Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 105 of 284
Found at i:34471942 original size:12 final size:12
Alignment explanation
Indices: 34471925--34471949 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34471915 CTGTTACAAG
34471925 AATAATATGTAT
1 AATAATATGTAT
34471937 AATAATATGTAT
1 AATAATATGTAT
34471949 A
1 A
34471950 TAAAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AATAATATGTAT
Found at i:34473278 original size:12 final size:12
Alignment explanation
Indices: 34473263--34473326 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
34473253 GATATCCCAG
34473263 AGAAAATCCAAA
1 AGAAAATCCAAA
* * *
34473275 AGAATATCCCAG
1 AGAAAATCCAAA
*
34473287 AGAAAGTCCAAA
1 AGAAAATCCAAA
* * *
34473299 AGAATATCCCAG
1 AGAAAATCCAAA
*
34473311 AGAAAATCCACA
1 AGAAAATCCAAA
34473323 AGAA
1 AGAA
34473327 GAATATCACT
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.55, C:0.20, G:0.14, T:0.11
Consensus pattern (12 bp):
AGAAAATCCAAA
Found at i:34473286 original size:24 final size:24
Alignment explanation
Indices: 34473254--34473326 Score: 128
Period size: 24 Copynumber: 3.0 Consensus size: 24
34473244 GAGATCGATG
34473254 ATATCCCAGAGAAAATCCAAAAGA
1 ATATCCCAGAGAAAATCCAAAAGA
*
34473278 ATATCCCAGAGAAAGTCCAAAAGA
1 ATATCCCAGAGAAAATCCAAAAGA
*
34473302 ATATCCCAGAGAAAATCCACAAGA
1 ATATCCCAGAGAAAATCCAAAAGA
34473326 A
1 A
34473327 GAATATCACT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.52, C:0.22, G:0.14, T:0.12
Consensus pattern (24 bp):
ATATCCCAGAGAAAATCCAAAAGA
Found at i:34473641 original size:13 final size:13
Alignment explanation
Indices: 34473623--34473650 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34473613 GATAAAAGAG
34473623 CATATAGAATACC
1 CATATAGAATACC
34473636 CATATAGAATACC
1 CATATAGAATACC
34473649 CA
1 CA
34473651 GAAGAAATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:34474667 original size:22 final size:24
Alignment explanation
Indices: 34474603--34474695 Score: 118
Period size: 25 Copynumber: 3.8 Consensus size: 24
34474593 ATCAGAGAGC
* *
34474603 GTGCTAATATTCAGAGAGCACTGAC
1 GTGCTAA-AATCAGAGAGCACTGAT
*
34474628 GTGCTAAATATCAGAGAGCACCGAT
1 GTGCTAAA-ATCAGAGAGCACTGAT
34474653 GTGCT-AAA-CAGAGAGCACTGAT
1 GTGCTAAAATCAGAGAGCACTGAT
34474675 GTGCTAATAATCAGAGAGCAC
1 GTGCTAA-AATCAGAGAGCAC
34474696 GCTAAACTCC
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
22 18 0.30
23 2 0.03
24 5 0.08
25 35 0.58
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (24 bp):
GTGCTAAAATCAGAGAGCACTGAT
Found at i:34476018 original size:17 final size:17
Alignment explanation
Indices: 34475996--34476046 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
34475986 GACTAATCCC
*
34475996 TATACATCACTTAGGTA
1 TATACATTACTTAGGTA
*
34476013 TATACATTACCTAGGTA
1 TATACATTACTTAGGTA
*
34476030 TGTACATTACTTAGGTA
1 TATACATTACTTAGGTA
34476047 CATGCCACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (17 bp):
TATACATTACTTAGGTA
Found at i:34482695 original size:45 final size:45
Alignment explanation
Indices: 34482639--34482742 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
34482629 CCCTATCTTC
* **
34482639 CTAAAATTGCAGTGGAGCAGA-CTGAAGATTGT-AGATCTTGTCTCT
1 CTAAAGTTGCAGTGGAGCAGATC-GAAGACGGTGA-ATCTTGTCTCT
*
34482684 CTAAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTT
1 CTAAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTCT
*
34482729 CTGAAGTTGCAGTG
1 CTAAAGTTGCAGTG
34482743 AAGTAGATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 50 0.96
46 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (45 bp):
CTAAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTCT
Found at i:34485780 original size:131 final size:130
Alignment explanation
Indices: 34485561--34485798 Score: 368
Period size: 131 Copynumber: 1.8 Consensus size: 130
34485551 AAAATTCTCT
* * *
34485561 AAAACAAAGGCAATACTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCATGCTGGGTTGTGAT
1 AAAACAAAGGCAATACTCGATGTTTGACAATTCAGGAATCGTGCCCTATCATGCTGGGTTGCGAT
*
34485626 TTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCGCTCATGTCTTTAAAAACCCTTC
66 TTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCGCTCATGTCTTTAAAAACCCTTC
* * * *
34485691 AAAACGAAGGTAATACTCGATGTTTGACAATTCAAGGAATCGTGCCCTATCGTTCTGGGTTGCGA
1 AAAACAAAGGCAATACTCGATGTTTGACAATTC-AGGAATCGTGCCCTATCATGCTGGGTTGCGA
* * *
34485756 TTTCCTGTTTGTTCAAAATAATCGAATATTTCTTTAGAATTTC
65 TTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTC
34485799 ACGTAGGATT
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
130 30 0.31
131 66 0.69
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (130 bp):
AAAACAAAGGCAATACTCGATGTTTGACAATTCAGGAATCGTGCCCTATCATGCTGGGTTGCGAT
TTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCGCTCATGTCTTTAAAAACCCTTC
Found at i:34488640 original size:30 final size:30
Alignment explanation
Indices: 34488604--34488663 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
34488594 ACTTAACAAG
34488604 CAAATGTCTCTAAAATAATAAAAAAATTAA
1 CAAATGTCTCTAAAATAATAAAAAAATTAA
* *
34488634 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAAAAAAATTAA
34488664 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.28
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAAAAAAATTAA
Found at i:34492479 original size:20 final size:19
Alignment explanation
Indices: 34492454--34492491 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
34492444 TTAAAATGGT
34492454 CACACGGGCGTGTTGCCCCC
1 CACACGGGCGTG-TGCCCCC
34492474 CACACGGGCGTGTGCCCC
1 CACACGGGCGTGTGCCCC
34492492 TGTATTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.11, C:0.45, G:0.32, T:0.13
Consensus pattern (19 bp):
CACACGGGCGTGTGCCCCC
Found at i:34503154 original size:33 final size:32
Alignment explanation
Indices: 34503117--34503189 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 32
34503107 ACATACATAA
34503117 ATTATAAA-A-TAGATAATATAGTCATGTATATAT
1 ATTATAAATATTAGA-AATATA-T-ATGTATATAT
*
34503150 ATTATTAAATATTAGACATATATATGTATATAT
1 ATTA-TAAATATTAGAAATATATATGTATATAT
34503183 ATATATA
1 AT-TATA
34503190 GTAAGATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
33 18 0.51
34 7 0.20
35 6 0.17
36 4 0.11
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (32 bp):
ATTATAAATATTAGAAATATATATGTATATAT
Found at i:34504182 original size:182 final size:182
Alignment explanation
Indices: 34503875--34504237 Score: 699
Period size: 182 Copynumber: 2.0 Consensus size: 182
34503865 TTCTCAACCG
34503875 CGACATCAAAAGGAAAAGGGATGAAACGCCTCTTTCGGCCCAACTCCGACGGCGGCAAGGGTGGG
1 CGACATCAAAAGGAAAAGGGATGAAACGCCTCTTTCGGCCCAACTCCGACGGCGGCAAGGGTGGG
* *
34503940 GCTCCGACACTAGACCATCGAAGCAATAAGGTATTTCCTTTCCCTTTTAGTTCCGTTTATTTTGT
66 GCTCCGACACTAGACCATCGAAGCAATAAGGTATTTCATTTCCCTTTTAGTTCCGTTTATTTTAT
34504005 TGAACAATTGCAGAGAAAAAAAAAGCAATAAATAAAGATTAAAGTGAATAAA
131 TGAACAATTGCAGAGAAAAAAAAAGCAATAAATAAAGATTAAAGTGAATAAA
34504057 CGACATCAAAAGGAAAAGGGATGAAACGCCTCTTTCGGCCCAACTCCGACGGCGGCAAGGGTGGG
1 CGACATCAAAAGGAAAAGGGATGAAACGCCTCTTTCGGCCCAACTCCGACGGCGGCAAGGGTGGG
*
34504122 GCTCCGACACTAGCCCATCGAAGCAATAAGGTATTTCATTTCCCTTTTAGTTCCGTTTATTTTAT
66 GCTCCGACACTAGACCATCGAAGCAATAAGGTATTTCATTTCCCTTTTAGTTCCGTTTATTTTAT
34504187 TGAACAATTGCAGAGAAAAAAAAAGCAATAAATAAAGATTAAAGTGAATAA
131 TGAACAATTGCAGAGAAAAAAAAAGCAATAAATAAAGATTAAAGTGAATAA
34504238 GAAACAAGAA
Statistics
Matches: 178, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 178 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (182 bp):
CGACATCAAAAGGAAAAGGGATGAAACGCCTCTTTCGGCCCAACTCCGACGGCGGCAAGGGTGGG
GCTCCGACACTAGACCATCGAAGCAATAAGGTATTTCATTTCCCTTTTAGTTCCGTTTATTTTAT
TGAACAATTGCAGAGAAAAAAAAAGCAATAAATAAAGATTAAAGTGAATAAA
Found at i:34505224 original size:44 final size:42
Alignment explanation
Indices: 34505169--34505494 Score: 202
Period size: 44 Copynumber: 7.6 Consensus size: 42
34505159 ATCTACTCTG
* * *
34505169 CTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACTTCAGGGAGATAAGAT-CTTT-CTTCAATCTGCTCCA
* * * *
34505213 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCG
1 CTGTAACTTCAGGGAGATAAGAT-CTTTCTTCAATCTGCTCCA
*
34505256 CTGTAA-TCTCAGGGAGATAAGAT-TTCTGGCCTCAATCTGCTCCA
1 CTGTAACT-TCAGGGAGATAAGATCTT-T--CTTCAATCTGCTCCA
* * * *
34505300 CTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCA
1 CTGTAACTTCAGGGAGATAAGATCT----TTCTTCAATCTGCTCCA
* * * ** * * *
34505346 CTGCAA-TCTCAGGGAAATAAGA-CCTGGTGCGATCTGCTCTA
1 CTGTAACT-TCAGGGAGATAAGATCTTTCTTCAATCTGCTCCA
* * *
34505387 CTGTAACTTCAGAGAGATAAGATC---CTTTAATCCGCTCCA
1 CTGTAACTTCAGGGAGATAAGATCTTTCTTCAATCTGCTCCA
* * * *
34505426 CTGTAA-TCTCAGGGAGATAGGATTACTATATTCAATCTGCTCCG
1 CTGTAACT-TCAGGGAGATAAGA-T-CTTTCTTCAATCTGCTCCA
34505470 CTGTAA-TCTCAGGGAGATAAGATCT
1 CTGTAACT-TCAGGGAGATAAGATCT
34505495 GCAATTCTTT
Statistics
Matches: 218, Mismatches: 45, Indels: 40
0.72 0.15 0.13
Matches are distributed among these distances:
38 1 0.00
39 27 0.12
40 1 0.00
41 28 0.13
42 6 0.03
43 32 0.15
44 90 0.41
45 2 0.01
46 29 0.13
48 1 0.00
49 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
CTGTAACTTCAGGGAGATAAGATCTTTCTTCAATCTGCTCCA
Found at i:34505298 original size:87 final size:83
Alignment explanation
Indices: 34505202--34505488 Score: 233
Period size: 87 Copynumber: 3.4 Consensus size: 83
34505192 CCTTTATTTT
* * *
34505202 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCGCTGTAATCTCA
1 AATCTGCTCCACTGTAACTTCAGGGAGATA-GATA-TGTCTTTAATCTGCTCCACTGTAATCTCA
*
34505267 GGGAGATAAGATTTCTGGCCTC
64 GGGAGATAAGATTACTGG--TC
* * * * *
34505289 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGCAATC
1 AATCTGCTCCACTGTAACTTCAGGGAGAT-AGATATG----TCTTTAATCTGCTCCACTGTAATC
* *
34505354 TCAGGGAAATAAGA--CCTGGTGC
61 TCAGGGAGATAAGATTACTGGT-C
* * * * * *
34505376 GATCTGCTCTACTGTAACTTCAGAGAGATA-AGAT-CCTTTAATCCGCTCCACTGTAATCTCAGG
1 AATCTGCTCCACTGTAACTTCAGGGAGATAGATATGTCTTTAATCTGCTCCACTGTAATCTCAGG
* **
34505439 GAGATAGGATTACTATATTC
66 GAGATAAGATTAC--TGGTC
*
34505459 AATCTGCTCCGCTGTAA-TCTCAGGGAGATA
1 AATCTGCTCCACTGTAACT-TCAGGGAGATA
34505489 AGATCTGCAA
Statistics
Matches: 159, Mismatches: 30, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
80 31 0.19
82 2 0.01
83 25 0.16
84 2 0.01
85 2 0.01
86 4 0.03
87 56 0.35
88 5 0.03
90 32 0.20
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (83 bp):
AATCTGCTCCACTGTAACTTCAGGGAGATAGATATGTCTTTAATCTGCTCCACTGTAATCTCAGG
GAGATAAGATTACTGGTC
Found at i:34519376 original size:14 final size:15
Alignment explanation
Indices: 34519359--34519387 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34519349 TTAAATTTTG
34519359 AAATTT-AAAAGAAA
1 AAATTTAAAAAGAAA
34519373 AAATTTAAAAAGAAA
1 AAATTTAAAAAGAAA
34519388 GATTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (15 bp):
AAATTTAAAAAGAAA
Found at i:34520203 original size:18 final size:18
Alignment explanation
Indices: 34520169--34520203 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34520159 ATTTGTCTAG
* *
34520169 TTTAAATTTTTATATTTT
1 TTTAAATTTTAAAATTTT
34520187 TTTAAATTTTAAAATTT
1 TTTAAATTTTAAAATTT
34520204 CAATACTAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTAAATTTTAAAATTTT
Found at i:34523085 original size:169 final size:172
Alignment explanation
Indices: 34522681--34523142 Score: 657
Period size: 174 Copynumber: 2.7 Consensus size: 172
34522671 TTGGTTTTGA
34522681 TTTGACAAGCATATATAATGCTGTTTTCTTGGTGGGGTTTTGGTTATGGGATTGTAGGGAAGGAA
1 TTTGACAAGCATATATAATGCTGTTTTCTTGGTGGGGTTTTGGTTATGGGATTGTAGGGAA-GAA
* * * ** *
34522746 AAAGAGACAAAATCGACGTCGCAATTGCCATTTGTTATAGGGGAACCTGAAGAAACAGGTGAGTC
65 AAAGAGACGAAATCGACGTCGAAACTGCCATTTGCGATAGGGGAACCTGAAGAAACAGGTGACTC
*
34522811 AGTTCTTAACTCGGTCATCGTTTTTTTATAAATTTTTTTTAGAG
130 AGTTCTTAACTCGGTCATCG-CTTTTTATAAATTTTTTTTAGAG
* * *
34522855 TTTGAC-TGACATATATAATGTTGTTTTCTTGGTGGGGTTTTGGTTATGGGATTATAGGGAAGAA
1 TTTGACAAG-CATATATAATGCTGTTTTCTTGGTGGGGTTTTGGTTATGGGATTGTAGGGAAGAA
* *
34522919 AGAAGAGACGGAATCGAAGTCGAAACTGCCATTTGCGATAGGGGAACCTGAAGAAACAGGTGACT
65 A-AAGAGACGAAATCGACGTCGAAACTGCCATTTGCGATAGGGGAACCTGAAGAAACAGGTGACT
* * *
34522984 CAGTTCTTAACTCGGTTA-C-CTTTTT-T-ACTTTTTTTTAGGG
129 CAGTTCTTAACTCGGTCATCGCTTTTTATAAATTTTTTTTAGAG
*
