * * * *** * * *
264897 GATTCTATCACAGAAGGAGTTAGAT-TAGCATCGATATATCGTTTGA
1 -ATTCCATCACAGAAGGAGGTGGATCGA-CATTTTTATTTCG-CTCA
*
264943 TTTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCA
1 ATTCCATCACAGAAGGAGGTGGATCGACATTTTTA-TTTCGCTCA
* * * *
264988 AATCCATCGCAGAAAGAGTTGGATC
1 ATTCCATCACAGAAGGAGGTGGATC
265013 AGCGTCAACT
Statistics
Matches: 447, Mismatches: 164, Indels: 61
0.67 0.24 0.09
Matches are distributed among these distances:
41 3 0.01
42 5 0.01
43 82 0.18
44 226 0.51
45 117 0.26
46 14 0.03
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (44 bp):
ATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCA
Found at i:264418 original size:263 final size:263
Alignment explanation
Indices: 263889--264779 Score: 1265
Period size: 263 Copynumber: 3.4 Consensus size: 263
263879 GTTTGCTTGA
* * *
263889 TTCTATCACAGAATGAGGTAAATCAGCACCAACATTTCGTTTGATTCCATCACAGAAGGAGGTGG
1 TTCTATCACAGAATGAGGTAGATCAGCACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTGG
* * * * *
263954 ATCGGCA--TTT-GTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGTGCCAACTTTTAGCTT
66 ATCGACATTTTTATTTCACTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTT
* **
264016 GATTCTATCACAGAAGGAGGTAGATCAACATCGACGCATC--GTTCGATTTCCATAACAGAAATA
131 GATTCTATCACAGAA-GAGGTAGATCAACATCGA--CATCTTGTTCGA-TTCCATCACAGAAGGA
* ** *
264079 GGTGGATCGATATTTTTATTTTCGCTCAAATCCATAACAGAATGAGTTGGATCAGCGTCAACTTT
192 GGTGGATCGACATTTTTA-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTT
264144 TTACTCGT
256 TTACTCGT
* * **
264152 TTCTATCACAAAATGAGGTAGATCAGCACCAACATCTCATTCGATTCCATCGTAGAAGGAGGTGG
1 TTCTATCACAGAATGAGGTAGATCAGCACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTGG
* *
264217 ATCGATATTTTTATTTCACTCAAATCCATCACAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTT
66 ATCGACATTTTTATTTCACTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTT
* *
264282 GATTCTATCATAGAAGAAGGTAGATCAGCATCGACATCTTGTTCGATTCCATCACAGAAGGAGGT
131 GATTCTATCACAGAAG-AGGTAGATCAACATCGACATCTTGTTCGATTCCATCACAGAAGGAGGT
* *
264347 GGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTT-GATCAGTGTCAACTTTTTTC
195 GGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTAC
264411 TCGT
260 TCGT
* *
264415 TTCTATCACAGAAGGAGGTAGATCAGCACCAACGTCTCGTTCGATTCCATCACAGAAGGAGGTGG
1 TTCTATCACAGAATGAGGTAGATCAGCACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTGG
* * * * * *
264480 ATCGATATTTTTATTTAACTCAAATCTATCGCAGAAGGAGTTGGATCAGCATCAACTTTTTGCTC
66 ATCGACATTTTTATTTCACTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTT
*
264545 GATTCTATCACAGAATGAGGTAGATCAACATCGACATCTTGTTCGATTCCATCACAAAAGGAGGT
131 GATTCTATCACAGAA-GAGGTAGATCAACATCGACATCTTGTTCGATTCCATCACAGAAGGAGGT
* *
264610 GGATCGACATTTTTATTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTCAAC-TTTTGC
195 GGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTAC
*
264674 TCGA
260 TCGT
* * * * *
264678 TTCTATCACCGAATGAGGTAGATCAGGATCGACATCTCGTTCGATTCCATCACAGAATGAGGTGG
1 TTCTATCACAGAATGAGGTAGATCAGCACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTGG
* *
264743 ATTGACATTTTTATTTTCGCTCAAATCCATCGCAGAA
66 ATCGACATTTTTA-TTTCACTCAAATCCATCGCAGAA
264780 AGAGGTAGAT
Statistics
Matches: 563, Mismatches: 56, Indels: 17
0.89 0.09 0.03
Matches are distributed among these distances:
263 383 0.68
264 63 0.11
265 34 0.06
266 83 0.15
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (263 bp):
TTCTATCACAGAATGAGGTAGATCAGCACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTGG
ATCGACATTTTTATTTCACTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTT
GATTCTATCACAGAAGAGGTAGATCAACATCGACATCTTGTTCGATTCCATCACAGAAGGAGGTG
GATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTTACT
CGT
Found at i:264878 original size:45 final size:45
Alignment explanation
Indices: 264723--265012 Score: 162
