Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 264 of 284
Found at i:88795160 original size:47 final size:47
Alignment explanation
Indices: 88795082--88795429 Score: 570
Period size: 47 Copynumber: 7.4 Consensus size: 47
88795072 CCCTTCGGGA
* * * * * * *
88795082 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88795129 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88795176 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88795223 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88795270 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88795317 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88795364 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTATGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88795411 CTTATCACATATATACACT
1 CTTATCACATATATACACT
88795430 GTCTTGGCTG
Statistics
Matches: 283, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 283 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88797698 original size:59 final size:58
Alignment explanation
Indices: 88797607--88797723 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 58
88797597 CCACTACTAG
88797607 ATGGGGGGGGGGAATGACATGCAAGTCCCCCCTTTTTCAACATGCACTAATAGGTCCT
1 ATGGGGGGGGGGAATGACATGCAAGTCCCCCCTTTTTCAACATGCACTAATAGGTCCT
88797665 ATGGGGGGGGGGAAATTGA-ATGCAAGTCCCCCCTTTTTCAACATGCACTAATAGGTCCT
1 ATGGGGGGGGGG-AA-TGACATGCAAGTCCCCCCTTTTTCAACATGCACTAATAGGTCCT
88797724 TATGTTTTGA
Statistics
Matches: 57, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
58 12 0.21
59 42 0.74
60 3 0.05
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (58 bp):
ATGGGGGGGGGGAATGACATGCAAGTCCCCCCTTTTTCAACATGCACTAATAGGTCCT
Found at i:88799462 original size:103 final size:103
Alignment explanation
Indices: 88799340--88799545 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 103
88799330 TTCAACAGGA
* *
88799340 TTGTCCAAGGTGCAGTGCTAAAAGAGAAACGCTTATTCACACCCTCAAAATATTGCCTTACAGCG
1 TTGTCCAAGGTGCACTGCTAAAAGAGAAACGCTTATTCACACCCTCAAAATATTGCCTAACAGCG
88799405 AGTGCCTCCTTTCCATTAGTGGCATAGACATCAGGCTT
66 AGTGCCTCCTTTCCATTAGTGGCATAGACATCAGGCTT
*
88799443 TTGTCCAAGGTGCACTGCTAAAAGAGAAACGCTTATTCACTCCCTCAAAATATTGCCTAACAGCG
1 TTGTCCAAGGTGCACTGCTAAAAGAGAAACGCTTATTCACACCCTCAAAATATTGCCTAACAGCG
88799508 AGTGCCTCCTTTCCATTAGTGGCATAGACATCAGGCTT
66 AGTGCCTCCTTTCCATTAGTGGCATAGACATCAGGCTT
88799546 CTTACTAAAG
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (103 bp):
TTGTCCAAGGTGCACTGCTAAAAGAGAAACGCTTATTCACACCCTCAAAATATTGCCTAACAGCG
AGTGCCTCCTTTCCATTAGTGGCATAGACATCAGGCTT
Found at i:88817200 original size:46 final size:45
Alignment explanation
Indices: 88817133--88818054 Score: 206
Period size: 47 Copynumber: 19.7 Consensus size: 45
88817123 AACCCGCCCC
* *
88817133 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCA
* *
88817179 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817227 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCA
* *
88817272 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817320 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817367 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817414 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817461 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817508 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817555 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817602 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817649 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817696 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817743 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817790 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817837 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817884 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* * * *
88817931 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCA
* *
88817976 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCA
88818022 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
88818055 ATGCTCAACC
Statistics
Matches: 837, Mismatches: 24, Indels: 30
0.94 0.03 0.03
Matches are distributed among these distances:
43 12 0.01
44 2 0.00
45 4 0.00
46 133 0.16
47 667 0.80
48 5 0.01
49 2 0.00
50 9 0.01
51 3 0.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCA
Found at i:88817245 original size:47 final size:47
Alignment explanation
Indices: 88817184--88817963 Score: 1460
Period size: 47 Copynumber: 16.6 Consensus size: 47
88817174 ATCCATAAGT
88817184 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
88817231 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--TTCA-C
88817277 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817324 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817371 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817418 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817465 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817512 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817559 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817606 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817653 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817700 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817747 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817794 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817841 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817888 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
88817935 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
88817964 CATTTGCATC
Statistics
Matches: 716, Mismatches: 10, Indels: 14
0.97 0.01 0.02
Matches are distributed among these distances:
43 6 0.01
44 1 0.00
45 2 0.00
46 29 0.04
47 669 0.93
48 2 0.00
49 1 0.00
50 6 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:88818512 original size:30 final size:30
Alignment explanation
Indices: 88818478--88818534 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
88818468 ATTTAATACG
88818478 AACTTTGGAAAAATTACACTTTTGCCCTTA
1 AACTTTGGAAAAATTACACTTTTGCCCTTA
* * *
88818508 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAATTACACTTTTGCCC
88818535 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCTTA
Found at i:88822328 original size:45 final size:44
Alignment explanation
Indices: 88822155--88822391 Score: 282
Period size: 43 Copynumber: 5.4 Consensus size: 44
88822145 GGCATTTCGT
*
88822155 CTGCTAGGCTCGAA-GCCCGATATTATTTCACCGGTATTATAGC
1 CTGCTAGGCTCGAAGGCCCGATATTATTTCACCGGCATTATAGC
* * *
88822198 TTGCTAGGCTCG-AGGCCCGATATTATTTCACTGGTATTATAGC
1 CTGCTAGGCTCGAAGGCCCGATATTATTTCACCGGCATTATAGC
* * *
88822241 CTGCTAGGCTTG-AGACCCGATATTATTTCACCGACATTATAGC
1 CTGCTAGGCTCGAAGGCCCGATATTATTTCACCGGCATTATAGC
* * *
88822284 CTGCTAGTCTCGAAGGCCCGAATAATATCTCACCGGCATTATAGC
1 CTGCTAGGCTCGAAGGCCCG-ATATTATTTCACCGGCATTATAGC
* * * * * *
88822329 CTGCTAGGCTTGAAGGCCTGAATAGTATCTCACCAGCATCATAGC
1 CTGCTAGGCTCGAAGGCCCG-ATATTATTTCACCGGCATTATAGC
*
88822374 CTGCTAGGCTCAAAGGCC
1 CTGCTAGGCTCGAAGGCC
88822392 AGAATAGTAC
Statistics
Matches: 169, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 86 0.51
44 6 0.04
45 76 0.45
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (44 bp):
CTGCTAGGCTCGAAGGCCCGATATTATTTCACCGGCATTATAGC
Found at i:88831473 original size:42 final size:42
Alignment explanation
Indices: 88831414--88831532 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
88831404 TTAGGGTTAC
*
88831414 TGAGATTACGTGTAAGACTATATCTGGGATATGGAATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCGATA
* * *
88831456 TGAGACTT-CGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATA-TGGAATCGATA
* * *
88831499 CGAGATTACATGTAAGACCATATCTGGGACATGG
1 TGAGATTACGTGTAAGACCATATCTGGGATATGG
88831533 CATTGGTACG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCGATA
Found at i:88838258 original size:43 final size:43
Alignment explanation
Indices: 88838205--88838371 Score: 228
Period size: 43 Copynumber: 3.9 Consensus size: 43
88838195 GAATTATGTA
*
88838205 ATCTGAACTCATTGAGTTGGTCTGAGTTTATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGGTCTGAGTTCATGATATATGTGAC
*
88838248 ATCTGAACTCATTGAGTTGGTGTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGGTCTGAGTTCATGATATATGTGAC
* * * * *
