Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 71 of 279
Found at i:23420258 original size:30 final size:30
Alignment explanation
Indices: 23420224--23420285 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
23420214 GTCCTTAACT
23420224 TAAACTTTTGCAAAATTACAATTTTGCCCC
1 TAAACTTTTGCAAAATTACAATTTTGCCCC
* * *
23420254 TAAACTTTTGCATATTTACACTTTTGCCCC
1 TAAACTTTTGCAAAATTACAATTTTGCCCC
23420284 TA
1 TA
23420286 GGCTCGAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.40
Consensus pattern (30 bp):
TAAACTTTTGCAAAATTACAATTTTGCCCC
Found at i:23425084 original size:34 final size:34
Alignment explanation
Indices: 23425041--23425109 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
23425031 CGACCATCAC
*
23425041 CAACAGGCCAATAAACATTATTGAGAACCTCTGG
1 CAACAGGCCAATAAACATTATTAAGAACCTCTGG
23425075 CAACAGGCCAATAAACATTATTAAGAACCTCTGG
1 CAACAGGCCAATAAACATTATTAAGAACCTCTGG
23425109 C
1 C
23425110 CAGACTTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (34 bp):
CAACAGGCCAATAAACATTATTAAGAACCTCTGG
Found at i:23426652 original size:28 final size:28
Alignment explanation
Indices: 23426611--23426666 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
23426601 TTTCAAACTC
23426611 ACATCACTGCTGCTGTCT-GAATCTATTT
1 ACATCACTGCTGCTGT-TAGAATCTATTT
*
23426639 ACATCACTGTTGCTGTTAGAATCTATTT
1 ACATCACTGCTGCTGTTAGAATCTATTT
23426667 TATGGTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.41
Consensus pattern (28 bp):
ACATCACTGCTGCTGTTAGAATCTATTT
Found at i:23430790 original size:34 final size:34
Alignment explanation
Indices: 23430747--23430815 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
23430737 CGACCATCAC
*
23430747 CAACAGGCCAATAAACATTATTGAGAACCTCTGG
1 CAACAGGCCAATAAACATTATTAAGAACCTCTGG
23430781 CAACAGGCCAATAAACATTATTAAGAACCTCTGG
1 CAACAGGCCAATAAACATTATTAAGAACCTCTGG
23430815 C
1 C
23430816 CAGACTTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (34 bp):
CAACAGGCCAATAAACATTATTAAGAACCTCTGG
Found at i:23433053 original size:46 final size:46
Alignment explanation
Indices: 23432986--23433161 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
23432976 ATGTAACCCG
** *
23432986 TCCATAAGCAAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCA
* * *
23433032 TCCATGAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCA
* * * *
23433082 T-C-TTA-TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCA
23433125 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
23433162 ATGCCCAAAC
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCA
Found at i:23433158 original size:93 final size:93
Alignment explanation
Indices: 23432996--23433166 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
23432986 TCCATAAGCA
* * * * *
23432996 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
23433061 GAGTTCGGATGCCTAGTTACATCTTATG
66 GAGTTCGGATGCCTAGTTACATCTTATG
*
23433089 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
23433154 GAGTTCGGATGCC
66 GAGTTCGGATGCC
23433167 CAAACATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTTATG
Found at i:23433181 original size:46 final size:45
Alignment explanation
Indices: 23432996--23433181 Score: 153
Period size: 46 Copynumber: 4.0 Consensus size: 45
23432986 TCCATAAGCA
* * * * * *
23432996 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT-GAGTG
1 AACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCTAGTG
* *
23433042 AACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTTA-TG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-TAGTG
* * * * *
23433089 AACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-AAGTG
1 AACTCGGACTCAACTCAACGAGTTC-G-GATGCCCATACATCTAGTG
*
23433135 AACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCATACAT-CTAGTG
23433181 A
1 A
23433182 CATGTCACTT
Statistics
Matches: 110, Mismatches: 21, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
44 11 0.10
45 4 0.04
46 59 0.54
47 30 0.27
48 2 0.02
49 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCTAGTG
Found at i:23458149 original size:68 final size:69
Alignment explanation
Indices: 23458027--23458163 Score: 258
Period size: 68 Copynumber: 2.0 Consensus size: 69
23458017 CCAAATTTTA
*
23458027 CAGGTCAAGTAACAGACATTTCATAAACGTTTAGTGTTCATATCAGATTTCAATCAAATTTAATA
1 CAGGTCAAGTAACAGACATTTCATAAACATTTAGTGTTCATATCAGATTTCAATCAAATTTAATA
23458092 ATAT
66 ATAT
23458096 CAGGTCAAGTAACAGACATTTCAT-AACATTTAGTGTTCATATCAGATTTCAATCAAATTTAATA
1 CAGGTCAAGTAACAGACATTTCATAAACATTTAGTGTTCATATCAGATTTCAATCAAATTTAATA
23458160 ATAT
66 ATAT
23458164 AGTCCCTTAC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 43 0.64
69 24 0.36
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (69 bp):
CAGGTCAAGTAACAGACATTTCATAAACATTTAGTGTTCATATCAGATTTCAATCAAATTTAATA
ATAT
Found at i:23458766 original size:26 final size:25
Alignment explanation
Indices: 23458737--23458785 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
23458727 GCACTCTCTC
*
23458737 GAGCCATATATCAGGAATGCTTATAT
1 GAGCCATATAACAGGAA-GCTTATAT
*
23458763 GAGCCATGTAACAGGAAGCTTAT
1 GAGCCATATAACAGGAAGCTTAT
23458786 CCGGGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTTATAT
Found at i:23459085 original size:65 final size:65
Alignment explanation
Indices: 23458947--23459088 Score: 153
Period size: 65 Copynumber: 2.2 Consensus size: 65
23458937 GCCATATCAG
* * * * * * * *
23458947 GATGCTCATAAAGAGCTGCGTTTGTGTCCGTAACATATGCAAGATCACAACTGATCGCATACCAA
1 GATGCTCACAAAAAGATGTGTTTATGTCCGCAACATATGCAAGATCACAACTGATCGAATAACAA
*
23459012 GATGCTCACAAAAAGATGTGTTTATGTCCGCAACATATGCAGGATCACAA-TCGATC-AATAAAC
1 GATGCTCACAAAAAGATGTGTTTATGTCCGCAACATATGCAAGATCACAACT-GATCGAAT-AAC
*
23459075 AG
64 AA
*
23459077 GATTCTCACAAA
1 GATGCTCACAAA
23459089 GAGCTGCGGT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
64 3 0.05
65 61 0.95
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (65 bp):
GATGCTCACAAAAAGATGTGTTTATGTCCGCAACATATGCAAGATCACAACTGATCGAATAACAA
Found at i:23459747 original size:21 final size:21
Alignment explanation
Indices: 23459713--23459754 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23459703 AGCCCATATA
*
23459713 TTTCACAAAATTTAGAATTTT
1 TTTCACAAAATTTACAATTTT
* *
23459734 TTTCATAAATTTTACAATTTT
1 TTTCACAAAATTTACAATTTT
23459755 ACAATTTGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTCACAAAATTTACAATTTT
Found at i:23463661 original size:16 final size:16
Alignment explanation
Indices: 23463642--23463673 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23463632 TGTCAACAAG
23463642 TTAAAGCCGAGCATCA
1 TTAAAGCCGAGCATCA
*
23463658 TTAAAGCCTAGCATCA
1 TTAAAGCCGAGCATCA
23463674 GGTACCTTCT
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:0.38, C:0.25, G:0.16, T:0.22
Consensus pattern (16 bp):
TTAAAGCCGAGCATCA
Found at i:23479135 original size:96 final size:96
Alignment explanation
Indices: 23478897--23479297 Score: 675
Period size: 96 Copynumber: 4.2 Consensus size: 96
23478887 CCCTTCGGGA
* * * * *
23478897 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
23478960 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
23478991 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
23479054 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
23479085 CTTATCACATATATATACACTTTCACATTCATCACATTAGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
23479150 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
23479181 CTTATCACATATATATACACTTTCACATTCATTACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
23479246 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
23479277 CTTATCACATATATATACACT
1 CTTATCACATATATATACACT
23479298 CACATCACAA
Statistics
Matches: 287, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
93 1 0.00
94 89 0.31
96 197 0.69
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23479153 original size:143 final size:141
Alignment explanation
Indices: 23478897--23479291 Score: 628
Period size: 143 Copynumber: 2.8 Consensus size: 141
23478887 CCCTTCGGGA
* * * * * *
23478897 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
23478962 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
23479027 GGCTATTAGGC
131 GGCCATTAGGC
* *
23479038 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
** *
23479103 ACTTTCACATTCATCACATTAGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
23479168 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
23479181 CTTATCACATATATATACACTTTCACATTCATTACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
23479246 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
23479292 TACACTCACA
Statistics
Matches: 231, Mismatches: 19, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
141 47 0.20
143 140 0.61
145 44 0.19
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:23479302 original size:47 final size:47
Alignment explanation
Indices: 23478897--23479291 Score: 610
Period size: 47 Copynumber: 8.3 Consensus size: 47
23478887 CCCTTCGGGA
* * * * * *
23478897 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23478944 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23478991 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23479038 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
23479085 CTTATCACATATATATACACTTTCACATTCATCACATTAGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23479134 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23479181 CTTATCACATATATATACACTTTCACATTCATTACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23479230 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23479277 CTTATCACATATATA
