Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 106 of 410
Found at i:31199831 original size:31 final size:31
Alignment explanation
Indices: 31199796--31199890 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
31199786 CGTTTACAGT
31199796 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
31199827 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
31199858 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
31199889 AA
1 AA
31199891 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:31204053 original size:11 final size:11
Alignment explanation
Indices: 31204033--31204065 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
31204023 ATGTTGTGGA
31204033 ATGAGGGATGG
1 ATGAGGGATGG
31204044 AT-AGGGGATGG
1 ATGA-GGGATGG
31204055 ATGAGGGATGG
1 ATGAGGGATGG
31204066 CTTGAATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.55, T:0.18
Consensus pattern (11 bp):
ATGAGGGATGG
Found at i:31207543 original size:25 final size:24
Alignment explanation
Indices: 31207502--31207557 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
31207492 TAATTTATTG
31207502 AAATTAATAATTCAAT-AAATTGAA
1 AAATTAATAATTCAATAAAATT-AA
*
31207526 AAATTAACTAATTGAATAAAATTAA
1 AAATTAA-TAATTCAATAAAATTAA
31207551 AAATTAA
1 AAATTAA
31207558 GAGAAACTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 7 0.24
25 17 0.59
26 5 0.17
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (24 bp):
AAATTAATAATTCAATAAAATTAA
Found at i:31210880 original size:47 final size:47
Alignment explanation
Indices: 31210728--31210938 Score: 225
Period size: 47 Copynumber: 4.5 Consensus size: 47
31210718 TAAGTTCTGT
* * * *
31210728 ACTCGTTCAGTTGAGTTCGAGTTCGTGAGATGTAACTAGGCATCCGA
1 ACTCGTTGAGTTGAGTCCAAGTTCTTGAGATGTAACTAGGCATCCGA
* ** ** *
31210775 ACTCATTGAGTTGAGTCTGAGTTCACTT-ATGGATG-CGC-A--CATCTGA
1 ACTCGTTGAGTTGAGTCCAAGTT--CTTGA--GATGTAACTAGGCATCCGA
* *
31210821 GCTCGTTGAGTTGAGTCCAATTTCTTGAGATGTAACTAGGCATCCGA
1 ACTCGTTGAGTTGAGTCCAAGTTCTTGAGATGTAACTAGGCATCCGA
*
31210868 ACTCGTTGAGTTGAGTTCAAGTTCTTGAGATGTAACTAGGCATCCGA
1 ACTCGTTGAGTTGAGTCCAAGTTCTTGAGATGTAACTAGGCATCCGA
*
31210915 ACTCGTTGAGTTGAGTCCGAGTTC
1 ACTCGTTGAGTTGAGTCCAAGTTC
31210939 ACTTATGGAT
Statistics
Matches: 134, Mismatches: 21, Indels: 18
0.77 0.12 0.10
Matches are distributed among these distances:
43 4 0.03
44 4 0.03
45 2 0.01
46 24 0.18
47 91 0.68
48 2 0.01
49 3 0.02
50 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (47 bp):
ACTCGTTGAGTTGAGTCCAAGTTCTTGAGATGTAACTAGGCATCCGA
Found at i:31214649 original size:40 final size:40
Alignment explanation
Indices: 31214585--31214697 Score: 138
Period size: 40 Copynumber: 2.9 Consensus size: 40
31214575 GCTACTCGTT
* * * ***
31214585 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
31214625 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
31214665 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
31214698 TTCGCAAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 18 0.29
40 45 0.71
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.20
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:31214703 original size:39 final size:40
Alignment explanation
Indices: 31214621--31214707 Score: 133
Period size: 39 Copynumber: 2.2 Consensus size: 40
31214611 TATGGTAACC
*
31214621 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGACTTAACCCGGATATCACAACT
* *
31214661 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGACTTAACCCGGATATCACAACT
31214700 CGCA-AATT
1 CGCACAATT
31214708 CATACACATC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 4 0.09
39 23 0.52
40 17 0.39
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (40 bp):
CGCACAATTGCCTTCGGGACTTAACCCGGATATCACAACT
Found at i:31222513 original size:39 final size:39
Alignment explanation
Indices: 31222432--31222592 Score: 259
Period size: 39 Copynumber: 4.1 Consensus size: 39
31222422 TATGGTAACC
* *
31222432 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
31222472 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
31222511 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
31222550 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
31222589 CGCA
1 CGCA
31222593 ATTCATACAC
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:31226293 original size:46 final size:46
Alignment explanation
Indices: 31226227--31226404 Score: 152
Period size: 46 Copynumber: 3.8 Consensus size: 46
31226217 TGTAACTAGG
* *
31226227 CATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGCA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGCA
* * * * **
31226273 CATCCGAGCTCGTTGAGTTGAGTCCGATTTC-GTGA--GATGTAACTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGC-A
*
31226318 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACG-A
1 --CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGCA
* *
31226365 -ATGGCC-AAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 CAT--CCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31226405 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
43 4 0.04
44 3 0.03
45 5 0.05
46 58 0.55
47 30 0.29
48 2 0.02
50 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGCA
Found at i:31226332 original size:47 final size:47
Alignment explanation
Indices: 31226187--31226350 Score: 174
Period size: 47 Copynumber: 3.5 Consensus size: 47
31226177 TAAGTTCTGT
* * *
31226187 ACTCGTTCAGTTGAGTCTGAGTTCGTGAGGTGTAACTAGGCATCCGA
1 ACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGA
* * * * **
31226234 ACTCATTGAGTTGAGTCTGAGTTCACTTATGGATG-CGC-A--CATCCGA
1 ACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCGA
* *
31226280 GCTCGTTGAGTTGAGTCCGATTTCGTGAGATGTAACTAGGCATCCGA
1 ACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGA
31226327 ACTCGTTGAGTTGAGTCCGAGTTC
1 ACTCGTTGAGTTGAGTCCGAGTTC
31226351 ACTTATGGAT
Statistics
Matches: 93, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 3 0.03
46 27 0.29
47 51 0.55
48 3 0.03
49 1 0.01
50 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (47 bp):
ACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGA
Found at i:31226349 original size:93 final size:92
Alignment explanation
Indices: 31226188--31226397 Score: 305
Period size: 93 Copynumber: 2.3 Consensus size: 92
31226178 AAGTTCTGTA
* * * *
31226188 CTCGTTCAGTTGAGTCTGAGTTCGTGAGGTGTAACTAGGCATCCGAACTCATTGAGTTGAGTCTG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCG
* *
31226253 AGTTCACTTATGGATGCGCACAT-CCGAG
66 AGTTCACTTATGGATACG-A-ATGCCAAG
* *
31226281 CTCGTTGAGTTGAGTCCGATTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCG
31226346 AGTTCACTTATGGATACGAATGGCCAAG
66 AGTTCACTTATGGATACGAAT-GCCAAG
*
31226374 CTCGTTGAGTTGAGTCCAAGTTCG
1 CTCGTTGAGTTGAGTCCGAGTTCG
31226398 CTTATGGGCG
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 102 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (92 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCG
AGTTCACTTATGGATACGAATGCCAAG
Found at i:31232850 original size:93 final size:93
Alignment explanation
Indices: 31232699--31232894 Score: 259
Period size: 93 Copynumber: 2.1 Consensus size: 93
31232689 CGTTGAATTG
*
31232699 AGTCCGAGTTCGTGAGATGTAACTAGGCATCCAAACTCATTGATTTGAGTCCGAGTTCACTTAAG
1 AGTCCGAGTTCGTGAGATGTAACTAGGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTAAG
* *
31232764 GATTCGCACACCCGAGCTCATTGAGTTA
66 GATGCGAACACCCGAGCTCATTGAGTTA
* ** * * *
31232792 AGTCCGATTTCGTGAGATGTAACTAGGCATCTGAACTCGTTGAGTTGAG-CACGGGTTCACTTAT
1 AGTCCGAGTTCGTGAGATGTAACTAGGCATCCAAACTCATTGAGTTGAGTC-CGAGTTCACTTAA
* * *
31232856 GGATGCGAACGCCCGAGCTCGTTGAGTTG
65 GGATGCGAACACCCGAGCTCATTGAGTTA
*
31232885 AGTCCCAGTT
1 AGTCCGAGTT
31232895 TGCTTATAGG
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
92 1 0.01
93 87 0.99
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (93 bp):
AGTCCGAGTTCGTGAGATGTAACTAGGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTAAG
GATGCGAACACCCGAGCTCATTGAGTTA
Found at i:31238164 original size:40 final size:40
Alignment explanation
Indices: 31238109--31238316 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
31238099 TGAATGATAC
* * *
31238109 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
31238149 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
31238189 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
31238229 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
31238269 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
31238309 CC-GGCTAA
1 CCGGGCTAA
31238317 ATTCGAAGAA
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 5 0.03
40 145 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:31246119 original size:40 final size:40
Alignment explanation
Indices: 31246064--31246271 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
31246054 TGAATGATAC
* * * *
31246064 CCGGGCTAAGTCCCGAAGGCATTTATTCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
31246104 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
31246144 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
31246184 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
31246224 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
31246264 CC-GGCTAA
1 CCGGGCTAA
31246272 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 5 0.03
40 144 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:31253740 original size:18 final size:19
Alignment explanation
Indices: 31253690--31253728 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
31253680 ACCTGTTAGA
*
31253690 AGAAAATAAATAAAAAATT
1 AGAAAAGAAATAAAAAATT
31253709 AGAAAAGAAATAAAAAATT
1 AGAAAAGAAATAAAAAATT
31253728 A
1 A
31253729 AATTGCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (19 bp):