34523024 TTTGACAAGCATATATAATGCTGTTTTCTTGGTGGGGTTTTGGTTGTGGGATTGTAGGGAAGAAA
1 TTTGACAAGCATATATAATGCTGTTTTCTTGGTGGGGTTTTGGTTATGGGATTGTAGGGAAGAAA
* * *
34523089 AAGGAGGCGAAATCGACGTC-AAAGCTGCCATTCGCGATAGGGGAAACTGAAGAA
66 AA-GAGACGAAATCGACGTCGAAA-CTGCCATTTGCGATAGGGGAACCTGAAGAA
34523143 GGATGTGATA
Statistics
Matches: 259, Mismatches: 24, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
168 5 0.02
169 113 0.44
170 2 0.01
171 5 0.02
173 6 0.02
174 128 0.49
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (172 bp):
TTTGACAAGCATATATAATGCTGTTTTCTTGGTGGGGTTTTGGTTATGGGATTGTAGGGAAGAAA
AAGAGACGAAATCGACGTCGAAACTGCCATTTGCGATAGGGGAACCTGAAGAAACAGGTGACTCA
GTTCTTAACTCGGTCATCGCTTTTTATAAATTTTTTTTAGAG
Found at i:34532893 original size:3 final size:3
Alignment explanation
Indices: 34532880--34532942 Score: 99
Period size: 3 Copynumber: 20.7 Consensus size: 3
34532870 ACAAACAATG
* *
34532880 ATA AAA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
34532926 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
34532943 GCAACGATAG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:34533574 original size:3 final size:3
Alignment explanation
Indices: 34533561--34533601 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
34533551 GTATACATGA
34533561 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
34533602 GTAAAATCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:34535919 original size:89 final size:89
Alignment explanation
Indices: 34535794--34535968 Score: 296
Period size: 89 Copynumber: 2.0 Consensus size: 89
34535784 AAGACTAGTG
* * *
34535794 ATTTTCAGCCTATTACCCTATTGCTTAGGGGGTTAAGGCTTGGTGGCTTGAATATGCTTCACTGC
1 ATTTTCAGCCTATTACCCTACTACTTAGGGGATTAAGGCTTGGTGGCTTGAATATGCTTCACTGC
34535859 AACTTCAGGAAGGCAAGATTTGTA
66 AACTTCAGGAAGGCAAGATTTGTA
* *
34535883 ATTTTCAGCCTATTACCCTACTACTTAGGGGATTAAGGCTTGGTGGCTTGAATCTGTTTCACTGC
1 ATTTTCAGCCTATTACCCTACTACTTAGGGGATTAAGGCTTGGTGGCTTGAATATGCTTCACTGC
*
34535948 AACTTCAGTAAGGCAAGATTT
66 AACTTCAGGAAGGCAAGATTT
34535969 ACCGTCTTCG
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (89 bp):
ATTTTCAGCCTATTACCCTACTACTTAGGGGATTAAGGCTTGGTGGCTTGAATATGCTTCACTGC
AACTTCAGGAAGGCAAGATTTGTA
Found at i:34536010 original size:45 final size:45
Alignment explanation
Indices: 34535934--34536414 Score: 220
Period size: 45 Copynumber: 10.7 Consensus size: 45
34535924 GGTGGCTTGA
* ** * *
34535934 ATCTGTTTCACTGCAACTTCAGTAAGGCAAGATTTACCGTCTTCG
1 ATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTACTGTCTTCG
* *
34535979 ATCTGTTCCACTGCAATTTCAGGGAGACAAGA--T-CTGT-TTTG
1 ATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTACTGTCTTCG
* * * * * *
34536020 ATCTGTTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTAGCTTCA
1 ATCTGTTCCACTGCAACTTCAGGGAGACAAGA-TT-TACTGT--CTTCG
* * * *** *
34536069 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAAATTTG
1 ATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTACTGTCTTCG
* * * * *
34536114 ATCTGCTCCACTGCAA-TCTCAAGGAAACAAGATCTA-TAATCTTC-
1 ATCTGTTCCACTGCAACT-TCAGGGAGACAAGATTTACT-GTCTTCG
* ** * * * ** * **
34536158 AGCCTACTCCACTACAACTTTAGGGAG-CTAGGA--TGGTGGCTTAA
1 A-TCTGTTCCACTGCAACTTCAGGGAGAC-AAGATTTACTGTCTTCG
* * * *
34536202 ATCTGCTT-CACTGCAACTTCAGGAAGGCAAGATTTACCGTCTTCA
1 ATCTG-TTCCACTGCAACTTCAGGGAGACAAGATTTACTGTCTTCG
*
34536247 ATCTGTTCCACTGCAACTTCAGGGAGACAAGA--T-CTGT-TTTG
1 ATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTACTGTCTTCG
* * * * * * *
34536288 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTAGCTTCA
1 ATCTGTTCCACTGCAACTTCAGGGAGACAAGAT-T-TACTGT--CTTCG
* * * * * *
34536337 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTG
1 ATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTACTGTCTTCG
* *
34536382 ATCTGCTCCACTGCAA-TATCAGGGAAACAAGAT
1 ATCTGTTCCACTGCAACT-TCAGGGAGACAAGAT
34536415 CTACAATCTT
Statistics
Matches: 326, Mismatches: 81, Indels: 58
0.70 0.17 0.12
Matches are distributed among these distances:
41 61 0.19
42 6 0.02
43 26 0.08
44 11 0.03
45 147 0.45
46 5 0.02
47 5 0.02
48 3 0.01
49 62 0.19
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
ATCTGTTCCACTGCAACTTCAGGGAGACAAGATTTACTGTCTTCG
Found at i:34536101 original size:90 final size:88
Alignment explanation
Indices: 34535973--34536416 Score: 348
Period size: 90 Copynumber: 4.9 Consensus size: 88
34535963 AGATTTACCG
* * * *
34535973 TCTTCGATCTGTTCCACTGCAATTTCAGGGAGACAAGATCTGTTTTGATCTGTTCTACTGCAACT
1 TCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTGTTTTGATCTGCTCTACTGCAACT
* *
34536038 TCAGAGAGATAAGATTTGTAATT
66 TCAGAGAGACAAGATCTGTAATT
* * *
34536061 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAAATTTGATCTGCTCCACT
1 T--CTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTG-T---TTTGATCTGCTCTACT
* *
34536126 GCAA-TCTCA-AGGAAACAAGATCTATAA--
60 GCAACT-TCAGA-GAGACAAGATCTGTAATT
** ** * * * * * * **
34536153 TCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCT-TCACTGCA
1 TCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGAT-CT-GTTTTGATCTGCTCT-ACTGCA
* ***
34536217 ACTTCAG-GAAGGCAAGAT-T-TACCG
63 ACTTCAGAG-AGACAAGATCTGTAATT
*
34536241 TCTTCAATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGTTTTGATCTGCTCTACTGCAACT
1 TCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTGTTTTGATCTGCTCTACTGCAACT
*
34536306 TCAGAGAGATAAGATCTGTAATT
66 TCAGAGAGACAAGATCTGTAATT
* * *
34536329 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCTGCTCCACT
1 T--CTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGA--T-CTGT-TTTGATCTGCTCTACT
* *
34536394 GCAA-TATCAGGGAAACAAGATCT
60 GCAACT-TCAGAGAGACAAGATCT
34536417 ACAATCTTCA
Statistics
Matches: 276, Mismatches: 53, Indels: 48
0.73 0.14 0.13
Matches are distributed among these distances:
86 32 0.12
87 6 0.02
88 60 0.22
89 1 0.00
90 100 0.36
91 2 0.01
92 3 0.01
93 6 0.02
94 66 0.24
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (88 bp):
TCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATCTGTTTTGATCTGCTCTACTGCAACT
TCAGAGAGACAAGATCTGTAATT
Found at i:34536117 original size:135 final size:134
Alignment explanation
Indices: 34535978--34536416 Score: 478
Period size: 135 Copynumber: 3.3 Consensus size: 134
34535968 TACCGTCTTC
* * *
34535978 GATCTGTTCCACTGCAATTTCAGGGAGACAAGATCTGTTTTGATCTGTTCTACTGCAACTTCAGA
1 GATCTGCTCCACTGCAATTTCAGGGAAACAAGATCTGTTTTGATCTGCTCTACTGCAACTTCAGA
34536043 GAGATAAGATTTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTA
66 GAGATAAGA-TTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTA
*
34536108 AATTT
130 TATTT
* * * * * * * *
34536113 GATCTGCTCCACTGCAATCTCAAGGAAACAAGATCTATAATCTTCAGCCTACTCCACTACAACTT
1 GATCTGCTCCACTGCAATTTCAGGGAAACAAGATCTGT--T-TTGA-TCTGCTCTACTGCAACTT
* * * * * * * **
34536178 TAGGGAGCTAGGA-TG----GTGGCTTAAATCTGCTT-CACTGCAACTTCA-GGAAGGCAAGATT
62 CAGAGAGATAAGATTGTAATTTAGCTTCAATCTG-TTCCACTGCAACTTCAGGGAA-ATAAGATT
* ** * *
34536236 TACCGTCTTC
125 TGCTATATTT
* * * *
34536246 AATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGTTTTGATCTGCTCTACTGCAACTTCAGA
1 GATCTGCTCCACTGCAATTTCAGGGAAACAAGATCTGTTTTGATCTGCTCTACTGCAACTTCAGA
34536311 GAGATAAGATCTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTA
66 GAGATAAGAT-TGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTA
34536376 TATTT
130 TATTT
*
34536381 GATCTGCTCCACTGCAATATCAGGGAAACAAGATCT
1 GATCTGCTCCACTGCAATTTCAGGGAAACAAGATCT
34536417 ACAATCTTCA
Statistics
Matches: 233, Mismatches: 57, Indels: 28
0.73 0.18 0.09
Matches are distributed among these distances:
129 23 0.10
130 3 0.01
131 3 0.01
132 4 0.02
133 65 0.28
134 4 0.02
135 99 0.42
136 4 0.02
137 3 0.01
138 3 0.01
139 22 0.09
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (134 bp):
GATCTGCTCCACTGCAATTTCAGGGAAACAAGATCTGTTTTGATCTGCTCTACTGCAACTTCAGA
GAGATAAGATTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAT
ATTT
Found at i:34536251 original size:133 final size:133
Alignment explanation
Indices: 34535923--34536549 Score: 461
Period size: 135 Copynumber: 4.7 Consensus size: 133
34535913 GATTAAGGCT
* * * * * *
34535923 TGGTGGCTTGAATCTGTTTCACTGCAACTTCAGTAAGGCAAGATTTACCGTCTTCGATCTGTTCC
1 TGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAAGATTTGCCGTCTTCGATCTGCTCC
* * * * * * ** * * * * *
34535988 ACTGCAATTTCAGGGAGACAAGATCTGT--T-TTGA-TCTGTTCTACTGCAACTTCAGAGAGATA
66 ACTGCAATCTCAAGGAAACAAGATCTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTA
*
34536049 AGA
131 GGA
* * * * **** *
34536052 TTTGTAATTTAGCTTCAATCTG-TTCCACTGCAACTTCAGGGAA-ATAAGATTTGCTAAATTTGA
1 --TG----GTGGCTTAAATCTGCTT-CACTGCAACTTCA-GGAAGACAAGATTTGCCGTCTTCGA
34536115 TCTGCTCCACTGCAATCTCAAGGAAACAAGATCTATAATCTTCAGCCTACTCCACTACAACTTTA
58 TCTGCTCCACTGCAATCTCAAGGAAACAAGATCTATAATCTTCAGCCTACTCCACTACAACTTTA
34536180 GGGAGCTAGGA
123 GGGAGCTAGGA
* * * *
34536191 TGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTTACCGTCTTCAATCTGTTCC
1 TGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAAGATTTGCCGTCTTCGATCTGCTCC
* * * * * * * * * * *
34536256 ACTGCAA-CTTCAGGGAGACAAGATCTGT--T-TTGA-TCTGCTCTACTGCAACTTCAGAGAGAT
66 ACTGCAATC-TCAAGGAAACAAGATCTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCT
*
34536316 AAGA
130 AGGA
* * * * ** * *
34536320 TCTGTAATTTAGCTTCAATCTG-TTCCACTGCAACTTCAGGGAA-ATAAGATTTGCTATATTTGA
1 --TG----GTGGCTTAAATCTGCTT-CACTGCAACTTCA-GGAAGACAAGATTTGCCGTCTTCGA
* * *
34536383 TCTGCTCCACTGCAATATCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTA
58 TCTGCTCCACTGCAATCTCAAGGAAACAAGATCTATAATCTTCAGCCTACTCCACTACAACTTTA
34536448 GGGAGCTAGGA
123 GGGAGCTAGGA
* * * * *
34536459 TGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGGTTCGCCGTCTTCGATCTGCTCC
1 TGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAAGATTTGCCGTCTTCGATCTGCTCC
34536524 ACTGCAATCTCAAGGAAACAAGATCT
66 ACTGCAATCTCAAGGAAACAAGATCT
34536550 GTAGAATTGA
Statistics
Matches: 376, Mismatches: 92, Indels: 54
0.72 0.18 0.10
Matches are distributed among these distances:
129 23 0.06
130 3 0.01
131 5 0.01
132 9 0.02
133 131 0.35
134 8 0.02
135 133 0.35
136 7 0.02
137 6 0.02
138 6 0.02
139 45 0.12
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (133 bp):
TGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACAAGATTTGCCGTCTTCGATCTGCTCC
ACTGCAATCTCAAGGAAACAAGATCTATAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTA
GGA
Found at i:34536304 original size:41 final size:41
Alignment explanation
Indices: 34536247--34536324 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
34536237 ACCGTCTTCA
* *
34536247 ATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGTTTTG
1 ATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTGTTTTG
* *
34536288 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT
1 ATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTGT
34536325 AATTTAGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (41 bp):
ATCTGCTCCACTGCAACTTCAGAGAGACAAGATCTGTTTTG
Found at i:34536410 original size:268 final size:267
Alignment explanation
Indices: 34535923--34536551 Score: 1060
Period size: 268 Copynumber: 2.3 Consensus size: 267
34535913 GATTAAGGCT
* * *
34535923 TGGTGGCTTGAATCTGTTTCACTGCAACTTCAGTAAGGCAAGATTTACCGTCTTCGATCTGTTCC
1 TGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTTACCGTCTTCGATCTGTTCC
*
34535988 ACTGCAATTTCAGGGAGACAAGATCTGTTTTGATCTGTTCTACTGCAACTTCAGAGAGATAAGAT
66 ACTGCAA-TTCAGGGAGACAAGATCTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
*
34536053 TTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAAATTTGATCT
130 CTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAAATTTGATCT
* *
34536118 GCTCCACTGCAATCTCAAGGAAACAAGATCTATAATCTTCAGCCTACTCCACTACAACTTTAGGG
195 GCTCCACTGCAATATCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
34536183 AGCTAGGA
260 AGCTAGGA
*
34536191 TGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTTACCGTCTTCAATCTGTTCC
1 TGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTTACCGTCTTCGATCTGTTCC
34536256 ACTGCAACTTCAGGGAGACAAGATCTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
66 ACTGCAA-TTCAGGGAGACAAGATCTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
*
34536321 CTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCT
