Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5609167
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 23
Found at i:4839600 original size:26 final size:26
Alignment explanation
Indices: 4839536--4839601 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
4839526 TAAATAAAAA
4839536 AAATACAATAAAAAAGTCCAATAAAC
1 AAATACAATAAAAAAGTCCAATAAAC
* * *
4839562 AACTACAAT-AAAAAGTACTAA-ATAC
1 AAATACAATAAAAAAGT-CCAATAAAC
*
4839587 AAATATAATAAAAAA
1 AAATACAATAAAAAA
4839602 ATCTATCGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 17 0.52
26 16 0.48
ACGTcount: A:0.67, C:0.12, G:0.03, T:0.18
Consensus pattern (26 bp):
AAATACAATAAAAAAGTCCAATAAAC
Found at i:4841807 original size:17 final size:17
Alignment explanation
Indices: 4841772--4841824 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
4841762 TATATCTGCA
* *
4841772 AAAAAATTAATTAAA-T
1 AAAATATTAAATAAATT
4841788 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
*
4841805 -AAATACCTAAATAAATT
1 AAAATA-TTAAATAAATT
4841822 AAA
1 AAA
4841825 TACAAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 18 0.58
17 11 0.35
18 2 0.06
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:4841825 original size:17 final size:17
Alignment explanation
Indices: 4841795--4841827 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4841785 AATAAAATAT
4841795 TAAATAAATTAAATACC
1 TAAATAAATTAAATACC
4841812 TAAATAAATTAAATAC
1 TAAATAAATTAAATAC
4841828 AAAATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAATAAATTAAATACC
Found at i:4843958 original size:3 final size:3
Alignment explanation
Indices: 4843950--4843974 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4843940 TATAAGTTTC
4843950 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
4843975 TACGGTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4844081 original size:31 final size:31
Alignment explanation
Indices: 4844046--4844113 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
4844036 TCAAAAAACA
* *
4844046 TAAGATATAATCACTTTCGTTTTTATTTAAT
1 TAAGATATAATCACTTCCGCTTTTATTTAAT
** *
4844077 TAAGATATGCTCACTTCCGCTTTTATTTGAT
1 TAAGATATAATCACTTCCGCTTTTATTTAAT
4844108 TAAGAT
1 TAAGAT
4844114 GTAGTCATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.47
Consensus pattern (31 bp):
TAAGATATAATCACTTCCGCTTTTATTTAAT
Found at i:4844325 original size:25 final size:24
Alignment explanation
Indices: 4844287--4844363 Score: 77
Period size: 26 Copynumber: 3.1 Consensus size: 24
4844277 AAAATATTTT
*
4844287 TTTAATAAATTTAATAATAAAATATA
1 TTTAAT-AAGTTAATAATAAAA-ATA
4844313 TTTAATAAGTTAAT-ATAAAAATA
1 TTTAATAAGTTAATAATAAAAATA
*
4844336 TTT-TTAAGTTAATATATATATAAATA
1 TTTAATAAGTTAATA-ATA-A-AAATA
4844362 TT
1 TT
4844364 ATGAATTTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
22 9 0.20
23 6 0.13
24 9 0.20
25 8 0.18
26 13 0.29
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
TTTAATAAGTTAATAATAAAAATA
Found at i:4844343 original size:22 final size:24
Alignment explanation
Indices: 4844287--4844351 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 24
4844277 AAAATATTTT
*
4844287 TTTAATAAATTTAATAATAAAATATA
1 TTTAAT-AAGTTAAT-ATAAAATATA
4844313 TTTAATAAGTTAATATAAAA-ATA
1 TTTAATAAGTTAATATAAAATATA
*
4844336 TTT-TTAAGTTAATATA
1 TTTAATAAGTTAATATA
4844352 TATATAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.32
23 6 0.16
24 6 0.16
25 7 0.19
26 6 0.16
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
TTTAATAAGTTAATATAAAATATA
Found at i:4844373 original size:26 final size:27
Alignment explanation
Indices: 4844325--4844384 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
4844315 TAATAAGTTA
* * *
4844325 ATATAAAAATATTTTTAAGTTAA-TAT
1 ATATATAAATATTATGAAGTTAAGTAT
*
4844351 ATATATAAATATTATGAATTTAAGTAT
1 ATATATAAATATTATGAAGTTAAGTAT
*
4844378 TTATATA
1 ATATATA
4844385 CTACGATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (27 bp):
ATATATAAATATTATGAAGTTAAGTAT
Found at i:4854087 original size:23 final size:22
Alignment explanation
Indices: 4854057--4854112 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
4854047 TATCCTGAAG
4854057 GACCACATAGGATTGTCCCAAA
1 GACCACATAGGATTGTCCCAAA
** *
4854079 TGACCACATAGTTTTGTCCCGAA
1 -GACCACATAGGATTGTCCCAAA
4854102 GAACCACATAG
1 G-ACCACATAG
4854113 AACCCTCGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 1 0.03
23 28 0.97
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (22 bp):
GACCACATAGGATTGTCCCAAA
Found at i:4854238 original size:14 final size:15
Alignment explanation
Indices: 4854219--4854259 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
4854209 GTGTGTCTTG
4854219 TTCACATAG-GCACT
1 TTCACATAGAGCACT
* *
4854233 TTCACATCGAGCATT
1 TTCACATAGAGCACT
4854248 TTCACATA-AGCA
1 TTCACATAGAGCA
4854260 TAATCACATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (15 bp):
TTCACATAGAGCACT
Found at i:4854760 original size:20 final size:20
Alignment explanation
Indices: 4854735--4854775 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4854725 GAATTTCATT
4854735 CTTAATAATAGTATTGATAC
1 CTTAATAATAGTATTGATAC
** *
4854755 CTTAATCTTGGTATTGATAC
1 CTTAATAATAGTATTGATAC
4854775 C
1 C
4854776 CTATTTCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (20 bp):
CTTAATAATAGTATTGATAC
Found at i:4855012 original size:41 final size:41
Alignment explanation
Indices: 4854966--4855047 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
4854956 ACCTCATTCA
4854966 GACTTTCAAACTCATGATCCTTACTCATAGTTAACTTACCT
1 GACTTTCAAACTCATGATCCTTACTCATAGTTAACTTACCT
4855007 GACTTTCAAACTCATGATCCTTACTCATAGTTAACTTACCT
1 GACTTTCAAACTCATGATCCTTACTCATAGTTAACTTACCT
4855048 CCACAATTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (41 bp):
GACTTTCAAACTCATGATCCTTACTCATAGTTAACTTACCT
Found at i:4857538 original size:18 final size:19
Alignment explanation
Indices: 4857511--4857559 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
4857501 TGATACAATT
* * *
4857511 GGTATTGATACT-GATGAG
1 GGTATCGATACTAGATAAA
4857529 GGTATCGATACTAAGATAAA
1 GGTATCGATACT-AGATAAA
4857549 GGTATCGATAC
1 GGTATCGATAC
4857560 CATGGATTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 11 0.42
20 15 0.58
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.29
Consensus pattern (19 bp):
GGTATCGATACTAGATAAA
Found at i:4858130 original size:49 final size:49
Alignment explanation
Indices: 4858077--4858312 Score: 391
Period size: 49 Copynumber: 4.8 Consensus size: 49
4858067 GGTGCTAAAA
* *
4858077 TAAATGCATAACGGTGCATTTTGGCATAAAATGTGCCACTAATGAAAGG
1 TAAATGCATAACGGTGCATTTTGGCATAAAAGGTGCCACTAATGAAAGT
* *
4858126 TAAATGCATAACGGTGCATTTCGGCATAGAAGGTGCCACTAATGAAAGT
1 TAAATGCATAACGGTGCATTTTGGCATAAAAGGTGCCACTAATGAAAGT
*
4858175 TAAATGCATAATGGTGCATTTTGGCATAAAAGGTGCCACTAATGAAAGT
1 TAAATGCATAACGGTGCATTTTGGCATAAAAGGTGCCACTAATGAAAGT
*
4858224 TAAATGCATAACGGTGCATTTTGACATAAAAGGTGCCACTAATGAAAGT
1 TAAATGCATAACGGTGCATTTTGGCATAAAAGGTGCCACTAATGAAAGT
* * *
4858273 TAAATGCATAACGGTGTATTTCGTCATAAAAGGTGCCACT
1 TAAATGCATAACGGTGCATTTTGGCATAAAAGGTGCCACT
4858313 CATGGTATTC
Statistics
Matches: 175, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 175 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (49 bp):
TAAATGCATAACGGTGCATTTTGGCATAAAAGGTGCCACTAATGAAAGT
Found at i:4865195 original size:49 final size:49
Alignment explanation
Indices: 4865116--4865352 Score: 393
Period size: 49 Copynumber: 4.8 Consensus size: 49
4865106 GGGTGCTAAA
* *
4865116 TTAAATGCATAACGGTGCATTTTGGAATAAAAGGTGCCACTAATGAAAG
1 TTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAG
* *
4865165 TTAAATACATAACGGTGCATTTCGGCATAAAAGGTTCCACTAATGAAAG
1 TTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAG
4865214 TTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAG
1 TTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAG
* **
4865263 TTAAATGCATAATGGTGCATTTCAACATAAAAGGTGCCACTAATGAAAG
1 TTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAG
* *
4865312 TTAAATGCATAACAGTGCATTTCAGCATAAAAGGTGCCACT
1 TTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
4865353 CATGGTATTC
Statistics
Matches: 176, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 176 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (49 bp):
TTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACTAATGAAAG
Found at i:4867319 original size:215 final size:217
Alignment explanation
Indices: 4866946--4867379 Score: 845
Period size: 215 Copynumber: 2.0 Consensus size: 217
4866936 CCACTCTAAT
4866946 ATAGTTTTTATCTTCTGATGATCTACCTGAATCCCCTCTGCCCATACCACATGTCTAAGGAACGT
1 ATAGTTTTTATCTTCTGATGATCTACCTGAAT-CCCTCTGCCCATACCACATGTCTAAGGAACGT
4867011 TATTTCTGATAACCAAAACTCACACTTAGATAATTTAGCATAAAGTCTCTTGTCTCATAGTGTTT
65 TATTTCTGATAACCAAAACTCACACTTAGATAATTTAGCATAAAGTCTCTTGTCTCATAGTGTTT
4867076 AAAGAATTACCCACAGATAAACGTCATGCTCCTCATTGGTCTTTGAATACACCAAGATATTGTCA
130 AAAGAATTACCCACAGATAAACGTCATGCTCCTCATTGGTCTTTGAATACACCAAGATATTGTCA
4867141 ATG-AAACAACCATTAAATGATC
195 ATGAAAACAACCATTAAATGATC
4867163 ATAGTTTTTATCTTCTGATGATCTACCTGAAT-CCTCTGCCCATACCACATGTCTAAGGAACGTT
1 ATAGTTTTTATCTTCTGATGATCTACCTGAATCCCTCTGCCCATACCACATGTCTAAGGAACGTT
4867227 ATTTCTGATAACCAAAACTCACACTTAGATAATTTAGCATAAAGTCTCTTGTCTCATAGTGTTTA
66 ATTTCTGATAACCAAAACTCACACTTAGATAATTTAGCATAAAGTCTCTTGTCTCATAGTGTTTA
4867292 AAGAATTACCCACAGATAAACGTCATGCTCCTCATTGGTCTTTGAATACACCAAGATATTGTCAA
131 AAGAATTACCCACAGATAAACGTCATGCTCCTCATTGGTCTTTGAATACACCAAGATATTGTCAA
4867357 TGAAAACAACCATTAAATGATC
196 TGAAAACAACCATTAAATGATC
4867379 A
1 A
4867380 AGATAAGGTT
Statistics
Matches: 216, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
215 164 0.76
216 20 0.09
217 32 0.15
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.32
Consensus pattern (217 bp):
ATAGTTTTTATCTTCTGATGATCTACCTGAATCCCTCTGCCCATACCACATGTCTAAGGAACGTT
ATTTCTGATAACCAAAACTCACACTTAGATAATTTAGCATAAAGTCTCTTGTCTCATAGTGTTTA
AAGAATTACCCACAGATAAACGTCATGCTCCTCATTGGTCTTTGAATACACCAAGATATTGTCAA
TGAAAACAACCATTAAATGATC
Found at i:4870427 original size:23 final size:22
Alignment explanation
Indices: 4870369--4870440 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 22
4870359 CATCACTGCT
* *
4870369 CACATAAATTG-CACCGAAGTGC
1 CACATAATTTGTC-CCGAAGTAC
4870391 CACAT-ATTTGTCCCGAAGTAC
1 CACATAATTTGTCCCGAAGTAC
