Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 78
Found at i:4376315 original size:31 final size:31
Alignment explanation
Indices: 4376194--4376321 Score: 134
Period size: 31 Copynumber: 4.1 Consensus size: 31
4376184 AGAGTCGAGG
4376194 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* *
4376225 GAATTACCTATG-TCTTTC-GAGACATATGGACA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* * *
4376257 GTATACATATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* * * *
4376288 GTTTACCTAGGTTCTACGGGACCTATGGATA
1 GTTTACCTATGTTCTACGGAACATATGGACA
4376319 GTT
1 GTT
4376322 GCCGAGGTTC
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
31 51 0.65
32 27 0.35
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:4377583 original size:22 final size:22
Alignment explanation
Indices: 4377558--4377601 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
4377548 TAAAATTTCC
4377558 CATGCATCTCCGACTGAAAAGT
1 CATGCATCTCCGACTGAAAAGT
4377580 CATGCATCTCCGACTGAAAAGT
1 CATGCATCTCCGACTGAAAAGT
4377602 TACGCTGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (22 bp):
CATGCATCTCCGACTGAAAAGT
Found at i:4378187 original size:184 final size:184
Alignment explanation
Indices: 4377862--4378246 Score: 596
Period size: 184 Copynumber: 2.1 Consensus size: 184
4377852 TTTTCTAATT
* * * *
4377862 TATATAAAAATTAAATGTTTTTTAATTCAAAAAAAAGTTTATAATTAATTTCAATAATATATAAT
1 TATATAAATATTTAATGTTTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
*
4377927 TATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
66 TATAAAATAAAAATTGTAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
* *
4377992 GGATTTTAAATTATTAATTAGGTTTTAAATGGTTTGGGCTGAG-CCATATGTTA
131 AGATCTTAAATTATTAATTAGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
*
4378045 TATATAATATATTTAATGTTTTTTAATT-AAAAAACAGTTTACAATTAATTTAAATAATATATAA
1 TATATAA-ATATTTAATGTTTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAA
* **
4378109 TTATAAAATAAAAATTGTATAT-AATTTTTTAAATTTTTTTAATATTGATTTAGGTTTAAAAGTT
65 TTATAAAATAAAAATTGTAGATAAATTTTTT-AA-TTAATTAATATTGATTTAGGTTTAAAAGTT
* *
4378173 ATTAGATCTTAAATTATTAATTTGGTTTTAAATGGTTTGTGCTGAGCCCATATGTTA
128 ATTAGATCTTAAATTATTAATTAGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
4378230 TATATAACATATTTAAT
1 TATATAA-ATATTTAAT
4378247 ATTTAAAATT
Statistics
Matches: 184, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
182 8 0.04
183 62 0.34
184 88 0.48
185 26 0.14
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.46
Consensus pattern (184 bp):
TATATAAATATTTAATGTTTTTTAATTCAAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAAATTGTAGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATT
AGATCTTAAATTATTAATTAGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
Found at i:4382651 original size:23 final size:23
Alignment explanation
Indices: 4382625--4382692 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 23
4382615 CACATAGTAT
4382625 TGTCCCGAAGGACCGCGTAGAAA
1 TGTCCCGAAGGACCGCGTAGAAA
* * * **
4382648 TGTCCCAAAGAACCACGTAGATT
1 TGTCCCGAAGGACCGCGTAGAAA
* * *
4382671 TATCCCGAATGACCGCATAGAA
1 TGTCCCGAAGGACCGCGTAGAA
4382693 CCCTCGACTC
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (23 bp):
TGTCCCGAAGGACCGCGTAGAAA
Found at i:4383369 original size:19 final size:20
Alignment explanation
Indices: 4383345--4383385 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4383335 GGAATTCAGC
4383345 CCTAAA-AATAGTATCGATA
1 CCTAAACAATAGTATCGATA
* *
4383364 CCTAAACATTGGTATCGATA
1 CCTAAACAATAGTATCGATA
4383384 CC
1 CC
4383386 CTTGGTACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (20 bp):
CCTAAACAATAGTATCGATA
Found at i:4386730 original size:17 final size:17
Alignment explanation
Indices: 4386704--4386736 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4386694 TGAAAAACAT
4386704 AAAATATAACTTTTCAA
1 AAAATATAACTTTTCAA
*
4386721 AAAATTTAACTTTTCA
1 AAAATATAACTTTTCA
4386737 GATCAAAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATATAACTTTTCAA
Found at i:4386941 original size:10 final size:10
Alignment explanation
Indices: 4386926--4386950 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4386916 TACTAAGCAT
4386926 GTTTTAAAGA
1 GTTTTAAAGA
4386936 GTTTTAAAGA
1 GTTTTAAAGA
4386946 GTTTT
1 GTTTT
4386951 GAGAGACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (10 bp):
GTTTTAAAGA
Found at i:4388286 original size:35 final size:35
Alignment explanation
Indices: 4388228--4388302 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
4388218 AATTCGTTTA
* *
4388228 ATGTTCATAAATATTTTTATTTAACATTTGCAAAC
1 ATGTTCATAAATATGTTTATTTAACATTCGCAAAC
** * * *
4388263 ATGTTCATTTATATGTTTGTTTAACGTTCGCCAAC
1 ATGTTCATAAATATGTTTATTTAACATTCGCAAAC
4388298 ATGTT
1 ATGTT
4388303 TGTTTAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (35 bp):
ATGTTCATAAATATGTTTATTTAACATTCGCAAAC
Found at i:4390459 original size:31 final size:31
Alignment explanation
Indices: 4390418--4390539 Score: 147
Period size: 31 Copynumber: 3.9 Consensus size: 31
4390408 TCAAACAGCC
* *
4390418 GGTTATGTCGGGGACCATATTGCAAATGGCA
1 GGTTACGTCGGGGACCATATTACAAATGGCA
* * *
4390449 GGTTACGTCGGGGACCATATTGCAAACGGCC
1 GGTTACGTCGGGGACCATATTACAAATGGCA
** *
4390480 GGTTACGTCAAGGACCATATTACAAATGACCA
1 GGTTACGTCGGGGACCATATTACAAATG-GCA
*
4390512 -GTTACGTTGGGGACCATATTACAAATGG
1 GGTTACGTCGGGGACCATATTACAAATGG
4390540 ACTAAATGTT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
31 76 0.99
32 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (31 bp):
GGTTACGTCGGGGACCATATTACAAATGGCA
Found at i:4390495 original size:62 final size:62
Alignment explanation
Indices: 4390409--4390536 Score: 168
Period size: 62 Copynumber: 2.1 Consensus size: 62
4390399 GTAACGGTGT
* ** * * *
4390409 CAAACAGCCGGTTATGTCGGGGACCATATTGCAAATG-GCAGGTTACGTCGGGGACCATATTG
1 CAAACAGCCGGTTACGTCAAGGACCATATTACAAATGACCA-GTTACGTCGGGGACCATATTA
* *
4390471 CAAACGGCCGGTTACGTCAAGGACCATATTACAAATGACCAGTTACGTTGGGGACCATATTA
1 CAAACAGCCGGTTACGTCAAGGACCATATTACAAATGACCAGTTACGTCGGGGACCATATTA
4390533 CAAA
1 CAAA
4390537 TGGACTAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 55 0.96
63 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (62 bp):
CAAACAGCCGGTTACGTCAAGGACCATATTACAAATGACCAGTTACGTCGGGGACCATATTA
Found at i:4394001 original size:15 final size:15
Alignment explanation
Indices: 4393981--4394009 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4393971 GCAGGAATGC
4393981 CAATTAAGTTTGTCA
1 CAATTAAGTTTGTCA
4393996 CAATTAAGTTTGTC
1 CAATTAAGTTTGTC
4394010 TTCATTCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (15 bp):
CAATTAAGTTTGTCA
Found at i:4397291 original size:130 final size:129
Alignment explanation
Indices: 4397092--4397326 Score: 312
Period size: 130 Copynumber: 1.8 Consensus size: 129
4397082 ATATTAATTT
* * * *
4397092 ATATATATTTATAAATAAAATATTTTATTTATTTAGACATATGAGAAAAGGACTTCTAAGTTCCA
1 ATATATATTTATAAATAAAATATTTTATTTATTTAAAAATATCAGAAAAGGACTTCTAAGTGCCA
* * *
4397157 TAAGACAGCTCTTTTCTTTGATATTAAAAAATAAATAAATAATTAAAACATTTATTTAAAAATAG
66 TAAGACAGCCCATTTC-TTAATATTAAAAAATAAATAAATAATTAAAACATTTATTTAAAAATAG
* * *
4397222 ATATA-ATTTATAAAAGTAAGATA-TTTATTTATTTAAAAATATCAGAAAATGACTTCTAGGTGC
1 ATATATATTTAT-AAA-TAAAATATTTTATTTATTTAAAAATATCAGAAAAGGACTTCTAAGTGC
** *
4397285 TTTAAGACAGCCCATTTCTTAATATTAAAAAATATATAAATA
64 CATAAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATA
4397327 TATAAATATG
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
129 28 0.31
130 56 0.62
131 6 0.07
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (129 bp):
ATATATATTTATAAATAAAATATTTTATTTATTTAAAAATATCAGAAAAGGACTTCTAAGTGCCA
TAAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATAATTAAAACATTTATTTAAAAATAG
Found at i:4397564 original size:12 final size:11
Alignment explanation
Indices: 4397533--4397619 Score: 72
Period size: 11 Copynumber: 7.5 Consensus size: 11
4397523 ACTAAGATAA
4397533 AAATAATAATT
1 AAATAATAATT
4397544 AAATAATAATT
1 AAATAATAATT
4397555 AAAGTAATAATT
1 AAA-TAATAATT
4397567 -AA-AATATATT
1 AAATAATA-ATT
*
4397577 AAAAATAATAATA
1 --AAATAATAATT
4397590 AAATAAT-ATT
1 AAATAATAATT
*
4397600 ACAAATAAATAATG
1 --AAAT-AATAATT
4397614 AAATAA
1 AAATAA
4397620 AATAACTAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 20
0.73 0.03 0.23
Matches are distributed among these distances:
9 4 0.06
10 5 0.08
11 25 0.40
12 16 0.25
13 7 0.11
14 6 0.10
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (11 bp):
AAATAATAATT
Found at i:4397566 original size:23 final size:23
Alignment explanation
Indices: 4397532--4397619 Score: 92
Period size: 23 Copynumber: 3.8 Consensus size: 23
4397522 GACTAAGATA
4397532 AAAATAATAATTAAATAATAATT
1 AAAATAATAATTAAATAATAATT
*
4397555 AAAGTAATAATT-AA-AATATATT
1 AAAATAATAATTAAATAATA-ATT
*
4397577 AAAAATAATAATAAAATAAT-ATT
1 -AAAATAATAATTAAATAATAATT
*
4397600 ACAAATAAATAATGAAATAA
1 A-AAAT-AATAATTAAATAA
4397620 AATAACTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
21 4 0.07
22 6 0.11
23 28 0.51
24 14 0.25
25 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAATAATAATTAAATAATAATT
Found at i:4399657 original size:139 final size:139
Alignment explanation
Indices: 4399346--4399691 Score: 482
Period size: 139 Copynumber: 2.5 Consensus size: 139
4399336 CTAGCAAAAA
* *
4399346 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * * *
4399411 C-TCCTTCTGGAAATGCTGATCTTCAAAAGAGGGATTTGTTGATTCAACTCCATATGTGATGAAT
66 CTTCCTTCTGAAAATACTGATCCTCAAAAGAGGGATTTGTTCATTCAACTCCATAGGAGATGAAT
* *
4399475 TAAGGTAAG
131 CAAGGCAAG
*
4399484 GTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * *
4399549 CTTCC-TCTGAAAATATTGATCCTCAAATGA-GGTTCTTCTTTCATTCAATTCCATAGGAGATGA
66 CTTCCTTCTGAAAATACTGATCCTCAAAAGAGGGAT-TT-GTTCATTCAACTCCATAGGAGATGA
*
4399612 ATCAATGCAAG
129 ATCAAGGCAAG
* *
4399623 GTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
4399688 CTTC
66 CTTC
4399692 ACCTGGAAAT
Statistics
Matches: 185, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
137 3 0.02
138 85 0.46
139 97 0.52
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (139 bp):
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
CTTCCTTCTGAAAATACTGATCCTCAAAAGAGGGATTTGTTCATTCAACTCCATAGGAGATGAAT
CAAGGCAAG
Found at i:4399843 original size:124 final size:123
Alignment explanation
Indices: 4399620--4400289 Score: 490
Period size: 113 Copynumber: 5.7 Consensus size: 123
4399610 GAATCAATGC
* *
4399620 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
* * * *
4399685 GAAC-TTCACCTGGAAATAGCTCTGCTGCTCTATCT-CTTTTAG-GAAGTGGAGTCAAGAAA
66 GAACTTTC-TCTGGAAATAGCTCTGCTGATCTATCTCCTTCT-GTG-A-TAGAGTCAAGAAA
* * *
4399744 AATGTTGAACAAGTTCTTCTTATTATGAACTTCCTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
* * * * *
4399809 GAACTTTCTCTGGAAA-AG-TAAGTGTTGATCTATCTCCTTCTGTGATAGATTCATGCAA
66 GAACTTTCTCTGGAAATAGCT--CTGCTGATCTATCTCCTTCTGTGATAGAGTCAAGAAA
* *
4399867 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAATTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
* * * ** * ** *
4399932 GAACTTTCTTTGG-CA-A---C-GCTGATCCA--T-C--GGGTGAT-GAATTTGAGCAA
66 GAACTTTCTCTGGAAATAGCTCTGCTGATCTATCTCCTTCTGTGATAG-AGTCAAGAAA
* *
4399979 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTCCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
* * * * ** *
4400044 GAACTCTT-TCTGGAAA-A-----GCTG----A--TCCATCAGATGATGGATTTGAGCAA
66 GAACT-TTCTCTGGAAATAGCTCTGCTGATCTATCTCCTTCTG-TGATAGAGTCAAGAAA
* * *
4400091 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
* * * * * ** *
4400156 TGAACTTTTTCTGGAAA-A-----GCTG----A--TCCATCAGATGATGGATTTGAGCAA
65 TGAACTTTCTCTGGAAATAGCTCTGCTGATCTATCTCCTTCTG-TGATAGAGTCAAGAAA
* * *
4400204 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
*
4400269 TGAACTTTTTCTGGAAA-AGCT
65 TGAACTTTCTCTGGAAATAGCT
4400290 GATCCATCAG
Statistics
Matches: 488, Mismatches: 40, Indels: 44
0.85 0.07 0.08
Matches are distributed among these distances:
108 2 0.00
109 1 0.00
111 2 0.00
112 139 0.28
113 157 0.32
114 1 0.00
115 1 0.00
117 7 0.01
122 3 0.01
123 83 0.17
124 84 0.17
125 8 0.02
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (123 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
GAACTTTCTCTGGAAATAGCTCTGCTGATCTATCTCCTTCTGTGATAGAGTCAAGAAA