130 CTGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAAATTTGATCT
*
34536386 GCTCCACTGCAATATCAGGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
195 GCTCCACTGCAATATCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
34536451 AGCTAGGA
260 AGCTAGGA
* * * * ** *
34536459 TGGTGGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGGTTCGCCGTCTTCGATCTGCTCC
1 TGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTTACCGTCTTCGATCTGTTCC
* *
34536524 ACTGCAATCTCAAGGAAACAAGATCTGT
66 ACTGCAAT-TCAGGGAGACAAGATCTGT
34536552 AGAATTGATC
Statistics
Matches: 339, Mismatches: 21, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
267 1 0.00
268 338 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (267 bp):
TGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGGCAAGATTTACCGTCTTCGATCTGTTCC
ACTGCAATTCAGGGAGACAAGATCTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC
TGTAATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTAAATTTGATCTG
CTCCACTGCAATATCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGA
GCTAGGA
Found at i:34549572 original size:26 final size:26
Alignment explanation
Indices: 34549526--34549593 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
34549516 ACCAAAAAAA
* *
34549526 AACTTTCCTTTTTTTTATTCCATTGCC
1 AACTTTCC-CTTTTTTATTCCATTACC
34549553 AACTTTCCCTTTTTTATTCCATTACC
1 AACTTTCCCTTTTTTATTCCATTACC
34549579 AACTTTCCCTTTTTT
1 AACTTTCCCTTTTTT
34549594 TATTTTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 31 0.79
27 8 0.21
ACGTcount: A:0.16, C:0.28, G:0.01, T:0.54
Consensus pattern (26 bp):
AACTTTCCCTTTTTTATTCCATTACC
Found at i:34552733 original size:28 final size:25
Alignment explanation
Indices: 34552679--34552738 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 25
34552669 AAGATTCAAC
34552679 ATAAATAAAATATAAACAATTTGAA
1 ATAAATAAAATATAAACAATTTGAA
* *
34552704 ATAAAGTAATATATAAAGCAAATTTTAA
1 ATAAA-TAAAATATAAA-C-AATTTGAA
34552732 ATAAATA
1 ATAAATA
34552739 GTATGTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.17
26 10 0.33
27 3 0.10
28 12 0.40
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (25 bp):
ATAAATAAAATATAAACAATTTGAA
Found at i:34553257 original size:18 final size:18
Alignment explanation
Indices: 34553230--34553265 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34553220 AAAAACTATG
*
34553230 TAAAAGGATATAAATAAA
1 TAAAAGGATAAAAATAAA
*
34553248 TAAAATGATAAAAATAAA
1 TAAAAGGATAAAAATAAA
34553266 ATATGTATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.22
Consensus pattern (18 bp):
TAAAAGGATAAAAATAAA
Found at i:34559862 original size:38 final size:38
Alignment explanation
Indices: 34559811--34559887 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
34559801 AATTTGTTTC
34559811 ACACACTCTCTCTCCCTATGATACTTTCTTTCTCTTTT
1 ACACACTCTCTCTCCCTATGATACTTTCTTTCTCTTTT
*
34559849 ACACACTCTCTCTCCCTATGATTCTTTCTTTCTCTTTT
1 ACACACTCTCTCTCCCTATGATACTTTCTTTCTCTTTT
34559887 A
1 A
34559888 ATGAATTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.16, C:0.34, G:0.03, T:0.48
Consensus pattern (38 bp):
ACACACTCTCTCTCCCTATGATACTTTCTTTCTCTTTT
Found at i:34559956 original size:17 final size:19
Alignment explanation
Indices: 34559933--34559972 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
34559923 TCCTCTTACT
34559933 TTTTTTTTTGTAATTAG-C
1 TTTTTTTTTGTAATTAGAC
*
34559951 TTTTTTTTTGTATTTAGAC
1 TTTTTTTTTGTAATTAGAC
34559970 TTT
1 TTT
34559973 ATGTTTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.15, C:0.05, G:0.10, T:0.70
Consensus pattern (19 bp):
TTTTTTTTTGTAATTAGAC
Found at i:34563937 original size:20 final size:19
Alignment explanation
Indices: 34563892--34563937 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
34563882 ATATTTTTAT
34563892 TTTTTATAATTTTAAATAA
1 TTTTTATAATTTTAAATAA
* *
34563911 TTATTTATATTTTTATTATAA
1 TT-TTTATAATTTTA-AATAA
34563932 TTTTTA
1 TTTTTA
34563938 AAAATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 15 0.65
21 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTATAATTTTAAATAA
Found at i:34563949 original size:31 final size:29
Alignment explanation
Indices: 34563880--34563964 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 29
34563870 TTATACTTTT
34563880 TAATATTTT-TATTTTTTATAATTTTAAA
1 TAATATTTTATATTTTTTATAATTTTAAA
34563908 TAAT-TATTTATATTTTTATTATAATTTTTAAA
1 TAATAT-TTTATA-TTTT-TTATAA-TTTTAAA
*
34563940 -AATATTTTATGTTATTTTAATAATT
1 TAATATTTTATATT-TTTT-ATAATT
34563965 ACATTTAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
27 1 0.02
28 7 0.15
29 2 0.04
30 10 0.21
31 20 0.42
32 8 0.17
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (29 bp):
TAATATTTTATATTTTTTATAATTTTAAA
Found at i:34565759 original size:6 final size:6
Alignment explanation
Indices: 34565748--34565774 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34565738 ACTTTTCTCA
34565748 TTTTCT TTTTCT TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTT
34565775 AATTATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:34568919 original size:27 final size:27
Alignment explanation
Indices: 34568888--34568943 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
34568878 AGGGATCAAG
*
34568888 TCTTGAAAGATGAGATTATGGAGTTAA
1 TCTTGAAAGATGAGATTATGGAGTAAA
34568915 TCTTGAAAGATGAGATTATGGAGTAAA
1 TCTTGAAAGATGAGATTATGGAGTAAA
34568942 TC
1 TC
34568944 ATCAATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (27 bp):
TCTTGAAAGATGAGATTATGGAGTAAA
Found at i:34578174 original size:22 final size:24
Alignment explanation
Indices: 34578124--34578196 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 24
34578114 AGTATCAGAA
*
34578124 ATATACGT-ACAATAGTATAAAAGAT
1 ATATACATAACAATA-TAT-AAAGAT
34578149 ATATA-ACTAACAATAT-TAAAG-T
1 ATATACA-TAACAATATATAAAGAT
*
34578171 ATATACATAACAATATATAAAAAT
1 ATATACATAACAATATATAAAGAT
34578195 AT
1 AT
34578197 GATATTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 4 0.10
25 7 0.17
26 6 0.15
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.30
Consensus pattern (24 bp):
ATATACATAACAATATATAAAGAT
Found at i:34579501 original size:14 final size:14
Alignment explanation
Indices: 34579482--34579508 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34579472 AGGTGGTGGC
34579482 AGAGGCAAGTGGGG
1 AGAGGCAAGTGGGG
34579496 AGAGGCAAGTGGG
1 AGAGGCAAGTGGG
34579509 AAGCTAGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.56, T:0.07
Consensus pattern (14 bp):
AGAGGCAAGTGGGG
Found at i:34580499 original size:75 final size:75
Alignment explanation
Indices: 34580379--34581013 Score: 317
Period size: 75 Copynumber: 8.0 Consensus size: 75
34580369 ACATAAATTG
* * *
34580379 AAAAATAGAAATTGAAAATACCTCAGCGTGT--CCTAAGACTCAACTCGA-CTCTCGCAATACGA
1 AAAAATAG-AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTC-ACCTCTCGCAATATGA
*
34580441 GTTGACTTTTAA
64 GTTGATTTTTAA
* * *
34580453 AAAAAAAGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATCTCTCGCAATATGGGT
1 AAAAATAGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
**
34580518 TGATTTTTTTG
66 TGA-TTTTTAA
* * * *
34580529 AAACATA-AATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAATAGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
34580593 TGATTTTTTTGA
66 TGA--TTTTTAA
* ** ** * **
34580605 AAAGA-AGAAATTGAAAAGCAGACATTGAAAATACCTCAGCGTGTTCTGAGGCTCAACTCACCTC
1 AAAAATAG-AATTG---A--A-A-A-T--ACCT-CAGC-GTGTGACCTGAGGCTCAACTCACCTC
*
34580669 TCGCAATATGAGTTGATTTTTTTGA
53 TCGCAATATGAGTTGA--TTTTTAA
* ** ** * *
34580694 AAAGA-AGAAATTGAAAAGCAGACATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTC
1 AAAAATAG-AATTG---A--A-A-A-T--ACCT-CAGC-GTGTGACCTGAGGCTCAACTCACCT-
*
34580758 ACTTTTCGCAATATGAGTTGATTTTT-G
52 -C---TCGCAATATGAGTTGATTTTTAA
* * *
34580785 ACAAACAGAAATT-AAAATTACCTCAGCGTGT--CTTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAATAG-AATTGAAAA-TACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
**
34580847 GTTGATTTTTTTTG
64 GTTGA--TTTTTAA
* * * * *
34580861 AAAGACAGAAATTGAAAATTACCTCAGCATGT--CTTGAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAATAG-AATTGAAAA-TACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
**
34580924 GTTGATTTTTTTG
64 GTTGA-TTTTTAA
* * * * *
34580937 AAAGATAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTGAACTCATCTCTCGCAATATGAG
1 AAAAATAG-AATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
34581000 TTGATTTTTGA
65 TTGATTTTTAA
34581011 AAA
1 AAA
34581014 CAGAAATAAA
Statistics
Matches: 482, Mismatches: 50, Indels: 58
0.82 0.08 0.10
Matches are distributed among these distances:
73 38 0.08
74 16 0.03
75 135 0.28
76 57 0.12
77 57 0.12
78 18 0.04
80 4 0.01
81 2 0.00
82 3 0.01
83 1 0.00
84 4 0.01
85 2 0.00
86 1 0.00
87 2 0.00
88 3 0.01
89 107 0.22
91 4 0.01
92 12 0.02
94 16 0.03
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (75 bp):
AAAAATAGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTAA
Found at i:34580620 original size:14 final size:14
Alignment explanation
Indices: 34580601--34580635 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
34580591 GTTGATTTTT
34580601 TTGAAAAGAAGAAA
1 TTGAAAAGAAGAAA
* *
34580615 TTGAAAAGCAGACA
1 TTGAAAAGAAGAAA
34580629 TTGAAAA
1 TTGAAAA
34580636 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGAAGAAA
Found at i:34580677 original size:89 final size:89
Alignment explanation
Indices: 34580537--34580783 Score: 388
Period size: 89 Copynumber: 2.7 Consensus size: 89
34580527 TGAAACATAA
*
34580537 ATTGAAAATACCTCGGCATGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 ATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
34580601 TTGAAAAGAAGAAATTGAAAAGCAGAC
63 TTGAAAAGAAGAAATTGAAAAGCAGAC
**
34580628 ATTGAAAATACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
1 ATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
34580693 AAAAGAAGAAATTGAAAAGCAGAC
66 AAAAGAAGAAATTGAAAAGCAGAC
34580717 ATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCACTTTTCGCAATATGAGTTGATTT
1 ATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCT--C---TCGCAATATGAGTTGATTT
34580782 TT
61 TT
34580784 GACAAACAGA
Statistics
Matches: 145, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
88 1 0.01
89 106 0.73
91 17 0.12
94 21 0.14
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (89 bp):
ATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
AAAAGAAGAAATTGAAAAGCAGAC
Found at i:34580709 original size:14 final size:14
Alignment explanation
Indices: 34580690--34580724 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
34580680 GTTGATTTTT
34580690 TTGAAAAGAAGAAA
1 TTGAAAAGAAGAAA
* *
34580704 TTGAAAAGCAGACA
1 TTGAAAAGAAGAAA
34580718 TTGAAAA
1 TTGAAAA
34580725 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGAAGAAA
Found at i:34580905 original size:77 final size:75
Alignment explanation
Indices: 34580708--34581020 Score: 408
Period size: 77 Copynumber: 4.2 Consensus size: 75
34580698 AAGAAATTGA
* * *
34580708 AAAG-CAGACATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCACTTTTCGCAATAT
1 AAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCT--C---TCGCAATAT
34580772 GAGTTGA--TTTTTG
61 GAGTTGATTTTTTTG
34580785 ACAA-ACAGAAATT-AAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 A-AAGACAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
34580848 TTGATTTTTTTTG
64 TTGA-TTTTTTTG
* *
34580861 AAAGACAGAAATTGAAAATTACCTCAGCATGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGT
1 AAAGACAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
34580926 TGATTTTTTTG
65 TGATTTTTTTG
* * * *
34580937 AAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTGAACTCATCTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
34581002 GA--TTTTTG
66 GATTTTTTTG
34581010 AAA-ACAGAAAT
1 AAAGACAGAAAT
34581021 AAAAACATCA
Statistics
Matches: 216, Mismatches: 12, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
72 7 0.03
73 25 0.12
75 46 0.21
76 42 0.19
77 57 0.26
78 39 0.18
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (75 bp):
AAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTG
Found at i:34580936 original size:333 final size:325
Alignment explanation
Indices: 34580300--34580954 Score: 840