4870412 CACATAATTTTGTCCCGAA-TGAC
1 CACATAA-TTTGTCCCGAAGT-AC
4870435 CACATA
1 CACATA
4870441 GAACCCTCGA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
21 17 0.39
22 8 0.18
23 19 0.43
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (22 bp):
CACATAATTTGTCCCGAAGTAC
Found at i:4871089 original size:20 final size:20
Alignment explanation
Indices: 4871064--4871103 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4871054 GAATTTCATT
*
4871064 CTTAATAATAGTATTGATAC
1 CTTAATAATAGTATCGATAC
**
4871084 CTTAATCTTAGTATCGATAC
1 CTTAATAATAGTATCGATAC
4871104 TAATTTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
CTTAATAATAGTATCGATAC
Found at i:4874058 original size:138 final size:141
Alignment explanation
Indices: 4873865--4874140 Score: 515
Period size: 141 Copynumber: 2.0 Consensus size: 141
4873855 CAATCACAAG
4873865 TTGTTTTCAACTAATTATTTGTTTTTAGGTTTCTACCCTTCGATGCATCTTCCT-C-C-TTATCC
1 TTGTTTTCAACTAATTATTTGTTTTTAGGTTTCTACCCTTCGATGCATCTTCCTCCACTTTATCC
4873927 AGGGTTCAGTGCCATACAACCTCATATGCGTCCAAA-TCAGAGGCTCAACTAGCACTTCGATGCC
66 AGGGTTCAGTGCCATACAACCTCATATGCGTCCAAATTCAGAGGCTCAACTAGCACTTCGATGCC
4873991 TTTGCACCAGT
131 TTTGCACCAGT
4874002 TTGTTTTCAACTAATTATTTGTTTTTTAGGTTTCTACCCTTCGATGCATCTTCCTCCACTTTATC
1 TTGTTTTCAACTAATTATTTG-TTTTTAGGTTTCTACCCTTCGATGCATCTTCCTCCACTTTATC
4874067 CAGGGTTCAGTGCCATACAACCTCATATGCGTCCAAATTCAGAGGCTCAACTAGCACTTCGATGC
65 CAGGGTTCAGTGCCATACAACCTCATATGCGTCCAAATTCAGAGGCTCAACTAGCACTTCGATGC
4874132 CTTTGCACC
130 CTTTGCACC
4874141 CACAAGCGAG
Statistics
Matches: 134, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
137 21 0.16
138 33 0.25
139 1 0.01
140 1 0.01
141 42 0.31
142 36 0.27
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (141 bp):
TTGTTTTCAACTAATTATTTGTTTTTAGGTTTCTACCCTTCGATGCATCTTCCTCCACTTTATCC
AGGGTTCAGTGCCATACAACCTCATATGCGTCCAAATTCAGAGGCTCAACTAGCACTTCGATGCC
TTTGCACCAGT
Found at i:4874797 original size:31 final size:31
Alignment explanation
Indices: 4874759--4874831 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
4874749 AAAGTATTTT
* *
4874759 AAATTTGTGATGGAATATGTGGACCCATCAC
1 AAATTTGTGACGGAATATATGGACCCATCAC
* *
4874790 AAATTTGTGACGGATTATATGGACCCGTCAC
1 AAATTTGTGACGGAATATATGGACCCATCAC
*
4874821 AAATTTCTGAC
1 AAATTTGTGAC
4874832 AGATTCACCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (31 bp):
AAATTTGTGACGGAATATATGGACCCATCAC
Found at i:4874849 original size:31 final size:31
Alignment explanation
Indices: 4874814--4874885 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
4874804 TTATATGGAC
* * *
4874814 CCGTCACAAATTTCTGAC-AGATTCACCTATT
1 CCGTCACAAATTGCTGACAAG-TCCACATATT
*
4874845 CCGTCACAAATTGCTGACAAGTCCACATGTT
1 CCGTCACAAATTGCTGACAAGTCCACATATT
4874876 CCGTCACAAA
1 CCGTCACAAA
4874886 GTTTAGAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 34 0.94
32 2 0.06
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (31 bp):
CCGTCACAAATTGCTGACAAGTCCACATATT
Found at i:4878233 original size:3 final size:3
Alignment explanation
Indices: 4878225--4878250 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4878215 TAACACTAAA
4878225 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
4878251 ATTCACACTA
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:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:4881135 original size:16 final size:14
Alignment explanation
Indices: 4881102--4881136 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
4881092 GTGGGGTAAG
4881102 GCGCGCCCCCTGCA
1 GCGCGCCCCCTGCA
4881116 GCGCGCCCCCTGCA
1 GCGCGCCCCCTGCA
4881130 GCGCGCC
1 GCGCGCC
4881137 TTATGCTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.06, C:0.57, G:0.31, T:0.06
Consensus pattern (14 bp):
GCGCGCCCCCTGCA
Found at i:4881464 original size:9 final size:9
Alignment explanation
Indices: 4881452--4881485 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4881442 TAATATTTTG
4881452 TATTTAATT
1 TATTTAATT
*
4881461 TATTTAAGT
1 TATTTAATT
4881470 T-TTTAATT
1 TATTTAATT
4881478 TATTTAAT
1 TATTTAAT
4881486 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
TATTTAATT
Found at i:4883761 original size:13 final size:13
Alignment explanation
Indices: 4883728--4883775 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
4883718 TATTTAGTAC
*
4883728 TTTTTATTGTAGT
1 TTTTTATTGTAAT
* *
4883741 TGTTTTATTGGACT
1 T-TTTTATTGTAAT
4883755 TTTTTATTGTAAT
1 TTTTTATTGTAAT
4883768 TTTTTATT
1 TTTTTATT
4883776 ATTTATCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.69
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:4890323 original size:246 final size:246
Alignment explanation
Indices: 4889733--4891193 Score: 2752
Period size: 243 Copynumber: 6.0 Consensus size: 246
4889723 AAAAACTGAT
*
4889733 AATGCATGGTTAGATTGCTTCAAGATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
1 AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
*
4889798 TCTATCGGAG-AAAAACCAGCAACAATTAATGTTGATATCGGAGCAAACCATCGATATATCAACA
66 TCTATCGGAGAAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACA
4889862 CGGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGAT
131 CGGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGAT
*
4889927 GCTCTAATCCAATTAACTG-A--ATCGAGTAATCGCTACTATGTTAAAGGG
196 GCTCTAATCCAATTAACCGAATTATCGAGTAATCGCTACTATGTTAAAGGG
4889975 AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
1 AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
4890040 TCTATCGGAGAAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACA
66 TCTATCGGAGAAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACA
4890105 CGGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGAT
131 CGGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGAT
*
4890170 GCTCTAATCCAATTAACTGAATTATCGAGTAATCGCTACTATGTTAAAGGG
196 GCTCTAATCCAATTAACCGAATTATCGAGTAATCGCTACTATGTTAAAGGG
4890221 AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
1 AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
4890286 TCTATCGGAGAAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACA
66 TCTATCGGAGAAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACA
4890351 CGGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGAT
131 CGGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGAT
*
4890416 GCTCTAATCCAATTAACTGAATTATCGAGT-ATCGCTACTA--TTAAAGGG
196 GCTCTAATCCAATTAACCGAATTATCGAGTAATCGCTACTATGTTAAAGGG
4890464 AATGCAT-GTTAGATTGCTTCAAAATACCACTCAC-AATACCTTAGTCGGCAAAGCCTTTTAAGC
1 AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
4890527 TCTATCGGAG-AAAAACCAGCAACAATTAATGTTGATATCGAAGC-AACCATCGATATATCAACA
66 TCTATCGGAGAAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACA
*
4890590 CGGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACTTCAGCCACCGGTTAGATCGAT
131 CGGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGAT
4890655 GCTCTAATCCAATTAACCGAATTATCGAGTAATCGCTACTATGTTAAAGGG
196 GCTCTAATCCAATTAACCGAATTATCGAGTAATCGCTACTATGTTAAAGGG
4890706 AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
1 AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
4890771 TCTATCGGAGAAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCG--ATATCAACA
66 TCTATCGGAGAAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACA
*
4890834 CGGACCCTCCAGCAG-TTTCTCTATTGAAACATCTGCATCGACTTCAGCCACCGGTTAGATCGAT
131 CGGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGAT
4890898 GCTCTAATCCAATTAACCGAATTATCGAGTAATCGCTACTATGTTAAAGGG
196 GCTCTAATCCAATTAACCGAATTATCGAGTAATCGCTACTATGTTAAAGGG
4890949 AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
1 AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
4891014 TCTATCGGAGAAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACA
66 TCTATCGGAGAAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACA
*
4891079 CGGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACTTCAGCCACCGGTTAGATCGAT
131 CGGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGAT
4891144 GCTCTAATCCAATTAACCGAATTATCGAGTAATCGCTACTATGTTAAAGG
196 GCTCTAATCCAATTAACCGAATTATCGAGTAATCGCTACTATGTTAAAGG
4891194 CACTGCACCA
Statistics
Matches: 1201, Mismatches: 4, Indels: 24
0.98 0.00 0.02
Matches are distributed among these distances:
239 112 0.09
240 44 0.04
241 39 0.03
242 116 0.10
243 398 0.33
244 64 0.05
245 68 0.06
246 360 0.30
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (246 bp):
AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
TCTATCGGAGAAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACA
CGGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGAT
GCTCTAATCCAATTAACCGAATTATCGAGTAATCGCTACTATGTTAAAGGG
Found at i:4891132 original size:728 final size:731
Alignment explanation
Indices: 4889733--4891185 Score: 2756
Period size: 728 Copynumber: 2.0 Consensus size: 731
4889723 AAAAACTGAT
*
4889733 AATGCATGGTTAGATTGCTTCAAGATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
1 AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
*
4889798 TCTATCGGAGAAAAACCAGCAACAATTAATGTTGATATCGGAGCAAACCATCGATATATCAACAC
66 TCTATCGGAGAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACAC
4889863 GGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGATG
131 GGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGATG
*
4889928 CTCTAATCCAATTAACTGAATCGAGTAATCGCTACTATGTTAAAGGGAATGCATGGTTAGATTGC
196 CTCTAATCCAATTAACCGAATCGAGTAATCGCTACTATGTTAAAGGGAATGCATGGTTAGATTGC
4889993 TTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGCTCTATCGGAGAAAAAACC
261 TTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGCTCTATCGGAGAAAAAACC
4890058 AGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACACGGACCCTCCAGCAGTTT
326 AGCAACAATTAATGTTGATATCGAAGCAAACCATCGA-ATATCAACACGGACCCTCCAGCAGTTT
*
4890123 TCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGATGCTCTAATCCAATTAACT
390 TCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGATGCTCTAATCCAATTAACC
4890188 GAATTATCGAGTAATCGCTACTATGTTAAAGGGAATGCATGGTTAGATTGCTTCAAAATACCACT
455 GAATTATCGAGTAATCGCTACTATGTTAAAGGGAATGCATGGTTAGATTGCTTCAAAATACCACT
4890253 CACAAATACCTTAGTCGGCAAAGCCTTTTAAGCTCTATCGGAGAAAAAACCAGCAACAATTAATG
520 CACAAATACCTTAGTCGGCAAAGCCTTTTAAGCTCTATCGGAGAAAAAACCAGCAACAATTAATG
4890318 TTGATATCGAAGCAAACCATCGATATATCAACACGGACCCTCCAGCAGTTTTCTCTATTGAAACA
