Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 190 of 290
Found at i:61031436 original size:47 final size:47
Alignment explanation
Indices: 61031300--61031807 Score: 714
Period size: 47 Copynumber: 11.1 Consensus size: 47
61031290 GAAATGATAG
61031300 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
61031349 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61031396 TAAGG-CTAATGGCCGATGTGATG-ATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
61031443 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATA-GTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61031488 TAAGGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAA-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61031535 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
61031584 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
61031631 TAAGGCC-AATGGCCGA--TG-TG-A--TG-AA-TG--T-TACGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61031666 TAA-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61031711 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
61031757 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
61031804 TAAG
1 TAAG
61031808 TCCCGAAGGG
Statistics
Matches: 420, Mismatches: 14, Indels: 52
0.86 0.03 0.11
Matches are distributed among these distances:
34 3 0.01
35 18 0.04
36 1 0.00
37 2 0.00
38 4 0.01
39 3 0.01
40 2 0.00
41 2 0.00
42 3 0.01
43 4 0.01
44 3 0.01
45 80 0.19
46 64 0.15
47 120 0.29
48 23 0.05
49 88 0.21
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:61031669 original size:35 final size:35
Alignment explanation
Indices: 61031624--61031693 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
61031614 AAAGTGTATA
*
61031624 TACGTGATAAGGCC-AATGGCCGATGTGATGAATGT
1 TACGAGATAA-GCCTAATGGCCGATGTGATGAATGT
61031659 TACGAGATAAGCCTAATGGCCGATGTGATGAATGT
1 TACGAGATAAGCCTAATGGCCGATGTGATGAATGT
61031694 GAAAGTGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 3 0.09
35 30 0.91
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (35 bp):
TACGAGATAAGCCTAATGGCCGATGTGATGAATGT
Found at i:61031679 original size:81 final size:81
Alignment explanation
Indices: 61031582--61031738 Score: 273
Period size: 81 Copynumber: 1.9 Consensus size: 81
61031572 ATATATATGT
61031582 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCC-AATGGCCG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTG-T-AGGCCTAATGGCCG
61031646 ATGTGATGAATGTTACGA
64 ATGTGATGAATGTTACGA
*
61031664 GATAA-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGTAGGCCTAATGGCCGAT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGTAGGCCTAATGGCCGAT
61031728 GTGATGAATGT
66 GTGATGAATGT
61031739 GAAAGTGTAT
Statistics
Matches: 73, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
79 5 0.07
80 22 0.30
81 41 0.56
82 5 0.07
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (81 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGTAGGCCTAATGGCCGAT
GTGATGAATGTTACGA
Found at i:61032846 original size:24 final size:24
Alignment explanation
Indices: 61032814--61032864 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
61032804 AAGATTATTT
61032814 TAAGGATTTGAATTGAGTCTGTTG
1 TAAGGATTTGAATTGAGTCTGTTG
61032838 TAAGGATTTGAATTGAGTCTGTTG
1 TAAGGATTTGAATTGAGTCTGTTG
61032862 TAA
1 TAA
61032865 TAAGATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.27, T:0.41
Consensus pattern (24 bp):
TAAGGATTTGAATTGAGTCTGTTG
Found at i:61037135 original size:1 final size:1
Alignment explanation
Indices: 61036983--61037121 Score: 269
Period size: 1 Copynumber: 139.0 Consensus size: 1
61036973 CATAGACCTC
61036983 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
61037048 AAAAAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
61037113 AAAAAAAAA
1 AAAAAAAAA
61037122 TTTAATCATA
Statistics
Matches: 136, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
1 136 1.00
ACGTcount: A:0.99, C:0.01, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:61044337 original size:14 final size:15
Alignment explanation
Indices: 61044318--61044362 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
61044308 CAGCACATAG
61044318 CTCCCCCCACC-CCC
1 CTCCCCCCACCACCC
*
61044332 CTCCCCCCCCCACCC
1 CTCCCCCCACCACCC
* *
61044347 CCCCCCCCACCTCCC
1 CTCCCCCCACCACCC
61044362 C
1 C
61044363 CACCACCATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.07, C:0.87, G:0.00, T:0.07
Consensus pattern (15 bp):
CTCCCCCCACCACCC
Found at i:61044342 original size:10 final size:10
Alignment explanation
Indices: 61044320--61044369 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
61044310 GCACATAGCT
61044320 CCCCCCACCC
1 CCCCCCACCC
61044330 CCCTCCC-CCC
1 CCC-CCCACCC
*
61044340 CCCACC-CCC
1 CCCCCCACCC
61044349 CCCCCCACCTC
1 CCCCCCACC-C
61044360 CCCCACCACC
1 CCCC-CCACC
61044370 ATCATATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 10 0.29
10 11 0.32
11 8 0.24
12 5 0.15
ACGTcount: A:0.10, C:0.86, G:0.00, T:0.04
Consensus pattern (10 bp):
CCCCCCACCC
Found at i:61044342 original size:12 final size:13
Alignment explanation
Indices: 61044318--61044363 Score: 67
Period size: 12 Copynumber: 3.5 Consensus size: 13
61044308 CAGCACATAG
*
61044318 CTCCCCCCACCCCC
1 CTCCCCCC-CCCAC
61044332 CTCCCCCCCCCAC
1 CTCCCCCCCCCAC
61044345 C-CCCCCCCCCAC
1 CTCCCCCCCCCAC
61044357 CTCCCCC
1 CTCCCCC
61044364 ACCACCATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 12 0.40
13 10 0.33
14 8 0.27
ACGTcount: A:0.07, C:0.87, G:0.00, T:0.07
Consensus pattern (13 bp):
CTCCCCCCCCCAC
Found at i:61044342 original size:17 final size:16
Alignment explanation
Indices: 61044320--61044354 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
61044310 GCACATAGCT
61044320 CCCCCCACCCCCCTCCC
1 CCCCCCACCCCCC-CCC
61044337 CCCCCCACCCCCCCCC
1 CCCCCCACCCCCCCCC
61044353 CC
1 CC
61044355 ACCTCCCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.06, C:0.91, G:0.00, T:0.03
Consensus pattern (16 bp):
CCCCCCACCCCCCCCC
Found at i:61045289 original size:27 final size:28
Alignment explanation
Indices: 61045259--61045314 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
61045249 GTCCTAACTC
61045259 AAACTTTG-AAAATTACATTTTGCCCCT
1 AAACTTTGCAAAATTACATTTTGCCCCT
* *
61045286 AAACTTTGCATATTTACATTTTGCCCCT
1 AAACTTTGCAAAATTACATTTTGCCCCT
61045314 A
1 A
61045315 GGCTCGAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (28 bp):
AAACTTTGCAAAATTACATTTTGCCCCT
Found at i:61052424 original size:94 final size:96
Alignment explanation
Indices: 61052256--61052429 Score: 282
Period size: 94 Copynumber: 1.8 Consensus size: 96
61052246 ACCTAGCCCA
*
61052256 GATATAACACCAGCACGAATGCCTTCGGAACTTAGCACGGAGTATATCACTAGCACGAATGCTCT
1 GATACAACACCAGCACGAATGCCTTCGGAACTTAGCACGGAGTATATCACTAGCACGAATGCTCT
61052321 TCGGAACTTAGTCCGTGTCGGAATTAGTCCG
66 TCGGAACTTAGTCCGTGTCGGAATTAGTCCG
* * *
61052352 GATACAACACTAGCACGAATG-CTCTCGGGATTTAGC-CGGA-TATATCACTAGCACGAATGCTC
1 GATACAACACCAGCACGAATGCCT-TCGGAACTTAGCACGGAGTATATCACTAGCACGAATGCTC
61052414 TTCGGAACTTAGTCCG
65 TTCGGAACTTAGTCCG
61052430 GATACATCAC
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
94 38 0.52
95 6 0.08
96 29 0.40
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (96 bp):
GATACAACACCAGCACGAATGCCTTCGGAACTTAGCACGGAGTATATCACTAGCACGAATGCTCT
TCGGAACTTAGTCCGTGTCGGAATTAGTCCG
Found at i:61052442 original size:40 final size:40
Alignment explanation
Indices: 61052344--61052675 Score: 458
Period size: 40 Copynumber: 8.4 Consensus size: 40
61052334 CGTGTCGGAA
* * *
61052344 TTAGTCCGGATACAACACTAGCACGAATGCTC-TCGGGAT
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
* *
61052383 TTAG-CCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
* *
61052422 TTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGAT
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
* *
61052462 TTAGCCCGGATATATCCACTAGCACGAATGCT-TTCGGAAC
1 TTAGCCCGGATACAT-CACTAGCACGAATGCTCTTCGGGAC
* * * *
61052502 TTAGTCTGGATACATCA-TAGCATGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
*
61052541 TTAGCCCGGATACAACACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
* *
61052581 TTAGCCCAGATACATCACTAGCATGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
* *
61052621 TTAGACCGGATACATCACTAGCACGAGTGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
61052661 TTAGCCCGGAT-CATC
1 TTAGCCCGGATACATC
61052676 GTCGAGACCT
Statistics
Matches: 258, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
38 37 0.14
39 39 0.15
40 166 0.64
41 16 0.06
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
Found at i:61052570 original size:119 final size:117
Alignment explanation
Indices: 61052352--61052671 Score: 444
Period size: 119 Copynumber: 2.7 Consensus size: 117
61052342 AATTAGTCCG
* * * *
61052352 GATACAACACTAGCACGAATGCTCTCGGGATTTAGCCGGATATATCACTAGCACGAATGCTCTTC
1 GATACATCACTAGCACGAATGCTTTCGGGACTTAGCCGGATACATCACTAGCACGAATGCTCTTC
* * * *
61052417 GGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCG
66 GG-ACTTAGCCCGGATACAACACTAGCACGAATGCTCTTCGGGACTTAGCCCA
* * * *
61052470 GATATATCCACTAGCACGAATGCTTTCGGAACTTAGTCTGGATACATCA-TAGCATGAATGCTCT
1 GATACAT-CACTAGCACGAATGCTTTCGGGACTTAG-CCGGATACATCACTAGCACGAATGCTCT
61052534 TCGAGACTTAGCCCGGATACAACACTAGCACGAATGCTCTTCGGGACTTAGCCCA
64 TCG-GACTTAGCCCGGATACAACACTAGCACGAATGCTCTTCGGGACTTAGCCCA
* *
61052589 GATACATCACTAGCATGAATGCTCTTCGGGACTTAGACCGGATACATCACTAGCACGAGTGCTCT
1 GATACATCACTAGCACGAATGCT-TTCGGGACTTAG-CCGGATACATCACTAGCACGAATGCTCT
61052654 TCGGGACTTAGCCCGGAT
64 TC-GGACTTAGCCCGGAT
61052672 CATCGTCGAG
Statistics
Matches: 177, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
118 20 0.11
119 116 0.66
120 40 0.23
121 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (117 bp):
GATACATCACTAGCACGAATGCTTTCGGGACTTAGCCGGATACATCACTAGCACGAATGCTCTTC
GGACTTAGCCCGGATACAACACTAGCACGAATGCTCTTCGGGACTTAGCCCA
Found at i:61054990 original size:47 final size:47
Alignment explanation
Indices: 61054912--61055315 Score: 584
Period size: 47 Copynumber: 8.6 Consensus size: 47
61054902 CCCTTCGGGA
* * * * * *
61054912 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61054958 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTACGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GGC
* *
61055007 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61055054 CTTATCACCATAT-TACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCA-CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61055101 CTTATCACATATATACACTTTCACATTCATCACATCGGCTC-TTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGC-CATTAGGC
61055148 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61055195 CTTATCACATATATATACAC-TTCACATTCATCACATTGGCCATTTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
*
61055244 CATATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61055290 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
61055316 CACAATTATC
Statistics
Matches: 327, Mismatches: 20, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
46 31 0.09
47 183 0.56
48 89 0.27
49 24 0.07
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61055296 original size:189 final size:189
Alignment explanation
Indices: 61054912--61055316 Score: 588
Period size: 189 Copynumber: 2.1 Consensus size: 189
61054902 CCCTTCGGGA
* * * * *
61054912 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCTCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCTCTATCACATATATACAC
61054977 TTTCACATTCATCACATCGGCCATTACGGCCTCATCACATATATACACTTTCACATTCATCACAT
66 TTTCACATTCATCACATCGGCCATTACGGCCTCATCACATATATACACTTTCACATTCATCACAT
