Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 222 of 295
Found at i:76427498 original size:89 final size:89
Alignment explanation
Indices: 76427335--76427516 Score: 251
Period size: 89 Copynumber: 2.0 Consensus size: 89
76427325 AAGCAGCTGT
76427335 AGTGGAGCAAGTTGAAGTAGCAAGTCTTATCCCCCTGAAGTTGCAGTAGAGCAGACTGAAGATTG
1 AGTGGAGCAAGTTGAAGTAGCAAGTCTTATCCCCCTGAAGTTGCAGTAGAGCAGACTGAAGATTG
*
76427400 AAGACCTTATCTCCCTAAAGTTGC
66 AAGACCTTATCTCCCTAAAGATGC
* * * * *
76427424 AGTGGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAG-TT-
1 AGTGGAGCAAGTTGAAGTAGCAAGTCTTATCCCCCTGAAGTTGCAGTAGAGCAGACTGAAGATTG
* * *
76427487 AGTGAATCTTATTTCCCTAAAGATGC
66 A-AG-ACCTTATCTCCCTAAAGATGC
76427513 AGTG
1 AGTG
76427517 AAACATATTG
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
87 1 0.01
88 3 0.04
89 78 0.95
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (89 bp):
AGTGGAGCAAGTTGAAGTAGCAAGTCTTATCCCCCTGAAGTTGCAGTAGAGCAGACTGAAGATTG
AAGACCTTATCTCCCTAAAGATGC
Found at i:76427529 original size:45 final size:44
Alignment explanation
Indices: 76427335--76427516 Score: 197
Period size: 45 Copynumber: 4.1 Consensus size: 44
76427325 AAGCAGCTGT
* * * *
76427335 AGTGGAGCAAGTTGAAGTAGCAAGTCTTATCCCCCTGAAGTTGC
1 AGTGGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTAAAGTTGC
* ** * *
76427379 AGTAGAGCAGACTGAAG-ATTGAAGACCTTATCTCCCTAAAGTTGC
1 AGTGGAGCAGGTTGAAGTAGT-AAG-TCTTATCTCCCTAAAGTTGC
*
76427424 AGTGGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTGAAGTTGC
1 AGTGGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTAAAGTTGC
* * *
76427468 AGTGGAGCAGGCTGAAGTTAGTGAA-TCTTATTTCCCTAAAGATGC
1 AGTGGAGCAGGTTGAAG-TAGT-AAGTCTTATCTCCCTAAAGTTGC
76427513 AGTG
1 AGTG
76427517 AAACATATTG
Statistics
Matches: 114, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
43 1 0.01
44 50 0.44
45 59 0.52
46 4 0.04
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (44 bp):
AGTGGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTAAAGTTGC
Found at i:76431215 original size:21 final size:18
Alignment explanation
Indices: 76431188--76431226 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
76431178 TTGCCTAATG
*
76431188 AAATAACAACTTCAGTAC
1 AAATAATAACTTCAGTAC
76431206 AAATAATAACTTCAGTAC
1 AAATAATAACTTCAGTAC
76431224 AAA
1 AAA
76431227 GAGAAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.18, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAATAACTTCAGTAC
Found at i:76432258 original size:9 final size:9
Alignment explanation
Indices: 76432246--76432270 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
76432236 GCCAACTTAG
76432246 GCAACCTGT
1 GCAACCTGT
76432255 GCAACCTGT
1 GCAACCTGT
76432264 GCAACCT
1 GCAACCT
76432271 TAGAGAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.20
Consensus pattern (9 bp):
GCAACCTGT
Found at i:76433259 original size:26 final size:26
Alignment explanation
Indices: 76433223--76433306 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
76433213 TGATACAAAT
*
76433223 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
76433249 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
76433275 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
76433301 TGATAA
1 TGATAA
76433307 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:76435355 original size:137 final size:135
Alignment explanation
Indices: 76435032--76435317 Score: 396
Period size: 137 Copynumber: 2.1 Consensus size: 135
76435022 TGAGTAGTCT
* * * * *
76435032 CCCAAATGGGTTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATAGGTTGACTGATCTTG-A-GTACTTTGAAATGGGCCTATGGGCCATAC
*
76435097 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTATTTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
64 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTATTTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
76435162 ACTGTTA
129 ACTGTTA
* * * *
76435169 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATAGGTTGACTGATCTTG-A-GTACTTTGAAATGGGCCTATGGGCCATAC
*
76435234 TGTTATCTGAATAAGGGGCTAAGG-CCAGTT-TATTGTAATCTGAAAAGGGCTCTGGTCCAGTAC
64 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTAT-TTGTAATCTGAAAAGGGCTCTGGCCCAGTAC
76435297 CACTGTTA
128 CACTGTTA
**
76435305 CCTGAATGGGCTT
1 CCCAAATGGGCTT
76435318 AGGCCCAATA
Statistics
Matches: 143, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
135 1 0.01
136 54 0.38
137 88 0.62
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (135 bp):
CCCAAATGGGCTTGCATAGGTTGACTGATCTTGAGTACTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTATTTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTA
Found at i:76439228 original size:25 final size:26
Alignment explanation
Indices: 76439152--76439248 Score: 105
Period size: 25 Copynumber: 3.8 Consensus size: 26
76439142 TTGATATACG
*
76439152 TAGGT-AATGTTCCATGATAA-CAGT
1 TAGGTAAATGTTCCATGATAATCGGT
*
76439176 T-GGTAAATTGTT-CATGATTAATGGGT
1 TAGGTAAA-TGTTCCATGA-TAATCGGT
*
76439202 TAGGTAAATGTT-CATGATAATTGGT
1 TAGGTAAATGTTCCATGATAATCGGT
76439227 TAGGTAAATGTTTCCATGATAA
1 TAGGTAAATG-TTCCATGATAA
76439249 AAATTTCAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
23 3 0.05
24 8 0.13
25 24 0.38
26 14 0.22
27 14 0.22
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (26 bp):
TAGGTAAATGTTCCATGATAATCGGT
Found at i:76443425 original size:27 final size:27
Alignment explanation
Indices: 76443383--76443516 Score: 166
Period size: 27 Copynumber: 5.0 Consensus size: 27
76443373 AGTCACCAAT
*
76443383 ACAGATAT-TGTGGCAGAGCCATCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
76443409 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * *
76443436 TCAGATA-ATTGTGGCATAGCCACCAGG
1 ACAGATATA-TGTGGCAGAGCCACCAGA
76443463 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
76443490 TCAGATA-ATTGTTGGCATAGCCACCAG
1 ACAGATATA-TG-TGGCAGAGCCACCAG
76443517 GACGCTTCCT
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 10 0.11
27 69 0.73
28 15 0.16
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:76443457 original size:54 final size:54
Alignment explanation
Indices: 76443376--76443516 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 54
76443366 GTGACGAAGT
* *
76443376 CACCA-ATACAGAT-ATTGTGGCAGAGCCATCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
76443429 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
76443483 CACCAGATCAGATAATTGTTGGCATAGCCACCAG
1 CACCAGATCAGATAATTG-TGGCATAGCCACCAG
76443517 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
53 10 0.12
54 57 0.70
55 15 0.18
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:76451371 original size:27 final size:27
Alignment explanation
Indices: 76451320--76451478 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
76451310 GCGAGGCTGC
* *
76451320 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
76451347 CAGATATTGTGGCAGAGCCATCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
76451373 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
76451400 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
76451427 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
76451454 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
76451479 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:76451479 original size:54 final size:54
Alignment explanation
Indices: 76451338--76451481 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
76451328 GTGACGAAGT
* * *
76451338 CACCAGATACAGAT-ATTGTGGCAGAGCCATCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
76451392 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
76451446 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
76451482 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:76458621 original size:26 final size:26
Alignment explanation
Indices: 76458592--76458701 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
76458582 TGATACAAAT
76458592 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
76458618 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
76458644 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
76458670 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
76458696 TGATAA
1 TGATAA
76458702 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:76480847 original size:9 final size:9
Alignment explanation
Indices: 76480797--76480873 Score: 68
Period size: 9 Copynumber: 8.6 Consensus size: 9
76480787 ATCCAAAGTT
76480797 TTATGTAAG
1 TTATGTAAG
*
76480806 TTATGATATG
1 TTATG-TAAG
* * *
76480816 ATATATATAT
1 TTATGTA-AG
76480826 TTATGT-A-
1 TTATGTAAG
76480833 TTATGTAAG
1 TTATGTAAG
76480842 TTATGTAAG
1 TTATGTAAG
*
76480851 TTATATAAG
1 TTATGTAAG
*
76480860 TTATGTAAC
1 TTATGTAAG
76480869 TTATG
1 TTATG
76480874 ATCCAAAGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
7 6 0.11
8 2 0.04
9 36 0.67
10 10 0.19
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:76480873 original size:36 final size:36
Alignment explanation
Indices: 76480797--76480866 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
76480787 ATCCAAAGTT
* *
76480797 TTATGTAAGTTATGATATGATATATATATTTATGTA
1 TTATGTAAGTTATGATAAGATATATATAGTTATGTA
*
76480833 TTATGTAAGTTATG-TAAGTTATATA-AGTTATGTA
1 TTATGTAAGTTATGATAAGATATATATAGTTATGTA
76480867 ACTTATGATC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 8 0.26
35 9 0.29
36 14 0.45