Found at i:4399997 original size:112 final size:113
Alignment explanation
Indices: 4399863--4400312 Score: 744
Period size: 113 Copynumber: 4.0 Consensus size: 113
4399853 ATAGATTCAT
** * *
4399863 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAATTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * *
4399927 ATTATGAACTTTCTT-TGGCAACGCTGATCCATCGGGTGATGAATTTGA
66 ATTATGAACTTT-TTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
* *
4399975 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTCCTTCC-TCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
4400039 ATTATGAACTCTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
*
4400087 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
4400152 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
*
4400200 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
4400265 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
66 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
4400313 ATCTTTGCTA
Statistics
Matches: 322, Mismatches: 14, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
111 2 0.01
112 140 0.43
113 180 0.56
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
Found at i:4400227 original size:225 final size:225
Alignment explanation
Indices: 4399863--4400312 Score: 742
Period size: 225 Copynumber: 2.0 Consensus size: 225
4399853 ATAGATTCAT
*
4399863 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAATTCTTCTCA
1 GCAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAATTCTTCTCA
* * * * *
4399928 TTATGAACTTTCTTTGGCAACGCTGATCCATCGGGTGATGAATTTGAGCAAAAGGTTGAACAAGT
66 TTATGAACTTTCTTTGGAAAAGCTGATCCATCAGATGATGAATTTGAGCAAAAGGTTGAACAAAT
4399993 TCTTCTCATTATGAACTTCTCCTTCC-TCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTGG
131 TCTTCTCATTATGAACTTCTCCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTGG
4400057 AAAAGCTGATCCATCAGATGATGGATTTGA
196 AAAAGCTGATCCATCAGATGATGGATTTGA
* * * *
4400087 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAATTCTTCTC
*
4400152 ATTATGAACTTT-TTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAA
65 ATTATGAACTTTCTT-TGGAAAAGCTGATCCATCAGATGATGAATTTGAGCAAAAGGTTGAACAA
* * *
4400216 ATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCT
129 ATTCTTCTCATTATGAACTTCTCCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCT
4400281 GGAAAAGCTGATCCATCAGATGATGGATTTGA
194 GGAAAAGCTGATCCATCAGATGATGGATTTGA
4400313 ATCTTTGCTA
Statistics
Matches: 209, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
224 43 0.21
225 99 0.47
226 67 0.32
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (225 bp):
GCAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAATTCTTCTCA
TTATGAACTTTCTTTGGAAAAGCTGATCCATCAGATGATGAATTTGAGCAAAAGGTTGAACAAAT
TCTTCTCATTATGAACTTCTCCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTTCTGG
AAAAGCTGATCCATCAGATGATGGATTTGA
Found at i:4400738 original size:22 final size:22
Alignment explanation
Indices: 4400713--4400767 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
4400703 CATAAAGTTT
*
4400713 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
4400735 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
4400757 TCATCTTTGAA
1 TCATCTTTGAA
4400768 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:4401263 original size:54 final size:54
Alignment explanation
Indices: 4401139--4401339 Score: 236
Period size: 54 Copynumber: 3.8 Consensus size: 54
4401129 CACTGGTTCA
* *
4401139 TAAAACATTTGACAATACATTCAT-CTTTTCATGTGGTTTCTG-TC-GAG-ATG
1 TAAAACATTTGACAACACATTCATCCTTTTCATGTGGTTTCTGCTCAGAGTTTG
* *
4401189 TAAAACACTTGACAACACATTCATCCTTTTC-TGTGGCTTCTGCTCAGATGTTTG
1 TAAAACATTTGACAACACATTCATCCTTTTCATGTGGTTTCTGCTCAGA-GTTTG
* * * **
4401243 TAAAACATTTGACAACACATTCATCC-TTTCTTGTGGTTTTTGCTTAGACGTTCA
1 TAAAACATTTGACAACACATTCATCCTTTTCATGTGGTTTCTGCTCAGA-GTTTG
* *
4401297 TAAAGCGTTTGACAACACATTCATCCTTTTC-TGTGGTTTCTGC
1 TAAAACATTTGACAACACATTCATCCTTTTCATGTGGTTTCTGC
4401340 CAAGATTTCT
Statistics
Matches: 130, Mismatches: 14, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
50 32 0.25
51 8 0.06
52 2 0.02
53 5 0.04
54 79 0.61
55 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (54 bp):
TAAAACATTTGACAACACATTCATCCTTTTCATGTGGTTTCTGCTCAGAGTTTG
Found at i:4401338 original size:108 final size:104
Alignment explanation
Indices: 4401139--4401339 Score: 269
Period size: 104 Copynumber: 1.9 Consensus size: 104
4401129 CACTGGTTCA
* * *
4401139 TAAAACATTTGACAATACATTCATCTTTTCATGTGGTTTCTGTCGAGATGTAAAACACTTGACAA
1 TAAAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGTCGAGACGTAAAACACTTGACAA
4401204 CACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
66 CACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
* * * **
4401243 TAAAACATTTGACAACACATTCATCCTTTCTTGTGGTTTTTG-CTTAGACGTTCATAAAGCGTTT
1 TAAAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGTC-GAGACG-T-A-AAA-CACTT
*
4401307 GACAACACATTCATCCTTTTCTGTGGTTTCTGC
61 GACAACACATTCATCCTTTTCTGTGGCTTCTGC
4401340 CAAGATTTCT
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
103 1 0.01
104 42 0.51
105 1 0.01
106 1 0.01
107 3 0.04
108 35 0.42
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (104 bp):
TAAAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGTCGAGACGTAAAACACTTGACAA
CACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
Found at i:4403427 original size:103 final size:107
Alignment explanation
Indices: 4403302--4403584 Score: 430
Period size: 103 Copynumber: 2.6 Consensus size: 107
4403292 CCTACCGAAT
* *
4403302 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAG
4403367 AAAATTCATCTTTCAAATCCAATGA-TT-GG-T-TACCAAAC
66 AAAATTCATCTTTCAAATCCAATGATTTGGGTTATACCAAAC
*
4403405 CAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAG
*
4403470 CAAATTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTTATACCAAAC
66 AAAATTCATCTTTCAAATCCAATGA------TTT-GGG-TTATACCAAAC
4403520 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAG
4403585 CACATGGCAC
Statistics
Matches: 163, Mismatches: 5, Indels: 12
0.91 0.03 0.07
Matches are distributed among these distances:
103 86 0.53
110 2 0.01
112 2 0.01
114 1 0.01
115 72 0.44
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (107 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAG
AAAATTCATCTTTCAAATCCAATGATTTGGGTTATACCAAAC
Found at i:4411764 original size:12 final size:11
Alignment explanation
Indices: 4411733--4411839 Score: 78
Period size: 11 Copynumber: 9.3 Consensus size: 11
4411723 ACTAAGATAA
4411733 AAATAATAATT
1 AAATAATAATT
4411744 AAATAATAATT
1 AAATAATAATT
4411755 AAAGTAATAATT
1 AAA-TAATAATT
4411767 -AA-AATATATT
1 AAATAATA-ATT
*
4411777 AAAAATAATAATA
1 --AAATAATAATT
4411790 AAATAAT-ATT
1 AAATAATAATT
*
4411800 ACAAATAAATAATG
1 --AAAT-AATAATT
*
4411814 AAATAAAATAACT
1 AAAT--AATAATT
4411827 AAATAA-AATT
1 AAATAATAATT
4411837 AAA
1 AAA
4411840 ACTACAATAT
Statistics
Matches: 79, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
9 4 0.05
10 11 0.14
11 25 0.32
12 16 0.20
13 17 0.22
14 6 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AAATAATAATT
Found at i:4411766 original size:23 final size:23
Alignment explanation
Indices: 4411732--4411819 Score: 92
Period size: 23 Copynumber: 3.8 Consensus size: 23
4411722 GACTAAGATA
4411732 AAAATAATAATTAAATAATAATT
1 AAAATAATAATTAAATAATAATT
*
4411755 AAAGTAATAATT-AA-AATATATT
1 AAAATAATAATTAAATAATA-ATT
*
4411777 AAAAATAATAATAAAATAAT-ATT
1 -AAAATAATAATTAAATAATAATT
*
4411800 ACAAATAAATAATGAAATAA
1 A-AAAT-AATAATTAAATAA
4411820 AATAACTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
21 4 0.07
22 6 0.11
23 28 0.51
24 14 0.25
25 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAATAATAATTAAATAATAATT
Found at i:4414112 original size:13 final size:13
Alignment explanation
Indices: 4414082--4414129 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
4414072 CGCAATGAGC
*
4414082 GTCATAAATGTGT
1 GTCATAAATGCGT
* *
4414095 TTCATAAATGCAT
1 GTCATAAATGCGT
*
4414108 GTCATAAATGCGC
1 GTCATAAATGCGT
4414121 GTCATAAAT
1 GTCATAAAT
4414130 TTATGACGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (13 bp):
GTCATAAATGCGT
Found at i:4418145 original size:13 final size:13
Alignment explanation
Indices: 4418129--4418175 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
4418119 CGCAATGAGC
*
4418129 GTCATAAATGCAT
1 GTCATAAATGCGT
*
4418142 GTCATAAATGTGT
1 GTCATAAATGCGT
4418155 GTCATAAATGCGT
1 GTCATAAATGCGT
*
4418168 TTCATAAA
1 GTCATAAA
4418176 GTGGCTTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (13 bp):
GTCATAAATGCGT
Found at i:4418151 original size:26 final size:26
Alignment explanation
Indices: 4418122--4418175 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
4418112 AATGATGCGC
4418122 AATGAGCGTCATAAATGCATGTCATA
1 AATGAGCGTCATAAATGCATGTCATA
* * * *
4418148 AATGTGTGTCATAAATGCGTTTCATA
1 AATGAGCGTCATAAATGCATGTCATA
4418174 AA
1 AA
4418176 GTGGCTTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (26 bp):
AATGAGCGTCATAAATGCATGTCATA
Found at i:4424753 original size:20 final size:20
Alignment explanation
Indices: 4424724--4424769 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
4424714 ATGTTCAAAA
*
4424724 AACCGGTTTGACCGGTTTTG
1 AACCGATTTGACCGGTTTTG
4424744 AACCGATTTGACCGGTTTTG
1 AACCGATTTGACCGGTTTTG
*
4424764 ACCCGA
1 AACCGA
4424770 CCCGTTGACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (20 bp):
AACCGATTTGACCGGTTTTG
Found at i:4424763 original size:10 final size:10
Alignment explanation
Indices: 4424725--4424766 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
4424715 TGTTCAAAAA
4424725 ACCGG-TTTG
1 ACCGGTTTTG
4424734 ACCGGTTTTG
1 ACCGGTTTTG
*
4424744 AACC-GATTTG
1 -ACCGGTTTTG
4424754 ACCGGTTTTG
1 ACCGGTTTTG
4424764 ACC
1 ACC
4424767 CGACCCGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 8 0.29
10 17 0.61
11 3 0.11
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:4424818 original size:29 final size:29
Alignment explanation
Indices: 4424780--4424837 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
4424770 CCCGTTGACC
* * *
4424780 GGGTGTTAGTTTTGTAATTATTTTTAAAA
1 GGGTGCTAGTTTCGTAAATATTTTTAAAA
4424809 GGGTGCTAGTTTCGTAAATATTTTTAAAA
1 GGGTGCTAGTTTCGTAAATATTTTTAAAA
4424838 ATGGTGATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.47
Consensus pattern (29 bp):
GGGTGCTAGTTTCGTAAATATTTTTAAAA
Found at i:4425845 original size:42 final size:41
Alignment explanation
Indices: 4425786--4426030 Score: 298
Period size: 42 Copynumber: 5.9 Consensus size: 41
4425776 GAAGTATTCT
* *
4425786 CAGGTCTCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTC
1 CAGGTCCCTTTGTTGTGTGCAAAGGTAAGCCTTACAGTTTC
* *
4425827 ACAGGTCCCTTTGTTGTGTGTAAATGTAAGCCTTACAGTTTC
1 -CAGGTCCCTTTGTTGTGTGCAAAGGTAAGCCTTACAGTTTC
4425869 TCAGGTCCCTTTGTTGTGTGCAAAGGTAAGCCTTACAGTTTCC
1 -CAGGTCCCTTTGTTGTGTGCAAAGGTAAGCCTTACAGTTT-C
* *
4425912 CAGGTCACTTTGCTGTGTGCAAAGGT-AGCCTTACAGTTTC
1 CAGGTCCCTTTGTTGTGTGCAAAGGTAAGCCTTACAGTTTC
* * *
4425952 CAGGTTCCTTTGTTGTGTACAAGGGTAAGCCTTACAGTTTTC
1 CAGGTCCCTTTGTTGTGTGCAAAGGTAAGCCTTACAG-TTTC
* *
4425994 CTAGG-CTCCTCTGCTT-TGTGCACAGGTTAAGCCTTAC
1 C-AGGTC-CCTTTG-TTGTGTGCAAAGG-TAAGCCTTAC
4426031 TGGTGTACAT
Statistics
Matches: 177, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
40 22 0.12
41 23 0.13
42 104 0.59
43 16 0.09
44 12 0.07
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (41 bp):
CAGGTCCCTTTGTTGTGTGCAAAGGTAAGCCTTACAGTTTC
Found at i:4426027 original size:126 final size:126
Alignment explanation
Indices: 4425786--4426030 Score: 338
Period size: 124 Copynumber: 1.9 Consensus size: 126
4425776 GAAGTATTCT
* **
4425786 CAGGTCTCTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCACAGGTCCCTTTGTTGTGTGTAAA
1 CAGGTCACTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCACAGGTCCCTTTGTTGTGTACAAA
* *
4425851 TGTAAGCCTTACAGTTTCTCAGGTCCCTTTGTTGTGTGCAAAGGTAAGCCTTACAGTTTCC
66 GGTAAGCCTTACAGTTTCTCAGGTCCCTCTGTTGTGTGCAAAGGTAAGCCTTACAGTTTCC
* *
4425912 CAGGTCACTTTGCTGTGTGCAAAGGT-AGCCTTACAGTTTC-CAGGTTCCTTTGTTGTGTACAAG
1 CAGGTCACTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCACAGGTCCCTTTGTTGTGTACAAA
*
4425975 GGTAAGCCTTACAGTTT-TCCTAGG-CTCCTCTGCTT-TGTGCACAGGTTAAGCCTTAC