* *
61055042 CGGCTATTAGGCCTTATCACCATATTACACTTTCACATTCATCACATCGGCCATTAGGC
131 CGGCCATTAGGCCATATCACCATATTACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61055101 CTTATCACATATATACACTTTCACATTCATCACATCGGCTC-TTAGGC-CTTATCACATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGC-CACTAGGCTC-TATCACATATATAC
*
61055164 ACTTTCACATTCATCACATCGGCCATTA-GGCCTTATCACATATATATACAC-TTCACATTCATC
64 ACTTTCACATTCATCACATCGGCCATTACGGCCTCATCAC--ATATATACACTTTCACATTCATC
* *
61055227 ACATTGGCCATTTCGGCCATATCA-CATATATACACTTTCACATTCATCACATCGGCCATTAGG-
127 ACATCGGCCA-TTAGGCCATATCACCATAT-TACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61055290 CTTATCACATATATATACATTCACATC
1 CTTATCACATATATACACTTTCACATC
61055317 ACAATTATCC
Statistics
Matches: 195, Mismatches: 15, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
188 11 0.06
189 129 0.66
190 55 0.28
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (189 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCTCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTACGGCCTCATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCATATCACCATATTACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61059397 original size:67 final size:67
Alignment explanation
Indices: 61059264--61059417 Score: 179
Period size: 67 Copynumber: 2.3 Consensus size: 67
61059254 CTAGCCAGTT
* * * *
61059264 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCAACCTAGCTTCA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGT-CTACACATAGAACCACCCATGCAACCTAGCTTCA
61059329 T-A
65 TAA
* * *
61059331 TATCCCGTAGCTCTCTTGTCTACATGGT-T-TACACATAGTATCACCCATGCAACCTAGCTACAT
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTCTACACATAGAACCACCCATGCAACCTAGCT---T
61059394 CATAA
63 CATAA
*
61059399 TGTCTCGTAGCTCTCTTGT
1 TATCTCGTAGCTCTCTTGT
61059418 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 24 0.32
66 1 0.01
67 31 0.42
68 18 0.24
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (67 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTCTACACATAGAACCACCCATGCAACCTAGCTTCAT
AA
Found at i:61060162 original size:30 final size:30
Alignment explanation
Indices: 61060128--61060188 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
61060118 TCCTTAACTC
61060128 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
61060158 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
61060188 A
1 A
61060189 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:61061848 original size:7 final size:7
Alignment explanation
Indices: 61061836--61061923 Score: 61
Period size: 7 Copynumber: 12.1 Consensus size: 7
61061826 AATCTTCAAA
61061836 AAAATTT
1 AAAATTT
61061843 AAAATTT
1 AAAATTT
*
61061850 GAAATTT
1 AAAATTT
*
61061857 AAAA-AT
1 AAAATTT
*
61061863 AAAGATTA
1 AAA-ATTT
*
61061871 AAAATTC
1 AAAATTT
*
61061878 AAAATTC
1 AAAATTT
*
61061885 AAAATTCA
1 AAAATT-T
*
61061893 AAAACTTA
1 AAAA-TTT
61061901 AAAATTT
1 AAAATTT
*
61061908 AATATTT
1 AAAATTT
61061915 AAAACTTT
1 AAAA-TTT
61061923 A
1 A
61061924 GTCCATATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
6 4 0.06
7 44 0.67
8 16 0.24
9 2 0.03
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (7 bp):
AAAATTT
Found at i:61061862 original size:8 final size:8
Alignment explanation
Indices: 61061809--61061923 Score: 57
Period size: 7 Copynumber: 14.8 Consensus size: 8
61061799 TTTATATGTT
61061809 AATTTAAA
1 AATTTAAA
61061817 AATTATAAA
1 AATT-TAAA
61061826 AATCTTCAAAAA
1 AAT-TT---AAA
61061838 AATTT-AA
1 AATTTAAA
*
61061845 AATTT-GA
1 AATTTAAA
61061852 AATTTAAA
1 AATTTAAA
61061860 AA--TAAA
1 AATTTAAA
*
61061866 GA-TTAAA
1 AATTTAAA
*
61061873 AA-TTCAA
1 AATTTAAA
*
61061880 AA-TTCAA
1 AATTTAAA
*
61061887 AATTCAAA
1 AATTTAAA
*
61061895 AACTTAAA
1 AATTTAAA
61061903 AATTT-AA
1 AATTTAAA
*
61061910 TATTTAAA
1 AATTTAAA
*
61061918 ACTTTA
1 AATTTA
61061924 GTCCATATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
6 5 0.06
7 37 0.44
8 26 0.31
9 8 0.09
10 1 0.01
11 2 0.02
12 6 0.07
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (8 bp):
AATTTAAA
Found at i:61061875 original size:21 final size:22
Alignment explanation
Indices: 61061851--61061905 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
61061841 TTAAAATTTG
61061851 AAATTTAAAAAT-AAAGATT-AA
1 AAATTTAAAAATCAAA-ATTCAA
* *
61061872 AAATTCAAAATTCAAAATTCAA
1 AAATTTAAAAATCAAAATTCAA
*
61061894 AAACTTAAAAAT
1 AAATTTAAAAAT
61061906 TTAATATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (22 bp):
AAATTTAAAAATCAAAATTCAA
Found at i:61067748 original size:35 final size:35
Alignment explanation
Indices: 61067678--61067749 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
61067668 TTTAATTGTG
*
61067678 TTATTAATTTATTATTTTAAATTATAAATTTAAAT
1 TTATTAATTTATTATTTTAAATTATAAATTAAAAT
* *
61067713 TTATTAATTT-TTATATTT-AGTTTTAAAGTTAAAAT
1 TTATTAATTTATTAT-TTTAAATTATAAA-TTAAAAT
61067748 TT
1 TT
61067750 TAATAGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 11 0.34
35 21 0.66
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (35 bp):
TTATTAATTTATTATTTTAAATTATAAATTAAAAT
Found at i:61069103 original size:47 final size:46
Alignment explanation
Indices: 61069043--61069172 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 46
61069033 ACAACTCTTA
* * **
61069043 GCCGATGCGTGTCCCAGACACGTTTTACACTGGCTA-TCATCGTTGAG
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGC-ACTCAT-AATGAG
* ** * *
61069090 GCCGATGCATGTCCCAGGCGTGGTCTTATACTGGCACTCATAATGTG
1 GCCGATGCATGTCCCAGAC-ACGTCTTACACTGGCACTCATAATGAG
*
61069137 GCCGATGCATGTCCCAGACATGTCTTACACTGGCAC
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCAC
61069173 ACAAGAAATC
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
46 14 0.21
47 39 0.57
48 15 0.22
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGAG
Found at i:61074662 original size:46 final size:45
Alignment explanation
Indices: 61074595--61074769 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
61074585 TGTAACCCGC
* * *
61074595 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* *
61074641 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* *** *
61074687 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCG-GCATTCGCAT
61074734 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
61074770 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 63 0.60
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:61074714 original size:93 final size:93
Alignment explanation
Indices: 61074602--61074774 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
61074592 CGCCCATAAG
* *
61074602 CGAACTCGGACTCAACTCAACGAGCTC-AGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGA-ACATTCGCATCCATAAGTGAACTCAGACTCAACTC
61074666 AACGAGTTCGGATGCCTAGTTACATCTCT
65 AACGAGTTCGGATGCCTAGTTACATCTCT
* *
61074695 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
61074760 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
61074775 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
93 74 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:61078591 original size:120 final size:120
Alignment explanation
Indices: 61078377--61078615 Score: 388
Period size: 120 Copynumber: 2.0 Consensus size: 120
61078367 CGGGATTTAA
* * *
61078377 CCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCTGGATATAGCAACTCGCACAAATG
1 CCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
* *
61078442 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATTCCTTGGGAACTTAGC
66 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGAACTTAGC
* * *
61078497 CCGGATATAGTAACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
* *
61078562 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAG
66 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGAACTTAG
61078616 TCGGTTATCA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (120 bp):
CCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGAACTTAGC
Found at i:61078615 original size:40 final size:40
Alignment explanation
Indices: 61078363--61078608 Score: 347
Period size: 40 Copynumber: 6.2 Consensus size: 40
61078353 AACCCAAGTA
* * *
61078363 CCTTCGGGATTTA-ACCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
61078402 CCTTCGGGACTTAGCCTGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
61078442 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
61078482 CCTT-GGGAACTTAGCCCGGATATAGTAACTAGCATAAATG
1 CCTTCGGG-ACTTAGCCCGGATATAGTCACTAGCACAAATG
*
61078522 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
61078562 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
61078602 CCTTCGG
1 CCTTCGG
61078609 ATCTTAGTCG
Statistics
Matches: 190, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
39 15 0.08
40 171 0.90
41 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:61080034 original size:13 final size:13
Alignment explanation
Indices: 61080018--61080045 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
61080008 TTTATTATTT
61080018 TTAACACAAAATA
1 TTAACACAAAATA
61080031 TTAACACAAAATA
1 TTAACACAAAATA
61080044 TT
1 TT
61080046 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:61086645 original size:40 final size:40
Alignment explanation
Indices: 61086436--61086638 Score: 317
Period size: 39 Copynumber: 5.2 Consensus size: 40
61086426 AACCCAAGTA
* *
61086436 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
61086475 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAAT-
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
61086514 CCTT-GGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
61086553 CCTTC-GGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
61086592 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
61086632 CCTTCGG
1 CCTTCGG
61086639 ATCTTAGTCG
Statistics
Matches: 153, Mismatches: 6, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
38 32 0.21
39 60 0.39
40 60 0.39
41 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:61088067 original size:13 final size:13
Alignment explanation
Indices: 61088051--61088078 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
61088041 TTTATTATTT
61088051 TTAACACAAAATA
1 TTAACACAAAATA
61088064 TTAACACAAAATA
1 TTAACACAAAATA
61088077 TT
1 TT
61088079 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:61090706 original size:47 final size:45
Alignment explanation
Indices: 61090595--61090812 Score: 217
Period size: 47 Copynumber: 4.7 Consensus size: 45
61090585 TATATGTGCT
* *
61090595 GATGCATGTCCCAGACATGTCTTACACTAGCAC-AACTCTT-AGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCA-TCTTGAGCC
* * * *
61090639 GATGCGTGTCCCATATATGTCCTACACTGGCTA-TCATCGTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATC-TTGA-GCC
* * * *
61090686 AATGCATGTCCCAGACATGTCTTACTCTGGCACTCGTCTCTGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCT-TGAGCC
* **
61090732 GATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTTG-AGCC
*
61090780 GATGCATGTCCCAGACATGTCTTACACTAGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
61090813 ACAAGAAATT
Statistics
Matches: 141, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 28 0.20
45 4 0.03
46 22 0.16
47 64 0.45
48 23 0.16
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTTGAGCC
Found at i:61090797 original size:94 final size:92
Alignment explanation
Indices: 61090540--61090813 Score: 281
Period size: 94 Copynumber: 2.9 Consensus size: 92
61090530 ATGGGATAAG
* * * *
61090540 TTGCCGATGCCATGTCCTAGACATGGTCTTATACTAGCTCTCGTATATATGT-GCTGATGCATGT
1 TTGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTC--ATA-ATGTAGCCGATGCATGT
