Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 230 of 335
Found at i:69373256 original size:20 final size:18
Alignment explanation
Indices: 69373227--69373271 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
69373217 AACGAAAAGC
69373227 AGGG-AAAGAAAGAAAGAA
1 AGGGAAAAGAAAG-AAGAA
69373245 AGGAGAAAAGAAAGAAGAA
1 AGG-GAAAAGAAAGAAGAA
69373264 AGGGAAAA
1 AGGGAAAA
69373272 TTGAAGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGGGAAAAGAAAGAAGAA
Found at i:69373883 original size:2 final size:2
Alignment explanation
Indices: 69373876--69373905 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
69373866 TTATTATTTA
69373876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69373906 GTAGTAGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69374162 original size:19 final size:20
Alignment explanation
Indices: 69374140--69374187 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
69374130 AATTATATTG
*
69374140 AATTGAAAAAAATAT-AGTT
1 AATTGAAAAAAATATGAATT
*
69374159 AATT-AATTAAAATATGAATT
1 AATTGAA-AAAAATATGAATT
69374179 AATTGAAAA
1 AATTGAAAA
69374188 TTGGAAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 8 0.35
21 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
AATTGAAAAAAATATGAATT
Found at i:69374632 original size:18 final size:18
Alignment explanation
Indices: 69374567--69374632 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
69374557 AGATCGACTA
*
69374567 TTACTGAATAATTTAATTG
1 TTACTGAATAA-TTGATTG
* * *
69374586 TTACTGTATATTTGATTT
1 TTACTGAATAATTGATTG
69374604 TTACTGAATAATTGATTG
1 TTACTGAATAATTGATTG
*
69374622 TTACTGGATAA
1 TTACTGAATAA
69374633 CCGATCAGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
18 30 0.77
19 9 0.23
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (18 bp):
TTACTGAATAATTGATTG
Found at i:69374711 original size:18 final size:18
Alignment explanation
Indices: 69374649--69374712 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
69374639 AGTTGATTGA
69374649 TACTAAATAACTGATTAT
1 TACTAAATAACTGATTAT
* * * *
69374667 TATTGAATAATTGATTTT
1 TACTAAATAACTGATTAT
** *
69374685 TACCGAATAACTGACTAT
1 TACTAAATAACTGATTAT
69374703 TACTAAATAA
1 TACTAAATAA
69374713 ATAATTGTTC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (18 bp):
TACTAAATAACTGATTAT
Found at i:69384839 original size:41 final size:41
Alignment explanation
Indices: 69384761--69384870 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 41
69384751 AATACTCGAT
* * *
69384761 ATCTCGCACACTAAGTGCCAATACATAACTGAAGCTATTATA
1 ATCTCGCACACTAAGTGCC-TTACATAGCCGAAGCTATTATA
*
69384803 ATCTCGAACACTAAGTGCCTTACATAGCCGAAGCTATTATA
1 ATCTCGCACACTAAGTGCCTTACATAGCCGAAGCTATTATA
69384844 ATCTCGCACACTAAGTGCCTTACATAG
1 ATCTCGCACACTAAGTGCCTTACATAG
69384871 TCAAAGCTCT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
41 45 0.71
42 18 0.29
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCTTACATAGCCGAAGCTATTATA
Found at i:69384895 original size:41 final size:41
Alignment explanation
Indices: 69384810--69384926 Score: 128
Period size: 41 Copynumber: 2.9 Consensus size: 41
69384800 ATAATCTCGA
* ** *
69384810 ACACTAAGTGCCTTACATAGCCGAAGCTAT-TATAATCTCGC
1 ACACTAAGTGCCTTACATAGCCAAAGCTATCT-CGATCTCAC
* * *
69384851 ACACTAAGTGCCTTACATAGTCAAAGCTCTCTCGGTCTCAC
1 ACACTAAGTGCCTTACATAGCCAAAGCTATCTCGATCTCAC
* * *
69384892 ACACTAAGTGCCATATATAGCCAAAGCTGTCTCGA
1 ACACTAAGTGCCTTACATAGCCAAAGCTATCTCGA
69384927 ATTGCACATT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
41 62 0.98
42 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (41 bp):
ACACTAAGTGCCTTACATAGCCAAAGCTATCTCGATCTCAC
Found at i:69386397 original size:17 final size:18
Alignment explanation
Indices: 69386364--69386397 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69386354 GCCATAATGT
*
69386364 AGGCCCATATGGGCCCAC
1 AGGCCCATATCGGCCCAC
69386382 AGGCCCAT-TCGGCCCA
1 AGGCCCATATCGGCCCA
69386398 ACGTGGCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.41, G:0.26, T:0.12
Consensus pattern (18 bp):
AGGCCCATATCGGCCCAC
Found at i:69395178 original size:19 final size:20
Alignment explanation
Indices: 69395137--69395179 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
69395127 ACCTATCCCT
*
69395137 ATGCAACATATCATAATATC
1 ATGCAACATATCATAATAGC
*
69395157 ATGCAACATAT-ATAATGGC
1 ATGCAACATATCATAATAGC
69395176 ATGC
1 ATGC
69395180 TCGATTACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (20 bp):
ATGCAACATATCATAATAGC
Found at i:69404599 original size:11 final size:11
Alignment explanation
Indices: 69404583--69404607 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
69404573 AGTCGAATTA
69404583 ATTATTTTAAT
1 ATTATTTTAAT
69404594 ATTATTTTAAT
1 ATTATTTTAAT
69404605 ATT
1 ATT
69404608 TACAGCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:69405134 original size:21 final size:20
Alignment explanation
Indices: 69405110--69405149 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
69405100 CATGTATTTT
69405110 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
69405131 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
69405150 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:69405157 original size:20 final size:21
Alignment explanation
Indices: 69405115--69405157 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
69405105 ATTTTAATGA
*
69405115 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
69405136 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
69405156 TT
1 TT
69405158 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:69408977 original size:11 final size:11
Alignment explanation
Indices: 69408958--69408990 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
69408948 TCTGAGTTAG
*
69408958 AAAAATATTTT
1 AAAATTATTTT
69408969 AAAATTATTTT
1 AAAATTATTTT
69408980 AAAATTATTTT
1 AAAATTATTTT
69408991 CTGTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:69424426 original size:27 final size:27
Alignment explanation
Indices: 69424378--69424537 Score: 177
Period size: 27 Copynumber: 5.9 Consensus size: 27
69424368 GCGAGGCTAC
* *
69424378 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
69424405 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
69424431 CAGATATATGTGACAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
69424458 CAGATAATCGTGGCATAGCTACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
69424485 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
69424512 CAGATAATTGTGGCATAGCCACCAGA
1 CAGAT-ATTGTGGCAGAGCCACCAGA
69424538 CGCTTCCTCC
Statistics
Matches: 114, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:69424471 original size:54 final size:54
Alignment explanation
Indices: 69424378--69424537 Score: 236
Period size: 54 Copynumber: 3.0 Consensus size: 54
69424368 GCGAGGCTAC
* *
69424378 CAGATAT-TGTGAC-GAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGACAG-AGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* *
69424431 CAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCATAGCTACCAGAA
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
*
69424485 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGA
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGA
69424538 CGCTTCCTCC
Statistics
Matches: 97, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
53 12 0.12
54 84 0.87
55 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:69425940 original size:24 final size:24
Alignment explanation
Indices: 69425913--69425960 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
69425903 AGAACTCATG
69425913 AACATCAAGATAGAAGCAAACTAC
1 AACATCAAGATAGAAGCAAACTAC
69425937 AACATCAAGATAGAAGCAAACTAC
1 AACATCAAGATAGAAGCAAACTAC
69425961 CATGAACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.21, G:0.12, T:0.12
Consensus pattern (24 bp):
AACATCAAGATAGAAGCAAACTAC
Found at i:69426184 original size:26 final size:25
Alignment explanation
Indices: 69426153--69426259 Score: 178
Period size: 26 Copynumber: 4.2 Consensus size: 25
69426143 TGAAATGCCC
69426153 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCT-AACCATT
69426179 ATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
*
69426204 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAA-CCATT
69426230 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACC-ATT
69426256 ATCA
1 ATCA
69426260 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
25 28 0.36
26 49 0.64
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (25 bp):
ATCATGGAACATTTACCTAACCATT
Found at i:69426229 original size:51 final size:52
Alignment explanation
Indices: 69426153--69426259 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
69426143 TGAAATGCCC
69426153 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACC-ATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCTATT
* *
69426204 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCTATT
69426256 ATCA
1 ATCA
69426260 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 46 0.87
52 7 0.13
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCTATT
Found at i:69427937 original size:20 final size:21
Alignment explanation
Indices: 69427905--69427944 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