1 CTTATCACATATATA
23479292 TACACTCACA
Statistics
Matches: 318, Mismatches: 26, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
47 230 0.72
49 88 0.28
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23492394 original size:18 final size:18
Alignment explanation
Indices: 23492357--23492395 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
23492347 AATACTTAAA
**
23492357 AAAAATACTTTTAACTCT
1 AAAAATACTTTTAAAGCT
*
23492375 AAAAGTACTTTTAAAGCT
1 AAAAATACTTTTAAAGCT
23492393 AAA
1 AAA
23492396 TAAATTGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (18 bp):
AAAAATACTTTTAAAGCT
Found at i:23493506 original size:5 final size:5
Alignment explanation
Indices: 23493496--23493523 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
23493486 AGGTGTGTAT
23493496 GGGTC GGGTC GGGTC GGGTC GGGTC GGG
1 GGGTC GGGTC GGGTC GGGTC GGGTC GGG
23493524 CCCATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.64, T:0.18
Consensus pattern (5 bp):
GGGTC
Found at i:23493732 original size:25 final size:25
Alignment explanation
Indices: 23493679--23493737 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
23493669 CTTTTTTTAT
* * *
23493679 TAAATAAA-AAATTTTAAAATATAA
1 TAAATAAATACATTTAAAAACATAA
23493703 TAAATCAAATACATTTAAAAACATAA
1 TAAAT-AAATACATTTAAAAACATAA
23493729 -AAATAAATA
1 TAAATAAATA
23493738 TTAAAACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 7 0.23
26 13 0.43
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAATACATTTAAAAACATAA
Found at i:23495516 original size:52 final size:52
Alignment explanation
Indices: 23495454--23495555 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
23495444 TACTTGTCCG
* *
23495454 CTTTTTAACAGGTAATTTTGGCAATTCCATAGATATTGTTGAATATCCTTCA
1 CTTTTTAACAGGTAATTTTGGCAATTCCATAGATACTGTTGAATACCCTTCA
* *
23495506 CTTTTTAACAGGTAATTTTGGTAATTCCCTAGATACTGTTGAATACCCTT
1 CTTTTTAACAGGTAATTTTGGCAATTCCATAGATACTGTTGAATACCCTT
23495556 TTGTTCTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (52 bp):
CTTTTTAACAGGTAATTTTGGCAATTCCATAGATACTGTTGAATACCCTTCA
Found at i:23496284 original size:21 final size:20
Alignment explanation
Indices: 23496260--23496298 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23496250 GAAACTGAGT
*
23496260 CATTAGAGTTGAAATTGAAAC
1 CATTAGA-TTGAAAATGAAAC
*
23496281 CATTATATTGAAAATGAA
1 CATTAGATTGAAAATGAA
23496299 TCTACAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (20 bp):
CATTAGATTGAAAATGAAAC
Found at i:23497431 original size:24 final size:23
Alignment explanation
Indices: 23497372--23497420 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
23497362 GTGAAGGGGA
23497372 ATTAAAATAAAAAACTTCAAAAT
1 ATTAAAATAAAAAACTTCAAAAT
23497395 ATTAAAATAAAAAACTTCAAAAT
1 ATTAAAATAAAAAACTTCAAAAT
23497418 ATT
1 ATT
23497421 TCTTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (23 bp):
ATTAAAATAAAAAACTTCAAAAT
Found at i:23500037 original size:22 final size:22
Alignment explanation
Indices: 23500009--23500053 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23499999 GAACTCATAA
23500009 TACGTTTAGAGAATTTTGTGTT
1 TACGTTTAGAGAATTTTGTGTT
* * *
23500031 TACGTTTTGAGGATTTTTTGTT
1 TACGTTTAGAGAATTTTGTGTT
23500053 T
1 T
23500054 TTGGGTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.04, G:0.22, T:0.56
Consensus pattern (22 bp):
TACGTTTAGAGAATTTTGTGTT
Found at i:23502642 original size:16 final size:16
Alignment explanation
Indices: 23502621--23502663 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
23502611 TTGTTGGATT
** *
23502621 TTGAATTTATTATGTC
1 TTGAATTTATTACATA
*
23502637 TTGAATTTGTTACATA
1 TTGAATTTATTACATA
23502653 TTGAATTTATT
1 TTGAATTTATT
23502664 GTGTTTTAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.56
Consensus pattern (16 bp):
TTGAATTTATTACATA
Found at i:23502647 original size:32 final size:32
Alignment explanation
Indices: 23502610--23502689 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
23502600 GAAAATTTAC
*
23502610 TTTGTTGGATTTTGAATTTATTATGTCTTGAA-
1 TTTGTTGGATATTGAATTTATTATGT-TTGAAG
** * *
23502642 TTTGTTACATATTGAATTTATTGTGTTTTAAG
1 TTTGTTGGATATTGAATTTATTATGTTTGAAG
*
23502674 CTTGTTGGATATTGAA
1 TTTGTTGGATATTGAA
23502690 ATGATTGACA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 4 0.10
32 35 0.90
ACGTcount: A:0.24, C:0.04, G:0.19, T:0.54
Consensus pattern (32 bp):
TTTGTTGGATATTGAATTTATTATGTTTGAAG
Found at i:23504037 original size:19 final size:20
Alignment explanation
Indices: 23504013--23504054 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
23504003 CAAACACCAA
23504013 AAAAGTAAATCATTTTC-AG
1 AAAAGTAAATCATTTTCTAG
23504032 AAAAGTAAATCATTTTCTAG
1 AAAAGTAAATCATTTTCTAG
23504052 AAA
1 AAA
23504055 TCATTTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (20 bp):
AAAAGTAAATCATTTTCTAG
Found at i:23504057 original size:14 final size:14
Alignment explanation
Indices: 23504038--23504064 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23504028 TCAGAAAAGT
23504038 AAATCATTTTCTAG
1 AAATCATTTTCTAG
23504052 AAATCATTTTCTA
1 AAATCATTTTCTA
23504065 ATCATTTTCC
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:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (14 bp):
AAATCATTTTCTAG
Found at i:23504084 original size:25 final size:25
Alignment explanation
Indices: 23504039--23504086 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
23504029 CAGAAAAGTA
* *
23504039 AATCATTTTCTAGAAATCATTTTCT
1 AATCATTTTCGAGAAAACATTTTCT
23504064 AATCATTTTCCGA-AAAACATTTT
1 AATCATTTT-CGAGAAAACATTTT
23504087 ACTTGCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (25 bp):
AATCATTTTCGAGAAAACATTTTCT
Found at i:23506595 original size:21 final size:21
Alignment explanation
Indices: 23506561--23506627 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
23506551 AAATGTTGTC
23506561 TTTTTTACTA-TTTCTTGCTA
1 TTTTTTACTATTTTCTTGCTA
* *
23506581 TTTTTTATTATTTTCTTGTTA
1 TTTTTTACTATTTTCTTGCTA
* *
23506602 TTTTTTCACTATTTTGTTACTA
1 TTTTTT-ACTATTTTCTTGCTA
23506624 TTTT
1 TTTT
23506628 ACAATTATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.23
21 15 0.38
22 15 0.38
ACGTcount: A:0.15, C:0.10, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTTTTACTATTTTCTTGCTA
Found at i:23507983 original size:14 final size:11
Alignment explanation
Indices: 23507950--23507975 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23507940 CCGAATTAAC
23507950 TTTTTATATTA
1 TTTTTATATTA
23507961 TTTTTATATTA
1 TTTTTATATTA
23507972 TTTT
1 TTTT
23507976 AAATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:23508143 original size:31 final size:29
Alignment explanation
Indices: 23508098--23508160 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 29
23508088 ACTTAACAAG
23508098 CAAATGCTTCTAAAATAATAATAAAAATTAA
1 CAAATGCTTCTAAAATAAT-A-AAAAATTAA
23508129 CAAATGCCTT-TAAAATAATAAAAAATTAA
1 CAAATG-CTTCTAAAATAATAAAAAATTAA
23508158 CAA
1 CAA
23508161 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 12 0.39
30 1 0.03
31 15 0.48
32 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (29 bp):
CAAATGCTTCTAAAATAATAAAAAATTAA
Found at i:23508678 original size:17 final size:17
Alignment explanation
Indices: 23508656--23508705 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
23508646 TTTTTTAAAT
*
23508656 AATCTTTTTTAACTTTC
1 AATCTTTTTTAAATTTC
*
23508673 AATCTTTCTTTAAATTTT
1 AATCTTT-TTTAAATTTC
23508691 AAT-TTTTTTAAATTT
1 AATCTTTTTTAAATTT
23508706 TTTCCATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 9 0.30
17 10 0.33
18 11 0.37
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (17 bp):
AATCTTTTTTAAATTTC
Found at i:23508783 original size:20 final size:19
Alignment explanation
Indices: 23508767--23508874 Score: 55
Period size: 20 Copynumber: 5.6 Consensus size: 19
23508757 CGTTAAATCT
*
23508767 ATTTATTAATTAATAAATAG
1 ATTTATAAATT-ATAAATAG
23508787 ATTTATAAATTATAAAATTA-
1 ATTTATAAATTAT-AAA-TAG
* * *
23508807 ATTAATAAATATATTCAATAT
1 ATTTATAAAT-TA-TAAATAG
* *
23508828 ATATTA-AAATTTTAAAT-T
1 AT-TTATAAATTATAAATAG
*
23508846 ATTT-TAAATATGTAAATA-
1 ATTTATAAAT-TATAAATAG
23508864 ATTTATAAATT
1 ATTTATAAATT
23508875 TTTTTTTAAC
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
17 6 0.08
18 14 0.20
19 11 0.15
20 25 0.35
21 12 0.17
22 3 0.04
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (19 bp):
ATTTATAAATTATAAATAG
Found at i:23510337 original size:24 final size:23
Alignment explanation
Indices: 23510305--23510358 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
23510295 ATCGAAAAGT
* *
23510305 TCACAAAGAACCATATTAGGAAGC
1 TCACAAAGAACC-TATCAAGAAGC
* *
23510329 TCACGAAGAGCCTATCAAGAAGC
1 TCACAAAGAACCTATCAAGAAGC
23510352 TCACAAA
1 TCACAAA
23510359 AAGCCATGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (23 bp):
TCACAAAGAACCTATCAAGAAGC
Found at i:23512319 original size:50 final size:51
Alignment explanation
Indices: 23512203--23512335 Score: 160
Period size: 50 Copynumber: 2.6 Consensus size: 51
23512193 AACCATCTAT
* * * * * * *
23512203 TACACATGGTGGCCTGCACTTAGTACCACATATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAAGCCATCGGG
* * *
23512254 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CCATCTGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAAGCCATCGGG
*
23512304 TACACGTAGTAGCCTGCACTTAGTACTACACA
1 TACACATAGTAGCCTGCACTTAGTACTACACA
23512336 CGTGGCCTAA
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 36 0.51
51 34 0.49
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (51 bp):
TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCGAAGCCATCGGG
Found at i:23520651 original size:21 final size:21
Alignment explanation
Indices: 23520627--23520668 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23520617 TAATAATAAA
*
23520627 TTTTAATAGATATTTTTAATT
1 TTTTAATAGATAATTTTAATT
**
23520648 TTTTAATTTATAATTTTAATT
1 TTTTAATAGATAATTTTAATT
23520669 GAAAGTAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTAATAGATAATTTTAATT
Found at i:23531736 original size:46 final size:46
Alignment explanation
Indices: 23531686--23531855 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
23531676 TTGAGCATCC
*
23531686 GAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * * *
23531732 GAACTCGTTGAGTTGAGCCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* *
23531779 AAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
**
23531824 CGAGGTCGTTGAGTTGAGTCCGAGTTCACTTA
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
23531856 GGGGCGGGTT
Statistics
Matches: 98, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 52 0.53
47 26 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:23531839 original size:93 final size:93
Alignment explanation
Indices: 23531680--23531850 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
23531670 GGATGGTTGA
* *
23531680 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAGT
23531745 TGAGCCCGAGTTCGTGAGATGTAACTAG
66 TGAGCCCGAGTTCGTGAGATGTAACTAG
* **
23531773 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGGTCGTTGAG
1 GCATCCAAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGTCT-GAACTCGTTGAG
*
23531837 TTGAGTCCGAGTTC
65 TTGAGCCCGAGTTC
23531851 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAGT
TGAGCCCGAGTTCGTGAGATGTAACTAG
Found at i:23548430 original size:56 final size:56
Alignment explanation
Indices: 23548358--23548547 Score: 272
Period size: 56 Copynumber: 3.4 Consensus size: 56
23548348 CGCCAGACAG
* ** *
23548358 GGTCTTACTCGAACACATATATTGGAGTCATTTATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATTGGAGTCAAATATCGATGCCAACATATTAAACGT
* ** *
23548414 GGTCTTACTTGCACACATATATCAGAGTCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATTGGAGTCAAATATCGATGCCAACATATTAAACGT
*
23548470 GGTCTTACTCGCATACATATATTGGAGTCAAATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATTGGAGTCAAATATCGATGCCAACATATTAAACGT
* * *
23548526 GGACTTACTCGTACACTTATAT
1 GGTCTTACTCGCACACATATAT
23548548 CAGTGTCACA
Statistics
Matches: 118, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATTGGAGTCAAATATCGATGCCAACATATTAAACGT
Found at i:23548526 original size:112 final size:112
Alignment explanation
Indices: 23548358--23548560 Score: 316
Period size: 112 Copynumber: 1.8 Consensus size: 112
23548348 CGCCAGACAG
** * *
23548358 GGTCTTACTCGAACACATATATTGGAGTCATTTATCGATGCCAACGTATTAAACGTGGTCTTACT
1 GGTCTTACTCGAACACATATATTGGAGTCAAATATCGATGCCAACATATTAAACGTGGACTTACT
*
23548423 TGCACACATATATCAGAGTCACATATCGATGCCAACATATTAAACGT
66 CGCACACATATATCAGAGTCACATATCGATGCCAACATATTAAACGT
* *
23548470 GGTCTTACTCGCATACATATATTGGAGTCAAATATCGATGCCAACATATTAAACGTGGACTTACT
1 GGTCTTACTCGAACACATATATTGGAGTCAAATATCGATGCCAACATATTAAACGTGGACTTACT
* * *
23548535 CGTACACTTATATCAGTGTCACATAT
66 CGCACACATATATCAGAGTCACATAT
23548561 TGATATATCA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 81 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (112 bp):
GGTCTTACTCGAACACATATATTGGAGTCAAATATCGATGCCAACATATTAAACGTGGACTTACT
CGCACACATATATCAGAGTCACATATCGATGCCAACATATTAAACGT
Found at i:23550177 original size:42 final size:43
Alignment explanation
Indices: 23550072--23550181 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 43
23550062 TGATATGTGT
* * * *
23550072 TTTCGTGTGAGACCTCGTCTGGGACGTTGGCATCGACTTATGA
1 TTTCGTGTAAGACCTTGTCTGGGACATAGGCATCGACTTATGA
*
23550115 TTTACGTGTAAGACCATGTCTGGGACATCAGG-ATCGTA-TT-TGA
1 TTT-CGTGTAAGACCTTGTCTGGGACAT-AGGCATCG-ACTTATGA
23550158 TTTCGTGTAAGACCTTGTCTGGGA
1 TTTCGTGTAAGACCTTGTCTGGGA
23550182 TAGTGGCATT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
42 20 0.34
43 9 0.16
44 26 0.45
45 3 0.05
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (43 bp):
TTTCGTGTAAGACCTTGTCTGGGACATAGGCATCGACTTATGA
Found at i:23553301 original size:29 final size:29
Alignment explanation
Indices: 23553227--23553307 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 29
23553217 ACATACATGT
* *
23553227 ATATGGCCCA-CTAGGCCAAATCTCATTC
1 ATATGGCCCATCTAGCCCAAATCACATTC
*
23553255 ATATGGCCCAT-TCGGCCCAAATCACATTC
1 ATATGGCCCATCT-AGCCCAAATCACATTC
*
23553284 ATATGGCCCATCTAGCCCGAATCA
1 ATATGGCCCATCTAGCCCAAATCA
23553308 AATCCAAGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 11 0.24
29 33 0.73
30 1 0.02
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.23
Consensus pattern (29 bp):
ATATGGCCCATCTAGCCCAAATCACATTC
Found at i:23557986 original size:25 final size:25
Alignment explanation
Indices: 23557952--23558001 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
23557942 GGAATTCGCA
23557952 CACACATAGTGC-CTCTAATCATTCG
1 CACACATAGTGCTCT-TAATCATTCG
*
23557977 CACACATAGTGCTCTTATTCATTCG
1 CACACATAGTGCTCTTAATCATTCG
23558002 TTATTGCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (25 bp):
CACACATAGTGCTCTTAATCATTCG
Found at i:23558209 original size:40 final size:40
Alignment explanation
Indices: 23558177--23558368 Score: 294
Period size: 40 Copynumber: 4.8 Consensus size: 40
23558167 CCAGCATGAT
** * *
23558177 TGCTCTTCGGGACCCAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
23558217 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
23558257 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
23558297 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
23558337 TGCTCTTCGGAACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
23558369 CTCAATTCTC
Statistics
Matches: 137, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:23559780 original size:37 final size:37
Alignment explanation
Indices: 23559730--23559839 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
23559720 CTTTAGCTCA
* *
23559730 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
23559767 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCTG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
23559804 GACATAATCTTCACACGTAGTCATCGGGTCTTACCC
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCC
23559840 AGAATATATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:23560105 original size:47 final size:47
Alignment explanation
Indices: 23560046--23560220 Score: 280
Period size: 47 Copynumber: 3.7 Consensus size: 47
23560036 TACATATATT
* * * *
23560046 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCATATTCA
* *
23560093 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCATATTCA
23560140 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTC-TCATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCAT-ATTCA
23560187 TCACATTGGCCATTCGGCCTTATCACATATATGC
1 TCACATTGGCCATTCGGCCTTATCACATATATGC
23560221 TCATTCACAT
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
47 119 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCATATTCA
Found at i:23560118 original size:22 final size:22
Alignment explanation
Indices: 23560092--23560214 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
23560082 GTTCATATTC
23560092 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
23560114 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
23560138 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
23560161 ATCACATATATG-CATGCTC-TCATT
1 ATCACAT-T-GGCCAT--TCGGCCTT
23560185 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
23560208 ATCACAT
1 ATCACAT
23560215 ATATGCTCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 32
0.64 0.09 0.27
Matches are distributed among these distances:
22 21 0.28
23 20 0.27
24 20 0.27
25 14 0.19
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:23574589 original size:27 final size:29
Alignment explanation
Indices: 23574556--23574617 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
23574546 GTGATTTTTA
*
23574556 GTGAAAA-TGCAAAG-TAG-GGATTAAATT
1 GTGAAAATTGCAAAGTTAGTGG-TTAAAAT
*
23574583 GTGAAAATTGTAAAGTTAGTGGTTAAAAT
1 GTGAAAATTGCAAAGTTAGTGGTTAAAAT
23574612 GTGAAA
1 GTGAAA
23574618 TAAATGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 7 0.23
28 6 0.20
29 15 0.50
30 2 0.07
ACGTcount: A:0.44, C:0.02, G:0.26, T:0.29
Consensus pattern (29 bp):
GTGAAAATTGCAAAGTTAGTGGTTAAAAT
Found at i:23578347 original size:40 final size:40
Alignment explanation
Indices: 23578303--23578490 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
23578293 ATGACAATTT
* *
23578303 GGCTATGTATGGCACTTAATGTGCGATTCAG-GATAGTTTC
1 GGCTATGTATGGCACTTAATGTGTGATT-AGAGATAGCTTC
* * *
23578343 GGCTATGTATGGCACTTAGTGTGTGATTTGAGATAGCTTT
1 GGCTATGTATGGCACTTAATGTGTGATTAGAGATAGCTTC
* *
23578383 GGCTATGTATGGCACTTAGTGTGTGATTCGAGATAGCTTC
1 GGCTATGTATGGCACTTAATGTGTGATTAGAGATAGCTTC
* * *
23578423 GGCTATGTATGGCACTTAGTATGCGAGATTA-AAATAGCTTC
1 GGCTATGTATGGCACTTA--ATGTGTGATTAGAGATAGCTTC
23578464 GGCTATGTATTGGCACTTAATGTGTGA
1 GGCTATGTA-TGGCACTTAATGTGTGA
23578491 AAATTTCAGT
Statistics
Matches: 130, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 95 0.73
41 18 0.14
42 16 0.12
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (40 bp):
GGCTATGTATGGCACTTAATGTGTGATTAGAGATAGCTTC
Found at i:23578424 original size:80 final size:81
Alignment explanation
Indices: 23578300--23578490 Score: 269