66 GGTAAGCCTTACAGTTTCT-C-AGGTC-CCTCTG-TTGTGTGCAAAGG-TAAGCCTTAC
4426031 TGGTGTACAT
Statistics
Matches: 106, Mismatches: 8, Indels: 10
0.85 0.06 0.08
Matches are distributed among these distances:
123 1 0.01
124 37 0.35
125 31 0.29
126 37 0.35
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (126 bp):
CAGGTCACTTTGCTGTGTGCAAAGGTAAGCCTTACAGTTTCACAGGTCCCTTTGTTGTGTACAAA
GGTAAGCCTTACAGTTTCTCAGGTCCCTCTGTTGTGTGCAAAGGTAAGCCTTACAGTTTCC
Found at i:4427948 original size:44 final size:44
Alignment explanation
Indices: 4427882--4427980 Score: 162
Period size: 44 Copynumber: 2.2 Consensus size: 44
4427872 CAACTTGTCA
* *
4427882 ACTTGCCTAATCAAAAATGAATTATCTCATGTGCACAAGTTGGCC
1 ACTTGCC-AACCAAAAATGAATTATCCCATGTGCACAAGTTGGCC
*
4427927 ACTTGCCAACCAAAGATGAATTATCCCATGTGCACAAGTTGGCC
1 ACTTGCCAACCAAAAATGAATTATCCCATGTGCACAAGTTGGCC
4427971 ACTTGCCAAC
1 ACTTGCCAAC
4427981 TTGTAAGCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 44 0.86
45 7 0.14
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (44 bp):
ACTTGCCAACCAAAAATGAATTATCCCATGTGCACAAGTTGGCC
Found at i:4429949 original size:21 final size:21
Alignment explanation
Indices: 4429910--4429949 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4429900 CTTGCTGAAA
*
4429910 CTCCACCTGTTTTGAAGTATG
1 CTCCACCTGTTGTGAAGTATG
*
4429931 CTCCACCTGTTGTGGAGTA
1 CTCCACCTGTTGTGAAGTA
4429950 CTACTTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (21 bp):
CTCCACCTGTTGTGAAGTATG
Found at i:4431964 original size:44 final size:43
Alignment explanation
Indices: 4431889--4431971 Score: 112
Period size: 44 Copynumber: 1.9 Consensus size: 43
4431879 TAGTTTAGGG
*
4431889 ACCAAAGATGAAGTTCACATGTTCACAAGTTGGCCACTTTCCA
1 ACCAAAGATGAAGTTCACATGTGCACAAGTTGGCCACTTTCCA
* * * *
4431932 ACCAAAGATGAATTATCCCATGTGCTCAAGTTGTCCACTT
1 ACCAAAGATGAAGT-TCACATGTGCACAAGTTGGCCACTT
4431972 GTCAACTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 13 0.38
44 21 0.62
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
ACCAAAGATGAAGTTCACATGTGCACAAGTTGGCCACTTTCCA
Found at i:4433731 original size:17 final size:16
Alignment explanation
Indices: 4433705--4433738 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4433695 TTTCACTAAT
*
4433705 AGAGGAAATATTACAA
1 AGAGGAAATAGTACAA
4433721 AGAGAGAAATAGTACAA
1 AGAG-GAAATAGTACAA
4433738 A
1 A
4433739 TAGCCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.59, C:0.06, G:0.21, T:0.15
Consensus pattern (16 bp):
AGAGGAAATAGTACAA
Found at i:4436105 original size:44 final size:44
Alignment explanation
Indices: 4436057--4436140 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
4436047 AAAATTATAC
*
4436057 TAATTTACTAATAGATAA-AAAAAGATGA-TAAATTAATAATCTAT
1 TAATTTACTAATAAATAATAAAAA-AT-ACTAAATTAATAATCTAT
* *
4436101 TAATTTTCTAATAAATAATAAAAAATACTAAATTATTAAT
1 TAATTTACTAATAAATAATAAAAAATACTAAATTAATAAT
4436141 TAATATTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 1 0.03
44 29 0.83
45 5 0.14
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.37
Consensus pattern (44 bp):
TAATTTACTAATAAATAATAAAAAATACTAAATTAATAATCTAT
Found at i:4444782 original size:21 final size:22
Alignment explanation
Indices: 4444739--4444783 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
4444729 ATAAAATGCA
4444739 CCGAAGTGCCACATAGAATGTC
1 CCGAAGTGCCACATAGAATGTC
4444761 CCGAA-TGACCACATAG-ATGTC
1 CCGAAGTG-CCACATAGAATGTC
4444782 CC
1 CC
4444784 AAAGGACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (22 bp):
CCGAAGTGCCACATAGAATGTC
Found at i:4444820 original size:23 final size:21
Alignment explanation
Indices: 4444767--4444861 Score: 64
Period size: 21 Copynumber: 4.4 Consensus size: 21
4444757 TGTCCCGAAT
* * *
4444767 GACCACATAGATGTCCCAAAG
1 GACCACATATATATTCCAAAG
* * *
4444788 GACTAAATATATATATCCTGAAG
1 GACCACATATATAT-TCC-AAAG
*
4444811 GACCACATATATGTTCCAAAG
1 GACCACATATATATTCCAAAG
* * * *
4444832 GACCGCATATATGTCCCGAAG
1 GACCACATATATATTCCAAAG
*
4444853 GACCGCATA
1 GACCACATA
4444862 GAACCCTCGA
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
21 40 0.68
22 5 0.08
23 14 0.24
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (21 bp):
GACCACATATATATTCCAAAG
Found at i:4444822 original size:21 final size:20
Alignment explanation
Indices: 4444796--4444861 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
4444786 AGGACTAAAT
*
4444796 ATATATATCCTGAAGGACCAC
1 ATATATATCC-GAAGGACCGC
* *
4444817 ATATATGTTCCAAAGGACCGC
1 ATATAT-ATCCGAAGGACCGC
*
4444838 ATATATGTCCCGAAGGACCGC
1 ATATATAT-CCGAAGGACCGC
4444859 ATA
1 ATA
4444862 GAACCCTCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 1 0.03
21 34 0.89
22 3 0.08
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATATATATCCGAAGGACCGC
Found at i:4449008 original size:23 final size:22
Alignment explanation
Indices: 4448964--4449102 Score: 70
Period size: 21 Copynumber: 6.5 Consensus size: 22
4448954 CACTGAAGTG
*
4448964 CCACATAGAATGTCTCGAAGGA
1 CCACATAGAATGTCCCGAAGGA
* *
4448986 CCACGTAGAATTGTCCCGTAGGA
1 CCACATAGAA-TGTCCCGAAGGA
* * *
4449009 CCACATA-TATGTTCCAAAGGA
1 CCACATAGAATGTCCCGAAGGA
* * * **
4449030 CCAAATA-TATATCATGAAGGA
1 CCACATAGAATGTCCCGAAGGA
* * * *
4449051 CCACATA-TATGTTCCAAATGA
1 CCACATAGAATGTCCCGAAGGA
** *
4449072 CCACAT-TTATGTCCCGAATGA
1 CCACATAGAATGTCCCGAAGGA
*
4449093 CCGCATAGAA
1 CCACATAGAA
4449103 CCATCGACTC
Statistics
Matches: 88, Mismatches: 26, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
21 61 0.69
22 11 0.12
23 16 0.18
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (22 bp):
CCACATAGAATGTCCCGAAGGA
Found at i:4449031 original size:21 final size:21
Alignment explanation
Indices: 4449005--4449083 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
4448995 ATTGTCCCGT
4449005 AGGACCACATATATGTTCCAA
1 AGGACCACATATATGTTCCAA
* *
4449026 AGGACCAAATATAT-AT-CATGA
1 AGGACCACATATATGTTCCA--A
4449047 AGGACCACATATATGTTCCAA
1 AGGACCACATATATGTTCCAA
* *
4449068 ATGACCACATTTATGT
1 AGGACCACATATATGT
4449084 CCCGAATGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.04
20 1 0.02
21 42 0.88
22 1 0.02
23 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (21 bp):
AGGACCACATATATGTTCCAA
Found at i:4449091 original size:21 final size:21
Alignment explanation
Indices: 4449007--4449099 Score: 78
Period size: 21 Copynumber: 4.4 Consensus size: 21
4448997 TGTCCCGTAG
* *
4449007 GACCACATATATGTTCCAAAG
1 GACCACATATATGTCCCAAAT
* * *** *
4449028 GACCAAATATATATCATGAAG
1 GACCACATATATGTCCCAAAT
*
4449049 GACCACATATATGTTCCAAAT
1 GACCACATATATGTCCCAAAT
* *
4449070 GACCACATTTATGTCCCGAAT
1 GACCACATATATGTCCCAAAT
*
4449091 GACCGCATA
1 GACCACATA
4449100 GAACCATCGA
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.25
Consensus pattern (21 bp):
GACCACATATATGTCCCAAAT
Found at i:4449339 original size:20 final size:20
Alignment explanation
Indices: 4449314--4449362 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
4449304 TCATATAATC
*
4449314 ACTTATATCTATACCAAATT
1 ACTTATATCTATACCAAATG
4449334 ACTTATATCTATACCAAATG
1 ACTTATATCTATACCAAATG
*
4449354 GCTTATATC
1 ACTTATATC
4449363 ACTTTCTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (20 bp):
ACTTATATCTATACCAAATG
Found at i:4450212 original size:19 final size:18
Alignment explanation
Indices: 4450183--4450225 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4450173 CAAATTCAAC
4450183 TATACTCACTTAAACCATCT
1 TATA-TCACTTAAA-CATCT
*
4450203 TATATCACTTGAACATCT
1 TATATCACTTAAACATCT
*
4450221 AATAT
1 TATAT
4450226 TCAATATCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 8 0.38
20 4 0.19
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.37
Consensus pattern (18 bp):
TATATCACTTAAACATCT
Found at i:4450225 original size:18 final size:19
Alignment explanation
Indices: 4450188--4450225 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
4450178 TCAACTATAC
*
4450188 TCACTTAAACCATCTTATA
1 TCACTTAAACCATCTAATA
*
4450207 TCACTTGAA-CATCTAATA
1 TCACTTAAACCATCTAATA
4450225 T
1 T
4450226 TCAATATCTC
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:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (19 bp):
TCACTTAAACCATCTAATA
Found at i:4451625 original size:67 final size:69
Alignment explanation
Indices: 4451483--4451626 Score: 159
Period size: 67 Copynumber: 2.1 Consensus size: 69
4451473 TAGTGTATTA
* * *
4451483 TATGTGCAATTCTACATGGCACATTTGTGTGGAATTCTACGCGGTAATTTCGACTGCATAATAGC
1 TATGTGCAATTATACATGGCACATTTGTGTGCAATTCTACGCGGTAATTTCGACTACATAATAGC
4451548 ACTT
66 ACTT
* * * * * * * *
4451552 CATGTGCAATTATACGTGGCAC-TTTGTGTGCAATTTTA-TCGTTAGTTTTGACTATATAAT-GA
1 TATGTGCAATTATACATGGCACATTTGTGTGCAATTCTACGCGGTAATTTCGACTACATAATAG-
4451614 CACTT
65 CACTT
4451619 TATGTGCA
1 TATGTGCA
4451627 TATCTATGCA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
66 1 0.02
67 28 0.45
68 14 0.23
69 19 0.31
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (69 bp):
TATGTGCAATTATACATGGCACATTTGTGTGCAATTCTACGCGGTAATTTCGACTACATAATAGC
ACTT
Found at i:4458394 original size:20 final size:20
Alignment explanation
Indices: 4458371--4458417 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
4458361 GAATGTAAGT
*
4458371 TTATCAGTGAGAATAAAAGA
1 TTATCAGCGAGAATAAAAGA
* *
4458391 TTATCGGCGGGAATAAAAGA
1 TTATCAGCGAGAATAAAAGA
4458411 TTATCAG
1 TTATCAG
4458418 GAAATATGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.26
Consensus pattern (20 bp):
TTATCAGCGAGAATAAAAGA
Found at i:4458638 original size:38 final size:37
Alignment explanation
Indices: 4458563--4458640 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
4458553 TTAGAAAATA
* *
4458563 TTTATATATTTTCTTTAAAAAATTTAAATTCATAAAG
1 TTTATATATTTTCTTTAAAAAATTAAAATTCAAAAAG
*
4458600 TTTATATAATTTT-TTTACAAAATTGAAAATAT-AAAAAG
1 TTTATAT-ATTTTCTTTAAAAAATT-AAAAT-TCAAAAAG
4458638 TTT
1 TTT
4458641 TAATGAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
37 17 0.49
38 17 0.49
39 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTATATATTTTCTTTAAAAAATTAAAATTCAAAAAG
Found at i:4459964 original size:42 final size:43
Alignment explanation
Indices: 4459865--4460056 Score: 134
Period size: 43 Copynumber: 4.6 Consensus size: 43
4459855 AAATAGTTAC
* * **
4459865 CTCAATTATAAAGATAAAAAGTGAGATTGAAAAAATTACGGGT
1 CTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAAGGT
* *
4459908 CTTAACTATAAAGGTAAAATA-TGAGATTAAAAAAATTAAAGG-
1 CTCAATTATAAAGGTAAAA-AGTGAGATTAAAAAAATTAAAGGT
* * * * **
4459950 CATCAATTAT-AAGGTAAAAAGTGGGATTGAAAATATTAGGAGAA
1 C-TCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTA-AAGGT
* * *
4459994 CTC-ATT-T--A--TAAAAAGTGATATTAAAAAAATT-ATGGG
1 CTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAAGGT
*
4460030 CTTCAATTATAAAGATAAAAAGTGAGA
1 C-TCAATTATAAAGGTAAAAAGTGAGA
4460057 CTTATGAAAT
Statistics
Matches: 115, Mismatches: 22, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
36 2 0.02
37 2 0.02
38 22 0.19
39 1 0.01
40 1 0.01
41 3 0.03
42 27 0.23
43 55 0.48
44 2 0.02
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (43 bp):
CTCAATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAAGGT
Found at i:4461668 original size:2 final size:2
Alignment explanation
Indices: 4461663--4461692 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4461653 AGAAACACAC
4461663 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
4461693 GGCCTTGATG
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:4468478 original size:23 final size:23
Alignment explanation
Indices: 4468429--4468518 Score: 71
Period size: 23 Copynumber: 3.9 Consensus size: 23
4468419 ATCGGTAGAT
* * *
4468429 TTTAATAAATTATATATTAT-AAT
1 TTTATTAAATT-TATAATATAAAA
4468452 TTTATTAAATTTATAATATAAAA
1 TTTATTAAATTTATAATATAAAA
4468475 TTTATTAAAATTTACATAA-ATAAAA
1 TTTATT-AAATTT--ATAATATAAAA
*
4468500 -TTATTATCA-TTATAATATA
1 TTTATTA-AATTTATAATATA
4468519 GATGTATTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
21 4 0.07
22 10 0.18
23 21 0.37
24 12 0.21
25 6 0.11
26 4 0.07
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTATTAAATTTATAATATAAAA
Found at i:4469014 original size:22 final size:22
Alignment explanation
Indices: 4468985--4469039 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
4468975 CCTAACTTAA
* *
4468985 AACC-CTAAACCATAATCCTAT
1 AACCTCTAAACCATAACCCCAT
