Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 217 of 313
Found at i:66748655 original size:217 final size:217
Alignment explanation
Indices: 66748008--66748657 Score: 1131
Period size: 217 Copynumber: 3.0 Consensus size: 217
66747998 AGGAATCAGT
* * * * *
66748008 GCTTCAATCTACTCCACTGCAACTTCAGGGAGATAGGACTTGCCATCTTCAGTCTGCCTCACTGC
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
* * *
66748073 AGCTTCAGGAGGATAAGACTTGCTTCCTTAGTC-TGCTCCACTGCAACTTCAGGGAGATAAGACT
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACT
* * *
66748137 AGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCA
130 AGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCA
* *
66748202 ACTTCAGGGAGATAGGATTATCG
195 ACTTCAGGGAGATAGGATTGTCA
*
66748225 GCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
66748290 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTA
* *
66748355 GATGAGATCTGCTCTCTGTAACTTCAAAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
66748420 CTTCAGGGAGATAGGATTGTCA
196 CTTCAGGGAGATAGGATTGTCA
*
66748442 GCTTTAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
66748507 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTA
66 AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTA
66748572 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
131 GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
66748637 CTTCAGGGAGATAGGATTGTC
196 CTTCAGGGAGATAGGATTGTC
66748658 GNNNNNNNNN
Statistics
Matches: 412, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
217 410 1.00
218 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (217 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGT
AACTTCAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTA
GATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAA
CTTCAGGGAGATAGGATTGTCA
Found at i:66748887 original size:44 final size:44
Alignment explanation
Indices: 66748839--66749414 Score: 160
Period size: 44 Copynumber: 13.2 Consensus size: 44
66748829 TATCTTGGAA
* *
66748839 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * *
66748883 AGATAAGA-TCTACAATCTTCAACCTACTCCACTACTGCTCAGGG
1 AGATAAGATTC-GCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * * *
66748927 AAACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCAGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * * *
66748971 AGATAAGATTTGTCA-TCTTCGATTTGCTCCACTACTGTTTAGGG
1 AGATAAGATTCG-CAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
66749015 AGATAAGA-TCTACAATTTTCAA-CATTCTTCGCTGCTGCTTAGGG
1 AGATAAGATTC-GCAGTCTTCAATC-TGCTCCACTACTGCTTAGGG
* * ** * * **
66749059 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTTAGAA
1 AGATAA-GATTCGCAGTCTTCAATCTGC-T-CCACTACTGCTTAGGG
* *
66749103 ATATAAGATTCGCCA-TCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCG-CAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * ** *
66749147 AGATAAGA-TCTACAATTTTCAACCTTCTCTGCTACTGCTCAGGG
1 AGATAAGATTC-GCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * *
66749191 AGACAAG-GT-G--G-CTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTCGCAGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * *
66749230 AGATAAGATTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * *
66749274 AGATAAGA-TCTACAATCTTCAGCCTTCTCCGCTGCTGCTCAGGG
1 AGATAAGATTC-GCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
66749318 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCAGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * *
66749362 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGTTTAGGG
1 AGATAAGATTCGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
66749406 AGATAAGAT
1 AGATAAGAT
66749415 CTACAATTTT
Statistics
Matches: 360, Mismatches: 125, Indels: 94
0.62 0.22 0.16
Matches are distributed among these distances:
38 2 0.01
39 15 0.04
40 3 0.01
41 4 0.01
42 24 0.07
43 33 0.09
44 247 0.69
45 16 0.04
46 16 0.04
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATAAGATTCGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:66749024 original size:132 final size:132
Alignment explanation
Indices: 66748787--66749426 Score: 1038
Period size: 132 Copynumber: 4.9 Consensus size: 132
66748777 NNNNNNNNNN
66748787 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
* * *
66748852 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTA
66 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTA
66748917 CT
131 CT
* * *
66748919 GCTCAGGGAAACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGT
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
* * * * * *
66748984 CATCTTCGATTTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATTTTCAACATTCTTCGCTG
66 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTA
66749049 CT
131 CT
* * *
66749051 GCTTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAATATAAGATTCGC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
* *
66749116 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCTGCTA
66 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTA
66749181 CT
131 CT
*
66749183 GCTCAGGGAGACAA-----GGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCAC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
* * * *
66749243 TGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTTCTCCGCTG
66 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTA
66749308 CT
131 CT
66749310 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
*
66749375 CGTCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATTTTCA
66 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCA
66749427 CTGATCTGTT
Statistics
Matches: 465, Mismatches: 38, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
127 118 0.25
132 347 0.75
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTA
CT
Found at i:66749340 original size:259 final size:260
Alignment explanation
Indices: 66748787--66749426 Score: 1050
Period size: 259 Copynumber: 2.5 Consensus size: 260
66748777 NNNNNNNNNN
66748787 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
*
66748852 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTA
66 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTA
*
66748917 CTGCTCAGGGAAACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
131 CTGCTCAGGGAAACAA-G---GGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTA
* * * * *
66748982 GTCATCTTCGATTTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATTTTCAACATTCTTCGC
192 CTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACATTCTCCGC
66749047 TGCT
257 TGCT
* * *
66749051 GCTTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAATATAAGATTCGC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
* * **
66749116 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCTGCTA
66 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTA
*
66749181 CTGCTCAGGGAGACAA-GGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACT-
131 CTGCTCAGGGAAACAAGGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT-ACTC
* * *
66749244 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTTCTCCGCTGC
195 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACATTCTCCGCTGC
66749309 T
260 T
66749310 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
1 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
*
66749375 CGTCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATTTTCA
66 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCA
66749427 CTGATCTGTT
Statistics
Matches: 352, Mismatches: 23, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
259 214 0.61
260 1 0.00
264 137 0.39
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (260 bp):
GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCACTA
CTGCTCAGGGAAACAAGGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTACTCA
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACATTCTCCGCTGCT
Found at i:66750654 original size:12 final size:12
Alignment explanation
Indices: 66750634--66750686 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
66750624 TGGCCTCTCC
*
66750634 TTTTACTTTTACT
1 TTTTCCTTTT-CT
*
66750647 TTTTCTTTTTTCCT
1 TTTTC-CTTTT-CT
66750661 TTTTCCTTTTCT
1 TTTTCCTTTTCT
66750673 TTTTCCTTTT-T
1 TTTTCCTTTTCT
66750684 TTT
1 TTT
66750687 GAAATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 4 0.11
12 12 0.34
13 8 0.23
14 11 0.31
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTCCTTTTCT
Found at i:66750684 original size:20 final size:20
Alignment explanation
Indices: 66750647--66750683 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
66750637 TACTTTTACT
66750647 TTTTCTTTTTTCCTTTTTCC
1 TTTTCTTTTTTCCTTTTTCC
66750667 TTTTC-TTTTTCCTTTTT
1 TTTTCTTTTTTCCTTTTT
66750684 TTTGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTTCCTTTTTCC
Found at i:66773295 original size:50 final size:50
Alignment explanation
Indices: 66773179--66773413 Score: 308
Period size: 50 Copynumber: 4.7 Consensus size: 50
66773169 GATCATAACA
* ** * *
66773179 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* * * *