Period size: 333 Copynumber: 2.0 Consensus size: 325
34580290 TTGAACATAA
34580300 ATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTAGCAACATGAATTGATTTTTG
1 ATTGAAAATACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTAGCAACATGAATTGATTTTTG
* * * *
34580365 AAATACATAAATTGAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTAAGACTCAACTCGACTC
65 AAATAAAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGACTCAACTCGACTC
34580430 TCGCAATACGAGTTGACTTTTAAAAAAAAAGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTC
130 TCGCAATACGAGTTGACTTTTAAAAAAAAAGAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTC
* * * *
34580495 AACTCATCTCTCGCAATATGGGTTGATTTTTTTGAAACATAAATTGAAAATACCTCGGCATGTGA
194 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAGAAATTGAAAATACCTCAGCATGT-A
34580560 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGA-AGAAATTGAAAAGC
258 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAGATAGAAATTGAAAAGC
34580624 AGAC
322 AGAC
** * * * *
34580628 ATTGAAAATACCTCAGC-GTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 ATTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAACATGAATTGA--TTTTT
* * * *
34580692 GAAA-AGAAGAAATTGAAAAGCAGACATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTC-AC
64 GAAATA-AAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGACTCAACTCGA-
* ** * *
34580755 CTCACTTTTCGCAATATGAGTTGA-TTTTTGACAAACAGAAATT-AAAATTACCTCAGCGTGT-C
127 CT--C---TCGCAATACGAGTTGACTTTTAAAAAAAAAG-AATTGAAAA-TACCTCAGCGTGTAC
*
34580817 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATTA
185 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG-AA-ACAGAAATTGAAAA-TA
** *
34580882 CCTCAGCATGT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGA
246 CCTCAGCATGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGA
34580946 AATTGAAAA
311 AATTGAAAA
34580955 TACCTCAACG
Statistics
Matches: 284, Mismatches: 27, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
326 34 0.12
327 2 0.01
328 75 0.26
330 1 0.00
331 33 0.12
332 27 0.10
333 87 0.31
334 13 0.05
335 12 0.04
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (325 bp):
ATTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAACATGAATTGATTTTTGA
AATAAAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTAAGACTCAACTCGACTCT
CGCAATACGAGTTGACTTTTAAAAAAAAAGAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAGAAATTGAAAATACCTCAGCATGTACCC
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAAGCAGAC
Found at i:34580982 original size:152 final size:150
Alignment explanation
Indices: 34580708--34581008 Score: 412
Period size: 152 Copynumber: 2.0 Consensus size: 150
34580698 AAGAAATTGA
* *
34580708 AAAGCAGACATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCACTTTTCGCAATATG
1 AAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCT-AC--TTCGCAATATG
*
34580773 AGTTGATTTTTGACAAACAGAAATTAAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTC
63 AGTTGATTTTTGACAAACAGAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
34580838 GCAATATGAGTTGATTTTTTTTG
128 GCAATATGAGTTGATTTTTTTTG
* * *
34580861 AAAGACAGAAATTGAAAATTACCTCAGCATGTCTTGAGGTTCAACTCACCT-C-TCGCAATATGA
1 AAAG-CAGAAATTGAAAA-TACCTCAGCATGCCCTGAGGCTCAACTCACCTACTTCGCAATATGA
* * *
34580924 GTTGATTTTTTTGA-AAGATAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTGAACTCATCT
64 GTTGA--TTTTTGACAA-ACAGAAATT-AAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCT
34580987 CTCGCAATATGAGTTGATTTTT
125 CTCGCAATATGAGTTGATTTTT
34581009 GAAAACAGAA
Statistics
Matches: 133, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
150 16 0.12
151 2 0.02
152 66 0.50
153 9 0.07
154 12 0.09
155 28 0.21
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (150 bp):
AAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTACTTCGCAATATGAGT
TGATTTTTGACAAACAGAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTG
Found at i:34582716 original size:729 final size:729
Alignment explanation
Indices: 34581319--34583303 Score: 3120
Period size: 729 Copynumber: 2.7 Consensus size: 729
34581309 CAAGCTTCAT
34581319 GAATAATCTGTGTTTCTTAGATATCACTCTTTTGCCCCTGGTTGAACTTTGTCCTTGCTTTGAGG
1 GAATAATCTGTGTTTCTTAGATATCACTCTTTTGCCCCTGGTTGAACTTTGTCCTTGCTTTGAGG
34581384 CTCTTGTACTTATCAAATTCTTATCCGGTTAATGCTTAACATTTCTTTTGTTTAGAGTATGTCAT
66 CTCTTGTACTTATCAAATTCTTATCCGGTTAATGCTTAACATTTCTTTTGTTTAGAGTATGTCAT
34581449 TTCACTATTTATCATGTAAATAAACCACATAATTAGATGCATGAAAATGGTCAGGTAGGAAGAAA
131 TTCACTATTTATCATGTAAATAAACCACATAATTAGATGCATGAAAATGGTCAGGTAGGAAGAAA
34581514 AGGGATACCTTACATTTATTTATTTCAAATGTAGCAAACAAAGAAAGTTAACCAATGATAGTAAA
196 AGGGATACCTTACATTTATTTATTTCAAATGTAGCAAACAAAGAAAGTTAACCAATGATAGTAAA
34581579 AAAGTGTCATAAAGAGAAAAGGGATCGCATTCAACGAATACAAATGCTCTAGATATTCAACGCAT
261 AAAGTGTCATAAAGAGAAAAGGGATCGCATTCAACGAATACAAATGCTCTAGATATTCAACGCAT
34581644 GAACTCTTCCACGTTCCTCAATCAAGAATCTTTTCGAGCATGGCTTCTTGCGTAGAAGATTTCGA
326 GAACTCTTCCACGTTCCTCAATCAAGAATCTTTTCGAGCATGGCTTCTTGCGTAGAAGATTTCGA
34581709 GCTTTCAGAAATGCTTCAAATACTGTAGTCTCGCTGTTTGACCCACCGTTCAAAACGCCTTGCTC
391 GCTTTCAGAAATGCTTCAAATACTGTAGTCTCGCTGTTTGACCCACCGTTCAAAACGCCTTGCTC
34581774 TTTAAGCCCGGGTTTACTTTATTAGAATGCCCTTTCGGGTTTTCATCCTAATCTTTTGTGTTAAT
456 TTTAAGCCCGGGTTTACTTTATTAGAATGCCCTTTCGGGTTTTCATCCTAATCTTTTGTGTTAAT
34581839 CAAGACGCCCTTTTCGGGTTTTCACCTTGATTCCCTTTTTTATTTTTAATAATATTTCTTCACAG
521 CAAGACGCCCTTTTCGGGTTTTCACCTTGATTCCCTTTTTTATTTTTAATAATATTTCTTCACAG
34581904 CATCTGAATTCACTAGATTAGGTAACTCCTTCCCATCCATCTTAGTGAGAATCAAAGCTCCACCC
586 CATCTGAATTCACTAGATTAGGTAACTCCTTCCCATCCATCTTAGTGAGAATCAAAGCTCCACCC
34581969 GAGAATGCCTTCTTTACGACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAGTC
651 GAGAATGCCTTCTTTACGACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAGTC
34582034 TTTTTGTATTGGGA
716 TTTTTGTATTGGGA
34582048 GAATAATCTGTGTTTCTTAGATATCACTCTTTTGCCCCTGGTTGAACTTTGTCCTTGCTTTGAGG
1 GAATAATCTGTGTTTCTTAGATATCACTCTTTTGCCCCTGGTTGAACTTTGTCCTTGCTTTGAGG
34582113 CTCTTGTACTTATCAAATTCTTATCCGGTTAATGCTTAACATTTCTTTTGTTTAGAGTATGTCAT
66 CTCTTGTACTTATCAAATTCTTATCCGGTTAATGCTTAACATTTCTTTTGTTTAGAGTATGTCAT
34582178 TTCACTATTTATCATGTAAATAAACCACATAATTAGATGCATGAAAATGGTCAGGTAGGAAGAAA
131 TTCACTATTTATCATGTAAATAAACCACATAATTAGATGCATGAAAATGGTCAGGTAGGAAGAAA
34582243 AGGGATACCTTACATTTATTTATTTCAAATGTAGCAAACAAAGAAAGTTAACCAATGATAGTAAA
196 AGGGATACCTTACATTTATTTATTTCAAATGTAGCAAACAAAGAAAGTTAACCAATGATAGTAAA
34582308 AAAGTGTCATAAAGAGAAAAGGGATCGCATTCAACGAATACAAATGCTCTAGATATTCAACGCAT
261 AAAGTGTCATAAAGAGAAAAGGGATCGCATTCAACGAATACAAATGCTCTAGATATTCAACGCAT
34582373 GAACTCTTCCACGTTCCTCAATCAAGAATCTTTTCGAGCATGGCTTCTTGCGTAGAAGATTTCGA
326 GAACTCTTCCACGTTCCTCAATCAAGAATCTTTTCGAGCATGGCTTCTTGCGTAGAAGATTTCGA
34582438 GCTTTCAGAAATGCTTCAAATACTGTAGTCTCGCTGTTTGACCCACCGTTCAAAACGCCTTGCTC
391 GCTTTCAGAAATGCTTCAAATACTGTAGTCTCGCTGTTTGACCCACCGTTCAAAACGCCTTGCTC
34582503 TTTAAGCCCGGGTTTACTTTATTAGAATGCCCTTTCGGGTTTTCATCCTAATCTTTTGTGTTAAT
456 TTTAAGCCCGGGTTTACTTTATTAGAATGCCCTTTCGGGTTTTCATCCTAATCTTTTGTGTTAAT
34582568 CAAGACGCCCTTTTCGGGTTTTCACCTTGATTCCCTTTTTTATTTTTAATAATATTTCTTCACAG
521 CAAGACGCCCTTTTCGGGTTTTCACCTTGATTCCCTTTTTTATTTTTAATAATATTTCTTCACAG
34582633 CATCTGAATTCACTAGATTAGGTAACTCCTTCCCATCCATCTTAGTGAGAATCAAAGCTCCACCC
586 CATCTGAATTCACTAGATTAGGTAACTCCTTCCCATCCATCTTAGTGAGAATCAAAGCTCCACCC
34582698 GAGAATGCCTTCTTTACGACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAGTC
651 GAGAATGCCTTCTTTACGACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAGTC
34582763 TTTTTGTATTGGGA
716 TTTTTGTATTGGGA
** * * *** * * * * ** * *
34582777 GAATCTTTCTCAGCACGAGTTTTCCTTCG-TGGAATTCTCTTGGCCGTACTT--TC-TTGTCATA
1 GAAT-AATCT------GTG-TTT-CTTAGATATCACTCTTTTGCCCCTGGTTGAACTTTGTCCT-
* * * * * * * ** *
34582838 GGC--CGCGG-TCATTCT-CTTCTAGT-ACA-T-TTGTCTGTGACAAATTGCCTTTAA-ATAT-T
56 TGCTTTGAGGCTC-TTGTAC-T-TA-TCAAATTCTTATCCG-G-TTAA-TG-C-TTAACATTTCT
* * * * ** * ** * * * *
34582894 TTT-CTTCGA-TGA-G--GTTTAACTGGTCAT-ATCG-AGCTCGAACC-CAT--TCT-GCTTCCT
112 TTTGTTTAGAGT-ATGTCATTTCACTATTTATCAT-GTAAAT-AAACCACATAAT-TAGATGCAT
* ** * * *
34582948 CTAATTTCGACTCCA-TTAAGAGTCGAGAAAAGGGATACCTTACATTTATTTATTTCAAATGTAG
173 -GAAAAT-G-GT-CAGGT-AG-G--AAGAAAAGGGATACCTTACATTTATTTATTTCAAATGTAG
34583012 CAAACAAAGAAAGTTAACCAATGATAGTAAAAAAGTGTCATAAAGAGAAAAGGGATCGCATTCAA
230 CAAACAAAGAAAGTTAACCAATGATAGTAAAAAAGTGTCATAAAGAGAAAAGGGATCGCATTCAA
34583077 CGAATACAAATGCTCTAGATATTCAACGCATGAACTCTTCCACGTTCCTCAATCAAGAATCTTTT
295 CGAATACAAATGCTCTAGATATTCAACGCATGAACTCTTCCACGTTCCTCAATCAAGAATCTTTT
34583142 CGAGCATGGCTTCTTGCGTAGAAGATTTCGAGCTTTCAGAAATGCTTCAAATACTGTAGTCTCGC
360 CGAGCATGGCTTCTTGCGTAGAAGATTTCGAGCTTTCAGAAATGCTTCAAATACTGTAGTCTCGC
34583207 TGTTTGACCCACCGTTCAAAACGCCTTGCTCTTTAAGCCCGGGTTTACTTTATTAGAATGCCCTT
425 TGTTTGACCCACCGTTCAAAACGCCTTGCTCTTTAAGCCCGGGTTTACTTTATTAGAATGCCCTT
34583272 TCGGGTTTTCATCCTAATCTTTTGTGTTAATC
490 TCGGGTTTTCATCCTAATCTTTTGTGTTAATC
34583304 NGAGGCTCAA
Statistics
Matches: 1181, Mismatches: 44, Indels: 56
0.92 0.03 0.04
Matches are distributed among these distances:
728 5 0.00
729 737 0.62
730 11 0.01
731 16 0.01
732 12 0.01
733 12 0.01
734 17 0.01
735 341 0.29
736 6 0.01
737 20 0.02
738 4 0.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (729 bp):
GAATAATCTGTGTTTCTTAGATATCACTCTTTTGCCCCTGGTTGAACTTTGTCCTTGCTTTGAGG
CTCTTGTACTTATCAAATTCTTATCCGGTTAATGCTTAACATTTCTTTTGTTTAGAGTATGTCAT
TTCACTATTTATCATGTAAATAAACCACATAATTAGATGCATGAAAATGGTCAGGTAGGAAGAAA
AGGGATACCTTACATTTATTTATTTCAAATGTAGCAAACAAAGAAAGTTAACCAATGATAGTAAA
AAAGTGTCATAAAGAGAAAAGGGATCGCATTCAACGAATACAAATGCTCTAGATATTCAACGCAT
GAACTCTTCCACGTTCCTCAATCAAGAATCTTTTCGAGCATGGCTTCTTGCGTAGAAGATTTCGA
GCTTTCAGAAATGCTTCAAATACTGTAGTCTCGCTGTTTGACCCACCGTTCAAAACGCCTTGCTC
TTTAAGCCCGGGTTTACTTTATTAGAATGCCCTTTCGGGTTTTCATCCTAATCTTTTGTGTTAAT
CAAGACGCCCTTTTCGGGTTTTCACCTTGATTCCCTTTTTTATTTTTAATAATATTTCTTCACAG
CATCTGAATTCACTAGATTAGGTAACTCCTTCCCATCCATCTTAGTGAGAATCAAAGCTCCACCC
GAGAATGCCTTCTTTACGACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAGTC
TTTTTGTATTGGGA
Found at i:34583472 original size:81 final size:78
Alignment explanation
Indices: 34583305--34583490 Score: 191
Period size: 81 Copynumber: 2.4 Consensus size: 78
34583295 GTGTTAATCN
*
34583305 GAGGCTCAACTCACCTCTCGCAATAT--G-AGTTGATTTTTTTGAAAAACAGGAATTAAAAATAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTAGTTGATTTTTTTGAAAAACAGGAAATAAAAATAC
*
34583367 CACAGCGTGACCT
66 CACAACGTGACCT
***
34583380 GAGGCTCAACTCACCTCTCGCAATATGAGTAGATTGATTTTTTTTTGAGTGACA-GAAATAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTAG-TTGA--TTTTTTTGAAAAACAGGAAATA-AAA
* * ** *
34583444 ATACCTCAATGTTTCTT
62 ATACCACAACGTGACCT
** *
34583461 GAGGCTCAACTCATTTCTTGCAATATGAGT
1 GAGGCTCAACTCACCTCTCGCAATATGAGT
34583491 TTAATTTTGA
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
75 26 0.29
77 1 0.01
78 2 0.02
79 4 0.04
80 5 0.05
81 53 0.58
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (78 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTAGTTGATTTTTTTGAAAAACAGGAAATAAAAATAC
CACAACGTGACCT
Found at i:34585814 original size:807 final size:807
Alignment explanation
Indices: 34584261--34585875 Score: 3230
Period size: 807 Copynumber: 2.0 Consensus size: 807
34584251 AACGCCTTGC
34584261 TCTTTAAGCCCGGGTTTACTTTATTAGAATGCCCTTTCGGGTTTTCATCCTAATCTTTTGTGTTA
1 TCTTTAAGCCCGGGTTTACTTTATTAGAATGCCCTTTCGGGTTTTCATCCTAATCTTTTGTGTTA
34584326 ATCAAGACGCCCTTTTCGGGTTTTCACCTTGATTCCCTTTTTTATTTTTAATAATATTTCTTCAC
66 ATCAAGACGCCCTTTTCGGGTTTTCACCTTGATTCCCTTTTTTATTTTTAATAATATTTCTTCAC
34584391 AGCATCTGAATTCACTAGATTAGGTAACTCCTTCCCATCCATCTTAGTGAGAATCAAAGCTCCAC
131 AGCATCTGAATTCACTAGATTAGGTAACTCCTTCCCATCCATCTTAGTGAGAATCAAAGCTCCAC
34584456 CCGAGAATGCCTTCTTTACGACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAG
196 CCGAGAATGCCTTCTTTACGACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAG
34584521 TCTTTTTGTATTGGGAGAATCTTTCTCAGCACGAGTTTTCCTTCGTGGAATTCTCTTGGCCGTAC
261 TCTTTTTGTATTGGGAGAATCTTTCTCAGCACGAGTTTTCCTTCGTGGAATTCTCTTGGCCGTAC
34584586 TTTCTTGTCATAGGCCGCGGTCATTCTCTTCTAGTACATTTGTCTGTGACAAATTGCCTTTAAAT
326 TTTCTTGTCATAGGCCGCGGTCATTCTCTTCTAGTACATTTGTCTGTGACAAATTGCCTTTAAAT
34584651 ATTTTTCTTCGATGAGGTTTAACTGGTCATATCGAGCTCGAACCCATTCTGCTTCCTCTAATTTC