61090604 CCCAGACATGTCTTACACTAGCACAACTCT
63 CCCAGACATGTCTTACACTAGCACAACTCT
* * * * * * ** *
61090634 TAGCCGATG-CGTGTCCCATATAT-GTCCTACACTGGCTA-TCATCGT-TGAGGCCAATGCATGT
1 TTGCCGATGCCATGTCCCAGACATGGTCTTATACTGGC-ACTCATAATGT-A-GCCGATGCATGT
* * *
61090695 CCCAGACATGTCTTACTCTGGCAC-TCGTCT
63 CCCAGACATGTCTTACACTAGCACAAC-TCT
61090725 CTGTGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTAGCCGATGCATGTC
1 -T-TGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTAGCCGATGCATGTC
61090790 CCAGACATGTCTTACACTAGCACA
64 CCAGACATGTCTTACACTAGCACA
61090814 CAAGAAATTT
Statistics
Matches: 141, Mismatches: 27, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
88 1 0.01
89 1 0.01
90 3 0.02
91 35 0.25
92 13 0.09
93 17 0.12
94 53 0.38
95 17 0.12
96 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
TTGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTAGCCGATGCATGTCCC
AGACATGTCTTACACTAGCACAACTCT
Found at i:61091171 original size:30 final size:30
Alignment explanation
Indices: 61091137--61091194 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61091127 AAATTCACAT
* *
61091137 CTTTGGAAAAATGATCATTTTGCCCCTAAA
1 CTTTGGAAAAATGACCATTTTACCCCTAAA
*
61091167 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGAAAAATGACCATTTTACCCCTA
61091195 TGCTCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (30 bp):
CTTTGGAAAAATGACCATTTTACCCCTAAA
Found at i:61092505 original size:26 final size:26
Alignment explanation
Indices: 61092469--61092536 Score: 120
Period size: 26 Copynumber: 2.6 Consensus size: 26
61092459 ACGGTGGCAC
61092469 TTGGGCCTTAGCCCATGTAGCCTCAG
1 TTGGGCCTTAGCCCATGTAGCCTCAG
61092495 TTGGGCCTTAGCCCATGTAGCCTCAG
1 TTGGGCCTTAGCCCATGTAGCCTCAG
61092521 TTGGG-CTTGAGCCCAT
1 TTGGGCCTT-AGCCCAT
61092537 ATCACAATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 3 0.07
26 38 0.93
ACGTcount: A:0.15, C:0.29, G:0.28, T:0.28
Consensus pattern (26 bp):
TTGGGCCTTAGCCCATGTAGCCTCAG
Found at i:61096249 original size:48 final size:48
Alignment explanation
Indices: 61096180--61096641 Score: 798
Period size: 48 Copynumber: 9.6 Consensus size: 48
61096170 AGATAGATAT
61096180 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
61096228 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
61096276 ATATGTATATGAGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
** *
61096324 ATATGTATATGTGGTAAAGCCGAATGGCTAGCGTGAACTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
61096372 ATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
61096420 ATATGCATATGAGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
61096468 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
61096516 ATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
61096564 ATATGTATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
61096612 ATATGTATATGTGCTAAAGCCGAATGGCTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTA
61096642 GTGATTCGGC
Statistics
Matches: 391, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 391 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:61096864 original size:37 final size:37
Alignment explanation
Indices: 61096814--61096916 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
61096804 GGAAATATAT
61096814 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
61096851 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
61096888 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
61096917 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:61100841 original size:47 final size:47
Alignment explanation
Indices: 61100766--61100979 Score: 156
Period size: 46 Copynumber: 4.6 Consensus size: 47
61100756 TAAGGCGCCT
* *
61100766 ATGCCATGTCCTAGACATGGTCTCACACTCACTCAT-ATCTC-AAGTCA
1 ATGCCATGTCCCAGACAT-GTCTTACACTCACT-ATCATCTCGAAGTCA
* * * *
61100813 ATGCCATTTCCCAGACATAGTCTTACACTGACTATCATCTCGTAGTCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTCACTATCATCTCGAAGTCA
** * * * *
61100861 ATG-CATGTCCCAGACATGTCTTACACTGGCT-TGCGTCTCGAGGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTCACTAT-CATCTCGAAGTCA
* * *
61100907 ATG-CATGTCCCAAACATGTCTTACACT-AGCCT-TCGTCTC-AACGTCG
1 ATGCCATGTCCCAGACATGTCTTACACTCA--CTATCATCTCGAA-GTCA
*
61100953 ATGCCATGTCCTAGACATGGTCTTACA
1 ATGCCATGTCCCAGACAT-GTCTTACA
61100980 TTGGCTCTCA
Statistics
Matches: 140, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 62 0.44
47 61 0.44
48 15 0.11
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGTCTTACACTCACTATCATCTCGAAGTCA
Found at i:61100900 original size:46 final size:47
Alignment explanation
Indices: 61100821--61101027 Score: 185
Period size: 46 Copynumber: 4.4 Consensus size: 47
61100811 CAATGCCATT
* *
61100821 TCCCAGACATAGTCTTACACTGACTATCATCTCGTA-GTCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCATCTCGTACGCCGATGCATG
* *
61100868 TCCCAGACATGTCTTACACTGGCT-TGCGTCTCG-AGGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTAT-CATCTCGTACGCCGATGCATG
* * * * *
61100914 TCCCAAACATGTCTTACACTAGCCT-TCGTCTC-AACGTCGATGCCATG
1 TCCCAGACATGTCTTACACT-GGCTATCATCTCGTACGCCGATG-CATG
* * * * *
61100961 TCCTAGACATGGTCTTACATTGGCTCTCATAAT-GT-GGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCAT-CTCGTACGCCGATGCATG
61101008 TCCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
61101028 AGCTCTCACA
Statistics
Matches: 133, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 70 0.53
47 42 0.32
48 18 0.14
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
TCCCAGACATGTCTTACACTGGCTATCATCTCGTACGCCGATGCATG
Found at i:61106016 original size:40 final size:40
Alignment explanation
Indices: 61105914--61106049 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
61105904 TATTATAATC
* * *
61105914 TCGCACACTAAGTGCCTTT-CATAGTCGAAGCTATTTCAAT
1 TCGCACACTAAGTG-CTTTATATAGCCGAAGCTATTTCGAT
* * ** *
61105954 CTCTCACATTAAGTGCCATATATAGCCTAAGCTATTTCGAT
1 -TCGCACACTAAGTGCTTTATATAGCCGAAGCTATTTCGAT
61105995 TCGCACACTAAGTGCTTTATATAGCCGAAGCTA-TTCTGAT
1 TCGCACACTAAGTGCTTTATATAGCCGAAGCTATTTC-GAT
61106035 TCGCACACTAAGTGC
1 TCGCACACTAAGTGC
61106050 CAAACATAGT
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.04
40 48 0.60
41 29 0.36
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (40 bp):
TCGCACACTAAGTGCTTTATATAGCCGAAGCTATTTCGAT
Found at i:61106520 original size:29 final size:29
Alignment explanation
Indices: 61106456--61106521 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
61106446 CTTTCATTTA
* *
61106456 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
61106485 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
61106513 TTTACTCAA
1 TTT-CTCAA
61106522 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:61107883 original size:27 final size:26
Alignment explanation
Indices: 61107839--61107889 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
61107829 GGACTACCAA
*
61107839 TTTACCCCTGGAGGGTAAAATGACTAT
1 TTTACCCCTGGAGCGT-AAATGACTAT
* *
61107866 TTTACCCCTTGTGCGTAAATGACT
1 TTTACCCCTGGAGCGTAAATGACT
61107890 TACTTGTGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (26 bp):
TTTACCCCTGGAGCGTAAATGACTAT
Found at i:61111262 original size:488 final size:488
Alignment explanation
Indices: 61110346--61111322 Score: 1945
Period size: 488 Copynumber: 2.0 Consensus size: 488
61110336 AAATTGCAAA
61110346 AGTTGAGTAGTTAAATTAAAGGGGCTAAATAGATAATATAACCCATGGGAATTTAGTTACTGGAA
1 AGTTGAGTAGTTAAATTAAAGGGGCTAAATAGATAATATAACCCATGGGAATTTAGTTACTGGAA
61110411 CTAGATGATGAAATATATAATTAGATGGCTTAATTAGGACATGGATTAAGTAAAGCTTAGTTAAT
66 CTAGATGATGAAATATATAATTAGATGGCTTAATTAGGACATGGATTAAGTAAAGCTTAGTTAAT
61110476 AAATTTAAAAAAATTACAAAATAACCATAGTATATATATTAAATTAAACTAAAGAAAGATGAGAT
131 AAATTTAAAAAAATTACAAAATAACCATAGTATATATATTAAATTAAACTAAAGAAAGATGAGAT
61110541 ATTTCATTGTCACCATCTTCTTCACAGCACAACACAGGAAACCTAGGGTTTTCATGGTTTTTCAA
196 ATTTCATTGTCACCATCTTCTTCACAGCACAACACAGGAAACCTAGGGTTTTCATGGTTTTTCAA
61110606 TTGAAGCCTTAATTAGTAAATGTTTTGGTGCATGTTCTTAGTAATTTTTATGTTTTTGAACTCAT
261 TTGAAGCCTTAATTAGTAAATGTTTTGGTGCATGTTCTTAGTAATTTTTATGTTTTTGAACTCAT
61110671 ATTAGCTTAATCTAGCTATTCTGAAGACTAATTTGTAAAATTGTTAAATGTTATAAATGTTTCCA
326 ATTAGCTTAATCTAGCTATTCTGAAGACTAATTTGTAAAATTGTTAAATGTTATAAATGTTTCCA
61110736 TTGATGATTTGAGTTATTTTATAACAACCCGATTTAGGGCCTAGTTGAAACAATGGTTTCAGGAC
391 TTGATGATTTGAGTTATTTTATAACAACCCGATTTAGGGCCTAGTTGAAACAATGGTTTCAGGAC
61110801 CACGAATTCGACGTATTAAAACTTGTCTTTATT
456 CACGAATTCGACGTATTAAAACTTGTCTTTATT
*
61110834 AGTTGAGTAGTTAAATTAAAGGGGCTAAATGGATAATATAACCCATGGGAATTTAGTTACTGGAA
1 AGTTGAGTAGTTAAATTAAAGGGGCTAAATAGATAATATAACCCATGGGAATTTAGTTACTGGAA
61110899 CTAGATGATGAAATATATAATTAGATGGCTTAATTAGGACATGGATTAAGTAAAGCTTAGTTAAT
66 CTAGATGATGAAATATATAATTAGATGGCTTAATTAGGACATGGATTAAGTAAAGCTTAGTTAAT
61110964 AAATTTAAAAAAATTACAAAATAACCATAGTATATATATTAAATTAAACTAAAGAAAGATGAGAT
131 AAATTTAAAAAAATTACAAAATAACCATAGTATATATATTAAATTAAACTAAAGAAAGATGAGAT
61111029 ATTTCATTGTCACCATCTTCTTCACAGCACAACACAGGAAACCTAGGGTTTTCATGGTTTTTCAA
196 ATTTCATTGTCACCATCTTCTTCACAGCACAACACAGGAAACCTAGGGTTTTCATGGTTTTTCAA
61111094 TTGAAGCCTTAATTAGTAAATGTTTTGGTGCATGTTCTTAGTAATTTTTATGTTTTTGAACTCAT
261 TTGAAGCCTTAATTAGTAAATGTTTTGGTGCATGTTCTTAGTAATTTTTATGTTTTTGAACTCAT
61111159 ATTAGCTTAATCTAGCTATTCTGAAGACTAATTTGTAAAATTGTTAAATGTTATAAATGTTTCCA
326 ATTAGCTTAATCTAGCTATTCTGAAGACTAATTTGTAAAATTGTTAAATGTTATAAATGTTTCCA
61111224 TTGATGATTTGAGTTATTTTATAACAACCCGATTTAGGGCCTAGTTGAAACAATGGTTTCAGGAC
391 TTGATGATTTGAGTTATTTTATAACAACCCGATTTAGGGCCTAGTTGAAACAATGGTTTCAGGAC
61111289 CACGAATTCGACGTATTAAAACTTGTCTTTATT
456 CACGAATTCGACGTATTAAAACTTGTCTTTATT
61111322 A
1 A
61111323 CATTTTTATT
Statistics
Matches: 488, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
488 488 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (488 bp):
AGTTGAGTAGTTAAATTAAAGGGGCTAAATAGATAATATAACCCATGGGAATTTAGTTACTGGAA
CTAGATGATGAAATATATAATTAGATGGCTTAATTAGGACATGGATTAAGTAAAGCTTAGTTAAT
AAATTTAAAAAAATTACAAAATAACCATAGTATATATATTAAATTAAACTAAAGAAAGATGAGAT
ATTTCATTGTCACCATCTTCTTCACAGCACAACACAGGAAACCTAGGGTTTTCATGGTTTTTCAA
TTGAAGCCTTAATTAGTAAATGTTTTGGTGCATGTTCTTAGTAATTTTTATGTTTTTGAACTCAT
ATTAGCTTAATCTAGCTATTCTGAAGACTAATTTGTAAAATTGTTAAATGTTATAAATGTTTCCA
TTGATGATTTGAGTTATTTTATAACAACCCGATTTAGGGCCTAGTTGAAACAATGGTTTCAGGAC
CACGAATTCGACGTATTAAAACTTGTCTTTATT
Found at i:61112479 original size:42 final size:42
Alignment explanation
Indices: 61112404--61112556 Score: 193
Period size: 42 Copynumber: 3.6 Consensus size: 42
61112394 TGAGACTATT
**
61112404 TGTAAGACCATATAT-GGATATGGCATC-ATTATGAGATTTTG
1 TGTAAGACCATATATGGGATATGGCATCGA-TATGAGATTTCA
61112445 TGTAAGACCATATATGGGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATATGGGATATGGCATCGATATGAGATTTCA
** * * *
61112487 TGTAAGACCATAGCTGGGCTATTGGTATCGATATGAGATTACA
1 TGTAAGACCATATATGGGATA-TGGCATCGATATGAGATTTCA
* *
61112530 TGTAAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATATATGGGATATGGCAT
61112557 TGGTATAGTA
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
41 15 0.15
42 45 0.46
43 38 0.39
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATATGGGATATGGCATCGATATGAGATTTCA
Found at i:61115687 original size:19 final size:19
Alignment explanation
Indices: 61115663--61115709 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
61115653 TGTGTGGGAT
61115663 AGCCACATGGCCATGTTAG
1 AGCCACATGGCCATGTTAG
61115682 AGCCACATGGCCATGTTAG
1 AGCCACATGGCCATGTTAG
61115701 AGCCACATG
1 AGCCACATG
61115710 AGTTGGGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (19 bp):
AGCCACATGGCCATGTTAG
Found at i:61117189 original size:31 final size:31
Alignment explanation