Period size: 80 Copynumber: 2.4 Consensus size: 81
23578290 TTGATGACAA
* * *
23578300 TTTGGCTATGTATGGCACTTAATGTGCGATTCAGGATAGTTTCGGCTATGTATGGCACTTAGTGT
1 TTTGGCTATGTATGGCACTTAATGTGTGATTCAGGATAGCTTCGGCTATGTATGGCACTTAGTAT
* * * *
23578365 GTGA-TTTGAGATAGC
66 GCGAGATTAAAATAGC
*
23578380 TTTGGCTATGTATGGCACTTAGTGTGTGATTC-GAGATAGCTTCGGCTATGTATGGCACTTAGTA
1 TTTGGCTATGTATGGCACTTAATGTGTGATTCAG-GATAGCTTCGGCTATGTATGGCACTTAGTA
23578444 TGCGAGATTAAAATAGC
65 TGCGAGATTAAAATAGC
*
23578461 TTCGGCTATGTATTGGCACTTAATGTGTGA
1 TTTGGCTATGTA-TGGCACTTAATGTGTGA
23578491 AAATTTCAGT
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
79 1 0.01
80 62 0.63
81 19 0.19
82 16 0.16
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.37
Consensus pattern (81 bp):
TTTGGCTATGTATGGCACTTAATGTGTGATTCAGGATAGCTTCGGCTATGTATGGCACTTAGTAT
GCGAGATTAAAATAGC
Found at i:23582487 original size:46 final size:45
Alignment explanation
Indices: 23582430--23582694 Score: 234
Period size: 46 Copynumber: 5.7 Consensus size: 45
23582420 TTGGGCATCT
23582430 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
* *** * *
23582476 GAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
*
23582523 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
* *** * *
23582569 GAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
*
23582616 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
* * *
23582661 TGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATG
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
23582695 AGCGGGTTAC
Statistics
Matches: 175, Mismatches: 29, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 4 0.02
46 91 0.52
47 62 0.35
48 2 0.01
49 6 0.03
50 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCC
Found at i:23582542 original size:47 final size:47
Alignment explanation
Indices: 23582473--23582641 Score: 202
Period size: 47 Copynumber: 3.6 Consensus size: 47
23582463 GATGCGAATG
23582473 TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
* * *** * *
23582520 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA
23582564 TGTCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
* *
23582613 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC
23582642 ACTTATGGAT
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 31 0.31
47 58 0.59
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (47 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
Found at i:23582582 original size:93 final size:93
Alignment explanation
Indices: 23582423--23582688 Score: 462
Period size: 93 Copynumber: 2.9 Consensus size: 93
23582413 AGGATATTTG
* *
23582423 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
23582488 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
23582516 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
23582581 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * **
23582609 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTTGTTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCATTGA
23582673 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
23582689 CTTATGAGCG
Statistics
Matches: 166, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
92 2 0.01
93 164 0.99
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:23585639 original size:17 final size:17
Alignment explanation
Indices: 23585599--23585639 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
23585589 GTGATTGTGT
*
23585599 TGAATGGTATTTGAATA
1 TGAATGTTATTTGAATA
23585616 TGAATGTTATTTGAATA
1 TGAATGTTATTTGAATA
23585633 TGAATGT
1 TGAATGT
23585640 AGAAATGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (17 bp):
TGAATGTTATTTGAATA
Found at i:23592328 original size:16 final size:17
Alignment explanation
Indices: 23592304--23592343 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
23592294 ATATATATAT
* *
23592304 AAAGTAAAAGAA-ATAA
1 AAAGAAAAAGAATAGAA
23592320 AAAGAAAAAGAATAGAA
1 AAAGAAAAAGAATAGAA
23592337 AAAGAAA
1 AAAGAAA
23592344 GAAAGGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (17 bp):
AAAGAAAAAGAATAGAA
Found at i:23592338 original size:11 final size:10
Alignment explanation
Indices: 23592310--23592347 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
23592300 ATATAAAGTA
23592310 AAAGAAATAA-
1 AAAGAAA-AAG
23592320 AAAGAAAAAG
1 AAAGAAAAAG
23592330 AATAGAAAAAG
1 AA-AGAAAAAG
23592341 AAAGAAA
1 AAAGAAA
23592348 GGATGAAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:23592391 original size:16 final size:16
Alignment explanation
Indices: 23592372--23592416 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
23592362 AGAGATTAGG
* *
23592372 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
23592388 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
*
23592404 GGAAAAAGAGAAA
1 GGAAAAAAAGAAA
23592417 AATTGGGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:23594544 original size:46 final size:46
Alignment explanation
Indices: 23594489--23594764 Score: 374
Period size: 46 Copynumber: 6.0 Consensus size: 46
23594479 AGTGTGCTCT
**
23594489 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * *
23594535 CTAATATGAAATGTGTAAGATCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
23594581 GTGATATGAAATGAATAAGACCATGGTTGAACGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
23594627 GC-GACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 -CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
23594673 CTGATATGAAATGAATAAGAACATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
23594719 GTGACATGAAAAGAATAAGACCATGGTTAAAAGATACCATTGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
23594765 ATGACAGAAA
Statistics
Matches: 203, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
45 1 0.00
46 202 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:23594742 original size:138 final size:138
Alignment explanation
Indices: 23594504--23594764 Score: 423
Period size: 138 Copynumber: 1.9 Consensus size: 138
23594494 ATGAAATGTG
** *
23594504 TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTGTAAGATCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGAATAAGAACATGGTTGAAAGA
* * * *
23594569 TACCATGACAACGTGATATGAAATGAATAAGACCATGGTTGAACGATACCATGGCAACGCGACAT
66 TACCATGACAACGTGACATGAAAAGAATAAGACCATGGTTAAAAGATACCATGGCAACGCGACAT
23594634 GAAAAGAA
131 GAAAAGAA
*
23594642 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGAACATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGAATAAGAACATGGTTGAAAGA
* * *
23594707 TACCATGGCAGCGTGACATGAAAAGAATAAGACCATGGTTAAAAGATACCATTGCAAC
66 TACCATGACAACGTGACATGAAAAGAATAAGACCATGGTTAAAAGATACCATGGCAAC
23594765 ATGACAGAAA
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 112 1.00
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGAATAAGAACATGGTTGAAAGA
TACCATGACAACGTGACATGAAAAGAATAAGACCATGGTTAAAAGATACCATGGCAACGCGACAT
GAAAAGAA
Found at i:23594770 original size:46 final size:46
Alignment explanation
Indices: 23594504--23594812 Score: 359
Period size: 46 Copynumber: 6.6 Consensus size: 46
23594494 ATGAAATGTG
* * * * **
23594504 TAAGACCATGGTTGAAAGATACCATGGCAACCTAATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * * *
23594550 TAAGATCATGGTTGAAAGATACCATGACAACGTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* *
23594596 TAAGACCATGGTTGAACGATACCATGGCAACGCGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * *
23594642 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* *
23594688 TAAGAACATGGTTGAAAGATACCATGGCAGCGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * *
23594734 TAAGACCATGGTTAAAAGATACCATTGCAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-G-A--A
* * *
23594783 GTAAGACCATAGTTGAAAGACACTATGGCA
1 -TAAGACCATGGTTGAAAGATACCATGGCA
23594813 TCATGTCAAA
Statistics
Matches: 226, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
45 5 0.02
46 195 0.86
47 1 0.00
49 1 0.00
50 24 0.11
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
Found at i:23596709 original size:66 final size:66
Alignment explanation
Indices: 23596623--23596768 Score: 240
Period size: 66 Copynumber: 2.2 Consensus size: 66
23596613 CGTGTGGTAC
* * *
23596623 AAGTCAGTATACCCCTTAAATGGCATATGGCCTAACACACGGGCATGTGACTTGGTTGTGTTGCA
1 AAGTCAGTATACCCCTTAAATGGCACATGGCCTAACACAAGGGCATGTGACTTGGCTGTGTTGCA
23596688 T
66 T
*
23596689 AAGTTAGTATACCTCC-TAAATGGCACATGGCCTAACACAAGGGCATGTGACTTGGCTGTGTTGC
1 AAGTCAGTATACC-CCTTAAATGGCACATGGCCTAACACAAGGGCATGTGACTTGGCTGTGTTGC
23596753 AT
65 AT
23596755 AAGTCAGTATACCC
1 AAGTCAGTATACCC
23596769 TACAGGATTG
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
65 1 0.01
66 71 0.96
67 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (66 bp):
AAGTCAGTATACCCCTTAAATGGCACATGGCCTAACACAAGGGCATGTGACTTGGCTGTGTTGCA
T
Found at i:23617060 original size:16 final size:16
Alignment explanation
Indices: 23617041--23617083 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
23617031 CAAAATGCTG
23617041 AAAAGCCGAAACGCCA
1 AAAAGCCGAAACGCCA
* * *
23617057 AAAAGCTGAAATGTCA
1 AAAAGCCGAAACGCCA
23617073 AAAAGCCGAAA
1 AAAAGCCGAAA
23617084 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.21, G:0.19, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAACGCCA
Found at i:23617353 original size:29 final size:29
Alignment explanation
Indices: 23617294--23617393 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
23617284 GTGAGCATGA
* * *
23617294 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
23617322 ATATAAATGTGATTTGGCCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