69427895 CAAGTCAGAG
69427905 TCCTTCGGGACACA-AACTCT
1 TCCTTCGGGACACAGAACTCT
69427925 TCCTT-GGGAACACAGAACTC
1 TCCTTCGGG-ACACAGAACTC
69427945 CTTCACCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 10 0.56
21 5 0.28
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (21 bp):
TCCTTCGGGACACAGAACTCT
Found at i:69431208 original size:27 final size:27
Alignment explanation
Indices: 69431160--69431318 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
69431150 GCGAGGCTTC
* *
69431160 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
69431187 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
69431213 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
69431240 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
69431267 CAGATATATGTAGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
69431294 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
69431319 GAAGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:69431253 original size:54 final size:54
Alignment explanation
Indices: 69431178--69431318 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
69431168 GTGACGAAGT
* *
69431178 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTAGCAGAGC
*
69431232 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTAGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTAGCAGAGC
69431286 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
69431319 GAAGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTAGCAGAGC
Found at i:69439711 original size:25 final size:25
Alignment explanation
Indices: 69439677--69439741 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 25
69439667 AGGCGCGACC
69439677 TATTTTTTTAATAATATAATT-TATT
1 TATTTTTTTAATAATATAATTAT-TT
*
69439702 TATTTTTTT-A-AATATTATTATTT
1 TATTTTTTTAATAATATAATTATTT
69439725 TATTATATTTTAATAAT
1 TATT-T-TTTTAATAAT
69439742 TTTTAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 14 0.41
24 3 0.09
25 13 0.38
26 1 0.03
27 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
TATTTTTTTAATAATATAATTATTT
Found at i:69439715 original size:26 final size:27
Alignment explanation
Indices: 69439677--69439735 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 27
69439667 AGGCGCGACC
69439677 TATTTTTTTAATAATA-TAATTTATT-
1 TATTTTTTTAATAATATTAATTTATTA
* *
69439702 TATTTTTTTAAATATTATTATTTTATTA
1 TATTTTTTT-AATAATATTAATTTATTA
69439730 TATTTT
1 TATTTT
69439736 AATAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 9 0.31
26 6 0.21
27 8 0.28
28 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TATTTTTTTAATAATATTAATTTATTA
Found at i:69439823 original size:27 final size:27
Alignment explanation
Indices: 69439793--69439856 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
69439783 GCCAGACCCG
69439793 GAGGCGCGACCAGTCGCTCCTGCTGCA
1 GAGGCGCGACCAGTCGCTCCTGCTGCA
69439820 GAGGCGCGACCAGTCGCTCCTGCTGCA
1 GAGGCGCGACCAGTCGCTCCTGCTGCA
69439847 GAGGCGCGAC
1 GAGGCGCGAC
69439857 TCCCCTGCAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.16, C:0.36, G:0.36, T:0.12
Consensus pattern (27 bp):
GAGGCGCGACCAGTCGCTCCTGCTGCA
Found at i:69444058 original size:12 final size:12
Alignment explanation
Indices: 69444003--69444068 Score: 73
Period size: 12 Copynumber: 5.6 Consensus size: 12
69443993 CCTGAGTGTA
69444003 GCTCCGGCTCTG
1 GCTCCGGCTCTG
*
69444015 GC-CGCCGCTCTG
1 GCTC-CGGCTCTG
* *
69444027 GGTCCGGCACT-
1 GCTCCGGCTCTG
69444038 GCTCCGGCTCTG
1 GCTCCGGCTCTG
*
69444050 GCTCTGGCTCTG
1 GCTCCGGCTCTG
69444062 GCTCCGG
1 GCTCCGG
69444069 AGCTAGTGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
11 10 0.23
12 32 0.74
13 1 0.02
ACGTcount: A:0.02, C:0.41, G:0.35, T:0.23
Consensus pattern (12 bp):
GCTCCGGCTCTG
Found at i:69445688 original size:11 final size:11
Alignment explanation
Indices: 69445672--69445707 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
69445662 ATAAATTTAC
*
69445672 ATTATATCAAA
1 ATTATATTAAA
69445683 ATTATATTAAA
1 ATTATATTAAA
*
69445694 ATTACATTAAA
1 ATTATATTAAA
69445705 ATT
1 ATT
69445708 TCTTACTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (11 bp):
ATTATATTAAA
Found at i:69446770 original size:3 final size:3
Alignment explanation
Indices: 69446764--69446832 Score: 86
Period size: 3 Copynumber: 22.7 Consensus size: 3
69446754 ACTAACATTT
* * *
69446764 TTC TTC TTTC TCC TCC TTC TCC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
69446810 TTC TTC TTC TTC TT- TTC TCTC TT
1 TTC TTC TTC TTC TTC TTC T-TC TT
69446833 TGCTGCTGCA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
2 2 0.03
3 51 0.86
4 6 0.10
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:69447000 original size:27 final size:27
Alignment explanation
Indices: 69446962--69447025 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
69446952 CTGCAGGGGA
69446962 GTCGCGCCTCTGCAGCAGGAGCGACTG
1 GTCGCGCCTCTGCAGCAGGAGCGACTG
69446989 GTCGCGCCTCTGCAGCAGGAGCGACTG
1 GTCGCGCCTCTGCAGCAGGAGCGACTG
69447016 GTCGCGCCTC
1 GTCGCGCCTC
69447026 CGGGTCTGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.12, C:0.36, G:0.36, T:0.16
Consensus pattern (27 bp):
GTCGCGCCTCTGCAGCAGGAGCGACTG
Found at i:69447123 original size:26 final size:27
Alignment explanation
Indices: 69447083--69447140 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
69447073 AAAAATTATT
69447083 AAAATATAATAAAATAATAATATTTAAA
1 AAAATATAATAAAATAATAATA-TTAAA
* *
69447111 AAAATA-AAT-AAATTATATTATTAAA
1 AAAATATAATAAAATAATAATATTAAA
69447136 AAAAT
1 AAAAT
69447141 GGGTCGCGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 10 0.36
26 9 0.32
27 3 0.11
28 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
AAAATATAATAAAATAATAATATTAAA
Found at i:69447574 original size:23 final size:23
Alignment explanation
Indices: 69447535--69447585 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
69447525 TACATGTATT
*
69447535 TATTTTTTATTTATT-AAATAATA
1 TATTTTTAATTTATTAAAAT-ATA
69447558 TATTTTATAATTT-TTAAAATATA
1 TATTTT-TAATTTATTAAAATATA
69447581 TATTT
1 TATTT
69447586 ACTAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTTTAATTTATTAAAATATA
Found at i:69448351 original size:49 final size:50
Alignment explanation
Indices: 69448294--69448391 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 50
69448284 TTTAATATGT
* *
69448294 TTAGTTTAATTAATTCAGTTGTTTT-AATTTTCTTTAGTTGCTTAAATAC
1 TTAGTTTAATTAATTAAGTTGTTTTGAATTTTCTTTAATTGCTTAAATAC
69448343 TTAGTTTAATTAATTAAGTTGTTTTGAATTTTCTTTAATTGCTTAAATA
1 TTAGTTTAATTAATTAAGTTGTTTTGAATTTTCTTTAATTGCTTAAATA
69448392 ATTTCGACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 24 0.52
50 22 0.48
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (50 bp):
TTAGTTTAATTAATTAAGTTGTTTTGAATTTTCTTTAATTGCTTAAATAC
Found at i:69448406 original size:50 final size:48
Alignment explanation
Indices: 69448301--69448398 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 48
69448291 TGTTTAGTTT
* * * **
69448301 AATTAATTCAGTTGTTTTAATTTTCTTTAGTTGCTTAAATACTTAGTTT
1 AATTAATTAAGTTGTTTTAATTTTCTTTAATTGCTTAAATAATTA-TCG
69448350 AATTAATTAAGTTGTTTTGAATTTTCTTTAATTGCTTAAATAATT-TCG
1 AATTAATTAAGTTGTTTT-AATTTTCTTTAATTGCTTAAATAATTATCG
69448398 A
1 A
69448399 CATTTAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
48 2 0.05
49 17 0.40
50 24 0.56
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (48 bp):
AATTAATTAAGTTGTTTTAATTTTCTTTAATTGCTTAAATAATTATCG
Found at i:69454439 original size:29 final size:29
Alignment explanation
Indices: 69454407--69454567 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
69454397 AATTTAAGCC
* *** *
69454407 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
** * *
69454436 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
* * * *
69454465 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACTTAGTGCCATATATTTCCAGC-T
*
69454495 -GCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
*
69454523 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
69454552 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
69454568 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 113 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCT
Found at i:69462259 original size:29 final size:29
Alignment explanation
Indices: 69462227--69462387 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
69462217 AATTTAAGCC
* *** *
69462227 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
** * *
69462256 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
* * * *
69462285 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACTTAGTGCCATATATTTCCAGC-T
*
69462315 -GCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
*
69462343 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
69462372 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
69462388 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 113 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCT
Found at i:69464279 original size:42 final size:42
Alignment explanation
Indices: 69464186--69464334 Score: 190
Period size: 42 Copynumber: 3.5 Consensus size: 42
69464176 TACTGCCTGG
* * * * *
69464186 AGCCTATGTTCTTGCCCGTGTAGCTCACACGGCCTGGACACA
1 AGCCTATGTCCTTGCCCATGTGGCTCACATGGCCTGGGCACA
* * * *