88838291 ATCTGAACTCATTGAGTTGGTCTAATTTAAAGATAGATGTGAC
1 ATCTGAACTCATTGAGTTGGTCTGAGTTCATGATATATGTGAC
* * *
88838334 A-CTCGAACGCATTGAGTTTGTCTGAGTTCGTGATATAT
1 ATCT-GAACTCATTGAGTTGGTCTGAGTTCATGATATAT
88838372 ATATGACATA
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
42 2 0.02
43 105 0.98
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (43 bp):
ATCTGAACTCATTGAGTTGGTCTGAGTTCATGATATATGTGAC
Found at i:88843851 original size:93 final size:93
Alignment explanation
Indices: 88843692--88843869 Score: 347
Period size: 93 Copynumber: 1.9 Consensus size: 93
88843682 ATGCAATCCA
*
88843692 GTGCAGATTTATCCTTAGAACAATGGTAAAACCCGAATCCAAGGGTTGAAGAAGTTTCGGCTATA
1 GTGCAGATTTATCCTTAGAACAATGGTAAAACCCGAATCCAAGGGTTGAAGAAGTTTCAGCTATA
88843757 AGCCCCTAAACCAATGGTACATAATCAG
66 AGCCCCTAAACCAATGGTACATAATCAG
88843785 GTGCAGATTTATCCTTAGAACAATGGTAAAACCCGAATCCAAGGGTTGAAGAAGTTTCAGCTATA
1 GTGCAGATTTATCCTTAGAACAATGGTAAAACCCGAATCCAAGGGTTGAAGAAGTTTCAGCTATA
88843850 AGCCCCTAAACCAATGGTAC
66 AGCCCCTAAACCAATGGTAC
88843870 TTTCGGCTTT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 84 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (93 bp):
GTGCAGATTTATCCTTAGAACAATGGTAAAACCCGAATCCAAGGGTTGAAGAAGTTTCAGCTATA
AGCCCCTAAACCAATGGTACATAATCAG
Found at i:88845915 original size:73 final size:72
Alignment explanation
Indices: 88845824--88845968 Score: 245
Period size: 73 Copynumber: 2.0 Consensus size: 72
88845814 AAGGTAACCC
* *
88845824 ACTCACAAAGTCCATTGTTACTCTTTCCCACTTCCATAGCGGAATTTTCACAGGTTGCAGTAATC
1 ACTCACAAAGTCCATTGTTACTCTTTCCCACTTCCATAACGGAATTTTCACAGGTTGCAATAATC
88845889 CCGAAGG
66 CCGAAGG
* *
88845896 NACTCACAAAGTCCATTGTTTCTCTTTCCCACTTCCATAATGGAATTTTCACAGGTTGCAATAAT
1 -ACTCACAAAGTCCATTGTTACTCTTTCCCACTTCCATAACGGAATTTTCACAGGTTGCAATAAT
88845961 CCCGAAGG
65 CCCGAAGG
88845969 CAATTGGTGC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (72 bp):
ACTCACAAAGTCCATTGTTACTCTTTCCCACTTCCATAACGGAATTTTCACAGGTTGCAATAATC
CCGAAGG
Found at i:88857220 original size:43 final size:43
Alignment explanation
Indices: 88857163--88857276 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 43
88857153 GAATTATGTA
* * *
88857163 ATCTGAACTCATTGAGTTGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGGTCTGAGTTCAGGAAATATATGAC
* *
88857206 ATCTGAACTTATTGAGTTGGTCTGAGTTTAGGAAATATATGAC
1 ATCTGAACTCATTGAGTTGGTCTGAGTTCAGGAAATATATGAC
* ** *
88857249 ACCCAAACTCATTGAGTAGGTCTGAGTT
1 ATCTGAACTCATTGAGTTGGTCTGAGTT
88857277 TGTGGTATAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (43 bp):
ATCTGAACTCATTGAGTTGGTCTGAGTTCAGGAAATATATGAC
Found at i:88857289 original size:45 final size:43
Alignment explanation
Indices: 88857168--88857294 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 43
88857158 ATGTAATCTG
* * * **
88857168 AACTCATTGAGTTGGTCTGAGTTCAT-GATATATGTGACATCTG
1 AACTCATTGAGTTGGTCTGAGTT-TTGGATATATATGACACCCA
* * *
88857211 AACTTATTGAGTTGGTCTGAGTTTAGGAAATATATGACACCCA
1 AACTCATTGAGTTGGTCTGAGTTTTGGATATATATGACACCCA
*
88857254 AACTCATTGAGTAGGTCTGAGTTTGTGGTATATATATGACA
1 AACTCATTGAGTTGGTCTGAGTTT-TGG-ATATATATGACA
88857295 TATGTTTTGG
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 56 0.81
44 2 0.03
45 11 0.16
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (43 bp):
AACTCATTGAGTTGGTCTGAGTTTTGGATATATATGACACCCA
Found at i:88860053 original size:43 final size:42
Alignment explanation
Indices: 88859955--88860075 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
88859945 TAGGGTTACT
* *
88859955 GAGATTATGTGTAAGACCATATCTGGGATATGGCATCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
* *
88859997 GAGACTT-CGTGTAAGACTATAGT-TGGGCTATTGGCATCGATAC
1 GAGA-TTACGTGTAAGACCATA-TCTGGGATA-TGGCATCGATAC
* *
88860040 GAGATTACATGTAAGACCATATCTAGGATATGGCAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCAT
88860076 TGGTACGGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.30
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:88860736 original size:27 final size:27
Alignment explanation
Indices: 88860701--88860756 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
88860691 CAGAAACAAT
* *
88860701 ATCAAGT-GGCCTTAGCCCATTAACAGA