23617351 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
23617380 ATATGAATATGATT
1 ATATAAATGTGATT
23617394 AGGCTTAGTG
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
28 11 0.18
29 49 0.82
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:23617379 original size:58 final size:57
Alignment explanation
Indices: 23617307--23617417 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
23617297 TGAATGTGAC
* * *
23617307 TGGGCCTAACGGGCCATATAAATGTGATTTGGCCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATTAGG-CCTAATGGGCCAGATACAGGTGATT
* * * *
23617365 TGGGCCTAATGGGCCATATGAATATGATTAGGCTTAGTGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTAGGCCTAATGGGCCAGATACAGGT
23617418 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 18 0.39
58 28 0.61
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTAGGCCTAATGGGCCAGATACAGGTGATT
Found at i:23620414 original size:40 final size:40
Alignment explanation
Indices: 23620314--23620485 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
23620304 GCTCCTCGTT
* * *
23620314 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
23620354 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
23620393 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
23620433 CAAAGGCCTTCGGGGCTTAACCTGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
23620473 CAAATGCCTTCGG
1 CAAATGCCTTCGG
23620486 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.30
40 79 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:23626131 original size:40 final size:40
Alignment explanation
Indices: 23626083--23626352 Score: 423
Period size: 40 Copynumber: 6.7 Consensus size: 40
23626073 GCAAACACAT
* * *
23626083 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
23626123 TTGCCTTCGGGTCTTAGCCCGGATATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGG--ATATATCAACTCGCATAA
23626165 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
23626205 TTGCCTTCGGGTTTTAGCCCGGTTATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
23626245 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
23626285 TTGCCTTCGGGTTTTAGCCCGGTTATATCCACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
23626325 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
23626353 TCCAATGCTC
Statistics
Matches: 210, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
40 173 0.82
42 37 0.18
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.33
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:23632161 original size:40 final size:40
Alignment explanation
Indices: 23632063--23632325 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
23632053 TCCTCGTTCA
* * * *
23632063 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
*
23632102 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
* *
23632142 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
* *
23632182 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
* * * *
23632222 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
* * * * * *
23632262 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAACTCA-CACG
* *
23632302 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
23632326 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 39 0.20
40 154 0.77
41 6 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACG
Found at i:23635501 original size:31 final size:31
Alignment explanation
Indices: 23635459--23635544 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
23635449 TCAATCTCAG
23635459 CATA-TACTGGGCCAAAGCCTTTACATTATT
1 CATATTACTGGGCCAAAGCCTTTACATTATT
*
23635489 CATATTACTGGGCCAAAGCCTTTTCATTATT
1 CATATTACTGGGCCAAAGCCTTTACATTATT
* *
23635520 CATATCACTGGGCCGAAGCCTTTAC
1 CATATTACTGGGCCAAAGCCTTTAC
23635545 TGTAACTATA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 4 0.08
31 47 0.92
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (31 bp):
CATATTACTGGGCCAAAGCCTTTACATTATT
Found at i:23635807 original size:24 final size:23
Alignment explanation
Indices: 23635749--23635807 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 23
23635739 CTGGAGGCCT
*
23635749 AGCCTCTTTTAATAATTGGGGCAA
1 AGCC-CTTTTGATAATTGGGGCAA
23635773 AGCCCTTTTTGATAAATTGGGGCAA
1 AGCCC-TTTTGAT-AATTGGGGCAA
23635798 AGCCCTTTTG
1 AGCCCTTTTG
23635808 CACTTCCTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 1 0.03
24 15 0.47
25 16 0.50
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (23 bp):
AGCCCTTTTGATAATTGGGGCAA
Found at i:23635965 original size:25 final size:25
Alignment explanation
Indices: 23635937--23635986 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
23635927 ATAATTAAAC
* **
23635937 CCTAGGGGTAAAATGGTCATTTTCA
1 CCTAGGGGCAAAACAGTCATTTTCA
23635962 CCTAGGGGCAAAACAGTCATTTTCA
1 CCTAGGGGCAAAACAGTCATTTTCA
23635987 TGTTATAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTCA
Found at i:23639325 original size:16 final size:16
Alignment explanation
Indices: 23639300--23639331 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23639290 CGAAAAGCCA
23639300 AAAAGCCAAAATTTTG
1 AAAAGCCAAAATTTTG
*
23639316 AAAAGTCAAAATTTTG
1 AAAAGCCAAAATTTTG
23639332 GCTATGGTAG
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:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (16 bp):
AAAAGCCAAAATTTTG
Found at i:23639987 original size:23 final size:23
Alignment explanation
Indices: 23639957--23640003 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
23639947 GCTGAATGTA
23639957 AGTTTTATGAATGTGACATGCAT
1 AGTTTTATGAATGTGACATGCAT
23639980 AGTTTTATGAATGTGACATGCAT
1 AGTTTTATGAATGTGACATGCAT
23640003 A
1 A
23640004 CATATGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (23 bp):
AGTTTTATGAATGTGACATGCAT
Found at i:23645327 original size:13 final size:13
Alignment explanation
Indices: 23645303--23645328 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23645293 GTTTCAATGC
23645303 ATGATTTCAAAAG
1 ATGATTTCAAAAG
23645316 ATGATTTCAAAAG
1 ATGATTTCAAAAG
23645329 TTTCAACCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGATTTCAAAAG
Found at i:23646318 original size:22 final size:22
Alignment explanation
Indices: 23646275--23646318 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
23646265 TGAATCTGTC
**
23646275 AAAAATAATAAAAATTTGATAT
1 AAAAATAATAAAAATTCAATAT
* *
23646297 AAAATTAATTAAAATTCAATAT
1 AAAAATAATAAAAATTCAATAT
23646319 GTTCATAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAAATAATAAAAATTCAATAT
Found at i:23650188 original size:31 final size:31
Alignment explanation
Indices: 23650135--23650198 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
23650125 CCTTTTCATA
*
23650135 TTTCATATTTCATAACACTGGGCCAAAGCCT
1 TTTCATATTTCACAACACTGGGCCAAAGCCT
** * *
23650166 TTTCATATTTCACATTATTGGGCCGAAGCCT
1 TTTCATATTTCACAACACTGGGCCAAAGCCT
23650197 TT
1 TT
23650199 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCACAACACTGGGCCAAAGCCT
Found at i:23650443 original size:24 final size:24
Alignment explanation
Indices: 23650392--23650509 Score: 179
Period size: 23 Copynumber: 5.0 Consensus size: 24
23650382 GCTTGATCAT
*
23650392 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
23650417 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
23650441 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
23650464 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
23650487 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
23650510 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
23 46 0.52
24 30 0.34
25 12 0.14
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:23650584 original size:20 final size:20
Alignment explanation
Indices: 23650559--23650623 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
23650549 ATGAATACAC
23650559 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
23650579 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
23650599 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
23650619 CATGT
1 CATGT
23650624 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:23650590 original size:11 final size:11
Alignment explanation
Indices: 23650559--23650612 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
23650549 ATGAATACAC
23650559 CATGTGCATAT
1 CATGTGCATAT
*
23650570 CA--TACATAT
1 CATGTGCATAT
23650579 CATGTGCATAT
1 CATGTGCATAT
* *
23650590 CA--TACATGT
1 CATGTGCATAT
23650599 CATGTGCATAT
1 CATGTGCATAT
23650610 CAT
1 CAT
23650613 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:23653268 original size:42 final size:42
Alignment explanation
Indices: 23653158--23653271 Score: 104
Period size: 43 Copynumber: 2.7 Consensus size: 42
23653148 AACATATACA
* * *
23653158 ATGCCAATGTCCCAGACGTGACCTTACATGAAATCAAACATCG
1 ATGCC-ATGTCCCAGACATGATCTTACACGAAATCAAACATCG
* * * * * *
23653201 ATGCCACTGTCCTAGATAGGGTCTTACACGAAATCAGATAT-G
1 ATGCCA-TGTCCCAGACATGATCTTACACGAAATCAAACATCG
*
23653243 ATGCCGATGTCCCAGACATGTTCTTACAC
1 ATGCC-ATGTCCCAGACATGATCTTACAC
23653272 ATAAAACAGA
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
42 25 0.45
43 31 0.55
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGATCTTACACGAAATCAAACATCG
Found at i:23666502 original size:16 final size:15
Alignment explanation
Indices: 23666481--23666531 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
23666471 AAAGTTGATA
23666481 ATAATTAATATATATT
1 ATAATTAATATA-ATT
*
23666497 ATAATTGATATAATT
1 ATAATTAATATAATT
*
23666512 ATATGTTAAT-T-ATT
1 ATA-ATTAATATAATT
23666526 ATAATT
1 ATAATT
23666532 TTATTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.07