Indices: 61117153--61117216 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
61117143 TTTTATTTTG
61117153 CTACTGAGGCCGTGTGGGAGTTTTGGTCAAC
1 CTACTGAGGCCGTGTGGGAGTTTTGGTCAAC
61117184 CTACTGAGGCCGTGTGGGAGTTTTGGTCAAC
1 CTACTGAGGCCGTGTGGGAGTTTTGGTCAAC
61117215 CT
1 CT
61117217 GAACTATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.16, C:0.20, G:0.34, T:0.30
Consensus pattern (31 bp):
CTACTGAGGCCGTGTGGGAGTTTTGGTCAAC
Found at i:61118257 original size:13 final size:14
Alignment explanation
Indices: 61118227--61118258 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
61118217 ATATTATATG
61118227 CATTTTTTATTTAA
1 CATTTTTTATTTAA
61118241 -ATTTTTTA-TTAA
1 CATTTTTTATTTAA
61118253 CATTTT
1 CATTTT
61118259 AATATACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (14 bp):
CATTTTTTATTTAA
Found at i:61120077 original size:40 final size:40
Alignment explanation
Indices: 61119944--61120098 Score: 192
Period size: 39 Copynumber: 4.0 Consensus size: 40
61119934 ATATAATATA
* * ** *
61119944 TATATCCGGG-TTAAGTCCCGAAGGCATTCATGCTGGTGT
1 TATATCCGGGCTAAAGTCCCGCAGGCATTTGTGCTGGTAT
61119983 TATATCCGGGC-AAAGTCCCGCAGGCATTTGTGCTGGTAT
1 TATATCCGGGCTAAAGTCCCGCAGGCATTTGTGCTGGTAT
*
61120022 TATATCTGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTAT
1 TATATCCGGGCTAAAGTCCCGCAGGCATTTGTGCTGGTAT
* * *
61120061 TATATCCAGGCTTAAAGTCCCGCATGC-TTTGTGGTGGT
1 TATATCCGGGC-TAAAGTCCCGCAGGCATTTGTGCTGGT
61120099 GATTGGATTT
Statistics
Matches: 103, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
39 65 0.63
40 38 0.37
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (40 bp):
TATATCCGGGCTAAAGTCCCGCAGGCATTTGTGCTGGTAT
Found at i:61131280 original size:30 final size:29
Alignment explanation
Indices: 61131201--61131285 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 29
61131191 AGTGTAATAG
* *
61131201 AGAACAGTCACAGAGGCTTCCACTTATCAA
1 AGAACAGT-ACAAAGGCTTCCACATATCAA
* * * * *
61131231 AGAAAAGCCATAAATGCTTCCACATATCTA
1 AGAACAG-TACAAAGGCTTCCACATATCAA
61131261 AGAACAGATACAAAGGCTTCCACAT
1 AGAACAG-TACAAAGGCTTCCACAT
61131286 TTCAGTAAAT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (29 bp):
AGAACAGTACAAAGGCTTCCACATATCAA
Found at i:61131455 original size:51 final size:53
Alignment explanation
Indices: 61131400--61131537 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 53
61131390 AGGCGACGTG
*
61131400 ATAGTCCTAGAATAGGTCTTACACTATATGGT-TTTT-CCCCCATATGATGCC
1 ATAGTCCTAGACTAGGTCTTACACTATATGGTCTTTTCCCCCCATATGATGCC
* * *
61131451 ATAGTCCCAGACTAGGTCTTACACT-TATGGTCTTTTCCCCCCATTTGATGTC
1 ATAGTCCTAGACTAGGTCTTACACTATATGGTCTTTTCCCCCCATATGATGCC
* * *
61131503 ATACTCTTAGACTAGATCTTACACTATATGGTCTT
1 ATAGTCCTAGACTAGGTCTTACACTATATGGTCTT
61131538 CTTGCCATGG
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 6 0.08
51 27 0.36
52 34 0.45
53 9 0.12
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (53 bp):
ATAGTCCTAGACTAGGTCTTACACTATATGGTCTTTTCCCCCCATATGATGCC
Found at i:61140614 original size:27 final size:27
Alignment explanation
Indices: 61140553--61140658 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
61140543 CCACATAGGT
* * *
61140553 GTTCCTTTCACATTGCACCATAAAGGCA
1 GTTCCTTTCATATTGCACCACAAA-GAA
*
61140581 -TTTCTTTCATATTGCACCACAAAGAA
1 GTTCCTTTCATATTGCACCACAAAGAA
* *
61140607 GTTCCTTTCATATTTCATCACAAAGAA
1 GTTCCTTTCATATTGCACCACAAAGAA
* *
61140634 GTTCCTTTCATATTGCGCCATAAAG
1 GTTCCTTTCATATTGCACCACAAAG
61140659 GCTATCATAC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.03
27 64 0.97
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (27 bp):
GTTCCTTTCATATTGCACCACAAAGAA
Found at i:61140770 original size:27 final size:27
Alignment explanation
Indices: 61140699--61141038 Score: 225
Period size: 27 Copynumber: 12.9 Consensus size: 27
61140689 ATTCTTTCGA
* * *
61140699 AGTTCGCCACAAAGGCTCCCTTTTCAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* ** * *
61140726 TGTTAGCTGCAAAGGCTTCCTTTTAAA
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
**
61140753 AGTTAGCCACAAAGGCTTTTTTTTTAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* * * * *
61140780 TGTTTGCCATAAAGACTT-TTTTTTAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* *
61140806 TGTTCA-CCAAAAAGGCTTCCTTTTTAG
1 AGTT-AGCCACAAAGGCTTCCTTTTTAG
* * *
61140833 AGTTAGCCACAAATGTTTCCTTTTCAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* * * *
61140860 AGTTTGCCACAAAGCCTTTCTTTTCAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* *
61140887 AGTTCGCCACAAAGCCTT-CTTTTTCAG
1 AGTTAGCCACAAAGGCTTCCTTTTT-AG
*
61140914 AATTAGCC-CTAAAGGCTTCCTTTTTAG
1 AGTTAGCCAC-AAAGGCTTCCTTTTTAG
* * * *
61140941 TGGTAGTCATAAAGGCTTCAC----TA-
1 AGTTAGCCACAAAGGCTTC-CTTTTTAG
* *
61140964 A-TTAGTCACAAAGGCTTCCTTTTCA-
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* *
61140989 AATTAGCCACAAAGGCTTCATTTTTAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* * *
61141016 TGTTAGCAATAAAGGCTTCCTTT
1 AGTTAGCCACAAAGGCTTCCTTT
61141039 CCTAATGTGT
Statistics
Matches: 245, Mismatches: 54, Indels: 28
0.75 0.17 0.09
Matches are distributed among these distances:
21 1 0.00
22 15 0.06
24 2 0.01
25 2 0.01
26 50 0.20
27 168 0.69
28 7 0.03
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (27 bp):
AGTTAGCCACAAAGGCTTCCTTTTTAG
Found at i:61140819 original size:26 final size:26
Alignment explanation
Indices: 61140770--61140819 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
61140760 CACAAAGGCT
** *
61140770 TTTTTTTTAGTGTTTGCCATAAAGAC
1 TTTTTTTTAGTGTTCACCAAAAAGAC
61140796 TTTTTTTTAGTGTTCACCAAAAAG
1 TTTTTTTTAGTGTTCACCAAAAAG
61140820 GCTTCCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (26 bp):
TTTTTTTTAGTGTTCACCAAAAAGAC
Found at i:61140823 original size:80 final size:81
Alignment explanation
Indices: 61140736--61140942 Score: 215
Period size: 80 Copynumber: 2.6 Consensus size: 81
61140726 TGTTAGCTGC
* *
61140736 AAAGGCTTCCTTTTAAAAGTTAGCCACAAAGGCTTTTTTTTTAGTGTTTGCCATAAAGACTTT-T
1 AAAGGCTTCCTTTTAAAAGTTAGCCACAAAGGCTTTCTTTTTAGTGTTTGCCACAAAGACTTTCT
* *
61140800 TTTTAGTGTTCACCAA
66 TTTCAGAGTTCACCAA
* * * * * *
61140816 AAAGGCTTCCTTTTTAGAGTTAGCCACAAATG-TTTCCTTTTCAGAGTTTGCCACAAAGCCTTTC
1 AAAGGCTTCCTTTTAAAAGTTAGCCACAAAGGCTTT-CTTTTTAGTGTTTGCCACAAAGACTTTC
* *
61140880 TTTTCAGAGTTCGCCAC
65 TTTTCAGAGTTCACCAA
* * * *
61140897 AAAGCCTTCTTTTTCAGAA-TTAGCC-CTAAAGGCTTCCTTTTTAGTG
1 AAAGGCTTCCTTTT-AAAAGTTAGCCAC-AAAGGCTTTCTTTTTAGTG
61140943 GTAGTCATAA
Statistics
Matches: 101, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
79 3 0.03
80 52 0.51
81 43 0.43
82 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (81 bp):
AAAGGCTTCCTTTTAAAAGTTAGCCACAAAGGCTTTCTTTTTAGTGTTTGCCACAAAGACTTTCT
TTTCAGAGTTCACCAA
Found at i:61140838 original size:107 final size:107
Alignment explanation
Indices: 61140700--61140910 Score: 242
Period size: 107 Copynumber: 2.0 Consensus size: 107
61140690 TTCTTTCGAA
* * * **
61140700 GTTCGCCACAAAGGCTCCCTTTTCAGTGTTAGCTGCAAAGGCTTCCTTTTAAAAGTTAGCCACAA
1 GTTCACCAAAAAGGCTCCCTTTTCAGAGTTAGCCACAAAGGCTTCCTTTTAAAAGTTAGCCACAA
* * * * * * *
61140765 AGGCTTTTTTTTTAGTGTTTGCCATAAAGACTTTTTTTTAGT
66 AGCCTTTCTTTTCAGAGTTCGCCACAAAGACTTCTTTTTAGT
* * * * * * *
61140807 GTTCACCAAAAAGGCTTCCTTTTTAGAGTTAGCCACAAATGTTTCCTTTTCAGAGTTTGCCACAA
1 GTTCACCAAAAAGGCTCCCTTTTCAGAGTTAGCCACAAAGGCTTCCTTTTAAAAGTTAGCCACAA
*
61140872 AGCCTTTCTTTTCAGAGTTCGCCACAAAGCCTTCTTTTT
66 AGCCTTTCTTTTCAGAGTTCGCCACAAAGACTTCTTTTT
61140911 CAGAATTAGC
Statistics
Matches: 84, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
107 84 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (107 bp):
GTTCACCAAAAAGGCTCCCTTTTCAGAGTTAGCCACAAAGGCTTCCTTTTAAAAGTTAGCCACAA
AGCCTTTCTTTTCAGAGTTCGCCACAAAGACTTCTTTTTAGT
Found at i:61141003 original size:75 final size:76
Alignment explanation
Indices: 61140894--61141034 Score: 207
Period size: 75 Copynumber: 1.9 Consensus size: 76
61140884 CAGAGTTCGC
* *
61140894 CACAAAGCCTTCTTTTTCAGAATTAGCCCTAAAGGCTTCCTTTTTAGTGGTAGTC-ATAAAGGCT
1 CACAAAGCCTTCCTTTTCAGAATTAGCCCTAAAGGCTTCATTTTTAGTGGTAG-CAATAAAGGCT
61140958 TCACTAATTAGT
65 TCACTAATTAGT
* *
61140970 CACAAAGGCTTCCTTTTCA-AATTAGCCAC-AAAGGCTTCATTTTTAGTGTTAGCAATAAAGGCT
1 CACAAAGCCTTCCTTTTCAGAATTAGCC-CTAAAGGCTTCATTTTTAGTGGTAGCAATAAAGGCT
61141033 TC
65 TC
61141035 CTTTCCTAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
74 1 0.02
75 40 0.68
76 18 0.31
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (76 bp):
CACAAAGCCTTCCTTTTCAGAATTAGCCCTAAAGGCTTCATTTTTAGTGGTAGCAATAAAGGCTT
CACTAATTAGT
Found at i:61141775 original size:14 final size:14
Alignment explanation
Indices: 61141751--61141790 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
61141741 CCATTTGTTT
61141751 TTCTA-AAAATG-G
1 TTCTAGAAAATGAG
61141763 CTTCTAGAAAATGAG
1 -TTCTAGAAAATGAG
61141778 TTCTAGAAAATGA
1 TTCTAGAAAATGA
61141791 CTTACTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.20
14 19 0.76
15 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (14 bp):
TTCTAGAAAATGAG
Found at i:61148441 original size:24 final size:24
Alignment explanation
Indices: 61148414--61148490 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
61148404 TCATGAATTT
*
61148414 ATTAAATGAAGGAATTTAACATTG
1 ATTAAATGAAGGAATTTAACATTA
* *
61148438 ATTAAATGAAGGAATTTAATATTT
1 ATTAAATGAAGGAATTTAACATTA
*
61148462 ATTAAATGAAAGAATTTAATCATTA
1 ATTAAATGAAGGAATTTAA-CATTA
61148487 ATTA
1 ATTA
61148491 GCTACTTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 40 0.85
25 7 0.15
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.38
Consensus pattern (24 bp):
ATTAAATGAAGGAATTTAACATTA
Found at i:61148968 original size:20 final size:20
Alignment explanation
Indices: 61148943--61148999 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
61148933 GTGTGGTCAC
*
61148943 ACACGCCTGTGTGACTCAAG
1 ACACGCCAGTGTGACTCAAG
**
61148963 ACACGCCAGTGTGACTCGGG
1 ACACGCCAGTGTGACTCAAG
* *
61148983 ACACGCCCGTGTAACTC
1 ACACGCCAGTGTGACTC
61149000 TCTGACTATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (20 bp):
ACACGCCAGTGTGACTCAAG
Found at i:61153819 original size:51 final size:51
Alignment explanation
Indices: 61153764--61153924 Score: 268
Period size: 51 Copynumber: 3.2 Consensus size: 51
61153754 CTGATCACAT
*
61153764 TTATCACTTGTCACTGATCATATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
61153815 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * *
61153866 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
61153917 TTGTCACT
1 TTATCACT
61153925 GATCAGAAGT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 105 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:61154078 original size:23 final size:25
Alignment explanation
Indices: 61154025--61154075 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
61154015 ATATTTCATC
61154025 ATACATTATATAATTCAAAAAATTT
1 ATACATTATATAATTCAAAAAATTT
*
61154050 ATACATTATATAATTCATAAAATTT
1 ATACATTATATAATTCAAAAAATTT
61154075 A
1 A
61154076 CATATAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (25 bp):
ATACATTATATAATTCAAAAAATTT
Found at i:61157887 original size:8 final size:8
Alignment explanation
Indices: 61157876--61157906 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
61157866 AAATTTTAAG
61157876 ATAATAAA
1 ATAATAAA
61157884 ATAATAAA
1 ATAATAAA
61157892 ATAATAAA
1 ATAATAAA
61157900 ATAATAA
1 ATAATAA
61157907 GATCTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
ATAATAAA
Found at i:61169233 original size:31 final size:32
Alignment explanation
Indices: 61169192--61169255 Score: 121
Period size: 31 Copynumber: 2.0 Consensus size: 32