585 TTGATATCGAAGCAAACCATCGATATATCAACACGGACCCTCCAGCAGTTTTCTCTATTGAAACA
*
4890383 TCTGCATCGACATCAGCCACCGGTTAGATCGATGCTCTAATCCAATTAACTGAATTATCGAGT-A
650 TCTGCATCGACATCAGCCACCGGTTAGATCGATGCTCTAATCCAATTAACCGAATTATCGAGTAA
4890447 TCGCTACTATTAAAGGG
715 TCGCTACTATTAAAGGG
4890464 AATGCAT-GTTAGATTGCTTCAAAATACCACTCAC-AATACCTTAGTCGGCAAAGCCTTTTAAGC
1 AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
4890527 TCTATCGGAGAAAAACCAGCAACAATTAATGTTGATATCGAAGC-AACCATCGATATATCAACAC
66 TCTATCGGAGAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACAC
*
4890591 GGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACTTCAGCCACCGGTTAGATCGATG
131 GGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGATG
4890656 CTCTAATCCAATTAACCGAATTATCGAGTAATCGCTACTATGTTAAAGGGAATGCATGGTTAGAT
196 CTCTAATCCAATTAACCG-A--ATCGAGTAATCGCTACTATGTTAAAGGGAATGCATGGTTAGAT
4890721 TGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGCTCTATCGGAGAAAAA
258 TGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGCTCTATCGGAGAAAAA
4890786 ACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCG-ATATCAACACGGACCCTCCAGCAG-
323 ACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGAATATCAACACGGACCCTCCAGCAGT
*
4890849 TTTCTCTATTGAAACATCTGCATCGACTTCAGCCACCGGTTAGATCGATGCTCTAATCCAATTAA
388 TTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGATGCTCTAATCCAATTAA
4890914 CCGAATTATCGAGTAATCGCTACTATGTTAAAGGGAATGCATGGTTAGATTGCTTCAAAATACCA
453 CCGAATTATCGAGTAATCGCTACTATGTTAAAGGGAATGCATGGTTAGATTGCTTCAAAATACCA
4890979 CTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGCTCTATCGGAGAAAAAACCAGCAACAATTAA
518 CTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGCTCTATCGGAGAAAAAACCAGCAACAATTAA
4891044 TGTTGATATCGAAGCAAACCATCGATATATCAACACGGACCCTCCAGCAGTTTTCTCTATTGAAA
583 TGTTGATATCGAAGCAAACCATCGATATATCAACACGGACCCTCCAGCAGTTTTCTCTATTGAAA
*
4891109 CATCTGCATCGACTTCAGCCACCGGTTAGATCGATGCTCTAATCCAATTAACCGAATTATCGAGT
648 CATCTGCATCGACATCAGCCACCGGTTAGATCGATGCTCTAATCCAATTAACCGAATTATCGAGT
4891174 AATCGCTACTAT
713 AATCGCTACTAT
4891186 GTTAAAGGCA
Statistics
Matches: 710, Mismatches: 8, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
728 422 0.59
729 108 0.15
730 26 0.04
731 154 0.22
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (731 bp):
AATGCATGGTTAGATTGCTTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGC
TCTATCGGAGAAAAACCAGCAACAATTAATGTTGATATCGAAGCAAACCATCGATATATCAACAC
GGACCCTCCAGCAGTTTTCTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGATG
CTCTAATCCAATTAACCGAATCGAGTAATCGCTACTATGTTAAAGGGAATGCATGGTTAGATTGC
TTCAAAATACCACTCACAAATACCTTAGTCGGCAAAGCCTTTTAAGCTCTATCGGAGAAAAAACC
AGCAACAATTAATGTTGATATCGAAGCAAACCATCGAATATCAACACGGACCCTCCAGCAGTTTT
CTCTATTGAAACATCTGCATCGACATCAGCCACCGGTTAGATCGATGCTCTAATCCAATTAACCG
AATTATCGAGTAATCGCTACTATGTTAAAGGGAATGCATGGTTAGATTGCTTCAAAATACCACTC
ACAAATACCTTAGTCGGCAAAGCCTTTTAAGCTCTATCGGAGAAAAAACCAGCAACAATTAATGT
TGATATCGAAGCAAACCATCGATATATCAACACGGACCCTCCAGCAGTTTTCTCTATTGAAACAT
CTGCATCGACATCAGCCACCGGTTAGATCGATGCTCTAATCCAATTAACCGAATTATCGAGTAAT
CGCTACTATTAAAGGG
Found at i:4891390 original size:34 final size:34
Alignment explanation
Indices: 4891347--4891411 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
4891337 TTTTAGGAGC
4891347 TTCACCTGCTACTCATTCGAGAAGAATACGAATT
1 TTCACCTGCTACTCATTCGAGAAGAATACGAATT
4891381 TTCACCTGCTACTCATTCGAGAAGAATACGA
1 TTCACCTGCTACTCATTCGAGAAGAATACGA
4891412 GAGAAATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (34 bp):
TTCACCTGCTACTCATTCGAGAAGAATACGAATT
Found at i:4893908 original size:29 final size:29
Alignment explanation
Indices: 4893827--4893913 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 29
4893817 CACGTGAATG
** *
4893827 GGTAGGTCGCCAATGCATCTGAGCGACAT
1 GGTAGGTCGCCAGGGCATCCGAGCGACAT
*
4893856 GGTA-GTCGCCAGGGCATCCCAGCGACAT
1 GGTAGGTCGCCAGGGCATCCGAGCGACAT
*
4893884 GGTAGGTAGCCAGGGCATCCGAGCGACAT
1 GGTAGGTCGCCAGGGCATCCGAGCGACAT
4893913 G
1 G
4893914 CATGCTTTGC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 24 0.47
29 27 0.53
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.16
Consensus pattern (29 bp):
GGTAGGTCGCCAGGGCATCCGAGCGACAT
Found at i:4894033 original size:12 final size:11
Alignment explanation
Indices: 4894013--4894066 Score: 63
Period size: 12 Copynumber: 4.7 Consensus size: 11
4894003 GAATTCAGTT
4894013 GCATTATTGCA
1 GCATTATTGCA
*
4894024 GCACTTATTGCT
1 GCA-TTATTGCA
4894036 GCATTATTGCA
1 GCATTATTGCA
* *
4894047 GCCCTTATTGCT
1 G-CATTATTGCA
4894059 GCATTATT
1 GCATTATT
4894067 ACATTCCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 17 0.47
12 19 0.53
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:4894040 original size:23 final size:22
Alignment explanation
Indices: 4894012--4894093 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 22
4894002 TGAATTCAGT
4894012 TGCATTATTGCAGCACTTATTGC
1 TGCATTATTGCAGC-CTTATTGC
4894035 TGCATTATTGCAGCCCTTATTGC
1 TGCATTATTGCAG-CCTTATTGC
* * *
4894058 TGCATTATTACATTCCTTATTAC
1 TGCATTATTGCA-GCCTTATTGC
4894081 TGCATTATTGCAG
1 TGCATTATTGCAG
4894094 TCTTTCAGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 51 0.98
24 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (22 bp):
TGCATTATTGCAGCCTTATTGC
Found at i:4894377 original size:39 final size:39
Alignment explanation
Indices: 4894323--4894445 Score: 230
Period size: 39 Copynumber: 3.2 Consensus size: 39
4894313 TTAGTTTTTG
4894323 GTTT-AGGTAAAACAAAATTTTAGTTAATTAGTTAGTTA
1 GTTTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTTA
4894361 GTTTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTTA
1 GTTTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTTA
*
4894400 GTTTAAGGTAAAACAAAATTTTAGTTAATTAGTTTGTTA
1 GTTTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTTA
4894439 GTTTAAG
1 GTTTAAG
4894446 TTATATCATA
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
38 4 0.05
39 79 0.95
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.42
Consensus pattern (39 bp):
GTTTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTTA
Found at i:4894537 original size:28 final size:27
Alignment explanation
Indices: 4894506--4894558 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
4894496 TATATTAAAA
4894506 AATAATTAATTAGTGTGTTAGTTAGTCT
1 AATAATTAATTAGTGTG-TAGTTAGTCT
* *
4894534 AATATTTAATTAGTTTGTAGTTAGT
1 AATAATTAATTAGTGTGTAGTTAGT
4894559 TAAATTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (27 bp):
AATAATTAATTAGTGTGTAGTTAGTCT
Found at i:4895243 original size:19 final size:19
Alignment explanation
Indices: 4895219--4895277 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
4895209 AATAGTACGG
4895219 AACACGAAATTATATATGC
1 AACACGAAATTATATATGC
*
4895238 AACACGAGCA-TATATATTG-
1 AACACGA-AATTATATA-TGC
4895257 --CACGAAATTATATATGC
1 AACACGAAATTATATATGC
4895274 AACA
1 AACA
4895278 TGATCATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 3 0.09
17 11 0.34
19 15 0.47
20 3 0.09
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (19 bp):
AACACGAAATTATATATGC
Found at i:4895268 original size:36 final size:36
Alignment explanation
Indices: 4895221--4895292 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
4895211 TAGTACGGAA
4895221 CACGAAATTATATATGCAACACGAGCATATATATTG
1 CACGAAATTATATATGCAACACGAGCATATATATTG
* *
4895257 CACGAAATTATATATGCAACATGATCATATATATTG
1 CACGAAATTATATATGCAACACGAGCATATATATTG
4895293 ATGAGGCCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (36 bp):
CACGAAATTATATATGCAACACGAGCATATATATTG
Found at i:4898958 original size:28 final size:30
Alignment explanation
Indices: 4898917--4898979 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
4898907 ATTTTTTATA
4898917 TAATATAATATATAACTTAAACCAACAAAC
1 TAATATAATATATAACTTAAACCAACAAAC
* *
4898947 TAATAT-A-ATATAATTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACCAACAAAC
4898975 TAATA
1 TAATA
4898980 ATTTATACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 24 0.77
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACCAACAAAC
Found at i:4898982 original size:21 final size:21
Alignment explanation
Indices: 4898956--4898999 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
4898946 CTAATATAAT
4898956 ATAATTTAAACTAACAAACTA
1 ATAATTTAAACTAACAAACTA
*
4898977 ATAATTTATACTAACAAACTA
1 ATAATTTAAACTAACAAACTA
4898998 AT
1 AT
4899000 TAACTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAATTTAAACTAACAAACTA
Found at i:4898986 original size:28 final size:28
Alignment explanation
Indices: 4898921--4898986 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
4898911 TTTATATAAT
4898921 ATAATATATAACTTAAACCAACAAACTA
1 ATAATATATAACTTAAACCAACAAACTA
* *
4898949 AT-ATAATATAATTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACCAACAAACTA
*
4898977 ATAATTTATA
1 ATAATATATA
4898987 CTAACAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATATATAACTTAAACCAACAAACTA
Found at i:4899597 original size:28 final size:28
Alignment explanation
Indices: 4899564--4899617 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
4899554 CCATGCACAT
*
4899564 CTCCCACATGCATGCATAGCTCGTGAAA
1 CTCCCACATACATGCATAGCTCGTGAAA
4899592 CTCCCACATACATGCATAGCTCGTGA
1 CTCCCACATACATGCATAGCTCGTGA
4899618 CCTCCTAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (28 bp):
CTCCCACATACATGCATAGCTCGTGAAA
Found at i:4899657 original size:23 final size:23
Alignment explanation
Indices: 4899631--4899674 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
4899621 CCTAAGTCGC
*
4899631 CCTGAGTGCATGGCGACCTACGG
1 CCTGAGTGCATGACGACCTACGG
4899654 CCTGAGTGCATGACGACCTAC
1 CCTGAGTGCATGACGACCTAC
4899675 ACAATCCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.18
Consensus pattern (23 bp):
CCTGAGTGCATGACGACCTACGG
Found at i:4903412 original size:45 final size:45
Alignment explanation
Indices: 4903356--4903548 Score: 278
Period size: 45 Copynumber: 4.3 Consensus size: 45
4903346 ATTATTCATT
4903356 ATTTCCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATAC
1 ATTT-CATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATAC
* * * *
4903402 ATTTCTTTTATGGCATTCTTTCGTGCCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATAC
* **
4903447 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACAGTTATGT
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATAC
* * * *
4903492 ATTTCATTTATGACATTCTTTCATGCATTTAATGCACTGTTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATAC
4903537 ATTTCATTTATG
1 ATTTCATTTATG
4903549 TAATAAAAAC
Statistics
Matches: 132, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 128 0.97
46 4 0.03
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.46
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATAC
Found at i:4910238 original size:45 final size:45
Alignment explanation
Indices: 4910176--4910458 Score: 413
Period size: 45 Copynumber: 6.3 Consensus size: 45
4910166 ATTATTCATT
* * *
4910176 ATTTCCATGTATGACATCATTTCATGCCTTTAATGCATCGTTATGC
1 ATTT-CATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGC
* * *
4910222 ATTTCGTTTATAACATCCTTTCATGCCTTTAATGCACCGTTATAC
1 ATTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGC
* * * *
4910267 ATTTCATTTATGGCATCCTTTTATGCCTTTAATGCACCATTATAC
1 ATTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGC
* *
4910312 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
1 ATTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGC
* *
4910357 ATTTCATTTATGACATCTTTTCGTGCCTTTAATGCACCGTTATGC
1 ATTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGC
* *
4910402 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCATCGTTATGC
1 ATTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGC
4910447 ATTTCATTTATG
1 ATTTCATTTATG
4910459 TAATAAAAAC
Statistics
Matches: 216, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
45 212 0.98
46 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (45 bp):
ATTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGC
Found at i:4919687 original size:44 final size:44
Alignment explanation
Indices: 4919628--4919717 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
4919618 TTTGATATCT
*
4919628 TTCCTTTTAACTCTTCTTTTAAATGAAGTTGCAATCCAACAAAG
1 TTCCTTCTAACTCTTCTTTTAAATGAAGTTGCAATCCAACAAAG
* *
4919672 TTCCTTCTAATTCTTCTTTTAAATGAAGTTGTAATCCAACAAAG
1 TTCCTTCTAACTCTTCTTTTAAATGAAGTTGCAATCCAACAAAG
4919716 TT
1 TT
4919718 AAGAACAACT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (44 bp):
TTCCTTCTAACTCTTCTTTTAAATGAAGTTGCAATCCAACAAAG
Found at i:4925933 original size:23 final size:23
Alignment explanation
Indices: 4925792--4925929 Score: 177
Period size: 23 Copynumber: 6.0 Consensus size: 23
4925782 CACCAAAGCT
* * *
4925792 CGTATAATTACACTGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
** *
4925815 CGTAGAATTGCACCGAAGTATCG
1 CGTAGAATTGCACCGAAGTGCCA
* *
4925838 CGTAGAATTGCACCGAAGTGTCG
1 CGTAGAATTGCACCGAAGTGCCA
4925861 CGTAGAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
4925884 CGTAGAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
** *
4925907 TATAGAATTGCACTGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
4925930 TATAAGATGT
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 103 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:4927582 original size:20 final size:20
Alignment explanation
Indices: 4927557--4927612 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
4927547 TTCCTTTAGG
4927557 GGGTATCGATACCCTCCTTA
1 GGGTATCGATACCCTCCTTA
* *
4927577 GGGTATCGGTACCCTCTTTA
1 GGGTATCGATACCCTCCTTA
4927597 GGGTATC-AGTACCCTC
1 GGGTATCGA-TACCCTC
4927613 ATTGTATTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (20 bp):
GGGTATCGATACCCTCCTTA
Found at i:4931505 original size:30 final size:30
Alignment explanation
Indices: 4931469--4931525 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4931459 AACACATAAC
*
4931469 TTTTGAAAATTACAC-TTTTGGTCCCTAAAA
1 TTTTGAAAATTAC-CTTTTTGATCCCTAAAA
4931499 TTTTGAAAATTACCTTTTTGATCCCTA
1 TTTTGAAAATTACCTTTTTGATCCCTA
4931526 CCTTTTCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.44
Consensus pattern (30 bp):
TTTTGAAAATTACCTTTTTGATCCCTAAAA
Found at i:4932431 original size:23 final size:23
Alignment explanation
Indices: 4932400--4932448 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
4932390 ATAATGTAAA
4932400 AAATAATATAGTTTAATTTATAT
1 AAATAATATAGTTTAATTTATAT
*
4932423 AAATTATATAGTTTAATTTATAT
1 AAATAATATAGTTTAATTTATAT
4932446 AAA
1 AAA
4932449 AAAATATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
AAATAATATAGTTTAATTTATAT
Found at i:4932841 original size:31 final size:30
Alignment explanation
Indices: 4932803--4933006 Score: 166
Period size: 31 Copynumber: 6.4 Consensus size: 30
4932793 TAAAATTTGT
*
4932803 AATTAATATTAATATAAAATATAGTCTATAA
1 AATTAATATTAATATAAACTATAGT-TATAA
4932834 AATTAATATTAATATAAACTATATGTTAT-A
1 AATTAATATTAATATAAACTATA-GTTATAA
* *
4932864 AATTATATAGTATAGTTTATAAACTATAGTTAATAT
1 AATTA-ATA-T-TA--ATATAAACTATAGTT-ATAA
4932900 AATTAATATTAATAT-AA-TATAGTTTATAA
1 AATTAATATTAATATAAACTATAG-TTATAA
*
4932929 ACTATATACTATATTAATATAAATTATAGTTA-AGA
1 A--AT-TA--ATATTAATATAAACTATAGTTATA-A
*
4932964 TAATTAACATTAATATAAACTATAGTT-TATA
1 -AATTAATATTAATATAAACTATAGTTATA-A
4932995 AATTATATATTA
1 AATTA-ATATTA
4933007 TAGGTTATAA
Statistics
Matches: 144, Mismatches: 9, Indels: 40
0.75 0.05 0.21
Matches are distributed among these distances:
29 9 0.06
30 15 0.10
31 59 0.41
32 5 0.03
33 6 0.04
34 17 0.12
35 22 0.15
36 11 0.08
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (30 bp):
AATTAATATTAATATAAACTATAGTTATAA
Found at i:4932855 original size:24 final size:25
Alignment explanation
Indices: 4932810--4932856 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
4932800 TGTAATTAAT
**
4932810 ATTAATATAAAATATAGTCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
4932835 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
4932857 TGTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:4932883 original size:14 final size:14
Alignment explanation
Indices: 4932866--4932927 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
4932856 ATGTTATAAA
*
4932866 TTATATAGTATAGT
1 TTATATAATATAGT
4932880 TTATA-AACTATAGT
1 TTATATAA-TATAGT
*
4932894 TAATATAATTAATA-T
1 TTATATAA-T-ATAGT
*
4932909 TAATATAATATAGT
1 TTATATAATATAGT
4932923 TTATA
1 TTATA
4932928 AACTATATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.10
14 21 0.52
15 12 0.30
16 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (14 bp):
TTATATAATATAGT
Found at i:4932913 original size:15 final size:15
Alignment explanation
Indices: 4932893--4932981 Score: 56
Period size: 15 Copynumber: 5.6 Consensus size: 15
4932883 TAAACTATAG
4932893 TTAATATAATTAATA
1 TTAATATAATTAATA
*
4932908 TTAATATAATATAGTTTA
1 TTAATATAAT-TA--ATA
* *
4932926 TAAACTATATACT-ATA
1 TTAA-TATA-ATTAATA
4932942 TTAATATAAATT-ATA
1 TTAATAT-AATTAATA
* *
4932957 GTTAAGATAATTAACA
1 -TTAATATAATTAATA
4932973 TTAATATAA
1 TTAATATAA
4932982 ACTATAGTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 16
0.70 0.11 0.20
Matches are distributed among these distances:
15 30 0.53
16 16 0.28
18 5 0.09
19 5 0.09
20 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:4932941 original size:21 final size:21
Alignment explanation
Indices: 4932846--4933029 Score: 85
Period size: 21 Copynumber: 8.5 Consensus size: 21
4932836 TTAATATTAA
*
4932846 TATAAACTATA-TGTTATAAAT
1 TATATACTATAGT-TTATAAAT
* *
4932867 TATATAGTATAGTTTATAAAC
1 TATATACTATAGTTTATAAAT
* * *
4932888 TATAGTTAATATA-ATTA-ATAT
1 TATA--TACTATAGTTTATAAAT
* *
4932909 TAATATAATATAGTTTATAAAC
1 T-ATATACTATAGTTTATAAAT
4932931 TATATACTATA-TTAATATAAAT
1 TATATACTATAGTT--TATAAAT
* *
4932953 TATAGT--TA-AGATAATTAACAT
1 TATA-TACTATAGTTTA-TAA-AT
4932974 TAATATAAACTATAGTTTATAAAT
1 T-ATAT--ACTATAGTTTATAAAT
* * *
4932998 TATATATTATAGGTTATAAAG
1 TATATACTATAGTTTATAAAT
*
4933019 TATAAACTATA
1 TATATACTATA
4933030 TAGTACACTA
Statistics
Matches: 124, Mismatches: 21, Indels: 36
0.69 0.12 0.20
Matches are distributed among these distances:
19 1 0.01
20 13 0.10
21 64 0.52
22 23 0.19
23 11 0.09
24 3 0.02
25 5 0.04
26 4 0.03
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (21 bp):
TATATACTATAGTTTATAAAT
Found at i:4933031 original size:131 final size:131
Alignment explanation
Indices: 4932808--4933065 Score: 321
Period size: 131 Copynumber: 2.0 Consensus size: 131
4932798 TTTGTAATTA
*
4932808 ATATTAATATAAAATATAGTCTATAAAATTAATATTAATATAAACTATATGTTATAAATTATATA
1 ATATTAATATAAAATATAGTCTATAAAATTAACATTAATATAAACTATATGTTATAAATTATATA
* ** * * *
4932873 GTATAGTTTATAAACTATAGTTAATATAATTAATATTAATAT-AA-TATAGTTTATAAACTATAT
66 GTATAGGTTATAAACTATAACTAATAT-AGT-ACACTAATATAAACTATAGTTTATAAACTATAT
4932936 ACT
129 ACT
*
4932939 ATATTAATATAAATTATAGT-TA-AGATAATTAACATTAATATAAACTATA-GTTTATAAATTAT
1 ATATTAATATAAAATATAGTCTATA-A-AATTAACATTAATATAAACTATATG-TTATAAATTAT
* * *
4933001 ATATTATAGGTTATAAAGTATAAACT-ATATAGTACACTAATATAAACTATTGTTTATAAACTAT
63 ATAGTATAGGTTATAAACTAT-AACTAATATAGTACACTAATATAAACTATAGTTTATAAACTAT
4933065 A
127 A
4933066 GGTTACATAT
Statistics
Matches: 110, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
129 9 0.08
130 8 0.07
131 91 0.83
132 2 0.02
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.41
Consensus pattern (131 bp):
ATATTAATATAAAATATAGTCTATAAAATTAACATTAATATAAACTATATGTTATAAATTATATA
GTATAGGTTATAAACTATAACTAATATAGTACACTAATATAAACTATAGTTTATAAACTATATAC
T
Found at i:4933123 original size:24 final size:21
Alignment explanation
Indices: 4933072--4933139 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 21
4933062 TATAGGTTAC
4933072 ATATATAGTTTATATA-ACAT
1 ATATATAGTTTATATATACAT
*
4933092 ATAAATAGATTGTATATATACAT
1 ATATATAG-TT-TATATATACAT
*
4933115 ATACTATAGGTTATATATACAT
1 ATA-TATAGTTTATATATACAT
4933137 ATA
1 ATA
4933140 GTTTATACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.17
21 2 0.05
22 20 0.49
23 8 0.20
24 4 0.10
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (21 bp):
ATATATAGTTTATATATACAT
Found at i:4933133 original size:39 final size:40
Alignment explanation
Indices: 4933088--4933213 Score: 116
Period size: 39 Copynumber: 3.2 Consensus size: 40
4933078 AGTTTATATA
4933088 ACATATA-AATAGATTGTATATATACATATACTATAGGTT
1 ACATATACAATAGATTGTATATATACATATACTATAGGTT
* * *
4933127 ATATATACATATAG-TT-TATACATACA-AGTACTATAAGTT
1 ACATATACA-ATAGATTGTATATATACATA-TACTATAGGTT
* * ** * *
4933166 ACATATATAGTTTATATGTATATATATATATATTATAGGTT
1 ACATATACAATAGAT-TGTATATATACATATACTATAGGTT