14 6 0.20
15 7 0.23
16 15 0.50
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:23682699 original size:17 final size:19
Alignment explanation
Indices: 23682667--23682701 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
23682657 GGCATTAGCA
23682667 CATATTAAGTCATATATTT
1 CATATTAAGTCATATATTT
23682686 CATATT-AG-CATATATT
1 CATATTAAGTCATATATT
23682702 ATTTACTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (19 bp):
CATATTAAGTCATATATTT
Found at i:23685639 original size:27 final size:27
Alignment explanation
Indices: 23685601--23685656 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
23685591 TAATAATGAC
23685601 AAGTTGGGATTATTATATGAAATCATT
1 AAGTTGGGATTATTATATGAAATCATT
23685628 AAGTTGGGATTATTATATGAAATCATT
1 AAGTTGGGATTATTATATGAAATCATT
23685655 AA
1 AA
23685657 TTTATATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (27 bp):
AAGTTGGGATTATTATATGAAATCATT
Found at i:23688361 original size:93 final size:93
Alignment explanation
Indices: 23688253--23688423 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
23688243 GCCCCTAAGT
* * *
23688253 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23688318 CGAGTTCGGATGCCTACTTACATCTCAC
66 CGAGTTCGGATGCCTACTTACATCTCAC
*
23688346 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23688411 CGAGTTCGGATGC
66 CGAGTTCGGATGC
23688424 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTACTTACATCTCAC
Found at i:23688420 original size:46 final size:46
Alignment explanation
Indices: 23688248--23688420 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
23688238 AACCCGCCCC
* * * *
23688248 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCTA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
23688294 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTACTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
23688342 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
23688387 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23688421 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:23688877 original size:30 final size:30
Alignment explanation
Indices: 23688843--23688902 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
23688833 ATTTAATACG
23688843 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
23688873 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
23688903 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:23690816 original size:25 final size:26
Alignment explanation
Indices: 23690788--23690840 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
23690778 TGAACTCAAC
23690788 AAATTA-AAACAGCCTAGGAA-ACATT
1 AAATTAGAAACAGCCTA-GAACACATT
* *
23690813 AAATTAGCAGCAGCCTAGAACACATT
1 AAATTAGAAACAGCCTAGAACACATT
23690839 AA
1 AA
23690841 GTCAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.49, C:0.19, G:0.13, T:0.19
Consensus pattern (26 bp):
AAATTAGAAACAGCCTAGAACACATT
Found at i:23692723 original size:40 final size:40
Alignment explanation
Indices: 23692471--23692716 Score: 379
Period size: 40 Copynumber: 6.2 Consensus size: 40
23692461 AACCCAAGTA
* * * * *
23692471 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGACATAGTC-ACTAGCACAAATG
23692510 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
*
23692550 CCTTCAGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
*
23692590 CCTTCAGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
*
23692630 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
* *
23692670 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
23692710 CCTTCGG
1 CCTTCGG
23692717 ATCTTAGTCC
Statistics
Matches: 196, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
39 12 0.06
40 183 0.93
41 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
Found at i:23699639 original size:33 final size:33
Alignment explanation
Indices: 23699602--23699666 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
23699592 TTCAACTAGC
23699602 CACTTGACATACATAGCACAAAATATGATCATG
1 CACTTGACATACATAGCACAAAATATGATCATG
*
23699635 CACTTGACATACATAGCACCAAATATGATCAT
1 CACTTGACATACATAGCACAAAATATGATCAT
23699667 AATTAACCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.25
Consensus pattern (33 bp):
CACTTGACATACATAGCACAAAATATGATCATG
Found at i:23700365 original size:40 final size:40
Alignment explanation
Indices: 23700286--23700451 Score: 246
Period size: 40 Copynumber: 4.2 Consensus size: 40
23700276 AACCCAAGTA
* * * *
23700286 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
23700325 CCTTCAGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
23700365 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
23700405 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
23700445 CCTTCGG
1 CCTTCGG
23700452 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 11 0.09
40 104 0.90
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:23703769 original size:27 final size:26
Alignment explanation
Indices: 23703733--23703845 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
23703723 CAGCATGGCT
* * *
23703733 ACCAGAACAGATAATGTGACAAAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
23703759 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
23703787 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
23703814 ACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
23703841 ACCAG
1 ACCAG
23703846 GACGCTTCCC
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 7 0.09
27 55 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:23703797 original size:54 final size:54
Alignment explanation
Indices: 23703733--23703845 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
23703723 CAGCATGGCT
*
23703733 ACCAGAACAGATA-ATGTGACAAAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGACAAAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* * * *
23703787 ACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATATATGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAGCC
23703841 ACCAG
1 ACCAG
23703846 GACGCTTCCC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:23704287 original size:8 final size:8
Alignment explanation
Indices: 23704261--23704290 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23704251 CAAATTACCA
23704261 GCTTTTCG
1 GCTTTTCG
*
23704269 GCATTTCG
1 GCTTTTCG
23704277 GCTTTTCG
1 GCTTTTCG
23704285 GCTTTT
1 GCTTTT
23704291 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:23711600 original size:27 final size:26
Alignment explanation
Indices: 23711563--23711657 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
23711553 AGCATGGCTG
* * *
23711563 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATATGGCAGAGCCA
*
23711589 CCAGATACAGATAATCTTGGCAGAGCCA
1 CCAGA-ACAGATAAT-ATGGCAGAGCCA
23711617 CCAGAACAGATATATATGGCAGAGCCA
1 CCAGAACAGATA-ATATGGCAGAGCCA
*
23711644 CCAGATCAGATAAT
1 CCAGAACAGATAAT
23711658 TGTGGCATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.11
27 38 0.62
28 16 0.26
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATATGGCAGAGCCA
Found at i:23711654 original size:54 final size:54
Alignment explanation
Indices: 23711563--23711674 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
23711553 AGCATGGCTG
* *
23711563 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCT-TGGCAGAGCCA
1 CCAGAACAGATAATATGACAGAGCCACCAGATACAGATAAT-TGTGGCAGAGCCA
* * *
23711617 CCAGAACAGATATATATGGCAGAGCCACCAGAT-CAGATAATTGTGGCATATCCA
1 CCAGAACAGATA-ATATGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCA
23711671 CCAG
1 CCAG
23711675 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.65
55 17 0.33
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATATGACAGAGCCACCAGATACAGATAATTGTGGCAGAGCCA
Found at i:23711663 original size:27 final size:28
Alignment explanation
Indices: 23711563--23711674 Score: 117
Period size: 27 Copynumber: 4.1 Consensus size: 28
23711553 AGCATGGCTG
* *
23711563 CCAGAACAGAT-A-ATGTGACAGAGTCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
*
23711589 CCAGATACAGATAATCT-TGGCAGAGCCA
1 CCAGA-ACAGATAATATGTGGCAGAGCCA
*
23711617 CCAGAACAGAT-ATATATGGCAGAGCCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
* * *
23711644 CCAGATCAGATAAT-TGTGGCATATCCA
1 CCAGAACAGATAATATGTGGCAGAGCCA
23711671 CCAG
1 CCAG
23711675 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
26 8 0.11
27 47 0.64
28 17 0.23
29 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (28 bp):
CCAGAACAGATAATATGTGGCAGAGCCA
Found at i:23712110 original size:16 final size:16
Alignment explanation
Indices: 23712089--23712120 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23712079 CTCAAAATAC
23712089 CGACTTTTCAGCATTT
1 CGACTTTTCAGCATTT
*
23712105 CGACTTTTCGGCATTT
1 CGACTTTTCAGCATTT
23712121 TCTGATCTAG
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:0.16, C:0.25, G:0.16, T:0.44
Consensus pattern (16 bp):
CGACTTTTCAGCATTT
Found at i:23713898 original size:48 final size:48
Alignment explanation
Indices: 23713719--23713898 Score: 184
Period size: 48 Copynumber: 3.8 Consensus size: 48
23713709 TAAAGTACCA
* ** * *
23713719 ATGCCATGTCCGC-GACATGGTCTTACATGAATC-CACATATCATCACCG
1 ATGCCATGTCC-CAGACATGGTCTTACA-CAGGCACATATATCACCACCG
* * *
23713767 ATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCACCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCACCACCG
* * * * **
23713815 ATGCCATGTCCCAGACATTGTCTTACACAAGCACATATATTATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCACCACCG
* *
23713863 ATGCCAGGTCCCAAACATGGTCTTACACAGGCACAT