Period size: 45 Copynumber: 6.5 Consensus size: 45
264713 CTCGTTCGAT
* *
264723 TCCATCACAGAATGAGGTGGATTGACATTTTTATTTTCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAA
* * * * **** * * * *
264768 TCCATCGCAGAAAGAGGTAGATCAACATCGACA-TCTCGTTCGAT
1 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAA
* *
264812 TTCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCACTCAAA
1 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAA
* * *** *
264857 TCCATCACAGAAGGAGTTGGATC-AGC-GTCAAATTTT-GCT-AGAT
1 TCCATCACAGAAGGAGGTGGATCGA-CATTTTTATTTTCGCTCA-AA
* * * * *** * * * **
264900 TCTATCACAGAAGGAGTTAGAT-TAGCATCGATA-TATCGTTTGATT
1 TCCATCACAGAAGGAGGTGGATCGA-CATTTTTATTTTCG-CTCAAA
264945 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAA
* * *
264990 TCCATCGCAGAAAGAGTTGGATC
1 TCCATCACAGAAGGAGGTGGATC
265013 AGCGTCAACT
Statistics
Matches: 176, Mismatches: 59, Indels: 20
0.69 0.23 0.08
Matches are distributed among these distances:
42 1 0.01
43 28 0.16
44 41 0.23
45 100 0.57
46 6 0.03
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (45 bp):
TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAA
Found at i:264880 original size:89 final size:89
Alignment explanation
Indices: 264682--264868 Score: 293
Period size: 89 Copynumber: 2.1 Consensus size: 89
264672 GCTCGATTCT
* * ** * *
264682 ATCACCGAATGAGGTAGATCAGGATCGACATCTCGTTCGATTCCATCACAGAATGAGGTGGATTG
1 ATCACAGAAAGAGGTAGATCAACATCGACATCTCGTTCGATTCCATCACAGAAGGAGGTGGATCG
*
264747 ACATTTTTATTTTCGCTCAAATCC
66 ACATTTTTATTTTCACTCAAATCC
* *
264771 ATCGCAGAAAGAGGTAGATCAACATCGACATCTCGTTCGATTTCATCACAGAAGGAGGTGGATCG
1 ATCACAGAAAGAGGTAGATCAACATCGACATCTCGTTCGATTCCATCACAGAAGGAGGTGGATCG
264836 ACATTTTTATTTTCACTCAAATCC
66 ACATTTTTATTTTCACTCAAATCC
264860 ATCACAGAA
1 ATCACAGAA
264869 GGAGTTGGAT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 88 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (89 bp):
ATCACAGAAAGAGGTAGATCAACATCGACATCTCGTTCGATTCCATCACAGAAGGAGGTGGATCG
ACATTTTTATTTTCACTCAAATCC
Found at i:264968 original size:133 final size:132
Alignment explanation
Indices: 264770--265039 Score: 398
Period size: 133 Copynumber: 2.0 Consensus size: 132
264760 CGCTCAAATC
* *
264770 CATCGCAGAAAGAGGTAGATCAACATCGACATCTCGTTCGATTTCATCACAGAAGGAGGTGGATC
1 CATCACAGAAAGAGGTAGATCAACATCGACATATCGTTCGATTTCATCACAGAAGGAGGTGGATC
*
264835 GACATTTTTATTTTCACTCAAATCCATCACAGAAGGAGTTGGATCAGCGTCAAATT-TTGCTAGA
66 GACATTTTTATTTTCACTCAAATCCATCACAGAAAGAGTTGGATCAGCGTCAAATTCTTGCTAGA
264899 TT
131 TT
* * * * * *
264901 CTATCACAGAAGGAGTTAGATTAGCATCGATATATCGTTTGATTTCCATCACAGAAGGAGGTGGA
1 C-ATCACAGAAAGAGGTAGATCAACATCGACATATCGTTCGATTT-CATCACAGAAGGAGGTGGA
* * * *
264966 TCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAAGAGTTGGATCAGCGTCAACTTCTTGCTC
64 TCGACATTTTTATTTTCACTCAAATCCATCACAGAAAGAGTTGGATCAGCGTCAAATTCTTGCTA
265031 GATT
129 GATT
265035 CATCA
1 CATCA
265040 TATATGGAGT
Statistics
Matches: 123, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
131 1 0.01
132 35 0.28
133 77 0.63
134 10 0.08
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (132 bp):
CATCACAGAAAGAGGTAGATCAACATCGACATATCGTTCGATTTCATCACAGAAGGAGGTGGATC
GACATTTTTATTTTCACTCAAATCCATCACAGAAAGAGTTGGATCAGCGTCAAATTCTTGCTAGA
TT
Found at i:265039 original size:221 final size:219
Alignment explanation
Indices: 264555--265039 Score: 700
Period size: 221 Copynumber: 2.2 Consensus size: 219
264545 GATTCTATCA
* *
264555 CAGAATGAGGTAGATCAACATCGACATCTTGTTCGATTCCATCACAAAAGGAGGTGGATCGACAT
1 CAGAAAGAGGTAGATCAACATCAACATCTTGTTCGATT-CATCACAAAAGGAGGTGGATCGACAT
* ** * *
264620 TTTTATTTCGCTCAAATCCATCGTAGAAGGAGTTGGATCAGCGTCAACTTTTGCTCGATTCTATC
65 TTTTATTTCACTCAAATCCATCACAGAAGGAGTTGGATCAGCGTCAAATTTTGCTAGATTCTATC
* * * * * *
264685 ACCGAATGAGGTAGATCAGGATCGACATCTCGTTCGATTCCATCACAGAATGAGGTGGATTGACA