391 ATTTTTCTTCGATGAGGTTTAACTGGTCATATCGAGCTCGAACCCATTCTGCTTCCTCTAATTTC
34584716 GACTCCATTAAGAGTCGTAGAGAAGGGATCTCAACTTCGATAGGTAGCACAACTTCCATTCCATA
456 GACTCCATTAAGAGTCGTAGAGAAGGGATCTCAACTTCGATAGGTAGCACAACTTCCATTCCATA
34584781 GACCAGAGAGAAAGGAGTTACTCCCGTAGATGTCCGTACAGATGTGTAATACGCATACAAAGAAA
521 GACCAGAGAGAAAGGAGTTACTCCCGTAGATGTCCGTACAGATGTGTAATACGCATACAAAGAAA
34584846 ATGGTAGCTTCTCGTGCCAATCTTTATATGTCTCGGTCATTTTCCCAATAATCTTTTTAATATTC
586 ATGGTAGCTTCTCGTGCCAATCTTTATATGTCTCGGTCATTTTCCCAATAATCTTTTTAATATTC
34584911 TTATTGGCCGCTTCAACAGCTCCGTTCATTTTCGGGCGATAAGGTGATGAGTTATGATGCTTTAT
651 TTATTGGCCGCTTCAACAGCTCCGTTCATTTTCGGGCGATAAGGTGATGAGTTATGATGCTTTAT
34584976 TTAAAATTGCTCACACACTTCTTTCATCATCTTATTGCTCAGATTCAAGGCGTTATCTGAAATGA
716 TTAAAATTGCTCACACACTTCTTTCATCATCTTATTGCTCAGATTCAAGGCGTTATCTGAAATGA
34585041 TTCTTTCAGGCAAACCATATCGATAAA
781 TTCTTTCAGGCAAACCATATCGATAAA
34585068 TCTTTAAGCCCGGGTTTACTTTATTAGAATGCCCTTTCGGGTTTTCATCCTAATCTTTTGTGTTA
1 TCTTTAAGCCCGGGTTTACTTTATTAGAATGCCCTTTCGGGTTTTCATCCTAATCTTTTGTGTTA
34585133 ATCAAGACGCCCTTTTCGGGTTTTCACCTTGATTCCCTTTTTTATTTTTAATAATATTTCTTCAC
66 ATCAAGACGCCCTTTTCGGGTTTTCACCTTGATTCCCTTTTTTATTTTTAATAATATTTCTTCAC
34585198 AGCATCTGAATTCACTAGATTAGGTAACTCCTTCCCATCCATCTTAGTGAGAATCAAAGCTCCAC
131 AGCATCTGAATTCACTAGATTAGGTAACTCCTTCCCATCCATCTTAGTGAGAATCAAAGCTCCAC
34585263 CCGAGAATGCCTTCTTTACGACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAG
196 CCGAGAATGCCTTCTTTACGACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAG
34585328 TCTTTTTGTATTGGGAGAATCTTTCTCAGCACGAGTTTTCCTTCGTGGAATTCTCTTGGCCGTAC
261 TCTTTTTGTATTGGGAGAATCTTTCTCAGCACGAGTTTTCCTTCGTGGAATTCTCTTGGCCGTAC
34585393 TTTCTTGTCATAGGCCGCGGTCATTCTCTTCTAGTACATTTGTCTGTGACAAATTGCCTTTAAAT
326 TTTCTTGTCATAGGCCGCGGTCATTCTCTTCTAGTACATTTGTCTGTGACAAATTGCCTTTAAAT
34585458 ATTTTTCTTCGATGAGGTTTAACTGGTCATATCGAGCTCGAACCCATTCTGCTTCCTCTAATTTC
391 ATTTTTCTTCGATGAGGTTTAACTGGTCATATCGAGCTCGAACCCATTCTGCTTCCTCTAATTTC
34585523 GACTCCATTAAGAGTCGTAGAGAAGGGATCTCAACTTCGATAGGTAGCACAACTTCCATTCCATA
456 GACTCCATTAAGAGTCGTAGAGAAGGGATCTCAACTTCGATAGGTAGCACAACTTCCATTCCATA
34585588 GACCAGAGAGAAAGGAGTTACTCCCGTAGATGTCCGTACAGATGTGTAATACGCATACAAAGAAA
521 GACCAGAGAGAAAGGAGTTACTCCCGTAGATGTCCGTACAGATGTGTAATACGCATACAAAGAAA
34585653 ATGGTAGCTTCTCGTGCCAATCTTTATATGTCTCGGTCATTTTCCCAATAATCTTTTTAATATTC
586 ATGGTAGCTTCTCGTGCCAATCTTTATATGTCTCGGTCATTTTCCCAATAATCTTTTTAATATTC
34585718 TTATTGGCCGCTTCAACAGCTCCGTTCATTTTCGGGCGATAAGGTGATGAGTTATGATGCTTTAT
651 TTATTGGCCGCTTCAACAGCTCCGTTCATTTTCGGGCGATAAGGTGATGAGTTATGATGCTTTAT
34585783 TTAAAATTGCTCACACACTTCTTTCATCATCTTATTGCTCAGATTCAAGGCGTTATCTGAAATGA
716 TTAAAATTGCTCACACACTTCTTTCATCATCTTATTGCTCAGATTCAAGGCGTTATCTGAAATGA
34585848 TTCTTTCAGGCAAACCATATCGATAAA
781 TTCTTTCAGGCAAACCATATCGATAAA
34585875 T
1 T
34585876 GATTTCCTTT
Statistics
Matches: 808, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
807 808 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (807 bp):
TCTTTAAGCCCGGGTTTACTTTATTAGAATGCCCTTTCGGGTTTTCATCCTAATCTTTTGTGTTA
ATCAAGACGCCCTTTTCGGGTTTTCACCTTGATTCCCTTTTTTATTTTTAATAATATTTCTTCAC
AGCATCTGAATTCACTAGATTAGGTAACTCCTTCCCATCCATCTTAGTGAGAATCAAAGCTCCAC
CCGAGAATGCCTTCTTTACGACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAG
TCTTTTTGTATTGGGAGAATCTTTCTCAGCACGAGTTTTCCTTCGTGGAATTCTCTTGGCCGTAC
TTTCTTGTCATAGGCCGCGGTCATTCTCTTCTAGTACATTTGTCTGTGACAAATTGCCTTTAAAT
ATTTTTCTTCGATGAGGTTTAACTGGTCATATCGAGCTCGAACCCATTCTGCTTCCTCTAATTTC
GACTCCATTAAGAGTCGTAGAGAAGGGATCTCAACTTCGATAGGTAGCACAACTTCCATTCCATA
GACCAGAGAGAAAGGAGTTACTCCCGTAGATGTCCGTACAGATGTGTAATACGCATACAAAGAAA
ATGGTAGCTTCTCGTGCCAATCTTTATATGTCTCGGTCATTTTCCCAATAATCTTTTTAATATTC
TTATTGGCCGCTTCAACAGCTCCGTTCATTTTCGGGCGATAAGGTGATGAGTTATGATGCTTTAT
TTAAAATTGCTCACACACTTCTTTCATCATCTTATTGCTCAGATTCAAGGCGTTATCTGAAATGA
TTCTTTCAGGCAAACCATATCGATAAA
Found at i:34586702 original size:740 final size:740
Alignment explanation
Indices: 34585283--34586762 Score: 2960
Period size: 740 Copynumber: 2.0 Consensus size: 740
34585273 CTTCTTTACG
34585283 ACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAGTCTTTTTGTATTGGGAGAAT
1 ACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAGTCTTTTTGTATTGGGAGAAT
34585348 CTTTCTCAGCACGAGTTTTCCTTCGTGGAATTCTCTTGGCCGTACTTTCTTGTCATAGGCCGCGG
66 CTTTCTCAGCACGAGTTTTCCTTCGTGGAATTCTCTTGGCCGTACTTTCTTGTCATAGGCCGCGG
34585413 TCATTCTCTTCTAGTACATTTGTCTGTGACAAATTGCCTTTAAATATTTTTCTTCGATGAGGTTT
131 TCATTCTCTTCTAGTACATTTGTCTGTGACAAATTGCCTTTAAATATTTTTCTTCGATGAGGTTT
34585478 AACTGGTCATATCGAGCTCGAACCCATTCTGCTTCCTCTAATTTCGACTCCATTAAGAGTCGTAG
196 AACTGGTCATATCGAGCTCGAACCCATTCTGCTTCCTCTAATTTCGACTCCATTAAGAGTCGTAG
34585543 AGAAGGGATCTCAACTTCGATAGGTAGCACAACTTCCATTCCATAGACCAGAGAGAAAGGAGTTA
261 AGAAGGGATCTCAACTTCGATAGGTAGCACAACTTCCATTCCATAGACCAGAGAGAAAGGAGTTA
34585608 CTCCCGTAGATGTCCGTACAGATGTGTAATACGCATACAAAGAAAATGGTAGCTTCTCGTGCCAA
326 CTCCCGTAGATGTCCGTACAGATGTGTAATACGCATACAAAGAAAATGGTAGCTTCTCGTGCCAA
34585673 TCTTTATATGTCTCGGTCATTTTCCCAATAATCTTTTTAATATTCTTATTGGCCGCTTCAACAGC
391 TCTTTATATGTCTCGGTCATTTTCCCAATAATCTTTTTAATATTCTTATTGGCCGCTTCAACAGC
34585738 TCCGTTCATTTTCGGGCGATAAGGTGATGAGTTATGATGCTTTATTTAAAATTGCTCACACACTT
456 TCCGTTCATTTTCGGGCGATAAGGTGATGAGTTATGATGCTTTATTTAAAATTGCTCACACACTT
34585803 CTTTCATCATCTTATTGCTCAGATTCAAGGCGTTATCTGAAATGATTCTTTCAGGCAAACCATAT
521 CTTTCATCATCTTATTGCTCAGATTCAAGGCGTTATCTGAAATGATTCTTTCAGGCAAACCATAT
34585868 CGATAAATGATTTCCTTTTTTAAAAACCTGCAAACTGCAGTCTTTGTCACATTGGCAAACGAAGT
586 CGATAAATGATTTCCTTTTTTAAAAACCTGCAAACTGCAGTCTTTGTCACATTGGCAAACGAAGT
34585933 GGCTTCTATCCATTTTGTAAAGTAATCAATAATCACAAAAAATGAACCGGTGTCCATTAGAAGCT
651 GGCTTCTATCCATTTTGTAAAGTAATCAATAATCACAAAAAATGAACCGGTGTCCATTAGAAGCT
34585998 TTTGGGGAAATTGGCCCTATAACAT
716 TTTGGGGAAATTGGCCCTATAACAT
34586023 ACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAGTCTTTTTGTATTGGGAGAAT
1 ACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAGTCTTTTTGTATTGGGAGAAT
34586088 CTTTCTCAGCACGAGTTTTCCTTCGTGGAATTCTCTTGGCCGTACTTTCTTGTCATAGGCCGCGG
66 CTTTCTCAGCACGAGTTTTCCTTCGTGGAATTCTCTTGGCCGTACTTTCTTGTCATAGGCCGCGG
34586153 TCATTCTCTTCTAGTACATTTGTCTGTGACAAATTGCCTTTAAATATTTTTCTTCGATGAGGTTT
131 TCATTCTCTTCTAGTACATTTGTCTGTGACAAATTGCCTTTAAATATTTTTCTTCGATGAGGTTT
34586218 AACTGGTCATATCGAGCTCGAACCCATTCTGCTTCCTCTAATTTCGACTCCATTAAGAGTCGTAG
196 AACTGGTCATATCGAGCTCGAACCCATTCTGCTTCCTCTAATTTCGACTCCATTAAGAGTCGTAG
34586283 AGAAGGGATCTCAACTTCGATAGGTAGCACAACTTCCATTCCATAGACCAGAGAGAAAGGAGTTA
261 AGAAGGGATCTCAACTTCGATAGGTAGCACAACTTCCATTCCATAGACCAGAGAGAAAGGAGTTA
34586348 CTCCCGTAGATGTCCGTACAGATGTGTAATACGCATACAAAGAAAATGGTAGCTTCTCGTGCCAA
326 CTCCCGTAGATGTCCGTACAGATGTGTAATACGCATACAAAGAAAATGGTAGCTTCTCGTGCCAA
34586413 TCTTTATATGTCTCGGTCATTTTCCCAATAATCTTTTTAATATTCTTATTGGCCGCTTCAACAGC
391 TCTTTATATGTCTCGGTCATTTTCCCAATAATCTTTTTAATATTCTTATTGGCCGCTTCAACAGC
34586478 TCCGTTCATTTTCGGGCGATAAGGTGATGAGTTATGATGCTTTATTTAAAATTGCTCACACACTT
456 TCCGTTCATTTTCGGGCGATAAGGTGATGAGTTATGATGCTTTATTTAAAATTGCTCACACACTT
34586543 CTTTCATCATCTTATTGCTCAGATTCAAGGCGTTATCTGAAATGATTCTTTCAGGCAAACCATAT
521 CTTTCATCATCTTATTGCTCAGATTCAAGGCGTTATCTGAAATGATTCTTTCAGGCAAACCATAT
34586608 CGATAAATGATTTCCTTTTTTAAAAACCTGCAAACTGCAGTCTTTGTCACATTGGCAAACGAAGT
586 CGATAAATGATTTCCTTTTTTAAAAACCTGCAAACTGCAGTCTTTGTCACATTGGCAAACGAAGT
34586673 GGCTTCTATCCATTTTGTAAAGTAATCAATAATCACAAAAAATGAACCGGTGTCCATTAGAAGCT
651 GGCTTCTATCCATTTTGTAAAGTAATCAATAATCACAAAAAATGAACCGGTGTCCATTAGAAGCT
34586738 TTTGGGGAAATTGGCCCTATAACAT
716 TTTGGGGAAATTGGCCCTATAACAT
34586763 CCATGTCCCA
Statistics
Matches: 740, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
740 740 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (740 bp):
ACATATGGTTTTTTTTTCCAATTTGGTGCCCATTTTCCTCGAAAGTCTTTTTGTATTGGGAGAAT
CTTTCTCAGCACGAGTTTTCCTTCGTGGAATTCTCTTGGCCGTACTTTCTTGTCATAGGCCGCGG
TCATTCTCTTCTAGTACATTTGTCTGTGACAAATTGCCTTTAAATATTTTTCTTCGATGAGGTTT
AACTGGTCATATCGAGCTCGAACCCATTCTGCTTCCTCTAATTTCGACTCCATTAAGAGTCGTAG
AGAAGGGATCTCAACTTCGATAGGTAGCACAACTTCCATTCCATAGACCAGAGAGAAAGGAGTTA
CTCCCGTAGATGTCCGTACAGATGTGTAATACGCATACAAAGAAAATGGTAGCTTCTCGTGCCAA
TCTTTATATGTCTCGGTCATTTTCCCAATAATCTTTTTAATATTCTTATTGGCCGCTTCAACAGC
TCCGTTCATTTTCGGGCGATAAGGTGATGAGTTATGATGCTTTATTTAAAATTGCTCACACACTT
CTTTCATCATCTTATTGCTCAGATTCAAGGCGTTATCTGAAATGATTCTTTCAGGCAAACCATAT
CGATAAATGATTTCCTTTTTTAAAAACCTGCAAACTGCAGTCTTTGTCACATTGGCAAACGAAGT
GGCTTCTATCCATTTTGTAAAGTAATCAATAATCACAAAAAATGAACCGGTGTCCATTAGAAGCT
TTTGGGGAAATTGGCCCTATAACAT
Found at i:34588453 original size:16 final size:16
Alignment explanation
Indices: 34588432--34588465 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
34588422 AAACGTACAC
34588432 TTGGCTGGATTAAGCT
1 TTGGCTGGATTAAGCT
34588448 TTGGCTGGATTAAGCT
1 TTGGCTGGATTAAGCT
34588464 TT
1 TT
34588466 AGCGGGAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (16 bp):
TTGGCTGGATTAAGCT
Found at i:34597584 original size:22 final size:24
Alignment explanation
Indices: 34597535--34597599 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 24
34597525 AAATATATGT
34597535 ACAATAGTATAAAAGATATATAACTA
1 ACAATA-TAT-AAAGATATATAACTA
34597561 ACAATAT-TAAAG-TATAT-ACATA
1 ACAATATATAAAGATATATAAC-TA
*
34597583 ACAATATATAAAAATAT
1 ACAATATATAAAGATAT
34597600 GATATTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 2 0.06
22 14 0.40
23 8 0.23
24 4 0.11
25 1 0.03
26 6 0.17
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (24 bp):
ACAATATATAAAGATATATAACTA
Found at i:34597658 original size:24 final size:26
Alignment explanation
Indices: 34597612--34597661 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
34597602 TATTAAAAAC
34597612 ATATATACATAGTAATATGAGAATAT
1 ATATATACATAGTAATATGAGAATAT
* *
34597638 ATATATA-ATA-TAGTATTAGAATAT
1 ATATATACATAGTAATATGAGAATAT
34597662 TTGCATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 3 0.14
26 7 0.32
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (26 bp):
ATATATACATAGTAATATGAGAATAT
Found at i:34599618 original size:23 final size:23
Alignment explanation
Indices: 34599592--34599689 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
34599582 ATAAGTGCCA
34599592 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34599615 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
34599638 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
34599660 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34599683 CACTGAT
1 CACTGAT
34599690 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:34599657 original size:45 final size:45
Alignment explanation
Indices: 34599599--34599687 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
34599589 CCACACTGAT
* *
34599599 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
34599644 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
34599688 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:34606990 original size:23 final size:23
Alignment explanation
Indices: 34606964--34607061 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
34606954 ATAAGTGCCA
34606964 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34606987 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
34607010 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
34607032 CACTGAAATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
34607055 CACTGAT
1 CACTGAT
34607062 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:34607029 original size:45 final size:45
Alignment explanation
Indices: 34606971--34607059 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
34606961 CCACACTGAT
* *
34606971 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
*
34607016 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGTTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
34607060 ATCAATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:34608893 original size:14 final size:14
Alignment explanation
Indices: 34608874--34608900 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34608864 AGGTGGTGGC
34608874 AGAGGCAAGTGGGG
1 AGAGGCAAGTGGGG
34608888 AGAGGCAAGTGGG
1 AGAGGCAAGTGGG
34608901 AAGCTAGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.56, T:0.07
Consensus pattern (14 bp):
AGAGGCAAGTGGGG
Found at i:34609195 original size:3 final size:3