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
23713899 TTAGCACGGT
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.01
48 110 0.99
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCACCACCG
Found at i:23729439 original size:17 final size:17
Alignment explanation
Indices: 23729417--23729457 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
23729407 TTACTCCAAG
23729417 GAAGCCGATCCATCTCA
1 GAAGCCGATCCATCTCA
23729434 GAAGCCGATCCATCTCA
1 GAAGCCGATCCATCTCA
23729451 GAAGCCG
1 GAAGCCG
23729458 GATTCATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.34, G:0.22, T:0.15
Consensus pattern (17 bp):
GAAGCCGATCCATCTCA
Found at i:23746310 original size:48 final size:47
Alignment explanation
Indices: 23746191--23746310 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 47
23746181 TACATGAATC
* * *
23746191 CACATATCATCATTGATGCCATATCCCGGACATGGTCTTATACTGGCA
1 CACATATCATCATTGATGCCATGTCCCAGACATGGTCGTATAC-GGCA
**
23746239 CACATATCATCCCTGATGCCATGTCCCAGACATGGTCGTACTTA-GGCA
1 CACATATCATCATTGATGCCATGTCCCAGACATGGTCGTA--TACGGCA
* * *
23746287 CATATATCATCATTAATGTCATGT
1 CACATATCATCATTGATGCCATGT
23746311 AACGCCCTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 58 0.97
50 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (47 bp):
CACATATCATCATTGATGCCATGTCCCAGACATGGTCGTATACGGCA
Found at i:23746729 original size:24 final size:24
Alignment explanation
Indices: 23746697--23746749 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
23746687 AGGTTGTCAT
*
23746697 GAGAAGATTTGGGAGCTAATAAGG
1 GAGAAGATTTAGGAGCTAATAAGG
* *
23746721 GAGAGGATTTAGGAGCTGATAAGG
1 GAGAAGATTTAGGAGCTAATAAGG
23746745 GAGAA
1 GAGAA
23746750 CGGTGTTGGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.40, T:0.19
Consensus pattern (24 bp):
GAGAAGATTTAGGAGCTAATAAGG
Found at i:23748220 original size:27 final size:27
Alignment explanation
Indices: 23748180--23748290 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
23748170 AGGAAGCGTC
* *
23748180 CTGGTGGCTATGCCATATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* *
23748207 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* *
23748234 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* * * * *
23748261 CAGGTGACTTTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
23748287 CTGG
1 CTGG
23748291 CAGCTATGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 12 0.16
27 61 0.84
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGAT
Found at i:23748278 original size:54 final size:53
Alignment explanation
Indices: 23748180--23748290 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 53
23748170 AGGAAGCGTC
* * * *
23748180 CTGGTGGCTATGCCATATTTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCAGGTGACTCTGCCACAT-TATCTGTT
* * * *
23748234 CTGGTGGCTCTGCCACAATTATCTGTTCAGGTGACTTTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCAGGTGACTCTGCCACATTATCTGTT
23748287 CTGG
1 CTGG
23748291 CAGCTATGGT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 12 0.24
54 37 0.76
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCAGGTGACTCTGCCACATTATCTGTT
Found at i:23754581 original size:24 final size:24
Alignment explanation
Indices: 23754554--23754623 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
23754544 TCAGGAGAAT
* *
23754554 ATTTGGGAGGTGATAAGGGAGAGG
1 ATTTAGGAGCTGATAAGGGAGAGG
23754578 ATTTAGGAGCTGATAAGGGAGAGG
1 ATTTAGGAGCTGATAAGGGAGAGG
* *
23754602 ATTTCGGAGCTGATTAGGGAGA
1 ATTTAGGAGCTGATAAGGGAGA
23754624 ACAGTGTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.30, C:0.04, G:0.43, T:0.23
Consensus pattern (24 bp):
ATTTAGGAGCTGATAAGGGAGAGG
Found at i:23756096 original size:27 final size:27
Alignment explanation
Indices: 23756056--23756166 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
23756046 AGGAAGCGTC
*
23756056 CTGGTGGCTATGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
23756083 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
* *
23756110 CCGGTGGCTCTGCCACA-ATTATCTGCT
1 CTGGTGGCTCTGCCACATA-TATCTGTT
** *
23756137 CTGGTCACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
23756163 CTGG
1 CTGG
23756167 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 12 0.16
27 62 0.84
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:23764583 original size:55 final size:53
Alignment explanation
Indices: 23764464--23764853 Score: 352
Period size: 55 Copynumber: 7.4 Consensus size: 53
23764454 ATTGTCATCT
* *
23764464 CTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGTCATGC
1 CTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAATGCCATGC
* *
23764517 CTT-AGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGT
1 CTTGA-CATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAATGCCATGC
* * * *
23764572 CTTGACATGGTCTTAGATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGC
1 CTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAATGCCATGC
* * *** *
23764626 CTTGGCATGGTCTTACATGATA---T-CCTTATCTTAC-CA--AATGCCACGTTC
1 CTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAATGCCA--TGC
** * *
23764674 C-AAACATGGTCTTACATGGTATCCTTGTCTTAT-GAACTCACCAATGCCATGC
1 CTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAATGCCATGC
* * * *
23764726 CTTGGCATAGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGT
1 CTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAATGCCATGC
* * * * *
23764781 CTTGACACGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATAC
1 CTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAATGCCATGC
*
23764835 CTTGGCATGGTCTTACATG
1 CTTGACATGGTCTTACATG
23764854 ATATCCTTAT
Statistics
Matches: 270, Mismatches: 46, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
46 7 0.03
47 16 0.06
48 4 0.01
49 8 0.03
50 1 0.00
51 3 0.01
52 15 0.06
53 52 0.19
54 74 0.27
55 85 0.31
56 5 0.02
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
CTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAATGCCATGC
Found at i:23764639 original size:54 final size:54
Alignment explanation
Indices: 23764464--23764861 Score: 383
Period size: 54 Copynumber: 7.5 Consensus size: 54
23764454 ATTGTCATCT
* * *
23764464 CTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGTCATGC
1 CTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGC
** *
23764517 CTT-AGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATGCCATGT
1 CTTGA-CATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGCCATGC
* * *
23764572 CTTGACATGGTCTTAGATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGC
1 CTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGC
* ** *
23764626 CTTGGCATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AATGCCACGTTC
1 CTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCA--TGC
** * * *
23764674 C-AAACATGGTCTTACATGGTATCCTTGTCTTAT-GAACTCACCAATGCCATGC
1 CTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGC
* * ** *
23764726 CTTGGCATAGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATGCCATGT
1 CTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGCCATGC
* * * *
23764781 CTTGACACGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATAC
1 CTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGC
*
23764835 CTTGGCATGGTCTTACATGATATCCTT
1 CTTGACATGGTCTTACATGATATCCTT
23764862 ATCTTACCAA
Statistics
Matches: 282, Mismatches: 43, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
46 7 0.02
47 23 0.08
48 5 0.02
49 3 0.01
51 2 0.01
52 11 0.04
53 52 0.18
54 89 0.32
55 85 0.30
56 5 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (54 bp):
CTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGCCATGC
Found at i:23764644 original size:109 final size:108
Alignment explanation
Indices: 23764463--23764853 Score: 494
Period size: 109 Copynumber: 3.7 Consensus size: 108
23764453 CATTGTCATC
* * *
23764463 TCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGTCATGCCTTAGCATGGT
1 TCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGT
23764528 CTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATG
66 CTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATG
* * * *
23764571 TCTTGACATGGTCTTAGATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGG
1 TCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGG
* * * *
23764636 TCTTACAT--GA--TAT-CCTTAT-CTTAC-CA--AATGCCACG
65 TCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATG
*** * * *
23764671 TTCCAAACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATAG
1 -TCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGG
23764736 TCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATG
65 TCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATG
* * * * *
23764780 TCTTGACACGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATACCTTGGCATGG
1 TCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGG
23764845 TCTTACATG
65 TCTTACATG
23764854 ATATCCTTAT
Statistics
Matches: 235, Mismatches: 36, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
100 42 0.18
101 28 0.12
102 4 0.02
103 3 0.01
104 8 0.03
105 8 0.03
106 3 0.01
107 4 0.02
108 60 0.26
109 75 0.32
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (108 bp):
TCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGT
CTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATG
Found at i:23764828 original size:209 final size:209
Alignment explanation
Indices: 23764468--23764914 Score: 822
Period size: 209 Copynumber: 2.1 Consensus size: 209
23764458 TCATCTCTTG
* * *