130 ACAGAAGGAGGTAGATCAGCATCGACATATCGTTCGATTCCATCACAGAAGGAGGTGGATCGACA
264750 TTTTTATTTTCGCTCAAATCCATCG
195 TTTTTATTTTCGCTCAAATCCATCG
* * *
264775 CAGAAAGAGGTAGATCAACATCGACATCTCGTTCGATTTCATCACAGAAGGAGGTGGATCGACAT
1 CAGAAAGAGGTAGATCAACATCAACATCTTGTTCGA-TTCATCACAAAAGGAGGTGGATCGACAT
264840 TTTTATTTTCACTCAAATCCATCACAGAAGGAGTTGGATCAGCGTCAAATTTTGCTAGATTCTAT
65 TTTTA-TTTCACTCAAATCCATCACAGAAGGAGTTGGATCAGCGTCAAATTTTGCTAGATTCTAT
* * * *
264905 CACAGAAGGAGTTAGATTAGCATCGATATATCGTTTGATTTCCATCACAGAAGGAGGTGGATCGA
129 CACAGAAGGAGGTAGATCAGCATCGACATATCGTTCGA-TTCCATCACAGAAGGAGGTGGATCGA
264970 CATTTTTATTTTCGCTCAAATCCATCG
193 CATTTTTATTTTCGCTCAAATCCATCG
* * * * * *
264997 CAGAAAGAGTTGGATCAGCGTCAACTTCTTGCTCGATTCATCA
1 CAGAAAGAGGTAGATCAACATCAACATCTTGTTCGATTCATCA
265040 TATATGGAGT
Statistics
Matches: 236, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
220 64 0.27
221 93 0.39
222 79 0.33
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (219 bp):
CAGAAAGAGGTAGATCAACATCAACATCTTGTTCGATTCATCACAAAAGGAGGTGGATCGACATT
TTTATTTCACTCAAATCCATCACAGAAGGAGTTGGATCAGCGTCAAATTTTGCTAGATTCTATCA
CAGAAGGAGGTAGATCAGCATCGACATATCGTTCGATTCCATCACAGAAGGAGGTGGATCGACAT
TTTTATTTTCGCTCAAATCCATCG
Found at i:269384 original size:16 final size:16
Alignment explanation
Indices: 269360--269397 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
269350 TATTCACATA
* *
269360 AATACTGAATTTCGTG
1 AATAGTGAATTTCATG
269376 AATAGTGAATTTCATG
1 AATAGTGAATTTCATG
269392 AATAGT
1 AATAGT
269398 AATAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (16 bp):
AATAGTGAATTTCATG
Found at i:282486 original size:19 final size:19
Alignment explanation
Indices: 282462--282499 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
282452 AGGATTGAGA
282462 GCAGCTTCCGTGGGAGACC
1 GCAGCTTCCGTGGGAGACC
282481 GCAGCTTCCGTGGGAGACC
1 GCAGCTTCCGTGGGAGACC
282500 TCTGGCAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.37, T:0.16
Consensus pattern (19 bp):
GCAGCTTCCGTGGGAGACC
Found at i:285284 original size:59 final size:59
Alignment explanation
Indices: 285141--285305 Score: 190
Period size: 59 Copynumber: 2.8 Consensus size: 59
285131 TATAACCTTT
* * * * * *
285141 ATTTTAAATTAATCCTTAAACTTTTAAACATTCCAATTTCATCCTCAAACTATGATTCTC
1 ATTTTAAATTAGTCCTTAAACTTTTGAACATTCCAAATTCATCC-CCAACTATAAATCTC
* *
285201 ATTCTAAATTAGTCCTTAATCTTTTGAACATTCCAAATTCATCCCCAACTATAAATCTC
1 ATTTTAAATTAGTCCTTAAACTTTTGAACATTCCAAATTCATCCCCAACTATAAATCTC
* * *
285260 ATTTTAAATTGGTCCCTAAACTTTTAGATC-TT-CAAATTTCATCCCC
1 ATTTTAAATTAGTCCTTAAACTTTT-GAACATTCCAAA-TTCATCCCC
285306 GAATTCATGC
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
58 4 0.04
59 44 0.49
60 42 0.47
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.40
Consensus pattern (59 bp):
ATTTTAAATTAGTCCTTAAACTTTTGAACATTCCAAATTCATCCCCAACTATAAATCTC
Found at i:286818 original size:2 final size:2
Alignment explanation
Indices: 286811--286840 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
286801 AATACTATTA
286811 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
286841 TATCAGCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:297000 original size:19 final size:20
Alignment explanation
Indices: 296964--297009 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
296954 AAATCAATTG
296964 ACAACATCCTTAAAAAACTA
1 ACAACATCCTTAAAAAACTA
*
296984 ACAACATCCTT-AAAAACTG
1 ACAACATCCTTAAAAAACTA
297003 ACAACAT
1 ACAACAT
297010 TCACGGACGC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.20
Consensus pattern (20 bp):
ACAACATCCTTAAAAAACTA
Found at i:299461 original size:12 final size:12
Alignment explanation
Indices: 299446--299473 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
299436 AATTATTAAT
299446 GGAATTTCTGAG
1 GGAATTTCTGAG
299458 GGAATTTCTGAG
1 GGAATTTCTGAG
299470 GGAA
1 GGAA