*
4469006 AACCTCTAAACTATAACCCCAT
1 AACCTCTAAACCATAACCCCAT
*
4469028 AACCTTTAAACC
1 AACCTCTAAACC
4469040 TCAAACCCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.24
Consensus pattern (22 bp):
AACCTCTAAACCATAACCCCAT
Found at i:4473793 original size:15 final size:16
Alignment explanation
Indices: 4473763--4473793 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4473753 GTAGAAATAA
4473763 AAGATTACTAGGGAAT
1 AAGATTACTAGGGAAT
4473779 AAGATTACT-GGGAAT
1 AAGATTACTAGGGAAT
4473794 GTTATATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (16 bp):
AAGATTACTAGGGAAT
Found at i:4478964 original size:22 final size:22
Alignment explanation
Indices: 4478939--4478981 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4478929 ACAACTTCAA
4478939 TAATAAATTATTTT-AAATAAAT
1 TAATAAA-TATTTTAAAATAAAT
**
4478961 TAATTTATATTTTAAAATAAA
1 TAATAAATATTTTAAAATAAA
4478982 ACAATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATAAATATTTTAAAATAAAT
Found at i:4478987 original size:22 final size:22
Alignment explanation
Indices: 4478947--4479034 Score: 97
Period size: 22 Copynumber: 3.9 Consensus size: 22
4478937 AATAATAAAT
*
4478947 TATTTT-AAATAAATTAATTTA
1 TATTTTAAAATAAATCAATTTA
*
4478968 TATTTTAAAATAAAACAATTTA
1 TATTTTAAAATAAATCAATTTA
* *
4478990 TATAATCATAATAATAAATCAATTCA
1 TAT--T-TTAA-AATAAATCAATTTA
4479016 TATTTTAAAATAAATCAAT
1 TATTTTAAAATAAATCAAT
4479035 CCATACTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
21 6 0.11
22 27 0.48
23 3 0.05
24 2 0.04
25 3 0.05
26 15 0.27
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
TATTTTAAAATAAATCAATTTA
Found at i:4479074 original size:21 final size:21
Alignment explanation
Indices: 4479050--4479090 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4479040 CTAAAAATTA
*
4479050 TTAAAATAAATCAATTCATAT
1 TTAAAATAAATCAATCCATAT
4479071 TTAAAATAAATCAATCCATA
1 TTAAAATAAATCAATCCATA
4479091 CTAATAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (21 bp):
TTAAAATAAATCAATCCATAT
Found at i:4479088 original size:51 final size:53
Alignment explanation
Indices: 4478939--4479116 Score: 210
Period size: 52 Copynumber: 3.5 Consensus size: 53
4478929 ACAACTTCAA
* * * * *
4478939 TAATAAATTATTTTAAATAAATTAATTTATATTTTAAAATAAAACAAT--TTA-
1 TAATAAATTA-TTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
*
4478990 T-AT-AATCA-TAATAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTAA-AATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
4479041 TAA-AAATTATTAAAATAAATCAATTCATA-TTTAAAATAAATCAATCCATAC
1 TAATAAATTATTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
* *
4479092 TAATAGATTATTTAAATAAATCAAT
1 TAATAAATTATTAAAATAAATCAAT
4479117 CTATAACAAC
Statistics
Matches: 110, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
47 2 0.02
48 30 0.27
49 4 0.04
50 4 0.04
51 27 0.25
52 40 0.36
53 3 0.03
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.38
Consensus pattern (53 bp):
TAATAAATTATTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
Found at i:4479236 original size:32 final size:31
Alignment explanation
Indices: 4479200--4479307 Score: 126
Period size: 32 Copynumber: 3.7 Consensus size: 31
4479190 CAATAGATAT
4479200 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAAT-AATTA
4479232 TTTAAAATAAATCAAT---T-C--AT-A-T-
1 TTTAAAATAAATCAATCCATACTAATAATTA
4479254 TTTAAAATAAATCAATCCATACTAATAGATTA
1 TTTAAAATAAATCAATCCATACTAATA-ATTA
*
4479286 TTTAAAATAAATCAATCTATAC
1 TTTAAAATAAATCAATCCATAC
4479308 AACTACAATA
Statistics
Matches: 65, Mismatches: 1, Indels: 20
0.76 0.01 0.23
Matches are distributed among these distances:
22 16 0.25
23 1 0.02
24 1 0.02
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
30 1 0.02
31 1 0.02
32 37 0.57
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAATTA
Found at i:4479245 original size:54 final size:54
Alignment explanation
Indices: 4479130--4480016 Score: 650
Period size: 54 Copynumber: 16.2 Consensus size: 54
4479120 TAACAACTAC
*
4479130 AAAT-AATCAATCCATATTTTAAAATAAATC-ATCCATACTAAT-AATTATTTTTA
1 AAATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTA--TTTA
*
4479183 AAAT-AATCAATAGATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
1 AAATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
* *
4479236 AAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAGATTATTTA
1 AAATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
* ** * ** * *
4479290 AAATAAATCAAT-CTATACAACTACAATAATAAATCAATTCATA-TTTTAAATATAATCA
1 AAATAAATCAATAC-AT---ATTTTAA-AATAAATCAATCCATACTAATAAAT-TATTTA
** * * *
4479348 GTAT-ACTAAATAAAT-TATTTAAAATAAATCAATCCATACTAATAAATTATTT-
1 AAATAAATCAATACATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTA
*
4479400 AAA-AAATC-ATCCA-ATTTTTAAAATAAATCAATCCATACTAATAAATTATTT-
1 AAATAAATCAATACATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTA
* * *
4479451 AAATAAATCAATTCATATTTTAAAATAAATCAATCC-TACTAATAGA-GA-TTA
1 AAATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
* * ** ** * **
4479502 AAATAAATCAAT-TATAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-
1 AAATAAATCAATACAT-ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTA
* * * **
4479555 CAATATATACTAATAAAT-TATTTAAAATAAATCAATATATACTAATAAATTATTTA
1 AAATAAAT-C-AATACATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTA
*
4479611 AAATAAATCAAT-CGATATTTTAAAATAAATCAATCAATACTAATAAATTATTTA
1 AAATAAATCAATAC-ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
* *
4479665 AAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAGATTATTTA
1 AAATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
* ** * ** * **
4479719 AAATAAATCAAT-CTATACAACTACAATAATAAATCAATCTATA-TTTTAAAATAAAT-
1 AAATAAATCAATAC-AT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTA
** * *
4479775 AAATCTATACTAATAAAT-TATTTAAAATAAATCAATCCATACTAATAAATTGTTTA
1 AAATAAAT-C-AATACATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTA
* * * *
4479831 AAATAAATCAATCCATATTTTAAAATAAATCAAACAACACAATAATATCAATCCATATTTTA
1 AAATAAATCAATACATATTTTAAAATAAATCAATC--CATACTAATA--AAT---TA-TTTA
*
4479893 AAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T-
1 AAATAAATC-A---ATAC--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTA
*
4479952 -AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
1 AAATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
4480005 AAATAAATCAAT
1 AAATAAATCAAT
4480017 TCATGCTAAT
Statistics
Matches: 660, Mismatches: 103, Indels: 141
0.73 0.11 0.16
Matches are distributed among these distances:
48 25 0.04
49 3 0.00
50 6 0.01
51 58 0.09
52 38 0.06
53 88 0.13
54 251 0.38
55 34 0.05
56 28 0.04
57 29 0.04
58 52 0.08
60 1 0.00
61 1 0.00
62 13 0.02
63 2 0.00
66 3 0.00
68 3 0.00
69 2 0.00
70 6 0.01
71 1 0.00
72 16 0.02
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (54 bp):
AAATAAATCAATACATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
Found at i:4479258 original size:22 final size:22
Alignment explanation
Indices: 4479232--4479274 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4479222 TAATAAATTA
*
4479232 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
4479254 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
4479275 CTAATAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4479367 original size:32 final size:31
Alignment explanation
Indices: 4479331--4479403 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 31
4479321 AATCAATTCA
* *
4479331 TATTTTAAATATAATCAGT-ATACTAAATAAAT
1 TATTTAAAATA-AATCAATCATACT-AATAAAT
4479363 TATTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAAT-CATACTAATAAAT
4479395 TATTTAAAA
1 TATTTAAAA
4479404 AATCATCCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 6 0.16
32 26 0.70
33 5 0.14
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.38
Consensus pattern (31 bp):
TATTTAAAATAAATCAATCATACTAATAAAT
Found at i:4479569 original size:18 final size:18
Alignment explanation
Indices: 4479548--4479604 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
4479538 CATATTTTAA
4479548 AATAAATCAATATATACT
1 AATAAATCAATATATACT
* *
4479566 AATAAAT---TATTTA-A
1 AATAAATCAATATATACT
4479580 AATAAATCAATATATACT
1 AATAAATCAATATATACT
4479598 AATAAAT
1 AATAAAT
4479605 TATTTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 7 0.23
15 5 0.16
17 5 0.16
18 14 0.45
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAATCAATATATACT
Found at i:4479584 original size:32 final size:32
Alignment explanation
Indices: 4479543--4479622 Score: 160
Period size: 32 Copynumber: 2.5 Consensus size: 32
4479533 CAATCCATAT
4479543 TTTAAAATAAATCAATATATACTAATAAATTA
1 TTTAAAATAAATCAATATATACTAATAAATTA
4479575 TTTAAAATAAATCAATATATACTAATAAATTA
1 TTTAAAATAAATCAATATATACTAATAAATTA
4479607 TTTAAAATAAATCAAT
1 TTTAAAATAAATCAAT
4479623 CGATATTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (32 bp):
TTTAAAATAAATCAATATATACTAATAAATTA
Found at i:4479585 original size:14 final size:14
Alignment explanation
Indices: 4479566--4479618 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
4479556 AATATATACT
4479566 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
4479580 AATAAATCAATATATACT
1 AATAAAT---TATTTA-A
4479598 AATAAATTATTTAA
1 AATAAATTATTTAA
4479612 AATAAAT
1 AATAAAT
4479619 CAATCGATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:4479658 original size:22 final size:22
Alignment explanation
Indices: 4479609--4479657 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4479599 ATAAATTATT
* **
4479609 TAAAATAAATCAATCGATATTT
1 TAAAATAAATCAATCAATATAA
4479631 TAAAATAAATCAATCAATACTAA
1 TAAAATAAATCAATCAATA-TAA
4479654 TAAA
1 TAAA
4479658 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCAATATAA
Found at i:4479667 original size:32 final size:32
Alignment explanation
Indices: 4479629--4480099 Score: 250
Period size: 32 Copynumber: 16.4 Consensus size: 32
4479619 CAATCGATAT
*
4479629 TTTAAAATAAATCAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
4479661 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
4479683 TTTAAAATAAATCAATCCATACTAATAGATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
4479715 TTTAAAATAAATCAATCTATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
4479745 --T--AATAAATCAATCTATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
4479770 --T-AAATAAATC--T--ATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
4479795 TTTAAAATAAATCAATCCATACTAATAAATTG
1 TTTAAAATAAATCAATCCATACTAATAAATTA
** *
4479827 TTTAAAATAAATCAATCCATA-TTTTAAAATA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
** * * * **
4479858 AATCAAACAACA-CAAT-AATA-TCAATCCATAT-
1 TTTAAAATAA-ATCAATCCATACT-AATAAAT-TA
4479889 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
4479921 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
4479951 --T--AATAAATCAATTCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
4479976 -------TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
4480001 TTTAAAATAAATCAATTCATGCTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
4480033 TTTAAAAATAAATTAAT-C---C--AT--A-T-
1 TTT-AAAATAAATCAATCCATACTAATAAATTA
4480056 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
4480088 TTTAAAATAAAT
1 TTTAAAATAAAT
4480100 TATTTTAAAA
Statistics
Matches: 345, Mismatches: 41, Indels: 106
0.70 0.08 0.22
Matches are distributed among these distances:
22 44 0.13
23 15 0.04
24 3 0.01
25 13 0.04
26 43 0.12
27 3 0.01
28 16 0.05
29 2 0.01
30 10 0.03
31 35 0.10
32 148 0.43
33 13 0.04
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:4479687 original size:22 final size:22
Alignment explanation
Indices: 4479661--4479703 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4479651 TAATAAATTA
*
4479661 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
4479683 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
4479704 CTAATAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4479764 original size:80 final size:80
Alignment explanation
Indices: 4479666--4479816 Score: 250
Period size: 80 Copynumber: 1.9 Consensus size: 80
4479656 AATTATTTAA
* *
4479666 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAGATTATTTAAAATAAATCAAT
1 AATAAATCAATTCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