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (36 bp):
TTATGTAAGTTATGATAAGATATATATAGTTATGTA
Found at i:76481340 original size:26 final size:28
Alignment explanation
Indices: 76481314--76481371 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
76481304 TTAAACTATA
76481314 TACTT-TTAAGTATAAATAAAAAAATAT
1 TACTTATTAAGTATAAATAAAAAAATAT
*
76481341 TATTTAAATTAAGTATAAAT-AAAAAATAT
1 TACTT--ATTAAGTATAAATAAAAAAATAT
76481370 TA
1 TA
76481372 TTTAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 4 0.15
29 11 0.41
30 12 0.44
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (28 bp):
TACTTATTAAGTATAAATAAAAAAATAT
Found at i:76481374 original size:29 final size:30
Alignment explanation
Indices: 76481319--76481381 Score: 119
Period size: 29 Copynumber: 2.1 Consensus size: 30
76481309 CTATATACTT
76481319 TTAAGTATAAATAAAAAAATATTATTTAAA
1 TTAAGTATAAATAAAAAAATATTATTTAAA
76481349 TTAAGTATAAAT-AAAAAATATTATTTAAA
1 TTAAGTATAAATAAAAAAATATTATTTAAA
76481378 TTAA
1 TTAA
76481382 ATTTTCTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (30 bp):
TTAAGTATAAATAAAAAAATATTATTTAAA
Found at i:76484567 original size:23 final size:23
Alignment explanation
Indices: 76484524--76484567 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
76484514 CATTTAAAAT
*
76484524 AAAATGATATTTTACCTTGTTAA
1 AAAATGATATTTTACCGTGTTAA
*
76484547 AAAATGATATTTTACGGTGTT
1 AAAATGATATTTTACCGTGTT
76484568 TTACTTATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (23 bp):
AAAATGATATTTTACCGTGTTAA
Found at i:76496051 original size:26 final size:26
Alignment explanation
Indices: 76496001--76496051 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
76495991 TTTAATGTGA
**
76496001 ATATTATTTATTTTTATTTTATGAAT
1 ATATTATTTATTTTTAAATTATGAAT
76496027 ATATTATTATATTTTTAAATT-TGAA
1 ATATTATT-TATTTTTAAATTATGAA
76496052 AGATGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (26 bp):
ATATTATTTATTTTTAAATTATGAAT
Found at i:76505340 original size:53 final size:53
Alignment explanation
Indices: 76505236--76505340 Score: 124
Period size: 53 Copynumber: 2.0 Consensus size: 53
76505226 ATAAGTACTC
* *
76505236 ATATTTATATTATTAAACTATTCATATTTTATATTATAAAAATATAATTTTAA
1 ATATTTATATTATTAAACTATTCATATTTTATAATATAAAAATAAAATTTTAA
* ** *
76505289 ATATTTAT-TTATTTTATACTATTCATATTTTA-AATATTGAAGTAAAATTTTA
1 ATATTTATATTA--TTAAACTATTCATATTTTATAATATAAAAATAAAATTTTA
76505341 TATGAAAATC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
52 3 0.07
53 23 0.52
54 18 0.41
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (53 bp):
ATATTTATATTATTAAACTATTCATATTTTATAATATAAAAATAAAATTTTAA
Found at i:76510639 original size:26 final size:26
Alignment explanation
Indices: 76510610--76510691 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
76510600 TGATACAAAT
76510610 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76510636 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76510662 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76510688 TGAT
1 TGAT
76510692 GGGAATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:76520117 original size:31 final size:31
Alignment explanation
Indices: 76520079--76520148 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
76520069 ATGACTTGAG
76520079 AATTAATTTATGGTTTTTTGAATTATTAATT
1 AATTAATTTATGGTTTTTTGAATTATTAATT
76520110 AATTAATTTATGGTTTTTTGAATTATTAATT
1 AATTAATTTATGGTTTTTTGAATTATTAATT
76520141 AATTAATT
1 AATTAATT
76520149 AATTAATTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (31 bp):
AATTAATTTATGGTTTTTTGAATTATTAATT
Found at i:76520314 original size:4 final size:4
Alignment explanation
Indices: 76520291--76520337 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
76520281 GGGTTGAGAA
* **
76520291 AATT ATTT AATT AAAA AATT AATT AATT AATT AA-- AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT
76520337 A
1 A
76520338 TGTTTATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 2 0.06
4 33 0.94
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (4 bp):
AATT
Found at i:76520330 original size:14 final size:14
Alignment explanation
Indices: 76520311--76520337 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
76520301 TTAAAAAATT
76520311 AATTAATTAATTAA
1 AATTAATTAATTAA
76520325 AATTAATTAATTA
1 AATTAATTAATTA
76520338 TGTTTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATTAATTAATTAA
Found at i:76522567 original size:29 final size:31
Alignment explanation
Indices: 76522517--76522574 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
76522507 AGATTACAAA
*
76522517 ATCATATCTTCAAGATTGCATATCATATCAT
1 ATCATATCTTCAAGATTACATATCATATCAT
76522548 ATCATATC-T-AAGATTACATATCATATC
1 ATCATATCTTCAAGATTACATATCATATC
76522575 TAAGATTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 17 0.65
30 1 0.04
31 8 0.31
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (31 bp):
ATCATATCTTCAAGATTACATATCATATCAT
Found at i:76522569 original size:19 final size:19
Alignment explanation
Indices: 76522545--76522588 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
76522535 CATATCATAT
76522545 CATATCATATCTAAGATTA
1 CATATCATATCTAAGATTA
*
76522564 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTA
76522583 CATATC
1 CATATC
76522589 CTTAAAGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (19 bp):
CATATCATATCTAAGATTA
Found at i:76523861 original size:205 final size:205
Alignment explanation
Indices: 76523129--76523840 Score: 1196
Period size: 205 Copynumber: 3.5 Consensus size: 205
76523119 AAATCTGCTT
* * * *
76523129 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCATAGAATTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
76523194 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACTATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
76523259 GGATCTGCTTCAGTATAAACATCTGAAGGTTGGATGTGCTATGTGTCTGCCCTCCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
*
76523324 AGATGCTAGA
196 AGATGCCAGA
76523334 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
76523399 GTGAAAGCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAATGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
76523464 GGATCTACTTCAGTATAAACATCTGAAGTTTGGATCTACTATGTGTCTGCACTCCGTC-AA--AG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
76523526 AGATGCCAGA
196 AGATGCCAGA
* *
76523536 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAAGTAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
76523601 ATGAAAGCCAAATCAGCTATGTTTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
76523666 GGATCTACTTCAATATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
76523731 AGATGCCAGA
196 AGATGCCAGA
* * *
76523741 CTTCGATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTACTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
76523806 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
76523841 TCCGCCAATA
Statistics
Matches: 471, Mismatches: 33, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
202 188 0.40
203 2 0.00
204 2 0.00
205 279 0.59
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
AGATGCCAGA
Found at i:76523894 original size:44 final size:44
Alignment explanation
Indices: 76523812--76523919 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
76523802 ACACGTGAAA
* *
76523812 GCCAAATCAGCTATGTCTTCGATCTGCTCTCCGCCAATACAGAGAT
1 GCCAAATCTGCTA--TCTTCGATCTGCTCTCCGACAATACAGAGAT
* * **
76523858 GCCATATCTGGTATCTTCGATCTGCTCTTTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCCGACAATACAGAGAT
76523902 GCCAAATCTGCTATCTTC
1 GCCAAATCTGCTATCTTC
76523920 AACTTGTTCC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 44 0.81
46 10 0.19
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCCGACAATACAGAGAT
Found at i:76523947 original size:44 final size:44
Alignment explanation
Indices: 76523899--76524306 Score: 282
Period size: 44 Copynumber: 9.3 Consensus size: 44
76523889 ACAATACAGA
*
76523899 GATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAAG
1 GATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAACACAAG
** * * * * *
76523943 GATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCA-TAG
1 GATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAAG
* * * * *
76523986 GAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGG
1 GA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAAG
* *
76524031 GATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAACACAAG
** * * * ** *
76524075 GATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTATGCA-TAG
1 GATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAAG
* * **
76524118 GAGTGTCAGATCTATTATCTTCGATCTGTTCCCTATAAACACAAG
1 GA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAAG
* * *
76524163 GATGCCAAATCTACTATCTTC-AACTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAACACAAG
** * * *
76524207 GATGCC--ATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCAC-AG
1 GATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAAG
* * *
76524250 GAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGG
1 G-ATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAAG
76524295 GATGCCAAATCT
1 GATGCCAAATCT
76524307 TGTTTCTTTG
Statistics
Matches: 278, Mismatches: 63, Indels: 46
0.72 0.16 0.12
Matches are distributed among these distances:
42 6 0.02
43 43 0.15
44 172 0.62
45 51 0.18