299474 GAGAGTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.07, G:0.36, T:0.29
Consensus pattern (12 bp):
GGAATTTCTGAG
Found at i:299684 original size:62 final size:62
Alignment explanation
Indices: 299587--299703 Score: 209
Period size: 62 Copynumber: 1.9 Consensus size: 62
299577 AACTTTAAAA
299587 TCCGTCAGAATGTTATATATAAATAAAATACTATATTTTATGTTT-TCGACGAACATATTTTT
1 TCCGTCAGAATGTTATATATAAATAAAATACTATATTTTATGTTTCT-GACGAACATATTTTT
*
299649 TCCGTCGGAATGTTATATATAAATAAAATACTATATTTTATGTTTCTGACGAACA
1 TCCGTCAGAATGTTATATATAAATAAAATACTATATTTTATGTTTCTGACGAACA
299704 ATCTTTTATA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
62 52 0.98
63 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (62 bp):
TCCGTCAGAATGTTATATATAAATAAAATACTATATTTTATGTTTCTGACGAACATATTTTT
Found at i:299919 original size:33 final size:33
Alignment explanation
Indices: 299846--299922 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
299836 ATACCCGAAA
* * *
299846 AAATTTTCATTCCCTACAAAATATCATGAATCC
1 AAATTTTTATTCCCTACAAAATATCACGAAACC
* *
299879 AAATTTTTATTCCCTCCAAAATATTACGAAACC
1 AAATTTTTATTCCCTACAAAATATCACGAAACC
299912 AAATTTTTATT
1 AAATTTTTATT
299923 TAATTAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.38
Consensus pattern (33 bp):
AAATTTTTATTCCCTACAAAATATCACGAAACC
Found at i:301339 original size:93 final size:91
Alignment explanation
Indices: 301225--301414 Score: 308
Period size: 93 Copynumber: 2.1 Consensus size: 91
301215 GGTATGTTTG
* * *
301225 AAATTTTATGTTTCAATGGAGGGAAATTGGAGGAAATTAGTGGGTAACTAAAAAAACCTCTAAAT
1 AAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAATGAGTGGGTAACTAAAAAAA-CTCTAAAA
301290 TTTGTGATGGAACATGTGAACCCATCAC
65 TTTGTGA-GGAACATGTGAACCCATCAC
*
301318 AAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAATGAGTGGGTAATTAAAAAAACTCTAAAAT
1 AAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAATGAGTGGGTAACTAAAAAAACTCTAAAAT
* *
301383 TTGTGAGGAACATGTGGACTCATCAC
66 TTGTGAGGAACATGTGAACCCATCAC
301409 AAATTT
1 AAATTT
301415 GTGACGGAAC
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
91 24 0.26
92 14 0.15
93 53 0.58
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (91 bp):
AAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAATGAGTGGGTAACTAAAAAAACTCTAAAAT
TTGTGAGGAACATGTGAACCCATCAC
Found at i:301413 original size:30 final size:31
Alignment explanation
Indices: 301379--301445 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
301369 AAAAACTCTA
* *
301379 AAATTTGTGA-GGAACATGTGGACTCATCAC
1 AAATTTGTGACGGAACATGTGAACCCATCAC
*
301409 AAATTTGTGACGGAACATGTGAACCCGTCAC
1 AAATTTGTGACGGAACATGTGAACCCATCAC
301440 AAATTT
1 AAATTT
301446 TATGTTTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 10 0.30
31 23 0.70
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (31 bp):
AAATTTGTGACGGAACATGTGAACCCATCAC
Found at i:301442 original size:122 final size:123
Alignment explanation
Indices: 301290--301537 Score: 399
Period size: 122 Copynumber: 2.0 Consensus size: 123
301280 ACCTCTAAAT
* *
301290 TTTGTGATGGAACATGTGAACCCATCACAAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAAT
1 TTTGTGACGGAACATGTGAACCCATCACAAATTTTATGTTTCAATGGAGGAAAATTAGAGGAAAT
** * *
301355 GAGTGGGTAATTAAAAAAACTCTAAAATTTGTGA-GGAACATGTGGACTCATCACAAA
66 GAACGGGTAATTAAAAAAACTCTAAAATTTATGACGGAACATGTGGACCCATCACAAA
*
301412 TTTGTGACGGAACATGTGAACCCGTCACAAATTTTATGTTTCAATGGAGGAAAATTAGAGGAAAT
1 TTTGTGACGGAACATGTGAACCCATCACAAATTTTATGTTTCAATGGAGGAAAATTAGAGGAAAT
* * *
301477 GAACGGGTAATTAAAAAAACTCTAAATTTTATGACGGAACTTGTGGACCCGTCACAAA
66 GAACGGGTAATTAAAAAAACTCTAAAATTTATGACGGAACATGTGGACCCATCACAAA
301535 TTT
1 TTT
301538 TATGTTTTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
122 92 0.80
123 23 0.20
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (123 bp):