66773230 TGCCCATGCCATGTCCCAGACATGGTCTTATATGTGTCCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
66773280 TGCCCATGCCATGTCCCTGACATGGTCTTACAGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
66773330 TGCCAATGTCATGTCCCAAACATGGTCTTACATGGGACATCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
66773380 TGCCAATGTCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
66773414 ATACCTCTTT
Statistics
Matches: 161, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 128 0.80
51 33 0.20
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:66773785 original size:30 final size:30
Alignment explanation
Indices: 66773750--66773807 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
66773740 CCTCGACTCT
*
66773750 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
66773780 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
66773808 AAGGCTCGGA
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:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:66780220 original size:27 final size:27
Alignment explanation
Indices: 66780190--66780242 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
66780180 TAATAAACCT
* * * *
66780190 TAAAATAGATTAATGAGATAAATAAAA
1 TAAAATAAATAAATAAGAAAAATAAAA
66780217 TAAAATAAATAAATAAGAAAAATAAA
1 TAAAATAAATAAATAAGAAAAATAAA
66780243 CAAATAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.23
Consensus pattern (27 bp):
TAAAATAAATAAATAAGAAAAATAAAA
Found at i:66780240 original size:17 final size:17
Alignment explanation
Indices: 66780207--66780263 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
66780197 GATTAATGAG
66780207 ATAAATAAAATAAAATAA
1 ATAAATAAAA-AAAATAA
*
66780225 ATAAATAAGAAAAATAA
1 ATAAATAAAAAAAATAA
* * *
66780242 ACAAATAATAAAAATCA
1 ATAAATAAAAAAAATAA
66780259 ATAAA
1 ATAAA
66780264 CTAATCAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 25 0.74
18 9 0.26
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (17 bp):
ATAAATAAAAAAAATAA
Found at i:66780757 original size:22 final size:21
Alignment explanation
Indices: 66780732--66780780 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
66780722 TAGCAAATCG
*
66780732 ATTGATTGAAATAAAGAAATAA
1 ATTGAATGAAA-AAAGAAATAA
* *
66780754 ATTGAATGCAAAAATAAATAA
1 ATTGAATGAAAAAAGAAATAA
*
66780775 ACTGAA
1 ATTGAA
66780781 ATATATTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.24
Consensus pattern (21 bp):
ATTGAATGAAAAAAGAAATAA
Found at i:66782936 original size:41 final size:41
Alignment explanation
Indices: 66782890--66782976 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
66782880 CACATCTCAC
* * *
66782890 GTGAGATGCATCGTATAACTACGTTCCAACCCACAGCTTGT
1 GTGAGATGCATCGTATAACTACATTACAACCCACAGCTCGT
* *
66782931 GTGAGATGCATCGTATAGCTACATTACAACCGACAGCTCGT
1 GTGAGATGCATCGTATAACTACATTACAACCCACAGCTCGT
66782972 GTGAG
1 GTGAG
66782977 CATACTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (41 bp):
GTGAGATGCATCGTATAACTACATTACAACCCACAGCTCGT
Found at i:66785410 original size:57 final size:57
Alignment explanation
Indices: 66785297--66785410 Score: 149
Period size: 56 Copynumber: 2.0 Consensus size: 57
66785287 AAATGGTGAA
* * * * *
66785297 AATGGAGAAATTGAAAGCATTTGGAAATGATTATGGTTTTCTCCAAATGATAATGAC
1 AATGGAGAAATTGAAAGCATTTGAAAATGAATATCGTTTTCTCCAAAAGAAAATGAC
* *
66785354 AATGGAGAAATT-AAATCATTTGAAAATGAATGTCGTTTTCTCCAAAAAGAAAATGAC
1 AATGGAGAAATTGAAAGCATTTGAAAATGAATATCGTTTTCTCC-AAAAGAAAATGAC
66785411 CTGGAAATGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
56 26 0.53
57 23 0.47
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (57 bp):
AATGGAGAAATTGAAAGCATTTGAAAATGAATATCGTTTTCTCCAAAAGAAAATGAC
Found at i:66788242 original size:32 final size:34
Alignment explanation
Indices: 66788179--66788242 Score: 78
Period size: 32 Copynumber: 1.9 Consensus size: 34
66788169 TTGTAAAGAC
*
66788179 ATAACTTTTGTATGTAAAGTTGTCTTATAAAAAT
1 ATAACTTTTGTATGTAAAGTTATCTTATAAAAAT
* * *
66788213 ATAAC-TTT-TATGTAAGGTTATTTTTTAAAA
1 ATAACTTTTGTATGTAAAGTTATCTTATAAAA
66788243 TAACACAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 18 0.69
33 3 0.12
34 5 0.19
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.47
Consensus pattern (34 bp):
ATAACTTTTGTATGTAAAGTTATCTTATAAAAAT
Found at i:66788532 original size:9 final size:9
Alignment explanation
Indices: 66788518--66788548 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
66788508 GTTAAACGAA
66788518 TCGAGTTAT
1 TCGAGTTAT
*
66788527 TCGAGTTAA
1 TCGAGTTAT
66788536 TCGAGTTAT
1 TCGAGTTAT
66788545 TCGA
1 TCGA
66788549 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:66793657 original size:25 final size:25
Alignment explanation
Indices: 66793629--66793676 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
66793619 CAAATGTTTC
*
66793629 ATTTGAAAATTTTAAAACTTTTCTT
1 ATTTGAAAATTATAAAACTTTTCTT
* *
66793654 ATTTGATAATTATAATACTTTTC
1 ATTTGAAAATTATAAAACTTTTC
66793677 AGAAATCGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.52
Consensus pattern (25 bp):
ATTTGAAAATTATAAAACTTTTCTT
Found at i:66796805 original size:14 final size:14
Alignment explanation
Indices: 66796786--66796822 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
66796776 AATATTTTCT
66796786 TATA-AAATA-ATA
1 TATATAAATATATA
66796798 TATATAAATATATA
1 TATATAAATATATA
66796812 TATATGAAATA
1 TATAT-AAATA
66796823 GAATGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 5 0.23
14 8 0.36
15 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TATATAAATATATA
Found at i:66796875 original size:24 final size:24
Alignment explanation
Indices: 66796811--66796881 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 24
66796801 ATAAATATAT
*
66796811 ATATAT-GAAATAGAATGAAAATA
1 ATATATGGAAATAAAATGAAAATA
*
66796834 GTATATGGAAAATCAAAATGAAAAGTA
1 ATATATGG-AAAT-AAAATGAAAA-TA
66796861 ATA-ATGGAAATAAAAT-AAAAT
1 ATATATGGAAATAAAATGAAAAT
66796882 TTTAAAGGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.02
23 9 0.22
24 6 0.15
25 8 0.20
26 13 0.32
27 4 0.10
ACGTcount: A:0.61, C:0.01, G:0.14, T:0.24
Consensus pattern (24 bp):
ATATATGGAAATAAAATGAAAATA
Found at i:66806650 original size:26 final size:26
Alignment explanation
Indices: 66806619--66806682 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
66806609 TGACCTGCAA
*
66806619 CTCGTGTGAGCAGGCCCATTTCACAG
1 CTCGTGTGAGCAGACCCATTTCACAG
* *
66806645 CTCGTGTGAGCATACCTATTTCACAG
1 CTCGTGTGAGCAGACCCATTTCACAG
*
66806671 CTCGTATGAGCA
1 CTCGTGTGAGCA
66806683 ACTATGTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (26 bp):
CTCGTGTGAGCAGACCCATTTCACAG
Found at i:66816273 original size:10 final size:10
Alignment explanation
Indices: 66816258--66816282 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
66816248 TCAATTATTA
66816258 ATAAATTTTC
1 ATAAATTTTC
66816268 ATAAATTTTC
1 ATAAATTTTC
66816278 ATAAA
1 ATAAA
66816283 AGTTAGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
ATAAATTTTC
Found at i:66816666 original size:12 final size:12
Alignment explanation
Indices: 66816649--66816675 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
66816639 AAATTGAATC
66816649 TAGATAAATGTA
1 TAGATAAATGTA
66816661 TAGATAAATGTA
1 TAGATAAATGTA
66816673 TAG
1 TAG
66816676 GAGTGAGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (12 bp):
TAGATAAATGTA
Found at i:66820324 original size:19 final size:20
Alignment explanation
Indices: 66820279--66820324 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
66820269 CTGAAAACTC
66820279 ATATTTAATAATAAGTTTTA
1 ATATTTAATAATAAGTTTTA
* *
66820299 ACA-TTAATAAT-ATTTTTA
1 ATATTTAATAATAAGTTTTA
66820317 ATATTTAA
1 ATATTTAA
66820325 AAAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 8 0.36
19 12 0.55
20 2 0.09
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATTTAATAATAAGTTTTA
Found at i:66821356 original size:23 final size:23
Alignment explanation
Indices: 66821330--66821378 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
66821320 ATTCAGATAC
66821330 AATAAAATACCATCT-TTTCTAAA
1 AATAAAAT-CCATCTATTTCTAAA
* *
66821353 AATAAAATTCATCTATTTTTAAA
1 AATAAAATCCATCTATTTCTAAA
66821376 AAT
1 AAT
66821379 TCTTTTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (23 bp):
AATAAAATCCATCTATTTCTAAA
Found at i:66822154 original size:16 final size:16
Alignment explanation
Indices: 66822114--66822154 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
66822104 TATTCTTTAG
66822114 AATTTTTA-ATTTTTT
1 AATTTTTATATTTTTT
* *
66822129 AATATATATATTTTTT
1 AATTTTTATATTTTTT
66822145 AATTTTTATA
1 AATTTTTATA
66822155 AATATTTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
AATTTTTATATTTTTT
Found at i:66822188 original size:19 final size:18
Alignment explanation
Indices: 66822141--66822188 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
66822131 TATATATATT
66822141 TTTTAATTTTTATAAATA
1 TTTTAATTTTTATAAATA
66822159 TTTTGAA-TTTTA-AAATTTA
1 TTTT-AATTTTTATAAA--TA
66822178 TTTTAATTTTT
1 TTTTAATTTTT
66822189 TTATTTGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.12
18 11 0.42
19 12 0.46