46 6 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (44 bp):
GATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAACACAAG
Found at i:76524100 original size:132 final size:132
Alignment explanation
Indices: 76523894--76524306 Score: 727
Period size: 132 Copynumber: 3.1 Consensus size: 132
76523884 CTTTGACAAT
* *
76523894 ACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
76523959 CCTCGATCTGCTTCGCTGTAAGCATAGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCATAGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
*
76524024 GC
131 AC
76524026 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
* *
76524091 CCTCGATCTGCTTCGCTGTATGCATAGGAGTGTCAGATCTATTATCTTCGATCTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCATAGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
76524156 AC
131 AC
* *
76524158 ACAAGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
1 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
* * * *
76524223 CTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCATAGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
76524288 AC
131 AC
76524290 ACAGGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
76524307 TGTTTCTTTG
Statistics
Matches: 267, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 267 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAAT
CCTCGATCTGCTTCGCTGTAAGCATAGGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAA
AC
Found at i:76532046 original size:29 final size:31
Alignment explanation
Indices: 76531998--76532055 Score: 102
Period size: 29 Copynumber: 1.9 Consensus size: 31
76531988 AGATTACAAA
76531998 ATCATATCTTAAAGATTGCATATCATATCAT
1 ATCATATCTTAAAGATTGCATATCATATCAT
76532029 ATCATATC-T-AAGATTGCATATCATATC
1 ATCATATCTTAAAGATTGCATATCATATC
76532056 TAAGATTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 18 0.67
30 1 0.04
31 8 0.30
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (31 bp):
ATCATATCTTAAAGATTGCATATCATATCAT
Found at i:76532050 original size:19 final size:19
Alignment explanation
Indices: 76532026--76532069 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
76532016 CATATCATAT
76532026 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
76532045 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
76532064 CATATC
1 CATATC
76532070 CTTAAAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:76539757 original size:39 final size:36
Alignment explanation
Indices: 76539685--76539757 Score: 83
Period size: 39 Copynumber: 1.9 Consensus size: 36
76539675 TGTTACATGG
*
76539685 TTTTTAAAAATTTAGAATTTATTCCTTATATTTTTA
1 TTTTTAAAAATTTAGAATTTATTCCTTAAATTTTTA
* **
76539721 TTTTTAAGAAATTTTATTAATTTATTTTTTAAATTTT
1 TTTTTAA-AAA-TTTA-GAATTTATTCCTTAAATTTT
76539758 AAAATTCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
36 7 0.23
37 3 0.10
38 4 0.13
39 16 0.53
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (36 bp):
TTTTTAAAAATTTAGAATTTATTCCTTAAATTTTTA
Found at i:76548016 original size:16 final size:15
Alignment explanation
Indices: 76547975--76548016 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
76547965 TCAGCATTGA
76547975 AAACTTAGATATAAG
1 AAACTTAGATATAAG
76547990 ACATA-TTAGATATAAG
1 A-A-ACTTAGATATAAG
76548006 AAACTTGAGAT
1 AAACTT-AGAT
76548017 TTTACACGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.17
16 17 0.74
17 1 0.04
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (15 bp):
AAACTTAGATATAAG
Found at i:76553375 original size:6 final size:6
Alignment explanation
Indices: 76553349--76553412 Score: 83
Period size: 6 Copynumber: 10.5 Consensus size: 6
76553339 AAAGTCTAGG
* * * *
76553349 AAAATA CAAATA AATAGA AAAATA AAAATA AAAATA AAAACTA ATAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA
76553398 AAAATA AAAATA AAA
1 AAAATA AAAATA AAA
76553413 GGAAATAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
6 44 0.90
7 5 0.10
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:76553397 original size:19 final size:19
Alignment explanation
Indices: 76553360--76553412 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
76553350 AAATACAAAT
76553360 AAATAGAAAAATAAAAATAA
1 AAATA-AAAAATAAAAATAA
* *
76553380 AAATAAAAACTAATAATAA
1 AAATAAAAAATAAAAATAA
76553399 AAAT-AAAAATAAAA
1 AAATAAAAAATAAAA
76553413 GGAAATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 8 0.28
19 16 0.55
20 5 0.17
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (19 bp):
AAATAAAAAATAAAAATAA
Found at i:76553419 original size:25 final size:24
Alignment explanation
Indices: 76553349--76553420 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 24
76553339 AAAGTCTAGG
*
76553349 AAAATACAAATAAATAGAAA-AATA
1 AAAATAAAAATAAA-AGAAATAATA
76553373 AAAATAAAAATAAAA-ACTAATAATA
1 AAAATAAAAATAAAAGA--AATAATA
76553398 AAAATAAAAATAAAAGGAAATAA
1 AAAATAAAAATAAAA-GAAATAA
76553421 AATTAAATGG
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
22 1 0.02
23 1 0.02
24 15 0.36
25 24 0.57
27 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAATAAAAATAAAAGAAATAATA
Found at i:76555388 original size:14 final size:15
Alignment explanation
Indices: 76555352--76555389 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
76555342 GAATAGGGAT
*
76555352 AGGGAAGGAAGAAAA
1 AGGGAGGGAAGAAAA
76555367 AGGAGAGGGAA-AAAA
1 AGG-GAGGGAAGAAAA
76555382 AGGGAGGG
1 AGGGAGGG
76555390 CAATGGGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 5 0.24
15 10 0.48
16 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (15 bp):
AGGGAGGGAAGAAAA
Found at i:76561970 original size:19 final size:18
Alignment explanation
Indices: 76561946--76561999 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
76561936 ACCTGCCAGA
*
76561946 AGAAAATAAAAGAAAAATT
1 AGAAAATAAAATAAAAA-T
76561965 AGAAAATAAGAATTAAAAAT
1 AGAAAATAA-AA-TAAAAAT
76561985 A-AAAATAAAATAAAA
1 AGAAAATAAAATAAAA
76562000 TGCAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 5 0.16
18 2 0.06
19 16 0.50
20 4 0.12
21 5 0.16
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (18 bp):
AGAAAATAAAATAAAAAT
Found at i:76572520 original size:40 final size:40
Alignment explanation
Indices: 76572468--76572697 Score: 336
Period size: 40 Copynumber: 5.8 Consensus size: 40
76572458 ATAACCACAA
* * * *
76572468 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
76572508 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCATCTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
76572548 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
76572588 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
76572628 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
76572668 GCATAAATGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
76572698 GTATTCAAAT
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 172 0.98
41 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:76579328 original size:40 final size:40
Alignment explanation
Indices: 76579237--76579425 Score: 247
Period size: 40 Copynumber: 4.8 Consensus size: 40
76579227 ATAACCACAA
* * *
76579237 GCACAATTGCCTTCGGGTCTTAACCCGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
76579276 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCATCTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
76579316 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * * *
76579356 GCACAAATGCCTTTGGGTCTTAGCCTGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
76579396 GCATAAATGCCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
76579426 GTATTCAAAT
Statistics
Matches: 132, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 25 0.19
40 103 0.78
41 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:76587576 original size:7 final size:7
Alignment explanation
Indices: 76587564--76587590 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
76587554 ATTATAATTA
76587564 ACCTTTC
1 ACCTTTC
76587571 ACCTTTC
1 ACCTTTC
76587578 ACCTTTC
1 ACCTTTC
76587585 ACCTTT
1 ACCTTT
76587591 TTGTAAGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (7 bp):
ACCTTTC
Found at i:76593308 original size:46 final size:44
Alignment explanation
Indices: 76593253--76593378 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 44
76593243 GTTGAGACGA
*
76593253 TAGCTAGTGTAAGACATATTTGGGACATGCATCGACCT-CGAGATG
1 TAGC-AGTGTAAGACATGTTTGGGACATGCATCGA-CTACGAGATG
*
76593298 TAAGCAAGTGTAAGACATGTCTGGGACATGCATCGACTACGAGATG
1 T-AGC-AGTGTAAGACATGTTTGGGACATGCATCGACTACGAGATG
* *
76593344 TATCAGTGTAAGACCATGTTTGGCACATGGCATCG
1 TAGCAGTGTAAGA-CATGTTTGGGACAT-GCATCG
76593379 GCACATATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
44 9 0.13
45 17 0.24
46 45 0.63
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (44 bp):
TAGCAGTGTAAGACATGTTTGGGACATGCATCGACTACGAGATG
Found at i:76600989 original size:48 final size:48
Alignment explanation
Indices: 76600885--76601157 Score: 195
Period size: 48 Copynumber: 5.7 Consensus size: 48
76600875 CGAGATGTAA
* *
76600885 GTCAGTGTAAGA-CATGTCTAGGACAT-GCATC-G-AC-TACTAAATGT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTA-TAAAGGT
*
76600929 GTCAGTATAAGACCATGTCTGGGACATGGCATCGGCACGTATAAAGGT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAAAGGT
* * * *
76600977 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGGAT-ATGTGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAAAG-GT