AGAAAAGAAATAAAAAATT
Found at i:31256345 original size:48 final size:48
Alignment explanation
Indices: 31256270--31257485 Score: 1856
Period size: 48 Copynumber: 25.2 Consensus size: 48
31256260 CAAGATAAAT
* *
31256270 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
31256318 ATATGTATATGTGGTAAAGCCGGATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
31256366 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
31256414 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
31256462 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
31256510 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
31256558 ATATATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
31256606 ATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
31256654 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
31256702 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * **
31256750 ATATATATATGTGGTAAAGTCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
31256798 ATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
31256846 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
31256894 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* ** *
31256942 ATATATATATATATGTGGTAAAGTTGAATGGCTAATATGAAATATGTATGAG
1 ----ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
31256994 ATATGTATATATGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
31257042 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
**
31257090 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
31257138 ATATATATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
31257188 ATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
31257236 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAAATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
31257284 ATATGTATATGTGGTAAAGCCGAATGTCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
31257332 ATATATATATGTGGTAAAGCTGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
31257380 ATATATATATATGGTAAATCCGAATAGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
31257428 ATATGTATATGTGGTAAAGCCGAATGGCTAAAGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
31257476 ATGTGTATAT
1 ATATGTATAT
31257486 ATTGTGGCCG
Statistics
Matches: 1072, Mismatches: 90, Indels: 12
0.91 0.08 0.01
Matches are distributed among these distances:
48 981 0.92
50 47 0.04
52 44 0.04
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:31257668 original size:37 final size:37
Alignment explanation
Indices: 31257618--31257727 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
31257608 GGAAATATAT
*
31257618 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
31257655 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
31257692 TCCGGGTAAGACCCGATAACTACATGTAGG-GATTAT
1 TCCGGGTAAGACCCGATGACTACGTGT-GGAGATTAT
31257728 TCGAGCTAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
37 65 0.97
38 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:31264833 original size:25 final size:25
Alignment explanation
Indices: 31264805--31264874 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
31264795 CTCTTTTAAT
* *
31264805 AACTGGGGCAAAGCCGTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
31264830 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
31264855 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
31264875 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:31265713 original size:27 final size:27
Alignment explanation
Indices: 31265683--31265747 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
31265673 GGGCATATTC
31265683 GTCATTTTACCAC-ACAGGGG-TATTACG
1 GTCATTTTACC-CTACAGGGGCT-TTACG
*
31265710 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
*
31265737 GTCTTTTTACC
1 GTCATTTTACC
31265748 TATTAGGGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.03
27 31 0.94
28 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCTTTACG
Found at i:31265832 original size:27 final size:27
Alignment explanation
Indices: 31265802--31265886 Score: 84
Period size: 28 Copynumber: 3.1 Consensus size: 27
31265792 TAAATCTAAC
31265802 AACCAAGGGTATTTCAGTAATTTTGTA
1 AACCAAGGGTATTTCAGTAATTTTGTA
*
31265829 AACCAATGGTATTTCTA-TAAATTTTAG-A
1 AACCAAGGGTATTTC-AGT-AATTTT-GTA
** *
31265857 AAGTAAAGGGTATTTCTGTAATTTTGTA
1 AA-CCAAGGGTATTTCAGTAATTTTGTA
31265885 AA
1 AA
31265887 TTAGGGGTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
27 16 0.34
28 19 0.40
29 12 0.26
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.39
Consensus pattern (27 bp):
AACCAAGGGTATTTCAGTAATTTTGTA
Found at i:31265958 original size:54 final size:54
Alignment explanation
Indices: 31265889--31266046 Score: 187
Period size: 54 Copynumber: 2.9 Consensus size: 54
31265879 TTTGTAAATT
*
31265889 AGGGGTA-TTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTAACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTAACAAACC
* * * *
31265942 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTAACAAACC
* ** * *
31265996 AGGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGGTAATTTAACAA
31266047 TCGAGGGTAA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
53 6 0.07
54 79 0.88
55 5 0.06
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTAACAAACC
Found at i:31266002 original size:81 final size:80
Alignment explanation
Indices: 31265865--31266013 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 80
31265855 GAAAGTAAAG
** * *
31265865 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTGGTAATTTTACAAATTGAGGGTATTTCGGTA
1 GGTATTTCTGTAATTTTACAAACTAGGGGTATTTGGTAATTTTACAAATAGAGGGTATTTCGGTA
31265930 ATTTAACAAACCAGT
66 ATTTAACAAACCAGT
*
31265945 GGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
1 GGTATTTCT-GTAATTTTACAAACTAGGGGTA-TTTGGTAATTTTACAAA-TAGAGGGTATTTCG
31266008 GTAATT
63 GTAATT
31266014 CTATCCTACA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
79 1 0.02
80 26 0.43
81 32 0.52
82 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (80 bp):
GGTATTTCTGTAATTTTACAAACTAGGGGTATTTGGTAATTTTACAAATAGAGGGTATTTCGGTA
ATTTAACAAACCAGT
Found at i:31266032 original size:27 final size:27
Alignment explanation
Indices: 31265864--31266013 Score: 189
Period size: 27 Copynumber: 5.6 Consensus size: 27
31265854 AGAAAGTAAA
** *
31265864 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
31265891 GGGTA-TTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
31265916 AGGGTATTTCGGTAATTTAACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
31265944 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
31265971 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
31265998 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
31266014 CTATCCTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
25 3 0.03
26 18 0.17
27 85 0.79
28 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:31266039 original size:81 final size:80
Alignment explanation
Indices: 31265864--31266046 Score: 208
Period size: 81 Copynumber: 2.3 Consensus size: 80
31265854 AGAAAGTAAA
* ** * *
31265864 GGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTGGTAATTTTACAAATTGAGGGTATTTCGGT
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTGGTAATTTTACAAATAGAGGGTATTTCGGT
31265929 AATTTAACAAACCAG
66 AATTTAACAAACCAG
* ** *
31265944 TGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTA-TTTGGTAATTTTACAAA-TAGAGGGTATTTCG
* **
31266008 GTAATTCTATCCTA-CAG
64 GTAATT-TAACAAACCAG
*
31266025 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
31266047 TCGAGGGTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
80 26 0.31
81 53 0.62
82 6 0.07
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTGGTAATTTTACAAATAGAGGGTATTTCGGT
AATTTAACAAACCAG
Found at i:31266053 original size:27 final size:27
Alignment explanation
Indices: 31265889--31266053 Score: 165
Period size: 27 Copynumber: 6.1 Consensus size: 27
31265879 TTTGTAAATT
*
31265889 AGGGGTA-TTTGGTAATTTTACAAATTG
1 AGGGGTATTTTGGTAATTTTACAAA-CG
* * *
31265916 A-GGGTATTTCGGTAATTTAACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACG
* *
31265942 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACG
*
31265969 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACG
* **
31265996 AGGGGTATTTTGGTAATTCTATCCTAC-
1 AGGGGTATTTTGGTAATTTTA-CAAACG
** * *
31266023 AGGGGTATTTCAGTAATTTCACAATCG
1 AGGGGTATTTTGGTAATTTTACAAACG
31266050 AGGG
1 AGGG
31266054 TAAAACGATA
Statistics
Matches: 115, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 8 0.07
27 104 0.90
28 3 0.03
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACG
Found at i:31266079 original size:27 final size:27
Alignment explanation
Indices: 31266045--31266136 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
31266035 GTAATTTCAC
* *
31266045 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGATAATTTTATA
*
31266072 AA-CTGAGGGTAAAATGGTAATTTTATA
1 AATC-GAGGGTAAAATGATAATTTTATA
*
31266099 AATCGAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAATGATAATTTTATA
31266126 AATCGAGGGTA
1 AATCGAGGGTA
31266137 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGATAATTTTATA
Found at i:31266134 original size:54 final size:54
Alignment explanation
Indices: 31266045--31266150 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
31266035 GTAATTTCAC
* *
31266045 AATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATGGTAATTTTATA
* ***
31266099 AATCGAGGGTAAAATGATAATTCTATAAA-TCGAGGGTACTTTGGTAATTTTA
1 AATCGAGGGTAAAACGATAATTCTATAAACT-GAGGGTAAAATGGTAATTTTA
31266151 CAAGAGGGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.02
54 44 0.98
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (54 bp):
AATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATGGTAATTTTATA
Found at i:31272577 original size:22 final size:22
Alignment explanation
Indices: 31272547--31272602 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
31272537 ATACGTTTGA
*
31272547 CACAAAGCCATAGTCAAGATGG
1 CACAGAGCCATAGTCAAGATGG
** * * *
31272569 CACAGAGCCATTTTTAGGTTGG
1 CACAGAGCCATAGTCAAGATGG
31272591 CACAGAGCCATA
1 CACAGAGCCATA
31272603 ATCAGATTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
CACAGAGCCATAGTCAAGATGG
Found at i:31272990 original size:27 final size:27
Alignment explanation
Indices: 31272967--31273019 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
31272957 ATTTTACCTT
31272967 ATAGGGGTATTTC-GATAATTTTACAAA
1 ATAGGGGTATTTCAG-TAATTTTACAAA
*
31272994 ATGGGGGTATTTCAGTAATTTTACAA
1 ATAGGGGTATTTCAGTAATTTTACAA
31273020 GTCGGGGGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
ATAGGGGTATTTCAGTAATTTTACAAA
Found at i:31275552 original size:26 final size:26
Alignment explanation
Indices: 31275518--31275573 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
31275508 TTGATCTCGA
*
31275518 AACCTCTTACACCTAAACAAATATCT
1 AACCTCTTACACCTAAACAAACATCT
*
31275544 AACCTCTTACACCTAATCAAACATCT
1 AACCTCTTACACCTAAACAAACATCT
31275570 AACC
1 AACC
31275574 ATAGAAGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.25
Consensus pattern (26 bp):
AACCTCTTACACCTAAACAAACATCT
Found at i:31279106 original size:46 final size:46
Alignment explanation
Indices: 31279047--31279134 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
31279037 ACTCGAAAAC
* * * *
31279047 TCACACCCTAAGTGCCAATACATAGTCGAAGCTATCTCAATGAATT
1 TCACACACGAAGTGCCAATACATAGCCAAAGCTATCTCAATGAATT
*
31279093 TCACACACGAAGTGCCAATACATAGCCAAATCTATCTCAATG
1 TCACACACGAAGTGCCAATACATAGCCAAAGCTATCTCAATG
31279135 GTGCTCACTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.24
Consensus pattern (46 bp):
TCACACACGAAGTGCCAATACATAGCCAAAGCTATCTCAATGAATT
Found at i:31282197 original size:27 final size:26
Alignment explanation
Indices: 31282160--31282270 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
31282150 AGCATGGCTG
* *
31282160 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
31282186 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
31282214 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
31282241 CCAGATCAAATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
31282268 CCA
1 CCA
31282271 TGACGCTTCC
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.69
28 16 0.22
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:31282267 original size:54 final size:54
Alignment explanation
Indices: 31282160--31282270 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 54
31282150 AGCATGGCTG
* * * *
31282160 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCA
* * *
31282214 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAAATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCA
31282268 CCA
1 CCA
31282271 TGACGCTTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCA
Found at i:31283518 original size:22 final size:22
Alignment explanation
Indices: 31283492--31283533 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
31283482 ACAGAAAAAG
* *
31283492 AAAGAATAACAAATGGAGAGAA
1 AAAGAAAAACAAAAGGAGAGAA
*
31283514 AAAGAAAAATAAAAGGAGAG
1 AAAGAAAAACAAAAGGAGAG
31283534 GAAGAGTGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (22 bp):
AAAGAAAAACAAAAGGAGAGAA
Found at i:31290032 original size:27 final size:26
Alignment explanation
Indices: 31289992--31290101 Score: 130
Period size: 27 Copynumber: 4.1 Consensus size: 26
31289982 AGCATGGCTG
* * *
31289992 CCAGAACAGATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
31290018 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
31290046 CCAGAACAGAAACATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
31290073 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
31290100 CC
1 CC
31290102 CGGACGCTTC
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:31290083 original size:54 final size:54
Alignment explanation
Indices: 31289992--31290101 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
31289982 AGCATGGCTG
* *
31289992 CCAGAACAGATAATGTGACAAAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
31290046 CCAGAACAGAAACATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAGCCA
31290100 CC
1 CC
31290102 CGGACGCTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAAAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:31291342 original size:22 final size:22
Alignment explanation
Indices: 31291315--31291357 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
31291305 GAAGAAGAAG
* *
31291315 AAAAGAATAACAAATGGAGAGA
1 AAAAGAAAAACAAAAGGAGAGA
*
31291337 AAAAGAAAAATAAAAGGAGAG
1 AAAAGAAAAACAAAAGGAGAG
31291358 GAAGAGTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.23, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAACAAAAGGAGAGA
Found at i:31293729 original size:40 final size:40
Alignment explanation
Indices: 31293617--31293769 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
31293607 GGATATAGCG
* * * ***
31293617 ACTCGCTCAAAAGCCTTCGGGACATAGCCC-GATTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TATGGGA
* * *
31293657 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
31293697 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
31293737 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
31293770 CATCATTCGA
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
39 3 0.03
40 76 0.83
41 13 0.14
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:31307129 original size:46 final size:46
Alignment explanation
Indices: 31307076--31307251 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
31307066 TATTTGGGCA
*
31307076 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *** * *
31307122 TCCGAACTTGTTGAGTTTAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
31307169 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
31307215 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31307252 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.62
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31307231 original size:93 final size:93
Alignment explanation
Indices: 31307072--31307243 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
31307062 AGAATATTTG
* *
31307072 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
*
31307137 TTTAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
31307165 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
31307230 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
31307244 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:31310202 original size:30 final size:30
Alignment explanation
Indices: 31310157--31310219 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
31310147 CATAATATCG
* *
31310157 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCCTGGATTTCTTTATCCTGGATCTCTT
* * *
31310187 TATCCTGGATTTCTTTATTCTGGGTTTCTT
1 TATCCTGGATTTCTTTATCCTGGATCTCTT
31310217 TAT
1 TAT
31310220 TCAGTTTTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCCTGGATTTCTTTATCCTGGATCTCTT
Found at i:31310221 original size:15 final size:15
Alignment explanation
Indices: 31310166--31310219 Score: 81
Period size: 15 Copynumber: 3.6 Consensus size: 15
31310156 GTATCTTGGG
31310166 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
*
31310181 TCTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
31310196 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
31310211 TTTCTTTAT
1 TTTCTTTAT
31310220 TCAGTTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:31310230 original size:14 final size:15
Alignment explanation
Indices: 31310164--31310230 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
31310154 TCGTATCTTG
*
31310164 GGTTTCTTTATCCT-
1 GGTTTCTTTATTCTA
* *
31310178 GGATCTCTTTATCCT-
1 GG-TTTCTTTATTCTA
*
31310193 GGATTTCTTTATTCTG
1 GG-TTTCTTTATTCTA
31310209 GGTTTCTTTATTC-A
1 GGTTTCTTTATTCTA
*
31310223 GTTTTCTT
1 GGTTTCTT
31310231 GTTATCTTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
14 9 0.20
15 35 0.76
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.15, T:0.57
Consensus pattern (15 bp):
GGTTTCTTTATTCTA
Found at i:31314241 original size:93 final size:93
Alignment explanation
Indices: 31314082--31314251 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
31314072 CGCCCATAAG
* *
31314082 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31314147 ACGAGTTCGGATACCTAGTTACATTTCA
66 ACGAGTTCGGATACCTAGTTACATTTCA
*
31314175 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
31314239 AACGAGTTCGGAT
65 AACGAGTTCGGAT
31314252 GCCCAAATAT
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATACCTAGTTACATTTCA
Found at i:31314250 original size:46 final size:46
Alignment explanation
Indices: 31314075--31314250 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
31314065 TGTAACCCGC
* *
31314075 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * * * * *
31314121 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATACCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACA-TTCGCAT
* *
31314167 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
31314214 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
31314251 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 4 0.04
46 65 0.62
47 35 0.33
48 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31318456 original size:71 final size:71
Alignment explanation
Indices: 31318372--31318535 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31318362 CGATTTGTCT