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTAATTTTTATAAATA
Found at i:66822194 original size:18 final size:18
Alignment explanation
Indices: 66822114--66822194 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 18
66822104 TATTCTTTAG
66822114 AATTTTTA-A-TT-TTTT
1 AATTTTTATATTTATTTT
* *
66822129 AATATATATA-TT-TTTT
1 AATTTTTATATTTATTTT
**
66822145 AATTTTTATAAATATTTT
1 AATTTTTATATTTATTTT
* *
66822163 GAATTTTAAAATTTATTTT
1 -AATTTTTATATTTATTTT
*
66822182 AATTTTTTTATTT
1 AATTTTTATATTT
66822195 GTTGTTGAGA
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
15 6 0.12
16 15 0.30
17 1 0.02
18 14 0.28
19 14 0.28
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (18 bp):
AATTTTTATATTTATTTT
Found at i:66823031 original size:16 final size:15
Alignment explanation
Indices: 66823010--66823040 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
66823000 ATATCAAGGT
66823010 TAATTAAGTAAATTAA
1 TAATTAAGT-AATTAA
66823026 TAATTAAGTAATTAA
1 TAATTAAGTAATTAA
66823041 AATAAGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (15 bp):
TAATTAAGTAATTAA
Found at i:66823886 original size:29 final size:30
Alignment explanation
Indices: 66823825--66823895 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
66823815 TCATCGGCAA
* *
66823825 ATGAAAATGGATAGCTTTGGGCTAACGAAT
1 ATGAAAAGGGATAGCTTTCGGCTAACGAAT
* *
66823855 ATGAAAAGGGATAGC-TTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTTCGGCTAACGAAT
*
66823884 ATGGAAAGGGAT
1 ATGAAAAGGGAT
66823896 GGTGACGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 22 0.61
30 14 0.39
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTTCGGCTAACGAAT
Found at i:66823945 original size:30 final size:29
Alignment explanation
Indices: 66823888--66824077 Score: 107
Period size: 30 Copynumber: 6.4 Consensus size: 29
66823878 TCGATTATGG
*
66823888 AAAGGGATGGTGACGACCATCAACAATGA
1 AAAGGGATAGTGACGACCATCAACAATGA
*
66823917 AAAGGGATAGTGACGATCATCAAACAATGA
1 AAAGGGATAGTGACGACCATC-AACAATGA
* * * * * ***
66823947 AAAGAGATGGCT-TCAACTATCGATTTATGA
1 AAAGGGATAG-TGACGACCATC-AACAATGA
* * *
66823977 AAAGGGATAGCT-TCGACTATCAA-ATTATAA
1 AAAGGGATAG-TGACGACCATCAACA--ATGA
* **
66824007 AAAGGGATGGTGACGACCCCCGAACAATGA
1 AAAGGGATAGTGACGACCATC-AACAATGA
* * * *
66824037 AAAGGGTTGGTGATGACCATCAACTTATGA
1 AAAGGGATAGTGACGACCATCAAC-AATGA
66824067 AAAGGGATAGT
1 AAAGGGATAGT
66824078 TTCAGCTGTC
Statistics
Matches: 122, Mismatches: 31, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
29 24 0.20
30 94 0.77
31 3 0.02
32 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (29 bp):
AAAGGGATAGTGACGACCATCAACAATGA
Found at i:66824037 original size:60 final size:60
Alignment explanation
Indices: 66823855--66824137 Score: 186
Period size: 60 Copynumber: 4.7 Consensus size: 60
66823845 GCTAACGAAT
* * *
66823855 ATGAAAAGGGATAGCTTCGGCTATC-GATTATGGAAAGGGATGGTGACGACCATC-AACA
1 ATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
* ** * * * * ***
66823913 ATGAAAAGGGATAG-TGACGA-TCATCAAACAATGAAAAGAGATGGCT-TCAACTATCGATTT
1 ATGAAAAGGGATAGCT-TCGACT-ATCAAATTATGAAAAGGGATGG-TGACGACCATCGAACA
* **
66823973 ATGAAAAGGGATAGCTTCGACTATCAAATTATAAAAAGGGATGGTGACGACCCCCGAACA
1 ATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
* * * * * ** ** *
66824033 ATGAAAAGGG-TTGGTGAT-GACCATCAACTTATGAAAAGGGATAGTTTC-AGCTGTCGAACT
1 ATGAAAAGGGATAGCT--TCGACTATCAAATTATGAAAAGGGATGGTGACGA-CCATCGAACA
* * *
66824093 ATGAAAATGGGATAACTTCGATTATCAAATTACGAAAAGGGATGG
1 ATGAAAA-GGGATAGCTTCGACTATCAAATTATGAAAAGGGATGG
66824138 GTTAACCATC
Statistics
Matches: 165, Mismatches: 46, Indels: 25
0.70 0.19 0.11
Matches are distributed among these distances:
57 2 0.01
58 19 0.12
59 24 0.15
60 91 0.55
61 27 0.16
62 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (60 bp):
ATGAAAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACA
Found at i:66825165 original size:12 final size:12
Alignment explanation
Indices: 66825148--66825177 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
66825138 TCAAGCAATT
66825148 ACACGGCCTAGC
1 ACACGGCCTAGC
*
66825160 ACACGGCCTGGC
1 ACACGGCCTAGC
66825172 ACACGG
1 ACACGG
66825178 GTGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:66831643 original size:30 final size:28
Alignment explanation
Indices: 66831570--66831644 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 28
66831560 GGCTATCGAT
*
66831570 TATGAAAACGGATGGTGATGACCATCAAC
1 TATGAAAA-GGATGGTGACGACCATCAAC
* *
66831599 AAAGAAAAGGGATGGTGACGACCATCAAAC
1 TATGAAAA-GGATGGTGACGACCATC-AAC
66831629 TATGAAAAGAGATGGT
1 TATGAAAAG-GATGGT
66831645 TTCGGCTATC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 23 0.61
30 15 0.39
ACGTcount: A:0.43, C:0.13, G:0.27, T:0.17
Consensus pattern (28 bp):
TATGAAAAGGATGGTGACGACCATCAAC
Found at i:66831656 original size:30 final size:30
Alignment explanation
Indices: 66831622--66831726 Score: 75
Period size: 30 Copynumber: 3.5 Consensus size: 30
66831612 GGTGACGACC
* *
66831622 ATCAAACTATGAAAAGAGATGGTTTCGGCT
1 ATCAAACTATGAAAAGAGATAGCTTCGGCT
** * *
66831652 ATCAATTTATTAAAAGGGATAGCTTCGGCT
1 ATCAAACTATGAAAAGAGATAGCTTCGGCT
* * * * * **
66831682 ATCGAATTTTGAAAAGGGATAGATTCATCT
1 ATCAAACTATGAAAAGAGATAGCTTCGGCT
* *
66831712 GTCGAACTATGAAAA
1 ATCAAACTATGAAAA
66831727 AGGGATTATG
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (30 bp):
ATCAAACTATGAAAAGAGATAGCTTCGGCT
Found at i:66844982 original size:49 final size:48
Alignment explanation
Indices: 66844899--66844991 Score: 159
Period size: 49 Copynumber: 1.9 Consensus size: 48
66844889 TGCTATGCAA
*
66844899 TGCTAAACTTGGTCTTCACTGTCTACACTATTATCACTATTTATACAT
1 TGCTAAACTTAGTCTTCACTGTCTACACTATTATCACTATTTATACAT
*
66844947 TGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
1 TGCTAAACTTAGTCTT-CACTGTCTACACTATTATCACTATTTAT
66844992 CCCTTCTTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 15 0.36
49 27 0.64
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.42
Consensus pattern (48 bp):
TGCTAAACTTAGTCTTCACTGTCTACACTATTATCACTATTTATACAT
Found at i:66846791 original size:25 final size:27
Alignment explanation
Indices: 66846753--66846803 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
66846743 CTCAATACAC
*
66846753 ATATATACATAATCAATATATTTCATA
1 ATATATACATAATCAATACATTTCATA
*
66846780 ATATATA-A-AATCAATCCATTTCAT
1 ATATATACATAATCAATACATTTCAT
66846804 TTCAATTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 14 0.64
26 1 0.05
27 7 0.32
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (27 bp):
ATATATACATAATCAATACATTTCATA
Found at i:66850098 original size:6 final size:6
Alignment explanation
Indices: 66850087--66850171 Score: 52
Period size: 6 Copynumber: 13.7 Consensus size: 6
66850077 TTCCATATCA
* *
66850087 AAAAAG AAAAAG --AAAT AAAAAG GAAAAG AAAATA- AAGAAAG TAAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA-AG AA-AAAG -AAAAAG
*
66850135 AAAATA- AAGAAAG TAAAAAG AACATAG AAAAAG AAAA
1 AAAA-AG AA-AAAG -AAAAAG AA-AAAG AAAAAG AAAA
66850172 TAAAGAAAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
4 3 0.05
6 36 0.58
7 19 0.31
8 4 0.06
ACGTcount: A:0.76, C:0.01, G:0.15, T:0.07
Consensus pattern (6 bp):
AAAAAG
Found at i:66850167 original size:20 final size:18
Alignment explanation
Indices: 66850086--66850171 Score: 95
Period size: 20 Copynumber: 4.6 Consensus size: 18
66850076 CTTCCATATC
66850086 AAAAAAGAAAAAG-AAAT
1 AAAAAAGAAAAAGAAAAT
*
66850103 -AAAAAGGAAAAGAAAAT
1 AAAAAAGAAAAAGAAAAT
66850120 AAAGAAAGTAAAAAGAAAAT
1 AAA-AAAG-AAAAAGAAAAT
*
66850140 AAAGAAAGTAAAAAGAACAT
1 AAA-AAAG-AAAAAGAAAAT
66850160 AGAAAAAGAAAA
1 A-AAAAAGAAAA
66850172 TAAAGAAAGT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
16 11 0.18
17 4 0.07
18 2 0.03
19 8 0.13
20 34 0.56
21 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (18 bp):
AAAAAAGAAAAAGAAAAT
Found at i:66850625 original size:19 final size:20
Alignment explanation
Indices: 66850574--66850625 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
66850564 TTTTTATAAT
* *
66850574 TTTTATAATT-TTTAATTTT
1 TTTTAAAATTATTTAATTTG
**
66850593 TTTTAAAAAAATTTAA-TTG
1 TTTTAAAATTATTTAATTTG
66850612 TTTTAAAATTATTT
1 TTTTAAAATTATTT
66850626 TTATTATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTAAAATTATTTAATTTG
Found at i:66850728 original size:61 final size:61
Alignment explanation
Indices: 66850661--66850787 Score: 184
Period size: 61 Copynumber: 2.1 Consensus size: 61
66850651 AAAAAAAAAC
* * *
66850661 TAATTAATTGC-TAGAGTGTCAATCCACATGTATGGCACAGTTCAACAAAGTTAATAAAAGT
1 TAATTAATTGCTTA-AGTGACAATCCACATATATGGCACACTTCAACAAAGTTAATAAAAGT
* * *
66850722 TAATTAATTGCTTACGTGACAATCCACGTATATGGCACACTTCAACATAGTTAATAAAAGT
1 TAATTAATTGCTTAAGTGACAATCCACATATATGGCACACTTCAACAAAGTTAATAAAAGT
66850783 TAATT
1 TAATT
66850788 TTTTCCATCT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 57 0.97
62 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (61 bp):
TAATTAATTGCTTAAGTGACAATCCACATATATGGCACACTTCAACAAAGTTAATAAAAGT
Found at i:66852498 original size:62 final size:62
Alignment explanation
Indices: 66852356--66852499 Score: 143