* * * * * *** *
76601025 GAACTAGTGTAAGACCAAGTTTGGGACATGGCGTCGGCCTCG-ATTTCGAT
1 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGTATAAAGGT
* * * ** * *
76601075 AGTCAATGTAAGACCATGTCTGGGACATGACATC-G-ACTTGATGGATGA
1 -GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT-ATAAAGGT
* *
76601123 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGG
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGG
76601158 TATTTACTCT
Statistics
Matches: 179, Mismatches: 36, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
44 11 0.06
45 13 0.07
46 6 0.03
47 32 0.18
48 53 0.30
49 28 0.16
50 31 0.17
51 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAAAGGT
Found at i:76601053 original size:50 final size:48
Alignment explanation
Indices: 76600796--76601157 Score: 169
Period size: 48 Copynumber: 7.6 Consensus size: 48
76600786 TGAGGGCCAA
* * ** *
76600796 TGTAAGACCATGTCTAGAACATGGCATCGGCATTGA-AACAAGAG-CTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACGGATAA-AGGAGAC-AG
* * * ** *
76600844 TGTAAGA-CATGTTTGGGACAT-GTATCGGCCTCGAGATGTA--AGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CACG-GATAAAGGAGACAG
* * * * *
76600890 TGTAAGA-CATGTCTAGGACAT-GCATC-G-AC-TACTAAATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACGGA-TAAAGGAGACAG
* * * *
76600934 TATAAGACCATGTCTGGGACATGGCATCGGCACGTATAAAGGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACGGATAAAGGAGACAG
* *
76600982 TGTAAGACCATGTCTAGGACATGGCATCGGCACGGAT-ATGTGAGAACTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACGGATAAAG-GAG-AC-AG
* * * * *** * * *
76601032 TGTAAGACCAAGTTTGGGACATGGCGTCGGC-CTCGATTTCGATAGTCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATAAAG-GAGACAG
* * ** * *
76601081 TGTAAGACCATGTCTGGGACATGACATC-G-ACTTGATGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATAAAGGAGACAG
*
76601128 TGTAAGACCATGTTTGGGACATGGCATCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGG
76601158 TATTTACTCT
Statistics
Matches: 244, Mismatches: 51, Indels: 38
0.73 0.15 0.11
Matches are distributed among these distances:
41 1 0.00
42 2 0.01
43 1 0.00
44 11 0.05
45 14 0.06
46 38 0.16
47 46 0.19
48 66 0.27
49 29 0.12
50 33 0.14
51 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCACGGATAAAGGAGACAG
Found at i:76602751 original size:25 final size:25
Alignment explanation
Indices: 76602717--76602768 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
76602707 ATATATAAGC
*
76602717 TAGAGTTGTGAGTTATTAAAGTATG
1 TAGACTTGTGAGTTATTAAAGTATG
76602742 TAGACTTGTGAGTTATTAAAGTATG
1 TAGACTTGTGAGTTATTAAAGTATG
76602767 TA
1 TA
76602769 TACGTGAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.02, G:0.25, T:0.40
Consensus pattern (25 bp):
TAGACTTGTGAGTTATTAAAGTATG
Found at i:76602779 original size:25 final size:25
Alignment explanation
Indices: 76602726--76602779 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
76602716 CTAGAGTTGT
* *
76602726 GAGTTATTAAAGTATGTAGACTTGT
1 GAGTTATTAAAGTATGTAGACGTGA
*
76602751 GAGTTATTAAAGTATGTATACGTGA
1 GAGTTATTAAAGTATGTAGACGTGA
76602776 GAGT
1 GAGT
76602780 ATATGCTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (25 bp):
GAGTTATTAAAGTATGTAGACGTGA
Found at i:76614714 original size:5 final size:5
Alignment explanation
Indices: 76614704--76614734 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
76614694 GAGATGGAAT
*
76614704 TCGAA TCGAA TCGAA TCGAA TCAAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
76614735 ATATTTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:76615292 original size:17 final size:17
Alignment explanation
Indices: 76615238--76615299 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 17
76615228 TAAAGGATGA
76615238 GAAGTAAAAGTTTAGGG
1 GAAGTAAAAGTTTAGGG
* *
76615255 GAAAAATAAAAAGTTTTGGG
1 G--AAGT-AAAAGTTTAGGG
76615275 GAA-TAAAAGTTTGAGGG
1 GAAGTAAAAGTTT-AGGG
76615292 GAAGTAAA
1 GAAGTAAA
76615300 TAGGGGGAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 8 0.22
17 8 0.22
18 6 0.16
19 3 0.08
20 12 0.32
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.23
Consensus pattern (17 bp):
GAAGTAAAAGTTTAGGG
Found at i:76615678 original size:9 final size:9
Alignment explanation
Indices: 76615660--76615696 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
76615650 TATAGTTTGA
*
76615660 TATTCAAAT
1 TATTCGAAT
76615669 TATTCGAAT
1 TATTCGAAT
*
76615678 TATTCGAGT
1 TATTCGAAT
76615687 TATTCGAAT
1 TATTCGAAT
76615696 T
1 T
76615697 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:76616336 original size:24 final size:25
Alignment explanation
Indices: 76616308--76616360 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 25
76616298 TTCCAATCAC
76616308 ATAATTTCAACTCACTTAATCAA-T
1 ATAATTTCAACTCACTTAATCAATT
76616332 ATAATTTCAACTCACTTAATCAATT
1 ATAATTTCAACTCACTTAATCAATT
76616357 ATAA
1 ATAA
76616361 CTCACCTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAATTTCAACTCACTTAATCAATT
Found at i:76619556 original size:16 final size:16
Alignment explanation
Indices: 76619537--76619571 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
76619527 TGGTAATTTT
76619537 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
76619553 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
76619569 AAT
1 AAT
76619572 TACAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:76621957 original size:21 final size:21
Alignment explanation
Indices: 76621931--76621976 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
76621921 TGGGTGAGCG
* *
76621931 CACGGGCATTTGGAGTAGTCA
1 CACGGGCATGTGGAGTAGCCA
76621952 CACGGGCATGTGGAGTAGCCA
1 CACGGGCATGTGGAGTAGCCA
76621973 CACG
1 CACG
76621977 ACCATGTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.35, T:0.17
Consensus pattern (21 bp):
CACGGGCATGTGGAGTAGCCA
Found at i:76621982 original size:21 final size:21
Alignment explanation
Indices: 76621941--76621983 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
76621931 CACGGGCATT
* **
76621941 TGGAGTAGTCACACGGGCATG
1 TGGAGTAGCCACACGACCATG
76621962 TGGAGTAGCCACACGACCATG
1 TGGAGTAGCCACACGACCATG
76621983 T
1 T
76621984 CTGGAGCCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.33, T:0.19
Consensus pattern (21 bp):
TGGAGTAGCCACACGACCATG
Found at i:76623620 original size:52 final size:52
Alignment explanation
Indices: 76623541--76623648 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
76623531 TTATTGTCAC
*
76623541 TTTTTACATTGTTCTTTTCTTTTCTTTTCTATTTTTTATAAGGTTGTTATAT
1 TTTTTACATTGTTCTTTTCTTTCCTTTTCTATTTTTTATAAGGTTGTTATAT
*
76623593 TTTTTACATTGTTCTTTTCTTTCCTTTTCTGTTTTTTATAAGGTTGTTATAT
1 TTTTTACATTGTTCTTTTCTTTCCTTTTCTATTTTTTATAAGGTTGTTATAT
76623645 TTTT
1 TTTT
76623649 ATTAAATCAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.14, C:0.10, G:0.08, T:0.68
Consensus pattern (52 bp):
TTTTTACATTGTTCTTTTCTTTCCTTTTCTATTTTTTATAAGGTTGTTATAT
Found at i:76623800 original size:11 final size:11
Alignment explanation
Indices: 76623784--76623816 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
76623774 TTATAATATC
76623784 ATATTTTTATA
1 ATATTTTTATA
76623795 ATATTTTTATA
1 ATATTTTTATA
76623806 AT-TTTGTTATA
1 ATATTT-TTATA
76623817 CCTCTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 3 0.14
11 18 0.86
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
ATATTTTTATA
Found at i:76624690 original size:24 final size:23
Alignment explanation
Indices: 76624663--76624716 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
76624653 TTTTTTAGGA
*
76624663 AATAATTTCTTAAAAATTAAAATT
1 AATAATTTCTCAAAAATT-AAATT
* * *
76624687 AATATAATTCTCATAAATTAACTT
1 AATA-ATTTCTCAAAAATTAAATT
76624711 AATAAT
1 AATAAT
76624717 GATTATGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.04
24 12 0.50
25 11 0.46
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (23 bp):
AATAATTTCTCAAAAATTAAATT
Found at i:76625506 original size:3 final size:3
Alignment explanation
Indices: 76625498--76625525 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
76625488 TATTAATTAT
76625498 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
76625526 ATAAATAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:76626227 original size:36 final size:36
Alignment explanation
Indices: 76626178--76626264 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
76626168 CGGCCATGTT
*
76626178 CACTTCCCGCTTCAATCATCTTGTCCCTATTAACTC
1 CACTTCCCGCTTCAATCATCTCGTCCCTATTAACTC
* ** * *
76626214 CACTTCCCACTTCAATTGTCTCGTCCCTGTTAACTT
1 CACTTCCCGCTTCAATCATCTCGTCCCTATTAACTC
76626250 CACTTCCCGCTTCAA
1 CACTTCCCGCTTCAA
76626265 CCTCTTTCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.18, C:0.39, G:0.07, T:0.36
Consensus pattern (36 bp):
CACTTCCCGCTTCAATCATCTCGTCCCTATTAACTC
Found at i:76631499 original size:31 final size:31
Alignment explanation
Indices: 76631461--76631519 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
76631451 TTTTGAGTTA
* * *
76631461 AATTTGGCCTTTAACTTTTTAAAAAGAGAGG
1 AATTTGGCCATCAACCTTTTAAAAAGAGAGG
76631492 AATTTGGCCATCAACCTTTTAAAAAGAG
1 AATTTGGCCATCAACCTTTTAAAAAGAG
76631520 TTGAATTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (31 bp):
AATTTGGCCATCAACCTTTTAAAAAGAGAGG
Found at i:76631526 original size:31 final size:31
Alignment explanation
Indices: 76631455--76631526 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