4933207 ACATATA
1 ACATATA
4933214 TTAACTATTG
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
38 2 0.03
39 33 0.49
40 4 0.06
41 28 0.41
42 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (40 bp):
ACATATACAATAGATTGTATATATACATATACTATAGGTT
Found at i:4933145 original size:17 final size:17
Alignment explanation
Indices: 4933113--4933152 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4933103 GTATATATAC
4933113 ATATAC-TATAGGTTAT
1 ATATACATATAGGTTAT
*
4933129 ATATACATATAGTTTAT
1 ATATACATATAGGTTAT
*
4933146 ACATACA
1 ATATACA
4933153 AGTACTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (17 bp):
ATATACATATAGGTTAT
Found at i:4933255 original size:14 final size:14
Alignment explanation
Indices: 4933236--4933283 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
4933226 TATGCATTGT
4933236 GTTTAGGATTTATA
1 GTTTAGGATTTATA
* **
4933250 GTTTAGCATTTAGG
1 GTTTAGGATTTATA
* *
4933264 GTTTAGGGTTTATT
1 GTTTAGGATTTATA
4933278 GTTTAG
1 GTTTAG
4933284 AGTTTAAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.21, C:0.02, G:0.27, T:0.50
Consensus pattern (14 bp):
GTTTAGGATTTATA
Found at i:4933442 original size:20 final size:20
Alignment explanation
Indices: 4933419--4933458 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4933409 ATATAGGCTG
* *
4933419 TATATATAGTTTATATATAC
1 TATACATAGTTTATACATAC
4933439 TATACATAGTTTATACATAC
1 TATACATAGTTTATACATAC
4933459 ATGTACTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
TATACATAGTTTATACATAC
Found at i:4933679 original size:7 final size:7
Alignment explanation
Indices: 4933669--4933704 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
4933659 TTATAAACTA
4933669 TATATTT
1 TATATTT
*
4933676 TATATTA
1 TATATTT
4933683 TATAATTT
1 TAT-ATTT
4933691 TATATTT
1 TATATTT
4933698 TATATTT
1 TATATTT
4933705 AAACTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TATATTT
Found at i:4933692 original size:15 final size:15
Alignment explanation
Indices: 4933667--4933701 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4933657 TTTTATAAAC
4933667 TATAT-ATTTTATAT
1 TATATAATTTTATAT
4933681 TATATAATTTTATAT
1 TATATAATTTTATAT
*
4933696 TTTATA
1 TATATA
4933702 TTTAAACTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATAATTTTATAT
Found at i:4933756 original size:17 final size:17
Alignment explanation
Indices: 4933734--4933773 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
4933724 ATTTATACAT
* *
4933734 ATTATATATAATTTATA
1 ATTATACATAATATATA
4933751 ATTATACATAATATATA
1 ATTATACATAATATATA
*
4933768 AATATA
1 ATTATA
4933774 AGTTGTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTATACATAATATATA
Found at i:4933803 original size:21 final size:21
Alignment explanation
Indices: 4933757--4933830 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
4933747 TATAATTATA
* *
4933757 CATA-ATATATAAATATAAGT
1 CATATATATTTAAATATAACT
**
4933777 TGTATATATTTAAATATAACT
1 CATATATATTTAAATATAACT
*
4933798 CATATATAATTTATATATTAACT
1 CATATAT-ATTTAAATA-TAACT
4933821 -ATATA-ATTTA
1 CATATATATTTA
4933831 TATTAATAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 7 0.16
21 19 0.43
22 13 0.30
23 5 0.11
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (21 bp):
CATATATATTTAAATATAACT
Found at i:4933823 original size:20 final size:20
Alignment explanation
Indices: 4933709--4933958 Score: 95
Period size: 20 Copynumber: 12.3 Consensus size: 20
4933699 ATATTTAAAC
*
4933709 TATATAAACTATATTATTTA
1 TATATAAACTATATAATTTA
* *
4933729 TACATATTA-TATATAATTTA
1 TATATA-AACTATATAATTTA
* *
4933749 TA-ATTATAC-ATA-ATATATA
1 TATA-TAAACTATATA-ATTTA
* ** *
4933768 AATATAAGTTGTATATATTTA
1 TATATAAACTATATA-ATTTA
* *
4933789 AATATAACTCATATATAATTTA
1 TATATAA-AC-TATATAATTTA
*
4933811 TATATTAACTATATAATTTA
1 TATATAAACTATATAATTTA
*
4933831 TATTAATAAACTATATAGTTTA
1 TA-T-ATAAACTATATAATTTA
* * *
4933853 TATATAGTA-TATAACAATATA
1 TATATA-AACTAT-ATAATTTA
* * *
4933874 AATGTAAACTATATAGTTTA
1 TATATAAACTATATAATTTA
*
4933894 TATTAATAAACTATATAGTTTA
1 TA-T-ATAAACTATATAATTTA
** *
4933916 TGCAT-AA-TATAT-ATATA
1 TATATAAACTATATAATTTA
* *
4933933 TATATATA-TATATATATATA
1 TATATAAACTATATA-ATTTA
4933953 TATATA
1 TATATA
4933959 TTATAATTGT
Statistics
Matches: 174, Mismatches: 37, Indels: 38
0.70 0.15 0.15
Matches are distributed among these distances:
17 6 0.03
18 12 0.07
19 15 0.09
20 61 0.35
21 31 0.18
22 44 0.25
23 5 0.03
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (20 bp):
TATATAAACTATATAATTTA
Found at i:4933859 original size:11 final size:11
Alignment explanation
Indices: 4933842--4933959 Score: 63
Period size: 10 Copynumber: 11.3 Consensus size: 11
4933832 ATTAATAAAC
*
4933842 TATATAGTTTA
1 TATATAGTATA
4933853 TATATAGTATA
1 TATATAGTATA
*
4933864 TA-ACA--ATA
1 TATATAGTATA
* *
4933872 TAAAT-GTAAA
1 TATATAGTATA
*
4933882 CTATATAGTTTA
1 -TATATAGTATA
* *
4933894 TAT-TAATAAA
1 TATATAGTATA
*
4933904 CTATATAGTTTA
1 -TATATAGTATA
** *
4933916 TGCATAATATA
1 TATATAGTATA
4933927 TATATA-TATA
1 TATATAGTATA
4933937 TATATA-TATA
1 TATATAGTATA
4933947 TATATA-TATA
1 TATATAGTATA
4933957 TAT
1 TAT
4933960 TATAATTGTT
Statistics
Matches: 81, Mismatches: 19, Indels: 15
0.70 0.17 0.13
Matches are distributed among these distances:
8 5 0.06
9 1 0.01
10 35 0.43
11 33 0.41
12 7 0.09
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (11 bp):
TATATAGTATA
Found at i:4933927 original size:2 final size:2
Alignment explanation
Indices: 4933922--4933963 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
4933912 TTTATGCATA
4933922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4933963 A
1 A
4933964 ATTGTTTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4935334 original size:20 final size:20
Alignment explanation
Indices: 4935250--4935357 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
4935240 GATTCCTGAA
*
4935250 TTCGCAACGCGAA-TTTATTT
1 TTCGCAACACGAATTTTA-TT
*
4935270 TTCGCAACAC-AAGTTTTCTT
1 TTCGCAACACGAA-TTTTATT
* * *
4935290 TTCGCAACAAG-ATTTTCTAA
1 TTCGCAACACGAATTTTAT-T
* *
4935310 ATCGCAACACGAATTTTAAT
1 TTCGCAACACGAATTTTATT
*
4935330 TTCGCAACA-G-CTTTTATT
1 TTCGCAACACGAATTTTATT
4935348 TTCGCAACAC
1 TTCGCAACAC
4935358 AAATGTTTTG
Statistics
Matches: 70, Mismatches: 12, Indels: 13
0.74 0.13 0.14
Matches are distributed among these distances:
18 15 0.21
19 9 0.13
20 38 0.54
21 8 0.11
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (20 bp):
TTCGCAACACGAATTTTATT
Found at i:4936321 original size:24 final size:24
Alignment explanation
Indices: 4936254--4936323 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
4936244 TTGTGAGTGC
* *
4936254 TAGTCAATATTCAAAATTTGATCT
1 TAGTCAATACTCAGAATTTGATCT
* * *
4936278 TAGTCAATACCCGGACTTTGATCT
1 TAGTCAATACTCAGAATTTGATCT
* *
4936302 TGGTCAATACTCAGATTTTGAT
1 TAGTCAATACTCAGAATTTGAT
4936324 GATGTTTCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (24 bp):
TAGTCAATACTCAGAATTTGATCT
Found at i:4938300 original size:21 final size:21
Alignment explanation
Indices: 4938274--4938371 Score: 137
Period size: 21 Copynumber: 4.7 Consensus size: 21
4938264 GTGAATCAGG
*
4938274 CTCTTGAACGGT-AGGAGGGGC
1 CTCTTGAACGATGA-GAGGGGC
*
4938295 CTCTTGAATGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
*
4938316 CTCTTGAACAATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
4938337 CTCTTGAACGAT-AGGAGGGGC
1 CTCTTGAACGATGA-GAGGGGC
4938358 CTCTTGAACGATGA
1 CTCTTGAACGATGA
4938372 CAAGTGAATC
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
20 1 0.01
21 66 0.96
22 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:4938680 original size:21 final size:21
Alignment explanation
Indices: 4938668--4938707 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4938658 GTAGAGCGGC
*
4938668 TACCTCACCACGTAAAGTAGA
1 TACCTCACCACGTAAAGCAGA
4938689 TACCTCACCACGTAAAGCA
1 TACCTCACCACGTAAAGCA
4938708 CCATTGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (21 bp):
TACCTCACCACGTAAAGCAGA
Found at i:4938813 original size:21 final size:21
Alignment explanation
Indices: 4938789--4938828 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4938779 ATTGTCATGT
*
4938789 AAAGTACTGACCTCATCACAC
1 AAAGCACTGACCTCATCACAC
4938810 AAAGCACTGACCTCATCAC
1 AAAGCACTGACCTCATCAC
4938829 GTAACTCCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (21 bp):
AAAGCACTGACCTCATCACAC
Found at i:4939006 original size:42 final size:42
Alignment explanation
Indices: 4938947--4939045 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 42
4938937 GTGATGGAAT
* * *
4938947 AGGTGATGGCTCTCGGTGTAGAGGTGTATAATTGGCTCGATC
1 AGGTGATGGCTCTCGGTGTAGAGCTGTAGAATCGGCTCGATC
* *
4938989 AGGTGATGGTTCTCGGTGTCGAGCTGTAGAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTAGAGCTGTAGAATCGGCTCGATC
*
4939031 AGGTGATGACTCTCG
1 AGGTGATGGCTCTCG
4939046 AAGTGGGGGG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.29
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTAGAGCTGTAGAATCGGCTCGATC
Found at i:4940565 original size:20 final size:20
Alignment explanation
Indices: 4940546--4940611 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
4940536 AAACTTAAAT
*
4940546 TCGCAACACGAAAATGAAAT
1 TCGCAACACGAAAATGAAAA
* **
4940566 TCTCAATGCGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
*
4940586 TCGCAACACAAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
4940606 TCGCAA
1 TCGCAA
4940612 TGCGAAACTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.52, C:0.20, G:0.14, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGAAAA
Found at i:4940601 original size:40 final size:39
Alignment explanation
Indices: 4940541--4940626 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
4940531 TTTTGAAACT
* * * *
4940541 TAAATTCGCAACACGAAAATGAAATTCTCAATGCGAAAA
1 TAAAATCGCAACACAAAAATGAAAATCGCAATGCGAAAA
*
4940580 TGAAAATCGCAACACAAAAATGAAAATCGCAATGCGAAAC
1 T-AAAATCGCAACACAAAAATGAAAATCGCAATGCGAAAA
4940620 TAAAATC
1 TAAAATC
4940627 TCGTTGCGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
39 7 0.17
40 34 0.83
ACGTcount: A:0.51, C:0.19, G:0.13, T:0.17
Consensus pattern (39 bp):
TAAAATCGCAACACAAAAATGAAAATCGCAATGCGAAAA
Found at i:4940686 original size:20 final size:20
Alignment explanation
Indices: 4940628--4940679 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