61169182 TGTATGCATT
61169192 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
61169224 TTAG-ATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
61169255 T
1 T
61169256 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.39
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:61170764 original size:26 final size:26
Alignment explanation
Indices: 61170734--61170786 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
61170724 TTTATAGTTT
61170734 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
61170760 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
61170786 T
1 T
61170787 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:61175935 original size:24 final size:24
Alignment explanation
Indices: 61175883--61176037 Score: 151
Period size: 24 Copynumber: 6.4 Consensus size: 24
61175873 CAACTCATAT
*
61175883 GAGCTTACTGATATATCAGCTCATAA
1 GAGCTTACTGAT-T-TCAGCTCGTAA
* *
61175909 GAGCTTACTGATCTCAGCTCGTCA
1 GAGCTTACTGATTTCAGCTCGTAA
61175933 GAGCTTACTG-TTTCCAGCTCGTAA
1 GAGCTTACTGATTT-CAGCTCGTAA
61175957 GAGCTTACTG-TTTCAAGCTCGTAA
1 GAGCTTACTGATTTC-AGCTCGTAA
*
61175981 GAGCTTACT-ATTTTTAGCTCGTCAA
1 GAGCTTACTGA-TTTCAGCTCGT-AA
* *
61176006 -AGCTTAC-CATTTCAGCTC-AATA
1 GAGCTTACTGATTTCAGCTCGTA-A
61176028 GAGCTTACTG
1 GAGCTTACTG
61176038 TCCATCAGCT
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 18 0.16
24 74 0.67
25 5 0.05
26 12 0.11
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (24 bp):
GAGCTTACTGATTTCAGCTCGTAA
Found at i:61176002 original size:72 final size:72
Alignment explanation
Indices: 61175883--61176062 Score: 188
Period size: 72 Copynumber: 2.5 Consensus size: 72
61175873 CAACTCATAT
* **
61175883 GAGCTTACTGATATATCAGCTCATAAGAGCTTACTGATCTCAGCTCGTCAGAGCTTACTGTTTCC
1 GAGCTTACTG-TATATCAGCTCATAAGAGCTTACTGATCTCAGCTCGTCAAAGCTTACCATTT-C
*
61175948 AGCTC-GTAA
64 AGCTCAAT-A
* * *
61175957 GAGCTTACTGT-T-TCAAGCTCGTAAGAGCTTACT-ATTTTTAGCTCGTCAAAGCTTACCATTTC
1 GAGCTTACTGTATATC-AGCTCATAAGAGCTTACTGA-TCTCAGCTCGTCAAAGCTTACCATTTC
61176019 AGCTCAATA
64 AGCTCAATA
** *
61176028 GAGCTTACTGTCCATCAGCTCAGAAGGAGCTTACT
1 GAGCTTACTGTATATCAGCTCATAA-GAGCTTACT
61176063 AATCATAGCT
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
71 21 0.23
72 47 0.52
73 12 0.13
74 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (72 bp):
GAGCTTACTGTATATCAGCTCATAAGAGCTTACTGATCTCAGCTCGTCAAAGCTTACCATTTCAG
CTCAATA
Found at i:61176231 original size:19 final size:19
Alignment explanation
Indices: 61176207--61176270 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
61176197 AAAAGCTATG
61176207 TGTTATATGGGTGAATTAC
1 TGTTATATGGGTGAATTAC
* *
61176226 TGTTATATGGATGAAGTAC
1 TGTTATATGGGTGAATTAC
* * *
61176245 TGTTTAAACGGGTGAGTTAC
1 TG-TTATATGGGTGAATTAC
61176265 TGTTAT
1 TGTTAT
61176271 CGAATGATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
19 22 0.61
20 14 0.39
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.41
Consensus pattern (19 bp):
TGTTATATGGGTGAATTAC
Found at i:61177451 original size:16 final size:17
Alignment explanation
Indices: 61177430--61177462 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
61177420 GTTTGAGTTT
61177430 AAATGATG-AATGTATG
1 AAATGATGTAATGTATG
61177446 AAATGATGTAATGTATG
1 AAATGATGTAATGTATG
61177463 CTAAATGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (17 bp):
AAATGATGTAATGTATG
Found at i:61178437 original size:17 final size:19
Alignment explanation
Indices: 61178410--61178445 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
61178400 GTCATTCTAT
61178410 TTGACAGAGCTT-GCAAAG
1 TTGACAGAGCTTAGCAAAG
61178428 TTGA-AGAGCTTAGCAAAG
1 TTGACAGAGCTTAGCAAAG
61178446 AGAAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (19 bp):
TTGACAGAGCTTAGCAAAG
Found at i:61180342 original size:17 final size:19
Alignment explanation
Indices: 61180300--61180343 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
61180290 ATGAAATTTT
*
61180300 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
61180319 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
61180337 AA-TATTA
1 AATTATTA
61180344 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:61187336 original size:23 final size:25
Alignment explanation
Indices: 61187310--61187355 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
61187300 TCAACTTGTC
61187310 AGAGCTTACTGT-T-TCAGCTCAAT
1 AGAGCTTACTGTCTATCAGCTCAAT
61187333 AGAGCTTACTGTCTATCAGCTCA
1 AGAGCTTACTGTCTATCAGCTCA
61187356 GGAGGAGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.57
24 1 0.05
25 8 0.38
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (25 bp):
AGAGCTTACTGTCTATCAGCTCAAT
Found at i:61187367 original size:26 final size:23
Alignment explanation
Indices: 61187310--61187368 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 23
61187300 TCAACTTGTC
*
61187310 AGAGCTTACTGTTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAG
*
61187333 AGAGCTTACTGTCTATCAGCTCAGG
1 AGAGCTTACTGT-T-TCAGCTCAAG
61187358 AGGAGCTTACT
1 A-GAGCTTACT
61187369 AATCATAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 12 0.39
24 1 0.03
25 9 0.29
26 9 0.29
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAG
Found at i:61190725 original size:18 final size:18
Alignment explanation
Indices: 61190695--61190760 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
61190685 GGCCCATTCT
*
61190695 GTAA-CAGTAGCAGTGGCA
1 GTAATCAGT-GCAGTAGCA
*
61190713 GTAATCAGTGCAGTAACCA
1 GTAATCAGTGCAGT-AGCA
* *
61190732 -TGATCAATGCAGTAGCA
1 GTAATCAGTGCAGTAGCA
61190749 GTAATCAGTGCA
1 GTAATCAGTGCA
61190761 AAATGCAAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
17 3 0.08
18 29 0.76
19 6 0.16
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (18 bp):
GTAATCAGTGCAGTAGCA
Found at i:61191045 original size:23 final size:22
Alignment explanation
Indices: 61191019--61191062 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
61191009 CCCTATGCGA
61191019 TGCAACATA-ATATCATACATGGG
1 TGCAACATACATAT-A-ACATGGG
61191042 TGCAACATACATATAACATGG
1 TGCAACATACATATAACATGG
61191063 CATGCTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 10 0.50
24 4 0.20
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (22 bp):
TGCAACATACATATAACATGGG
Found at i:61191148 original size:27 final size:27
Alignment explanation
Indices: 61191102--61191164 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
61191092 GAACAAATCT
* *
61191102 GTCATTTTACCTTACCGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACA
*
61191129 GTCATTTTACCCTACAGGGGTATTTCA
1 GTCATTTTACCCTACAGGGGTATTACA
61191156 GTCATTTTA
1 GTCATTTTA
61191165 TCACATAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACA
Found at i:61191187 original size:27 final size:27
Alignment explanation
Indices: 61191156--61191283 Score: 166
Period size: 27 Copynumber: 4.7 Consensus size: 27
61191146 GGGTATTTCA
*
61191156 GTCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
* *
61191183 ATCATTTTATCACATAAGAGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
61191210 GTCATTTTATCACATGAGGGAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
61191237 GTCATTTTATCATATGAGGACAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
61191264 TTTATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGG
61191284 TTCAAGTACA
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:61195180 original size:27 final size:27
Alignment explanation
Indices: 61195106--61195327 Score: 198
Period size: 27 Copynumber: 8.3 Consensus size: 27
61195096 CCAGAAAGCA
* *
61195106 TTCCTTTTCAAAATTAGCCACAAAGG-
1 TTCCTTTTCAGAGTTAGCCACAAAGGC
* **
61195132 TTCCTTTTCAGATTTTTCCACAAAGGC
1 TTCCTTTTCAGAGTTAGCCACAAAGGC
* **
61195159 TTCCTTTTTAGAGTTAATCACAAAGGC
1 TTCCTTTTCAGAGTTAGCCACAAAGGC
* * *
61195186 TTCATTTTTAGTGTTCA-CCACAAAGGC
1 TTCCTTTTCAGAGTT-AGCCACAAAGGC
* * *
61195213 TTCCTTTTCAAAGTTAGTCATAAAGGC
1 TTCCTTTTCAGAGTTAGCCACAAAGGC
* *
61195240 TTCGTTTTCA-ATGTTAGCCACAAAAGC
1 TTCCTTTTCAGA-GTTAGCCACAAAGGC
* *
61195267 TTCCTTTTCAAAGTTAGCCATAAAGGC
1 TTCCTTTTCAGAGTTAGCCACAAAGGC
* * * * *
61195294 TTCTTTTTTAGTGTTAGCCTCAAAAGC
1 TTCCTTTTCAGAGTTAGCCACAAAGGC
61195321 TTCCTTT
1 TTCCTTT
61195328 CCTGACGTGT
Statistics
Matches: 158, Mismatches: 33, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
26 24 0.15
27 132 0.84
28 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (27 bp):
TTCCTTTTCAGAGTTAGCCACAAAGGC
Found at i:61195218 original size:54 final size:54
Alignment explanation
Indices: 61195100--61195327 Score: 237
Period size: 54 Copynumber: 4.2 Consensus size: 54
61195090 TGTTCGCCAG
* * * * * **
61195100 AAAGCATTCCTTTTCAAAATTAGCCACAAAGG-TTCCTTTTCAGAT-TTTTCCACA
1 AAAGC-TTCCTTTTCAAAGTTAGTCATAAAGGCTTCATTTTTAG-TGTTAGCCACA
* * * * *
61195154 AAGGCTTCCTTTTTAGAGTTAATCACAAAGGCTTCATTTTTAGTGTTCA-CCACA
1 AAAGCTTCCTTTTCAAAGTTAGTCATAAAGGCTTCATTTTTAGTGTT-AGCCACA
* * * *
61195208 AAGGCTTCCTTTTCAAAGTTAGTCATAAAGGCTTCGTTTTCAATGTTAGCCACA
1 AAAGCTTCCTTTTCAAAGTTAGTCATAAAGGCTTCATTTTTAGTGTTAGCCACA
* * *
61195262 AAAGCTTCCTTTTCAAAGTTAGCCATAAAGGCTTCTTTTTTAGTGTTAGCCTCA
1 AAAGCTTCCTTTTCAAAGTTAGTCATAAAGGCTTCATTTTTAGTGTTAGCCACA
61195316 AAAGCTTCCTTT
1 AAAGCTTCCTTT
61195328 CCTGACGTGT
Statistics
Matches: 148, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
53 23 0.16
54 125 0.84
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (54 bp):
AAAGCTTCCTTTTCAAAGTTAGTCATAAAGGCTTCATTTTTAGTGTTAGCCACA
Found at i:61198744 original size:19 final size:19
Alignment explanation
Indices: 61198720--61198760 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
61198710 CAAAAGACAA
*
61198720 AATAGTAAAATATGAAATT
1 AATAGTAAAATATGAAACT
*
61198739 AATAGTAAAATGTGAAACT
1 AATAGTAAAATATGAAACT
61198758 AAT
1 AAT
61198761 TTTATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.29
Consensus pattern (19 bp):
AATAGTAAAATATGAAACT
Found at i:61208613 original size:47 final size:47
Alignment explanation
Indices: 61208561--61208964 Score: 657
Period size: 47 Copynumber: 8.6 Consensus size: 47
61208551 GATAATTGTG
* *
61208561 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
61208608 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61208655 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61208704 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61208751 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
61208798 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
61208845 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
61208892 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
61208939 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
61208965 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 17, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
46 2 0.01
47 287 0.85
48 2 0.01
49 45 0.13
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:61211156 original size:38 final size:38
Alignment explanation
Indices: 61211092--61211166 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
61211082 AATCCGAGTT
*
61211092 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
61211130 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
61211167 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:61211279 original size:40 final size:40
Alignment explanation
Indices: 61211220--61211561 Score: 533
Period size: 40 Copynumber: 8.6 Consensus size: 40
61211210 AGGTCTCGAC
*
61211220 GATG-ATCCGGGCTAAGTCCCGAAGAGCACTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
61211259 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