1 ATCAAGTGGGCCTAAGCCCAAT-ACAGA
*
88860728 ATCAGGTGGGCCTAAGCCCAATACAGA
1 ATCAAGTGGGCCTAAGCCCAATACAGA
88860755 AT
1 AT
88860757 TAGTATCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (27 bp):
ATCAAGTGGGCCTAAGCCCAATACAGA
Found at i:88867253 original size:27 final size:27
Alignment explanation
Indices: 88867223--88867443 Score: 187
Period size: 27 Copynumber: 8.1 Consensus size: 27
88867213 ATGCCCCTGG
* *
88867223 TTTGTAAAATTACCAAAATACCCTTAA
1 TTTGGAAAATTACCAAAATACCCTTGA
*
88867250 TTTGTG-AAATTACCAAAATACCCTCGA
1 TTTG-GAAAATTACCAAAATACCCTTGA
** * * *
88867277 CCTGGAAAATTATCGAAATACCCTCGA
1 TTTGGAAAATTACCAAAATACCCTTGA
* * *
88867304 TTTGTAAAAATTACCAAAATACCCCTAA
1 TTTG-GAAAATTACCAAAATACCCTTGA
*
88867332 TTTGGAAAATTACCGAAATACCCTTGA
1 TTTGGAAAATTACCAAAATACCCTTGA
*
88867359 TTTGGAAAATTA-CAGAGATACCCTTGA
1 TTTGGAAAATTACCA-AAATACCCTTGA
** * * *
88867386 CTTTCAAAAATTA-CAGAATACCATTGG
1 -TTTGGAAAATTACCAAAATACCCTTGA
* * * *
88867413 TTTGCAAAATTATCGAAATACCCTTGG
1 TTTGGAAAATTACCAAAATACCCTTGA
88867440 TTTG
1 TTTG
88867444 TAGGTTTACT
Statistics
Matches: 156, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 12 0.08
27 111 0.71
28 33 0.21
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.30
Consensus pattern (27 bp):
TTTGGAAAATTACCAAAATACCCTTGA
Found at i:88867338 original size:55 final size:54
Alignment explanation
Indices: 88867223--88867371 Score: 183
Period size: 55 Copynumber: 2.7 Consensus size: 54
88867213 ATGCCCCTGG
* * * * *
88867223 TTTGTAAAATTACCAAAATACCCTTAATTTGTGAAATTACCAAAATACCCTCGA
1 TTTGGAAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCAA
** * *
88867277 CCTGGAAAATTATCGAAATACCCTCGATTTGTAAAAATTACCAAAATACCC-CTAA
1 TTTGGAAAATTACCGAAATACCCTTGATTTGT-AAAATTACCAAAATACCCTC-AA
*
88867332 TTTGGAAAATTACCGAAATACCCTTGATTTGGAAAATTAC
1 TTTGGAAAATTACCGAAATACCCTTGATTTGTAAAATTAC
88867372 AGAGATACCC
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
54 34 0.43
55 45 0.57
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
TTTGGAAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCAA
Found at i:88867351 original size:82 final size:83
Alignment explanation
Indices: 88867223--88867436 Score: 242
Period size: 82 Copynumber: 2.6 Consensus size: 83
88867213 ATGCCCCTGG
*
88867223 TTTGT-AAAATTACCAAAATACCCTTAATTTGTG-AAATTACCAAAATACCCTCGACCTGGAAAA
1 TTTGTAAAAATTACCAAAATACCCTTAATTTG-GAAAATTACCGAAATACCCTCGACCTGGAAAA
88867286 TTATC-GAAATACCCTCGA-
65 TTA-CAGAAATACCCTCGAC
* * **
88867304 TTTGTAAAAATTACCAAAATACCCCTAATTTGGAAAATTACCGAAATACCCTTGATTTGGAAAAT
1 TTTGTAAAAATTACCAAAATACCCTTAATTTGGAAAATTACCGAAATACCCTCGACCTGGAAAAT
* *
88867369 TACAGAGATACCCTTGAC
66 TACAGAAATACCCTCGAC
* * * ** * *
88867387 TTT-CAAAAATTA-CAGAATACCATTGGTTTGCAAAATTATCGAAATACCCT
1 TTTGTAAAAATTACCAAAATACCCTTAATTTGGAAAATTACCGAAATACCCT
88867437 TGGTTTGTAG
Statistics
Matches: 114, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
81 38 0.33
82 73 0.64
83 3 0.03
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (83 bp):
TTTGTAAAAATTACCAAAATACCCTTAATTTGGAAAATTACCGAAATACCCTCGACCTGGAAAAT
TACAGAAATACCCTCGAC
Found at i:88868217 original size:22 final size:22
Alignment explanation
Indices: 88868173--88868217 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
88868163 ATTGTTGCAA
* *
88868173 TGTTTACGGCTATGTGCTGTCC
1 TGTTTACGGCTATGAGCTATCC
88868195 TGTTTACGGCCT-TGAGCTATCC
1 TGTTTACGG-CTATGAGCTATCC
88868217 T
1 T
88868218 ATTGAAGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.40
Consensus pattern (22 bp):
TGTTTACGGCTATGAGCTATCC
Found at i:88874562 original size:40 final size:41
Alignment explanation
Indices: 88874426--88874566 Score: 161
Period size: 36 Copynumber: 3.6 Consensus size: 41
88874416 GTGCTCAGAA
*
88874426 GAGCCATACCTACTGAATCTATTGAAACGTA-AGCGCTTTT
1 GAGCCATACCTACTGAATCTACTGAAACGTATAGCGCTTTT
* *
88874466 GAGCC--A--TACTGAATCTATTGAAATGTAT-GCGCTTTT
1 GAGCCATACCTACTGAATCTACTGAAACGTATAGCGCTTTT
* * * *
88874502 GATGCCACACCTACAGAATCTACTGAAACATATAG-GCTTGT
1 GA-GCCATACCTACTGAATCTACTGAAACGTATAGCGCTTTT
88874543 GAGCCATACCTACTGAATCTACTG
1 GAGCCATACCTACTGAATCTACTG
88874567 GAAAGAATAC
Statistics