4940618 ACTAAAATCT
*
4940628 CGTTGCGATTTTCATTTTCG
1 CGTTGCGAATTTCATTTTCG
*
4940648 CGTTGTGAATTTCATTTTCG
1 CGTTGCGAATTTCATTTTCG
*
4940668 TGTTGCGAATTT
1 CGTTGCGAATTT
4940680 AAGTTTCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.50
Consensus pattern (20 bp):
CGTTGCGAATTTCATTTTCG
Found at i:4941074 original size:22 final size:22
Alignment explanation
Indices: 4941013--4941085 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
4941003 TAGGGGGTCA
* *
4941013 CCGAATATGGGGACGGATATCG
1 CCGAAGATGGGGACGGATGTCG
* *
4941035 CCAAATATGGGGACGGATGTCG
1 CCGAAGATGGGGACGGATGTCG
* *
4941057 CCGAAGATGAGGATGGATGTCG
1 CCGAAGATGGGGACGGATGTCG
4941079 CCGAAGA
1 CCGAAGA
4941086 GAGTGAGAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.37, T:0.16
Consensus pattern (22 bp):
CCGAAGATGGGGACGGATGTCG
Found at i:4941597 original size:22 final size:23
Alignment explanation
Indices: 4941572--4941619 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
4941562 TTTATACTCT
* *
4941572 ATATTTGTAA-AATTTATATTTA
1 ATATTAGTAATAATGTATATTTA
*
4941594 ATA-TAGTAATAATGTATATTTT
1 ATATTAGTAATAATGTATATTTA
4941616 ATAT
1 ATAT
4941620 ACATGATAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (23 bp):
ATATTAGTAATAATGTATATTTA
Found at i:4941620 original size:22 final size:21
Alignment explanation
Indices: 4941578--4941620 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
4941568 CTCTATATTT
*
4941578 GTAAAATTTATATTTAATATA
1 GTAAAATGTATATTTAATATA
*
4941599 GTAATAATGTATATTTTATATA
1 GTAA-AATGTATATTTAATATA
4941621 CATGATAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (21 bp):
GTAAAATGTATATTTAATATA
Found at i:4952290 original size:85 final size:85
Alignment explanation
Indices: 4952141--4952725 Score: 710
Period size: 85 Copynumber: 6.9 Consensus size: 85
4952131 TGATGTGTCA
* * * * ** * *
4952141 TTGAGCTGAATAG-AATCGAGCTCGATAGTTTTTTGTTGACAGATAGCTTTTCTCGACTTAAGTT
1 TTGAGCTGAAT-GTAATCGAACTCGA-AGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTT
** *
4952205 ATGCTGTAAATTTGACCTGCCC
64 ATGCTGTAAATTTGATATGCCT
* *
4952227 TTGAGCTGAATG-ACATCGAACTCGAAGGTATTTGTTGACAGATAACCCTTCTCACCTTGAGTTA
1 TTGAGCTGAATGTA-ATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTA
4952291 TGCTGTAAATTTGATATGTCC-
65 TGCTGTAAATTTGATATG-CCT
* *
4952312 TTGAGCTGAATGTAATTGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGTCTTGAGTTAT
1 TTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
* *
4952377 ACTATAAATTTGATATGCCT
66 GCTGTAAATTTGATATGCCT
* * *
4952397 TTGAGCTGAATGTAATCGAACTCGAAGGTATTTGCTGACAGATAACCCTT-TATGCCTTGAGTTA
1 TTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCT-CGCCTTGAGTTA
* *
4952461 TGCTATAAATTCGATATGCCT
65 TGCTGTAAATTTGATATGCCT
* * * * * *
4952482 TTGAGCTGAATGTAATCGAACTCGAAGATCTTGGTTGACAGATAGCCCTTATCGTCTTGAGCTAT
1 TTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
* * *
4952547 GCTGCAAATTCGATACGCCT
66 GCTGTAAATTTGATATGCCT
* *
4952567 TTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGCTAACAGATAACCCTTCTCGCCTTGAGTTAT
1 TTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
*
4952632 GCTGTAAATTTGATATGTCT
66 GCTGTAAATTTGATATGCCT
* * * * * * * *
4952652 TTGAACTGAATATAATCAAACTCAAAGGTCTTGGTTGAAAGATAACCCTTCCCGCCTTGAGCTAT
1 TTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
*
4952717 GCTGCAAAT
66 GCTGTAAAT
4952726 AGTTCCTTTA
Statistics
Matches: 435, Mismatches: 58, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
84 3 0.01
85 407 0.94
86 25 0.06
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (85 bp):
TTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTAT
GCTGTAAATTTGATATGCCT
Found at i:4952924 original size:86 final size:86
Alignment explanation
Indices: 4952786--4953244 Score: 720
Period size: 86 Copynumber: 5.3 Consensus size: 86
4952776 AATTCTTTAA
* * * *
4952786 ATGACTCCCCTTCACGGGAAAGCCATGTGGTATATTCTTTAGGTGGTTCCCCTTCGTGGGTCTGA
1 ATGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTAGCGGGTCTGA
*
4952851 ACCAGGTGAGATGATCTTTGG
66 ACCAGGTGAGGTGATCTTTGG
* * *
4952872 ATGACTCCCCTTCACTGGAAAGTCATGTGGTATATTCCTCAGGTGGTTCCCCTTAGCGGTTCTGA
1 ATGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTAGCGGGTCTGA
**
4952937 AGTAGGTGAGGTGATCTTTGG
66 ACCAGGTGAGGTGATCTTTGG
* * * * *
4952958 ATGAGTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTTCCTTTCGCGAGTCTGA
1 ATGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTAGCGGGTCTGA
*
4953023 ACCAGGTGAGATGATCTTTGG
66 ACCAGGTGAGGTGATCTTTGG
* *
4953044 ATGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGATGGTTCCCCTTAGTGGGTCTGA
1 ATGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTAGCGGGTCTGA
4953109 ACCAGGTGAGGTGATCTTTGG
66 ACCAGGTGAGGTGATCTTTGG
* * * *
4953130 ATGACTCCCATTCACAGGAAAGTCATGTGGTATATTCCTCAGGTGGTTTCCCTTAGCGGGTCTGA
1 ATGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTAGCGGGTCTGA
4953195 ACCAGGTGAGGTGATCTTTGG
66 ACCAGGTGAGGTGATCTTTGG
4953216 ATGACTCCCCTTCACGGGAAAGTCATGTG
1 ATGACTCCCCTTCACGGGAAAGTCATGTG
4953245 AGATGTTCCT
Statistics
Matches: 336, Mismatches: 37, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 336 1.00
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (86 bp):
ATGACTCCCCTTCACGGGAAAGTCATGTGGTATATTCTTCAGGTGGTTCCCCTTAGCGGGTCTGA
ACCAGGTGAGGTGATCTTTGG
Found at i:4954505 original size:84 final size:87
Alignment explanation
Indices: 4954411--4954638 Score: 239
Period size: 95 Copynumber: 2.6 Consensus size: 87
4954401 AGCTAGTTGG
*
4954411 ATCCATAAAGCTGGGGAGTTTAACCAATTGCTCTAGAGGGACAACTCAA-TA-T-TG-TAATCAC
1 ATCCATAAAGC-AGGGAGTTTAACCAATTGCTCTAGAGGGACAACTCAATTATTGTGTTAATCAC
*
4954472 CTTTATCATGCTAGCTGAATCTC
65 CTTTATCAGGCTAGCTGAATCTC
* * **
4954495 ATCCATAAAGCCAGGGCGTTTAACCAATTGCTTTAGAGGGACTTCTCAAGCTTTATTGTGTATTA
1 ATCCATAAAG-CAGGGAGTTTAACCAATTGCTCTAGAGGGACAACTCAA---TTATTGTG---T-
*
4954560 TAATCACCTTTATCAGGCTAGCTGAATCTT
58 TAATCACCTTTATCAGGCTAGCTGAATCTC
* * * *
4954590 ATCCATAAAGCCGGGACATTTAACCAATTGCTCTAGAGGTATAACTCAA
1 ATCCATAAAGCAGGGA-GTTTAACCAATTGCTCTAGAGGGACAACTCAA
4954639 GCTTTATTGT
Statistics
Matches: 116, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
84 42 0.36
85 1 0.01
88 2 0.02
89 1 0.01
90 2 0.02
94 4 0.03
95 64 0.55
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (87 bp):
ATCCATAAAGCAGGGAGTTTAACCAATTGCTCTAGAGGGACAACTCAATTATTGTGTTAATCACC
TTTATCAGGCTAGCTGAATCTC
Found at i:4954628 original size:95 final size:95
Alignment explanation
Indices: 4954460--4954648 Score: 283
Period size: 95 Copynumber: 2.0 Consensus size: 95
4954450 GACAACTCAA
* * *
4954460 TATTGTAATCACCTTTATCATGCTAGCTGAATCTCATCCATAAAGCCAGGGCGTTTAACCAATTG
1 TATTATAATCACCTTTATCAGGCTAGCTGAATCTCATCCATAAAGCCAGGGCATTTAACCAATTG
* *
4954525 CTTTAGAGGGACT-TCTCAAGCTTTATTGTG
66 CTCTAGAGGGA-TAACTCAAGCTTTATTGTG
*
4954555 TATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCC-GGGACATTTAACCAATT
1 TATTATAATCACCTTTATCAGGCTAGCTGAATCTCATCCATAAAGCCAGGG-CATTTAACCAATT
*
4954619 GCTCTAGAGGTATAACTCAAGCTTTATTGT
65 GCTCTAGAGGGATAACTCAAGCTTTATTGT
4954649 ATACATATAA
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
94 4 0.05
95 81 0.95
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (95 bp):
TATTATAATCACCTTTATCAGGCTAGCTGAATCTCATCCATAAAGCCAGGGCATTTAACCAATTG
CTCTAGAGGGATAACTCAAGCTTTATTGTG
Found at i:4958632 original size:18 final size:19
Alignment explanation
Indices: 4958605--4958648 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
4958595 GTTAGATCGC
4958605 AAAA-AAATAT-AAATAAA
1 AAAATAAATATGAAATAAA
4958622 AAAATAAATATGAAATAAA
1 AAAATAAATATGAAATAAA
4958641 AAAATAAA
1 AAAATAAA
4958649 ACAAAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 15 0.60
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAATAAATATGAAATAAA
Found at i:4959662 original size:14 final size:14
Alignment explanation
Indices: 4959639--4959684 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
4959629 TGTTCGTGAA
4959639 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
*
4959653 CGTTCTGTTATGTT
1 CGTTCGGTTATGTT
4959667 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
4959681 CGTT
1 CGTT
4959685 TATTTCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.07, C:0.15, G:0.26, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:4960507 original size:11 final size:11
Alignment explanation
Indices: 4960491--4960553 Score: 99
Period size: 11 Copynumber: 5.6 Consensus size: 11
4960481 TGGGGCAATG
4960491 TTGAGCTTGAA
1 TTGAGCTTGAA
4960502 TTGAGCTTGAA
1 TTGAGCTTGAA
4960513 TTGAGCTTAGAA
1 TTGAGCTT-GAA
4960525 TTGAGCTTGAA
1 TTGAGCTTGAA
*
4960536 TCGAGCTTGAA
1 TTGAGCTTGAA
*
4960547 TCGAGCT
1 TTGAGCT
4960554 CAAGTCTCGA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
11 39 0.78
12 11 0.22
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (11 bp):
TTGAGCTTGAA
Found at i:4960529 original size:23 final size:22
Alignment explanation
Indices: 4960491--4960553 Score: 99
Period size: 23 Copynumber: 2.8 Consensus size: 22
4960481 TGGGGCAATG
4960491 TTGAGCTTGAATTGAGCTTGAA
1 TTGAGCTTGAATTGAGCTTGAA
4960513 TTGAGCTTAGAATTGAGCTTGAA
1 TTGAGCTT-GAATTGAGCTTGAA
* *
4960536 TCGAGCTTGAATCGAGCT
1 TTGAGCTTGAATTGAGCT
4960554 CAAGTCTCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 17 0.45
23 21 0.55
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (22 bp):
TTGAGCTTGAATTGAGCTTGAA
Found at i:4960809 original size:16 final size:16
Alignment explanation
Indices: 4960788--4960837 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
4960778 CCAACGTTTA
4960788 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
4960804 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
* *
4960820 TGTTCGTTTATGTACG
1 TGTTCATTTATGTTCG
4960836 TG
1 TG
4960838 CGCGTTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.12, C:0.12, G:0.22, T:0.54
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:4962036 original size:60 final size:60
Alignment explanation
Indices: 4961968--4962087 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
4961958 AAACTCTGTT
4961968 CCCATGGAGTATGAAGAAAACCAACCAAAAGAGGCGCTTCCGCATTGTTTCTCAGCTAAA
1 CCCATGGAGTATGAAGAAAACCAACCAAAAGAGGCGCTTCCGCATTGTTTCTCAGCTAAA
4962028 CCCATGGAGTATGAAGAAAACCAACCAAAAGAGGCGCTTCCGCATTGTTTCTCAGCTAAA