TTTGTGACGGAACATGTGAACCCATCACAAATTTTATGTTTCAATGGAGGAAAATTAGAGGAAAT
GAACGGGTAATTAAAAAAACTCTAAAATTTATGACGGAACATGTGGACCCATCACAAA
Found at i:301609 original size:214 final size:215
Alignment explanation
Indices: 301225--301632 Score: 624
Period size: 214 Copynumber: 1.9 Consensus size: 215
301215 GGTATGTTTG
* * * **
301225 AAATTTTATGTTTCAATGGAGGGAAATTGGAGGAAATTAGTGGGTAACTAAAAAAACCTCTAAAT
1 AAATTTTATGTTTCAATGGAGGAAAATTAGAGGAAATGAACGGGTAACTAAAAAAACCTCTAAAT
* *
301290 TTTGTGATGGAACATGTGAACCCATCACAAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAAT
66 TTTATGACGGAACATGTGAACCCATCACAAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAAT
* *
301355 GAGTGGGTAATTAAAAAAACTCTAAAATTTGTGAGGAACATGTGGACTCA-TCACAAATTTGTGA
131 GAGCGGGTAATGAAAAAAACTCTAAAATTTGTGAGGAACATGTGGAC-CAGTCACAAATTTGTGA
301419 CGGAACATGTGAACCCGTCAC
195 CGGAACATGTGAACCCGTCAC
*
301440 AAATTTTATGTTTCAATGGAGGAAAATTAGAGGAAATGAACGGGTAATTAAAAAAA-CTCTAAAT
1 AAATTTTATGTTTCAATGGAGGAAAATTAGAGGAAATGAACGGGTAACTAAAAAAACCTCTAAAT
* * * * * *
301504 TTTATGACGGAACTTGTGGACCCGTCACAAATTTTATGTTTTAATGGAGGTAAATTGGAGGTAAT
66 TTTATGACGGAACATGTGAACCCATCACAAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAAT
*
301569 GAGCGGG-AATGAAAAAAACTCTAAATTTTGTGACGGAACATGTGGACCAGTCACAAATTTGTGA
131 GAGCGGGTAATGAAAAAAACTCTAAAATTTGTGA-GGAACATGTGGACCAGTCACAAATTTGTGA
301633 TGGGTCCGCA
Statistics
Matches: 174, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
213 26 0.15
214 98 0.56
215 50 0.29
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (215 bp):
AAATTTTATGTTTCAATGGAGGAAAATTAGAGGAAATGAACGGGTAACTAAAAAAACCTCTAAAT
TTTATGACGGAACATGTGAACCCATCACAAATTTTATGTTTCAATGGAGGAAAATTGGAGGAAAT
GAGCGGGTAATGAAAAAAACTCTAAAATTTGTGAGGAACATGTGGACCAGTCACAAATTTGTGAC
GGAACATGTGAACCCGTCAC
Found at i:301628 original size:91 final size:92
Alignment explanation
Indices: 301412--301628 Score: 337
Period size: 92 Copynumber: 2.4 Consensus size: 92
301402 TCATCACAAA
*
301412 TTTGTGACGGAACATGTGAACCCGTCACAAATTTTATGTTTCAATGGAGGAAAATTAGAGGAAAT
1 TTTGTGACGGAACATGTGGACCCGTCACAAATTTTATGTTTCAATGGAGGAAAATTAGAGGAAAT
*
301477 GAACGGGTAATTAAAAAAACTCTAAAT
66 GAACGGGTAATGAAAAAAACTCTAAAT
* * * * * *
301504 TTTATGACGGAACTTGTGGACCCGTCACAAATTTTATGTTTTAATGGAGGTAAATTGGAGGTAAT
1 TTTGTGACGGAACATGTGGACCCGTCACAAATTTTATGTTTCAATGGAGGAAAATTAGAGGAAAT
*
301569 GAGCGGG-AATGAAAAAAACTCTAAAT
66 GAACGGGTAATGAAAAAAACTCTAAAT
*
301595 TTTGTGACGGAACATGTGGACCAGTCACAAATTT
1 TTTGTGACGGAACATGTGGACCCGTCACAAATTT
301629 GTGATGGGTC
Statistics
Matches: 113, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
91 49 0.43
92 64 0.57
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (92 bp):
TTTGTGACGGAACATGTGGACCCGTCACAAATTTTATGTTTCAATGGAGGAAAATTAGAGGAAAT
GAACGGGTAATGAAAAAAACTCTAAAT
Found at i:303316 original size:25 final size:25
Alignment explanation
Indices: 303234--303316 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 25
303224 ATATAAATAA
*
303234 AAAAAAGTAAAGGATAAATGCGTAT
1 AAAAAAGTAAAGGATAAATGCATAT
** * **
303259 AAATCAGTATATTATAAATGCATATAAATT
1 AAAAAAGTAAAGGATAAATGC--AT--A-T
303289 AAAAAAGTAAAGGATAAATGCATAT
1 AAAAAAGTAAAGGATAAATGCATAT
303314 AAA
1 AAA
303317 TGGTAATTGT
Statistics
Matches: 42, Mismatches: 11, Indels: 10
0.67 0.17 0.16
Matches are distributed among these distances:
25 20 0.48
26 1 0.02
27 1 0.02
28 2 0.05
29 1 0.02
30 17 0.40
ACGTcount: A:0.57, C:0.05, G:0.13, T:0.25
Consensus pattern (25 bp):
AAAAAAGTAAAGGATAAATGCATAT
Found at i:304183 original size:39 final size:39
Alignment explanation
Indices: 304125--304204 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 39
304115 AGTGTAACCT
* *
304125 TTGAAATTATGATAATTATAAACGATTCATCCATTTTGA
1 TTGAAATTATGATAATTATAAACAATTCATCCATTGTGA
* ** * *
304164 TTGAAATTTTGATGGTTATAAATAATTTATCCATTGTGA
1 TTGAAATTATGATAATTATAAACAATTCATCCATTGTGA
304203 TT