31318372 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31318437 CTTTCA
66 CTTTCA
31318443 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31318508 CTTTCA
66 CTTTCA
31318514 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
31318536 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:31318573 original size:71 final size:70
Alignment explanation
Indices: 31318372--31318569 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
31318362 CGATTTGTCT
* * * *
31318372 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
31318437 CTTTCA
65 CTTTCA
* * * *
31318443 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
31318508 CTTTCA
65 CTTTCA
* *
31318514 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
31318570 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:31326033 original size:71 final size:71
Alignment explanation
Indices: 31325947--31326110 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31325937 CGATTTGTCT
31325947 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31326012 CTTTCA
66 CTTTCA
31326018 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31326083 CTTTCA
66 CTTTCA
31326089 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
31326111 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:31326148 original size:71 final size:70
Alignment explanation
Indices: 31325947--31326144 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
31325937 CGATTTGTCT
* * * *
31325947 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
31326012 CTTTCA
65 CTTTCA
* * * *
31326018 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
31326083 CTTTCA
65 CTTTCA
* *
31326089 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
31326145 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:31329417 original size:35 final size:36
Alignment explanation
Indices: 31329372--31329533 Score: 154
Period size: 35 Copynumber: 4.6 Consensus size: 36
31329362 AATACTCAAG
* *
31329372 GTTCATTATATCATAACATATGGA-CAAATATACAA
1 GTTCAATATATCATCACATATGGACCAAATATACAA
* * *
31329407 GTACAATATATCATCATATAT-GACCGAATATACAA
1 GTTCAATATATCATCACATATGGACCAAATATACAA
* * * * * * *
31329442 GCTCAATAAAACATCACATGTAG-TCAAATATTCAA
1 GTTCAATATATCATCACATATGGACCAAATATACAA
* *
31329477 GTTTAATATAACAT--CATATGTGACCAAATATACAA
1 GTTCAATATATCATCACATATG-GACCAAATATACAA
31329512 GTTCAATATATCATCACATATG
1 GTTCAATATATCATCACATATG
31329534 TACATATCTA
Statistics
Matches: 98, Mismatches: 23, Indels: 10
0.75 0.18 0.08
Matches are distributed among these distances:
33 4 0.04
34 3 0.03
35 84 0.86
36 1 0.01
37 6 0.06
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (36 bp):
GTTCAATATATCATCACATATGGACCAAATATACAA
Found at i:31329478 original size:70 final size:70
Alignment explanation
Indices: 31329396--31329530 Score: 189
Period size: 70 Copynumber: 1.9 Consensus size: 70
31329386 AACATATGGA
* *
31329396 CAAATATACAAGTACAATATATCATCATATATGACCGAATATACAAGCTCAATAAAACATCACAT
1 CAAATATACAAGTACAATATAACATCATATATGACCAAATATACAAGCTCAATAAAACATCACAT
31329461 GTAGT
66 GTAGT
* ** * * * *
31329466 CAAATATTCAAGTTTAATATAACATCATATGTGACCAAATATACAAGTTCAATATATCATCACAT
1 CAAATATACAAGTACAATATAACATCATATATGACCAAATATACAAGCTCAATAAAACATCACAT
31329531 ATGTACATAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 56 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (70 bp):
CAAATATACAAGTACAATATAACATCATATATGACCAAATATACAAGCTCAATAAAACATCACAT
GTAGT
Found at i:31331121 original size:26 final size:26
Alignment explanation
Indices: 31331052--31331103 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
31331042 TATTAGGAAA
31331052 GTTTTACTTCTATTAATTTAGATTTT
1 GTTTTACTTCTATTAATTTAGATTTT
31331078 GTTTTACTTCTATTAATTTAGATTTT
1 GTTTTACTTCTATTAATTTAGATTTT
31331104 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (26 bp):
GTTTTACTTCTATTAATTTAGATTTT
Found at i:31333843 original size:40 final size:39
Alignment explanation
Indices: 31333798--31333927 Score: 127
Period size: 40 Copynumber: 3.3 Consensus size: 39
31333788 CGGAATATAA
31333798 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
31333838 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
31333878 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
*
31333918 CCAGATATAA
1 CCGGATATAA
31333928 TTTCCAGCAT
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
38 1 0.01
40 68 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:31333948 original size:80 final size:80
Alignment explanation
Indices: 31333814--31333963 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
31333804 ATAACCATGT
* *
31333814 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
31333878 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
31333894 GCACAATTGCCTTCGGGTCTTAACCCAGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
31333957 CCCGGAT
64 CCCGGAT
31333964 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.05
80 56 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:31339425 original size:40 final size:39
Alignment explanation
Indices: 31339388--31339612 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 39
31339378 GCTACTCGTT
* *
31339388 CAAATGCCTTCGAGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCG-GACTTAGCCCGGATT-TAGTAACTCGCA
*
31339428 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* * *
31339468 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
*
31339507 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
31339547 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
31339588 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
31339613 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 37 0.22
40 114 0.69
41 14 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:31339499 original size:79 final size:80
Alignment explanation
Indices: 31339388--31339612 Score: 289
Period size: 79 Copynumber: 2.8 Consensus size: 80
31339378 GCTACTCGTT
* * * *
31339388 CAAATGCCTTC-GAGACATAGCCCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGAG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
31339452 GATTTAGTAACTCGCA
65 GATTTAGTAACTCGCA
* *
31339468 CCAATGCCTTCGG-GCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGAGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCC
31339530 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
* * * *
31339547 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGAGCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
31339611 GA
65 GA
31339613 CATCATTCGA
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
78 4 0.03
79 66 0.52
80 43 0.34
81 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGAGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTTAGTAACTCGCA
Found at i:31340779 original size:19 final size:19
Alignment explanation
Indices: 31340757--31340794 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
31340747 GTTTTCATCC
31340757 TTTTCTTTCTCC-TTTCTTT
1 TTTTCTTTC-CCATTTCTTT
*
31340776 TTTTTTTTCCCATTTCTTT
1 TTTTCTTTCCCATTTCTTT
31340795 ATTACTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCTTTCCCATTTCTTT
Found at i:31347298 original size:40 final size:40
Alignment explanation
Indices: 31347261--31347485 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
31347251 GCTACTCGTT
*
31347261 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
31347301 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
31347341 CCAATGCCTTCGAG-CTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
31347380 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
31347420 CAAATGCCTT-TGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
31347461 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31347486 CATCATTCGA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 32 0.20
40 116 0.72
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:31347376 original size:79 final size:80
Alignment explanation
Indices: 31347261--31347485 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
31347251 GCTACTCGTT
* * ** *
31347261 CAAATGCC-TTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTTCGAG-CTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
31347325 GATTTAGTAACTCGCA
65 GATTTAGTAACTCGCA
* *
31347341 CCAATGCC-TTCGAGCTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTTCGAGCTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCC
31347403 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
* * * * * *
31347420 CAAATGCCTTTGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTTCGAGCTTAGCCCGAATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
31347484 GA
65 GA
31347486 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.02
79 63 0.51
80 47 0.38
81 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTTCGAGCTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTTAGTAACTCGCA
Found at i:31347469 original size:119 final size:120
Alignment explanation
Indices: 31347261--31347482 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
31347251 GCTACTCGTT
31347261 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
31347326 ATTTAGTAACTCGCACCAATGCCTTCGAG-CTTAGCCCAGAATTAGTAACTCGCA
66 ATATAGTAACTAGCACCAAAGCCTTCGAGACTTAGCCCAGAATTAGTAACTCGCA
* * * **
31347380 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTT-TGGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* *
31347442 CGGATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
63 CGGATATAGTAAC-TAGCACCAAAGCCTTCGAGACTTAGCCC
31347483 GGACATCATT
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
118 6 0.07
119 68 0.77
120 14 0.16
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACCAAAGCCTTCGAGACTTAGCCCAGAATTAGTAACTCGCA