4479731 CTATACAACTACAAT
66 CCATACAACTACAAT
*
4479746 AATAAATCAA-TCTATATTTTAAAATAAATAAATCTATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATTC-ATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAA
4479810 TCCATAC
65 TCCATAC
4479817 TAATAAATTG
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
79 2 0.03
80 64 0.97
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (80 bp):
AATAAATCAATTCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:4479855 original size:22 final size:22
Alignment explanation
Indices: 4479827--4479909 Score: 95
Period size: 22 Copynumber: 4.0 Consensus size: 22
4479817 TAATAAATTG
4479827 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
4479849 TTTAAAATAAATCAA-ACA-A-
1 TTTAAAATAAATCAATCCATAT
* *
4479868 --CACAATAATATCAATCCATAT
1 TTTAAAATAA-ATCAATCCATAT
4479889 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
4479910 CTAATAAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
17 6 0.12
18 5 0.10
19 2 0.04
20 2 0.04
21 2 0.04
22 26 0.53
23 6 0.12
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4479898 original size:206 final size:206
Alignment explanation
Indices: 4479666--4480070 Score: 697
Period size: 206 Copynumber: 2.0 Consensus size: 206
4479656 AATTATTTAA
* *
4479666 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAGATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
4479731 CTATACAACTACAATAATAAATCAA-TCTATATTTTAAAATAAATAAATCTATACTAATAAATTA
66 CCATACAACTACAATAATAAATCAATTC-ATATTTTAAAATAAATAAATCCATACTAATAAATTA
*
4479795 TTTAAAATAAATCAATCCATACTAATAAATTGTTT-AAAATAAATCAATCCATATTTTAAAATAA
130 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAATAAATCAATCCATATTTTAAAATAA
4479859 ATCAAACAACAC
195 ATCAAACAACAC
4479871 AATAATATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
1 AATAA-ATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA
*
4479936 TCCATACAACTACAATAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTA
65 TCCATACAACTACAATAATAAATCAATTCATATTTTAAAATAAATAAATCCATACTAATAAATTA
* * *
4480001 TTTAAAATAAATCAATTCATGCTAATAAATTATTTAAAAATAAATTAATCCATATTTTAAAATAA
130 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAATAAATCAATCCATATTTTAAAATAA
4480066 ATCAA
195 ATCAA
4480071 TCCATACTAA
Statistics
Matches: 188, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
205 5 0.03
206 148 0.79
207 35 0.19
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (206 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAATAATAAATCAATTCATATTTTAAAATAAATAAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACTAATAAATTATTTAAAAATAAATCAATCCATATTTTAAAATAAA
TCAAACAACAC
Found at i:4479918 original size:22 final size:23
Alignment explanation
Indices: 4479871--4479917 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
4479861 CAAACAACAC
**
4479871 AATAATATCAATCCATATTTTAA
1 AATAATATCAATCCATATAATAA
4479894 AATAA-ATCAATCCATACTAATAA
1 AATAATATCAATCCATA-TAATAA
4479917 A
1 A
4479918 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (23 bp):
AATAATATCAATCCATATAATAA
Found at i:4479961 original size:80 final size:83
Alignment explanation
Indices: 4479864--4480099 Score: 333
Period size: 87 Copynumber: 2.9 Consensus size: 83
4479854 AATAAATCAA
4479864 ACAAC-ACAATAAT--ATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 ACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
4479926 AATAAATCAA-TC-C-AT
66 AATAAATCAATTCACAAT
*
4479941 ACAACTACAATAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 ACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
4480006 AATAAATCAATTCATGCTAAT
66 AATAAATCAATTCA--C-AAT
* * * *
4480027 A-AATTATTTAAAAATAAATTAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
1 ACAACTA--CAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
4480091 AAAATAAAT
64 AAAATAAAT
4480100 TATTTTAAAA
Statistics
Matches: 142, Mismatches: 6, Indels: 12
0.89 0.04 0.08
Matches are distributed among these distances:
77 5 0.04
78 8 0.06
80 58 0.41
81 2 0.01
84 1 0.01
85 4 0.03
86 3 0.02
87 61 0.43
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (83 bp):
ACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
AATAAATCAATTCACAAT
Found at i:4479998 original size:22 final size:23
Alignment explanation
Indices: 4479923--4479997 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
4479913 ATAAATTATT
4479923 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
* **
4479945 CTACAATAATAAATCAATTCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
4479971 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
4479994 TAAA
1 TAAA
4479998 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:4480049 original size:23 final size:22
Alignment explanation
Indices: 4480023--4480067 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4480013 CAATTCATGC
4480023 TAATAAATTATTTAAAAATAAAT
1 TAATAAA-TATTTAAAAATAAAT
** *
4480046 TAATCCATATTTTAAAATAAAT
1 TAATAAATATTTAAAAATAAAT
4480068 CAATCCATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATAAATATTTAAAAATAAAT
Found at i:4480056 original size:22 final size:22
Alignment explanation
Indices: 4480031--4480076 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
4480021 GCTAATAAAT
*
4480031 TATTTAAAAATAAATTAATCCA
1 TATTTAAAAATAAATCAATCCA
*
4480053 TATTTTAAAATAAATCAATCCA
1 TATTTAAAAATAAATCAATCCA
4480075 TA
1 TA
4480077 CTAATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (22 bp):
TATTTAAAAATAAATCAATCCA
Found at i:4480085 original size:22 final size:22
Alignment explanation
Indices: 4480037--4480084 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
4480027 AAATTATTTA
* **
4480037 AAAATAAATTAATCCATATTTT
1 AAAATAAATCAATCCATATAAT
4480059 AAAATAAATCAATCCATACTAAT
1 AAAATAAATCAATCCATA-TAAT
4480082 AAA
1 AAA
4480085 TTATTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAAATCAATCCATATAAT
Found at i:4480108 original size:15 final size:15
Alignment explanation
Indices: 4480079--4480256 Score: 223
Period size: 15 Copynumber: 11.5 Consensus size: 15
4480069 AATCCATACT
4480079 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
4480093 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
4480108 AATAAATCAATTCATATTTTAT
1 AAT--A--AA-T--TATTTTAA
*
4480130 AATAAATTATTTAAA
1 AATAAATTATTTTAA
*
4480145 AATAAATTATTTTAT
1 AATAAATTATTTTAA
* *
4480160 AATAAGTTATTTTAT
1 AATAAATTATTTTAA
*
4480175 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
4480190 AATAAATTATTTTAT
1 AATAAATTATTTTAA
4480205 AATAAATTATTTTAA
1 AATAAATTATTTTAA
4480220 AATAAATTATTTTAA
1 AATAAATTATTTTAA
4480235 AATAAATTATTTTAA
1 AATAAATTATTTTAA
4480250 AATAAAT
1 AATAAAT
4480257 AACCTTATTA
Statistics
Matches: 148, Mismatches: 8, Indels: 15
0.87 0.05 0.09
Matches are distributed among these distances:
14 9 0.06
15 121 0.82
17 2 0.01
18 2 0.01
19 2 0.01
20 2 0.01
22 10 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:4481609 original size:20 final size:21
Alignment explanation
Indices: 4481572--4481611 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4481562 ATGCATGCTT
* *
4481572 TCTTATATTCTATCAATTTAG
1 TCTTATATTCAATAAATTTAG
4481593 TCTTA-ATTCAATAAATTTA
1 TCTTATATTCAATAAATTTA
4481612 ACTCTAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (21 bp):
TCTTATATTCAATAAATTTAG
Found at i:4481802 original size:3 final size:3
Alignment explanation
Indices: 4481796--4481870 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
4481786 TGAAAAAAAT
4481796 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4481844 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
4481871 GGGTGACCAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4489231 original size:31 final size:31
Alignment explanation
Indices: 4489196--4489256 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
4489186 TTTGGTCGGA
* *
4489196 TTCAGAGGTTAATTTGATATTTTATCTAAAG
1 TTCAGAGGTCAAGTTGATATTTTATCTAAAG
*
4489227 TTCAGCGGTCAAGTTGATATTTTATCTAAA
1 TTCAGAGGTCAAGTTGATATTTTATCTAAA
4489257 TTTTAACGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (31 bp):
TTCAGAGGTCAAGTTGATATTTTATCTAAAG
Found at i:4493862 original size:21 final size:22
Alignment explanation
Indices: 4493818--4493863 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
4493808 TTATTTTATT
*
4493818 TTATTTTTTATATTGTGTTTTA
1 TTATTTTTTATATTGTGGTTTA
4493840 TTATTATTTTA-ATT-TGGTTTA
1 TTATT-TTTTATATTGTGGTTTA
4493861 TTA
1 TTA
4493864 AATGATTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 8 0.36
23 5 0.23
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.70
Consensus pattern (22 bp):
TTATTTTTTATATTGTGGTTTA
Found at i:4499807 original size:18 final size:19
Alignment explanation
Indices: 4499784--4499820 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
4499774 TTTATTGAAA
*
4499784 AACCGATAAAC-CGAACCG
1 AACCGAAAAACTCGAACCG
4499802 AACCGAAAAACTCGAACCG
1 AACCGAAAAACTCGAACCG
4499821 TTAAAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.46, C:0.32, G:0.16, T:0.05
Consensus pattern (19 bp):
AACCGAAAAACTCGAACCG
Found at i:4499845 original size:17 final size:17
Alignment explanation
Indices: 4499791--4499846 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
4499781 AAAAACCGAT
*
4499791 AAACCGAACCGAACCGAA
1 AAACTGAACCGAACC-AA
4499809 AAACTCGAACCGTTAA--AA
1 AAACT-GAACCG--AACCAA
4499827 AAACTGAACCGAACCAA
1 AAACTGAACCGAACCAA
4499844 AAA
1 AAA
4499847 AACCGGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
15 2 0.06
17 11 0.34
18 11 0.34
19 6 0.19
21 2 0.06
ACGTcount: A:0.54, C:0.27, G:0.12, T:0.07
Consensus pattern (17 bp):
AAACTGAACCGAACCAA
Found at i:4500210 original size:17 final size:17
Alignment explanation
Indices: 4500170--4500210 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
4500160 TCGCTGGGCA
* *
4500170 TGACATCGAGAATTGCT
1 TGACATTGAGAATTGCC
4500187 TGACATTGAGAATTGCC
1 TGACATTGAGAATTGCC
4500204 TGACATT
1 TGACATT
4500211 CAAGAAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (17 bp):
TGACATTGAGAATTGCC
Found at i:4506695 original size:16 final size:17
Alignment explanation
Indices: 4506661--4506718 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
4506651 TAATAAAAAT
4506661 GAAAAAAGAAAAAGAAA
1 GAAAAAAGAAAAAGAAA
*
4506678 GAAAAAAGTAAAAGAAGA
1 GAAAAAAGAAAAAGAA-A
* *
4506696 AAAAAAAGAAAAAAACAA
1 GAAAAAAGAAAAAGA-AA
4506714 GAAAA
1 GAAAA
4506719 GAAAAGGAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 15 0.44
18 18 0.53
19 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (17 bp):
GAAAAAAGAAAAAGAAA
Found at i:4506710 original size:26 final size:25
Alignment explanation
Indices: 4506662--4506723 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
4506652 AATAAAAATG
4506662 AAAAAAGAAAAAGAAAGAAAAAAGT
1 AAAAAAGAAAAAGAAAGAAAAAAGT
**
4506687 AAAAGAAGAAAAA-AAAGAAAAAAAC
1 AAAA-AAGAAAAAGAAAGAAAAAAGT
4506712 AAGAAAAGAAAA
1 AA-AAAAGAAAA
4506724 GGAGAGGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 23 0.70
26 10 0.30
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (25 bp):
AAAAAAGAAAAAGAAAGAAAAAAGT
Found at i:4507984 original size:136 final size:136
Alignment explanation
Indices: 4507739--4508494 Score: 1083
Period size: 136 Copynumber: 5.6 Consensus size: 136
4507729 GGGTAAACCA
* * *
4507739 ATTAACATTTCCAATGAAGAGTTCATAATGAAAAGAACTCATATGATAGAGGGAGAAGAAATTCA
1 ATTAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTCA
* * * * * * *
4507804 TAATGAGAAGAACTTGTTCGACATATTGCTCGATTCACGGCATTTCTAATCAGCAACACCTCCCT
66 TAATGAGAAGAACTTGTTCGACCTATTGCTCAATTCATGACATTTCGAATCAGTAACACCTCACT
*
4507869 TGAGAG
131 TGAGGG
* *
4507875 ATTAATATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTCA
1 ATTAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTCA
* * * * *
4507940 TAATAAGAAGAAATTGTTCGACCTATTGCTCGATTCATGACATTTGGAATCAGTAACACCTCGCT
66 TAATGAGAAGAACTTGTTCGACCTATTGCTCAATTCATGACATTTCGAATCAGTAACACCTCACT
*
4508005 TTAGGG
131 TGAGGG
* * *
4508011 ATTAACATTTCCAATGAAGAGTTCATAAT--G-AGAACTTATCCGACAGAGGGAGAAGAAGTTCA
1 ATTAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTCA
* * * *
4508073 TAATGAGAAGAACTTGTTCGACTTAGTGCTCAATTCACG-CTATTTCAAATCAGTAACACCTCAC
66 TAATGAGAAGAACTTGTTCGACCTATTGCTCAATTCATGAC-ATTTCGAATCAGTAACACCTCAC
4508137 TTGAGGG
130 TTGAGGG