Period size: 62 Copynumber: 2.3 Consensus size: 62
66852346 AATTAGGTTC
* *
66852356 CTCCAAAATTTTTAAAAATTATTATTAAACCTTTGAGAAAATTTAAAAATTTCAATTAGACA
1 CTCCAAAATTTTTAAAAATTATTATAAAACCTCTGAGAAAATTTAAAAATTTCAATTAGACA
* * * * * * *
66852418 CTTC-AATTTTTGTTAAAATTTTTCATAAAACCTCT-A-AAATTATTAAAAGTTTTAATTAGAC-
1 CTCCAAAATTTT-TAAAAATTATT-ATAAAACCTCTGAGAAAAT-TTAAAAATTTCAATTAGACA
66852479 CTACCAAAATTTTTAAAAATT
1 CT-CCAAAATTTTTAAAAATT
66852500 CCGACTAAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
61 12 0.18
62 38 0.58
63 15 0.23
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (62 bp):
CTCCAAAATTTTTAAAAATTATTATAAAACCTCTGAGAAAATTTAAAAATTTCAATTAGACA
Found at i:66853465 original size:56 final size:55
Alignment explanation
Indices: 66853324--66853468 Score: 175
Period size: 56 Copynumber: 2.6 Consensus size: 55
66853314 TAACTAGCTG
* * * * * * *
66853324 GTGACCAAAAAAGAAAAACCATAAATAAATGGCTATTTTATAACTTTTCATAGTTGG
1 GTGACAAAAAAAG-AAAACCAT-AATGAGTGACCATTTTAAAACTTTTCATAGTTGA
66853381 GTGACAAAAAAA-AACAGACCATAATGAGTGACCATTTTAAAACTTTTCATAGTTGA
1 GTGACAAAAAAAGAA-A-ACCATAATGAGTGACCATTTTAAAACTTTTCATAGTTGA
66853437 GTGACAAAAAAAGAAAACCATAATTGAGTGAC
1 GTGACAAAAAAAGAAAACCATAA-TGAGTGAC
66853469 TGCTAAAATA
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
55 9 0.12
56 50 0.65
57 18 0.23
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (55 bp):
GTGACAAAAAAAGAAAACCATAATGAGTGACCATTTTAAAACTTTTCATAGTTGA
Found at i:66853857 original size:17 final size:19
Alignment explanation
Indices: 66853824--66853858 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
66853814 GTTGTTTGGA
66853824 TATTATATAACTTTTGTTT
1 TATTATATAACTTTTGTTT
66853843 TATTAT-TAA-TTTTGTT
1 TATTATATAACTTTTGTT
66853859 ACTATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (19 bp):
TATTATATAACTTTTGTTT
Found at i:66858873 original size:23 final size:24
Alignment explanation
Indices: 66858846--66858890 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
66858836 GAAAAATATT
*
66858846 AAATAT-ATATTTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
66858869 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
66858891 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:66859001 original size:9 final size:9
Alignment explanation
Indices: 66858987--66859014 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
66858977 TTTTGTTACA
66858987 ACAATTAAT
1 ACAATTAAT
66858996 ACAATTAAT
1 ACAATTAAT
66859005 ACAATTAAT
1 ACAATTAAT
66859014 A
1 A
66859015 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:66859036 original size:68 final size:66
Alignment explanation
Indices: 66858957--66859098 Score: 230
Period size: 68 Copynumber: 2.1 Consensus size: 66
66858947 TCAAGTTTGT
* * *
66858957 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAACTAAAAATTTGAT
66859022 AAA
64 AAA
66859025 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAACTAAAAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAACTAAAAATTTGATAA
*
66859090 T
66 A
66859091 TTTACTAA
1 TTTACTAA
66859099 CAATTAATTT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 25 0.36
67 1 0.01
68 44 0.63
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAACTAAAAATTTGATAA
A
Found at i:66859108 original size:16 final size:16
Alignment explanation
Indices: 66859087--66859128 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
66859077 AAAAATTTGA
*
66859087 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
66859103 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
66859119 TAGTTTTAAT
1 TAATTTTAAT
66859129 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:66859112 original size:22 final size:23
Alignment explanation
Indices: 66859102--66859163 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
66859092 TTACTAACAA
* * *
66859102 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
66859124 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
66859147 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
66859164 CAGGCCGTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:66862484 original size:7 final size:7
Alignment explanation
Indices: 66862472--66862497 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
66862462 ACTAAACGTA
66862472 CAAAACC
1 CAAAACC
66862479 CAAAACC
1 CAAAACC
66862486 CAAAACC
1 CAAAACC
66862493 CAAAA
1 CAAAA
66862498 ATAATGCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.38, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAACC
Found at i:66866163 original size:85 final size:85
Alignment explanation
Indices: 66866034--66866210 Score: 354
Period size: 85 Copynumber: 2.1 Consensus size: 85
66866024 TATTTTATTG
66866034 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
66866099 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
66866119 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
66866184 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
66866204 CCCATGC
1 CCCATGC
66866211 TCATGGCCGG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:66870297 original size:19 final size:20
Alignment explanation
Indices: 66870253--66870297 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
66870243 ATGAAAACTC
66870253 AAAAGAAAAGAAAATTGAGA
1 AAAAGAAAAGAAAATTGAGA
*
66870273 AGAAG-AAAGAAAAATTGA-A
1 AAAAGAAAAG-AAAATTGAGA
66870292 AAAAGA
1 AAAAGA
66870298 GAGTCAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (20 bp):
AAAAGAAAAGAAAATTGAGA
Found at i:66874561 original size:24 final size:24
Alignment explanation
Indices: 66874527--66874588 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
66874517 CCTTTTTGAG
*
66874527 CCATTTCGTACCGAAAATCCCATA
1 CCATTTCGTACCAAAAATCCCATA
* *
66874551 CCATTTTGTACCAAAAATCCGATA
1 CCATTTCGTACCAAAAATCCCATA
*
66874575 CCATTTCATACCAA
1 CCATTTCGTACCAA
66874589 TACCCAATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.27
Consensus pattern (24 bp):
CCATTTCGTACCAAAAATCCCATA
Found at i:66876390 original size:26 final size:26
Alignment explanation
Indices: 66876354--66876415 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
66876344 ACATATTTTC
66876354 TCAAAATTTTACCAAGGGCAAAATCA
1 TCAAAATTTTACCAAGGGCAAAATCA
* * *
66876380 TCAAAATTTTACTATGGGTAAAATCA
1 TCAAAATTTTACCAAGGGCAAAATCA
66876406 TCAAAATTTT
1 TCAAAATTTT
66876416 GTTGGGGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGCAAAATCA
Found at i:66876424 original size:26 final size:26
Alignment explanation
Indices: 66876354--66876429 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
66876344 ACATATTTTC
* * *
66876354 TCAAAATTTTACCAAGGGCAAAATCA
1 TCAAAATTTTACTAGGGGTAAAATCA
*
66876380 TCAAAATTTTACTATGGGTAAAATCA
1 TCAAAATTTTACTAGGGGTAAAATCA
** *
66876406 TCAAAATTTTGTTGGGGGTAAAAT
1 TCAAAATTTTACTAGGGGTAAAAT
66876430 AGGGATGAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCA
Found at i:66882511 original size:15 final size:16
Alignment explanation
Indices: 66882491--66882520 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66882481 TGGTGCCTTG
66882491 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
66882506 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
66882521 AGCATATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:66885396 original size:15 final size:15
Alignment explanation
Indices: 66885372--66885401 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
66885362 TACGGTGTAT
*
66885372 TGGTGCTTGATAACA
1 TGGTGATTGATAACA
66885387 TGGTGATTGATAACA
1 TGGTGATTGATAACA
66885402 CAGTGTCTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (15 bp):
TGGTGATTGATAACA
Found at i:66893801 original size:45 final size:45
Alignment explanation
Indices: 66893710--66893801 Score: 125
Period size: 45 Copynumber: 2.0 Consensus size: 45
66893700 ACGAAAATAA
* *
66893710 AAATTTCAAAGTTAATTAGAAAATTTCTTCTCAAAAGATTACATT
1 AAATTTCAAAGTTAATTAGAAAATTTCTTCTAAAAAGATTAAATT
*
66893755 AAATTTCAAAGTTAATTAGAAAA-TT-TTCTAAATTAATATTAAATT
1 AAATTTCAAAGTTAATTAGAAAATTTCTTCTAAA--AAGATTAAATT
66893800 AA
1 AA
66893802 TATTACCACG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 6 0.14
44 2 0.05
45 34 0.81
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (45 bp):
AAATTTCAAAGTTAATTAGAAAATTTCTTCTAAAAAGATTAAATT
Found at i:66906050 original size:34 final size:34
Alignment explanation
Indices: 66906012--66906079 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
66906002 TTTCTTATCC
66906012 ATCGTCATCATCTTCCTCTGGCTCCAACAAAACT
1 ATCGTCATCATCTTCCTCTGGCTCCAACAAAACT
66906046 ATCGTCATCATCTTCCTCTGGCTCCAACAAAACT
1 ATCGTCATCATCTTCCTCTGGCTCCAACAAAACT
66906080 TTCTTAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.35, G:0.09, T:0.29
Consensus pattern (34 bp):
ATCGTCATCATCTTCCTCTGGCTCCAACAAAACT
Found at i:66926323 original size:37 final size:37
Alignment explanation
Indices: 66926273--66926351 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
66926263 TTATTACGAA
* *
66926273 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
66926310 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
66926347 GTCTT