Found at i:31353063 original size:12 final size:12
Alignment explanation
Indices: 31353028--31353066 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
31353018 CCTTATTTTC
*
31353028 CTCCTCAAATCC
1 CTCCTCAAATCA
31353040 CTCCTCAAATCA
1 CTCCTCAAATCA
31353052 CTCCTCAAATCA
1 CTCCTCAAATCA
31353064 CTC
1 CTC
31353067 AAACCGATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.28, C:0.46, G:0.00, T:0.26
Consensus pattern (12 bp):
CTCCTCAAATCA
Found at i:31356743 original size:40 final size:41
Alignment explanation
Indices: 31356699--31356921 Score: 261
Period size: 40 Copynumber: 5.7 Consensus size: 41
31356689 GCTACTCGTT
* * *
31356699 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATT-TAGTAACTCGCA
*
31356739 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
31356779 CAAATGCCTTC-GGATC-TAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
31356818 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
* * *
31356858 CAATTGCCTTC-GGATCTTAG-TCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAAC-TCGCA
*
31356898 CAGA-GCCTT-GGGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCTTAGCCCGGA
31356922 CATCATTCGA
Statistics
Matches: 165, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
38 5 0.03
39 65 0.39
40 93 0.56
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:31356816 original size:79 final size:79
Alignment explanation
Indices: 31356727--31356921 Score: 274
Period size: 79 Copynumber: 2.5 Consensus size: 79
31356717 AGCCCGGTTA
*
31356727 TAGTAGCTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGG
31356792 ATC-TAGTCCGGATT
66 ATCTTAGT-CGGATT
*
31356806 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATTTAGTAACTCGCACAATTGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATTTAGTAACTCGCACAAATGCCTTC
31356869 GGATCTTAGTCGGATT
64 GGATCTTAGTCGGATT
* * *
31356885 TAGTAACTTAGCACAGA-GCCTT-GGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGACTTATCCCGGA
31356922 CATCATTCGA
Statistics
Matches: 105, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
78 12 0.11
79 81 0.77
80 12 0.11
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (79 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCGG
ATCTTAGTCGGATT
Found at i:31356906 original size:39 final size:40
Alignment explanation
Indices: 31356727--31356892 Score: 268
Period size: 40 Copynumber: 4.2 Consensus size: 40
31356717 AGCCCGGTTA
*
31356727 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
31356767 TAGTAACTCGCACAAATGCCTTCGGATC-TAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
31356806 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
31356846 TAGTAACTCGCACAATTGCCTTCGGATCTTAGT-CGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
31356885 TAGTAACT
1 TAGTAACT
31356893 TAGCACAGAG
Statistics
Matches: 121, Mismatches: 2, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
39 54 0.45
40 67 0.55
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:31364800 original size:40 final size:41
Alignment explanation
Indices: 31364756--31364981 Score: 261
Period size: 40 Copynumber: 5.7 Consensus size: 41
31364746 GCTACTCGTT
* * *
31364756 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATT-TAGTAACTCGCA
*
31364796 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * *
31364836 CAAATGTCTTC-GGATCCTAGTCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
31364876 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
* * *
31364916 CAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAAC-TCGCA
*
31364957 CAGA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCTTAGCCCGGA
31364982 CATCATTCGA
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 151 0.92
41 11 0.07
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:31369324 original size:16 final size:17
Alignment explanation
Indices: 31369303--31369335 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31369293 TGGAAACCCT
31369303 TCTTAA-AATAAAAAAA
1 TCTTAATAATAAAAAAA
*
31369319 TCTTAATTATAAAAAAA
1 TCTTAATAATAAAAAAA
31369336 AAACTCCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
TCTTAATAATAAAAAAA
Found at i:31370416 original size:29 final size:29
Alignment explanation
Indices: 31370372--31370463 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 29
31370362 CACTTGGCCG
* * *
31370372 AATCTCATTTATATGGCCCATCAGGCTCA
1 AATCACATTTATATGGCCCATCAGACCCA
* *
31370401 ATTCACATTCATATGGCCCATCAGACCCA
1 AATCACATTTATATGGCCCATCAGACCCA
* * * *
31370430 AATCACCTTTATATGGCCCGTTAGGCCCA
1 AATCACATTTATATGGCCCATCAGACCCA
31370459 AATCA
1 AATCA
31370464 TCTTGTATTC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.27
Consensus pattern (29 bp):
AATCACATTTATATGGCCCATCAGACCCA
Found at i:31371831 original size:27 final size:26
Alignment explanation
Indices: 31371796--31371907 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
31371786 AGCATGGCTG
* *
31371796 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGTAGAGCCA
*
31371822 CCAGATACAGATAATCGTGGTAGAACCA
1 CCAGA-ACAGATAAT-GTGGTAGAGCCA
* *
31371850 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGTAGAGCCA
* * *
31371877 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGTAGAGCCA
31371904 CCAG
1 CCAG
31371908 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGTAGAGCCA
Found at i:31371905 original size:54 final size:54
Alignment explanation
Indices: 31371796--31371907 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
31371786 AGCATGGCTG
* * *
31371796 CCAGAACAGATAATGTGATAGAGTCACCAGATACAGATAATCGTGGTAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
* * * * *
31371850 CCAGAATAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
31371904 CCAG
1 CCAG
31371908 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
Found at i:31372088 original size:28 final size:28
Alignment explanation
Indices: 31372013--31372077 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
31372003 AAAGTACCCC
**
31372013 TAGGGGTATAATGGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCCATACA
31372041 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCCATACA
31372069 TAGGGGTAT
1 TAGGGGTAT
31372078 TCAAGTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACAGTAATTTTCCATACA
Found at i:31378550 original size:41 final size:41
Alignment explanation
Indices: 31378505--31378622 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
31378495 TGAAAGATAA
31378505 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
31378546 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31378576 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31378617 ATGTAG
1 ATGTAG
31378623 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:31378561 original size:71 final size:71
Alignment explanation
Indices: 31378473--31378636 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31378463 GAGATGTATC
31378473 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31378538 AGGACA
66 AGGACA
31378544 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31378609 AGGACA
66 AGGACA
31378615 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
31378637 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:31385663 original size:41 final size:41
Alignment explanation
Indices: 31385618--31385735 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
31385608 TGAAAGATAA
31385618 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
31385659 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31385689 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
31385730 ATGTAG
1 ATGTAG
31385736 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:31385674 original size:71 final size:71
Alignment explanation
Indices: 31385586--31385749 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31385576 GAGATGTATC
31385586 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31385651 AGGACA
66 AGGACA
31385657 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
31385722 AGGACA
66 AGGACA
31385728 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
31385750 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:31388912 original size:24 final size:24
Alignment explanation
Indices: 31388880--31388966 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
31388870 AATCTCAAAT
31388880 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
31388904 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
31388928 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
31388952 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
31388967 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:31388932 original size:48 final size:48
Alignment explanation
Indices: 31388880--31388988 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
31388870 AATCTCAAAT
** *
31388880 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
31388928 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
31388976 GCACTATGTGTGC
1 GCACTATGTGTGC
31388989 AAACATAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:31388979 original size:24 final size:24
Alignment explanation
Indices: 31388880--31389012 Score: 126
Period size: 24 Copynumber: 5.5 Consensus size: 24
31388870 AATCTCAAAT
** * *
31388880 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGACATAATATA
** *
31388904 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGACATAATATA
** * *
31388928 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGACATAATATA
31388952 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ACATAATATA
*
31388976 GCACTATGTGTGCAAACATAATA-A
1 GCACTATGTGTGC-GACATAATATA
31389000 GCACTATGTGTGC
1 GCACTATGTGTGC
31389013 AACGTTTGGT
Statistics