76631445 TTAATTTTTT
* * * *
76631455 GAGTTAAATTTGGCCTTTAACTTTTTAAAAA
1 GAGTTGAATTTGGCCATCAACCTTTTAAAAA
**
76631486 GAGAGGAATTTGGCCATCAACCTTTTAAAAA
1 GAGTTGAATTTGGCCATCAACCTTTTAAAAA
76631517 GAGTTGAATT
1 GAGTTGAATT
76631527 GTTATTTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (31 bp):
GAGTTGAATTTGGCCATCAACCTTTTAAAAA
Found at i:76633139 original size:10 final size:10
Alignment explanation
Indices: 76633111--76633140 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
76633101 CTGCATCAGC
*
76633111 AAAAATAAAT
1 AAAAATAATT
76633121 AAAAATAATT
1 AAAAATAATT
76633131 AAAAATAATT
1 AAAAATAATT
76633141 CTAGAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATAATT
Found at i:76637498 original size:27 final size:27
Alignment explanation
Indices: 76637463--76637524 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
76637453 AGCTATCTCT
*
76637463 CTTTAAATTTC-TAGATAGACAATCCCA
1 CTTTTAATTTCTTA-ATAGACAATCCCA
* * *
76637490 TTTTTAATTTCTTAATGGACTATCCCA
1 CTTTTAATTTCTTAATAGACAATCCCA
76637517 CTTTTAAT
1 CTTTTAAT
76637525 GTCCCAATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (27 bp):
CTTTTAATTTCTTAATAGACAATCCCA
Found at i:76637537 original size:27 final size:27
Alignment explanation
Indices: 76637477--76637574 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
76637467 AAATTTCTAG
* * * **
76637477 ATAGACAATCCCATTTTTAATTTCTTA
1 ATAGACTATCCCACTTTTAATGTCCCA
*
76637504 ATGGACTATCCCACTTTTAATGTCCCA
1 ATAGACTATCCCACTTTTAATGTCCCA
** *
76637531 ATAGACTATATCGCTTTTAATGTCCC-
1 ATAGACTATCCCACTTTTAATGTCCCA
*
76637557 ATCAAACTATCCCACTTT
1 AT-AGACTATCCCACTTT
76637575 CCATAACCAA
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 2 0.04
27 54 0.96
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.38
Consensus pattern (27 bp):
ATAGACTATCCCACTTTTAATGTCCCA
Found at i:76638552 original size:17 final size:17
Alignment explanation
Indices: 76638500--76638552 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
76638490 TATGGAAACA
* *
76638500 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
* *
76638517 CAATCGTAGATATGATATG
1 TAATCTTAGA-A-GATATG
76638536 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
76638553 ATTTTGTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:76638552 original size:22 final size:23
Alignment explanation
Indices: 76638524--76638568 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
76638514 ATGCAATCGT
76638524 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
76638546 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
76638569 TATTTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:76639896 original size:39 final size:39
Alignment explanation
Indices: 76639853--76639931 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
76639843 TGTTGGGGGA
*
76639853 AGAAAGTTTGATAATAGTAAGTCTTCTAAGCCTAAGTCG
1 AGAAAGTTTGATAATAGTAAGTCTTCTAAGCCCAAGTCG
*
76639892 AGAAAGTTTGATAATAGTAAGTGTTCTAAGCCCAAGTCG
1 AGAAAGTTTGATAATAGTAAGTCTTCTAAGCCCAAGTCG
76639931 A
1 A
76639932 AACCCAAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.29
Consensus pattern (39 bp):
AGAAAGTTTGATAATAGTAAGTCTTCTAAGCCCAAGTCG
Found at i:76643730 original size:17 final size:17
Alignment explanation
Indices: 76643678--76643730 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
76643668 TATAGAAACA
* *
76643678 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
* *
76643695 CAATCGTAGATATGATATG
1 TAATCTTAGA-A-GATATG
76643714 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
76643731 ATTTTGTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:76643730 original size:22 final size:21
Alignment explanation
Indices: 76643702--76643759 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
76643692 ATGCAATCGT
* *
76643702 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATATTAG
76643723 AAGATATGATTTTGTAATATTAG
1 -AGATATGA-TTTGTAATATTAG
*
76643746 AGATTTGATTTGTA
1 AGATATGATTTGTA
76643760 GATACCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 15 0.47
23 11 0.34
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (21 bp):
AGATATGATTTGTAATATTAG
Found at i:76656839 original size:13 final size:14
Alignment explanation
Indices: 76656806--76656844 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
76656796 AATTATTTAT
* *
76656806 TATTATAAATAGAA
1 TATTATAAAAATAA
76656820 TATTATAAAAATAA
1 TATTATAAAAATAA
76656834 -ATTATAAAAAT
1 TATTATAAAAAT
76656845 TTATTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
TATTATAAAAATAA
Found at i:76680104 original size:49 final size:48
Alignment explanation
Indices: 76679999--76680264 Score: 208
Period size: 46 Copynumber: 5.6 Consensus size: 48
76679989 ACACCGAAGC
* * * * *
76679999 CATGTCCCAGACATGGTTTTAGACTAACTTTCATATATCAAG-GTCGATG
1 CATGTCCCAGACA-GGTCTTACACTAGCTCTCATATATC-AGTGCCGATG
* * * * *
76680048 ACGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTCGATG
1 -CATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCAGTGCCGATG
* * *
76680097 CCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAG-GCTGATG
1 -CATGTCCCAGACAGGTCTTACACTAGCTCT-CATATATC-AGTGCCGATG
* * * *
76680146 CATGTCCTAGACATGTCTTACACTAGCTCTCATCT-T-AATGCCGATG
1 CATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCAGTGCCGATG
* * *
76680192 CATGTCCCTGACATGTCTTACA-TTGACTCTCATA-AT--GTGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTAG-CTCTCATATATCAGT-GCCGATG
*
76680238 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACAGGTCTTACACTAGC
76680265 ACACATATCA
Statistics
Matches: 177, Mismatches: 30, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
45 4 0.02
46 63 0.36
47 3 0.02
48 31 0.18
49 63 0.36
50 13 0.07
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCAGTGCCGATG
Found at i:76680165 original size:97 final size:96
Alignment explanation
Indices: 76679992--76680264 Score: 254
Period size: 92 Copynumber: 2.9 Consensus size: 96
76679982 GGATAAGACA
* * * *
76679992 CCGAAGCCATGTCCCAGACATGGTTTTAGACTAACTTTCATATATCAAGGTCGATGACGTGTCCC
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTAACTTTCATATATCAAGGTCGATGACATGTCCC
* **
76680057 AGACAGGTCTTACACTGGCTCTCATCTATCGGTG
65 AGACAGGTCTTACACTAGCTCTCATCT-T-AATG
* * * *
76680091 TCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGT-ATATCTCGAGG-CTGATG-CATGTCC
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAACTT-TCATATATCAAGGTC-GATGACATGTCC
* *
76680153 TAGACATGTCTTACACTAGCTCTCATCTTAATG
64 CAGACAGGTCTTACACTAGCTCTCATCTTAATG
* * * * * ** *
76680186 CCGATG-CATGTCCCTGACATGTCTTACATTGACTCTCATA-AT-GTGGCCGATG-CATGTCCCA
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGTCGATGACATGTCCCA
*
76680247 GACATGTCTTACACTAGC
66 GACAGGTCTTACACTAGC
76680265 ACACATATCA
Statistics
Matches: 147, Mismatches: 23, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
92 33 0.22
93 3 0.02
94 26 0.18
95 7 0.05
96 1 0.01
97 32 0.22
98 26 0.18
99 19 0.13
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (96 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGTCGATGACATGTCCCA
GACAGGTCTTACACTAGCTCTCATCTTAATG
Found at i:76680949 original size:20 final size:20
Alignment explanation
Indices: 76680924--76680962 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
76680914 AAAATTTCAA
76680924 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
76680944 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
76680963 AATATCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:76687229 original size:26 final size:26
Alignment explanation
Indices: 76687193--76687247 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
76687183 AACATTGTAT
76687193 GATTGTGGGAAAACCTCAATGGGATA
1 GATTGTGGGAAAACCTCAATGGGATA
76687219 GATTGTGGGAAAACCTCAATGGGATA
1 GATTGTGGGAAAACCTCAATGGGATA
76687245 GAT
1 GAT
76687248 GAAGTTAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.31, T:0.24
Consensus pattern (26 bp):
GATTGTGGGAAAACCTCAATGGGATA
Found at i:76687934 original size:28 final size:28
Alignment explanation
Indices: 76687870--76687950 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
76687860 GAAAAGTCTG
*
76687870 TTGGGACAGTAAACACGAA-GAAAGTCCA
1 TTGGGACAGTAAACAC-AAGGTAAGTCCA
****
76687898 TCAAAACAGTAAACACAAGGTAAGTCCA
1 TTGGGACAGTAAACACAAGGTAAGTCCA
**
76687926 TTGGGACAGTAAACACTGGGTAAGT
1 TTGGGACAGTAAACACAAGGTAAGT
76687951 TCGTCAGGAT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 2 0.05
28 39 0.95
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (28 bp):
TTGGGACAGTAAACACAAGGTAAGTCCA
Found at i:76689759 original size:28 final size:28
Alignment explanation
Indices: 76689727--76689794 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
76689717 TTACTAGTAA
*
76689727 ATAAATATTGAAAGGATACAATGAAACC
1 ATAAATAATGAAAGGATACAATGAAACC
*
76689755 ATAAATAAGGAAAGGATACAATGAAACC
1 ATAAATAATGAAAGGATACAATGAAACC
76689783 ATAAATAATGAA
1 ATAAATAATGAA
76689795 GTGCAAGTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.19
Consensus pattern (28 bp):
ATAAATAATGAAAGGATACAATGAAACC
Found at i:76697375 original size:25 final size:25
Alignment explanation
Indices: 76697347--76697397 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
76697337 TATGAGTTAG
*
76697347 CACAATATAGAAACGTAAATGATGT
1 CACAATACAGAAACGTAAATGATGT
*
76697372 CACAATACAGAAATGTAAATGATGT
1 CACAATACAGAAACGTAAATGATGT
76697397 C