1 GTCTT
66926352 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:66926548 original size:47 final size:47
Alignment explanation
Indices: 66926470--66926882 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
66926460 CCCTTCGGGA
* * * * * *
66926470 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66926517 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66926564 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66926611 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66926658 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66926705 CTTATCACATATACATACCCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
66926754 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66926801 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66926848 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
66926883 AGAATCCTAA
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66926791 original size:190 final size:188
Alignment explanation
Indices: 66926470--66926882 Score: 727
Period size: 190 Copynumber: 2.2 Consensus size: 188
66926460 CCCTTCGGGA
* * * * * *
66926470 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
66926535 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66926600 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66926658 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATAT--ATAC
*
66926723 CCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66926788 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66926848 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
66926883 AGAATCCTAA
Statistics
Matches: 214, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
188 51 0.24
190 163 0.76
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66929420 original size:25 final size:25
Alignment explanation
Indices: 66929392--66929470 Score: 131
Period size: 25 Copynumber: 3.2 Consensus size: 25
66929382 TCATTAGGGT
66929392 TACTGATTTATAGCTCATGAGAGCA
1 TACTGATTTATAGCTCATGAGAGCA
*
66929417 TACTGATTTATAGCACATGAGAGCA
1 TACTGATTTATAGCTCATGAGAGCA
* *
66929442 TACCGATTTATAGCTCGTGAGAGCA
1 TACTGATTTATAGCTCATGAGAGCA
66929467 TACT
1 TACT
66929471 AATCTTTAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (25 bp):
TACTGATTTATAGCTCATGAGAGCA
Found at i:66932526 original size:80 final size:79
Alignment explanation
Indices: 66932442--66932613 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
66932432 GGACTAAGAT
*
66932442 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
66932506 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
66932522 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
66932587 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
66932601 CCGAAGGCATTTG
1 CCGAAGGCATTTG
66932614 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:66932593 original size:39 final size:39
Alignment explanation
Indices: 66932389--66932611 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
66932379 TTGAATGCTG
* * * * *
66932389 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
66932429 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
66932468 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
66932509 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
66932549 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
66932588 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
66932612 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:66932631 original size:79 final size:80
Alignment explanation
Indices: 66932469--66932646 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
66932459 AGATACAAAT
* * * *
66932469 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
66932534 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
66932549 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
66932613 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
66932628 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
66932647 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:66944969 original size:50 final size:50
Alignment explanation
Indices: 66944867--66945055 Score: 164
Period size: 50 Copynumber: 3.7 Consensus size: 50
66944857 ATGAGATCCA
**
66944867 ATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---A-G--ATGAGAGGTCCC
66944923 ATGTAAGACCATGTCTGGGACATGG-AGTTGGCACCAAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCAAGATGAGAGGTCCC
** * * * * * * * **
66944973 CCGTAAGACCCTGCCTGGGACATGGTATGGGCACCGATATGAAAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCC
* * *
66945023 ATGTAAGACCATATCTAGGATATGGCATTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
66945056 GTACAGGAGA
Statistics
Matches: 110, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
50 74 0.67
51 1 0.01
52 1 0.01
53 1 0.01
55 1 0.01
56 32 0.29
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCC
Found at i:66945333 original size:20 final size:20
Alignment explanation
Indices: 66945308--66945356 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
66945298 TGAGTTATTT
*
66945308 AAGTAAGCAAGTGAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
66945328 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
66945348 AAG-AAGCAA
1 AAGTAAGCAA
66945357 AGACCACGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.55, C:0.06, G:0.27, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:66954160 original size:29 final size:28
Alignment explanation
Indices: 66954108--66954183 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
66954098 TGCGACTTGG
*
66954108 CACACGGCCCACACACGTTCGTGTGTCA
1 CACACGGCCCACACACGGTCGTGTGTCA
* * *
66954136 CACATGGCCCATCACATGGTCGTGTGTTA
1 CACACGGCCCA-CACACGGTCGTGTGTCA
*
66954165 CACACGGCCTACCACACGG
1 CACACGGCCCA-CACACGG
66954184 CCAAGTGGCG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 10 0.26
29 29 0.74
ACGTcount: A:0.22, C:0.37, G:0.22, T:0.18
Consensus pattern (28 bp):
CACACGGCCCACACACGGTCGTGTGTCA
Found at i:66956107 original size:21 final size:23
Alignment explanation
Indices: 66956081--66956122 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
66956071 GGTAGGAATG
66956081 TTTTTGAAAAA-CT-TGCATTGA
1 TTTTTGAAAAAGCTCTGCATTGA
66956102 TTTTTGAAAAAGCTCTGCATT
1 TTTTTGAAAAAGCTCTGCATT
66956123 AACATCCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.58
22 2 0.11
23 6 0.32
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (23 bp):
TTTTTGAAAAAGCTCTGCATTGA
Found at i:66956625 original size:47 final size:47
Alignment explanation
Indices: 66956567--66956661 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
66956557 AATTAGTATT
66956567 TGATAACATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
1 TGATAACATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
* *
66956614 TGATAAGATTATGTATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
1 TGATAACATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
66956661 T
1 T
66956662 CACTCTTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (47 bp):
TGATAACATTATGCATGAAGCTTGGTTTTTATTAAAACCTGACAAAA
Found at i:66966107 original size:20 final size:22
Alignment explanation
Indices: 66966055--66966122 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 22
66966045 TGTCACTCAG
*
66966055 TCACACTGGCGTGTGCCTCCTT
1 TCACACAGGCGTGTGCCTCCTT
* *
66966077 TTACACAGGCGTGTG-CTTC-T
1 TCACACAGGCGTGTGCCTCCTT
* *
66966097 TCACACGGGCGTGTTCCT-CTT
1 TCACACAGGCGTGTGCCTCCTT
66966118 TCACA
1 TCACA
66966123 TGGGTGTGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 14 0.37
21 11 0.29
22 13 0.34
ACGTcount: A:0.13, C:0.32, G:0.22, T:0.32
Consensus pattern (22 bp):
TCACACAGGCGTGTGCCTCCTT
Found at i:66975869 original size:70 final size:70
Alignment explanation
Indices: 66975751--66975890 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
66975741 TAAGCCATGA
66975751 AAATAGCTTGAGTATTCGACCACTTGAGGTATTGCATGTAAGTCCATTTTAAACTCATTTCTTGT
1 AAATAGCTTGAGTATTCGACCACTTGAGGTATTGCATGTAAGTCCATTTTAAACTCATTTCTTGT
66975816 AATTT
66 AATTT
* *
66975821 AAATGGCTTGAGTATTTGACCACTTGAGGTATTGCATGTAAGTCCATTTTAAACTCATTTCTTGT
1 AAATAGCTTGAGTATTCGACCACTTGAGGTATTGCATGTAAGTCCATTTTAAACTCATTTCTTGT
66975886 AATTT
66 AATTT
66975891 TTTATGTTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (70 bp):
AAATAGCTTGAGTATTCGACCACTTGAGGTATTGCATGTAAGTCCATTTTAAACTCATTTCTTGT
AATTT
Found at i:66980368 original size:21 final size:20
Alignment explanation
Indices: 66980342--66980388 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
66980332 CATGAGGGAA
66980342 ATGTATCGA-TACATCCCTTAG
1 ATGTATC-ACTACAT-CCTTAG
*
66980363 ATGTATCACTACATCTTTAG
1 ATGTATCACTACATCCTTAG
66980383 ATGTAT
1 ATGTAT
66980389 TGGTACAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCACTACATCCTTAG
Found at i:66981103 original size:13 final size:13
Alignment explanation
Indices: 66981085--66981109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66981075 TATTTTATTT
66981085 TAGAAAATTTTTG
1 TAGAAAATTTTTG
66981098 TAGAAAATTTTT
1 TAGAAAATTTTT
66981110 AAAATACCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TAGAAAATTTTTG