Matches: 100, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
24 95 0.95
25 5 0.05
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (24 bp):
GCACTATGTGTGCGACATAATATA
Found at i:31391144 original size:15 final size:15
Alignment explanation
Indices: 31391116--31391146 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
31391106 TAGTCTTTAT
31391116 AAAATTTTGTTTTTG
1 AAAATTTTGTTTTTG
31391131 AAAATCTTTGTTTTTG
1 AAAAT-TTTGTTTTTG
31391147 TAAACTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (15 bp):
AAAATTTTGTTTTTG
Found at i:31392153 original size:27 final size:26
Alignment explanation
Indices: 31392116--31392227 Score: 152
Period size: 27 Copynumber: 4.2 Consensus size: 26
31392106 AGCATGGTTG
* *
31392116 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
31392142 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
31392170 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
31392197 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
31392224 CCAG
1 CCAG
31392228 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.08
27 55 0.71
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:31392207 original size:54 final size:54
Alignment explanation
Indices: 31392116--31392227 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
31392106 AGCATGGTTG
*
31392116 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
31392170 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
31392224 CCAG
1 CCAG
31392228 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:31392407 original size:27 final size:28
Alignment explanation
Indices: 31392333--31392393 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
31392323 AAAGTACCTC
**
31392333 TAGGGGTATAATGGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCCATACA
31392361 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCCATACA
31392389 TAGGG
1 TAGGG
31392394 TATTCAAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAACAGTAATTTTCCATACA
Found at i:31396849 original size:48 final size:48
Alignment explanation
Indices: 31396767--31397095 Score: 335
Period size: 48 Copynumber: 6.8 Consensus size: 48
31396757 ATACTAGGGT
* * *
31396767 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCGTTGA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCTCGA
* * * *
31396815 TATGAGAGCTAGTGTAAGACCGTGTTTGGGACATGGCATCAGCCTCAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCTCGA
* * * * *
31396863 TCTGTGAGCTACTGTAAGACCATGTTTGGAACATGGCAT-TGACATTGA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAG-CCTCGA
* * * *
31396911 TATAG-GAGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCCTCGA
1 TAT-GTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCTCGA
* * * *
31396959 TATGTGAGCTAGTGTAAGATCATGTCTGGGACATGGCATCGGCCTCGA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCTCGA
* *
31397007 TATGTTAGCTAGTGTAATACCATGTTTGGAACATGGCA--AGACACT-GA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAG-C-CTCGA
* * * *
31397054 TATATAAGAGCCAGTGTAGGACCATGTCTGGAACATGGCATC
1 TATGT--GAGCTAGTGTAAGACCATGTTTGGAACATGGCATC
31397096 GATATCTTAC
Statistics
Matches: 233, Mismatches: 38, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
46 1 0.00
47 9 0.04
48 193 0.83
49 30 0.13
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCTCGA
Found at i:31397037 original size:144 final size:144
Alignment explanation
Indices: 31396772--31397096 Score: 436
Period size: 144 Copynumber: 2.2 Consensus size: 144
31396762 AGGGTTATGT
* * * * *
31396772 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCGTTGATATGAGAGCTAGTGTAAGACCG
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGATATGAGAGCTAGTGTAAGACCA
* *
31396837 TGTTTGGGACATGGCATCAGCCTCAATCTGTGAGCTACTGTAAGACCATGTTTGGAACATGGCAT
66 TGTCTGGGACATGGCATCAGCCTCAATATGTGAGCTACTGTAAGACCATGTTTGGAACATGGCA-
* * *
31396902 TGACATTG-ATATAG
130 AGACACTGAATATAA
* * * * *
31396916 GAGCTAGTGTAAGACCATATCTGGGACATGGCATCGGCCTCGATATGTGAGCTAGTGTAAGATCA
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGATATGAGAGCTAGTGTAAGACCA
* * * * *
31396981 TGTCTGGGACATGGCATCGGCCTCGATATGTTAGCTAGTGTAATACCATGTTTGGAACATGGCAA
66 TGTCTGGGACATGGCATCAGCCTCAATATGTGAGCTACTGTAAGACCATGTTTGGAACATGGCAA
31397046 GACACTGATATATAA
131 GACACTGA-ATATAA
*
31397061 GAGCCAGTGTAGGACCATGTCTGGAACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCG
31397097 ATATCTTACC
Statistics
Matches: 155, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
143 6 0.04
144 112 0.72
145 37 0.24
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (144 bp):
GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGATATGAGAGCTAGTGTAAGACCA
TGTCTGGGACATGGCATCAGCCTCAATATGTGAGCTACTGTAAGACCATGTTTGGAACATGGCAA
GACACTGAATATAA
Found at i:31399988 original size:28 final size:29
Alignment explanation
Indices: 31399935--31399989 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
31399925 ATGTTGTCAT
* *
31399935 TGATGAATCTTGTGATTTTAGATGTTAAA
1 TGATGAATCTTGAGATATTAGATGTTAAA
*
31399964 TGATGAAT-TTGAGATATTAGTTGTTA
1 TGATGAATCTTGAGATATTAGATGTTA
31399990 TTTAAAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (29 bp):
TGATGAATCTTGAGATATTAGATGTTAAA
Found at i:31400483 original size:29 final size:29
Alignment explanation
Indices: 31400448--31400662 Score: 141
Period size: 29 Copynumber: 7.4 Consensus size: 29
31400438 TCATCGACCA
**
31400448 ATGAAAAGGGATAGCTTTGGTTATCGATT
1 ATGAAAAGGGATAGCTTTGACTATCGATT
* * * *
31400477 ATGAAAAGGGAT-GGTGATGACAATCAATT
1 ATGAAAAGGGATAGCT-TTGACTATCGATT
* * ** * *
31400506 ATGAAAAGGGA-CGGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TTGACTATCGATT
* *
31400535 ATGAAAAGGAATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTTGACTATCGATT
*
31400564 ATGGAAAA-GGATAGCTTCGACTATCGATT
1 AT-GAAAAGGGATAGCTTTGACTATCGATT
* ** * * *
31400593 ATGAAAAGGGAT-GGTGACGACCATAGAAT
1 ATGAAAAGGGATAGCT-TTGACTATCGATT
* * * *
31400622 ATGAAAAGGAATAGCTTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTTGACTATCGATT
31400651 ATGAAAAGGGAT
1 ATGAAAAGGGAT
31400663 GGTGACTACC
Statistics
Matches: 145, Mismatches: 34, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
28 9 0.06
29 127 0.88
30 9 0.06
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTTGACTATCGATT
Found at i:31400538 original size:58 final size:58
Alignment explanation
Indices: 31400470--31400750 Score: 187
Period size: 58 Copynumber: 4.8 Consensus size: 58
31400460 AGCTTTGGTT
* * *
31400470 ATCGATTATGAAAAGGGATGGTGATGACAATCAATTATGAAAAGGGA-CGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGATGACCATCAATTATGAAAAGGGATAGCT-ACGACC
* * * * * * * * *
31400528 ATCGAATATGAAAAGGAATAGCT-TTGGCTATCGATTATGGAAAA-GGATAGCTTCGACT
1 ATCGATTATGAAAAGGGAT-GGTGATGACCATCAATTAT-GAAAAGGGATAGCTACGACC
* * * * * *
31400586 ATCGATTATGAAAAGGGATGGTGACGACCAT-AGAATATGAAAAGGAATAGCTTCGGCT
1 ATCGATTATGAAAAGGGATGGTGATGACCATCA-ATTATGAAAAGGGATAGCTACGACC
* * * * *
31400644 ATTGATTATGAAAAGGGATGGTGACT-ACCATCAACTGTGAAAAGAGAT-GGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGA-TGACCATCAATTATGAAAAGGGATAGCT-ACGACC
* ** ** * *
31400702 ATCAACAATGAAAAGGGATGGTGACAACCATCGATAAATGAAAAGGGAT
1 ATCGATTATGAAAAGGGATGGTGATGACCATCAAT-TATGAAAAGGGAT
31400751 GGTTTTAACC
Statistics
Matches: 170, Mismatches: 42, Indels: 21
0.73 0.18 0.09
Matches are distributed among these distances:
57 9 0.05
58 141 0.83
59 20 0.12
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (58 bp):
ATCGATTATGAAAAGGGATGGTGATGACCATCAATTATGAAAAGGGATAGCTACGACC
Found at i:31400684 original size:29 final size:29
Alignment explanation
Indices: 31400651--31400793 Score: 155
Period size: 29 Copynumber: 4.9 Consensus size: 29
31400641 GCTATTGATT
* *
31400651 ATGAAAAGGGATGGTGACTACCATCAACT
1 ATGAAAAGGGATGGTGACAACCATCAACA
* * *
31400680 GTGAAAAGAGATGGTGACGACCATCAACA
1 ATGAAAAGGGATGGTGACAACCATCAACA
31400709 ATGAAAAGGGATGGTGACAACCATCGATA-A
1 ATGAAAAGGGATGGTGACAACCATC-A-ACA
***
31400739 ATGAAAAGGGATGGTTTTAACCATCAA-A
1 ATGAAAAGGGATGGTGACAACCATCAACA
* *
31400767 CATGAAAAGGGACGGTAACAACCATCA
1 -ATGAAAAGGGATGGTGACAACCATCA
31400794 TTTTGCACAC
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
28 2 0.02
29 70 0.72
30 24 0.25
31 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.17
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACAACCATCAACA
Found at i:31400713 original size:87 final size:86
Alignment explanation
Indices: 31400447--31400717 Score: 316
Period size: 87 Copynumber: 3.1 Consensus size: 86
31400437 ATCATCGACC
* *
31400447 AATGAAAAGGGATAGCTTTGGTTATCGATTATGAAAAGGGATGGTGA-TGACAATCAATTATGAA
1 AATGAAAAGGAATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACT-ACAATCAATTATGAA
*
31400511 AAGGGACGGTGACGACCATCGAA
65 AAGGGATGGTGACGACCATC-AA
* * * * * *
31400534 TATGAAAAGGAATAGCTTTGGCTATCGATTATGGAAAA-GGATAGCT-TCGACTATCGATTATGA
1 AATGAAAAGGAATAGCTTTGGCTATCGATTAT-GAAAAGGGAT-GGTGACTACAATCAATTATGA
31400597 AAAGGGATGGTGACGACCAT-AGA
64 AAAGGGATGGTGACGACCATCA-A
* * * * *
31400620 ATATGAAAAGGAATAGCTTCGGCTATTGATTATGAAAAGGGATGGTGACTACCATCAACTGTGAA
1 A-ATGAAAAGGAATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACTACAATCAATTATGAA
*
31400685 AAGAGATGGTGACGACCATCAA
65 AAGGGATGGTGACGACCATCAA
31400707 CAATGAAAAGG
1 -AATGAAAAGG
31400718 GATGGTGACA
Statistics
Matches: 155, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
85 1 0.01
86 8 0.05
87 137 0.88
88 9 0.06
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (86 bp):
AATGAAAAGGAATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGACTACAATCAATTATGAAA
AGGGATGGTGACGACCATCAA
Found at i:31400772 original size:59 final size:58
Alignment explanation
Indices: 31400651--31400793 Score: 155