69464228 TGCCCATGTCCTTTCCCATGTGGCTCATATGGCCTGGGCACA
1 AGCCTATGTCCTTGCCCATGTGGCTCACATGGCCTGGGCACA
69464270 AGCCTATGTCCTTGCCCATGTGGCTCACATGGCCTGGGCACA
1 AGCCTATGTCCTTGCCCATGTGGCTCACATGGCCTGGGCACA
* * *
69464312 CGCCTATGTCCCTGGCCATGTGG
1 AGCCTATGTCCTTGCCCATGTGG
69464335 TTCTAAAGCA
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.15, C:0.34, G:0.26, T:0.26
Consensus pattern (42 bp):
AGCCTATGTCCTTGCCCATGTGGCTCACATGGCCTGGGCACA
Found at i:69468558 original size:47 final size:46
Alignment explanation
Indices: 69468501--69468602 Score: 125
Period size: 47 Copynumber: 2.2 Consensus size: 46
69468491 GTGGTTTAAC
* * *
69468501 CACATTTCTATTCTGGCAACTT-GACTACAATTATAGTGGCTCGACCA
1 CACATATCTATTATGGCAACTTAG-CTACAA-TATAGTGACTCGACCA
* *
69468548 CACATATCTATTATGGCAGCTTAGCTACAATATAGTGACTTGACCA
1 CACATATCTATTATGGCAACTTAGCTACAATATAGTGACTCGACCA
*
69468594 CATATATCT
1 CACATATCT
69468603 GATCTGACAG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 22 0.46
47 25 0.52
48 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (46 bp):
CACATATCTATTATGGCAACTTAGCTACAATATAGTGACTCGACCA
Found at i:69468601 original size:46 final size:47
Alignment explanation
Indices: 69468499--69468602 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 47
69468489 TGGTGGTTTA
* *
69468499 ACCACAT-T-TCTATTCTGGCAACTTGACTACAATTATAGTGGCTCG
1 ACCACATATATCTATTATGGCAACTTGACTACAATTATAGTGACTCG
* * *
69468544 ACCACACATATCTATTATGGCAGCTT-AGCTACAA-TATAGTGACTTG
1 ACCACATATATCTATTATGGCAACTTGA-CTACAATTATAGTGACTCG
69468590 ACCACATATATCT
1 ACCACATATATCT
69468603 GATCTGACAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
45 6 0.12
46 24 0.48
47 20 0.40
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (47 bp):
ACCACATATATCTATTATGGCAACTTGACTACAATTATAGTGACTCG
Found at i:69469044 original size:11 final size:10
Alignment explanation
Indices: 69469030--69469054 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
69469020 GTTTTTAGAC
69469030 TTTTTTTTTG
1 TTTTTTTTTG
69469040 TTTTTTTTTG
1 TTTTTTTTTG
69469050 TTTTT
1 TTTTT
69469055 CTCATGGATT
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:69473474 original size:40 final size:40
Alignment explanation
Indices: 69473425--69473575 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
69473415 ATCACGATTT
*
69473425 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
69473465 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
69473505 GCATAAATGTCC-TCGGGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
69473545 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
69473576 TAATTTCCAG
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:69473513 original size:80 final size:80
Alignment explanation
Indices: 69473429--69473615 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
69473419 CGATTTGCAC
* * *
69473429 AAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCGCACGAA-TGCCTTCGGGTCTTAGCCCG
1 AAATGCCTTCGGGACTTAGCCCGGATAGAA-GCACTAGCAC-AATTGCCTTCGGGTCTTAACCCG
*
69473492 GATATAATTACTAGCAT
64 GATATAATTACCAGCAT
*
69473509 AAATGTCC-TCGGGACTTAGCCCGGAT-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 AAATG-CCTTCGGGACTTAGCCCGGATAGAAG-CACTAGCACAATTGCCTTCGGGTCTTAACCCG
*
69473572 GATATAATTTCCAGCAT
64 GATATAATTACCAGCAT
* * *
69473589 TAACGTCTTCGGGACTTAGCCCGGATA
1 AAATGCCTTCGGGACTTAGCCCGGATA
69473616 TCATTCAATT
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 84 0.91
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
AAATGCCTTCGGGACTTAGCCCGGATAGAAGCACTAGCACAATTGCCTTCGGGTCTTAACCCGGA
TATAATTACCAGCAT
Found at i:69477570 original size:39 final size:39
Alignment explanation
Indices: 69477516--69477594 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
69477506 GTTTTAAGTG
69477516 TTAGTTAATGAGTTAGTTATATGGTGATAAATAGCCGTA
1 TTAGTTAATGAGTTAGTTATATGGTGATAAATAGCCGTA
*
69477555 TTAGTTAATGAGTTAGTTATATGGTGATAAATAGCTGTA
1 TTAGTTAATGAGTTAGTTATATGGTGATAAATAGCCGTA
69477594 T
1 T
69477595 GTTTATATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.41
Consensus pattern (39 bp):
TTAGTTAATGAGTTAGTTATATGGTGATAAATAGCCGTA
Found at i:69478432 original size:43 final size:43
Alignment explanation
Indices: 69478374--69478544 Score: 227
Period size: 43 Copynumber: 4.0 Consensus size: 43
69478364 TATTGAAATG
*
69478374 TGATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAAA
1 TGATA-TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* *
69478418 TGATATCAGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* * * *
69478461 TAATATCGAGCCTCGGGCCTAGCAGGCTATAATACCGGTGAAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
** * *
69478504 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCTGGTGAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
69478545 TGAGTTCAGA
Statistics
Matches: 110, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 10 0.09
43 95 0.86
44 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (43 bp):
TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:69478620 original size:40 final size:41
Alignment explanation
Indices: 69478391--69478623 Score: 150
Period size: 43 Copynumber: 5.6 Consensus size: 41
69478381 CGGGCTTCGG
* * ***
69478391 GCCTAGCAGGCTATAATGCCAGTGAAATG-ATATCAGGCTTCGG
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * ***
69478434 GCCTAGCAGGCTATAATGCCGGTGAGAT-AATATCGAGCCTCGG
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCGGGCTTAAA
* *
69478477 GCCTAGCAGGCTATAATACCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * * *
69478520 GCCTAGCAGGCGAAATGCTGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** *
69478561 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
69478601 ACCTAGCAGGCTAAATGCCGGTG
1 GCCTAGCAGGCTAAATGCCGGTG
69478624 TTTTGATAAA
Statistics
Matches: 154, Mismatches: 31, Indels: 13
0.78 0.16 0.07
Matches are distributed among these distances:
40 31 0.20
41 29 0.19
42 10 0.06
43 83 0.54
44 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:69482421 original size:3 final size:3
Alignment explanation
Indices: 69482413--69482460 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
69482403 AACACCACAT
69482413 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
69482461 CCATAGCAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:69489837 original size:41 final size:41
Alignment explanation
Indices: 69489780--69489863 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
69489770 TTACCTAATA
69489780 ACTATGTCAAAATAACAAACTAGTTATCCTTAATTGCACTT
1 ACTATGTCAAAATAACAAACTAGTTATCCTTAATTGCACTT
69489821 ACTATGTCAAAATAACAAACTAGTTATCCTTAATTGCACTT
1 ACTATGTCAAAATAACAAACTAGTTATCCTTAATTGCACTT
69489862 AC
1 AC
69489864 GCTTCATGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (41 bp):
ACTATGTCAAAATAACAAACTAGTTATCCTTAATTGCACTT
Found at i:69495404 original size:12 final size:12
Alignment explanation
Indices: 69495389--69495421 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
69495379 AACATAAAAT
69495389 AAAAGAAAAAGA
1 AAAAGAAAAAGA
69495401 AAAAGAAAAAGA
1 AAAAGAAAAAGA
69495413 AAAAGAAAA
1 AAAAGAAAA
69495422 CAAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:69497119 original size:34 final size:32
Alignment explanation
Indices: 69497080--69497160 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 32
69497070 AAGTTAAGAC
*
69497080 TAATAAAACTAAAACAAAG-AATTAAAATTAATAA
1 TAATAAAA-TAAAACAAAGTAA-TAAAATGAA-AA
* *
69497114 TAATAATAATAAATCAGAGTAATAAAATGAAAA
1 TAATAA-AATAAAACAAAGTAATAAAATGAAAA
69497147 TAAATAAAATAAAA
1 T-AATAAAATAAAA
69497161 TAAAAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
33 9 0.22
34 27 0.68
35 4 0.10
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (32 bp):
TAATAAAATAAAACAAAGTAATAAAATGAAAA
Found at i:69497158 original size:5 final size:5
Alignment explanation
Indices: 69497134--69497193 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
69497124 AAATCAGAGT
* * *
69497134 AATAA AATGAA AAT-A AATAA AATAA AATAA AA-AA TAAGAA CATTA AAT-A
1 AATAA AAT-AA AATAA AATAA AATAA AATAA AATAA -AATAA AATAA AATAA
69497183 AATAA AATAA A
1 AATAA AATAA A
69497194 GAAAAGGGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
4 10 0.22
5 29 0.63
6 7 0.15
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:69505310 original size:29 final size:29
Alignment explanation
Indices: 69505248--69505350 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
69505238 GTGACGAGAT
* * *
69505248 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
69505277 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
69505306 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
69505335 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
69505351 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:69513257 original size:29 final size:28
Alignment explanation
Indices: 69513195--69513295 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
69513185 GTGACGAGAT
* * *
69513195 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-GATATA
* *
69513224 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGA-TATA
* *
69513253 TGGCACTATGTGTGCGGGCTT-GA-ATCA
1 TGGCACTAAGTGTGCGAGCTTGGATAT-A
69513280 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