61211299 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
61211339 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
61211379 GATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
61211419 GATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
61211459 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
61211499 GATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
61211539 GTTGTATCCGGACTAAGTTCCGA
1 GATGTATCCGGGCTAAGTCCCGA
61211562 CCGGACTAAG
Statistics
Matches: 274, Mismatches: 28, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 4 0.01
40 270 0.99
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:61211567 original size:16 final size:16
Alignment explanation
Indices: 61211546--61211577 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
61211536 AGTGTTGTAT
61211546 CCGGACTAAGTTCCGA
1 CCGGACTAAGTTCCGA
61211562 CCGGACTAAGTTCCGA
1 CCGGACTAAGTTCCGA
61211578 AGACAATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (16 bp):
CCGGACTAAGTTCCGA
Found at i:61215649 original size:50 final size:49
Alignment explanation
Indices: 61215502--61215811 Score: 397
Period size: 50 Copynumber: 6.3 Consensus size: 49
61215492 TGTGTGTGAA
* *
61215502 TGTATTTATATGTGATTAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
61215551 TGTATATATGTG-GATAAGG-C-AATGGCC-ATGTGATGAATGTGAAAG
1 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
61215596 TGTATATATATGTGATAAGGCCTAATGGCCGAGGTTGATGAATGTGAAAG
1 TGTATATATATGTGATAAGGCCTAATGGCCGATG-TGATGAATGTGAAAG
61215646 TGTATATATTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATATA-TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
61215696 TG--TATATATGTGATAAGCGCCTAATAAGCCGTGATGATGTGATGAATGTGAAAG
1 TGTATATATATGTGATAAG-GCCTAAT-GGCC-----GATGTGATGAATGTGAAAG
*
61215750 TG--TATATATGTGATGAGGCCTAATGG-CGATGTGTATGAATGTGAAAG
1 TGTATATATATGTGATAAGGCCTAATGGCCGATGTG-ATGAATGTGAAAG
61215797 TTGTATATAT-TGTGA
1 -TGTATATATATGTGA
61215812 CAGGCCGAGT
Statistics
Matches: 235, Mismatches: 9, Indels: 34
0.85 0.03 0.12
Matches are distributed among these distances:
45 29 0.12
46 20 0.09
47 26 0.11
48 26 0.11
49 20 0.09
50 45 0.19
51 26 0.11
52 1 0.00
53 7 0.03
54 35 0.15
ACGTcount: A:0.31, C:0.07, G:0.29, T:0.32
Consensus pattern (49 bp):
TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
Found at i:61215682 original size:145 final size:147
Alignment explanation
Indices: 61215502--61215807 Score: 421
Period size: 145 Copynumber: 2.1 Consensus size: 147
61215492 TGTGTGTGAA
* *
61215502 TGTATTTA-TATGTGATTAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGAT
1 TGTATATATTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT-GAT
*
61215566 AAG-G-C-AAT-GGCC-ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
65 AAGCGCCTAATAAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG-C
61215626 GAGGT-TGATGAATGTGAAAG-
127 GAGGTGT-ATGAATGTGAAAGT
61215646 TGTATATATTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 TGTATATATTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
*
61215711 AGCGCCTAATAAGCCGTGATGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGG
66 AGCGCCTAATAAGCC-----GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
*
61215776 CGATGTGTATGAATGTGAAAGT
126 CGAGGTGTATGAATGTGAAAGT
61215798 TGTATATATT
1 TGTATATATT
61215808 GTGACAGGCC
Statistics
Matches: 144, Mismatches: 5, Indels: 18
0.86 0.03 0.11
Matches are distributed among these distances:
144 13 0.09
145 52 0.36
146 1 0.01
147 3 0.02
148 3 0.02
151 18 0.12
152 34 0.24
154 20 0.14
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.32
Consensus pattern (147 bp):
TGTATATATTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
AGCGCCTAATAAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCGAGG
TGTATGAATGTGAAAGT
Found at i:61215754 original size:54 final size:49
Alignment explanation
Indices: 61215508--61215811 Score: 328
Period size: 47 Copynumber: 6.2 Consensus size: 49
61215498 TGAATGTATT
* *
61215508 TATATGTGATTAGGCCTAATGGC--CGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCGATGATGTGATGAATGTGAAAGTGTA
*
61215555 TATATGTGGATAAGG-C-AATGGC---CATGTGATGAATGTGAAAGTGTATA
1 TATATGT-GATAAGGCCTAATGGCGATGATGTGATGAATGTGAAAGTG--TA
*
61215602 TATATGTGATAAGGCCTAATGGCCGA-GGT-TGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGG-CGATGATGTGATGAATGTGAAAGTG--TA
*
61215652 TATTATGTGATAAGGCCTAATGGC--CGATGTGATGAATGTGAAAGTGTA
1 TA-TATGTGATAAGGCCTAATGGCGATGATGTGATGAATGTGAAAGTGTA
*
61215700 TATATGTGATAAGCGCCTAATAAGCCGTGATGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAG-GCCTAAT--G--GCGATGATGTGATGAATGTGAAAGTGTA
*
61215754 TATATGTGATGAGGCCTAATGGCGATG-TGT-ATGAATGTGAAAGTTGTA
1 TATATGTGATAAGGCCTAATGGCGATGATGTGATGAATGTGAAAG-TGTA
61215802 TATATTGTGA
1 TATA-TGTGA
61215812 CAGGCCGAGT
Statistics
Matches: 228, Mismatches: 9, Indels: 38
0.83 0.03 0.14
Matches are distributed among these distances:
45 20 0.09
46 13 0.06
47 42 0.18
48 33 0.14
49 13 0.06
50 42 0.18
51 22 0.10
52 1 0.00
53 7 0.03
54 35 0.15
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCGATGATGTGATGAATGTGAAAGTGTA
Found at i:61215839 original size:101 final size:97
Alignment explanation
Indices: 61215502--61215867 Score: 374
Period size: 101 Copynumber: 3.7 Consensus size: 97
61215492 TGTGTGTGAA
* * *
61215502 TGTATTTATATGTGATTAGGCCTAATGG-C-CG-ATGTGATGAATGTGAAAGTGTATATATGTGG
1 TGTATATAT-TGTGATAAGGCCTAATGGCCACGTAAGTGATGAATGTGAAAGTGTATATATGT-G
*
61215564 ATAAGG-C-AATGGCCATGTGATGAATGTGAAAG
64 ATAAGGCCTAATGGCGATGTGATGAATGTGAAAG
*
61215596 TGTATATATATGTGATAAGGCCTAATGG-C-CG-AGGTTGATGAATGTGAAAGTGTATATATTAT
1 TGTATATAT-TGTGATAAGGCCTAATGGCCACGTAAG-TGATGAATGTGAAAGTG--TATA-TAT
61215658 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
61 GTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAG
* ** *
61215696 TGTATATA-TGTGATAAGCGCCTAATAAGCCGTGATGATGTGATGAATGTGAAAGTGTATATATG
1 TGTATATATTGTGATAAG-GCCTAAT-GGCCACG-T-AAGTGATGAATGTGAAAGTGTATATATG
*
61215760 TGATGAGGCCTAATGGCGATGTGTATGAATGTGAAAG
62 TGATAAGGCCTAATGGCGATGTG-ATGAATGTGAAAG
* * * * *
61215797 TTGTATATATTGTGA-CAGGCCGAGTGGCCAACGTCAACGTGATGGATGTGAAAGTGTATAAATG
1 -TGTATATATTGTGATAAGGCCTAATGGCC-ACGT-AA-GTGATGAATGTGAAAGTGTATATATG
61215861 TGATAAG
62 TGATAAG
61215868 TCCCGAAGGG
Statistics
Matches: 234, Mismatches: 19, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
94 31 0.13
95 17 0.07
97 11 0.05
98 15 0.06
99 12 0.05
100 40 0.17
101 69 0.29
102 15 0.06
103 5 0.02
104 17 0.07
105 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (97 bp):
TGTATATATTGTGATAAGGCCTAATGGCCACGTAAGTGATGAATGTGAAAGTGTATATATGTGAT
AAGGCCTAATGGCGATGTGATGAATGTGAAAG
Found at i:61218045 original size:38 final size:38
Alignment explanation
Indices: 61217981--61218055 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
61217971 AATCCGAGTT
*
61217981 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
61218019 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
61218056 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:61218181 original size:39 final size:40
Alignment explanation
Indices: 61218107--61218298 Score: 281
Period size: 39 Copynumber: 4.9 Consensus size: 40
61218097 AGGTCTCGAC
*
61218107 GATG-ATCCGGGCTAAGTCCCGAAGAGCA-TCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
61218145 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
61218184 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
61218224 GATGTATCC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
61218263 GATATTATCC-GGCTAA-TCCCG-AGAGCATTCTGTGCT
1 GAT-GTATCCGGGCTAAGTCCCGAAGAGCATTC-GTGCT
61218299 GTTGTATCGG
Statistics
Matches: 143, Mismatches: 6, Indels: 9
0.91 0.04 0.06
Matches are distributed among these distances:
38 23 0.16
39 80 0.56
40 40 0.28
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:61218252 original size:79 final size:79
Alignment explanation
Indices: 61218107--61218320 Score: 304
Period size: 79 Copynumber: 2.8 Consensus size: 79
61218097 AGGTCTCGAC
61218107 GATG-ATCCGGGCTAAGTCCCGAAGAGCA-TCATGCTAGTGATGTATCCGGGCTAAG-TCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCC-GGCTAAGTTCCGAAG
61218169 AGCATTCGTGCTAGT
65 AGCATTCGTGCTAGT
61218184 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGCTAAGTTCCGAAGA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGCTAAGTTCCGAAGA
61218249 GCATTCGTGCTAGT
66 GCATTCGTGCTAGT
* *
61218263 GATATTATCC-GGCTAA-TCCCG-AGAGCATTC-TG-T-GCTGTTGTAT-CGGACTAAGTTCCGA
1 GAT-GTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG-TGATGTATCCGG-CTAAGTTCCGA
61218321 CCGGACTAAG
Statistics
Matches: 129, Mismatches: 2, Indels: 14
0.89 0.01 0.10
Matches are distributed among these distances:
74 4 0.03
75 19 0.15
76 2 0.02
77 13 0.10
78 36 0.28
79 50 0.39
80 5 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGCTAAGTTCCGAAGA
GCATTCGTGCTAGT
Found at i:61218396 original size:90 final size:91
Alignment explanation
Indices: 61218231--61218411 Score: 266
Period size: 90 Copynumber: 2.0 Consensus size: 91
61218221 AGTGATGTAT
*
61218231 CCGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATTATCCGGCTAATCCCGAGAGCATTCTGT
1 CCGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATTATCCGGCTAATCCCGAAAGCATTCTGT
61218296 GCTGTTGTAT-CGGACTAAGTTCCGA
66 GCTGTTGTATCCGGACTAAGTTCCGA
61218321 CCGGACTAAGTT-CGAAGAGCATTCGTGCTAGTGA-A-TATCCGGGCTAAT-CCGAAAGCATTC-
1 CCGG-CTAAGTTCCGAAGAGCATTCGTGCTAGTGATATTATCC-GGCTAATCCCGAAAGCATTCT
61218381 GTGCTAGTGATGTATCCGGACTAAGTTCCGA
64 GTGCT-GT--TGTATCCGGACTAAGTTCCGA
61218412 AGAGCATTCG
Statistics
Matches: 84, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
87 5 0.06
88 18 0.21
89 8 0.10
90 31 0.37
91 22 0.26
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (91 bp):
CCGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATTATCCGGCTAATCCCGAAAGCATTCTGT
GCTGTTGTATCCGGACTAAGTTCCGA
Found at i:61218426 original size:40 final size:40
Alignment explanation
Indices: 61218321--61218496 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
61218311 TAAGTTCCGA
61218321 CCGGACTAAGTT-CGAAGAGCATTCGTGCTAGTGA-ATAT
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* *
61218359 CCGGGCTAA--TCCGAA-AGCATTCGTGCTAGTGATGTAT
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
61218396 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* *
61218436 -CGTG-CTAAAGTT-CGAAGAGCATTCGTGCTGGTGTTATAT
1 CCG-GACT-AAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
61218475 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGACTAAGTTCCGAAGAGCA
61218497 ATCATGCTGG
Statistics
Matches: 120, Mismatches: 8, Indels: 18
0.82 0.05 0.12
Matches are distributed among these distances:
36 18 0.15
37 15 0.12
38 8 0.07
39 39 0.32
40 40 0.33
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:61218494 original size:79 final size:76
Alignment explanation
Indices: 61218321--61218496 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 76
61218311 TAAGTTCCGA
*
61218321 CCGGACTAAGT-TCGAAGAGCATTCGTGCTAGTGAATATCCGGGCTAATCCGAAAGCATTCGTGC
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGAATATCCGGGCTAATCCGAAAGCATTCGTGC
*
61218385 TAGTGATGTAT
66 TAGTGATATAT
* * *
61218396 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT-CGTGCTAAAGTTCGAAGAGCATTC
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGA-ATATCCGGGCT-AA-TCCGAA-AGCATTC
* *
61218460 GTGCTGGTGTTATAT
62 GTGCTAGTGATATAT
* *
61218475 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGACTAAGTCCCGAAGAGCA
61218497 ATCATGCTGG
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
75 11 0.13