Found at i:66982673 original size:23 final size:22
Alignment explanation
Indices: 66982646--66982705 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
66982636 CGACATTACC
*
66982646 TTTAAACTTATTATTATTATAAT
1 TTTAAA-TTATTATTACTATAAT
* *
66982669 TTTAAAATGTACTA-TACTATTAT
1 TTT-AAAT-TATTATTACTATAAT
66982692 TTTAAATTATTATT
1 TTTAAATTATTATT
66982706 GACATGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 4 0.13
22 5 0.17
23 14 0.47
24 7 0.23
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAAATTATTATTACTATAAT
Found at i:66982736 original size:21 final size:21
Alignment explanation
Indices: 66982712--66982755 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
66982702 TATTGACATG
*
66982712 TTTTAAATTTATCATACATTT
1 TTTTAAATCTATCATACATTT
* * *
66982733 TTTTATATCTATTATATATTT
1 TTTTAAATCTATCATACATTT
66982754 TT
1 TT
66982756 ATCTTCAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAAATCTATCATACATTT
Found at i:66982940 original size:162 final size:162
Alignment explanation
Indices: 66982772--66983258 Score: 440
Period size: 162 Copynumber: 3.1 Consensus size: 162
66982762 AAACTTGACA
66982772 TGTTATTATTTGATTTATTATTTATTAATATGTATATTTTTATAAGAATTTGGTATAATTTGTAT
1 TGTTATTATTTGATTTATTATTTATTAATATGTATATTTTTATAAGAATTTGGTATAATTTGTAT
66982837 ATATTTTAATGTTTTGTTTAGGTTATAGCTTAAAATTCATTTTTGTATATCTATATGTTAAATGT
66 ATATTTTAATGTTTTGTTTAGGTTATAGCTTAAAATTCATTTTTGTATATCTATATGTTAAATGT
66982902 TTATATAAATTTTTATACTATTTTTTCAAGGT
131 TTATATAAATTTTTATACTATTTTTTCAAGGT
* * * *
66982934 TGTTATTATTTTATTTCAAGTTTATTTTGAGTTCATGCATGCA-ATTTATTTTAA-AACTTT--T
1 TGTTATTATTTGATTT--A--TTA-TTT-A-TTAAT--ATGTATATTT-TTATAAGAA-TTTGGT
* * * * * ** * *
66982995 A-CATGTAGTACTTTTTTTTCCAT-TTTT-TATTATCTTATTG--T---ATT--TTTTTTTATAT
55 ATAAT-TTGTA-TATATTTT-AATGTTTTGT-TTAGGTTATAGCTTAAAATTCATTTTTGTATAT
* * * * * **
66983050 C--TA--TTATATATTT-T-T--ATCTTCA-A--A-CTTGAC-A---
116 CTATATGTTAAATGTTTATATAAATTTTTATACTATTTTTTCAAGGT
66983081 TGTTATTATTTGATTTATTATTTATTAATATGTATATTTTTATAAGAATTTGGTATAATTTGTAT
1 TGTTATTATTTGATTTATTATTTATTAATATGTATATTTTTATAAGAATTTGGTATAATTTGTAT
66983146 ATATTTTAATGTTTTGTTTAGGTTATAGCTTAAAATTCATTTTTGTATATCTATATGTTAAATGT
66 ATATTTTAATGTTTTGTTTAGGTTATAGCTTAAAATTCATTTTTGTATATCTATATGTTAAATGT
66983211 TTATATAAATTTTTATACTATTTTTTCAAGGT
131 TTATATAAATTTTTATACTATTTTTTCAAGGT
*
66983243 TGTTATTATTTTATTT
1 TGTTATTATTTGATTT
66983259 CAAGTTTATT
Statistics
Matches: 239, Mismatches: 41, Indels: 90
0.65 0.11 0.24
Matches are distributed among these distances:
138 14 0.06
139 24 0.10
140 11 0.05
141 4 0.02
142 3 0.01
143 3 0.01
144 3 0.01
145 1 0.00
146 11 0.05
147 15 0.06
148 2 0.01
150 9 0.04
151 4 0.02
152 2 0.01
154 6 0.03
155 6 0.03
157 2 0.01
158 4 0.02
159 9 0.04
161 2 0.01
162 30 0.13
163 11 0.05
164 1 0.00
165 3 0.01
166 3 0.01
167 3 0.01
168 4 0.02
169 11 0.05
170 24 0.10
171 14 0.06
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.57
Consensus pattern (162 bp):
TGTTATTATTTGATTTATTATTTATTAATATGTATATTTTTATAAGAATTTGGTATAATTTGTAT
ATATTTTAATGTTTTGTTTAGGTTATAGCTTAAAATTCATTTTTGTATATCTATATGTTAAATGT
TTATATAAATTTTTATACTATTTTTTCAAGGT
Found at i:66983050 original size:22 final size:22
Alignment explanation
Indices: 66983017--66983064 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
66983007 TTTTTTTCCA
* *
66983017 TTTTTTATTATCTTATTGTATTT
1 TTTTTTATTATC-TATTATATAT
66983040 TTTTTTA-TATCTATTATATAT
1 TTTTTTATTATCTATTATATAT
66983061 TTTT
1 TTTT
66983065 ATCTTCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 4 0.17
23 7 0.30
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTTTATTATCTATTATATAT
Found at i:66983103 original size:309 final size:309
Alignment explanation
Indices: 66982730--66983351 Score: 1244
Period size: 309 Copynumber: 2.0 Consensus size: 309
66982720 TTATCATACA
66982730 TTTTTTTATATCTATTATATATTTTTATCTTCAAACTTGACATGTTATTATTTGATTTATTATTT
1 TTTTTTTATATCTATTATATATTTTTATCTTCAAACTTGACATGTTATTATTTGATTTATTATTT
66982795 ATTAATATGTATATTTTTATAAGAATTTGGTATAATTTGTATATATTTTAATGTTTTGTTTAGGT
66 ATTAATATGTATATTTTTATAAGAATTTGGTATAATTTGTATATATTTTAATGTTTTGTTTAGGT
66982860 TATAGCTTAAAATTCATTTTTGTATATCTATATGTTAAATGTTTATATAAATTTTTATACTATTT
131 TATAGCTTAAAATTCATTTTTGTATATCTATATGTTAAATGTTTATATAAATTTTTATACTATTT
66982925 TTTCAAGGTTGTTATTATTTTATTTCAAGTTTATTTTGAGTTCATGCATGCAATTTATTTTAAAA
196 TTTCAAGGTTGTTATTATTTTATTTCAAGTTTATTTTGAGTTCATGCATGCAATTTATTTTAAAA
66982990 CTTTTACATGTAGTACTTTTTTTTCCATTTTTTATTATCTTATTGTATT
261 CTTTTACATGTAGTACTTTTTTTTCCATTTTTTATTATCTTATTGTATT
66983039 TTTTTTTATATCTATTATATATTTTTATCTTCAAACTTGACATGTTATTATTTGATTTATTATTT
1 TTTTTTTATATCTATTATATATTTTTATCTTCAAACTTGACATGTTATTATTTGATTTATTATTT
66983104 ATTAATATGTATATTTTTATAAGAATTTGGTATAATTTGTATATATTTTAATGTTTTGTTTAGGT
66 ATTAATATGTATATTTTTATAAGAATTTGGTATAATTTGTATATATTTTAATGTTTTGTTTAGGT
66983169 TATAGCTTAAAATTCATTTTTGTATATCTATATGTTAAATGTTTATATAAATTTTTATACTATTT
131 TATAGCTTAAAATTCATTTTTGTATATCTATATGTTAAATGTTTATATAAATTTTTATACTATTT
66983234 TTTCAAGGTTGTTATTATTTTATTTCAAGTTTATTTTGAGTTCATGCATGCAATTTATTTTAAAA
196 TTTCAAGGTTGTTATTATTTTATTTCAAGTTTATTTTGAGTTCATGCATGCAATTTATTTTAAAA
66983299 CTTTTACATGTAGTACTTTTTTTTCCATTTTTTATTATCTTATTGTATT
261 CTTTTACATGTAGTACTTTTTTTTCCATTTTTTATTATCTTATTGTATT
66983348 TTTT
1 TTTT
66983352 AAAATTGATG
Statistics
Matches: 313, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
309 313 1.00
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (309 bp):
TTTTTTTATATCTATTATATATTTTTATCTTCAAACTTGACATGTTATTATTTGATTTATTATTT
ATTAATATGTATATTTTTATAAGAATTTGGTATAATTTGTATATATTTTAATGTTTTGTTTAGGT
TATAGCTTAAAATTCATTTTTGTATATCTATATGTTAAATGTTTATATAAATTTTTATACTATTT
TTTCAAGGTTGTTATTATTTTATTTCAAGTTTATTTTGAGTTCATGCATGCAATTTATTTTAAAA
CTTTTACATGTAGTACTTTTTTTTCCATTTTTTATTATCTTATTGTATT
Found at i:66985356 original size:24 final size:24
Alignment explanation
Indices: 66985329--66985404 Score: 89
Period size: 30 Copynumber: 2.9 Consensus size: 24
66985319 ATTTTGATAG
*
66985329 AATCTAAATTAAAAGATTAAAATA
1 AATCTAAATTTAAAGATTAAAATA
66985353 AATCTAATTACTAATTTAAAGATTAAAATA
1 AATC----TA--AATTTAAAGATTAAAATA
66985383 AATCTAAATTTAAAGATTAAAA
1 AATCTAAATTTAAAGATTAAAA
66985405 AATATAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
24 20 0.44
26 2 0.04
28 2 0.04
30 21 0.47
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (24 bp):
AATCTAAATTTAAAGATTAAAATA
Found at i:66985372 original size:31 final size:30
Alignment explanation
Indices: 66985332--66985389 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
66985322 TTGATAGAAT
66985332 CTAAATTAAAAGATTAAAATAAATCTAATTA
1 CTAAATT-AAAGATTAAAATAAATCTAATTA
*
66985363 CTAATTTAAAGATTAAAATAAATCTAA
1 CTAAATTAAAGATTAAAATAAATCTAA
66985390 ATTTAAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (30 bp):
CTAAATTAAAGATTAAAATAAATCTAATTA
Found at i:66986432 original size:18 final size:19
Alignment explanation
Indices: 66986390--66986433 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
66986380 AATTTTAAAC
66986390 TATTTTAGGAAAATTTTTA
1 TATTTTAGGAAAATTTTTA
*
66986409 TATTTTA-GAAAGTTTATTA
1 TATTTTAGGAAAATTT-TTA
66986428 T-TTTTA
1 TATTTTA
66986434 AAATTTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (19 bp):
TATTTTAGGAAAATTTTTA
Found at i:66986993 original size:19 final size:20
Alignment explanation
Indices: 66986933--66986985 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
66986923 CAAAGATTAC
*
66986933 AAAATAATTCAAAATAATTT-T
1 AAAA-AATTCAAAAT-GTTTAT
66986954 AAAAAATTCAAAATGTTTAT
1 AAAAAATTCAAAATGTTTAT
66986974 AAAAAATTCAAA
1 AAAAAATTCAAA
66986986 TTTTTATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 3 0.10
20 23 0.77
21 4 0.13
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAAATTCAAAATGTTTAT
Found at i:66996861 original size:9 final size:10
Alignment explanation
Indices: 66996841--66996869 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
66996831 ATTGCGTGTT
66996841 TGAATAGAAA
1 TGAATAGAAA
66996851 TGAAT-GAAA
1 TGAATAGAAA
66996860 TGAATAGAAA
1 TGAATAGAAA
66996870 AGAGAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:66997160 original size:26 final size:26
Alignment explanation
Indices: 66997126--66997189 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
66997116 TGAATGAATT
66997126 TTGTCAAAATTTTAGCAGGGGCAAAA
1 TTGTCAAAATTTTAGCAGGGGCAAAA
* * *
66997152 TTGTCAAAATTTTATCGGGGGTAAAA
1 TTGTCAAAATTTTAGCAGGGGCAAAA
*
66997178 TTGTTAAAATTT
1 TTGTCAAAATTT
66997190 ACTGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (26 bp):
TTGTCAAAATTTTAGCAGGGGCAAAA
Found at i:67001421 original size:18 final size:18
Alignment explanation
Indices: 67001395--67001429 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67001385 TTATGCATGC
*
67001395 TCACATATCATTTTCATT
1 TCACATATCACTTTCATT
*
67001413 TCACTTATCACTTTCAT
1 TCACATATCACTTTCAT
67001430 ATAATTCACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACATATCACTTTCATT
Found at i:67015208 original size:17 final size:19
Alignment explanation
Indices: 67015174--67015211 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