69513296 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.03
27 16 0.27
28 3 0.05
29 39 0.65
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGGATATA
Found at i:69513302 original size:27 final size:27
Alignment explanation
Indices: 69513225--69513302 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
69513215 TGTAATGTAC
*
69513225 GGCACTAAGTGTGCGAGTTTGGACTATAT
1 GGCACTAAGTGTGCGAGATT-GAC-ATAT
* * *
69513254 GGCACTATGTGTGCGGGCTTGA-ATCAT
1 GGCACTAAGTGTGCGAGATTGACAT-AT
*
69513281 GGCACTAAGTGTGCGTGATTGA
1 GGCACTAAGTGTGCGAGATTGA
69513303 GTATTAAGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 21 0.50
28 2 0.05
29 17 0.40
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.29
Consensus pattern (27 bp):
GGCACTAAGTGTGCGAGATTGACATAT
Found at i:69521219 original size:29 final size:29
Alignment explanation
Indices: 69521157--69521259 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
69521147 GTGACGAGAT
* * *
69521157 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
69521186 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
69521215 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
69521244 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
69521260 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:69523797 original size:31 final size:31
Alignment explanation
Indices: 69523755--69523826 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
69523745 TGGGCCATAT
*
69523755 GAACGTATGGGTCCACACGGGTGAACTACAC
1 GAACGTATGGGTCCACACGGGTGAACCACAC
* *
69523786 GAACGTGTGGGTCCACACTGGTGAACCACAC
1 GAACGTATGGGTCCACACGGGTGAACCACAC
*
69523817 GAACATATGG
1 GAACGTATGG
69523827 AATTTTGGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.29, T:0.17
Consensus pattern (31 bp):
GAACGTATGGGTCCACACGGGTGAACCACAC
Found at i:69543672 original size:40 final size:40
Alignment explanation
Indices: 69543622--69543701 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
69543612 TGAAGTACAC
69543622 GGCTTAGCGACATGGTCATGTGTCATCTAAGAATTTATTA
1 GGCTTAGCGACATGGTCATGTGTCATCTAAGAATTTATTA
* * *
69543662 GGCTTGGCGACATGGTCGTGTGTCATCTGAGAATTTATTA
1 GGCTTAGCGACATGGTCATGTGTCATCTAAGAATTTATTA
69543702 AGGTTCCAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (40 bp):
GGCTTAGCGACATGGTCATGTGTCATCTAAGAATTTATTA
Found at i:69545008 original size:30 final size:30
Alignment explanation
Indices: 69544972--69545033 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
69544962 ATCTACTAAT
69544972 CTTATATTCAAGTTTAAGAGCTCAAAAAGA
1 CTTATATTCAAGTTTAAGAGCTCAAAAAGA
69545002 CTTATATTCAAGTTTAAGAGCTCAAAAAGA
1 CTTATATTCAAGTTTAAGAGCTCAAAAAGA
69545032 CT
1 CT
69545034 ATCTTTCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (30 bp):
CTTATATTCAAGTTTAAGAGCTCAAAAAGA
Found at i:69545855 original size:13 final size:13
Alignment explanation
Indices: 69545837--69545862 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69545827 TTTTCCAAGT
69545837 ATAACGATTTATA
1 ATAACGATTTATA
69545850 ATAACGATTTATA
1 ATAACGATTTATA
69545863 TAAGGAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATAACGATTTATA
Found at i:69547947 original size:100 final size:100
Alignment explanation
Indices: 69547774--69547975 Score: 332
Period size: 100 Copynumber: 2.0 Consensus size: 100
69547764 CCATCAATTC
* * * *
69547774 TTCCTTAATCGTAAATTAACCACAGGAACCACCTAACAATTAAGCCTTATCAAACAAATAGCCCT
1 TTCCTTAATCATAAAATAACCACAAGAACCACCTAACAATTAAGCCTTATCAAACAAATAGCCCC
*
69547839 AAAAGTCGCTTCCATGGTTTAATCCTTCTGGAACT
66 AAAAGTCGCTTCCATGGTTTAATCCTTCTGCAACT
* *
69547874 TTCCTTAATCATAAAATAACCACAAGAACCACCTGACAATTAAGCCTTCTCAAACAAATAGCCCC
1 TTCCTTAATCATAAAATAACCACAAGAACCACCTAACAATTAAGCCTTATCAAACAAATAGCCCC
*
69547939 AAAAGTCGCTTCCATGGTTTTATCCTTCTGCAACT
66 AAAAGTCGCTTCCATGGTTTAATCCTTCTGCAACT
69547974 TT
1 TT
69547976 GTAAACTAGA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 94 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (100 bp):
TTCCTTAATCATAAAATAACCACAAGAACCACCTAACAATTAAGCCTTATCAAACAAATAGCCCC
AAAAGTCGCTTCCATGGTTTAATCCTTCTGCAACT
Found at i:69548657 original size:5 final size:6
Alignment explanation
Indices: 69548629--69548654 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
69548619 AATAATATCT
69548629 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
69548655 TAATCTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:69553267 original size:22 final size:21
Alignment explanation
Indices: 69553242--69553312 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
69553232 ATATGGTCTG
*
69553242 TATCTATAACTAATATCTGATA
1 TATCTATAACT-GTATCTGATA
* * *
69553264 TATCATTTATCTGTATATGATA
1 TATC-TATAACTGTATCTGATA
*
69553286 TATCCTATAACTGTATCTAATA
1 TAT-CTATAACTGTATCTGATA
69553308 TATCT
1 TATCT
69553313 TGTTTCTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
21 2 0.05
22 31 0.79
23 6 0.15
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (21 bp):
TATCTATAACTGTATCTGATA
Found at i:69555288 original size:28 final size:27
Alignment explanation
Indices: 69555225--69555294 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
69555215 ATAGTGAGTC
69555225 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
69555252 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
69555280 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69555295 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:69563121 original size:27 final size:28
Alignment explanation
Indices: 69563090--69563160 Score: 135
Period size: 27 Copynumber: 2.6 Consensus size: 28
69563080 ATATAGTGAG
69563090 TCGCACACTTAGTGCTATATAATC-AAC
1 TCGCACACTTAGTGCTATATAATCAAAC
69563117 TCGCACACTTAGTGCTATATAATCAAAC
1 TCGCACACTTAGTGCTATATAATCAAAC
69563145 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
69563161 GTACAAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.30
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATATAATCAAAC
Found at i:69567770 original size:17 final size:18
Alignment explanation
Indices: 69567748--69567782 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
69567738 GAAAGTGTAT
69567748 ATATTC-ATCGGAATTTA
1 ATATTCAATCGGAATTTA
*
69567765 ATATTCAATCGGGATTTA
1 ATATTCAATCGGAATTTA
69567783 CCCCTTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (18 bp):
ATATTCAATCGGAATTTA
Found at i:69575187 original size:2 final size:2
Alignment explanation
Indices: 69575180--69575205 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
69575170 AATCATAATC
69575180 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
69575206 CTGAAATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69575250 original size:2 final size:2
Alignment explanation
Indices: 69575243--69575276 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
69575233 GTGGCTAAGC
69575243 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
69575277 TATATATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:69575439 original size:16 final size:17
Alignment explanation
Indices: 69575415--69575449 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
69575405 GAAAATCAGC
*
69575415 ATCTGTATCTA-ATATG
1 ATCTATATCTATATATG
69575431 ATCTATATCTATATATG
1 ATCTATATCTATATATG
69575448 AT
1 AT
69575450 ATATCCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (17 bp):
ATCTATATCTATATATG
Found at i:69578152 original size:10 final size:10
Alignment explanation
Indices: 69578137--69578161 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
69578127 TTATTGGTTG
69578137 ATCGTTGTTT
1 ATCGTTGTTT
69578147 ATCGTTGTTT
1 ATCGTTGTTT
69578157 ATCGT
1 ATCGT
69578162 CAGGTTGATG
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:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (10 bp):
ATCGTTGTTT
Found at i:69580118 original size:12 final size:12
Alignment explanation
Indices: 69580101--69580125 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69580091 AATGTCCCTT
69580101 TTTAAAAAAAAA
1 TTTAAAAAAAAA
69580113 TTTAAAAAAAAA
1 TTTAAAAAAAAA
69580125 T
1 T
69580126 ATAAGACTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TTTAAAAAAAAA
Found at i:69585546 original size:27 final size:28
Alignment explanation
Indices: 69585490--69585559 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
69585480 AAATTTGTAC
69585490 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
69585518 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
69585545 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
69585560 GGACTCACTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:69593456 original size:27 final size:28
Alignment explanation
Indices: 69593400--69593469 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
69593390 AAATTTGTAC
69593400 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
69593428 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
69593455 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
69593470 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:69593480 original size:27 final size:27
Alignment explanation
Indices: 69593400--69593481 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
69593390 AAATTTGTAC
* *
69593400 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
69593428 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