Period size: 59 Copynumber: 2.4 Consensus size: 58
31400641 GCTATTGATT
* ** *
31400651 ATGAAAAGGGATGGTGACTACCATCAACTGTGAAAAGAGATGGTGACGACCATCAACA
1 ATGAAAAGGGATGGTGACAACCATCAACAATGAAAAGAGATGGTGACAACCATCAACA
* ***
31400709 ATGAAAAGGGATGGTGACAACCATCGATA-AATGAAAAGGGATGGTTTTAACCATCAA-A
1 ATGAAAAGGGATGGTGACAACCATC-A-ACAATGAAAAGAGATGGTGACAACCATCAACA
* *
31400767 CATGAAAAGGGACGGTAACAACCATCA
1 -ATGAAAAGGGATGGTGACAACCATCA
31400794 TTTTGCACAC
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
58 26 0.36
59 45 0.62
60 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.17
Consensus pattern (58 bp):
ATGAAAAGGGATGGTGACAACCATCAACAATGAAAAGAGATGGTGACAACCATCAACA
Found at i:31401736 original size:13 final size:13
Alignment explanation
Indices: 31401718--31401744 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31401708 GTAGCAATCG
31401718 CACACGGGCGTGT
1 CACACGGGCGTGT
31401731 CACACGGGCGTGT
1 CACACGGGCGTGT
31401744 C
1 C
31401745 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:31410901 original size:38 final size:39
Alignment explanation
Indices: 31410781--31410962 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
31410771 AATGTTCGAG
31410781 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
31410820 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
31410859 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
31410897 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
31410937 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
31410963 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 33 0.27
39 54 0.44
40 37 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:31418254 original size:39 final size:39
Alignment explanation
Indices: 31418207--31418389 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
31418197 AATGTTCGAG
31418207 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
31418246 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
31418285 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
31418324 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
31418364 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
31418390 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:31420919 original size:64 final size:64
Alignment explanation
Indices: 31420845--31420965 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
31420835 CATTAATTAT
* * * * *
31420845 ATATGTACTTAGCATGCATGCAATATTAAAGCATTTAAAATATG-GTACATATTGCATAATTTGA
1 ATATGAACTTACCATACAAGCAACATTAAAGCATTTAAAATA-GAGTACATATTGCATAATTTGA
* *
31420909 ATATGAACTTACCATACAAGCAACATTTAAGCATTTACAATAGAGTACATATTGCAT
1 ATATGAACTTACCATACAAGCAACATTAAAGCATTTAAAATAGAGTACATATTGCAT
31420966 TACTCACATA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
63 1 0.02
64 48 0.98
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (64 bp):
ATATGAACTTACCATACAAGCAACATTAAAGCATTTAAAATAGAGTACATATTGCATAATTTGA
Found at i:31420977 original size:64 final size:64
Alignment explanation
Indices: 31420845--31420985 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 64
31420835 CATTAATTAT
* * * * * * *
31420845 ATATGTACTTAGCATGCATGCAATATTAAAGCATTTAAAATATGGTACATATTGCATAATTTGA
1 ATATGAACTTACCATACAAGCAACATTAAAGCATTTAAAATATGGTACATATTGCATAATCTCA
* * *
31420909 ATATGAACTTACCATACAAGCAACATTTAAGCATTTACAATA-GAGTACATATTGCATTA-CTCA
1 ATATGAACTTACCATACAAGCAACATTAAAGCATTTAAAATATG-GTACATATTGCATAATCTCA
31420972 CATATGAACTTACC
1 -ATATGAACTTACC
31420986 TCGATACCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
63 3 0.05
64 62 0.95
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (64 bp):
ATATGAACTTACCATACAAGCAACATTAAAGCATTTAAAATATGGTACATATTGCATAATCTCA
Found at i:31427038 original size:33 final size:33
Alignment explanation
Indices: 31426996--31427061 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
31426986 ACACAGCCTG
31426996 GCACACGGGTGTATGGCTTGGCCGTGTGAATCA
1 GCACACGGGTGTATGGCTTGGCCGTGTGAATCA
* * *
31427029 GCACACGGGTGTGTGGCTTTGCCGTGTTAATCA
1 GCACACGGGTGTATGGCTTGGCCGTGTGAATCA
31427062 AGTTAGAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.17, C:0.21, G:0.35, T:0.27
Consensus pattern (33 bp):
GCACACGGGTGTATGGCTTGGCCGTGTGAATCA
Found at i:31429052 original size:19 final size:18
Alignment explanation
Indices: 31429028--31429070 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
31429018 TAGTTTCCTT
31429028 TTTTTATCATTTTTTTTAG
1 TTTTTATCATTTTTTTT-G
*
31429047 TTTTTA-CCTTTTTTTTG
1 TTTTTATCATTTTTTTTG
31429064 TTTTTAT
1 TTTTTAT
31429071 TTTATTCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 9 0.41
19 6 0.27
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTTTATCATTTTTTTTG
Found at i:31430530 original size:13 final size:13
Alignment explanation
Indices: 31430512--31430537 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31430502 TTGTGCACCC
31430512 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
31430525 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
31430538 ACAAATCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:31441990 original size:51 final size:50
Alignment explanation
Indices: 31441912--31442045 Score: 157
Period size: 48 Copynumber: 2.7 Consensus size: 50
31441902 TGTGAGGTCG
31441912 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TAATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCC--AAACTGTTAATCA
* * * * * ** *
31441963 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAACTGTTAATCA
31442012 CAT-TGTAGTACTAAGTGCAGGCTACTATGCGTAC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
31442046 AGATAGCTTC
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 32 0.46
49 5 0.07
50 2 0.03
51 31 0.44
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAACTGTTAATCA
Found at i:31445066 original size:15 final size:15
Alignment explanation
Indices: 31445046--31445110 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
31445036 GTATCTTGGG
31445046 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
31445061 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
31445076 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
31445091 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
31445105 TTTCTT
1 TTTCTT
31445111 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:31445078 original size:30 final size:31
Alignment explanation
Indices: 31445042--31445110 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
31445032 TATCGTATCT
31445042 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
31445072 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
31445102 -GGTTTTCTT
1 TGGGTTTCTT
31445111 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:31447367 original size:50 final size:49
Alignment explanation
Indices: 31447246--31447432 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
31447236 TGAGGTCGCA
* * * *
31447246 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
31447297 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
31447347 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
31447396 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
31447433 TAGCTTCGGC
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 43 0.36
51 31 0.26
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:31449672 original size:95 final size:96
Alignment explanation
Indices: 31449459--31449832 Score: 502
Period size: 95 Copynumber: 3.9 Consensus size: 96
31449449 ATGAGATTTC
* * * * *
31449459 GTGTAAGACCATGTCTGGGACATGGCATCGACACCTGAAATGTGTGCCTGTGTAAGACCATGTCT
1 GTGTAAGACCATGTCTGGGACATGACATCGGCA-ATGATATATGTGCCTGTGTAAGACCATGTCT
*
31449524 GGGACATGGCATTGGCGATGATATATGTGCCT
65 GGGACATGGCATCGGCGATGATATATGTGCCT
* *
31449556 GTGTAAGACCATGTCTAGGACATGACATCGGCAATGATATATGTGACTGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGACATCGGCAATGATATATGTGCCTGTGTAAGACCATGTCTG
*
31449621 GGACATGGCATTGG-GATGATATATGTGCCT
66 GGACATGGCATCGGCGATGATATATGTGCCT
* * * ** * *
31449651 GTGTAAGACTATGTCTGGGACATGGCATTGGGGATGATATATATGCCTGTGTAAGACTATGTCT-
1 GTGTAAGACCATGTCTGGGACATGACATCGGCAATGATATATGTGCCTGTGTAAGACCATGTCTG
* *
31449715 GGACATGGCATCGACGATGTTATATGTGCCT
66 GGACATGGCATCGGCGATGATATATGTGCCT
* * ** * *
31449746 AT-TAAGACCATGTCTGGGACATGACATTGGTGATGATATGTGTGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGACATCGGCAATGATATATGTGCCTGTGTAAGACCATGTCTG
31449810 GGACATGGCATCGGCGATGATAT
66 GGACATGGCATCGGCGATGATAT
31449833 GTGGATTCAT
Statistics
Matches: 246, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
94 66 0.27
95 108 0.44
96 42 0.17
97 30 0.12
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (96 bp):
GTGTAAGACCATGTCTGGGACATGACATCGGCAATGATATATGTGCCTGTGTAAGACCATGTCTG
GGACATGGCATCGGCGATGATATATGTGCCT
Found at i:31449835 original size:48 final size:48
Alignment explanation
Indices: 31449459--31449832 Score: 504
Period size: 48 Copynumber: 7.8 Consensus size: 48
31449449 ATGAGATTTC
* * *
31449459 GTGTAAGACCATGTCTGGGACATGGCATCGAC-ACCTGAAATGTGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGA--TGATATATGTGCCT
*
31449508 GTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
* * * *
31449556 GTGTAAGACCATGTCTAGGACATGACATCGGCAATGATATATGTGACT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
*
31449604 GTGTAAGACCATGTCTGGGACATGGCATTGG-GATGATATATGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
* * * *
31449651 GTGTAAGACTATGTCTGGGACATGGCATTGGGGATGATATATATGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
* * *
31449699 GTGTAAGACTATGTCT-GGACATGGCATCGACGATGTTATATGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
* * * * * *
31449746 AT-TAAGACCATGTCTGGGACATGACATTGGTGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