76 27 0.31
77 6 0.07
78 5 0.06
79 38 0.44
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (76 bp):
CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGAATATCCGGGCTAATCCGAAAGCATTCGTGC
TAGTGATATAT
Found at i:61222139 original size:49 final size:47
Alignment explanation
Indices: 61222079--61222437 Score: 549
Period size: 47 Copynumber: 7.6 Consensus size: 47
61222069 GATAATTGTG
* *
61222079 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
61222126 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61222173 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
61222222 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
61222271 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
61222318 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
61222365 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
61222412 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
61222438 TCCCGAAGGG
Statistics
Matches: 291, Mismatches: 17, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
46 2 0.01
47 193 0.66
48 2 0.01
49 94 0.32
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:61229714 original size:27 final size:27
Alignment explanation
Indices: 61229684--61230171 Score: 594
Period size: 27 Copynumber: 18.1 Consensus size: 27
61229674 AGTACTCCCA
61229684 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
61229711 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * * *
61229738 ATTTTTAAAATTACCATTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
61229765 ATTTATAGAATTACCGTTTTACCTTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
*
61229791 AGTTTATAGAATTACCGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
61229819 ATTTACAGAATTATCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
61229846 ATTTACAGAATTACCATTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
61229873 ATTTATAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
61229899 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
61229927 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
61229954 ATTTGTAAAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
61229981 ATTTACAGAATTACCATTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
61230007 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* *
61230035 ATTTACAAAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
61230062 ATTTGTA-AATTTACTGTTTTACCCTTG
1 ATTTACAGAA-TTACCGTTTTACCCTCG
*
61230089 ATTTACAGAATTACTAG-TTTACCCTC-
1 ATTTACAGAATTAC-CGTTTTACCCTCG
*
61230115 AGTTTACA-AATTATCGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
61230142 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
61230169 ATT
1 ATT
61230172 GTGAAATTAC
Statistics
Matches: 403, Mismatches: 45, Indels: 26
0.85 0.09 0.05
Matches are distributed among these distances:
25 1 0.00
26 26 0.06
27 370 0.92
28 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:61229827 original size:108 final size:108
Alignment explanation
Indices: 61229685--61230181 Score: 721
Period size: 108 Copynumber: 4.6 Consensus size: 108
61229675 GTACTCCCAA
* *
61229685 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTTTAAAATT
1 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATT
* * *
61229750 ACCATTTTACCCTCAATTTATAGAATTACCGTTTTACCTTCAG
66 ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * ** *
61229793 TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATT
1 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATT
* *
61229858 ACCATTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCAG
66 ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
** *
61229901 TTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATT
1 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATT
*
61229966 ACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAG
66 ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
** * * *
61230009 TTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTGTAAATTT
1 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATT
** * *
61230074 ACTGTTTTACCCTTGATTTACAGAATTACTAG-TTTACCCTCAG
66 ACCATTTTACCCTCGATTTACAGAATTAC-CGTTTTACCCTCAG
* *
61230117 TTTACA-AATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGA-TTGTGAAATT
1 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATT
61230180 AC
66 AC
61230182 TGAAATACCC
Statistics
Matches: 352, Mismatches: 36, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
106 10 0.03
107 42 0.12
108 300 0.85
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (108 bp):
TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATT
ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
Found at i:61230308 original size:27 final size:27
Alignment explanation
Indices: 61230183--61230315 Score: 167
Period size: 27 Copynumber: 4.9 Consensus size: 27
61230173 TGAAATTACT
* *
61230183 GAAATACCCCTGTAAGGTAGAATTTTC
1 GAAATACCCCTGTAGGGTAGAATTATC
* *
61230210 GAAATACCCCTATAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTATC
* * * *
61230237 GAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTATC
61230264 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
* * *
61230291 GAAATACCCTTGTGGGGTAAAATTA
1 GAAATACCCCTGTAGGGTAGAATTA
61230316 CCATTTTGCC
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTATC
Found at i:61230559 original size:27 final size:26
Alignment explanation
Indices: 61230517--61230598 Score: 119
Period size: 27 Copynumber: 3.1 Consensus size: 26
61230507 GGAGGAAGCA
*
61230517 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
61230544 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* *
61230570 TATCTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGGCTCTGCCACAATATCTG
61230597 TT
1 TT
61230599 GACCGATCGA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:61230941 original size:27 final size:27
Alignment explanation
Indices: 61230911--61230983 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
61230901 GGTGGGTTTC
* *
61230911 CCACATTATCTG-ATTCTGGTGGCTCTA
1 CCACAATATCTGTA-TCTGGTGACTCTA
*
61230938 CCACAATATCTGTATCTGGTGACTCTG
1 CCACAATATCTGTATCTGGTGACTCTA
* *
61230965 TCACGATATCTGT-TCTGGT
1 CCACAATATCTGTATCTGGT
61230984 AGCCATGCTG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 6 0.15
27 33 0.82
28 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (27 bp):
CCACAATATCTGTATCTGGTGACTCTA
Found at i:61231134 original size:6 final size:6
Alignment explanation
Indices: 61231123--61231265 Score: 159
Period size: 6 Copynumber: 23.8 Consensus size: 6
61231113 TTGTCACGTA
* * *
61231123 ATTCTG ATTCTG ATTTTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
61231171 ATTCTG ATTCTG -TACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
*
61231219 ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
61231266 CATTTTGGTT
Statistics
Matches: 115, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
5 7 0.06
6 103 0.90
7 5 0.04
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:61231162 original size:30 final size:30
Alignment explanation
Indices: 61231098--61231265 Score: 219
Period size: 30 Copynumber: 5.4 Consensus size: 30
61231088 TTGTATTCAC
* *
61231098 ATTCTGATTCTGATTTTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
* *
61231129 ATTCTGATTTTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
61231159 ATTCTGATTCTGATTCTGATTCTGTACCTAATTCTG
1 ATTCTGATTCTGATTCTG----T-TA-CTAATTCTG
*
61231195 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
61231225 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
61231255 ATTCTGATTCT
1 ATTCTGATTCT
61231266 CATTTTGGTT
Statistics
Matches: 122, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
30 71 0.58
31 21 0.17
32 1 0.01
34 1 0.01
35 2 0.02
36 26 0.21
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:61231166 original size:36 final size:36
Alignment explanation
Indices: 61231123--61231242 Score: 180
Period size: 36 Copynumber: 3.5 Consensus size: 36
61231113 TTGTCACGTA
*
61231123 ATTCTGATTCTGATTTTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGATTCTGTTACTAATACTG
*
61231159 ATTCTGATTCTGATTCTGATTCTG-TAC-----CTA
1 ATTCTGATTCTGATTCTGATTCTGTTACTAATACTG
61231189 ATTCTGATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGATTCTGTTACTAATACTG
61231225 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
61231243 TTACTGATTC
Statistics
Matches: 75, Mismatches: 3, Indels: 12
0.83 0.03 0.13
Matches are distributed among these distances:
30 26 0.35
31 3 0.04
35 3 0.04
36 43 0.57
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (36 bp):
ATTCTGATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:61231283 original size:30 final size:30
Alignment explanation
Indices: 61231098--61231286 Score: 191
Period size: 30 Copynumber: 6.1 Consensus size: 30
61231088 TTGTATTCAC
* * *
61231098 ATTCTGATTCTGATTTTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-CAATTCTG
* * *
61231129 ATTCTGATTTTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
61231159 ATTCTGATTCTGATTCTGATTCTGTACCTAATTCTG
1 ATTCTGATTCTGATTCTG----T-TACC-AATTCTG
* *
61231195 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
**
61231225 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
61231255 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTCT-GTTACCAATTCTG
61231285 AT
1 AT
61231287 AATGTTTTTT
Statistics
Matches: 136, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
30 82 0.60
31 25 0.18
32 1 0.01
34 1 0.01
35 3 0.02
36 24 0.18
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACCAATTCTG
Found at i:61233709 original size:27 final size:27
Alignment explanation
Indices: 61233274--61233705 Score: 512
Period size: 27 Copynumber: 16.0 Consensus size: 27
61233264 AAAGTACTCC
61233274 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
61233301 CGATTTATAGAATTATCGTTTTACTCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
61233328 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
61233355 CGATTTACAGAATTACAGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
61233382 CGGTTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
61233409 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
61233436 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
61233463 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
61233490 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
61233517 CGATTTACAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
61233544 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
61233571 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * **
61233598 CGATTTGTAAAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
61233625 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
61233652 C-AGTTTACA-AATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
61233678 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
61233705 C
1 C
61233706 AATTGTGAAA
Statistics
Matches: 352, Mismatches: 46, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
26 24 0.07
27 326 0.93
28 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:61233744 original size:27 final size:27
Alignment explanation
Indices: 61233714--61233908 Score: 216
Period size: 27 Copynumber: 7.2 Consensus size: 27
61233704 TCAATTGTGA
61233714 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
61233741 AATTTTTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
61233768 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
61233795 AATTACCAAAATGCCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