1 TT
304205 TGAACGAAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (39 bp):
TTGAAATTATGATAATTATAAACAATTCATCCATTGTGA
Found at i:323229 original size:31 final size:31
Alignment explanation
Indices: 323189--323255 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
323179 TGTAATACAA
* *
323189 TCCCCCAACATTTAGTCCGTTTGCAATATGG
1 TCCCTCAACATTTAGTCCATTTGCAATATGG
323220 TCCCTCAACATTTAGTCCATTTGCAATATGG
1 TCCCTCAACATTTAGTCCATTTGCAATATGG
323251 TCCCT
1 TCCCT
323256 GACGTAACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.34
Consensus pattern (31 bp):
TCCCTCAACATTTAGTCCATTTGCAATATGG
Found at i:324446 original size:31 final size:31
Alignment explanation
Indices: 324408--324468 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
324398 AATACAGTCT
324408 CCCAACATTTAGT-TCGTTTGCAATATGGTCC
1 CCCAACATTTAGTCT-GTTTGCAATATGGTCC
324439 CCCAACATTTAGTCTGTTTGCAATATGGTC
1 CCCAACATTTAGTCTGTTTGCAATATGGTC
324469 ACTGACGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
CCCAACATTTAGTCTGTTTGCAATATGGTCC
Found at i:328257 original size:2 final size:2
Alignment explanation
Indices: 328250--328280 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
328240 TTATTATTAT
328250 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
328281 TCTAAAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:328482 original size:39 final size:40
Alignment explanation
Indices: 328439--328555 Score: 129
Period size: 39 Copynumber: 3.0 Consensus size: 40
328429 TAAATAATAA
*
328439 TTTAGAATATTAATGTGAAATAATTTAAGAAATTA-AAAT
1 TTTAGAATGTTAATGTGAAATAATTTAAGAAATTATAAAT
* *
328478 TTTAGAATGTT-ATG-GTAACAAAATTTAAGAAATTATGAA-
1 TTTAGAATGTTAATGTG-AA-ATAATTTAAGAAATTATAAAT
*
328517 TTTAGAATGTTAAAT-TGAAATAATTTGA-AAATTATAAAT
1 TTTAGAATGTT-AATGTGAAATAATTTAAGAAATTATAAAT
328556 AAAAATTTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
37 1 0.02
38 14 0.22
39 43 0.66
40 4 0.06
41 3 0.05
ACGTcount: A:0.49, C:0.01, G:0.12, T:0.38
Consensus pattern (40 bp):
TTTAGAATGTTAATGTGAAATAATTTAAGAAATTATAAAT
Found at i:334269 original size:23 final size:22
Alignment explanation
Indices: 334225--334269 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
334215 AATCTCATAG
*
334225 GGGAACCGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
*
334247 GGGAACTGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
334270 AAATTGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.29, C:0.31, G:0.27, T:0.13
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:335728 original size:100 final size:100
Alignment explanation
Indices: 335553--335750 Score: 360
Period size: 100 Copynumber: 2.0 Consensus size: 100
335543 GGTCTACGCG
*
335553 GTCCTTCGGGACATATATGTATTCTTTGGAACATGTTTGAAGTCTGGTGAGACACATACTTGATC
1 GTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
*
335618 CTTGGCATATGTATATGATTCTTAAGGAATGATGT
66 CTTAGCATATGTATATGATTCTTAAGGAATGATGT
*
335653 GTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGATACACATACTTGATC
1 GTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
*
335718 CTTAGTATATGTATATGATTCTTAAGGAATGAT
66 CTTAGCATATGTATATGATTCTTAAGGAATGAT
335751 ATGTGGTCCT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 94 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (100 bp):
GTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATC
CTTAGCATATGTATATGATTCTTAAGGAATGATGT
Found at i:335812 original size:23 final size:23
Alignment explanation
Indices: 335778--335845 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
335768 ATTATTATAT
335778 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
335801 GGCACT-CTGGTGCAATTCTACGT
1 GGCACTAC-GGTGCAATTCTACGC
* * *
335824 GGCACTTCGTTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
335846 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 1 0.03