69593455 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
69593482 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:69601488 original size:29 final size:30
Alignment explanation
Indices: 69601456--69601512 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
69601446 TGGTTTAATA
*
69601456 TGTAATTATATACATG-AATTTTGATTTTG
1 TGTAATTATATACATGAAAATTTGATTTTG
*
69601485 TGTAATTTTATACATGAAAATTTGATTT
1 TGTAATTATATACATGAAAATTTGATTT
69601513 GATCTAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (30 bp):
TGTAATTATATACATGAAAATTTGATTTTG
Found at i:69601521 original size:30 final size:29
Alignment explanation
Indices: 69601458--69601521 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
69601448 GTTTAATATG
* *
69601458 TAATTATATACATGAATTTTGATTTTGTG
1 TAATTATATACATGAAATTTGATTTTGTC
*
69601487 TAATTTTATACATGAAAATTTGA-TTTGATC
1 TAATTATATACATG-AAATTTGATTTTG-TC
69601517 TAATT
1 TAATT
69601522 CTTGTAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (29 bp):
TAATTATATACATGAAATTTGATTTTGTC
Found at i:69601730 original size:29 final size:31
Alignment explanation
Indices: 69601697--69601765 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
69601687 CAGTTAGAGT
* *
69601697 TTCATGTGTATAATTGCAC-TAAAAT-AAAG
1 TTCATGTATACAATTGCACATAAAATCAAAG
* *
69601726 TTCATCTATACAATTGCACATTAAATCAAAG
1 TTCATGTATACAATTGCACATAAAATCAAAG
69601757 TTCATGTAT
1 TTCATGTAT
69601766 CTCAAAACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 16 0.48
30 5 0.15
31 12 0.36
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.36
Consensus pattern (31 bp):
TTCATGTATACAATTGCACATAAAATCAAAG
Found at i:69602026 original size:310 final size:309
Alignment explanation
Indices: 69601464--69602067 Score: 834
Period size: 310 Copynumber: 2.0 Consensus size: 309
69601454 TATGTAATTA
* * ***
69601464 TATACATGAATTTTGATTTTGTGTAATTTTATACATGAAAATTTGATTTGATCTAATTCTTGTAA
1 TATACATGAACTTTGATTTTGTGCAATTTTATACATGAAAATTTGATTTGATCTAATTCTCACAA
* * * ** * *
69601529 GTTATTAACAGAATTACTGATATAATATCATTTTATATTTATATATTTCATACACAAATAGTTAT
66 ATTATTAACACAATTACTGATATAACATCATTTTATATTTATATATCACATACAAAAATAATTAT
* * * * *
69601594 ATTTATCCAATATAAAAAATAAATTAATTTATTTATTTCTTTCAATGTGTATGATTAAATAAAAA
131 ATTTATCCAATATAAAAAATAAACTAATGTATTTATATCCTTCAATATGTATGATTAAATAAAAA
* * * * *
69601659 TTAAAATTTCAAATATATATTTGAATCACAGTTAGAGTTTCATGTGTATAATTGCACTAAAATAA
196 TTAAAATTTCAAATATACATTTGAACCACAATCAAAGTTTCATGTGTATAATTGCACT-AAATAA
* *
69601724 AGTTCATCTAT-ACAATTGCACATTAAATCAAAGTTCATGTATCTCAAAAC
260 AGTTCATCTATCA-AATTGCAAAATAAATCAAAGTTCATGTATCTCAAAAC
*
69601774 TATACATGAACTTTGATTTTGTGCAATTTTATACATGAAAGTTTTGATTTGATCTAATTCTCACA
1 TATACATGAACTTTGATTTTGTGCAATTTTATACATGAAA-ATTTGATTTGATCTAATTCTCACA
* *
69601839 AATTATTAACACAATTATTGATATAACATCATTTTATGTTTATATATCACATACAAAAATAATTA
65 AATTATTAACACAATTACTGATATAACATCATTTTATATTTATATATCACATACAAAAATAATTA
* *
69601904 TATTTATCCAATAT-AAAAATAAACTGATGTATTTATATCCTTCAATATGTATGATTGAATAAAA
130 TATTTATCCAATATAAAAAATAAACTAATGTATTTATATCCTTCAATATGTATGATTAAATAAAA
* ** * * *
69601968 ATTAAAGTTTCATGTATACGTTTGAACCACAATCAAAGTTTCATGTGTATGATTGCACTAATTAA
195 ATTAAAATTTCAAATATACATTTGAACCACAATCAAAGTTTCATGTGTATAATTGCACTAAATAA
* *
69602033 AGTTCATGTATCAAATTGCAAAATGAATCAAAGTT
260 AGTTCATCTATCAAATTGCAAAATAAATCAAAGTT
69602068 TATATATAAT
Statistics
Matches: 255, Mismatches: 37, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
309 34 0.13
310 131 0.51
311 90 0.35
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.41
Consensus pattern (309 bp):
TATACATGAACTTTGATTTTGTGCAATTTTATACATGAAAATTTGATTTGATCTAATTCTCACAA
ATTATTAACACAATTACTGATATAACATCATTTTATATTTATATATCACATACAAAAATAATTAT
ATTTATCCAATATAAAAAATAAACTAATGTATTTATATCCTTCAATATGTATGATTAAATAAAAA
TTAAAATTTCAAATATACATTTGAACCACAATCAAAGTTTCATGTGTATAATTGCACTAAATAAA
GTTCATCTATCAAATTGCAAAATAAATCAAAGTTCATGTATCTCAAAAC
Found at i:69606694 original size:40 final size:40
Alignment explanation
Indices: 69606635--69606842 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
69606625 TATTTGAATG
* * * *
69606635 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
69606675 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
69606715 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
69606755 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * **
69606795 CTATCCGGGCTAAGACCCAAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
69606835 ATATCCGG
1 ATATCCGG
69606843 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 2 0.01
40 135 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:69606773 original size:80 final size:80
Alignment explanation
Indices: 69606637--69606842 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
69606627 TTTGAATGAT
* * ** * * *
69606637 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
69606701 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
69606717 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
69606782 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* * *
69606797 ATCCGGGCTAAGACCCAAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
69606843 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:69612778 original size:315 final size:315
Alignment explanation
Indices: 69612206--69612838 Score: 1167
Period size: 315 Copynumber: 2.0 Consensus size: 315
69612196 TGATAAGTGA
* *
69612206 CCAGTCCCACTCATTTTAGAATTCGGTACGGCCCAATAAACTTAGGCTCAACTTGCCTTTACGAC
1 CCAGTCCCACTCACTTCAGAATTCGGTACGGCCCAATAAACTTAGGCTCAACTTGCCTTTACGAC
*
69612271 CAAACCTCAGAATCTTTTTCCATGGCGAGACCTTGAGAAATATGAAGTCCCTCACAGAATACTCA
66 CAAACCTCAGAATCTTTTTCCATGGCGAGACCTTGAGAAATACGAAGTCCCTCACAGAATACTCA
*
69612336 ATCTCACGTCTTTTCAGATCCGCATAAGATTTTTGTCTGCCCGATGCCGCTTTCAGTCAATCCCA
131 ATCTCACATCTTTTCAGATCCGCATAAGATTTTTGTCTGCCCGATGCCGCTTTCAGTCAATCCCA
69612401 AAAATCTGACCTTGTCCTTAGTCTCAGAAACCAACTCAGGACCTAGAACACGTCGTTCACCCAAC
196 AAAATCTGACCTTGTCCTTAGTCTCAGAAACCAACTCAGGACCTAGAACACGTCGTTCACCCAAC
*
69612466 TCAATCCAACACAAAGGAGCGTGACACTTACGACCATACAGAGCCTTGTATGGTG
261 TCAATCCAACACAAAGGAGCGCGACACTTACGACCATACAGAGCCTTGTATGGTG
*
69612521 CCAGTCCCACTCACTTCAGAATTCGGTACGGCCCAATAAACTTAGGCTCAGCTTGCCTTTACGAC
1 CCAGTCCCACTCACTTCAGAATTCGGTACGGCCCAATAAACTTAGGCTCAACTTGCCTTTACGAC
*
69612586 CAAACCTCAGAATCTTTTTCCATGGTGAGACCTTGAGAAATACGAAGTCCCTCACAGAATACTCA
66 CAAACCTCAGAATCTTTTTCCATGGCGAGACCTTGAGAAATACGAAGTCCCTCACAGAATACTCA
* *
69612651 ATCTCACATCTTTTCAGATCCGCATAAGATTTTTGTCTGCCCGATGCTGCTTTCAGTCAATCCCG
131 ATCTCACATCTTTTCAGATCCGCATAAGATTTTTGTCTGCCCGATGCCGCTTTCAGTCAATCCCA
*
69612716 AAAATCTGACCTTGTCCTTAGTCTTAGAAACCAACTCAGGACCTAGAACACGTCGTTCACCCAAC
196 AAAATCTGACCTTGTCCTTAGTCTCAGAAACCAACTCAGGACCTAGAACACGTCGTTCACCCAAC
*
69612781 TCAATCCAACACAAGGGAGCGCGACACTTACGACCATACAGAGCCTTGTATGGTG
261 TCAATCCAACACAAAGGAGCGCGACACTTACGACCATACAGAGCCTTGTATGGTG
69612836 CCA
1 CCA
69612839 TCTAAATGTT
Statistics
Matches: 307, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
315 307 1.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (315 bp):
CCAGTCCCACTCACTTCAGAATTCGGTACGGCCCAATAAACTTAGGCTCAACTTGCCTTTACGAC
CAAACCTCAGAATCTTTTTCCATGGCGAGACCTTGAGAAATACGAAGTCCCTCACAGAATACTCA
ATCTCACATCTTTTCAGATCCGCATAAGATTTTTGTCTGCCCGATGCCGCTTTCAGTCAATCCCA
AAAATCTGACCTTGTCCTTAGTCTCAGAAACCAACTCAGGACCTAGAACACGTCGTTCACCCAAC
TCAATCCAACACAAAGGAGCGCGACACTTACGACCATACAGAGCCTTGTATGGTG
Found at i:69623069 original size:47 final size:47
Alignment explanation
Indices: 69623014--69623182 Score: 266
Period size: 47 Copynumber: 3.6 Consensus size: 47
69623004 GCATTGGCAC
* * *
69623014 TAAGACAAGGATATCATGTAAGACCATATTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
69623061 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
* *
69623108 TAACACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
** *
69623155 TAAGATGAGGATAACATGTAAAACCATG
1 TAAGACAAGGATACCATGTAAAACCATG
69623183 CAAAGGCATG
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 112 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAAACCATGTTTGGAACATGGCATTTGG
Found at i:69623287 original size:55 final size:53
Alignment explanation
Indices: 69623209--69623357 Score: 174
Period size: 55 Copynumber: 2.8 Consensus size: 53
69623199 ATAGGTTCTT
* * *
69623209 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGGAAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGA-TTAC-A
* * ** * *
69623264 TAAGGAAAAGG-TCCCATGTAAGACCATGCCAAGGTATGGCATTGGTGATTTCA
1 TAAGG-AAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGATTACA
*
69623317 TAAGGAAAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 TAAGGAAAGGATACCATGTAAGACCATGTCAAGACATGGCA
69623358 ATGGTAAGTT
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
52 5 0.06
53 31 0.40
54 3 0.04
55 35 0.45
56 4 0.05
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
TAAGGAAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGATTACA
Found at i:69623343 original size:53 final size:55
Alignment explanation
Indices: 69623226--69623357 Score: 171
Period size: 53 Copynumber: 2.4 Consensus size: 55
69623216 AGGAAATCAT
* *
69623226 GTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCAT
1 GTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTACCAC
* ** * *
69623281 GTAAGACCATGCCAAGGTATGGCATTGGTGA-TTTC-ATAAGG-AAAGGATACCAC
1 GTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGG-TACCAC
69623334 GTAAGACCATGTCAAGACATGGCA
1 GTAAGACCATGTCAAGACATGGCA
69623358 ATGGTAAGTT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
52 5 0.08
53 31 0.47
54 3 0.05
55 27 0.41
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (55 bp):
GTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTACCAC
Found at i:69631183 original size:40 final size:40
Alignment explanation
Indices: 69631124--69631292 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
69631114 CGGGACTTTA
* * *
69631124 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
69631164 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
69631204 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
69631244 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
69631284 CCCGGATAT
1 CCCGGATAT
69631293 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:69638691 original size:40 final size:40
Alignment explanation
Indices: 69638632--69638762 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
69638622 CGGGACTTTA
* * *
69638632 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
69638672 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
69638712 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
69638752 CCCGGATATAA
1 CCCGGATATAA
69638763 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:69638795 original size:39 final size:40
Alignment explanation
Indices: 69638649--69638799 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
69638639 ATCACGATTT
* * * *
69638649 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
69638689 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
69638729 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
69638768 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
69638800 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:69642057 original size:39 final size:40
Alignment explanation
Indices: 69641880--69642061 Score: 172
Period size: 39 Copynumber: 4.6 Consensus size: 40
69641870 CCGCACCAAG
* * * * * * * *
69641880 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
69641920 GCCTTCGGGTCTTAGCCCGGATTTAA-AACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
69641959 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
69641999 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
69642038 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
69642062 CATTCAATTT
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 63 0.52
40 57 0.47
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:69649541 original size:39 final size:40
Alignment explanation
Indices: 69649363--69649545 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
69649353 CCGCACCAAG
* * * * * * * *
69649363 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
69649403 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
69649443 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
69649483 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
69649522 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
69649546 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:69655633 original size:20 final size:20
Alignment explanation
Indices: 69655577--69655633 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
69655567 AGATGGTTGA
*
69655577 TATGATATGCACATGACATG
1 TATGATATGCACATGATATG
69655597 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
69655617 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
69655634 GTATTCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:69655726 original size:24 final size:24
Alignment explanation
Indices: 69655682--69655740 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
69655672 GGAGGAAGTG
*
69655682 CAAAAGGGCTTATGCCCCAGTTTAT
1 CAAAAAGGCTTATGCCCCAG-TTAT
69655707 CAAAAAGGCTT-TGCCCCAGTTAT
1 CAAAAAGGCTTATGCCCCAGTTAT
*
69655730 TAAAAGAGGCT
1 CAAAA-AGGCT
69655741 CGGCCTCCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 8 0.26
24 13 0.42
25 10 0.32
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (24 bp):
CAAAAAGGCTTATGCCCCAGTTAT
Found at i:69658160 original size:40 final size:40
Alignment explanation
Indices: 69658115--69658282 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
69658105 CGGAATACAA
69658115 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
69658155 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
69658195 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
69658235 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
69658275 CCGGATAT
1 CCGGATAT
69658283 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:69666782 original size:20 final size:20
Alignment explanation
Indices: 69666726--69666782 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
69666716 ACATGGTTGA
*
69666726 TATGATATGCACATGACATG
1 TATGATATGCACATGATATG
69666746 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
69666766 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
69666783 GTATTCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:69666940 original size:24 final size:26
Alignment explanation
Indices: 69666832--69666940 Score: 156
Period size: 26 Copynumber: 4.3 Consensus size: 26
69666822 GAGGAAGTGC
69666832 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
69666858 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
69666884 AAAAGGGCTT-TGCCCCAGTTTA-TC
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
69666908 AAAAGGGCTT-TGCCCCA-ATTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
69666931 AAAAGAGGCT
1 AAAAG-GGCT
69666941 CGGCCTCCAG
Statistics
Matches: 79, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
23 8 0.10
24 23 0.29
25 12 0.15
26 36 0.46
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:69667568 original size:18 final size:18
Alignment explanation
Indices: 69667545--69667579 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69667535 ACTTAGGACA
*
69667545 TGTTTTCAAAACGACACT
1 TGTTTTCAAAACAACACT
*
69667563 TGTTTTCCAAACAACAC
1 TGTTTTCAAAACAACAC
69667580 AGCGTTACGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (18 bp):
TGTTTTCAAAACAACACT
Found at i:69671193 original size:19 final size:19
Alignment explanation
Indices: 69671169--69671206 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
69671159 TAATCCTGCA
*
69671169 AAATCTTGTCACGCTATCT
1 AAATCTTGTCACCCTATCT
69671188 AAATCTTGTCACCCTATCT
1 AAATCTTGTCACCCTATCT
69671207 CTAGGCGCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.08, T:0.37
Consensus pattern (19 bp):
AAATCTTGTCACCCTATCT
Found at i:69673347 original size:40 final size:40
Alignment explanation
Indices: 69673281--69673431 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
69673271 AAATTGAATG
* * *
69673281 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
69673320 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
69673360 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
69673400 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
69673432 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:69681353 original size:40 final size:40
Alignment explanation
Indices: 69681287--69681453 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
69681277 AAATTGAATG
* * *
69681287 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
69681326 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
69681366 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
69681406 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
69681446 ATATCCGG
1 ATATCCGG
69681454 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:69683423 original size:43 final size:44
Alignment explanation
Indices: 69683322--69683423 Score: 131
Period size: 42 Copynumber: 2.4 Consensus size: 44
69683312 TTCTAGACGT
*
69683322 GGTCTTACATGT-AATCAAATATCGATGCCATTGTCCCAGACAG
1 GGTCTTACACGTAAATCAAATATCGATGCCATTGTCCCAGACAG
* *
69683365 GGTCTTACACG-AAATCAAATAT-GATGCGGA-TGTCCCAGACAT
1 GGTCTTACACGTAAATCAAATATCGATGC-CATTGTCCCAGACAG
*
69683407 TGTCTTACACGTAAATC
1 GGTCTTACACGTAAATC
69683424 TCGAATAGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
GGTCTTACACGTAAATCAAATATCGATGCCATTGTCCCAGACAG
Found at i:69695307 original size:12 final size:11
Alignment explanation
Indices: 69695289--69695388 Score: 64
Period size: 10 Copynumber: 9.2 Consensus size: 11
69695279 AATATCACCA
69695289 ATCAATTTCAT
1 ATCAATTTCAT
69695300 ACTCAATTTCAT
1 A-TCAATTTCAT
*
69695312 ATCAA-ATCAT
1 ATCAATTTCAT
* * *
69695322 ACCAAATTGAT
1 ATCAATTTCAT
**
69695333 AT-AACTACCA-
1 ATCAA-TTTCAT
69695343 ATCAATTTCAT
1 ATCAATTTCAT
69695354 ACTCAATTTCAT
1 A-TCAATTTCAT
*
69695366 ATCAA-ATCAT
1 ATCAATTTCAT
* *
69695376 ACCAAATTCAT
1 ATCAATTTCAT
69695387 AT
1 AT
69695389 AACTAACTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
10 23 0.34
11 22 0.33
12 22 0.33
ACGTcount: A:0.42, C:0.22, G:0.01, T:0.35
Consensus pattern (11 bp):
ATCAATTTCAT
Found at i:69695349 original size:54 final size:54
Alignment explanation
Indices: 69695285--69695393 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
69695275 TCACAATATC