1 C
76697398 TTTCGAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.24
Consensus pattern (25 bp):
CACAATACAGAAACGTAAATGATGT
Found at i:76698684 original size:35 final size:35
Alignment explanation
Indices: 76698634--76698706 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
76698624 AGTTTGAGGG
*
76698634 CCAAATTGAGCATTAATCCAATTAATTATCTAAAA
1 CCAAATTGAGAATTAATCCAATTAATTATCTAAAA
76698669 CCAAATTGAGAATTAATCCAATTAATTATCTAAAA
1 CCAAATTGAGAATTAATCCAATTAATTATCTAAAA
76698704 CCA
1 CCA
76698707 TATTTCTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.30
Consensus pattern (35 bp):
CCAAATTGAGAATTAATCCAATTAATTATCTAAAA
Found at i:76700087 original size:42 final size:41
Alignment explanation
Indices: 76699990--76700133 Score: 146
Period size: 42 Copynumber: 3.4 Consensus size: 41
76699980 CAATGTCATG
* *
76699990 TCCCAGATATAGTCTTACATAGAATCTCGTATCGCTGCCAATA
1 TCCCAGATATGGTCTTACA-AGAATCTCGTATCGATGCC-ATA
* * * *
76700033 GCCCAGCTATGGTCTGACACA-AAGTCTTGTATCGATGCCATA
1 TCCCAGATATGGTCTTACA-AGAA-TCTCGTATCGATGCCATA
* * * *
76700075 TCCCAGATATGGTCTTATAAGAAATATCATATCGATGTCATA
1 TCCCAGATATGGTCTTACAAG-AATCTCGTATCGATGCCATA
76700117 TCCCAGATATGGTCTTA
1 TCCCAGATATGGTCTTA
76700134 TACGTAGTCT
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 51 0.61
43 31 0.37
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (41 bp):
TCCCAGATATGGTCTTACAAGAATCTCGTATCGATGCCATA
Found at i:76701066 original size:2 final size:2
Alignment explanation
Indices: 76701061--76701091 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
76701051 TTTTCTTGTT
76701061 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
76701092 TTTCAGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:76701815 original size:17 final size:18
Alignment explanation
Indices: 76701793--76701827 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
76701783 AATTAGGCAA
*
76701793 TGTGGG-CCATACGGGTG
1 TGTGGGCCCACACGGGTG
76701810 TGTGGGCCCACACGGGTG
1 TGTGGGCCCACACGGGTG
76701828 AATCACACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.11, C:0.23, G:0.46, T:0.20
Consensus pattern (18 bp):
TGTGGGCCCACACGGGTG
Found at i:76702431 original size:16 final size:17
Alignment explanation
Indices: 76702410--76702442 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
76702400 GCCCAGACAG
76702410 TATTCTG-ATGCTTGAT
1 TATTCTGTATGCTTGAT
*
76702426 TATTCTGTATGTTTGAT
1 TATTCTGTATGCTTGAT
76702443 ATCTGTGGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (17 bp):
TATTCTGTATGCTTGAT
Found at i:76703788 original size:48 final size:48
Alignment explanation
Indices: 76703734--76703840 Score: 205
Period size: 48 Copynumber: 2.2 Consensus size: 48
76703724 ACGTTTTCAC
76703734 TTATAAAATTCTTTTCATAGATTTCCATCTCAATTATCAACTTATCTT
1 TTATAAAATTCTTTTCATAGATTTCCATCTCAATTATCAACTTATCTT
76703782 TTATAAAATTCTTTTCATAGATTTCCATCTCAATTATCAACTTATCTT
1 TTATAAAATTCTTTTCATAGATTTCCATCTCAATTATCAACTTATCTT
*
76703830 TTATAAGATTC
1 TTATAAAATTC
76703841 CTTTAATCTG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.48
Consensus pattern (48 bp):
TTATAAAATTCTTTTCATAGATTTCCATCTCAATTATCAACTTATCTT
Found at i:76705508 original size:15 final size:15
Alignment explanation
Indices: 76705488--76705539 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
76705478 AATAATTCTT
76705488 AAATAAACTTAAAAA
1 AAATAAACTTAAAAA
* *
76705503 AAATAAACTTTTAATA
1 AAATAAAC-TTAAAAA
*
76705519 TAA-AAACTTAAAAA
1 AAATAAACTTAAAAA
76705533 AAATAAA
1 AAATAAA
76705540 ATTTTAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 7 0.24
15 15 0.52
16 7 0.24
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATAAACTTAAAAA
Found at i:76705526 original size:30 final size:30
Alignment explanation
Indices: 76705492--76705553 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
76705482 ATTCTTAAAT
*
76705492 AAACTTAAAAAAAATAAACTTTTAATATAA
1 AAACTTAAAAAAAATAAAATTTTAATATAA
76705522 AAACTTAAAAAAAATAAAATTTTAATATAA
1 AAACTTAAAAAAAATAAAATTTTAATATAA
76705552 AA
1 AA
76705554 TGTTTTTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (30 bp):
AAACTTAAAAAAAATAAAATTTTAATATAA
Found at i:76715995 original size:37 final size:37
Alignment explanation
Indices: 76715945--76716015 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
76715935 GTAAGAGAGT
*
76715945 CTGTGTGTTGTGTGGAGGTTTTGGGTTCGAATCCAGC
1 CTGTGTGTTGTGTGGAGGTTCTGGGTTCGAATCCAGC
76715982 CTGTGTGTTGTGTGGAGGTTCTGGGTTCGAATCC
1 CTGTGTGTTGTGTGGAGGTTCTGGGTTCGAATCC
76716016 CTGCGCGAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.10, C:0.14, G:0.38, T:0.38
Consensus pattern (37 bp):
CTGTGTGTTGTGTGGAGGTTCTGGGTTCGAATCCAGC
Found at i:76716687 original size:12 final size:12
Alignment explanation
Indices: 76716670--76716711 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
76716660 GTTACACGGC
76716670 CGTGTGGTAGGT
1 CGTGTGGTAGGT
*
76716682 CGTGTGGTAGGC
1 CGTGTGGTAGGT
*
76716694 CATGTGGTAGGT
1 CGTGTGGTAGGT
76716706 CGTGTG
1 CGTGTG
76716712 ATCGATGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.10, C:0.12, G:0.48, T:0.31
Consensus pattern (12 bp):
CGTGTGGTAGGT
Found at i:76718435 original size:26 final size:26
Alignment explanation
Indices: 76718402--76718458 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
76718392 ATTGAAGGAC
*
76718402 TAAATTAGTAAATAAATCATAAGTGA
1 TAAATTAGTAAATAAACCATAAGTGA
76718428 TAAATTAGTAAATAAACCATAAGTGA
1 TAAATTAGTAAATAAACCATAAGTGA
*
76718454 CAAAT
1 TAAAT
76718459 GTATGGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (26 bp):
TAAATTAGTAAATAAACCATAAGTGA
Found at i:76718556 original size:5 final size:5
Alignment explanation
Indices: 76718551--76718613 Score: 99
Period size: 5 Copynumber: 12.6 Consensus size: 5
76718541 TAAAATAATA
* * *
76718551 ATATA ATATT ATATA ATATT ATATA ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
76718601 ATATT ATATT ATA
1 ATATT ATATT ATA
76718614 ATAGTTTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (5 bp):
ATATT
Found at i:76718577 original size:10 final size:10
Alignment explanation
Indices: 76718524--76718613 Score: 103
Period size: 10 Copynumber: 9.0 Consensus size: 10
76718514 AATACATACT
76718524 TAATATT-TA
1 TAATATTATA
76718533 -AATATATATA
1 TAATAT-TATA
* *
76718543 AAATAATAATA
1 TAAT-ATTATA
76718554 TAATATTATA
1 TAATATTATA
76718564 TAATATTATA
1 TAATATTATA
76718574 TAATATTATA
1 TAATATTATA
*
76718584 TTATATTATA
1 TAATATTATA
*
76718594 TTATATTATA
1 TAATATTATA
*
76718604 TTATATTATA
1 TAATATTATA
76718614 ATAGTTTAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
8 5 0.07
9 1 0.01
10 56 0.77
11 9 0.12
12 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TAATATTATA
Found at i:76722854 original size:57 final size:57
Alignment explanation
Indices: 76722766--76722876 Score: 213
Period size: 57 Copynumber: 1.9 Consensus size: 57
76722756 GGGTATGTAA
76722766 GGGTGGCAAAAAGGCTTGGTAAATAGCCTTATTTTGTCCACACGAGTAGACATACGG
1 GGGTGGCAAAAAGGCTTGGTAAATAGCCTTATTTTGTCCACACGAGTAGACATACGG
*
76722823 GGGTGGCAAAGAGGCTTGGTAAATAGCCTTATTTTGTCCACACGAGTAGACATA
1 GGGTGGCAAAAAGGCTTGGTAAATAGCCTTATTTTGTCCACACGAGTAGACATA
76722877 AGGGCGTGTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (57 bp):
GGGTGGCAAAAAGGCTTGGTAAATAGCCTTATTTTGTCCACACGAGTAGACATACGG
Found at i:76724706 original size:18 final size:18
Alignment explanation
Indices: 76724675--76724709 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76724665 CATGTTGTAT
*
76724675 GTTATCATGTGAACCTAC
1 GTTATCATGCGAACCTAC
*
76724693 GTTATTATGCGAACCTA
1 GTTATCATGCGAACCTA
76724710 TGATTGTATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (18 bp):
GTTATCATGCGAACCTAC
Found at i:76724728 original size:43 final size:43
Alignment explanation
Indices: 76724642--76724733 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 43
76724632 GTTACTTTGC
* *
76724642 GAACCTATGTAATTATGCAAACCCATGTTGTATGTTATCATGT
1 GAACCTACGTAATTATGCAAACCCATGTTGTATGTAATCATGT
* * *
76724685 GAACCTACGTTATTATGCGAACCTATGATTGTATG-AAGT-ATGT
1 GAACCTACGTAATTATGCAAACCCATG-TTGTATGTAA-TCATGT
76724728 GAACCT
1 GAACCT
76724734 TTGTTGATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 34 0.81
44 8 0.19
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.35
Consensus pattern (43 bp):
GAACCTACGTAATTATGCAAACCCATGTTGTATGTAATCATGT
Found at i:76726457 original size:6 final size:7
Alignment explanation
Indices: 76726440--76726464 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
76726430 CTCATTTTGA
76726440 AAAAAAT
1 AAAAAAT
76726447 AAAAAAT
1 AAAAAAT
76726454 AAAAAAT
1 AAAAAAT
76726461 AAAA
1 AAAA
76726465 CAACAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:76742418 original size:23 final size:23
Alignment explanation
Indices: 76742385--76742478 Score: 82
Period size: 23 Copynumber: 4.1 Consensus size: 23
76742375 CTCACCACAT
* *
76742385 CTCGTATGAGCTTATTGATTCAG
1 CTCGTAAGAGCTTACTGATTCAG
* *
76742408 CTCGTAAGAGCTTACTGTTTTAG
1 CTCGTAAGAGCTTACTGATTCAG
* ** * *
76742431 CTCATTGGAGCTTACCGATTTAG
1 CTCGTAAGAGCTTACTGATTCAG
* *
76742454 CTCGAAAGAGTTTACTG-TTCAG
1 CTCGTAAGAGCTTACTGATTCAG
76742476 CTC
1 CTC
76742479 AATAGAGCTT
Statistics
Matches: 55, Mismatches: 16, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
22 7 0.13
23 48 0.87
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (23 bp):
CTCGTAAGAGCTTACTGATTCAG