23 38 0.95
24 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:336867 original size:16 final size:16
Alignment explanation
Indices: 336837--336867 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
336827 TGAAACTCGA
*
336837 CTCGAACTCGAAAAAG
1 CTCGAACTCAAAAAAG
336853 CTCGAACTCAAAAAA
1 CTCGAACTCAAAAAA
336868 ATTCTGGAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (16 bp):
CTCGAACTCAAAAAAG
Found at i:337046 original size:25 final size:26
Alignment explanation
Indices: 337005--337055 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
336995 TTTAAAAAAT
* *
337005 TATAATTATCAATAATGTATTTTTAA
1 TATAATTATCAATAATGAAATTTTAA
*
337031 TATAATT-TTAATAATGAAATTTTAA
1 TATAATTATCAATAATGAAATTTTAA
337056 AAAATCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (26 bp):
TATAATTATCAATAATGAAATTTTAA
Found at i:340665 original size:15 final size:15
Alignment explanation
Indices: 340645--340674 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
340635 TAATTCGGAC
*
340645 AATCAACATATTCAG
1 AATCAACATAATCAG
340660 AATCAACATAATCAG
1 AATCAACATAATCAG
340675 CAACCCTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (15 bp):
AATCAACATAATCAG
Found at i:356085 original size:15 final size:15
Alignment explanation
Indices: 356065--356095 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
356055 GTGTTCTCAT
356065 CTAATGTTAACCAAA
1 CTAATGTTAACCAAA
356080 CTAATGTTAACCAAA
1 CTAATGTTAACCAAA
356095 C
1 C
356096 AATTAAGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (15 bp):
CTAATGTTAACCAAA
Found at i:357514 original size:35 final size:35
Alignment explanation
Indices: 357475--357549 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
357465 AAAATACTTT
357475 AATTTAGGGTTTAGAATATAATTAAAGTATTTTGG
1 AATTTAGGGTTTAGAATATAATTAAAGTATTTTGG
*** * *
357510 AATTTTTTGTTTAGAATGTAATTAAAGTGTTTTGG
1 AATTTAGGGTTTAGAATATAATTAAAGTATTTTGG
357545 AATTT
1 AATTT
357550 TGAATATGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (35 bp):
AATTTAGGGTTTAGAATATAATTAAAGTATTTTGG
Found at i:357550 original size:35 final size:35
Alignment explanation
Indices: 357483--357550 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
357473 TTAATTTAGG
357483 GTTTAGAATATAATTAAAGTATTTTGGAATTTTTT
1 GTTTAGAATATAATTAAAGTATTTTGGAATTTTTT
* *
357518 GTTTAGAATGTAATTAAAGTGTTTTGGAATTTT
1 GTTTAGAATATAATTAAAGTATTTTGGAATTTT
357551 GAATATGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (35 bp):
GTTTAGAATATAATTAAAGTATTTTGGAATTTTTT
Found at i:366355 original size:37 final size:37
Alignment explanation
Indices: 366282--366356 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
366272 GTTGGAAAAT
* *
366282 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
366319 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
366356 A
1 A
366357 ATGTTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:369352 original size:18 final size:18
Alignment explanation
Indices: 369331--369365 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
369321 GTTTATGTTT
369331 GTTTA-TTTGCGTTCGTTC
1 GTTTACTTT-CGTTCGTTC
369349 GTTTACTTTCGTTCGTT
1 GTTTACTTTCGTTCGTT
369366 TATGTTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.06, C:0.17, G:0.20, T:0.57
Consensus pattern (18 bp):
GTTTACTTTCGTTCGTTC
Found at i:369489 original size:10 final size:10
Alignment explanation
Indices: 369474--369514 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
369464 GTGTTTGTTT
369474 TGTTCATTTA
1 TGTTCATTTA
369484 TGTTCATTTA
1 TGTTCATTTA
** *
369494 CATTCGTTTA
1 TGTTCATTTA
369504 TGTTCATTTA
1 TGTTCATTTA
369514 T
1 T
369515 TGTGTTTGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.59
Consensus pattern (10 bp):
TGTTCATTTA
Found at i:369646 original size:31 final size:31
Alignment explanation
Indices: 369602--369682 Score: 117