67015164 TCAAAAGTAT
*
67015174 AAAAATTTAGAAATTATAA
1 AAAAATATAGAAATTATAA
67015193 AAAAATATA-AAATATATAA
1 AAAAATATAGAAAT-TATAA
67015212 TAAATTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAAATATAGAAATTATAA
Found at i:67015365 original size:14 final size:14
Alignment explanation
Indices: 67015346--67015386 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
67015336 CATATAGAAA
67015346 TTATTATAAAAAAT
1 TTATTATAAAAAAT
*
67015360 TTATTA-ATAAAAT
1 TTATTATAAAAAAT
*
67015373 TTA-TATACAAAAT
1 TTATTATAAAAAAT
67015386 T
1 T
67015387 ACAATCTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 2 0.08
13 16 0.67
14 6 0.25
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
TTATTATAAAAAAT
Found at i:67016785 original size:10 final size:10
Alignment explanation
Indices: 67016736--67016783 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
67016726 TAAACTCCCA
67016736 AAAGATAAAT
1 AAAGATAAAT
** *
67016746 AAATTTAATT
1 AAAGATAAAT
*
67016756 CAAGATAAAT
1 AAAGATAAAT
67016766 AAAGATAAAT
1 AAAGATAAAT
67016776 AAA-ATAAA
1 AAAGATAAA
67016784 ATCCTAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:67018770 original size:5 final size:5
Alignment explanation
Indices: 67018760--67018810 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
67018750 ATTAATATCC
*
67018760 AAATA AAATA AAGTA ATAA-A TAAATA AAATA AAATAA AAATAA AAATA
1 AAATA AAATA AAATA A-AATA -AAATA AAATA AAAT-A AAAT-A AAATA
67018808 AAA
1 AAA
67018811 ATTAGGTTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 26 0.65
6 14 0.35
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:67018776 original size:21 final size:21
Alignment explanation
Indices: 67018759--67018810 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
67018749 TATTAATATC
67018759 CAAATAAAATAAAGTAATAAA
1 CAAATAAAATAAAGTAATAAA
* * *
67018780 TAAATAAAATAAAATAAAAATA
1 CAAATAAAATAAAGTAATAA-A
*
67018802 AAAATAAAA
1 CAAATAAAA
67018811 ATTAGGTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (21 bp):
CAAATAAAATAAAGTAATAAA
Found at i:67018801 original size:6 final size:6
Alignment explanation
Indices: 67018781--67018812 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
67018771 AGTAATAAAT
67018781 AAAT-A AAAT-A AAATAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
67018813 TAGGTTACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:67018806 original size:26 final size:26
Alignment explanation
Indices: 67018760--67018809 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
67018750 ATTAATATCC
*
67018760 AAATAAAATAAAGTAATAAATAAATA
1 AAATAAAATAAAATAATAAATAAATA
67018786 AAATAAAATAAAAATAA-AAATAAA
1 AAATAAAAT-AAAATAATAAATAAA
67018810 AATTAGGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (26 bp):
AAATAAAATAAAATAATAAATAAATA
Found at i:67018807 original size:12 final size:11
Alignment explanation
Indices: 67018760--67018812 Score: 58
Period size: 12 Copynumber: 4.9 Consensus size: 11
67018750 ATTAATATCC
67018760 AAAT-AAAATA
1 AAATAAAAATA
*
67018770 AAGTAATAAAT-
1 AAATAA-AAATA
67018781 AAAT-AAAATA
1 AAATAAAAATA
67018791 AAATAAAAATAA
1 AAATAAAAAT-A
67018803 AAATAAAAAT
1 AAATAAAAAT
67018813 TAGGTTACCT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 4 0.11
10 8 0.22
11 9 0.25
12 15 0.42
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:67022274 original size:15 final size:14
Alignment explanation
Indices: 67022253--67022288 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
67022243 ATAATCCTTA
*
67022253 ATAATTATCTTAAT
1 ATAATTATCCTAAT
67022267 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
67022282 ATAATTA
1 ATAATTA
67022289 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:67024545 original size:9 final size:9
Alignment explanation
Indices: 67024533--67024600 Score: 109
Period size: 9 Copynumber: 7.6 Consensus size: 9
67024523 TCAATTCAGT
67024533 TAATTCGGG
1 TAATTCGGG
67024542 TAATTCGGG
1 TAATTCGGG
*
67024551 TAATTCGGT
1 TAATTCGGG
*
67024560 TAATTCGGT
1 TAATTCGGG
67024569 TAATTCGGG
1 TAATTCGGG
67024578 TAATTCGGG
1 TAATTCGGG
*
67024587 TAATTCGGT
1 TAATTCGGG
67024596 TAATT
1 TAATT
67024601 TTTAACCAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (9 bp):
TAATTCGGG
Found at i:67024556 original size:27 final size:27
Alignment explanation
Indices: 67024525--67024600 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
67024515 GTAGTGATTC
* *
67024525 AATTCAGTTAATTCGGGTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
67024552 AATTCGGTTAATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGTTAATTCGGGT
*
67024579 AATTCGGGTAATTCGGTTAATT
1 AATTCGGTTAATTCGGTTAATT
67024601 TTTAACCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (27 bp):
AATTCGGTTAATTCGGTTAATTCGGGT
Found at i:67024644 original size:9 final size:9
Alignment explanation
Indices: 67024630--67024694 Score: 103
Period size: 9 Copynumber: 7.2 Consensus size: 9
67024620 ATATATAATT
67024630 TTCGGTTAA
1 TTCGGTTAA
67024639 TTCGGTTAA
1 TTCGGTTAA
*
67024648 TTCGGGTAA
1 TTCGGTTAA
67024657 TTCGGTTAA
1 TTCGGTTAA
*
67024666 TTCGGGTAA
1 TTCGGTTAA
*
67024675 TTCGGGTAA
1 TTCGGTTAA
67024684 TTCGGTTAA
1 TTCGGTTAA
67024693 TT
1 TT
67024695 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.22, C:0.11, G:0.26, T:0.42
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:67024665 original size:27 final size:27
Alignment explanation
Indices: 67024630--67024694 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
67024620 ATATATAATT
*
67024630 TTCGGTTAATTCGGTTAATTCGGGTAA
1 TTCGGTTAATTCGGGTAATTCGGGTAA
67024657 TTCGGTTAATTCGGGTAATTCGGGTAA
1 TTCGGTTAATTCGGGTAATTCGGGTAA
67024684 TTCGGTTAATT
1 TTCGGTTAATT
67024695 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.22, C:0.11, G:0.26, T:0.42
Consensus pattern (27 bp):
TTCGGTTAATTCGGGTAATTCGGGTAA
Found at i:67024738 original size:94 final size:94
Alignment explanation
Indices: 67024536--67024741 Score: 385
Period size: 94 Copynumber: 2.2 Consensus size: 94
67024526 ATTCAGTTAA
* * *
67024536 TTCGGGTAATTCGGGTAATTCGGTTAATTCGGTTAATTCGGGTAATTCGGGTAATTCGGTTAATT
1 TTCGGTTAATTCGGTTAATTCGGGTAATTCGGTTAATTCGGGTAATTCGGGTAATTCGGTTAATT
67024601 TTTAACCAAAAATAAAAATATATATAATT
66 TTTAACCAAAAATAAAAATATATATAATT
67024630 TTCGGTTAATTCGGTTAATTCGGGTAATTCGGTTAATTCGGGTAATTCGGGTAATTCGGTTAATT
1 TTCGGTTAATTCGGTTAATTCGGGTAATTCGGTTAATTCGGGTAATTCGGGTAATTCGGTTAATT
67024695 TTTAACCAAAAATAAAAATATATATAATT
66 TTTAACCAAAAATAAAAATATATATAATT
67024724 TTCGGTTAATTCGGTTAA
1 TTCGGTTAATTCGGTTAA
67024742 CCGACCGAAT
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 109 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (94 bp):
TTCGGTTAATTCGGTTAATTCGGGTAATTCGGTTAATTCGGGTAATTCGGGTAATTCGGTTAATT
TTTAACCAAAAATAAAAATATATATAATT
Found at i:67036146 original size:13 final size:13
Alignment explanation
Indices: 67036128--67036160 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
67036118 AATATTGTAT
*
67036128 ATAATTTTTATTA
1 ATAATTTTTAATA
67036141 ATAATTTTTAATA
1 ATAATTTTTAATA
67036154 ATAATTT
1 ATAATTT
67036161 ATATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATAATTTTTAATA
Found at i:67036183 original size:26 final size:25
Alignment explanation
Indices: 67036126--67036183 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
67036116 GTAATATTGT
* * * *
67036126 ATATAATTTTTATTAATAATTTTTA
1 ATATAATTTATATTAAAAAATTTGA
67036151 ATAATAATTTATATATAAAAAATTTGA
1 AT-ATAATTTATAT-TAAAAAATTTGA
67036178 ATATAA
1 ATATAA
67036184 AAATTATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.07
26 14 0.52
27 11 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATAATTTATATTAAAAAATTTGA
Found at i:67036466 original size:20 final size:18
Alignment explanation
Indices: 67036437--67036473 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 18
67036427 TTAATTACTT
67036437 TTTATATTTTTAAAAAATA
1 TTTATA-TTTTAAAAAATA
67036456 TTTATTATTTTAAAAAAT
1 TTTA-TATTTTAAAAAAT
67036474 TGAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATATTTTAAAAAATA
Found at i:67037665 original size:16 final size:16
Alignment explanation
Indices: 67037644--67037676 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
67037634 TTCCCAGTAC
*
67037644 TGGAATAGAGCTGTAA
1 TGGAATAGAACTGTAA
67037660 TGGAATAGAACTGTAA
1 TGGAATAGAACTGTAA
67037676 T
1 T
67037677 AAGTAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.27
Consensus pattern (16 bp):
TGGAATAGAACTGTAA
Found at i:67037970 original size:20 final size:20
Alignment explanation
Indices: 67037945--67037986 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
67037935 ATAACATTCT
67037945 TAATATAATTTTTATTAAAA
1 TAATATAATTTTTATTAAAA
67037965 TAATATAATTTTTATTAAAA
1 TAATATAATTTTTATTAAAA
67037985 TA
1 TA
67037987 TGAATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATATAATTTTTATTAAAA
Found at i:67040389 original size:196 final size:196
Alignment explanation
Indices: 67040055--67040450 Score: 792
Period size: 196 Copynumber: 2.0 Consensus size: 196
67040045 AAGATCATAT