Alignment explanation
Indices: 34609187--34609212 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34609177 AACCTTTACC
34609187 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
34609213 TTGATCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:34610540 original size:37 final size:41
Alignment explanation
Indices: 34610474--34610555 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 41
34610464 TAAGGGTATA
*
34610474 GTAAGATATTAAAAATAAATATTTTAAG-AA-AAAAGACAC
1 GTAAGATATTAAAAATAAATATTTAAAGAAATAAAAGACAC
*
34610513 GTAAGATATT-AAAA-AAATATTTAAAGAAATAAAAGATAC
1 GTAAGATATTAAAAATAAATATTTAAAGAAATAAAAGACAC
34610552 GTAA
1 GTAA
34610556 CAACTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 11 0.28
38 6 0.15
39 22 0.56
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.26
Consensus pattern (41 bp):
GTAAGATATTAAAAATAAATATTTAAAGAAATAAAAGACAC
Found at i:34611507 original size:19 final size:17
Alignment explanation
Indices: 34611467--34611507 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
34611457 TTATTTATAC
34611467 TTAA-TAATATAATAAA
1 TTAATTAATATAATAAA
34611483 TT-ATTAATATAATTAATA
1 TTAATTAATATAA-TAA-A
34611501 TTAATTA
1 TTAATTA
34611508 TTAATCCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.05
16 10 0.48
17 3 0.14
18 3 0.14
19 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAATTAATATAATAAA
Found at i:34611512 original size:13 final size:15
Alignment explanation
Indices: 34611471--34611505 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
34611461 TTATACTTAA
*
34611471 TAATATAATAAATTAT
1 TAATATAATTAA-TAT
34611487 TAATATAATTAATAT
1 TAATATAATTAATAT
34611502 TAAT
1 TAAT
34611506 TATTAATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATATAATTAATAT
Found at i:34611556 original size:18 final size:17
Alignment explanation
Indices: 34611515--34611556 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
34611505 TTATTAATCC
34611515 AATAAA-TTTATTTAAT
1 AATAAATTTTATTTAAT
*
34611531 ATTAAAATTTTATTTTAAT
1 AAT-AAATTTTA-TTTAAT
34611550 AATAAAT
1 AATAAAT
34611557 CTTAACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 2 0.10
17 3 0.14
18 8 0.38
19 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATAAATTTTATTTAAT
Found at i:34612128 original size:22 final size:22
Alignment explanation
Indices: 34612100--34612141 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
34612090 TCTTAACAAT
*
34612100 GTATTGCTTGTAATTTTTGATA
1 GTATTGCTTGTAAATTTTGATA
34612122 GTATTGCTTGTAAATTTTGA
1 GTATTGCTTGTAAATTTTGA
34612142 GAAAAGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.19, T:0.52
Consensus pattern (22 bp):
GTATTGCTTGTAAATTTTGATA
Found at i:34616150 original size:24 final size:24
Alignment explanation
Indices: 34616118--34616197 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
34616108 TTTTCATCTT
*
34616118 TCCTTGGATTTTTCACACTTGGTC
1 TCCTCGGATTTTTCACACTTGGTC
* * * *
34616142 TCCTGGGATATTTCACACCTGATC
1 TCCTCGGATTTTTCACACTTGGTC
* ** *
34616166 TGCTCGGATTTCCCACACTTGGTT
1 TCCTCGGATTTTTCACACTTGGTC
34616190 TCCTCGGA
1 TCCTCGGA
34616198 GTCGTCACAT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.38
Consensus pattern (24 bp):
TCCTCGGATTTTTCACACTTGGTC
Found at i:34628972 original size:30 final size:30
Alignment explanation
Indices: 34628915--34628972 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34628905 CATGGACTGG
* * * *
34628915 CACATGGGCGTGTGGCCATCTCGTGTGGCT
1 CACATAGGCGTGTGGCCAGCCCATGTGGCT
34628945 CACATAGGCGTGTGGCCAGCCCATGTGG
1 CACATAGGCGTGTGGCCAGCCCATGTGG
34628973 AAATGCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.28, G:0.36, T:0.22
Consensus pattern (30 bp):
CACATAGGCGTGTGGCCAGCCCATGTGGCT
Found at i:34629830 original size:12 final size:12
Alignment explanation
Indices: 34629813--34629838 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34629803 CATAAATATA
34629813 TTTTTTCATTTT
1 TTTTTTCATTTT
34629825 TTTTTTCATTTT
1 TTTTTTCATTTT
34629837 TT
1 TT
34629839 GAGAACAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCATTTT
Found at i:34630999 original size:14 final size:14
Alignment explanation
Indices: 34630980--34631007 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34630970 TAAAAGTATA
34630980 TAAAAAATTAAAAT
1 TAAAAAATTAAAAT
34630994 TAAAAAATTAAAAT
1 TAAAAAATTAAAAT
34631008 ATAAGTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAAAATTAAAAT
Found at i:34633568 original size:5 final size:6
Alignment explanation
Indices: 34633546--34633587 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
34633536 GTTAGTAAAT
*
34633546 TAAAAG TAAAACA -AAAAA T-AAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAA-A TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
34633588 GGCTAAAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 6 0.19
6 26 0.81
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:34633572 original size:23 final size:23
Alignment explanation
Indices: 34633541--34633587 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
34633531 GAAAAGTTAG
* *
34633541 TAAATTAAAAGTAAAACA-AAAAA
1 TAAAATAAAAATAAAA-ATAAAAA
34633564 TAAAATAAAAATAAAAATAAAAA
1 TAAAATAAAAATAAAAATAAAAA
34633587 T
1 T
34633588 GGCTAAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (23 bp):
TAAAATAAAAATAAAAATAAAAA
Found at i:34633579 original size:17 final size:18
Alignment explanation
Indices: 34633546--34633585 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
34633536 GTTAGTAAAT
34633546 TAAAAGTAAAACAAAAAA
1 TAAAAGTAAAACAAAAAA
34633564 TAAAA-TAAAA-ATAAAAA
1 TAAAAGTAAAACA-AAAAA
34633581 TAAAA
1 TAAAA
34633586 ATGGCTAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.71
18 5 0.24
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
TAAAAGTAAAACAAAAAA
Found at i:34634758 original size:9 final size:9
Alignment explanation
Indices: 34634741--34634770 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
34634731 TTGGCTCGTT
34634741 TTTCGCTCC
1 TTTCGCTCC
*
34634750 TTTCACTCC
1 TTTCGCTCC
34634759 TTTCGCTCC
1 TTTCGCTCC
34634768 TTT
1 TTT
34634771 ATGGTCACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.03, C:0.40, G:0.07, T:0.50
Consensus pattern (9 bp):
TTTCGCTCC
Found at i:34641523 original size:55 final size:55
Alignment explanation
Indices: 34641457--34641562 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
34641447 AGTTTAACAA
* * * *
34641457 GTTTGACCAC-GGTTGCTTGGCACGGGCGTGTCGAATGCCCGTGTTGATTTGACAG
1 GTTTGACCACGGGTT-CTAGACACGGGCGTGTCGAACGCCCGTATTGATTTGACAG
* * *
34641512 GTTTGGCCACGGGTTCTAGACACGGGTGTGTCGAACGCCCGTATTGTTTTG
1 GTTTGACCACGGGTTCTAGACACGGGCGTGTCGAACGCCCGTATTGATTTG
34641563 GCAGTTTCGC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 39 0.91
56 4 0.09
ACGTcount: A:0.14, C:0.22, G:0.34, T:0.30
Consensus pattern (55 bp):
GTTTGACCACGGGTTCTAGACACGGGCGTGTCGAACGCCCGTATTGATTTGACAG
Found at i:34650270 original size:18 final size:18
Alignment explanation
Indices: 34650247--34650291 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
34650237 AGGAAAAGTA
34650247 TTAATTGAGAAAATTATC
1 TTAATTGAGAAAATTATC
34650265 TTAATTGAGAAAATTATC
1 TTAATTGAGAAAATTATC
34650283 TTAATTGAG
1 TTAATTGAG
34650292 CAAAGACTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (18 bp):
TTAATTGAGAAAATTATC
Found at i:34651134 original size:44 final size:44
Alignment explanation
Indices: 34651071--34651160 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
34651061 AAATGTTGAA
34651071 TAAGAAATGATATAATGTTTTATTTGGAATATTTATTATGAAAT
1 TAAGAAATGATATAATGTTTTATTTGGAATATTTATTATGAAAT
34651115 TAAGAAATGATATAATGTTTTATTTGGAATATTTATTATGAAAT
1 TAAGAAATGATATAATGTTTTATTTGGAATATTTATTATGAAAT
34651159 TA
1 TA
34651161 TGATTATCGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (44 bp):
TAAGAAATGATATAATGTTTTATTTGGAATATTTATTATGAAAT
Found at i:34651500 original size:35 final size:35
Alignment explanation
Indices: 34651386--34651751 Score: 405
Period size: 35 Copynumber: 10.5 Consensus size: 35
34651376 GCAAAGTGCA
* *
34651386 AAATGTAGGTATGGTA-TAACCATACTGAGTTGTG
1 AAATGTAGGTATGGTATTATCCATACCGAGTTGTG
* ** * * *
34651420 AAATGTAGGTAT-GTCGTCGTCCATACTGAGCTATG
1 AAATGTAGGTATGGT-ATTATCCATACCGAGTTGTG
* * * * *
34651455 ATACGGAGGTATGGTATTAACCATACCGAGATGTG
1 AAATGTAGGTATGGTATTATCCATACCGAGTTGTG
* *
34651490 AAATGTAGGTATGGTATCATCCATACCAAGTTGTG
1 AAATGTAGGTATGGTATTATCCATACCGAGTTGTG
* *
34651525 AAATGTAGGTATGGTATCATCCATATCGAGTTGTG
1 AAATGTAGGTATGGTATTATCCATACCGAGTTGTG
* * *
34651560 AAATGTAGGTATGGTATCATCTATACCGAGTTGAG
1 AAATGTAGGTATGGTATTATCCATACCGAGTTGTG
* *
34651595 AAATATAGGTATGGTATTATCCATACTGAGTTGTG
1 AAATGTAGGTATGGTATTATCCATACCGAGTTGTG
** * * * *
34651630 AAGCGTAGGTATGGTATCATCCATACCGAATCGTA
1 AAATGTAGGTATGGTATTATCCATACCGAGTTGTG
* * **
34651665 AAATATAGGTATGGTATTATCCATACTGAGTTAAG
1 AAATGTAGGTATGGTATTATCCATACCGAGTTGTG
*
34651700 AAATGTAGGTATGGCATT-TCCATACCGAGTTGTG
1 AAATGTAGGTATGGTATTATCCATACCGAGTTGTG
34651734 AAATGTAGGTATGGTATT
1 AAATGTAGGTATGGTATT
34651752 TCAATGAGGA
Statistics
Matches: 272, Mismatches: 57, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
33 2 0.01
34 42 0.15
35 226 0.83
36 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (35 bp):
AAATGTAGGTATGGTATTATCCATACCGAGTTGTG
Found at i:34657093 original size:19 final size:19
Alignment explanation
Indices: 34657059--34657097 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
34657049 GATTTTTTAC
34657059 TTTGGCCCATTTTCTCTGTT
1 TTTGGCCCATTTTCTC-GTT
34657079 TTTGGCCCA-TTTCTCGTT
1 TTTGGCCCATTTTCTCGTT
34657097 T
1 T
34657098 CTTTCGCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 6 0.32
20 9 0.47
ACGTcount: A:0.05, C:0.26, G:0.15, T:0.54
Consensus pattern (19 bp):
TTTGGCCCATTTTCTCGTT
Found at i:34659169 original size:28 final size:28
Alignment explanation
Indices: 34659137--34659203 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
34659127 CCTCGCAGGT
* * *
34659137 TAAGTGCTATTCTGGAT-GTTTCGCACAC
1 TAAGTGCCATTCTCGATACTTT-GCACAC
*
34659165 TAAGTGCCATTTTCGATACTTTGCACAC
1 TAAGTGCCATTCTCGATACTTTGCACAC
34659193 TAAGTGCCATT
1 TAAGTGCCATT
34659204 TATATATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 31 0.91
29 3 0.09
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (28 bp):
TAAGTGCCATTCTCGATACTTTGCACAC
Found at i:34659279 original size:40 final size:40
Alignment explanation
Indices: 34659214--34659385 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 40
34659204 TATATATATA
34659214 TAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACTTT
* * * * * *
34659254 TAGCCGAAACTATTTCGAACCGCACACTAAGTGCCATTTATATAT
1 TAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCA---CT-T-T
*
34659299 ATAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 -TAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACTTT
* * * *
34659340 TAGCCGAAGCTATTTCGAACTACACACTAAGTGCCA-TTT
1 TAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACTTT
34659379 TAGCCGA
1 TAGCCGA
34659386 TAAGTCATTA
Statistics
Matches: 108, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
39 10 0.09
40 62 0.57
41 1 0.01
42 1 0.01
43 2 0.02
44 1 0.01
45 1 0.01
46 30 0.28
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACTTT
Found at i:34659325 original size:46 final size:46
Alignment explanation
Indices: 34659186--34659335 Score: 168
Period size: 40 Copynumber: 3.3 Consensus size: 46
34659176 TTCGATACTT
*
34659186 TGCACACTAAGTGCCATTTATATATATATAGCCGAAGCTATCTCAAAC
1 TGCACACCAAGTGCCA-TT-TATATATATAGCCGAAGCTATCTCAAAC
* * * *
34659234 TGCACACCAAGTGCCA---CT-T-T-TAGCCGAAACTATTTCGAAC
1 TGCACACCAAGTGCCATTTATATATATAGCCGAAGCTATCTCAAAC
* * *
34659274 CGCACACTAAGTGCCATTTATATATATAGCCGAAGCTATCTCAAAT
1 TGCACACCAAGTGCCATTTATATATATAGCCGAAGCTATCTCAAAC
34659320 TGCACACCAAGTGCCA
1 TGCACACCAAGTGCCA
34659336 CTTTTAGCCG
Statistics
Matches: 82, Mismatches: 14, Indels: 14
0.75 0.13 0.13
Matches are distributed among these distances:
40 31 0.38
41 1 0.01
42 1 0.01
43 2 0.02
44 1 0.01
45 1 0.01
46 30 0.37
48 15 0.18
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (46 bp):
TGCACACCAAGTGCCATTTATATATATAGCCGAAGCTATCTCAAAC
Found at i:34659334 original size:86 final size:86