Found at i:76742463 original size:46 final size:45
Alignment explanation
Indices: 76742392--76742489 Score: 115
Period size: 46 Copynumber: 2.2 Consensus size: 45
76742382 CATCTCGTAT
** * * * *
76742392 GAGCTTATTGATTCAGCTCGTAAGAGCTTACTGTTTTAGCTCATTG
1 GAGCTTACCGATTCAGCTCGAAAGAGCTTACTG-TTCAGCTCAATA
* *
76742438 GAGCTTACCGATTTAGCTCGAAAGAGTTTACTGTTCAGCTCAATA
1 GAGCTTACCGATTCAGCTCGAAAGAGCTTACTGTTCAGCTCAATA
76742483 GAGCTTA
1 GAGCTTA
76742490 TTGTTTATCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 16 0.36
46 28 0.64
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (45 bp):
GAGCTTACCGATTCAGCTCGAAAGAGCTTACTGTTCAGCTCAATA
Found at i:76742485 original size:22 final size:22
Alignment explanation
Indices: 76742392--76742494 Score: 66
Period size: 23 Copynumber: 4.5 Consensus size: 22
76742382 CATCTCGTAT
* *
76742392 GAGCTTATTGATTCAGCTCGTAA
1 GAGCTTACTG-TTCAGCTCGAAA
* **
76742415 GAGCTTACTGTTTTAGCTC-ATTG
1 GAGCTTACTG-TTCAGCTCGA-AA
* *
76742438 GAGCTTACCGATTTAGCTCGAAA
1 GAGCTTACTG-TTCAGCTCGAAA
*
76742461 GAGTTTACTGTTCAGCTC-AATA
1 GAGCTTACTGTTCAGCTCGAA-A
*
76742483 GAGCTTATTGTT
1 GAGCTTACTGTT
76742495 TATCAGCTCA
Statistics
Matches: 62, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
21 2 0.03
22 18 0.29
23 41 0.66
24 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCGAAA
Found at i:76749255 original size:19 final size:19
Alignment explanation
Indices: 76749231--76749268 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
76749221 GTATGAAATT
76749231 ATTGTTATGTGGATATGAA
1 ATTGTTATGTGGATATGAA
76749250 ATTGTTATGTGGATATGAA
1 ATTGTTATGTGGATATGAA
76749269 TAACCTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
ATTGTTATGTGGATATGAA
Found at i:76750301 original size:29 final size:29
Alignment explanation
Indices: 76750269--76750361 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
76750259 CACGAAGGTG
* * *
76750269 TCCTTTTAATAGAGATAACCACACATGCA
1 TCCTTTTAATAGAGATAGCCACAAAGGCA
76750298 TCCTTTTGAAT-GAGATAGCCACAAAGGCA
1 TCCTTTT-AATAGAGATAGCCACAAAGGCA
* * *
76750327 TACTTTTTACAGAGATAGCCACAAAGGCA
1 TCCTTTTAATAGAGATAGCCACAAAGGCA
76750356 TCCTTT
1 TCCTTT
76750362 AGACACGAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.02
29 51 0.93
30 3 0.05
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (29 bp):
TCCTTTTAATAGAGATAGCCACAAAGGCA
Found at i:76750434 original size:29 final size:29
Alignment explanation
Indices: 76750374--76750428 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
76750364 ACACGAAGGT
* *
76750374 ATCTTTTTAATAAAGATCGCCACAAAAAC
1 ATCTTTGTAATAAAGATCACCACAAAAAC
76750403 ATCTTTGTAATAAAGATCACCA-AAAA
1 ATCTTTGTAATAAAGATCACCACAAAA
76750429 GCCATCCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.27
Consensus pattern (29 bp):
ATCTTTGTAATAAAGATCACCACAAAAAC
Found at i:76753373 original size:16 final size:18
Alignment explanation
Indices: 76753352--76753384 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
76753342 TCATCAATTT
76753352 ATATTC-ATAT-ATATAA
1 ATATTCAATATCATATAA
76753368 ATATTCAATATCATATA
1 ATATTCAATATCATATA
76753385 GCATAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTCAATATCATATAA
Found at i:76753408 original size:19 final size:20
Alignment explanation
Indices: 76753370--76753408 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
76753360 ATATATAAAT
*
76753370 ATTCAATATCATATAGCATA
1 ATTCAATATCACATAGCATA
*
76753390 ATTC-ATATCACATATCATA
1 ATTCAATATCACATAGCATA
76753409 TATTAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.36
Consensus pattern (20 bp):
ATTCAATATCACATAGCATA
Found at i:76754434 original size:14 final size:13
Alignment explanation
Indices: 76754415--76754445 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
76754405 AAATTATAAT
76754415 TTAATTAATCTTAA
1 TTAATTAAT-TTAA
76754429 TTAATTAATTTAA
1 TTAATTAATTTAA
76754442 TTAA
1 TTAA
76754446 AACATTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAATTAATTTAA
Found at i:76763885 original size:46 final size:48
Alignment explanation
Indices: 76763835--76763924 Score: 123
Period size: 46 Copynumber: 1.9 Consensus size: 48
76763825 TGTATCGTCC
76763835 ACGAGACG-TAAGCCAATGTAAGA-CATGTCTGGGACAT-GCATCAGCT
1 ACGAGACGAT-AGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCT
* * *
76763881 ACGAGATGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 ACGAGACGATAGCCAATGTAAGACCATGTCTGGGACATGGCATC
76763925 GACTTAAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 18 0.47
47 15 0.39
48 5 0.13
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (48 bp):
ACGAGACGATAGCCAATGTAAGACCATGTCTGGGACATGGCATCAGCT
Found at i:76763945 original size:47 final size:46
Alignment explanation
Indices: 76763709--76763970 Score: 144
Period size: 47 Copynumber: 5.6 Consensus size: 46
76763699 TGTGTGAGCT
* * * *
76763709 AGTGCAAGACATGTCTGGGACAT-GCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCTACA-GATGATAGCC
* ** ** * ** *
76763755 AGTGTAAGACCATGTCTTGGACATGGCATTGGCGTTGAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAGC-TACAGATGATAGCC
* * ** * * * *
76763803 AGTGTAAGAAATGTGTGATACGT-GTATC-GTCCACGAGACG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAG-CTAC-AGATGAT-AGCC
* *
76763849 AATGTAAGACATGTCTGGGACAT-GCATCAGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCTAC-AGATGATAGCC
76763895 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTA-AGAT-ATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAG-C-TACAGATGAT-AGCC
*
76763942 AGTGTAAGACAGTGTCTAGGACATGGCAT
1 AGTGTAAGACA-TGTCTGGGACATGGCAT
76763971 TGGCACCTTA
Statistics
Matches: 164, Mismatches: 38, Indels: 27
0.72 0.17 0.12
Matches are distributed among these distances:
45 1 0.01
46 63 0.38
47 70 0.43
48 27 0.16
49 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCTACAGATGATAGCC
Found at i:76774699 original size:20 final size:20
Alignment explanation
Indices: 76774669--76774709 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
76774659 AAGTTGTTTA
*
76774669 TCTATCTACAACCTTTCATTT
1 TCTATCTACAA-ATTTCATTT
76774690 TCTA-CTACAAATTTCATTT
1 TCTATCTACAAATTTCATTT
76774709 T
1 T
76774710 TTCAGCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (20 bp):
TCTATCTACAAATTTCATTT
Found at i:76777653 original size:5 final size:5
Alignment explanation
Indices: 76777643--76777668 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
76777633 GAATATGAAT
76777643 TGAGA TGAGA TGAGA TGAGA TGAGA T
1 TGAGA TGAGA TGAGA TGAGA TGAGA T
76777669 AACATGTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (5 bp):
TGAGA
Found at i:76781113 original size:21 final size:21
Alignment explanation
Indices: 76781063--76781114 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
76781053 AACAATCAAA
* * *
76781063 CAATCATACATTTTTCATATT
1 CAATCATAAATTATTCACATT
76781084 CAAAT-ATAAATTATTCACATT
1 C-AATCATAAATTATTCACATT
76781105 CAATCATAAA
1 CAATCATAAA
76781115 GTCTCTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 3 0.12
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.38
Consensus pattern (21 bp):
CAATCATAAATTATTCACATT
Found at i:76785553 original size:119 final size:119
Alignment explanation
Indices: 76785166--76785999 Score: 1436
Period size: 119 Copynumber: 7.0 Consensus size: 119
76785156 CTTGAGTCTG
* * *
76785166 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCATGTAAACACAAGAATAT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* * *
76785231 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATG
66 CAAATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
* * * * *
76785286 TCTGAGAACATCTGACAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATAT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* * * *
76785351 CAGATCATCTTGGATCTTGCTTCAGTATAAACATCTGCAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
*
76785406 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
76785471 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
* *
76785525 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
76785590 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
*
76785644 TTTGAAAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAA-AATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
76785708 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
76785762 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* *
76785827 CAAATCATCTTGGATCTACTTCAGTATAAATATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
76785881 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
76785946 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTTCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
76786000 CTGCAGCCAA
Statistics
Matches: 686, Mismatches: 27, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
118 116 0.17
119 383 0.56
120 187 0.27
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
Found at i:76785794 original size:237 final size:238
Alignment explanation
Indices: 76785166--76785999 Score: 1445
Period size: 237 Copynumber: 3.5 Consensus size: 238
76785156 CTTGAGTCTG
* * *
76785166 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCATGTAAACACAAGAATAT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* * * *
76785231 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTCTGAGAACA
66 CAAATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACA
* * * *
76785296 TCTGACAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCAGATCATCT
130 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
* * *
76785361 TGGATCTTGCTTCAGTATAAACATCTGCAGGTTAGATCTGCTATA
195 TGGATC-TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
*
76785406 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
76785471 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACAT
*
76785536 CTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
131 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
76785601 GGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
196 GGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
*
76785644 TTTGAAAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAA-AATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
76785708 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACAT
*
76785773 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTT
131 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
* *
76785838 GGATCTACTTCAGTATAAATATCTGAAAGCTAGATCTGCTATA
196 GGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
76785881 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
76785946 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTTCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
76786000 CTGCAGCCAA
Statistics
Matches: 567, Mismatches: 26, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
237 231 0.41
238 149 0.26
239 110 0.19
240 77 0.14
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (238 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACAT
CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
GGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
Found at i:76785822 original size:356 final size:358
Alignment explanation
Indices: 76785166--76785999 Score: 1438
Period size: 356 Copynumber: 2.3 Consensus size: 358
76785156 CTTGAGTCTG
* * *
76785166 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCATGTAAACACAAGAATAT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* * * *
76785231 CAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCCATGTCTGAGAACA
66 CAAATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATCTGAAAACA
* * *
76785296 TCTGACAGTCAAATCTGCTATGTCCTTGATTTGTTCCTTGTAAACACAAGAATATCAGATCATCT
130 TCTGACAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCT
* * * *
76785361 TGGATCTTGCTTCAGTATAAACATCTGCAGGTTAGATCTGCTATATTTGAGAACATCTGAGAGTC
195 TGGATCTTACTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTGAGAGTC
*
76785426 AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCT
260 AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTACT
76785491 TCAGTATAAACATCTGAAAGCTAGATCTGCTATA
325 TCAGTATAAACATCTGAAAGCTAGATCTGCTATA
* *
76785525 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
76785590 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAAAACAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATCTGAAAACAT
* *
76785655 CTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAA-AATACCAAATCATCTT
131 CTGACAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
76785719 GGATC-TACTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTGAGAGTCA
196 GGATCTTACTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTGAGAGTCA
*
76785783 AATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTACTT
261 AATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTACTT
*
76785848 CAGTATAAATATCTGAAAGCTAGATCTGCTATA
326 CAGTATAAACATCTGAAAGCTAGATCTGCTATA
76785881 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
76785946 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTTCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
76786000 CTGCAGCCAA
Statistics
Matches: 450, Mismatches: 25, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
356 266 0.59
357 19 0.04
358 89 0.20
359 76 0.17
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (358 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATCTGAAAACAT
CTGACAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTT
GGATCTTACTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTGAGAGTCA
AATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTACTT
CAGTATAAACATCTGAAAGCTAGATCTGCTATA
Found at i:76795779 original size:30 final size:30
Alignment explanation
Indices: 76795745--76795805 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
76795735 TCCTTAACTC
76795745 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
76795775 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
76795805 A
1 A
76795806 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:76801858 original size:18 final size:17
Alignment explanation
Indices: 76801832--76801876 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
76801822 TAAGGATAAA
*
76801832 AATAAATATCAATATATAT
1 AATAAATAT--ATATATAG
76801851 AA-AAATATATATATAG
1 AATAAATATATATATAG
76801867 AATAAATATA
1 AATAAATATA
76801877 GGACTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 9 0.38
17 7 0.29
18 6 0.25
19 2 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAAATATATATATAG
Found at i:76804503 original size:17 final size:16
Alignment explanation
Indices: 76804459--76804505 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
76804449 GTTTTATTAA
76804459 TTTATCAATTAATTACC
1 TTTAT-AATTAATTACC
*
76804476 TATT-TACTTAATTAACC
1 T-TTATAATTAATT-ACC
76804493 TTTATAATTAATT
1 TTTATAATTAATT
76804506 CAAATTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 9 0.36
17 14 0.56
18 2 0.08
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTATAATTAATTACC
Found at i:76814609 original size:23 final size:22
Alignment explanation
Indices: 76814574--76814617 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
76814564 TCTCAATTCA
*
76814574 TAAATAAATTCATACCAAAACT
1 TAAATAAAATCATACCAAAACT
*
76814596 TAAATTAAAATCATACCTAAAC
1 TAAA-TAAAATCATACCAAAAC
76814618 ATAAGACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAATAAAATCATACCAAAACT
Found at i:76824433 original size:25 final size:26
Alignment explanation
Indices: 76824394--76824444 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
76824384 ATAGTAAATC
*
76824394 AAATCAATCATACACAAAATCCCCGA
1 AAATCAATCAAACACAAAATCCCCGA
*
76824420 AAAT-AATCAAACACAAACTCCCCGA
1 AAATCAATCAAACACAAAATCCCCGA
76824445 CAATGGCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.51, C:0.31, G:0.04, T:0.14
Consensus pattern (26 bp):
AAATCAATCAAACACAAAATCCCCGA
Found at i:76827654 original size:42 final size:42
Alignment explanation
Indices: 76827608--76827726 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 42
76827598 CGTTGATATG
*
76827608 AGATTTCATGTAAGACCACGTTTGGGACATGGCATCGAAATA
1 AGATTTCATGTAAGACCACGTCTGGGACATGGCATCGAAATA
* * * * * *** *
76827650 AGATTTTCGTATAAGACCA-ATCTGGGATATAGCATCGGTGTG
1 AGA-TTTCATGTAAGACCACGTCTGGGACATGGCATCGAAATA
* **
76827692 AGATTCCATGTAAGATTACGTCTGGGACATGGCAT
1 AGATTTCATGTAAGACCACGTCTGGGACATGGCAT
76827727 TGGCATCTTA
Statistics
Matches: 57, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
41 10 0.18
42 34 0.60
43 13 0.23
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
AGATTTCATGTAAGACCACGTCTGGGACATGGCATCGAAATA
Found at i:76829002 original size:17 final size:19
Alignment explanation
Indices: 76828960--76829003 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
76828950 ACGAAATTTT
*
76828960 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
76828979 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
76828997 AA-TATTA
1 AATTATTA
76829004 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:76831515 original size:60 final size:60
Alignment explanation
Indices: 76831436--76831572 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 60
76831426 AACTATGTTA
* *
76831436 ATATGGGC-AAGGCCTAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * * *
76831496 ATATGGGCTAA-GCCCAATATACTCTGATACTGTAAGGGGTTATGGCCCAGATTAATATTG
1 ATATGGGCTAAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
76831556 ATATGGGCTAAGGCCCA
1 ATATGGGCTAAGGCCCA
76831573 GTTAACACTG
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
59 1 0.02
60 50 0.76
61 15 0.23
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (60 bp):
ATATGGGCTAAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:76843801 original size:29 final size:29
Alignment explanation
Indices: 76843762--76843849 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
76843752 CAAAGATAAC
*
76843762 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
76843791 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
76843820 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
76843850 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:76843820 original size:15 final size:15
Alignment explanation
Indices: 76843762--76843840 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
76843752 CAAAGATAAC
*
76843762 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
76843776 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
76843791 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
76843805 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
76843820 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
76843835 AAGAAA
1 AAGAAA
76843841 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Done.