67040055 ATGAAGAACCCTTCTCAAACAAGGATCACTCAAAAAGTTCCCAAACTTCTACCCCAGCACAATCT
1 ATGAAGAACCCTTCTCAAACAAGGATCACTCAAAAAGTTCCCAAACTTCTACCCCAGCACAATCT
67040120 GCCTTACTATTCTACATCCTAGCATTTACTAGCAGTTACTTCTAGGCCAATTGAACTTTGAACTT
66 GCCTTACTATTCTACATCCTAGCATTTACTAGCAGTTACTTCTAGGCCAATTGAACTTTGAACTT
67040185 CCTTTTCAAAGTTTTAGTCGTTGCCAAAAACAAAACAATGAATATTTGAGATGATAAATATTTTA
131 CCTTTTCAAAGTTTTAGTCGTTGCCAAAAACAAAACAATGAATATTTGAGATGATAAATATTTTA
67040250 G
196 G
67040251 ATGAAGAACCCTTCTCAAACAAGGATCACTCAAAAAGTTCCCAAACTTCTACCCCAGCACAATCT
1 ATGAAGAACCCTTCTCAAACAAGGATCACTCAAAAAGTTCCCAAACTTCTACCCCAGCACAATCT
67040316 GCCTTACTATTCTACATCCTAGCATTTACTAGCAGTTACTTCTAGGCCAATTGAACTTTGAACTT
66 GCCTTACTATTCTACATCCTAGCATTTACTAGCAGTTACTTCTAGGCCAATTGAACTTTGAACTT
67040381 CCTTTTCAAAGTTTTAGTCGTTGCCAAAAACAAAACAATGAATATTTGAGATGATAAATATTTTA
131 CCTTTTCAAAGTTTTAGTCGTTGCCAAAAACAAAACAATGAATATTTGAGATGATAAATATTTTA
67040446 G
196 G
67040447 ATGA
1 ATGA
67040451 TAAGCTAGAC
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
196 200 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (196 bp):
ATGAAGAACCCTTCTCAAACAAGGATCACTCAAAAAGTTCCCAAACTTCTACCCCAGCACAATCT
GCCTTACTATTCTACATCCTAGCATTTACTAGCAGTTACTTCTAGGCCAATTGAACTTTGAACTT
CCTTTTCAAAGTTTTAGTCGTTGCCAAAAACAAAACAATGAATATTTGAGATGATAAATATTTTA
G
Found at i:67040442 original size:16 final size:16
Alignment explanation
Indices: 67040421--67040453 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
67040411 CAAAACAATG
67040421 AATATTTGAGATGATA
1 AATATTTGAGATGATA
*
67040437 AATATTTTAGATGATA
1 AATATTTGAGATGATA
67040453 A
1 A
67040454 GCTAGACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (16 bp):
AATATTTGAGATGATA
Found at i:67041168 original size:20 final size:20
Alignment explanation
Indices: 67041143--67041203 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
67041133 GCAGCAGATG
67041143 GGGAAATAAGAAGGAAAAAA
1 GGGAAATAAGAAGGAAAAAA
* *
67041163 GGGAAATAA-TATG----AA
1 GGGAAATAAGAAGGAAAAAA
67041178 GGGAAATAAGAAGGAAAAAA
1 GGGAAATAAGAAGGAAAAAA
67041198 GGGAAA
1 GGGAAA
67041204 CGCAGAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 11 0.34
16 2 0.06
19 2 0.06
20 17 0.53
ACGTcount: A:0.61, C:0.00, G:0.31, T:0.08
Consensus pattern (20 bp):
GGGAAATAAGAAGGAAAAAA
Found at i:67046957 original size:16 final size:16
Alignment explanation
Indices: 67046936--67046969 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
67046926 TATACATACA
67046936 ATTTTTATT-TATATAT
1 ATTTTT-TTCTATATAT
67046952 ATTTTTTTCTATATAT
1 ATTTTTTTCTATATAT
67046968 AT
1 AT
67046970 ACTTATTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTTTCTATATAT
Found at i:67058698 original size:19 final size:20
Alignment explanation
Indices: 67058676--67058713 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
67058666 GATTTATTTT
67058676 TATTAA-TAA-ATAAAGTAAA
1 TATTAAGTAATAT-AAGTAAA
67058695 TATTAAGTAATATAAGTAA
1 TATTAAGTAATATAAGTAA
67058714 TAAACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 9 0.53
21 2 0.12
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (20 bp):
TATTAAGTAATATAAGTAAA
Found at i:67058715 original size:19 final size:19
Alignment explanation
Indices: 67058676--67058713 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
67058666 GATTTATTTT
67058676 TATTAATAAATAAAGTAAA
1 TATTAATAAATAAAGTAAA
67058695 TATTAAGT-AATATAAGTAA
1 TATTAA-TAAATA-AAGTAA
67058714 TAAACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (19 bp):
TATTAATAAATAAAGTAAA
Found at i:67060040 original size:20 final size:19
Alignment explanation
Indices: 67059925--67060047 Score: 81
Period size: 20 Copynumber: 6.3 Consensus size: 19
67059915 TGTACGGGAC
67059925 TACACTTCGGTGCCTCTGTT
1 TACACTTCGGTGCCTCTG-T
* **
67059945 TGCACTTTAGTGCCTCTGT
1 TACACTTCGGTGCCTCTGT
*
67059964 TACACTTCGGTGTTCCTAT-T
1 TACACTTCGGTG--CCTCTGT
** *
67059984 CGCACTTCGATGCCTCTGAT
1 TACACTTCGGTGCCTCTG-T
* *
67060004 TGCACAATT--GTGTCTCTGT
1 T--ACACTTCGGTGCCTCTGT
67060023 CTACACTTCGGTGCCTCTGT
1 -TACACTTCGGTGCCTCTGT
67060043 TACAC
1 TACAC
67060048 ATCTACGATG
Statistics
Matches: 76, Mismatches: 18, Indels: 19
0.67 0.16 0.17
Matches are distributed among these distances:
18 9 0.12
19 16 0.21
20 43 0.57
21 4 0.05
22 4 0.05
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (19 bp):
TACACTTCGGTGCCTCTGT
Found at i:67069660 original size:26 final size:27
Alignment explanation
Indices: 67069592--67069662 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
67069582 AATTTTCTTG
* *
67069592 AAATTTTATCGAGGGT-AAAATAGTTA
1 AAATTTTATCAAGGGTAAAAATAGTCA
*
67069618 AAATTTTATCAAAGGTAAAAAT-GTCA
1 AAATTTTATCAAGGGTAAAAATAGTCA
* *
67069644 AAATTTTATTAGGGGTAAA
1 AAATTTTATCAAGGGTAAA
67069663 TTTGGGGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 33 0.87
27 5 0.13
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (27 bp):
AAATTTTATCAAGGGTAAAAATAGTCA
Found at i:67073996 original size:95 final size:95
Alignment explanation
Indices: 67073896--67074074 Score: 236
Period size: 95 Copynumber: 1.9 Consensus size: 95
67073886 AACATAACCT
* *
67073896 CATGTTTAACGTCTT-ATCGGACTACCCCGTGTTTATTGTCCCGGTGGACTCTC-TATGTTGCCA
1 CATGTTTAACGTCTTGAT-GGACTACCCCGTGTTTATTATCCCAGTGGACTC-CATATGTTGCCA
*
67073959 TAGTCAAGCTATGGTCTTACATAATATAACTC
64 TAGTCAAGCTATCGTCTTACATAATATAACTC
* * * * * *
67073991 CATGTTTAATGTCTTGGTGGATTACCCTGTGTTTATTATCCTAGTGGACTCCATATGTTGTCATA
1 CATGTTTAACGTCTTGATGGACTACCCCGTGTTTATTATCCCAGTGGACTCCATATGTTGCCATA
*
67074056 GTCGAGCTATCGTCTTACA
66 GTCAAGCTATCGTCTTACA
67074075 CGTCATACCC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
94 1 0.01
95 70 0.97
96 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (95 bp):
CATGTTTAACGTCTTGATGGACTACCCCGTGTTTATTATCCCAGTGGACTCCATATGTTGCCATA
GTCAAGCTATCGTCTTACATAATATAACTC
Found at i:67077332 original size:16 final size:16
Alignment explanation
Indices: 67077311--67077358 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
67077301 TGGATTGTTT
67077311 TTAAGTATATTATATG
1 TTAAGTATATTATATG
67077327 TTAAGTTATATT-TAT-
1 TTAAG-TATATTATATG
67077342 TTAA-TA-A-TATATG
1 TTAAGTATATTATATG
67077355 TTAA
1 TTAA
67077359 AATAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
11 1 0.03
12 4 0.14
13 6 0.21
15 4 0.14
16 8 0.28
17 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (16 bp):
TTAAGTATATTATATG
Found at i:67082451 original size:17 final size:16
Alignment explanation
Indices: 67082431--67082468 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
67082421 ATTTAATCAA
67082431 TTAATTAAATTAATTTC
1 TTAATTAAA-TAATTTC
*
67082448 TTAATTAAATAATTTT
1 TTAATTAAATAATTTC
67082464 TTAAT
1 TTAAT
67082469 CTAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATTAAATAATTTC
Found at i:67084374 original size:18 final size:18
Alignment explanation
Indices: 67084352--67084385 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
67084342 TTTCTCACTT
67084352 TTTTTTAAT-TTTTATTA
1 TTTTTTAATATTTTATTA
67084369 TTTTTTAATATTTTATT
1 TTTTTTAATATTTTATT
67084386 TTATTCTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTAATATTTTATTA
Found at i:67084505 original size:23 final size:22
Alignment explanation
Indices: 67084450--67084506 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
67084440 ATTCTCATTT
*
67084450 AGTTAAAAATATATTTTTTGAA
1 AGTTAAAAATATATTATTTGAA
* *
67084472 ATTGTACAAATATATTATTTGATA
1 AGT-TAAAAATATATTATTTGA-A
67084496 AGTTAAAAATA
1 AGTTAAAAATA
67084507 AACAAGTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.07
23 23 0.82
24 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (22 bp):
AGTTAAAAATATATTATTTGAA
Found at i:67086606 original size:20 final size:20
Alignment explanation
Indices: 67086581--67086621 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
67086571 CTCATCGAGT
67086581 CAGAGTCAAAGCCACCCAAA
1 CAGAGTCAAAGCCACCCAAA
67086601 CAGAGTCAAAGCCACCCAAA
1 CAGAGTCAAAGCCACCCAAA
67086621 C
1 C
67086622 CCCCCAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.37, G:0.15, T:0.05
Consensus pattern (20 bp):
CAGAGTCAAAGCCACCCAAA
Found at i:67087289 original size:47 final size:47
Alignment explanation
Indices: 67087220--67087314 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
67087210 AAAGAATATA
* *
67087220 CAATTTAATCATGGTCATATTTTAAAAAGTATAACTT-TCTGCCTTCT
1 CAATTTAATCATGGCCATATTTTAAAAAATATAACTTCT-TGCCTTCT
*
67087267 CAATTTAATCATGGCCATATTTTAAAAAATATATCTTCTTGCCTTCT
1 CAATTTAATCATGGCCATATTTTAAAAAATATAACTTCTTGCCTTCT
67087314 C
1 C
67087315 GTGAATTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 43 0.98
48 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (47 bp):
CAATTTAATCATGGCCATATTTTAAAAAATATAACTTCTTGCCTTCT
Found at i:67091439 original size:13 final size:14
Alignment explanation
Indices: 67091421--67091449 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
67091411 GTAGGATACT
67091421 AACTAAAAT-ATGA
1 AACTAAAATCATGA
67091434 AACTAAAATCATGA
1 AACTAAAATCATGA
67091448 AA
1 AA
67091450 GGTAGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (14 bp):
AACTAAAATCATGA
Done.