61233822 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
61233849 AAATA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
61233876 AATTACTGAGATACCCTTGT-GAGGTAA
1 AATTACTGAAATACCCCTGTAG-GGTAG
61233903 AATTAC
1 AATTAC
61233909 CATTTTGCCC
Statistics
Matches: 142, Mismatches: 23, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 140 0.99
28 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:61233782 original size:54 final size:54
Alignment explanation
Indices: 61233714--61233895 Score: 249
Period size: 54 Copynumber: 3.4 Consensus size: 54
61233704 TCAATTGTGA
* * * *
61233714 AATTACTGAAATACCCCTGTAGGGTAGAATTTTTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAG
* * * * *
61233768 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATGCCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAG
*
61233822 AATTA-TCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAG
*
61233876 AATTACTGAGATACCCTTGT
1 AATTACTGAAATACCCTTGT
61233896 GAGGTAAAAT
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 108 0.98
55 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTATCGAAATACCCCTGTAGGGTAG
Found at i:61234151 original size:27 final size:26
Alignment explanation
Indices: 61234109--61234190 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 26
61234099 GGAGGAAGCA
* *
61234109 TTCTAGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
61234136 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* *
61234162 TATCTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGGCTCTGCCACAATATCTG
61234189 TT
1 TT
61234191 GACCGATCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:61234531 original size:27 final size:25
Alignment explanation
Indices: 61234501--61234574 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 25
61234491 TAGGTGGGTT
61234501 TGCCACATTATCTGATTCTGGTTG-CTC
1 TGCCACA-TATCTG-TTCTGG-TGACTC
*
61234528 TGCCATAATATCTGTATCTGGTGACTC
1 TGCCA-CATATCTGT-TCTGGTGACTC
*
61234555 TGTCACGATATCTGTTCTGG
1 TGCCAC-ATATCTGTTCTGG
61234575 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
26 8 0.20
27 31 0.77
28 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (25 bp):
TGCCACATATCTGTTCTGGTGACTC
Found at i:61234699 original size:6 final size:6
Alignment explanation
Indices: 61234690--61234900 Score: 175
Period size: 6 Copynumber: 34.8 Consensus size: 6
61234680 TTGCATTCAC
* *
61234690 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
61234739 -TTACTA ATACTG ATTCTG ATTCTG -TGACTA ATACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG
* * *
61234787 ATTCTG -TTACTG ATTCTG ATTTTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * *
61234836 ATTCTG ATTCTG -TTACTA ATACTG ATTCTA ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
61234884 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
61234901 CATTTTGGTT
Statistics
Matches: 165, Mismatches: 24, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
5 11 0.07
6 141 0.85
7 11 0.07
8 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:61234883 original size:109 final size:109
Alignment explanation
Indices: 61234690--61234900 Score: 352
Period size: 109 Copynumber: 1.9 Consensus size: 109
61234680 TTGCATTCAC
*
61234690 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
61234755 TGATTCTGTGACTAATACTGATTCTGATTCTGATTCTGTTACTG
66 TAATTCTGTGACTAATACTGATTCTGATTCTGATTCTGTTACTG
*
61234799 ATTCTGATTTTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
* **
61234864 TAATTCTGAT-TCTGTTACTGATTCTGATTCTGATTCT
66 TAATTCTG-TGACTAATACTGATTCTGATTCTGATTCT
61234901 CATTTTGGTT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
109 94 0.99
110 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (109 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TAATTCTGTGACTAATACTGATTCTGATTCTGATTCTGTTACTG
Found at i:61234921 original size:30 final size:30
Alignment explanation
Indices: 61234690--61234900 Score: 248
Period size: 30 Copynumber: 7.4 Consensus size: 30
61234680 TTGCATTCAC
*
61234690 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
61234721 ATTCTGATTCTGATTCTGTTACTAA---T-
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
61234747 A--CTGATTCTGATTCTGTGACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
61234775 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
61234799 ATTCTGATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
*
61234830 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
61234860 ATTCTAATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
61234890 ATTCTGATTCT
1 ATTCTGATTCT
61234901 CATTTTGGTT
Statistics
Matches: 155, Mismatches: 12, Indels: 27
0.80 0.06 0.14
Matches are distributed among these distances:
24 41 0.26
26 2 0.01
27 3 0.02
28 2 0.01
29 1 0.01
30 63 0.41
31 43 0.28
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:61244083 original size:49 final size:50
Alignment explanation
Indices: 61244006--61244274 Score: 212
Period size: 46 Copynumber: 5.6 Consensus size: 50
61243996 GGGTAGAGTA
* *
61244006 CCGATGCCATGTCCCAAACATGGTCTTACACTATCTATCG-AAATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTAAATCGAGG
* * * * *
61244055 CCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATATCTATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTAAATCGAGG
* *
61244105 CAGATGCCATGTCCCAGACATGGTCTTACACT-G--A-C--ACATCTTGTA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTAAATC--G-AGG
* ** *
61244151 CCGATG-CATGTCCTAGACAT-GTCTTACACTAGCT-TAC--ATCTCAAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CGTAAATCGAGG
* * * * *
61244197 CCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGT--TTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTAAATCGAGG
*
61244243 CTGATGCCATGTCCCAGACATGGTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
61244275 GGCTGTGACA
Statistics
Matches: 182, Mismatches: 23, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
44 14 0.08
45 15 0.08
46 51 0.28
47 15 0.08
48 14 0.08
49 37 0.20
50 36 0.20
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (50 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTAAATCGAGG
Found at i:61244607 original size:13 final size:13
Alignment explanation
Indices: 61244589--61244614 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61244579 ATATAATAAT
61244589 TATTTTATGTTAA
1 TATTTTATGTTAA
61244602 TATTTTATGTTAA
1 TATTTTATGTTAA
61244615 AAATAAAAAT
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:61246182 original size:40 final size:40
Alignment explanation
Indices: 61246134--61246419 Score: 484
Period size: 40 Copynumber: 7.2 Consensus size: 40
61246124 GGACTAAGAT
*
61246134 CCGAAGGCATTTGTGCGAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
61246174 CCGAAGGCATTTGTGCGAGTGACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
61246214 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
61246254 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
61246294 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
61246334 CCGAAGGCATTTGTGCGAGTTAATATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
** *
61246374 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
61246413 CCGAAGG
1 CCGAAGG
61246420 TACTTGGGTT
Statistics
Matches: 235, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
39 15 0.06
40 220 0.94
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:61255125 original size:29 final size:30
Alignment explanation
Indices: 61255093--61255150 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
61255083 GTACATTTGA
61255093 AATTTAA-TTTTGTTACTTTTAT-TTTAAAG
1 AATTTAACTTTT-TTACTTTTATGTTTAAAG
* *
61255122 AATTTAACTTTTTTATTTTTTTGTTTAAA
1 AATTTAACTTTTTTACTTTTATGTTTAAA
61255151 AATGTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (30 bp):
AATTTAACTTTTTTACTTTTATGTTTAAAG
Found at i:61255668 original size:106 final size:106
Alignment explanation
Indices: 61255535--61255746 Score: 255
Period size: 106 Copynumber: 2.0 Consensus size: 106
61255525 TAATTATATT
* * * * * *
61255535 TATATTATTATTTAAGTGTTTGATTGAGTTAATGTCGCAAATTAACTCAATATTAATTCAGTTTA
1 TATACTATTATTTAAGTGTGTGATTGAGTTAATGTCACAAATTAACTCAACACTAACTCAG-TTA
61255600 A-AAAATATTAAAATAACTTTATATATTTAAAATAAATTATC
65 AGAAAATATTAAAATAACTTTATATATTTAAAATAAATTATC
* * * * *
61255641 TATACTATTATTTAAGTGTGTGGTTGAGTTGATGTCACGAATTAACTCGACACTAGCTCAGTTAA
1 TATACTATTATTTAAGTGTGTGATTGAGTTAATGTCACAAATTAACTCAACACTAACTCAGTTAA
* * ** *
61255706 GGAAATTATTAAAGTAGTTTTATATATTTAAAATTAATTAT
66 -GAAAATATTAAAATAACTTTATATATTTAAAATAAATTAT
61255747 ATTATTATGA
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
105 4 0.05
106 50 0.57
107 34 0.39
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.42
Consensus pattern (106 bp):
TATACTATTATTTAAGTGTGTGATTGAGTTAATGTCACAAATTAACTCAACACTAACTCAGTTAA
GAAAATATTAAAATAACTTTATATATTTAAAATAAATTATC
Found at i:61257265 original size:32 final size:31
Alignment explanation
Indices: 61257228--61257288 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
61257218 GAATTTTTTA
61257228 TATTTTTATAATTT-TTATTTTAAAAAATATTT
1 TATTTTT-T-ATTTATTATTTTAAAAAATATTT
*
61257260 TATTTTTTATTTAATTTTTTTAAAAAATA
1 TATTTTTTATTT-ATTATTTTAAAAAATA
61257289 ATTATATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 1 0.04
32 21 0.81
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
TATTTTTTATTTATTATTTTAAAAAATATTT
Found at i:61257286 original size:33 final size:34
Alignment explanation
Indices: 61257223--61257286 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 34
61257213 TTTTGGAATT
*
61257223 TTTTATATTTTTATAATTTTTATTTTAAAAAATA
1 TTTTATATTTTTATAATTTTTATTTAAAAAAATA
61257257 TTTTAT-TTTTTATTTAA-TTTT-TTTAAAAAA
1 TTTTATATTTTTA--TAATTTTTATTTAAAAAA
61257287 TAATTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 14 0.52
34 10 0.37
35 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (34 bp):
TTTTATATTTTTATAATTTTTATTTAAAAAAATA
Found at i:61257982 original size:17 final size:17
Alignment explanation
Indices: 61257957--61258004 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 17
61257947 TAAAAATATA
*
61257957 TAATTTAATAATATTTT
1 TAATATAATAATATTTT
61257974 TAATATAAT--TATTTT
1 TAATATAATAATATTTT
61257989 T-ATATTAA-AATATTTT
1 TAATA-TAATAATATTTT
61258005 ATTTTTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 3 0.11
15 10 0.37
16 6 0.22
17 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATATAATAATATTTT
Found at i:61258000 original size:22 final size:22
Alignment explanation
Indices: 61257975--61258016 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
61257965 TAATATTTTT
61257975 AATATAATTA-TTTTTATATTAA
1 AATAT-ATTATTTTTTATATTAA
*
61257997 AATATTTTATTTTTTATATT
1 AATATATTATTTTTTATATT
61258017 TTTTAAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
AATATATTATTTTTTATATTAA
Found at i:61258413 original size:12 final size:13
Alignment explanation
Indices: 61258393--61258422 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
61258383 CCAGTTTGGC
61258393 AATGTTTTTGAAA
1 AATGTTTTTGAAA
61258406 AATGTTTTTGAAA
1 AATGTTTTTGAAA
61258419 AATG
1 AATG
61258423 CTGTGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (13 bp):
AATGTTTTTGAAA
Found at i:61258447 original size:13 final size:13
Alignment explanation
Indices: 61258431--61258465 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
61258421 TGCTGTGGAA
*
61258431 AAGTGCTTTTGAG
1 AAGTGCTTTCGAG
*
61258444 AAGTACTTTCGAG
1 AAGTGCTTTCGAG
61258457 AAGTGCTTT
1 AAGTGCTTT
61258466 GAAAAATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (13 bp):
AAGTGCTTTCGAG
Done.