4508144 ATTAACATTTCCAATTG-AGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTC
1 ATTAACATTTCCAA-TGAAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTC
* * * * *
4508208 ATAATAAGAAGAAATTGTTTGACCTATTGCTCAATTCATGACATTTGGAATCAGTAACACCTCGC
65 ATAATGAGAAGAACTTGTTCGACCTATTGCTCAATTCATGACATTTCGAATCAGTAACACCTCAC
* *
4508273 TTTAGAG
130 TTGAGGG
* * *
4508280 ATTAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTTATCCGACAGAGGGAGAAGAAGTTCA
1 ATTAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTCA
* **
4508345 TAATGAGAAGAACTTGTTCGACCTAGTGCTCAATTCATGGTATTTCGAATCAGTAACACCTCACT
66 TAATGAGAAGAACTTGTTCGACCTATTGCTCAATTCATGACATTTCGAATCAGTAACACCTCACT
4508410 TGAGGG
131 TGAGGG
*
4508416 ATTAACATTTCCAATTG-AGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTT
1 ATTAACATTTCCAA-TGAAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTC
4508480 ATAATGAGAAGAACT
65 ATAATGAGAAGAACT
4508495 CATCTGACAG
Statistics
Matches: 550, Mismatches: 62, Indels: 16
0.88 0.10 0.03
Matches are distributed among these distances:
132 1 0.00
133 114 0.21
134 3 0.01
135 3 0.01
136 426 0.77
137 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.28
Consensus pattern (136 bp):
ATTAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCGACCTATTGCTCAATTCATGACATTTCGAATCAGTAACACCTCACT
TGAGGG
Found at i:4508221 original size:269 final size:270
Alignment explanation
Indices: 4507739--4508492 Score: 1242
Period size: 269 Copynumber: 2.8 Consensus size: 270
4507729 GGGTAAACCA
* ** * *
4507739 ATTAACATTTCCAATGAAGAGTTCATAATGAAAAGAACTCATATGATAGAGGGAGAAGAAATTCA
1 ATTAACATTTCCAATGAAGAGTTCATAATG--AAGAACTTATCCGACAGAGGGAGAAGAAGTTCA
* * * * *
4507804 TAATGAGAAGAACTTGTTCGACATATTGCTCGATTCACGGC-ATTTCTAATCAGCAACACCTCCC
64 TAATGAGAAGAACTTGTTCGACATAGTGCTCAATTCAC-GCTATTTCAAATCAGTAACACCTCAC
* * *
4507868 TTGAGAGATTAATATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAG
128 TTGAGGGATTAACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAG
*
4507933 AAGTTCATAATAAGAAGAAATTGTTCGACCTATTGCTCGATTCATGACATTTGGAATCAGTAACA
193 AAGTTCATAATAAGAAGAAATTGTTCGACCTATTGCTCAATTCATGACATTTGGAATCAGTAACA
*
4507998 CCTCGCTTTAGGG
258 CCTCGCTTTAGAG
4508011 ATTAACATTTCCAATGAAGAGTTCATAATG-AGAACTTATCCGACAGAGGGAGAAGAAGTTCATA
1 ATTAACATTTCCAATGAAGAGTTCATAATGAAGAACTTATCCGACAGAGGGAGAAGAAGTTCATA
*
4508075 ATGAGAAGAACTTGTTCGACTTAGTGCTCAATTCACGCTATTTCAAATCAGTAACACCTCACTTG
66 ATGAGAAGAACTTGTTCGACATAGTGCTCAATTCACGCTATTTCAAATCAGTAACACCTCACTTG
4508140 AGGGATTAACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAG
131 AGGGATTAACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAG
*
4508205 TTCATAATAAGAAGAAATTGTTTGACCTATTGCTCAATTCATGACATTTGGAATCAGTAACACCT
196 TTCATAATAAGAAGAAATTGTTCGACCTATTGCTCAATTCATGACATTTGGAATCAGTAACACCT
4508270 CGCTTTAGAG
261 CGCTTTAGAG
4508280 ATTAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTTATCCGACAGAGGGAGAAGAAGTTCA
1 ATTAACATTTCCAATGAAGAGTTCATAAT--GAAGAACTTATCCGACAGAGGGAGAAGAAGTTCA
* * * *
4508345 TAATGAGAAGAACTTGTTCGACCTAGTGCTCAATTCATGGTATTTCGAATCAGTAACACCTCACT
64 TAATGAGAAGAACTTGTTCGACATAGTGCTCAATTCACGCTATTTCAAATCAGTAACACCTCACT
4508410 TGAGGGATTAACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGA
129 TGAGGGATTAACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGA
* *
4508475 AGTTTATAATGAGAAGAA
194 AGTTCATAATAAGAAGAA
4508493 CTCATCTGAC
Statistics
Matches: 455, Mismatches: 23, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
268 2 0.00
269 248 0.55
271 1 0.00
272 204 0.45
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (270 bp):
ATTAACATTTCCAATGAAGAGTTCATAATGAAGAACTTATCCGACAGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCGACATAGTGCTCAATTCACGCTATTTCAAATCAGTAACACCTCACTTG
AGGGATTAACATTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAG
TTCATAATAAGAAGAAATTGTTCGACCTATTGCTCAATTCATGACATTTGGAATCAGTAACACCT
CGCTTTAGAG
Found at i:4508475 original size:23 final size:22
Alignment explanation
Indices: 4508445--4508515 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 22
4508435 AGTTCATAAT
4508445 GAGAAGAACTCATCTGATAGAGG
1 GAGAAGAACTCATCTGATAGA-G
* *
4508468 GAGAAGAAGT--T-T-ATA-AT
1 GAGAAGAACTCATCTGATAGAG
*
4508485 GAGAAGAACTCATCTGACAGATG
1 GAGAAGAACTCATCTGATAGA-G
4508508 GAGAAGAA
1 GAGAAGAA
4508516 GTTCATAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
17 9 0.24
18 1 0.03
19 4 0.11
20 2 0.05
21 3 0.08
22 1 0.03
23 17 0.46
ACGTcount: A:0.44, C:0.10, G:0.28, T:0.18
Consensus pattern (22 bp):
GAGAAGAACTCATCTGATAGAG
Found at i:4508495 original size:40 final size:40
Alignment explanation
Indices: 4508435--4508532 Score: 169
Period size: 40 Copynumber: 2.5 Consensus size: 40
4508425 TCCAATTGAG
*
4508435 AGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGACAGAGGGAGAAGA
* *
4508475 AGTTTATAATGAGAAGAACTCATCTGACAGATGGAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGACAGAGGGAGAAGA
4508515 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
4508533 ATTGTTCGAC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCTGACAGAGGGAGAAGA
Found at i:4508520 original size:176 final size:176
Alignment explanation
Indices: 4508295--4508670 Score: 547
Period size: 176 Copynumber: 2.1 Consensus size: 176
4508285 CATTTCCAAT
* *
4508295 GAAG-AGTTCATAATGAGAAGAACTTATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACT
1 GAAGAAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAAAT
* * ** *
4508359 TGTTCGACCTAGTGCTCAATTCATGGTATTTCGAATCAGTAACACCTCACTTGAGGGATTAACAT
66 TGTTCGACCTAGTACTCAATTCACGACATTTCGAATCAGCAACACCTCACTTGAGGGATTAACAT
* * * * *
4508424 TTCCAATTGAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGA
131 TTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGCGA
* * *
4508470 GAAGAAGTTTATAATGAGAAGAACTCATCTGACAGATGGAGAAGAAGTTCATAATGAGAAGAAAT
1 GAAGAAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAAAT
* * * *
4508535 TGTTCGACCTATTACTCGATTCACGACATTTCGAATCAGCAACGCCTCGCTTGAGGGATTAACAT
66 TGTTCGACCTAGTACTCAATTCACGACATTTCGAATCAGCAACACCTCACTTGAGGGATTAACAT
* *
4508600 TTCCAATGGATAGTTCATAATGAGAAGAACTTATCCGACAAAGCGA
131 TTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGCGA
*
4508646 GAATAAGTTCATAATGAGAAGAACT
1 GAAGAAGTTCATAATGAGAAGAACT
4508671 TATTTGACCT
Statistics
Matches: 177, Mismatches: 23, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
175 4 0.02
176 173 0.98
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (176 bp):
GAAGAAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAAAT
TGTTCGACCTAGTACTCAATTCACGACATTTCGAATCAGCAACACCTCACTTGAGGGATTAACAT
TTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGCGA
Found at i:4508606 original size:312 final size:312
Alignment explanation
Indices: 4508163--4508804 Score: 960
Period size: 312 Copynumber: 2.1 Consensus size: 312
4508153 TCCAATTGAG
* *
4508163 AGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGAAGTTCATAATAAGAAGAAATTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGACAGAGGGAGAAGAAGTTCATAATAAGAAGAAATTGTTC
* * * * *
4508228 GACCTATTGCTCAATTCATGACATTTGGAATCAGTAACACCTCGCTTTAGAGATTAACATTTCCA
66 GACCTATTACTCAATTCACGACATTTCGAATCAGCAACACCTCGCTTGAGAGATTAACATTTCCA
* *
4508293 ATGAAGAGTTCATAATGAGAAGAACTTATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAAC
131 ATGAAGAGTTCATAATGAGAAGAACTTATCCGACAAAGCGAGAAGAAGTTCATAATGAGAAGAAC
* * ** * *
4508358 TTGTTCGACCTAGTGCTCAATTCATGGTATTTCGAATCAGTAACACCTCACTTGAGGGATTAACA
196 TTATTCGACCTAGTGCTCAATTCACGACATTTCGAATCAGCAACACCTCACTGGAGGGATTAACA
* * * * *
4508423 TTTCCAATTGAGAGTTCATAATGAGAAGAACTCATCTGATAGAGGGAGAAGA
261 TTTCCAATAGAGAGTTCACAATGAGAAGAACTCATCCGAAAGAGGAAGAAGA
* * *
4508475 AGTTTATAATGAGAAGAACTCATCTGACAGATGGAGAAGAAGTTCATAATGAGAAGAAATTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGACAGAGGGAGAAGAAGTTCATAATAAGAAGAAATTGTTC
* * *
4508540 GACCTATTACTCGATTCACGACATTTCGAATCAGCAACGCCTCGCTTGAGGGATTAACATTTCCA
66 GACCTATTACTCAATTCACGACATTTCGAATCAGCAACACCTCGCTTGAGAGATTAACATTTCCA
* * *
4508605 ATGGATAGTTCATAATGAGAAGAACTTATCCGACAAAGCGAGAATAAGTTCATAATGAGAAGAAC
131 ATGAAGAGTTCATAATGAGAAGAACTTATCCGACAAAGCGAGAAGAAGTTCATAATGAGAAGAAC
* * * * *
4508670 TTATTTGACCTATTGCTCGATTCACGACATTTCGAATTAGCAACACCTCGCTGGAGGGATTAACA
196 TTATTCGACCTAGTGCTCAATTCACGACATTTCGAATCAGCAACACCTCACTGGAGGGATTAACA
* *
4508735 TTTCCAATAGAGAGTTCACAATGAGAAGAACTCATCCGAAAGATGAATAAGA
261 TTTCCAATAGAGAGTTCACAATGAGAAGAACTCATCCGAAAGAGGAAGAAGA
4508787 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
4508805 TTATTCGACC
Statistics
Matches: 293, Mismatches: 37, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
312 293 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (312 bp):
AGTTCATAATGAGAAGAACTCATCTGACAGAGGGAGAAGAAGTTCATAATAAGAAGAAATTGTTC
GACCTATTACTCAATTCACGACATTTCGAATCAGCAACACCTCGCTTGAGAGATTAACATTTCCA
ATGAAGAGTTCATAATGAGAAGAACTTATCCGACAAAGCGAGAAGAAGTTCATAATGAGAAGAAC
TTATTCGACCTAGTGCTCAATTCACGACATTTCGAATCAGCAACACCTCACTGGAGGGATTAACA
TTTCCAATAGAGAGTTCACAATGAGAAGAACTCATCCGAAAGAGGAAGAAGA
Found at i:4508727 original size:136 final size:134
Alignment explanation
Indices: 4508475--4508875 Score: 534
Period size: 136 Copynumber: 3.0 Consensus size: 134
4508465 AGGGAGAAGA
* * * *
4508475 AGTTTATAATGAGAAGAACTCATCTGACAGATGGAGAAGAAGTTCATAATGAGAAGAAATTGTTC
1 AGTTCATAATGAGAAGAACTCATCCGACA-AAGGAGAAGAAGTTCATAATGAGAAG-AATTATTC
* * *
4508540 GACCTATTACTCGATTCACGACATTTCGAATCAGCAACGCCTCGCTTGAGGGATTAACATTTCCA
64 GACCTATTGCTCGATTCACGACATTTCGAATCAGCAACACCTCGCTGGAGGGATTAACATTTCCA
* *
4508605 ATGGAT
129 ATAGAG
* * *
4508611 AGTTCATAATGAGAAGAACTTATCCGACAAAGCGAGAATAAGTTCATAATGAGAAGAACTTATTT
1 AGTTCATAATGAGAAGAACTCATCCGACAAAG-GAGAAGAAGTTCATAATGAGAAGAA-TTATTC
*
4508676 GACCTATTGCTCGATTCACGACATTTCGAATTAGCAACACCTCGCTGGAGGGATTAACATTTCCA
64 GACCTATTGCTCGATTCACGACATTTCGAATCAGCAACACCTCGCTGGAGGGATTAACATTTCCA
4508741 ATAGAG
129 ATAGAG
* * *
4508747 AGTTCACAATGAGAAGAACTCATCCGA-AAGATGAATAAGAAGTTCATAATGAGAAGAATTATTC
1 AGTTCATAATGAGAAGAACTCATCCGACAA-A-GGAGAAGAAGTTCATAATGAGAAGAATTATTC
* * ** * * *
4508811 GACCTATTGCTCGATTCACGACATTTCGAACCAACAATGCCTCACTCGAGGGATCAACATTTCCA
64 GACCTATTGCTCGATTCACGACATTTCGAATCAGCAACACCTCGCTGGAGGGATTAACATTTCCA
4508876 GTGAAAAGAA
Statistics
Matches: 234, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
135 68 0.29
136 165 0.71
137 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (134 bp):
AGTTCATAATGAGAAGAACTCATCCGACAAAGGAGAAGAAGTTCATAATGAGAAGAATTATTCGA
CCTATTGCTCGATTCACGACATTTCGAATCAGCAACACCTCGCTGGAGGGATTAACATTTCCAAT
AGAG
Found at i:4524049 original size:18 final size:20
Alignment explanation
Indices: 4524023--4524059 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
4524013 GTTACATTTT
4524023 GTTACGTTG-GGT-TGTGTC
1 GTTACGTTGAGGTGTGTGTC
*
4524041 GTTATGTTGAGGTGTGTGT
1 GTTACGTTGAGGTGTGTGT
4524060 ACAATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 3 0.19
20 5 0.31
ACGTcount: A:0.08, C:0.05, G:0.41, T:0.46
Consensus pattern (20 bp):
GTTACGTTGAGGTGTGTGTC
Found at i:4525399 original size:21 final size:21
Alignment explanation
Indices: 4525375--4525440 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
4525365 GCAAATTCGC
4525375 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* ** *
4525396 GTTGAAAATCGCGTTGCTAT-
1 GTTGCATTTCGCGTTGCGATA
* * *
4525416 TTTCCATTTTGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
4525437 GTTG
1 GTTG
4525441 AAAATCGTAT
Statistics
Matches: 31, Mismatches: 13, Indels: 2
0.67 0.28 0.04
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.41
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:4525850 original size:28 final size:29
Alignment explanation
Indices: 4525810--4525882 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 29
4525800 ACAAACTTCT
*
4525810 CCACTTTCCTTATTTTAATATCTA-CTAC
1 CCACCTTCCTTATTTTAATATCTACCTAC
4525838 CCACCTTCCTTATTTTAATATCTACCTAC
1 CCACCTTCCTTATTTTAATATCTACCTAC
*
4525867 CCACCTCCCTTATTTT
1 CCACCTTCCTTATTTT
4525883 CCAAATCTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 23 0.55
29 19 0.45
ACGTcount: A:0.22, C:0.34, G:0.00, T:0.44
Consensus pattern (29 bp):
CCACCTTCCTTATTTTAATATCTACCTAC
Found at i:4525877 original size:29 final size:28
Alignment explanation
Indices: 4525817--4525882 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 28