*
69695285 ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTGATATAACT
1 ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTCATATAACT
69695339 ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTCATATAACT
1 ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTCATATAACT
69695393 A
1 A
69695394 ACTTACCAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.33
Consensus pattern (54 bp):
ACCAATCAATTTCATACTCAATTTCATATCAAATCATACCAAATTCATATAACT
Found at i:69706633 original size:42 final size:42
Alignment explanation
Indices: 69706586--69706677 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
69706576 TGGCCCTTAG
* * ** *
69706586 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACAGGAAATACCAATGAATGTATGCAA
69706628 GCCCATTTCAATATCACAGGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACAGGAAATACCAATGAATGTATGCAA
69706670 GCCCATTT
1 GCCCATTT
69706678 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACAGGAAATACCAATGAATGTATGCAA
Found at i:69706892 original size:50 final size:51
Alignment explanation
Indices: 69706818--69706942 Score: 200
Period size: 50 Copynumber: 2.5 Consensus size: 51
69706808 TAGCCTCTTT
* *
69706818 AATAACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTC
1 AATAAATGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTC
*
69706867 AATAAATGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTT
1 AATAAATGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTC
69706918 AATAAACTGGGGCATAAGCCCTTTT
1 AATAAA-TGGGGCATAAGCCCTTTT
69706943 GCACTTCCTC
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
49 12 0.17
50 24 0.34
51 16 0.23
52 18 0.26
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (51 bp):
AATAAATGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTC
Found at i:69706909 original size:26 final size:26
Alignment explanation
Indices: 69706821--69706942 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
69706811 CCTCTTTAAT
**
69706821 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
69706846 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
69706871 AA-TGGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
69706896 AACTGGGGCATAAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
69706922 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
69706943 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
24 7 0.08
25 41 0.46
26 42 0.47
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:69707835 original size:27 final size:27
Alignment explanation
Indices: 69707744--69707827 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
69707734 GGGCATATTC
* * *
69707744 GTCATTTTACCATACAAGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
69707771 GTCACTTTACCCTACAGGGGCTTTATG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
69707798 ATCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
69707825 GTC
1 GTC
69707828 TTTTTACCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:69707919 original size:27 final size:27
Alignment explanation
Indices: 69707866--69708118 Score: 179
Period size: 27 Copynumber: 9.3 Consensus size: 27
69707856 TTTCATCCTA
* * * **
69707866 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
*
69707893 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* ** *
69707920 CAATGGTATTTTCATAATTTT-TAGAAAGT
1 CAAGGGTATTTTGGTAATTTTGT--AAA-C
* *
69707949 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTGTAAAC
* ** *
69707976 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * ***
69708003 TAAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* **
69708029 CTAGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTGTAAAC
* *
69708057 TAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* *
69708084 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
*
69708111 CGAGGGTA
1 CAAGGGTA
69708119 AAACAGTAAT
Statistics
Matches: 183, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.02
27 154 0.84
28 7 0.04
29 16 0.09
30 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTGTAAAC
Found at i:69708089 original size:81 final size:79
Alignment explanation
Indices: 69707866--69708103 Score: 212
Period size: 81 Copynumber: 2.9 Consensus size: 79
69707856 TTTCATCCTA
* * * * * *
69707866 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTA-TT
* * *
69707931 TCATAATTTTTAGAAAG
64 TCGTAA-TTTCACAAAG
* ** **
69707948 TCAAGGGTATTTCT-GTAACTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTA
1 -CAAGGGTATTT-TGGTAA-TTT-TACAAACAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTA
69708011 TTTCGGTAATTTCACAAA-
62 TTTC-GTAATTTCACAAAG
*
69708029 CTAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATT
1 CAAG-GGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTGTAAACCAAGGGTA-T
*
69708094 TTAGTAATTT
63 TTCGTAATTT
69708104 TGTAAATCGA
Statistics
Matches: 125, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
79 2 0.02
80 10 0.08
81 48 0.38
82 14 0.11
83 45 0.36
84 4 0.03
85 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
CAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTC
GTAATTTCACAAAG
Found at i:69708092 original size:54 final size:54
Alignment explanation
Indices: 69707866--69708104 Score: 239
Period size: 54 Copynumber: 4.4 Consensus size: 54
69707856 TTTCATCCTA
* * * * *
69707866 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAAC
* ** * * * *
69707920 CAATGGTATTTTCATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTTTGGTAA-TTTTACAAACT-AAGGGTATTT-TGGTAATTTTGTAAAC
* * * ***
69707976 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAAC
* *
69708029 CTAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAAC
*
69708084 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
69708105 GTAAATCGAG
Statistics
Matches: 147, Mismatches: 32, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
53 2 0.01
54 91 0.62
55 18 0.12
56 35 0.24
57 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAAC
Found at i:69708126 original size:27 final size:27
Alignment explanation
Indices: 69708096--69708226 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 27
69708086 AGGGTATTTT
*
69708096 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
69708123 AGTAATTCTGTAGATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
69708150 AGTGATTCTATAAATCGAAGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
69708177 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
69708204 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
69708227 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:69708237 original size:54 final size:54
Alignment explanation
Indices: 69708069--69708226 Score: 181
Period size: 54 Copynumber: 2.9 Consensus size: 54
69708059 GGGGTATTTT
* * **** * * *
69708069 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAAGGTAAAAC
* * *
69708123 AGTAATTCTGTAGATCAAGGGTAAAACAGTGATTCTATAAATCGAAGGTAAAAC
1 GGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAAGGTAAAAC
* * *
69708177 GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 GGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAAGGTA
69708227 CTTTGGTAAT
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 86 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (54 bp):
GGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAAGGTAAAAC
Found at i:69711331 original size:16 final size:16
Alignment explanation
Indices: 69711310--69711340 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
69711300 ATGTAACGCT
69711310 CCAAAAATCTCGAAAC
1 CCAAAAATCTCGAAAC
69711326 CCAAAAATCTCGAAA
1 CCAAAAATCTCGAAA
69711341 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.29, G:0.06, T:0.13
Consensus pattern (16 bp):
CCAAAAATCTCGAAAC
Found at i:69712875 original size:29 final size:29
Alignment explanation
Indices: 69712825--69712968 Score: 168
Period size: 29 Copynumber: 5.0 Consensus size: 29
69712815 GCATGAGTAT
*
69712825 AATATG-ATTTGGGCCTAATGGGCCATATG
1 AATATGTA-TTGGGCCTAGTGGGCCATATG
* * *
69712854 AATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGTATTGGGCCTAGTGGGCCATATG
*
69712883 AATATGTATTGGGCCTAGTGGGCCATAAG
1 AATATGTATTGGGCCTAGTGGGCCATATG
* *
69712912 AATATGTACTGGGCC-AGATGGGCTATATG
1 AATATGTATTGGGCCTAG-TGGGCCATATG
* *
69712941 AATTTG-ATTGGGCATAGTGGGCCATATG
1 AATATGTATTGGGCCTAGTGGGCCATATG
69712969 CATGTATGTA
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
28 18 0.18
29 81 0.81
30 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.28
Consensus pattern (29 bp):
AATATGTATTGGGCCTAGTGGGCCATATG
Found at i:69717131 original size:16 final size:16
Alignment explanation
Indices: 69717110--69717140 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69717100 ATTGGCAAAA
*
69717110 GCCAAAATGCCGAAAT
1 GCCAAAAAGCCGAAAT
69717126 GCCAAAAAGCCGAAA
1 GCCAAAAAGCCGAAA
69717141 GTTGGGCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.26, G:0.19, T:0.06
Consensus pattern (16 bp):
GCCAAAAAGCCGAAAT
Found at i:69717406 original size:29 final size:29
Alignment explanation
Indices: 69717364--69717475 Score: 138
Period size: 29 Copynumber: 3.9 Consensus size: 29
69717354 ATAATATGAT
*
69717364 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