23764468 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGTCATGCCTTAGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTAGCATAGTCTTAC
* *
23764533 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTAGATGATTTCCT
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACACGGTCTTACATGATTTCCT
*
23764598 TGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
131 TGCCTTATAGAACTTATCAATGCCATACCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
23764663 ATGCCACGTTCCAA
196 ATGCCACGTTCCAA
*
23764677 ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATAGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTAGCATAGTCTTAC
23764742 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACACGGTCTTACATGATTTCCT
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACACGGTCTTACATGATTTCCT
23764807 TGCCTTATAGAACTTATCAATGCCATACCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
131 TGCCTTATAGAACTTATCAATGCCATACCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
*
23764872 ATGCCATGTTCCAA
196 ATGCCACGTTCCAA
23764886 ACATGGTCTTACATGGTATCCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTA
23764915 CCAAATGCCA
Statistics
Matches: 230, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
209 230 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (209 bp):
ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTTAGCATAGTCTTAC
ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACACGGTCTTACATGATTTCCT
TGCCTTATAGAACTTATCAATGCCATACCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
ATGCCACGTTCCAA
Found at i:23764894 original size:47 final size:47
Alignment explanation
Indices: 23764840--23764961 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
23764830 CATACCTTGG
* * *
23764840 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGGTCCAAA
23764887 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGGTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGGTCCAAA
*
23764934 CATGGTCTTACATGGTTTCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
23764962 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGGTCCAAA
Found at i:23765721 original size:30 final size:30
Alignment explanation
Indices: 23765675--23765735 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
23765665 TCCCTAACTC
* *
23765675 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACCTTTGAAAAATTACAATTTTACCCCT
*
23765705 AAACCTTTGCAAAATTACAATTTTACCCCT
1 AAACCTTTGAAAAATTACAATTTTACCCCT
23765735 A
1 A
23765736 GACTCGGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (30 bp):
AAACCTTTGAAAAATTACAATTTTACCCCT
Found at i:23773702 original size:48 final size:49
Alignment explanation
Indices: 23773621--23773788 Score: 202
Period size: 48 Copynumber: 3.5 Consensus size: 49
23773611 GTATAAATGT
* ** *
23773621 CATGTCCCTGACATGGTCTTACA-TGAATC-CACATATCATCATTGATGC
1 CATGTCCCAGACATGGTCTTACACT-AGGCACACATATCATCGTTGATGC
* *
23773669 CATGTCCCAGACATTGTCTTACACT-GGCACACATATCATCGTTGATGT
1 CATGTCCCAGACATGGTCTTACACTAGGCACACATATCATCGTTGATGC
* * *
23773717 CATGTCCCAAACATGGTCTTACA-TAGGCACATATATCATCGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTAGGCACACATATCATCGTTGATGC
23773765 CATGT-CCAGGACATGGTCTTACAC
1 CATGTCCCA-GACATGGTCTTACAC
23773789 AGGAATATTT
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
47 5 0.05
48 97 0.94
49 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (49 bp):
CATGTCCCAGACATGGTCTTACACTAGGCACACATATCATCGTTGATGC
Found at i:23775531 original size:28 final size:28
Alignment explanation
Indices: 23775491--23775552 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
23775481 TTTAAATAAT
23775491 CATAACTTAACTTATTTTCATATCAAAA
1 CATAACTTAACTTATTTTCATATCAAAA
23775519 CATAACTTAACTTATTTTCATATCAAAA
1 CATAACTTAACTTATTTTCATATCAAAA
23775547 CATAAC
1 CATAAC
23775553 ATAATTGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (28 bp):
CATAACTTAACTTATTTTCATATCAAAA
Found at i:23778881 original size:12 final size:12
Alignment explanation
Indices: 23778864--23778890 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23778854 CACAGGGTTA
23778864 TGTGGCTGGCCG
1 TGTGGCTGGCCG
23778876 TGTGGCTGGCCG
1 TGTGGCTGGCCG
23778888 TGT
1 TGT
23778891 AGGGCACACG
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:0.00, C:0.22, G:0.48, T:0.30
Consensus pattern (12 bp):
TGTGGCTGGCCG
Found at i:23781901 original size:7 final size:7
Alignment explanation
Indices: 23781889--23781919 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
23781879 GTTATATTAT
23781889 TTGTGAA
1 TTGTGAA
23781896 TTGTGAA
1 TTGTGAA
23781903 TTGTGAA
1 TTGTGAA
*
23781910 ATGTGAA
1 TTGTGAA
23781917 TTG
1 TTG
23781920 CTAACTGTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (7 bp):
TTGTGAA
Found at i:23785539 original size:27 final size:26
Alignment explanation
Indices: 23785477--23785539 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
23785467 TGTAGAAATT
23785477 GAAAGAAAA-AAAAAGAAATGAGAGA
1 GAAAGAAAATAAAAAGAAATGAGAGA
* *
23785502 AAAAGAGAAATAAAAAG-AATGTGAACGA
1 GAAAGA-AAATAAAAAGAAATGAG-A-GA
23785530 GAAAGAAAAT
1 GAAAGAAAAT
23785540 TGAAAGAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 5 0.16
26 8 0.26
27 11 0.35
28 7 0.23
ACGTcount: A:0.68, C:0.02, G:0.22, T:0.08
Consensus pattern (26 bp):
GAAAGAAAATAAAAAGAAATGAGAGA
Found at i:23790325 original size:46 final size:46
Alignment explanation
Indices: 23790178--23790399 Score: 173
Period size: 47 Copynumber: 4.7 Consensus size: 46
23790168 ACATTATGAG
* ** **
23790178 AGCCAGTGTAAGACAATGTCTGGGACATGGCATCAGTATTTAGA-CAA
1 AGCCAGTGTAAGAC-ATGTCTGGGACATGGCATC-GAATCGAGATGTA
* * ** *
23790225 GAGCTAGTGTAAGACATGTCTGGGATAT-GCATCGGTGTCGAAATGTA
1 -AGCCAGTGTAAGACATGTCTGGGACATGGCATC-GAATCGAGATGTA
* *
23790272 AGCCAGTGTAAGACATGTTTGGGACAT-GCATCGACTACGAGATG-A
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGAAT-CGAGATGTA
* * * * * *
23790317 TAGTCAGTGTAAGTCCATGTCTAGGACATGGCATTGAATTGAGATGTG
1 -AGCCAGTGTAAG-ACATGTCTGGGACATGGCATCGAATCGAGATGTA
*
23790365 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
23790400 GCACCTTACC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
45 3 0.02
46 56 0.40
47 60 0.43
48 20 0.14
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCGAATCGAGATGTA
Found at i:23790389 original size:140 final size:141
Alignment explanation
Indices: 23790136--23790400 Score: 311
Period size: 140 Copynumber: 1.9 Consensus size: 141
23790126 ATTGTTGGCT
** * * *
23790136 AGTGTAAGATGTGTTCGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACAATGTCTGG
1 AGTGTAAGACATGTTCGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACAATGTCTAG
* * * *
23790201 GACATGGCATCAGTATTTAGACAAGAGCTAGTGTAAGACATGTCTGGGATAT-GCATCGGTGTCG
66 GACATGGCATCAGAATTGAGACAAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGTGTCG
23790265 AAATGTAAGCC
131 AAATGTAAGCC
* * * * * *
23790276 AGTGTAAGACATGTTTGGGACATGCATCGACTACGA-GATGATAGTCAGTGTAAGTCCATGTCTA
1 AGTGTAAGACATGTTCGGGACATGCATCGACCAC-ATGATGAGAGCCAGTGTAAGACAATGTCTA
* *** *
23790340 GGACATGGCAT-TGAATTGAGATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG
65 GGACATGGCATCAGAATTGAGACAAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGG
23790401 CACCTTACCC
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
139 20 0.20
140 74 0.73
141 8 0.08
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (141 bp):
AGTGTAAGACATGTTCGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACAATGTCTAG
GACATGGCATCAGAATTGAGACAAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGTGTCG
AAATGTAAGCC
Found at i:23801895 original size:9 final size:9
Alignment explanation
Indices: 23801881--23801905 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23801871 AAAGACAGCC
23801881 ACTAAAATA
1 ACTAAAATA
23801890 ACTAAAATA
1 ACTAAAATA
23801899 ACTAAAA
1 ACTAAAA
23801906 AAAATGAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (9 bp):
ACTAAAATA
Found at i:23804470 original size:37 final size:37
Alignment explanation
Indices: 23804416--23804516 Score: 175
Period size: 37 Copynumber: 2.7 Consensus size: 37
23804406 GCTCAGACGA
*
23804416 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
23804453 AATCTCCACGCGTAGTCATCAGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
23804490 AATCTCCACACGTAGTCATCGGGTCTT
1 AATCTCCACACGTAGTCATCGGGTCTT
23804517 TAGAGCTCGG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:23806299 original size:39 final size:40
Alignment explanation
Indices: 23806095--23806317 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
23806085 TTGAATGCTG
* * * * * *
23806095 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
23806135 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
23806175 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
23806215 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
23806255 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
23806294 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23806318 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:23806337 original size:79 final size:80
Alignment explanation
Indices: 23806170--23806352 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
23806160 GTGCGAGATA
* * *
23806170 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
23806235 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
23806250 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
23806314 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
23806329 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
23806353 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Done.