Period size: 34 Copynumber: 2.5 Consensus size: 31
369592 AATGAACGAA
* *
369602 AATGAATGGACACGAACAAGCTACATTCCTT
1 AATGAACGAACACGAACAAGCTACATTCCTT
369633 AATGAACGAACACGAACAACAAGCTACATTCCTT
1 AATGAACGAACACG---AACAAGCTACATTCCTT
369667 AATGAACGAACACGAA
1 AATGAACGAACACGAA
369683 TACATTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
31 14 0.31
34 31 0.69
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.17
Consensus pattern (31 bp):
AATGAACGAACACGAACAAGCTACATTCCTT
Found at i:369659 original size:34 final size:34
Alignment explanation
Indices: 369616--369682 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
369606 AATGGACACG
369616 AACAAGCTACATTCCTTAATGAACGAACACGAAC
1 AACAAGCTACATTCCTTAATGAACGAACACGAAC
369650 AACAAGCTACATTCCTTAATGAACGAACACGAA
1 AACAAGCTACATTCCTTAATGAACGAACACGAA
369683 TACATTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.18
Consensus pattern (34 bp):
AACAAGCTACATTCCTTAATGAACGAACACGAAC
Found at i:376294 original size:27 final size:27
Alignment explanation
Indices: 376246--376302 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
376236 ATAACACATT
* *
376246 AAAGTGGATGCTCATCTGGTTCAGGAC
1 AAAGTGGATGCTCAACTAGTTCAGGAC
*
376273 AAAGTGGATGGTCAACTAGTTCAGGAC
1 AAAGTGGATGCTCAACTAGTTCAGGAC
376300 AAA
1 AAA
376303 CTTTAATAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (27 bp):
AAAGTGGATGCTCAACTAGTTCAGGAC
Found at i:388374 original size:65 final size:64
Alignment explanation
Indices: 388247--388401 Score: 222
Period size: 65 Copynumber: 2.4 Consensus size: 64
388237 ACACCTCATT
* * * *
388247 TCGAATGCATTTTATGCATCGATGCACTGCCATGCATCGATGCACTCAGGATTTTATGGAAACA
1 TCGAATGCATTTTATGCATCGATGCAATACCATGCATCGATGCACTCAAGATCTTATGGAAACA
* * *
388311 TCTAATGCATTTTATGCATAGATGCATATACCATGCATCGATGCACTCAAG-TCTTATTTGAAAC
1 TCGAATGCATTTTATGCATCGATGCA-ATACCATGCATCGATGCACTCAAGATCTTA-TGGAAAC
388375 A
64 A
388376 TCGAATGCATTTTATGCATCGATGCA
1 TCGAATGCATTTTATGCATCGATGCA
388402 CCCTTAGTGC
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 28 0.35
65 52 0.65
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (64 bp):
TCGAATGCATTTTATGCATCGATGCAATACCATGCATCGATGCACTCAAGATCTTATGGAAACA
Found at i:388418 original size:65 final size:63
Alignment explanation
Indices: 388247--388426 Score: 190
Period size: 65 Copynumber: 2.8 Consensus size: 63
388237 ACACCTCATT
* *
388247 TCGAATGCATTTTATGCATCGATGCACTGCC--ATGCATCGATGCACTCAGGATTTTATGGAAAC
1 TCGAATGCATTTTATGCATCGATGCAC--CCTTATGCATCGATGCACTCAAG-TCTTATGGAAAC
388310 A
63 A
* * * *
388311 TCTAATGCATTTTATGCATAGATGCATATACC--ATGCATCGATGCACTCAAGTCTTATTTGAAA
1 TCGAATGCATTTTATGCATCGATGC--A-CCCTTATGCATCGATGCACTCAAGTCTTA-TGGAAA
388374 CA
62 CA
*
388376 TCGAATGCATTTTATGCATCGATGCACCCTTAGTGCACCGATGCACT-AAGT
1 TCGAATGCATTTTATGCATCGATGCACCCTTA-TGCATCGATGCACTCAAGT
388427 GTTCCAACGG
Statistics
Matches: 99, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
62 2 0.02
63 1 0.01
64 32 0.32
65 63 0.64
66 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (63 bp):
TCGAATGCATTTTATGCATCGATGCACCCTTATGCATCGATGCACTCAAGTCTTATGGAAACA
Found at i:394137 original size:19 final size:22
Alignment explanation
Indices: 394113--394232 Score: 85
Period size: 23 Copynumber: 5.6 Consensus size: 22
394103 TTGTGCATAA
*
394113 TGCATCGATACA-CTAT-CA-G
1 TGCATCGATACACCTATGAATG
394132 TGCATCGATACATCCTATGAATG
1 TGCATCGATACA-CCTATGAATG
* *
394155 TGCATCGATACATC-ATGAAGG
1 TGCATCGATACACCTATGAATG
* *
394176 TGCACCGATGCACTCCT-TGAATG
1 TGCATCGAT--ACACCTATGAATG
* *
394199 TGCATCGATGCA-CTCA-GCA-G
1 TGCATCGATACACCT-ATGAATG
394219 TGCATCGATACACC
1 TGCATCGATACACC
394233 CATCGGGTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
19 12 0.15
20 14 0.18
21 22 0.28
22 2 0.03
23 29 0.37
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (22 bp):
TGCATCGATACACCTATGAATG
Done.