69717393 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAGTGGGCCATATGAATGTGAA
* *
69717422 CTGGGCC-AGATGGGCCATATGAATGAG-A
1 TTGGGCCTAG-TGGGCCATATGAATGTGAA
* *
69717450 TTGGGCCTAGTGGGCTATATGCATGT
1 TTGGGCCTAGTGGGCCATATGAATGT
69717476 ATATAGGGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
28 22 0.31
29 48 0.69
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATGAATGTGAA
Found at i:69717446 original size:58 final size:57
Alignment explanation
Indices: 69717356--69717464 Score: 166
Period size: 58 Copynumber: 1.9 Consensus size: 57
69717346 GCATGAGTAT
** *
69717356 AATATGATTTGGGCCTAATGGGCCATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCCTAATGGGCCATATGAATGAG-ATTGGGCCTAGTGGGCCATAAG
69717414 AATATGAACTGGGCC-AGATGGGCCATATGAATGAGATTGGGCCTAGTGGGC
1 AATATGAACTGGGCCTA-ATGGGCCATATGAATGAGATTGGGCCTAGTGGGC
69717465 TATATGCATG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
57 17 0.36
58 30 0.64
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.25
Consensus pattern (57 bp):
AATATGAACTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATAAG
Found at i:69720379 original size:27 final size:27
Alignment explanation
Indices: 69720360--69720542 Score: 242
Period size: 27 Copynumber: 6.8 Consensus size: 27
69720350 ATTACCAAAG
*
69720360 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
69720387 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
69720414 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
69720441 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
69720468 TA-CCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * * *
69720494 TACTCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
69720521 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
69720543 TAAAATACCC
Statistics
Matches: 139, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 24 0.17
27 115 0.83
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:69720551 original size:27 final size:27
Alignment explanation
Indices: 69720315--69720688 Score: 175
Period size: 27 Copynumber: 13.9 Consensus size: 27
69720305 AATACTTTAG
* * ** *
69720315 TTTACCAAATTACTAAAATGTCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
69720342 TTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* *** *
69720369 TTTACAGAATTACCATTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGA
****
69720396 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
****
69720423 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *** *
69720450 TTTATAGAATTACCATTTTA-CCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* *** * *
69720476 TTTACAGAATTACCATTTTACTCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* * ****
69720503 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* *
69720530 TTTACAAAATTACTAAAATACCCT-TA
1 TTTACAAAATTACCAAAATACCCTCGA
*
69720556 GTTTACAAAATTACCAAAATACCC-CTA
1 -TTTACAAAATTACCAAAATACCCTCGA
* *
69720583 GTTTATAAAATTACCAAAATACCACT-GG
1 -TTTACAAAATTACCAAAATACC-CTCGA
*** * * *
69720611 TTTGTGAAATTACCGAAATACCTTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
69720638 TTTGTAAAATTACCAAAATACCC-CTAA
1 TTTACAAAATTACCAAAATACCCTC-GA
*
69720665 TTTACAAAATT-TCAAATATACCCT
1 TTTACAAAATTACCAAA-ATACCCT
69720689 TGACTTTCTA
Statistics
Matches: 286, Mismatches: 52, Indels: 17
0.81 0.15 0.05
Matches are distributed among these distances:
26 31 0.11
27 254 0.89
28 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:69720568 original size:54 final size:55
Alignment explanation
Indices: 69720360--69720570 Score: 243
Period size: 54 Copynumber: 3.9 Consensus size: 55
69720350 ATTACCAAAG
*
69720360 TACCCTCGATTTACAGAATTACCATTTTACCCTT-GATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTAGATTTACAAAATTACCGTTT
* * * * *
69720414 TACCCTCGATTTACAAAATTACCGTTTTACCC-TCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTAGATTTACAAAATTACCGTTT
* * * * * *
69720468 TA-CCTCAATTTACAGAATTACCATTTTACTCTCA-ATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTAGATTTACAAAATTACCGTTT
* ***
69720521 TACCCTCGATTTACAAAATTACTAAAATACCCTTAG-TTTACAAAATTACC
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTAGATTTACAAAATTACC
69720571 AAAATACCCC
Statistics
Matches: 131, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
53 46 0.35
54 85 0.65
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (55 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTTAGATTTACAAAATTACCGTTT
Found at i:69720568 original size:107 final size:107
Alignment explanation
Indices: 69720363--69720571 Score: 276
Period size: 107 Copynumber: 2.0 Consensus size: 107
69720353 ACCAAAGTAC
* **
69720363 CCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTAC
1 CCTCAATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTAC
**** * * *
69720428 AAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTA
66 AAAATTACCAAAATACCCTAGATTTACAAAATTACCATTTTA
* * *
69720470 CCTCAATTTACAGAATTACCATTTTACTCTCAATTTATAGAATTACCGTTTTACCCTCGATTTAC
1 CCTCAATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTAC
*
69720535 AAAATTACTAAAATACCCTTAG-TTTACAAAATTACCA
66 AAAATTACCAAAATACCC-TAGATTTACAAAATTACCA
69720572 AAATACCCCT
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 85 0.98
108 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (107 bp):
CCTCAATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTAC
AAAATTACCAAAATACCCTAGATTTACAAAATTACCATTTTA
Found at i:69720750 original size:27 final size:27
Alignment explanation
Indices: 69720530--69720742 Score: 148
Period size: 27 Copynumber: 7.8 Consensus size: 27
69720520 TTACCCTCGA
*
69720530 TTTACAAAATTACTAAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCCTTAG
*
69720557 TTTACAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTAG
* *
69720584 TTTATAAAATTACCAAAATACCAC-TGG
1 TTTACAAAATTACCAAAATACC-CTTAG
*** * *
69720611 TTTGTGAAATTACCGAAATA-CCTTCAA
1 TTTACAAAATTACCAAAATACCCTT-AG
** * *
69720638 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTACAAAATTACCAAAATACCCTTAG
* *
69720665 TTTACAAAATT-TCAAATATACCCTTGAC
1 TTTACAAAATTACCAAA-ATACCCTT-AG
* * *
69720693 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACCA-AAATACCCTTAG
**
69720721 TTTACAAAATTACTGAAATACC
1 TTTACAAAATTACCAAAATACC
69720743 TTTGGTTTGT
Statistics
Matches: 152, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
25 1 0.01
26 6 0.04
27 116 0.76
28 12 0.08
29 15 0.10
30 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTAG
Found at i:69720765 original size:110 final size:108
Alignment explanation
Indices: 69720535--69720744 Score: 253
Period size: 110 Copynumber: 1.9 Consensus size: 108
69720525 CTCGATTTAC
* * * *
69720535 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAGTTTATAAAATTACCAA
1 AAAATTACCAAAATACCCCTAATTTACAAAATTACCAAAATACCCCTACTTTATAAAATTACCAA
***
69720600 AATACCACTGGTTTGTGAAATTACCGAAATACCTTCAATTTGT
66 AATACCACTGGTTTACAAAATTACCGAAATACCTTCAATTTGT
* * *
69720643 AAAATTACCAAAATACCCCTAATTTACAAAATT-TCAAATATACCCTTGACTTTCTAAAAATTA-
1 AAAATTACCAAAATACCCCTAATTTACAAAATTACCAAA-ATACCCCT-ACTTTAT-AAAATTAC
* * *
69720706 TAGAAATACCATTGGTTTACAAAATTACTGAAATACCTT
63 CA-AAATACCACTGGTTTACAAAATTACCGAAATACCTT
69720745 TGGTTTGTAG
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
107 4 0.05
108 37 0.44
109 6 0.07
110 38 0.45
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (108 bp):
AAAATTACCAAAATACCCCTAATTTACAAAATTACCAAAATACCCCTACTTTATAAAATTACCAA
AATACCACTGGTTTACAAAATTACCGAAATACCTTCAATTTGT
Found at i:69720834 original size:27 final size:27
Alignment explanation
Indices: 69720791--69720864 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
69720781 AAATGACTAA
69720791 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-ATAGGGTAAAAAGACCGT
* **
69720818 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTATAGGGTAAAAAGACCGT
*
69720845 AATACCCCTATATGGTAAAA
1 AATACCCCTATAGGGTAAAA
69720865 TGATGAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAAAGACCGT
Found at i:69721599 original size:20 final size:20
Alignment explanation
Indices: 69721574--69721660 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
69721564 GATATGATAT
*
69721574 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
69721594 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
69721614 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
69721634 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
69721654 ACATGAT
1 ACATGAT
69721661 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:69721771 original size:25 final size:26
Alignment explanation
Indices: 69721710--69721831 Score: 178
Period size: 25 Copynumber: 4.8 Consensus size: 26
69721700 GAGGAAGTGC
**
69721710 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
69721736 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
69721762 -AAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * *
69721787 AAAAAGGATT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
69721812 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
69721832 ATTAAAATAG
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
25 57 0.65
26 31 0.35
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Done.