4525807 TCTCCACTTT
*
4525817 CCTTATTTTAATATCTACTACCCACCTT
1 CCTTATTTTAATATCTACTACCCACCTC
4525845 CCTTATTTTAATATCTACCTACCCACCTC
1 CCTTATTTTAATATCTA-CTACCCACCTC
4525874 CCTTATTTT
1 CCTTATTTT
4525883 CCAAATCTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 17 0.47
29 19 0.53
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (28 bp):
CCTTATTTTAATATCTACTACCCACCTC
Found at i:4527512 original size:42 final size:41
Alignment explanation
Indices: 4527435--4527536 Score: 134
Period size: 42 Copynumber: 2.5 Consensus size: 41
4527425 AAGGTCTTAT
* *
4527435 AGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGAC
1 AGATGGCCCGAAGGACTTATCATCATGCTCAAAAGACTGAC
* *
4527476 AGATGACCCGAAGGA-TTAAATCATCATGCTCAAAAGACTTAC
1 AGATGGCCCGAAGGACTT--ATCATCATGCTCAAAAGACTGAC
*
4527518 TGATGGCCCGAAGGACTTA
1 AGATGGCCCGAAGGACTTA
4527537 CCAATTTTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
40 2 0.04
41 15 0.29
42 33 0.63
43 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (41 bp):
AGATGGCCCGAAGGACTTATCATCATGCTCAAAAGACTGAC
Found at i:4527784 original size:257 final size:258
Alignment explanation
Indices: 4527214--4528451 Score: 1578
Period size: 257 Copynumber: 4.8 Consensus size: 258
4527204 AAAATCATGG
* * * * *
4527214 CAGATAACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGTCCGAAAGACTTACCG
1 CAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
* * * * **
4527279 ATTTTAGAAATAGTTTACTAGGTAAGAAACTTTTG-AATCGCTTTCTTACTTTTAAAAAAAAATC
66 ATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTT-CAAAAATTTC
**
4527343 ATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTGCTTTTCTCATTTTTCACAAACATCATA
130 ATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTGC-TTTCTCATTTTT-TGAAA-ATCATA
* * * *
4527408 TGAAAGCATCTTGCCTAAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACT
192 TGAAAACATCTAGCCCAAAGGTCTTATAGATGGCCCGAAGGACTTAACATCTTGCTCGAAAGACT
4527473 GA
257 GA
* * *
4527475 CAGATGACCCGAAGGATTAAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCA
1 CAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
* * * *
4527540 ATTTTGAAAATAGTTTACTAGGTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAATATTTAA
66 ATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCA
* *
4527605 TTTTCTGAAAATATTAAATGATAAACTTTGAAAATTGC-TTCTCATTTTTTGAAAATCATACGAA
131 TTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTTTGAAAATCATATGAA
* * * * *
4527669 AACATCTAGCACGAAGGTCTTATAGATGGCCCGAATGACTTAACATTTTGCTCGAAAAACTGA
196 AACATCTAGCCCAAAGGTCTTATAGATGGCCCGAAGGACTTAACATCTTGCTCGAAAGACTGA
** ** * *
4527732 CAGATGACCTTAAAGATTTAATCATCATGCTCGAAAGACTTGTTGATGGCCCGAAGAACTTACTA
1 CAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
* * *
4527797 GTTTTGGAAATTGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAGATTTCA
66 ATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCA
* * * * * *
4527862 TTTTTTGAAAATATTAAATGAGAAGCTTTGGAAATTGATGTCTCATTTTTTGAAAATCATGTGAA
131 TTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTTTGAAAATCATATGAA
* *
4527927 AGCATC-ATGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTAACATCTTGCTCGAAAGACTGA
196 AACATCTA-GCCCAAAGGTCTTATAGATGGCCCGAAGGACTTAACATCTTGCTCGAAAGACTGA
* * *
4527990 CAGATGACCC-AAAGAATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAATGACTTACC
1 CAGATGACCCGAAAG-ATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACC
* *
4528054 AATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTC
65 AATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTC
* * * * * ** * *
4528119 ATTTTTTGAAAATATCAAATGA-AAAATGTTGGAAA-T-CATTT-TCACTTTTCAAAAATAATGT
130 ATTTTCTGAAAATATTAAATGAGAAACT-TTGAAAATTGC-TTTCTCATTTTTTGAAAATCATAT
* * * * *
4528180 GAAAAAAATCTTGCCCAAAGGTCTTATAGATGGCCCAAATGACTTAACATCTTGCTTGAAAGACT
193 G-AAAACATCTAGCCCAAAGGTCTTATAGATGGCCCGAAGGACTTAACATCTTGCTCGAAAGACT
4528245 GA
257 GA
* *
4528247 CAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACCA
1 CAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
* *
4528312 ATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATC-TCTTTCTTACTTTTAAAAAATTTC
66 ATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGT-TTTCTTACTTTTCAAAAATTTC
* * * * * *
4528376 ATTTTCTTG-AAATATTAAATGAGAATCTTTGAAATTTGTTTTTCTCAATTTTCGCAAACACCAT
130 ATTTTC-TGAAAATATTAAATGAGAAACTTTGAAAATTG-CTTTCTCATTTTTTG-AAA-ATCAT
*
4528440 ATGAAAGCATCT
191 ATGAAAACATCT
4528452 TGATGGTCGG
Statistics
Matches: 852, Mismatches: 107, Indels: 36
0.86 0.11 0.04
Matches are distributed among these distances:
256 17 0.02
257 418 0.49
258 230 0.27
259 14 0.02
260 8 0.01
261 144 0.17
262 21 0.02
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (258 bp):
CAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
ATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCA
TTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTGCTTTCTCATTTTTTGAAAATCATATGAA
AACATCTAGCCCAAAGGTCTTATAGATGGCCCGAAGGACTTAACATCTTGCTCGAAAGACTGA
Found at i:4528203 original size:515 final size:517
Alignment explanation
Indices: 4527214--4528450 Score: 1650
Period size: 515 Copynumber: 2.4 Consensus size: 517
4527204 AAAATCATGG
* * * *
4527214 CAGATAACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGTCCGAA-AGACTTACC
1 CAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGA-ACTTACA
* * * **
4527278 GATTTTAGAAATAGTTTACTAGGTAAGAAACTTTTG-AATCGCTTTCTTACTTTTAAAAAAAAAT
65 G-TTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTT-AAAAAATTT
* * * *
4527342 CATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATTGCTTTTCTCATTTTTCACAAACATCAT
128 CATTTTTTGAAAATATTAAATGAGAAACTTTGGAAATTGCATGTCTCATTTTTCACAAACATCAT
* * *
4527407 ATGAAAGCATCTTGCCTAAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGAC
193 ATGAAAGCATCATGCCCAAAGGTCTTATAGATGGCCCGAAGGACTTAACATCTTGCTCGAAAGAC
* * *
4527472 TGACAGATGACCCGAAGGATTAAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTA
258 TGACAGATGACCCAAAGAATTAAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTA
* *
4527537 CCAATTTTGAAAATAGTTTACTAGGTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAATATT
323 CCAATTTTGAAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATT
* * * ** *
4527602 TAATTTTCTGAAAATATTAAATGATAAACTTTGAAAATTGCTTCTCATTTTTTGAAAATCATACG
388 TAATTTTCTGAAAATATCAAATGATAAAATTTGAAAATTGCTTCTCACTTTTCAAAAATAATACG
* * * *
4527667 AAAACATCTAGCACGAAGGTCTTATAGATGGCCCGAATGACTTAACATTTTGCTCGAAAAACTGA
453 AAAAAATCTAGCACAAAGGTCTTATAGATGGCCCAAATGACTTAACATCTTGCTCGAAAAACTGA
** **
4527732 CAGATGACCTTAAAGATTTAATCATCATGCTCGAAAGACTTGTTGATGGCCCGAAGAACTTACTA
1 CAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGAACTTAC-A
* * *
4527797 GTTTTGGAAATTGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAGATTTCA
65 GTTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTAAAAAATTTCA
* ** *
4527862 TTTTTTGAAAATATTAAATGAGAAGCTTTGGAAATTG-ATGTCTCATTTTT-TGAAA-ATCATGT
130 TTTTTTGAAAATATTAAATGAGAAACTTTGGAAATTGCATGTCTCATTTTTCACAAACATCATAT
*
4527924 GAAAGCATCATGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTAACATCTTGCTCGAAAGACTG
195 GAAAGCATCATGCCCAAAGGTCTTATAGATGGCCCGAAGGACTTAACATCTTGCTCGAAAGACTG
* * * *
4527989 ACAGATGACCCAAAGAATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAATGACTTACC
260 ACAGATGACCCAAAGAATTAAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACC
* * * *
4528054 AATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTC
325 AATTTTGAAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTA
* * * **
4528119 ATTTTTTGAAAATATCAAATGA-AAAATGTTGGAAA-T-CATTTTCACTTTTCAAAAATAATGTG
390 ATTTTCTGAAAATATCAAATGATAAAAT-TTGAAAATTGC-TTCTCACTTTTCAAAAATAATACG
* * * *
4528181 AAAAAAATCTTGCCCAAAGGTCTTATAGATGGCCCAAATGACTTAACATCTTGCTTGAAAGACTG
453 -AAAAAATCTAGCACAAAGGTCTTATAGATGGCCCAAATGACTTAACATCTTGCTCGAAAAACTG
4528246 A
517 A
* * *
4528247 CAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTGAAGGACTTACCA
1 CAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGAACTTA-CA
* *
4528312 ATTTTGGAAATAGTTTACTGGGTAAGAAACTTTGGAAATC-TCTTTCTTACTTTTAAAAAATTTC
65 GTTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGT-TTTCTTACTTTTAAAAAATTTC
* ** * * * *
4528376 ATTTTCTTG-AAATATTAAATGAGAATCTTT-GAAATTTGTTTTTCTCAATTTTCGCAAACACCA
129 ATTTT-TTGAAAATATTAAATGAGAAACTTTGGAAA-TTGCATGTCTCATTTTTCACAAACATCA
4528439 TATGAAAGCATC
192 TATGAAAGCATC
4528451 TTGATGGTCG
Statistics
Matches: 626, Mismatches: 80, Indels: 26
0.86 0.11 0.04
Matches are distributed among these distances:
513 1 0.00
514 27 0.04
515 408 0.65
516 17 0.03
517 14 0.02
518 140 0.22
519 19 0.03
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (517 bp):
CAGATGACCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGAACTTACAG
TTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTAAAAAATTTCAT
TTTTTGAAAATATTAAATGAGAAACTTTGGAAATTGCATGTCTCATTTTTCACAAACATCATATG
AAAGCATCATGCCCAAAGGTCTTATAGATGGCCCGAAGGACTTAACATCTTGCTCGAAAGACTGA
CAGATGACCCAAAGAATTAAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCA
ATTTTGAAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTAA
TTTTCTGAAAATATCAAATGATAAAATTTGAAAATTGCTTCTCACTTTTCAAAAATAATACGAAA
AAATCTAGCACAAAGGTCTTATAGATGGCCCAAATGACTTAACATCTTGCTCGAAAAACTGA
Found at i:4528252 original size:41 final size:42
Alignment explanation
Indices: 4528207--4528308 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 42
4528197 AAGGTCTTAT
* * *
4528207 AGATGGCCCAAATGACTTAA-CATCTTGCTTGAAAGACTGAC
1 AGATGGCCCAAAGGACTTAATCATCATGCTCGAAAGACTGAC
* * * *
4528248 AGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTAC
1 AGATGGCCCAAAGGACTTAATCATCATGCTCGAAAGACTGAC
* **
4528290 TGATGGCCTGAAGGACTTA
1 AGATGGCCCAAAGGACTTA
4528309 CCAATTTTGG
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (42 bp):
AGATGGCCCAAAGGACTTAATCATCATGCTCGAAAGACTGAC
Found at i:4537981 original size:3 final size:3
Alignment explanation
Indices: 4537973--4538017 Score: 65
Period size: 3 Copynumber: 14.7 Consensus size: 3
4537963 ACACTCATTT
4537973 TTA TTA TTA TTA TTA TTA TTAA TTA -TA GTTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA -TTA TTA TTA TTA TTA TT
4538018 CTTTTTAGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.05
3 32 0.82
4 5 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:4538486 original size:14 final size:13
Alignment explanation
Indices: 4538464--4538493 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4538454 GAAATGCAAG
4538464 AGTAAAAAAACGA
1 AGTAAAAAAACGA
4538477 AGTAAAAAAACGA
1 AGTAAAAAAACGA
4538490 AGTA
1 AGTA
4538494 GAGAGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.17, T:0.10
Consensus pattern (13 bp):
AGTAAAAAAACGA
Found at i:4547417 original size:228 final size:228
Alignment explanation
Indices: 4546989--4547514 Score: 707
Period size: 228 Copynumber: 2.3 Consensus size: 228
4546979 TTCTTACTTG
* * *
4546989 GTAAGTCTATCGAGCATGATGCTTAAATCTTTCGGGTCATCTATAAGTCTTTCGAACAAGATGAT
1 GTAAGTCTTTCGAGCATGATGCTTAATTC-TTCGGGTCATCTATAAGTCTTTCGAGCAAGATG--
* ** *
4547054 AAATCCTTTGGGCCATCCATAGACCTTCGGGCATGATATTTTCAAATGCTTTTCAAAAAATGAGA
63 --ATCCTTCGGGCCATCCATAGACCTTCGAACAAGATATTTTCAAATGCTTTTCAAAAAATGAGA
4547119 AAAGTTTCTCATTTAAATCTAAAAATTGAAATTTTTAAAAAAGTAAGAAAAGTTTCTTACCTAGT
126 AAAGTTTCTCATTTAAATCTAAAAATTGAAATTTTTAAAAAAGTAAGAAAAGTTTCTTACCTAGT
*
4547184 AAACTATTTCCAAAATTGGTAAGCCCTTCGGGCCATCA
191 AAACTATTCCCAAAATTGGTAAGCCCTTCGGGCCATCA
*
4547222 GTAAGTCTTTCGAGCATGATGCTTCAATTCTTCGGGTCA-CATGTAAGTCTTTCGAGCAAGATGA
1 GTAAGTCTTTCGAGCATGATGCTT-AATTCTTCGGGTCATC-TATAAGTCTTTCGAGCAAGATGA
* * * * *
4547286 -CCTTCGGGCCATCCATAAGACCTTTGAACAAGATTTTTTCACATGTTTTTCGAAAAATGAGAAA
64 TCCTTCGGGCCATCCAT-AGACCTTCGAACAAGATATTTTCAAATGCTTTTCAAAAAATGAGAAA
* * **
4547350 AGTTTCTCATTTAAATTTGAAAATTG-AATTTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAA
128 AGTTTCTCATTTAAATCTAAAAATTGAAATTTTTAAAAAAGTAAGAAAAGTTTCTTACCTAGTAA
* **
4547414 ACTATTCCCAAATTTGGTAAGTTCTTCGGGCCATCA
193 ACTATTCCCAAAATTGGTAAGCCCTTCGGGCCATCA
* * * * * *
4547450 GTAAGTCTTTTGAGCATGATGTTTAAATCCTTCAGGTCATCTATAAGCCTTTTGAGCAAGATGAT
1 GTAAGTCTTTCGAGCATGATGCTT-AATTCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGAT
4547515 AAGTCCTTCG
Statistics
Matches: 259, Mismatches: 29, Indels: 14
0.86 0.10 0.05
Matches are distributed among these distances:
228 137 0.53
229 65 0.25
232 1 0.00
233 52 0.20
234 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (228 bp):
GTAAGTCTTTCGAGCATGATGCTTAATTCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATC
CTTCGGGCCATCCATAGACCTTCGAACAAGATATTTTCAAATGCTTTTCAAAAAATGAGAAAAGT
TTCTCATTTAAATCTAAAAATTGAAATTTTTAAAAAAGTAAGAAAAGTTTCTTACCTAGTAAACT
ATTCCCAAAATTGGTAAGCCCTTCGGGCCATCA
Found at i:4547537 original size:41 final size:41
Alignment explanation
Indices: 4547431--4547542 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 41
4547421 CCAAATTTGG
* * * * *
4547431 TAAGTTCTTCGGGCCATCAGTAAGTCTTTTGAGCATGATGTT
1 TAAGTCCTTCGGGTCATCA-TAAGCCTTTTGAGCAAGATGTA
* *
4547473 TAAATCCTTCAGGTCATCTATAAGCCTTTTGAGCAAGATG-A
1 TAAGTCCTTCGGGTCATC-ATAAGCCTTTTGAGCAAGATGTA
4547514 TAAGTCCTTCGGGTCATTCATAAGTCCTT
1 TAAGTCCTTCGGGTCA-TCATAAG-CCTT
4547543 CGGGTCATTC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 19 0.33
42 38 0.66
43 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (41 bp):
TAAGTCCTTCGGGTCATCATAAGCCTTTTGAGCAAGATGTA
Found at i:4547538 original size:20 final size:20
Alignment explanation
Indices: 4547513--4547567 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
4547503 GAGCAAGATG
4547513 ATAAGTCCTTCGGGTCATTC
1 ATAAGTCCTTCGGGTCATTC
4547533 ATAAGTCCTTCGGGTCATTC
1 ATAAGTCCTTCGGGTCATTC
4547553 ATAAGTCCTTCGGGT
1 ATAAGTCCTTCGGGT
4547568 AGGATGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (20 bp):
ATAAGTCCTTCGGGTCATTC
Found at i:4548405 original size:267 final size:268
Alignment explanation
Indices: 4547841--4548528 Score: 816
Period size: 267 Copynumber: 2.6 Consensus size: 268
4547831 GAAAAGTGAA
* * * * *
4547841 TCGAACTTGATCCAATCTTCCCTGAAGAATAGTGGAATGAAA-CAATGTCCCCAAATTTGATTTT
1 TCGAACTCGATTCAATCTTCCCTGAAGAACAGTGGAAT-AAATCAATGTCCCCAGATATGATTTT
* * * * *
4547905 CCCTCAAGAAAAAGCAAAACACATCC-CTCTCTCAAGATTTGATATTCCCTAAGTAATAGTGG-A
65 CCCTCAAGAAGAAGCAAAACAAATCCTCTCTTTCAAGATTTGATATTCCCTGAGTAAAAGTGGTA
* * * * * ** * *
4547968 ACAAGTCAAACTTGATTCAATCTTCCCTGAATAATAGTGGAATGAATCAACGTCCCCAGATTTGA
130 ACAAGTCTACCTCGATTCAATCTTCCATGAAGAATAGTAAAATGAATCAACGTCCCCAGATCTAA
* * * * *
4548033 TTTTCCCTCAATAAGAAGAGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGGGTAACAG
195 TTTTCCCTCAAGAAGAAGAAGAACAAATCCCTCTCTTTCAAGATTTAATATTCCCTGAGTAACAG
4548098 TGGAACAAG
260 TGGAACAAG
* *
4548107 TCGAACTTGATTCAATCTTTCCTGAAGAACAGTGGAATAAATCAATGTCCCCAGATATGATTTTC
1 TCGAACTCGATTCAATCTTCCCTGAAGAACAGTGGAATAAATCAATGTCCCCAGATATGATTTTC
** * *
4548172 CCTCAAGAAGAAGCGGAACAAATCTCTCTCTTTCAAGATTTGATCTTTCCTGAGTAAAAGTGGTA
66 CCTCAAGAAGAAGCAAAACAAATC-CTCTCTTTCAAGATTTGATATTCCCTGAGTAAAAGTGGTA
* * *
4548237 A-AAATCTACCTCGATTAAATCTTCCATGAAGAATAGTAAAATGAATCAACGTCCCCATATCTAA
130 ACAAGTCTACCTCGATTCAATCTTCCATGAAGAATAGTAAAATGAATCAACGTCCCCAGATCTAA
* * * * *
4548301 TTTTCCCTCAAGAAGAA-ACAGAACAAATCTCT-TTTTTTAAGATTTAATATTCCTTGAGTAATA
195 TTTTCCCTCAAGAAGAAGA-AGAACAAATCCCTCTCTTTCAAGATTTAATATTCCCTGAGTAACA
4548364 GTGGAACAAG
259 GTGGAACAAG
* * * ***
4548374 TC-AGTCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCCAATTTT
1 TCGA-ACTCGATTCAATCTTCCCTGAAGAACAGTGGAATAAATCAATGTCCCCAGATATGATTTT
* * * * *
4548438 CCCTCAAGAAGAAGCAAAACATATCACTCTCTTCCAATATTTAATATTCCCTGAGTAACAGT-GT
65 CCCTCAAGAAGAAGCAAAACAAATC-CTCTCTTTCAAGATTTGATATTCCCTGAGTAAAAGTGGT
* *
4548502 AATAAGTCTACCTCAATTCAATCTTCC
129 AACAAGTCTACCTCGATTCAATCTTCC
4548529 CTGATGAACA
Statistics
Matches: 358, Mismatches: 57, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
265 3 0.01
266 81 0.23
267 164 0.46
268 108 0.30
269 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (268 bp):
TCGAACTCGATTCAATCTTCCCTGAAGAACAGTGGAATAAATCAATGTCCCCAGATATGATTTTC
CCTCAAGAAGAAGCAAAACAAATCCTCTCTTTCAAGATTTGATATTCCCTGAGTAAAAGTGGTAA
CAAGTCTACCTCGATTCAATCTTCCATGAAGAATAGTAAAATGAATCAACGTCCCCAGATCTAAT
TTTCCCTCAAGAAGAAGAAGAACAAATCCCTCTCTTTCAAGATTTAATATTCCCTGAGTAACAGT
GGAACAAG
Found at i:4548581 original size:134 final size:134
Alignment explanation
Indices: 4547844--4548545 Score: 786
Period size: 134 Copynumber: 5.3 Consensus size: 134
4547834 AAGTGAATCG
* * * * * * *
4547844 AACTTGATCCAATCTTCCCTGAAGAATAGTGGAATGAAACAATGTCCCCAAATTTGATTTTCCCT
1 AACTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCT
* * * * *
4547909 CAAGAAAAAGCAAAACACATCCCTCTC--TCAAGATTTGATATTCCCTAAGTAATAGTGGAACAA
66 CAAGAAGAAGCAGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
*
4547972 GTCA
131 GTCT
* * * *
4547976 AACTTGATTCAATCTTCCCTGAATAATAGTGGAATGAATCAACGTCCCCAGATTTGATTTTCCCT
1 AACTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCT
* * *
4548041 CAATAAGAAG-AGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGGGTAACAGTGGAACA
66 CAAGAAGAAGCA-GAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACA
*
4548105 AGTCG
130 AGTCT
* * * * *
4548110 AACTTGATTCAATCTTTCCTGAAGAACAGTGGAATAAATCAATGTCCCCAGATATGATTTTCCCT
1 AACTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCT
* * * * *
4548175 CAAGAAGAAGCGGAACAAATCTCTCTCTTTCAAGATTTGATCTTTCCTGAGTAAAAGTGGTAA-A
66 CAAGAAGAAGCAGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGG-AACA
*
4548239 AATCT
130 AGTCT
* * * * ** * *
4548244 ACCTCGATTAAATCTTCCATGAAGAATAGTAAAATGAATCAACGTCCCCATATCTAATTTTCCCT
1 AACTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCT
* * * * * * *
4548309 CAAGAAGAAACAGAACAAATCTCT-TTTTTTAAGATTTAATATTCCTTGAGTAATAGTGGAACAA
66 CAAGAAGAAGCAGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
4548373 GTC-
131 GTCT
* **
4548376 AGTCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCCAATTTTCCC
1 A-ACTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCC
* * * * * * * *
4548441 TCAAGAAGAAGCAAAACATATCACTCTCTTCCAATATTTAATATTCCCTGAGTAACAGTGTAATA
65 TCAAGAAGAAGCAGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACA
4548506 AGTCT
130 AGTCT
* * *
4548511 ACCTCAATTCAATCTTCCCTGATGAACAGTGGAAT
1 AACTCGATTCAATCTTCCCTGAAGAACAGTGGAAT
4548546 AAGTCAATAT
Statistics
Matches: 486, Mismatches: 75, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
131 1 0.00
132 84 0.17
133 108 0.22
134 290 0.60
135 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (134 bp):
AACTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCCT
CAAGAAGAAGCAGAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAA
GTCT
Found at i:4549576 original size:25 final size:24
Alignment explanation
Indices: 4549547--4549618 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 24
4549537 TTCTCTCTTT
4549547 AAAAATAAAAAAATTAAAAATTAA
1 AAAAATAAAAAAATTAAAAATTAA
*
4549571 GAAAAATTAAAAAATTAAAAAATTAA
1 -AAAAATAAAAAAATT-AAAAATTAA
4549597 AAAAATTAAAAAAAATTAAAAA
1 AAAAA-T-AAAAAAATTAAAAA
4549619 AAATTGTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 19 0.45
26 15 0.36
27 8 0.19
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (24 bp):
AAAAATAAAAAAATTAAAAATTAA
Found at i:4549577 original size:17 final size:16
Alignment explanation
Indices: 4549545--4549618 Score: 89
Period size: 17 Copynumber: 4.4 Consensus size: 16
4549535 GCTTCTCTCT
4549545 TTAAAAA-TAAAAAAA
1 TTAAAAATTAAAAAAA
4549560 TTAAAAATTAAGAAAAA
1 TTAAAAATTAA-AAAAA
4549577 TTAAAAAATT-AAAAAA
1 TT-AAAAATTAAAAAAA
4549593 TTAAAAAAATTAAAAAAAA
1 TT--AAAAATT-AAAAAAA
4549612 TTAAAAA
1 TTAAAAA
4549619 AAATTGTATT
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.13
16 10 0.19
17 21 0.40
18 7 0.13
19 8 0.15
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (16 bp):
TTAAAAATTAAAAAAA
Found at i:4549623 original size:10 final size:9
Alignment explanation
Indices: 4549547--4549620 Score: 95
Period size: 8 Copynumber: 8.6 Consensus size: 9
4549537 TTCTCTCTTT
4549547 AAAAA-TAA
1 AAAAATTAA
4549555 AAAAATT--
1 AAAAATTAA
4549562 AAAAATTAA
1 AAAAATTAA
4549571 GAAAAATT-A
1 -AAAAATTAA
4549580 AAAAATT-A
1 AAAAATTAA
4549588 AAAAATTAA
1 AAAAATTAA
4549597 AAAAATTAAA
1 AAAAATT-AA
4549607 AAAAATTAA
1 AAAAATTAA
4549616 AAAAA
1 AAAAA
4549621 ATTGTATTTA
Statistics
Matches: 60, Mismatches: 0, Indels: 11
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.12
8 20 0.33
9 17 0.28
10 16 0.27
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.20
Consensus pattern (9 bp):
AAAAATTAA
Found at i:4551335 original size:15 final size:16
Alignment explanation
Indices: 4551308--4551337 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4551298 GCAAGCTTGT
4551308 TATTTTAATTAAAATA
1 TATTTTAATTAAAATA
4551324 TATTTT-ATTAAAAT
1 TATTTTAATTAAAAT
4551338 GGAAAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTTAATTAAAATA
Found at i:4556430 original size:2 final size:2
Alignment explanation
Indices: 4556423--4556451 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4556413 TTATTTATTT
4556423 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 T
4556452 CATTTTAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4556478 original size:3 final size:3
Alignment explanation
Indices: 4556472--4556498 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4556462 TTCACTAATA
4556472 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
4556499 TTACTAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4556539 original size:2 final size:2
Alignment explanation
Indices: 4556534--4556572 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
4556524 GTAGTGGAAC
4556534 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4556573 TACCTTTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4556713 original size:27 final size:27
Alignment explanation
Indices: 4556672--4556729 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
4556662 TTCATTTAAT
*
4556672 TTTTATTTTTCTTT-ATTCTTACTTTT-C
1 TTTTATATTTCTTTAATT-TTA-TTTTAC
*
4556699 TTTTATATTTGTTTAATTTTATTTTAC
1 TTTTATATTTCTTTAATTTTATTTTAC
4556726 TTTT
1 TTTT
4556730 GATTCTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.15
27 20 0.74
28 3 0.11
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.74
Consensus pattern (27 bp):
TTTTATATTTCTTTAATTTTATTTTAC
Found at i:4556908 original size:18 final size:19
Alignment explanation
Indices: 4556875--4556910 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4556865 CTCTTTTTAT
*
4556875 TTTTATTTGTTTTTCATTA
1 TTTTATTTGATTTTCATTA
4556894 TTTTATTT-ATTTTCATT
1 TTTTATTTGATTTTCATT
4556911 TGTTATCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTATTTGATTTTCATTA
Found at i:4560908 original size:95 final size:95
Alignment explanation
Indices: 4560737--4560915 Score: 277
Period size: 95 Copynumber: 1.9 Consensus size: 95
4560727 TTATTTATAT
* * ** *
4560737 ACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAATGCCCTGGCTTTATGGATAATATT
1 ACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAAATGCCCCAGCTTTATGGATAAGATT
* *
4560802 CAGCTAGCCTGATAAAGGTGATTATACTAC
66 CAACTAACCTGATAAAGGTGATTATACTAC
* *
4560832 ACAATAAAGCTTGAGCTGTCCCTCTAAGGAAATTGGTTAAGTGCCCCAGCTTTATGGATAAGATT
1 ACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAAATGCCCCAGCTTTATGGATAAGATT
4560897 CAACTAACCTGATAAAGGT
66 CAACTAACCTGATAAAGGT
4560916 ATTTACATAT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 75 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (95 bp):
ACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAAATGCCCCAGCTTTATGGATAAGATT
CAACTAACCTGATAAAGGTGATTATACTAC
Found at i:4562262 original size:73 final size:75
Alignment explanation
Indices: 4562165--4562339 Score: 205
Period size: 72 Copynumber: 2.3 Consensus size: 75
4562155 AATGCAGATG
* ** * * *
4562165 ATTTATCTCACTTGAGATTATTTTTTCTCAAAAC-TGACTTTGTCTCACTTGAGACTGTTTT-AC
1 ATTTATTTCACTCAAGATTGTTTTTTCTCAAAACAAGA-TTTGTCTCACTTGAGACCGTTTTCAC
*
4562228 TCGAAAGAA-T
65 TCGAAAGAAGC
* *
4562238 ATTTATTTCACTCAAGATTG-TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACT
1 ATTTATTTCACTCAAGATTGTTTTTTCTCAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACT
4562302 CGAAAGAAGGC
66 CGAAAGAA-GC
*
4562313 ATTTCATTTCACTCAAGACTGTTTTTT
1 ATTT-ATTTCACTCAAGATTGTTTTTT
4562340 TTATAAAAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
72 33 0.38
73 29 0.34
75 4 0.05
76 15 0.17
77 5 0.06
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (75 bp):
ATTTATTTCACTCAAGATTGTTTTTTCTCAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACT
CGAAAGAAGC
Done.