31449793 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
31449833 GTGGATTCAT
Statistics
Matches: 287, Mismatches: 34, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
46 12 0.04
47 96 0.33
48 148 0.52
49 30 0.10
50 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT
Found at i:31454468 original size:39 final size:40
Alignment explanation
Indices: 31454425--31454503 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 40
31454415 GATGTGAAAA
31454425 AATTGTGAGAGCTATGATATCCGGGCTAAG-CCCGAAGGC
1 AATTGTGAGAGCTATGATATCCGGGCTAAGTCCCGAAGGC
* * * *
31454464 AATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 AATTGTGAGAGCTATGATATCCGGGCTAAGTCCCGAAGGC
31454504 GTTTGTGTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 26 0.74
40 9 0.26
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (40 bp):
AATTGTGAGAGCTATGATATCCGGGCTAAGTCCCGAAGGC
Found at i:31464383 original size:30 final size:30
Alignment explanation
Indices: 31464339--31464427 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
31464329 CAAAGATAAC
31464339 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
31464368 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
31464398 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
31464428 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:31464387 original size:15 final size:15
Alignment explanation
Indices: 31464339--31464418 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
31464329 CAAAGATAAC
*
31464339 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
31464353 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
31464368 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
31464383 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
31464398 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
31464413 AAGAAA
1 AAGAAA
31464419 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:31464427 original size:15 final size:15
Alignment explanation
Indices: 31464350--31464427 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
31464340 AGAAAACCGA
31464350 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
31464365 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
31464379 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
31464394 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
31464410 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31464425 ATA
1 ATA
31464428 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31467901 original size:29 final size:29
Alignment explanation
Indices: 31467868--31467924 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
31467858 CAAAATCATA
31467868 TTTTGAAAAATTACAATTTTGCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCAAAC
* * * *
31467897 TTTTGCATATTTACACTTTTGCCCCAAA
1 TTTTGAAAAATTACAATTTTGCCCCAAA
31467925 GCTCGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (29 bp):
TTTTGAAAAATTACAATTTTGCCCCAAAC
Found at i:31475161 original size:34 final size:34
Alignment explanation
Indices: 31475102--31475201 Score: 132
Period size: 34 Copynumber: 3.0 Consensus size: 34
31475092 ATCTCAGTTA
* * *
31475102 GGGCCTTTACCC-ATTCAGTAGCAGTAACAGTGT
1 GGGCCTTAACCCAATTCAGTAACAGTAACAGTAT
*
31475135 GGGCCTTAACCCAATTCAGTAACAGTATCAGTAT
1 GGGCCTTAACCCAATTCAGTAACAGTAACAGTAT
*
31475169 GGGCCTTAGCCCAATTCAGTAACAG-AATCAGTA
1 GGGCCTTAACCCAATTCAGTAACAGTAA-CAGTA
31475202 CAAAATGCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
33 12 0.20
34 47 0.80
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (34 bp):
GGGCCTTAACCCAATTCAGTAACAGTAACAGTAT
Found at i:31476610 original size:29 final size:30
Alignment explanation
Indices: 31476557--31476614 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
31476547 CAGAAGTTTT
31476557 GGCACTAAGTGTGCGATTTAAACTAGCTTG
1 GGCACTAAGTGTGCGATTTAAACTAGCTTG
31476587 GGCACTAAGTGTGCGATTT-AACTAGCTT
1 GGCACTAAGTGTGCGATTTAAACTAGCTT
31476615 TGGCTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (30 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTG
Found at i:31479338 original size:29 final size:29
Alignment explanation
Indices: 31479283--31479397 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
31479273 GTGAGCATGA
* * *
31479283 ATATGAATGTGA-TTGGGCTTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
31479311 ATATAAATGTGATTTGGGCCTGATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
31479340 ATATATAGGTGGTTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * **
31479369 ATATGAATATGA-TTGGGTTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
31479397 A
1 A
31479398 GATACAGGTA
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 26 0.37
29 45 0.63
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.31
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:31480453 original size:21 final size:21
Alignment explanation
Indices: 31480415--31480454 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31480405 TTGAAAGGAG
*
31480415 TTTATTTTTAAGATGTTTTTT
1 TTTATTTTTAAGAGGTTTTTT
31480436 TTTA-TTTTAAGAAGGTTTT
1 TTTATTTTTAAG-AGGTTTT
31480455 CAATGAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (21 bp):
TTTATTTTTAAGAGGTTTTTT
Found at i:31480454 original size:20 final size:21
Alignment explanation
Indices: 31480415--31480454 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
31480405 TTGAAAGGAG
* *
31480415 TTTATTTTTAAGATGTTTTTT
1 TTTATTTTTAAGAAGGTTTTT
31480436 TTTA-TTTTAAGAAGGTTTT
1 TTTATTTTTAAGAAGGTTTT
31480455 CAATGAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (21 bp):
TTTATTTTTAAGAAGGTTTTT
Found at i:31491284 original size:17 final size:18
Alignment explanation
Indices: 31491242--31491290 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
31491232 AGTTGAAAAG
31491242 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
31491261 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
31491278 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
31491291 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:31492179 original size:40 final size:40
Alignment explanation
Indices: 31492113--31492279 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
31492103 AAATTGAATG
* * *
31492113 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
31492152 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
31492192 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
31492232 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
31492272 ATATCCGG
1 ATATCCGG
31492280 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 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:31497163 original size:17 final size:18
Alignment explanation
Indices: 31497121--31497169 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
31497111 AGTTGAAAAG
31497121 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
31497140 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
31497157 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
31497170 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:31498057 original size:40 final size:40
Alignment explanation
Indices: 31497991--31498157 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
31497981 AAATTGAATG
* * *
31497991 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
31498030 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
31498070 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
31498110 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
31498150 ATATCCGG
1 ATATCCGG
31498158 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 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:31505166 original size:17 final size:18
Alignment explanation
Indices: 31505124--31505172 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
31505114 AGTTGAAAAG
31505124 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
31505143 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
31505160 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
31505173 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:31506061 original size:40 final size:40
Alignment explanation
Indices: 31505995--31506161 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
31505985 AAATTGAATG
* * *
31505995 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
31506034 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
31506074 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
31506114 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
31506154 ATATCCGG
1 ATATCCGG
31506162 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 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:31511492 original size:39 final size:42
Alignment explanation
Indices: 31511438--31511520 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 42
31511428 AAAAGAAAGT
31511438 AAGCTTATATAGC-T-T-AGTAAGTATATAAATAATAATTAA
1 AAGCTTATATAGCTTATAAGTAAGTATATAAATAATAATTAA
31511477 AAGCTTATATAGCTTAGTAAGTAAGTATATAAATAATAATTAA
1 AAGCTTATATAGCTTA-TAAGTAAGTATATAAATAATAATTAA
31511520 A
1 A
31511521 GAGTCTAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
39 13 0.32
40 1 0.03
42 1 0.03
43 25 0.62
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (42 bp):
AAGCTTATATAGCTTATAAGTAAGTATATAAATAATAATTAA
Found at i:31517686 original size:29 final size:30
Alignment explanation
Indices: 31517633--31517690 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
31517623 CGGAAGTTTT
*
31517633 GGCACTAAGTGTACGATTTAAACTAGCTTG
1 GGCACTAAGTGCACGATTTAAACTAGCTTG
*
31517663 GGCACTAAGTGCGCGATTT-AACTAGCTT
1 GGCACTAAGTGCACGATTTAAACTAGCTT
31517691 CAGCTATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (30 bp):
GGCACTAAGTGCACGATTTAAACTAGCTTG
Done.