Alignment explanation
Indices: 34659187--34659378 Score: 330
Period size: 86 Copynumber: 2.2 Consensus size: 86
34659177 TCGATACTTT
34659187 GCACACTAAGTGCCATTTATATATATATAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACT
1 GCACACTAAGTGCCA-TT-TATATATATAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACT
34659252 TTTAGCCGAAACTATTTCGAACC
64 TTTAGCCGAAACTATTTCGAACC
*
34659275 GCACACTAAGTGCCATTTATATATATAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 GCACACTAAGTGCCATTTATATATATAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACTTT
* *
34659340 TAGCCGAAGCTATTTCGAACT
66 TAGCCGAAACTATTTCGAACC
*
34659361 ACACACTAAGTGCCATTT
1 GCACACTAAGTGCCATTT
34659379 TAGCCGATAA
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
86 83 0.83
87 2 0.02
88 15 0.15
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (86 bp):
GCACACTAAGTGCCATTTATATATATAGCCGAAGCTATCTCAAACTGCACACCAAGTGCCACTTT
TAGCCGAAACTATTTCGAACC
Found at i:34670707 original size:55 final size:55
Alignment explanation
Indices: 34670641--34670766 Score: 171
Period size: 55 Copynumber: 2.3 Consensus size: 55
34670631 GCACTTAATT
* * *
34670641 GATTGTTATGTTGGAATATTATTTCTTTTGAATCGATTGTTTTTATGCTTAAACC
1 GATTGTTATGTTGGAATACTATTTCTTTTGAATCGATTGATTATATGCTTAAACC
* * * *
34670696 GATTGTCATGTTGGAATACTGTTTCTTTTGAATCGATTGATTATATGTTTAAATC
1 GATTGTTATGTTGGAATACTATTTCTTTTGAATCGATTGATTATATGCTTAAACC
* *
34670751 AATTGTTATGGTGGAA
1 GATTGTTATGTTGGAA
34670767 AACTTGAATC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.48
Consensus pattern (55 bp):
GATTGTTATGTTGGAATACTATTTCTTTTGAATCGATTGATTATATGCTTAAACC
Found at i:34671548 original size:48 final size:48
Alignment explanation
Indices: 34671493--34671589 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
34671483 ATCCTTATAC
34671493 CTCCTGATCAAGCTCAACCGGAGTCAACTTCTTTATCCGTCTCAAGCA
1 CTCCTGATCAAGCTCAACCGGAGTCAACTTCTTTATCCGTCTCAAGCA
34671541 CTCCTGATCAAGCTCAACCGGAGTCAACTTCTTTATCCGTCTCAAGCA
1 CTCCTGATCAAGCTCAACCGGAGTCAACTTCTTTATCCGTCTCAAGCA
34671589 C
1 C
34671590 AGCATCTTCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.27
Consensus pattern (48 bp):
CTCCTGATCAAGCTCAACCGGAGTCAACTTCTTTATCCGTCTCAAGCA
Found at i:34674477 original size:28 final size:28
Alignment explanation
Indices: 34674415--34674481 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
34674405 CGATATTTTG
*
34674415 CACACTAAGTGCCATTCTCAATATCTCG
1 CACACTAAGTGCCATTCTCAATATCTCA
* * *
34674443 TATACTAAGTGCCATTCTCAATATTTCA
1 CACACTAAGTGCCATTCTCAATATCTCA
34674471 CACACTAAGTG
1 CACACTAAGTG
34674482 TCATATTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTCAATATCTCA
Found at i:34674566 original size:40 final size:40
Alignment explanation
Indices: 34674517--34674603 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
34674507 GTGATGTACA
*
34674517 TAGCCGAAGCTAT-CTC-ATATCGCACACTAAATGCCAAATT
1 TAGCCGAAGCTATAC-CGA-ATCGCACACTAAATCCCAAATT
* * *
34674557 TAGCTGAAGCTATACCGAATCGCACACTAAGTCCCATATT
1 TAGCCGAAGCTATACCGAATCGCACACTAAATCCCAAATT
34674597 TAGCCGA
1 TAGCCGA
34674604 TATGTCATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 38 0.95
41 2 0.05
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (40 bp):
TAGCCGAAGCTATACCGAATCGCACACTAAATCCCAAATT
Found at i:34676623 original size:16 final size:18
Alignment explanation
Indices: 34676597--34676629 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34676587 TAAAATTGAG
34676597 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTGATTTAA
34676614 TTGA-AAAATTGATTTA
1 TTGAGAAAATTGATTTA
34676630 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTGATTTAA
Found at i:34685098 original size:72 final size:72
Alignment explanation
Indices: 34685014--34685301 Score: 567
Period size: 72 Copynumber: 4.0 Consensus size: 72
34685004 AAAAAATCAA
34685014 ACAATATAGGAAGCTAACTACCATAGACAATAATAGCTCCCCCTCAGCACAAGCCTCATTCTACT
1 ACAATATAGGAAGCTAACTACCATAGACAATAATAGCTCCCCCTCAGCACAAGCCTCATTCTACT
34685079 TAGCTAT
66 TAGCTAT
34685086 ACAATATAGGAAGCTAACTACCATAGACAATAATAGCTCCCCCTCAGCACAAGCCTCATTCTACT
1 ACAATATAGGAAGCTAACTACCATAGACAATAATAGCTCCCCCTCAGCACAAGCCTCATTCTACT
34685151 TAGCTAT
66 TAGCTAT
34685158 ACAATATAGGAAGCTAACTACCATAGACAATAATAGCTCCCCCTCAGCACAAGCCTCATTCTACT
1 ACAATATAGGAAGCTAACTACCATAGACAATAATAGCTCCCCCTCAGCACAAGCCTCATTCTACT
34685223 TAGCTAT
66 TAGCTAT
*
34685230 ACAATATAGGAAGCTAACTACCATAGACAATAATAGCTCCCCCTCAGCACAAACCTCATTCTACT
1 ACAATATAGGAAGCTAACTACCATAGACAATAATAGCTCCCCCTCAGCACAAGCCTCATTCTACT
34685295 TAGCTAT
66 TAGCTAT
34685302 TTTTAATGCA
Statistics
Matches: 215, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 215 1.00
ACGTcount: A:0.36, C:0.29, G:0.11, T:0.24
Consensus pattern (72 bp):
ACAATATAGGAAGCTAACTACCATAGACAATAATAGCTCCCCCTCAGCACAAGCCTCATTCTACT
TAGCTAT
Found at i:34697286 original size:13 final size:13
Alignment explanation
Indices: 34697268--34697294 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34697258 TTATTTCAAT
34697268 TAGAAAAACAAAC
1 TAGAAAAACAAAC
34697281 TAGAAAAACAAAC
1 TAGAAAAACAAAC
34697294 T
1 T
34697295 CCTAGTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.15, G:0.07, T:0.11
Consensus pattern (13 bp):
TAGAAAAACAAAC
Found at i:34698840 original size:30 final size:30
Alignment explanation
Indices: 34698783--34698843 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
34698773 AAGTTTTCAG
* * *
34698783 GATCCACACGGACTGGGCACACGCCCATGT
1 GATCCACACGGACAGGCCACACACCCATGT
* *
34698813 GATCCACACGGGCAGGCCACATACCCATGT
1 GATCCACACGGACAGGCCACACACCCATGT
34698843 G
1 G
34698844 CCAACCCGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.36, G:0.26, T:0.13
Consensus pattern (30 bp):
GATCCACACGGACAGGCCACACACCCATGT
Found at i:34701202 original size:51 final size:53
Alignment explanation
Indices: 34701096--34701202 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 53
34701086 TCTTGAGCCC
*
34701096 TTGAATCGATGCTTGTTGATTTTTAAGTGTTTTTTTGGTGTTTTGGAAGCGGGT
1 TTGAATCGATGCTTGTTGA-TTTTAAGTGTTTTTTTGGTGTTTTGAAAGCGGGT
*
34701150 TTGAATCGATGCTTGTTGA-TTTAAGTG-TTTTTTGGTGTTTTGAAAGCTGGT
1 TTGAATCGATGCTTGTTGATTTTAAGTGTTTTTTTGGTGTTTTGAAAGCGGGT
34701201 TT
1 TT
34701203 CTGACACCGA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
51 24 0.47
52 8 0.16
54 19 0.37
ACGTcount: A:0.16, C:0.06, G:0.28, T:0.50
Consensus pattern (53 bp):
TTGAATCGATGCTTGTTGATTTTAAGTGTTTTTTTGGTGTTTTGAAAGCGGGT
Found at i:34709820 original size:12 final size:11
Alignment explanation
Indices: 34709796--34709830 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
34709786 TTTCAACAAG
34709796 TTTTCC-TTCA
1 TTTTCCTTTCA
34709806 TTTTCCTTGTCA
1 TTTTCCTT-TCA
34709818 TTTTCCTTTCA
1 TTTTCCTTTCA
34709829 TT
1 TT
34709831 GTCTGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 6 0.26
12 11 0.48
ACGTcount: A:0.09, C:0.26, G:0.03, T:0.63
Consensus pattern (11 bp):
TTTTCCTTTCA
Found at i:34710178 original size:13 final size:13
Alignment explanation
Indices: 34710160--34710184 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34710150 CAAATTCGTT
34710160 CATGCATGCATGC
1 CATGCATGCATGC
34710173 CATGCATGCATG
1 CATGCATGCATG
34710185 TCATCAGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (13 bp):
CATGCATGCATGC
Found at i:34712912 original size:18 final size:19
Alignment explanation
Indices: 34712879--34712916 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
34712869 AGACTCCAGG
*
34712879 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
34712898 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
34712916 T
1 T
34712917 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:34719475 original size:15 final size:15
Alignment explanation
Indices: 34719455--34719484 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34719445 CATTTTATTT
*
34719455 ATATTAGGATAATTA
1 ATATTAAGATAATTA
34719470 ATATTAAGATAATTA
1 ATATTAAGATAATTA
34719485 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:34719528 original size:10 final size:10
Alignment explanation
Indices: 34719509--34719540 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
34719499 ATTTAGGATT
34719509 TTAT-TTTAA
1 TTATCTTTAA
34719518 TTATCTTTAA
1 TTATCTTTAA
34719528 TTATCTTTAA
1 TTATCTTTAA
34719538 TTA
1 TTA
34719541 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:34719720 original size:16 final size:16
Alignment explanation
Indices: 34719701--34719742 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
34719691 CAATAAAATC
34719701 TCCTTTTCCATTTTTT
1 TCCTTTTCCATTTTTT
34719717 TCCTTTTCCATTTTTT
1 TCCTTTTCCATTTTTT
*
34719733 TTCTTTTCCA
1 TCCTTTTCCA
34719743 CCATTATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (16 bp):
TCCTTTTCCATTTTTT
Found at i:34723257 original size:8 final size:8
Alignment explanation
Indices: 34723244--34723304 Score: 54
Period size: 9 Copynumber: 7.2 Consensus size: 8
34723234 GGCAACCCAA
34723244 TTTTTATT
1 TTTTTATT
34723252 TTTTTA--
1 TTTTTATT
34723258 TTTTTATT
1 TTTTTATT
34723266 TTATTTATT
1 TT-TTTATT
34723275 TTATCTTATT
1 TT-T-TTATT
*
34723285 ATTTTATT
1 TTTTTATT
34723293 ATTTATTATT
1 -TTT-TTATT
34723303 TT
1 TT
34723305 AAGATATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
6 6 0.13
8 13 0.29
9 15 0.33
10 11 0.24
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTATT
Found at i:34723262 original size:14 final size:14
Alignment explanation
Indices: 34723243--34723304 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
34723233 AGGCAACCCA
34723243 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
34723257 ATTTTTATTTTATTT
1 ATTTTTATTTT-TTT
* *
34723272 A-TTTTATCTTATT
1 ATTTTTATTTTTTT
34723285 A-TTTTATTATTTATT
1 ATTTTTATT-TTT-TT
34723300 ATTTT
1 ATTTT
34723305 AAGATATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.22
14 21 0.52
15 7 0.17
16 3 0.08
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:34723305 original size:8 final size:8
Alignment explanation
Indices: 34723247--34723305 Score: 56
Period size: 7 Copynumber: 8.0 Consensus size: 8
34723237 AACCCAATTT
*
34723247 TTATTTTT
1 TTATTTTA
34723255 TTA-TTT-
1 TTATTTTA
34723261 TTATTTTA
1 TTATTTTA
*
34723269 TT-TATT-
1 TTATTTTA
*
34723275 TTATCTTA
1 TTATTTTA
34723283 TTATTTTA
1 TTATTTTA
34723291 TTA-TTTA
1 TTATTTTA
34723298 TTATTTTA
1 TTATTTTA
34723306 AGATATTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
6 5 0.12
7 19 0.44
8 19 0.44
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTTTA
Found at i:34724258 original size:12 final size:12
Alignment explanation
Indices: 34724237--34724272 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
34724227 ATACATAAAT
34724237 AAAA-TAAAAGA
1 AAAAGTAAAAGA
34724248 AAAAGTAAAAGA
1 AAAAGTAAAAGA
34724260 AAAAG-AAAA-A
1 AAAAGTAAAAGA
34724270 AAA
1 AAA
34724273 GAGAAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.17
11 8 0.33
12 12 0.50
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (12 bp):
AAAAGTAAAAGA
Found at i:34724268 original size:11 final size:11
Alignment explanation
Indices: 34724237--34724279 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
34724227 ATACATAAAT
*
34724237 AAAATAAAAGA
1 AAAAGAAAAGA
34724248 AAAAGTAAAAGA
1 AAAAG-AAAAGA
34724260 AAAAGAAAA-A
1 AAAAGAAAAGA
34724270 AAAGAGAAAA
1 AAA-AGAAAA
34724280 CATATGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 4 0.14
11 14 0.48
12 11 0.38
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:34724269 original size:6 final size:6
Alignment explanation
Indices: 34724242--34724279 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
34724232 TAAATAAAAT
* *
34724242 AAAAGA AAAAGT AAAAGA AAAAGA AAAA-A AAGAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
34724280 CATATGTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:34724871 original size:15 final size:15
Alignment explanation
Indices: 34724851--34724880 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34724841 CATTTTATTT
*
34724851 ATATTAGGATAATTA
1 ATATTAAGATAATTA
34724866 ATATTAAGATAATTA
1 ATATTAAGATAATTA
34724881 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:34728537 original size:10 final size:10
Alignment explanation