1 CCCATGGAGTATGAAGAAAACCAACCAAAAGAGGCGCTTCCGCATTGTTTCTCAGCTAAA
4962088 ATTTAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
CCCATGGAGTATGAAGAAAACCAACCAAAAGAGGCGCTTCCGCATTGTTTCTCAGCTAAA
Found at i:4968374 original size:183 final size:180
Alignment explanation
Indices: 4968026--4968394 Score: 686
Period size: 183 Copynumber: 2.0 Consensus size: 180
4968016 CATTCGCTTT
4968026 GATTATATAAGGAAAAACACGCAAGTAAAGGAATCGTTTTTCATGTAATGGCAACAGCTGCAACC
1 GATTATATAAGGAAAAACACGCAAGTAAAGGAATCGTTTTTCATGTAATGGCAACAGCTGCAACC
4968091 AGAAACATTGGCGTATGTCTCACTTTTTTTCTTCCCCTCCAGTAAATATACTAATATTAATCATT
66 AGAAACATTGGCGTATGTCTCACTTTTTTTCTTCCCCTCCAGTAAATATACTAATATTAATCATT
4968156 AATCTTTAATCGCCCAAAATAATTATGGGTAAATACACAATTAGTTACTA
131 AATCTTTAATCGCCCAAAATAATTATGGGTAAATACACAATTAGTTACTA
4968206 GATTATATAAGGAAAAACACGCAAGTAAAGGAATCGTTTTTCATGTAATGGCAACAGCTGCAACC
1 GATTATATAAGGAAAAACACGCAAGTAAAGGAATCGTTTTTCATGTAATGGCAACAGCTGCAACC
4968271 AGAAACATTGGTGGCGTATGTCTCAC-TTTTTTCTTCCCCTCCAGTAAATTATACTAATATTAAT
66 AGAAACA-T--TGGCGTATGTCTCACTTTTTTTCTTCCCCTCCAGTAAA-TATACTAATATTAAT
4968335 CATTAATCTTTAATCGCCCAAAATAATTATGGGTAAATACACAATTAGTTACTA
127 CATTAATCTTTAATCGCCCAAAATAATTATGGGTAAATACACAATTAGTTACTA
*
4968389 AATTAT
1 GATTAT
4968395 CAGTTTTAGT
Statistics
Matches: 184, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
180 72 0.39
181 1 0.01
182 22 0.12
183 89 0.48
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (180 bp):
GATTATATAAGGAAAAACACGCAAGTAAAGGAATCGTTTTTCATGTAATGGCAACAGCTGCAACC
AGAAACATTGGCGTATGTCTCACTTTTTTTCTTCCCCTCCAGTAAATATACTAATATTAATCATT
AATCTTTAATCGCCCAAAATAATTATGGGTAAATACACAATTAGTTACTA
Found at i:4973056 original size:54 final size:53
Alignment explanation
Indices: 4972998--4973129 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 53
4972988 GATTTTGATA
* * *
4972998 TAGAAATTCGATTTCCATTAATGGCGCCACTAGATGCCAAATTTGATTCCCTTC
1 TAGAAATT-GATTTCCAATAATGACGACACTAGATGCCAAATTTGATTCCCTTC
* * * ** *
4973052 TAGAAAATTGATTTCCAGTATTGATGACACTAGATTTCAAATTTGGTTCCCTTC
1 TAG-AAATTGATTTCCAATAATGACGACACTAGATGCCAAATTTGATTCCCTTC
4973106 TAGAAATTTGATTTCCAATAATGA
1 TAGAAA-TTGATTTCCAATAATGA
4973130 TCCTCTCAGG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
53 3 0.05
54 58 0.88
55 5 0.08
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (53 bp):
TAGAAATTGATTTCCAATAATGACGACACTAGATGCCAAATTTGATTCCCTTC
Found at i:4973162 original size:54 final size:54
Alignment explanation
Indices: 4973098--4973225 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
4973088 TCAAATTTGG
** *
4973098 TTCCCTTCTAGAAATTTGATTTCCAATAATGATCCTCTCAGGGGT-AATGGTTGA
1 TTCCCTTCTAGAAATTTGATTTCCAATAATGATCCTAGCAGGGGTGAA-GGTTAA
* * **
4973152 -TCCCTGTCTAGAAGTTTGGTTTCCGGTAATGATCCTAGCAGGGGTGAAGGTTAA
1 TTCCCT-TCTAGAAATTTGATTTCCAATAATGATCCTAGCAGGGGTGAAGGTTAA
4973206 TTCTCC-TCTAGAAATTTGAT
1 TTC-CCTTCTAGAAATTTGAT
4973226 CTACGGTAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
53 5 0.08
54 50 0.82
55 4 0.07
56 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (54 bp):
TTCCCTTCTAGAAATTTGATTTCCAATAATGATCCTAGCAGGGGTGAAGGTTAA
Found at i:4974881 original size:30 final size:30
Alignment explanation
Indices: 4974840--4974900 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
4974830 TATTAACTTT
*
4974840 AGATTATAGAACAAAATGTACAAACTATTA
1 AGATAATAGAACAAAATGTACAAACTATTA
*
4974870 AGATAATAGAACATAATGTACAAACTATTA
1 AGATAATAGAACAAAATGTACAAACTATTA
4974900 A
1 A
4974901 ACAATGACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (30 bp):
AGATAATAGAACAAAATGTACAAACTATTA
Found at i:4975990 original size:13 final size:13
Alignment explanation
Indices: 4975972--4976002 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
4975962 TCTTAAAGCT
4975972 GTGAATTGTTTTG
1 GTGAATTGTTTTG
4975985 GTGAATTGTTTTG
1 GTGAATTGTTTTG
4975998 GTGAA
1 GTGAA
4976003 GTCAAAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.48
Consensus pattern (13 bp):
GTGAATTGTTTTG
Found at i:4978879 original size:29 final size:29
Alignment explanation
Indices: 4978807--4978901 Score: 156
Period size: 29 Copynumber: 3.3 Consensus size: 29
4978797 TGTCATTGTT
*
4978807 TAATAGTTTGTACATTATGTTCTATTATC
1 TAATAGTTTGTACATTCTGTTCTATTATC
*
4978836 TTAATAGTTTGTACATTCTGTTATATTATC
1 -TAATAGTTTGTACATTCTGTTCTATTATC
4978866 TAATAGTTTGTACATTCTGTTCTATTATC
1 TAATAGTTTGTACATTCTGTTCTATTATC
4978895 TAA-AGTT
1 TAATAGTT
4978902 ACTACAAGTT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 4 0.06
29 31 0.50
30 27 0.44
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.52
Consensus pattern (29 bp):
TAATAGTTTGTACATTCTGTTCTATTATC
Found at i:4980193 original size:14 final size:15
Alignment explanation
Indices: 4980164--4980194 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4980154 GGCAACCAAC
*
4980164 TTTGGAAAATGTTTT
1 TTTGAAAAATGTTTT
4980179 TTTGAAAAATGTTTT
1 TTTGAAAAATGTTTT
4980194 T
1 T
4980195 CAAAGTTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (15 bp):
TTTGAAAAATGTTTT
Found at i:4980665 original size:16 final size:16
Alignment explanation
Indices: 4980644--4980675 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4980634 ACTATTCACA
*
4980644 TGAATAGTGAATTTCG
1 TGAATAGTGAAATTCG
4980660 TGAATAGTGAAATTCG
1 TGAATAGTGAAATTCG
4980676 GTCGGCGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (16 bp):
TGAATAGTGAAATTCG
Found at i:4983971 original size:15 final size:15
Alignment explanation
Indices: 4983947--4983976 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4983937 TGGCAACCAA
*
4983947 CTTTGGAAAATGTTT
1 CTTTGAAAAATGTTT
4983962 CTTTGAAAAATGTTT
1 CTTTGAAAAATGTTT
4983977 TTCAAAGTTT
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:0.30, C:0.07, G:0.17, T:0.47
Consensus pattern (15 bp):
CTTTGAAAAATGTTT
Found at i:4991376 original size:2 final size:2
Alignment explanation
Indices: 4991369--4991394 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4991359 AACCTTAATC
4991369 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4991395 GACTTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4991586 original size:14 final size:14
Alignment explanation
Indices: 4991551--4991589 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
4991541 CATCCAAATC
*
4991551 TTAATATTATCTAA
1 TTAATATTATTTAA
*
4991565 TT-ATATTATTTAT
1 TTAATATTATTTAA
4991578 TTAATATTATTT
1 TTAATATTATTT
4991590 TTAAATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAATATTATTTAA
Found at i:5001332 original size:12 final size:12
Alignment explanation
Indices: 5001315--5001341 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5001305 GTCAAAGGAA
5001315 GTCAACGGTCGG
1 GTCAACGGTCGG
5001327 GTCAACGGTCGG
1 GTCAACGGTCGG
5001339 GTC
1 GTC
5001342 GGGTCAATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.26, G:0.41, T:0.19
Consensus pattern (12 bp):
GTCAACGGTCGG
Found at i:5001354 original size:9 final size:9
Alignment explanation
Indices: 5001339--5001376 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
5001329 CAACGGTCGG
5001339 GTCGGGTCA
1 GTCGGGTCA
*
5001348 ATCGGGTCGA
1 GTCGGGTC-A
5001358 GTCGGGTCA
1 GTCGGGTCA
5001367 GTCGGGTCA
1 GTCGGGTCA
5001376 G
1 G
5001377 GTCAGACCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.13, C:0.21, G:0.45, T:0.21
Consensus pattern (9 bp):
GTCGGGTCA
Found at i:5001361 original size:19 final size:19
Alignment explanation
Indices: 5001322--5001374 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
5001312 GAAGTCAACG
*
5001322 GTCGGGTCAA-C-GGTCGG
1 GTCGGGTCAATCGGGTCGA
5001339 GTCGGGTCAATCGGGTCGA
1 GTCGGGTCAATCGGGTCGA
*
5001358 GTCGGGTCAGTCGGGTC
1 GTCGGGTCAATCGGGTC
5001375 AGGTCAGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.31
18 1 0.03
19 21 0.66
ACGTcount: A:0.11, C:0.23, G:0.45, T:0.21
Consensus pattern (19 bp):
GTCGGGTCAATCGGGTCGA
Found at i:5001416 original size:10 final size:9
Alignment explanation
Indices: 5001376--5001444 Score: 57
Period size: 10 Copynumber: 7.1 Consensus size: 9
5001366 AGTCGGGTCA
*
5001376 GGTCAGACC
1 GGTCAAACC
5001385 GGTCAAACC
1 GGTCAAACC
* *
5001394 GGTTCGAATC
1 GG-TCAAACC
5001404 GGTCGAAACC
1 GGTC-AAACC
5001414 GGTCAGAACC
1 GGTCA-AACC
*
5001424 GGTTGAAAACC
1 GG-T-CAAACC
5001435 GGTCAAACC
1 GGTCAAACC
5001444 G
1 G
5001445 ATTTCCAGCC
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
9 19 0.40
10 21 0.44
11 7 0.15
12 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.29, T:0.14
Consensus pattern (9 bp):
GGTCAAACC
Found at i:5001426 original size:20 final size:20
Alignment explanation
Indices: 5001376--5001444 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
5001366 AGTCGGGTCA
5001376 GGTCAG-ACCGGTC-AAACC
1 GGTCAGAACCGGTCGAAACC
*
5001394 GGTTC-GAATCGGTCGAAACC
1 GG-TCAGAACCGGTCGAAACC
*
5001414 GGTCAGAACCGGTTGAAAACC
1 GGTCAGAACCGGTCG-AAACC
5001435 GGTCA-AACCG
1 GGTCAGAACCG
5001445 ATTTCCAGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
18 3 0.07
19 10 0.23
20 20 0.47
21 10 0.23
ACGTcount: A:0.29, C:0.28, G:0.29, T:0.14
Consensus pattern (20 bp):
GGTCAGAACCGGTCGAAACC
Found at i:5007934 original size:20 final size:19
Alignment explanation
Indices: 5007887--5007939 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
5007877 AGTCGGGCCG
**
5007887 GGTCAAACCGGTTCGAACC
1 GGTCAAACCGGTTAAAACC
5007906 GGTCGAAACCGGTTAAAAACC
1 GGTC-AAACCGGTT-AAAACC
*
5007927 GGTCAAACTGGTT
1 GGTCAAACCGGTT
5007940 TCCAGGCCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 17 0.59
21 8 0.28
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (19 bp):
GGTCAAACCGGTTAAAACC
Found at i:5012198 original size:2 final size:2
Alignment explanation
Indices: 5012191--5012244 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
5012181 CTTTTAATTG
5012191 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5012233 AT AT AT AT AT AT
1 AT AT AT AT AT AT
5012245 TTCGGAATAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5013041 original size:6 final size:6
Alignment explanation
Indices: 5013030--5013063 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
5013020 CAGACTGATT
*
5013030 TCTTCC TCTTCC TCTTCC TCTTCC CCTTCC TCTT
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTT
5013064 TAAGATGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTTCC
Found at i:5018765 original size:39 final size:39
Alignment explanation
Indices: 5018718--5018800 Score: 166
Period size: 39 Copynumber: 2.1 Consensus size: 39
5018708 ATTATATTTA
5018718 ATTTAAAACTCTTTTAAATTAAATGATAACATAATTATT
1 ATTTAAAACTCTTTTAAATTAAATGATAACATAATTATT
5018757 ATTTAAAACTCTTTTAAATTAAATGATAACATAATTATT
1 ATTTAAAACTCTTTTAAATTAAATGATAACATAATTATT
5018796 ATTTA
1 ATTTA
5018801 TCTAAAACAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (39 bp):
ATTTAAAACTCTTTTAAATTAAATGATAACATAATTATT
Found at i:5021319 original size:25 final size:25
Alignment explanation
Indices: 5021290--5021347 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
5021280 CTTTCATTTT
5021290 CTCTTTCTTTCTTCTTTCTCCAATC
1 CTCTTTCTTTCTTCTTTCTCCAATC
*
5021315 CTCTTTCTTTCTTCTTTCTCCCATC
1 CTCTTTCTTTCTTCTTTCTCCAATC
5021340 CTCTTTCT
1 CTCTTTCT
5021348 ATCTCTCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.57
Consensus pattern (25 bp):
CTCTTTCTTTCTTCTTTCTCCAATC
Found at i:5022020 original size:30 final size:31
Alignment explanation
Indices: 5021979--5022042 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
5021969 AATTAACGAT
*
5021979 TGACAAAAAAAATTCAATGAT-TAAAGTTTAG
1 TGACAAAAAAAATTCAATG-TCTAAAGTTCAG
*
5022010 TGAC-AAAAAAATTTAATGTCTAAAGTTCAG
1 TGACAAAAAAAATTCAATGTCTAAAGTTCAG
5022040 TGA
1 TGA
5022043 GCCAATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 1 0.03
30 25 0.83
31 4 0.13
ACGTcount: A:0.48, C:0.08, G:0.14, T:0.30
Consensus pattern (31 bp):
TGACAAAAAAAATTCAATGTCTAAAGTTCAG
Found at i:5025141 original size:19 final size:19
Alignment explanation
Indices: 5025115--5025174 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
5025105 TTCAACAAGT
5025115 TCTG-ATCGGTTTGACCGG
1 TCTGAATCGGTTTGACCGG
5025133 T-TCGAATCGGTTTGACCGG
1 TCT-GAATCGGTTTGACCGG
* *
5025152 TCTGAACCGGTTTGACCAG
1 TCTGAATCGGTTTGACCGG
5025171 TCTG
1 TCTG
5025175 GCCCGACCCG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
17 1 0.03
18 2 0.05
19 33 0.89
20 1 0.03
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.32
Consensus pattern (19 bp):
TCTGAATCGGTTTGACCGG
Found at i:5025152 original size:9 final size:9
Alignment explanation
Indices: 5025121--5025168 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
5025111 AAGTTCTGAT
5025121 CGGTTTGAC
1 CGGTTTGAC
* *
5025130 CGGTTCGAAT
1 CGGTTTG-AC
5025140 CGGTTTGAC
1 CGGTTTGAC
*
5025149 CGGTCTGAAC
1 CGGTTTG-AC
5025159 CGGTTTGAC
1 CGGTTTGAC
5025168 C
1 C
5025169 AGTCTGGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
9 16 0.52
10 15 0.48
ACGTcount: A:0.15, C:0.25, G:0.31, T:0.29
Consensus pattern (9 bp):
CGGTTTGAC
Found at i:5025198 original size:17 final size:17
Alignment explanation
Indices: 5025176--5025211 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
5025166 ACCAGTCTGG
5025176 CCCGACCCGACCGTTGA
1 CCCGACCCGACCGTTGA
5025193 CCCGACCCGACCGTTGA
1 CCCGACCCGACCGTTGA
5025210 CC
1 CC
5025212 GTTGACCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.50, G:0.22, T:0.11
Consensus pattern (17 bp):
CCCGACCCGACCGTTGA
Found at i:5028912 original size:32 final size:30
Alignment explanation
Indices: 5028844--5028933 Score: 126
Period size: 32 Copynumber: 2.9 Consensus size: 30
5028834 TCCCAAAGGA
* *
5028844 TCCATATGTTCCGAAGAACATAGGTAACTG
1 TCCATATGTCCCGAAGGACATAGGTAACTG
*
5028874 TCCATATGTCCCGGAGGACATAGGTAATCCTG
1 TCCATATGTCCCGAAGGACATAGGTAA--CTG
*
5028906 TCCATATGTCCCGAAGGACATATGTAAC
1 TCCATATGTCCCGAAGGACATAGGTAAC
5028934 CCTCGACTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
30 25 0.47
32 28 0.53
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (30 bp):
TCCATATGTCCCGAAGGACATAGGTAACTG
Found at i:5037630 original size:118 final size:118
Alignment explanation
Indices: 5037496--5037826 Score: 554
Period size: 118 Copynumber: 2.8 Consensus size: 118
5037486 CCTGAAAGTA
* * * * *
5037496 CACTAGTATATATATTCTGATGTGATTGTACTTTGTGTGGACATTACGATTCTGATATGATAGCA
1 CACTAGTATATATATTCTGATCTGATTGCACTTTGTGTGCACATTACGATTATGATATGATAACA
5037561 CTGTGTGTGCTTATATGTTCTGATTCTGATATACTGTGGTGTACTAGTGGGTG
66 CTGTGTGTGCTTATATGTTCTGATTCTGATATACTGTGGTGTACTAGTGGGTG
*
5037614 CACTAGTATATATATTCTGATCTGATTGCACTTTGTGTGCACATTAGGATTATGATATGATAACA
1 CACTAGTATATATATTCTGATCTGATTGCACTTTGTGTGCACATTACGATTATGATATGATAACA
*
5037679 CTGTGTGTGCTTATATGTTCTGATTCTGATATACTGTGGTGTACTGGTGGGTG
66 CTGTGTGTGCTTATATGTTCTGATTCTGATATACTGTGGTGTACTAGTGGGTG
* *
5037732 CATTAGTATATATATTCTGATCTGATTGCACTTTGTGTGCACATTACAATTATGATATGATAACA
1 CACTAGTATATATATTCTGATCTGATTGCACTTTGTGTGCACATTACGATTATGATATGATAACA
* * *
5037797 CTGTGTGTACTTATATATTCTGATTATGAT
66 CTGTGTGTGCTTATATGTTCTGATTCTGAT
5037827 GATAGCACTG
Statistics
Matches: 200, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 200 1.00
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.42
Consensus pattern (118 bp):
CACTAGTATATATATTCTGATCTGATTGCACTTTGTGTGCACATTACGATTATGATATGATAACA
CTGTGTGTGCTTATATGTTCTGATTCTGATATACTGTGGTGTACTAGTGGGTG
Found at i:5038591 original size:2 final size:2
Alignment explanation
Indices: 5038584--5038615 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5038574 CACCAAAAAC
5038584 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5038616 CACACACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5049507 original size:22 final size:22
Alignment explanation
Indices: 5049481--5049565 Score: 152
Period size: 22 Copynumber: 3.9 Consensus size: 22
5049471 ATGCACGTTA
**
5049481 GATGAAAGGTTAAATGCCTTTG
1 GATGAAAGACTAAATGCCTTTG
5049503 GATGAAAGACTAAATGCCTTTG
1 GATGAAAGACTAAATGCCTTTG
5049525 GATGAAAGACTAAATGCCTTTG
1 GATGAAAGACTAAATGCCTTTG
5049547 GATGAAAGACTAAATGCCT
1 GATGAAAGACTAAATGCCT
5049566 AATTGTGCTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 61 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (22 bp):
GATGAAAGACTAAATGCCTTTG
Found at i:5049629 original size:81 final size:81
Alignment explanation
Indices: 5049535--5049702 Score: 257
Period size: 81 Copynumber: 2.1 Consensus size: 81
5049525 GATGAAAGAC
* * * *
5049535 TAAATGCCTTTGGATGAAAGACTAAATGCCTAATTGTGCTTTTGGA-AGAAAGGTGCCAATAATG
1 TAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTGCATTT-GACAGAAAGGTGACAATAATA
*
5049599 CAAGTTAGACGAAATGT
65 CAAGTTAGACGAAAGGT
*
5049616 TAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTTCATTTGACAGAAAGGTGACAATAATAC
1 TAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTGCATTTGACAGAAAGGTGACAATAATAC
*
5049681 AAGTTAGATGAAAGGT
66 AAGTTAGACGAAAGGT
5049697 TAAATG
1 TAAATG
5049703 TAAGTTAGAT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 2 0.03
81 77 0.97
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (81 bp):
TAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTGCATTTGACAGAAAGGTGACAATAATAC
AAGTTAGACGAAAGGT
Found at i:5049739 original size:22 final size:23
Alignment explanation
Indices: 5049681--5049725 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
5049671 ACAATAATAC
5049681 AAGTTAGATGAAAGGTTAAATGT
1 AAGTTAGATGAAAGGTTAAATGT
5049704 AAGTTAGATGAAAGGTTAAATG
1 AAGTTAGATGAAAGGTTAAATG
5049726 CCTTTGGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (23 bp):
AAGTTAGATGAAAGGTTAAATGT
Found at i:5049740 original size:104 final size:104
Alignment explanation
Indices: 5049595--5049807 Score: 320
Period size: 104 Copynumber: 2.0 Consensus size: 104
5049585 AGGTGCCAAT
* *
5049595 AATGCAAGTTAGACGAAATGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTTCATTT-
1 AATGCAAGTTAGACGAAAGGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTGCATTTG
*
5049659 GACAGAAAGGTGACAATAATACAAGTTAGATGAAAGGTTA
66 GA-AGAAAGGTGACAATAATACAAGTTAGACGAAAGGTTA
* * * *
5049699 AATGTAAGTTAGATGAAAGGTTAAATGCCTTTGGATGAAAGACTACATGCCTAACTGTGCTTTTG
1 AATGCAAGTTAGACGAAAGGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTGCATTTG
* * *
5049764 GAAGAAAGGTGCCAATAATGCAAGTTAGACGAAATGTTA
66 GAAGAAAGGTGACAATAATACAAGTTAGACGAAAGGTTA
5049803 AATGC
1 AATGC
5049808 CTTTGGATGA
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
104 95 0.98
105 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (104 bp):
AATGCAAGTTAGACGAAAGGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTGCATTTG
GAAGAAAGGTGACAATAATACAAGTTAGACGAAAGGTTA
Found at i:5049743 original size:185 final size:185
Alignment explanation
Indices: 5049525--5050061 Score: 869
Period size: 185 Copynumber: 2.9 Consensus size: 185
5049515 AATGCCTTTG
** *
5049525 GATGAAAGACTAAATGCCTTTGGATGAAAGACTAAATGCCTAATTGTGCTTTTGGAAGAAAGGTG
1 GATGAAAGGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTGCTTTTGGAAGAAAGGTG
5049590 CCAATAATGCAAGTTAGACGAAATGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTTC
66 CCAATAATGCAAGTTAGACGAAATGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTTC
*
5049655 A-TTTGACAGAAAGGTGACAATAATACAAGTTAGATGAAAGGTTAAATGTAAGTTA
131 ATTTTG-CAGAAAGGTGACAATAATACAAGTTAGATGAAAGGTTAAATGCAAGTTA
*
5049710 GATGAAAGGTTAAATGCCTTTGGATGAAAGACTACATGCCTAACTGTGCTTTTGGAAGAAAGGTG
1 GATGAAAGGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTGCTTTTGGAAGAAAGGTG
5049775 CCAATAATGCAAGTTAGACGAAATGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTTC
66 CCAATAATGCAAGTTAGACGAAATGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTTC
5049840 ATTTTGCAGAAAGGTGACAATAATACAAGTTAGATGAAAGGTTAAATGCAAGTTA
131 ATTTTGCAGAAAGGTGACAATAATACAAGTTAGATGAAAGGTTAAATGCAAGTTA
* *
5049895 GATGAAAGGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTGCATTTGGCAGAAAGGTG
1 GATGAAAGGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTGCTTTTGGAAGAAAGGTG
** * * * ** *
5049960 CCAATAATGTGAGTTATATGAAATGTTAAATGCCTTTGGATGAAAGACTAAACGCCTAACCATGC
66 CCAATAATGCAAGTTAGACGAAATGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTTC
* * * * *
5050025 TTTTTGGCATAAAGGTGTCATTAATGCAAGTTAGATG
131 ATTTT-GCAGAAAGGTGACAATAATACAAGTTAGATG
5050062 CCTAACGGTA
Statistics
Matches: 329, Mismatches: 21, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
185 298 0.91
186 31 0.09
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (185 bp):
GATGAAAGGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTGCTTTTGGAAGAAAGGTG
CCAATAATGCAAGTTAGACGAAATGTTAAATGCCTTTGGATGAAAGACTAAATGCCTAACTGTTC
ATTTTGCAGAAAGGTGACAATAATACAAGTTAGATGAAAGGTTAAATGCAAGTTA
Done.