Indices: 34728522--34728553 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
34728512 TAAATACAAT
34728522 TAATTAAAGA
1 TAATTAAAGA
34728532 TAATTAAAGA
1 TAATTAAAGA
34728542 TAATTAAA-A
1 TAATTAAAGA
34728551 TAA
1 TAA
34728554 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:34728598 original size:15 final size:15
Alignment explanation
Indices: 34728578--34728606 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34728568 ATAATCCTAA
34728578 TAATTATCTTAATAT
1 TAATTATCTTAATAT
34728593 TAATTATCTTAATA
1 TAATTATCTTAATA
34728607 AAATGGAGTC
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:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTATCTTAATAT
Found at i:34728911 original size:6 final size:6
Alignment explanation
Indices: 34728900--34728944 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
34728890 ATCTTGTGGC
34728900 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
34728945 GAGATGGTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:34736930 original size:21 final size:23
Alignment explanation
Indices: 34736909--34736962 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
34736899 TCTCACAAAT
34736909 AAAATAAAA-ACAACTAACAATA
1 AAAATAAAAGACAACTAACAATA
* *
34736931 AAAATAAAAGTACAACTAAAAACA
1 AAAATAAAAG-ACAACTAACAATA
34736955 AAAATAAA
1 AAAATAAA
34736963 TAAAATAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 9 0.32
24 19 0.68
ACGTcount: A:0.74, C:0.11, G:0.02, T:0.13
Consensus pattern (23 bp):
AAAATAAAAGACAACTAACAATA
Found at i:34736945 original size:17 final size:17
Alignment explanation
Indices: 34736905--34736967 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 17
34736895 AAAGTCTCAC
*
34736905 AAATAAAATAAAAACAA
1 AAATACAATAAAAACAA
** *
34736922 CTA-ACAATAAAAATAA
1 AAATACAATAAAAACAA
*
34736938 AAGTACAACTAAAAACAA
1 AAATACAA-TAAAAACAA
34736956 AAATA-AATAAAA
1 AAATACAATAAAA
34736968 TAGAAAACTA
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
16 16 0.46
17 7 0.20
18 12 0.34
ACGTcount: A:0.75, C:0.10, G:0.02, T:0.14
Consensus pattern (17 bp):
AAATACAATAAAAACAA
Found at i:34738508 original size:22 final size:21
Alignment explanation
Indices: 34738483--34738530 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
34738473 TAGGTATAAT
*
34738483 AATATGAAATAATAATA-AAACA
1 AATAT-AAAT-ATAATAGAAAAA
34738505 AATAATAAATATAATAGAAAAA
1 AAT-ATAAATATAATAGAAAAA
34738527 AATA
1 AATA
34738531 AAAGTAACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 7 0.30
22 14 0.61
23 2 0.09
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (21 bp):
AATATAAATATAATAGAAAAA
Found at i:34741669 original size:40 final size:40
Alignment explanation
Indices: 34741625--34741707 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
34741615 CGACGACAAA
* * *
34741625 TCGGCTATTTGTAGCACTTAGTGTGCAATTTGAGATAGCT
1 TCGGCTATATATAGCAATTAGTGTGCAATTTGAGATAGCT
* * *
34741665 TCGGCTATATATGGCAATTAGTGTGCGATTTGAGATATCT
1 TCGGCTATATATAGCAATTAGTGTGCAATTTGAGATAGCT
34741705 TCG
1 TCG
34741708 ATTATGTACG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.37
Consensus pattern (40 bp):
TCGGCTATATATAGCAATTAGTGTGCAATTTGAGATAGCT
Found at i:34741726 original size:40 final size:40
Alignment explanation
Indices: 34741638--34741728 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
34741628 GCTATTTGTA
* *
34741638 GCACTTAGTGTGCAATTTGAGATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCAATTTGAGATAGCTTCGACTATATACG
* * * * *
34741678 GCAATTAGTGTGCGATTTGAGATATCTTCGATTATGTACG
1 GCACTTAGTGTGCAATTTGAGATAGCTTCGACTATATACG
34741718 GCACTTAGTGT
1 GCACTTAGTGT
34741729 ATGAGATATC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.36
Consensus pattern (40 bp):
GCACTTAGTGTGCAATTTGAGATAGCTTCGACTATATACG
Found at i:34744715 original size:47 final size:48
Alignment explanation
Indices: 34744643--34745052 Score: 251
Period size: 47 Copynumber: 8.7 Consensus size: 48
34744633 TTATTTGTGT
* *
34744643 GCCAGTGTAAGA-CATGTCTGAGACAT-GCATCAGCCACTTTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACTATATGAGA
* * * *
34744689 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CTATATGAGA
* * * *
34744737 GCTAGTGTAAGA-CATGTCTGGGATAT-GCATCAGCCTCGATATGTA-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACTATATG-AGA
* * ** * * * *
34744783 GCCAGTGTAAGA-CATGACTGGGACAT-GTATTGGCTACGAGAT--GT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACTATATGAGA
* * * * * *
34744827 GTCAGAGTAAGACCATGTCTGGGACATGGCATC-GGCACGTATAGGGGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCAC-TATATGAGA
* * * * *
34744875 GTCAGTGTAAG-CAATG-CTTGGGACATGGCATCAGCACAGATATGTGAAA
1 GCCAGTGTAAGACCATGTC-TGGGACATGGCATCAGC-CA-CTATATGAGA
* * * * * * * *
34744924 GCTAGTGTAAGACCATGTCTAGGACATGGCGTTAGCCTCGATTTCGATA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACTATAT-GAGA
* * *
34744973 GTCAGTGTAAGACCATGTCTGAGACATGGCGTC-G--ACT-TGATGGATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACTAT-AT-GA-GA
34745020 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
34745053 GGCATCATAC
Statistics
Matches: 279, Mismatches: 65, Indels: 39
0.73 0.17 0.10
Matches are distributed among these distances:
44 10 0.04
45 17 0.06
46 66 0.24
47 81 0.29
48 39 0.14
49 47 0.17
50 18 0.06
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACTATATGAGA
Found at i:34744897 original size:138 final size:141
Alignment explanation
Indices: 34744695--34745052 Score: 326
Period size: 138 Copynumber: 2.5 Consensus size: 141
34744685 GAGAGCCAGT
34744695 GTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGAGCTAGTGTAAGACATGTCTGGGA
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGAGCTAGTGTAAGACATGTCTGGGA
* * *
34744760 TAT-GCATCAGC-CTCGATATGT-AAGCCAGTGTAAGA-CATGACTGGGACATGTATTGGCTACG
66 CATGGCATCAGCAC-AGATATGTAAAGCCAGTGTAAGACCATGACTAGGACATGTATTGGCTACG
34744821 AGATGTGTCAGA
130 AGATGTGTCAGA
* * * *
34744833 GTAAGACCATGTCTGGGACATGGCATCGGCA-CGTATAGGGGTG-TCAGTGTAAG-CAATG-CTT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCG-AGACGAGAGCT-AGTGTAAGAC-ATGTC-T
* * **
34744894 GGGACATGGCATCAGCACAGATATGTGAAAGCTAGTGTAAGACCATGTCTAGGACATGGCGTTAG
62 GGGACATGGCATCAGCACAGATATGT-AAAGCCAGTGTAAGACCATGACTAGGACAT-GTATT-G
* ** *
34744959 CCT-CGATTTCGATAGTCAGT
124 GCTACGAGAT-G-T-GTCAGA
* * * * *
34744979 GTAAGACCATGTCTGAGACATGGCGTCGAC-TTGATG--GATGAGCCAGTGTAAGACCATGTCTG
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGA-GACGA-GAGCTAGTGTAAGA-CATGTCTG
34745041 GGACATGGCATC
63 GGACATGGCATC
34745053 GGCATCATAC
Statistics
Matches: 176, Mismatches: 23, Indels: 34
0.76 0.10 0.15
Matches are distributed among these distances:
137 5 0.03
138 54 0.31
139 15 0.09
140 1 0.01
141 13 0.07
142 12 0.07
143 7 0.04
144 5 0.03
145 12 0.07
146 50 0.28
147 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (141 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGAGCTAGTGTAAGACATGTCTGGGA
CATGGCATCAGCACAGATATGTAAAGCCAGTGTAAGACCATGACTAGGACATGTATTGGCTACGA
GATGTGTCAGA
Found at i:34760723 original size:29 final size:29
Alignment explanation
Indices: 34760681--34760742 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
34760671 TGGTAAATTC
34760681 CTTAAACTCTTAAAAAAATTACATATTAA
1 CTTAAACTCTTAAAAAAATTACATATTAA
34760710 CTTAAACTCTTAAAAAAATTACATATTAA
1 CTTAAACTCTTAAAAAAATTACATATTAA
34760739 CTTA
1 CTTA
34760743 CTGTTTATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (29 bp):
CTTAAACTCTTAAAAAAATTACATATTAA
Found at i:34771915 original size:30 final size:30
Alignment explanation
Indices: 34771881--34771956 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
34771871 AAAACTATCG
*
34771881 CTTTTCATAAATTGATGGCCT-TCACCATCC
1 CTTTTCATAATTTGATGG-CTGTCACCATCC
* ** *
34771911 CTTTTTATTGTTTGATGGTTGTCACCATCC
1 CTTTTCATAATTTGATGGCTGTCACCATCC
34771941 CTTTTCATAATTTGAT
1 CTTTTCATAATTTGAT
34771957 AGCCGAAGCT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.46
Consensus pattern (30 bp):
CTTTTCATAATTTGATGGCTGTCACCATCC
Found at i:34772012 original size:30 final size:30
Alignment explanation
Indices: 34771935--34772044 Score: 139
Period size: 30 Copynumber: 3.6 Consensus size: 30
34771925 ATGGTTGTCA
* * *
34771935 CCATCCCTTTTCATAATTTGATAGCCGAAG
1 CCATCCCTTTTCATAGTTCGATAGCCAAAG
* *
34771965 CTATCCTTTTGTCATAGTTCGATAGCCAAAG
1 CCATCCCTTT-TCATAGTTCGATAGCCAAAG
* * *
34771996 CCATCCATTTTCATAGTTCGACAGTCAAAG
1 CCATCCCTTTTCATAGTTCGATAGCCAAAG
34772026 CCATCCCTTTTCATAGTTC
1 CCATCCCTTTTCATAGTTC
34772045 AATGGTCGTT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
30 44 0.64
31 25 0.36
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (30 bp):
CCATCCCTTTTCATAGTTCGATAGCCAAAG
Found at i:34781323 original size:55 final size:55
Alignment explanation
Indices: 34781249--34781361 Score: 217
Period size: 55 Copynumber: 2.1 Consensus size: 55
34781239 TAATTATTTC
*
34781249 TATCTCAGATTTTGTGGTCACGAAACTACTATTCTGACTAGGCCCAAAATCAGGA
1 TATCTCAGATTTTGTGGTCACGAAACTACTATTCCGACTAGGCCCAAAATCAGGA
34781304 TATCTCAGATTTTGTGGTCACGAAACTACTATTCCGACTAGGCCCAAAATCAGGA
1 TATCTCAGATTTTGTGGTCACGAAACTACTATTCCGACTAGGCCCAAAATCAGGA
34781359 TAT
1 TAT
34781362 TACAATATAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (55 bp):
TATCTCAGATTTTGTGGTCACGAAACTACTATTCCGACTAGGCCCAAAATCAGGA
Found at i:34786305 original size:141 final size:142
Alignment explanation
Indices: 34786049--34786329 Score: 528
Period size: 141 Copynumber: 2.0 Consensus size: 142
34786039 TTCTTCTCGT
34786049 AGTGTTCACCGGGCCCTTTTTCTCCAATTGTGTAATTCTGTCAAAAATAACCAAATATAATCAAA
1 AGTGTTCACCGGGCCCTTTTTCTCCAATTGTGTAATTCTGTCAAAAATAACCAAATATAATCAAA
34786114 ATTAACTATGAAATTAATTAAAATTCATAATGTTCATATTTTTAACATAATTTAATTATTTTATA
66 ATTAACTATGAAATTAATTAAAATTCATAATGTTCATATTTTTAACATAATTTAATTATTTTATA
*
34786179 GTATTTAATTAC
131 ATATTTAATTAC
*
34786191 AGTGTTCACCGGGCCC-TTTTCTCCAATTGTGTAATTCTGTCAAAAATAACCAAATTTAATCAAA
1 AGTGTTCACCGGGCCCTTTTTCTCCAATTGTGTAATTCTGTCAAAAATAACCAAATATAATCAAA
*
34786255 ATTAACTATGAAATTAATTAAAATTCATAATGTTCATATTTTTAATATAATTTAATTATTTTATA
66 ATTAACTATGAAATTAATTAAAATTCATAATGTTCATATTTTTAACATAATTTAATTATTTTATA
34786320 ATATTTAATT
131 ATATTTAATT
34786330 TTTTTTCGAC
Statistics
Matches: 136, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
141 120 0.88
142 16 0.12
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (142 bp):
AGTGTTCACCGGGCCCTTTTTCTCCAATTGTGTAATTCTGTCAAAAATAACCAAATATAATCAAA
ATTAACTATGAAATTAATTAAAATTCATAATGTTCATATTTTTAACATAATTTAATTATTTTATA
ATATTTAATTAC
Found at i:34797062 original size:42 final size:42
Alignment explanation
Indices: 34797015--34797098 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
34797005 GTCAGCAAGA
34797015 ATTACTTATCTTCCGACCTCACAGTCCAAATCGGTCCGAGGT
1 ATTACTTATCTTCCGACCTCACAGTCCAAATCGGTCCGAGGT
* * * *
34797057 ATTACTTATCTTCTGACTTCACAGTCCAGATCGGTTCGAGGT
1 ATTACTTATCTTCCGACCTCACAGTCCAAATCGGTCCGAGGT
34797099 TAAGGTGTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (42 bp):
ATTACTTATCTTCCGACCTCACAGTCCAAATCGGTCCGAGGT
Found at i:34797776 original size:20 final size:21
Alignment explanation
Indices: 34797736--34797777 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34797726 TCTGATGTCA
*
34797736 CGACAACAAAGGTCGATTTTG
1 CGACAACAAAGGTCAATTTTG
*
34797757 CGACATCAAAGG-CAATTTTG
1 CGACAACAAAGGTCAATTTTG
34797777 C
1 C
34797778 TCTAGAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (21 bp):
CGACAACAAAGGTCAATTTTG
Found at i:34799333 original size:30 final size:29
Alignment explanation
Indices: 34799278--34799334 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
34799268 CACGACCTGC
*
34799278 CACATGGCCGTGTGGCAACCTATGTGGCT
1 CACATGGCCGCGTGGCAACCTATGTGGCT
* *
34799307 CACATGGCCGCGTGTTCAAGCTATGTGG
1 CACATGGCCGCGTG-GCAACCTATGTGG
34799335 AATGGTCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.25
Consensus pattern (29 bp):
CACATGGCCGCGTGGCAACCTATGTGGCT
Found at i:34805282 original size:13 final size:13
Alignment explanation
Indices: 34805264--34805288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34805254 AAGCTGATGA
34805264 CATGCATGCATGG
1 CATGCATGCATGG
34805277 CATGCATGCATG
1 CATGCATGCATG
34805289 AACGAATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (13 bp):
CATGCATGCATGG
Done.