Matches: 86, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
36 30 0.35
37 3 0.03
38 1 0.01
39 1 0.01
40 25 0.29
41 25 0.29
42 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (41 bp):
GAGCCATACCTACTGAATCTACTGAAACGTATAGCGCTTTT
Found at i:88882692 original size:37 final size:37
Alignment explanation
Indices: 88882639--88882776 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
88882629 CGAATAGTCC
* *
88882639 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
88882676 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
88882713 CCACATGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
88882750 CCACACGTAGTCATCGAGTCTTACCCG
1 CCACACGTAGTCATCGGGTCTTACCCG
88882777 AATATATTTC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:88882976 original size:48 final size:48
Alignment explanation
Indices: 88882918--88884119 Score: 2152
Period size: 48 Copynumber: 25.0 Consensus size: 48
88882908 ATATACACAC
*
88882918 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
88882966 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
88883014 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
88883062 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAAATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
88883110 AACTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
88883158 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
88883206 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
88883254 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
88883302 ATCCCATACATATTTCACACTTGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
88883350 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
88883398 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
88883446 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
88883494 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
88883542 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
88883590 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
88883638 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
88883686 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
88883734 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAAATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
88883782 AACTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
88883830 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
88883878 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
88883926 ATCCCATACATATTTCACACTTGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
88883974 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATACACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
88884022 ATCTCATATATATTTCACATTAGCTATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
88884070 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
88884118 AT
1 AT
88884120 ATTTATCTTG
Statistics
Matches: 1117, Mismatches: 37, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 1117 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:88888135 original size:40 final size:40
Alignment explanation
Indices: 88888076--88888297 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
88888066 TATTTGGATG
* * *
88888076 ATATCCGGGCTAAGTCCCGAAGGCATTTGGGCTAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCT
* *
88888116 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCT
*
88888156 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCT
* * *
88888196 ATATCCGGGCTAAGTCCCGAAGGCATTTGGGCCT-GTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTG-CTAGTTGCT
* *
88888236 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCT
*
88888276 TTATCC-GGCTAA-ATCCCGAAGG
1 ATATCCGGGCTAAGA-CCCGAAGG
88888298 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 15 0.09
40 145 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGCT
Found at i:88890017 original size:43 final size:43
Alignment explanation
Indices: 88889969--88890119 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 43
88889959 TATCCCAAAT
* * *
88889969 ATGGTCTCACATGTTACCTCATAT-CGATGCCAATGTCTCAGAC
1 ATGGTCTTACATGTAATCTCATATACGATGCCAATGTC-CAGAC
* * * *
88890012 ATGGTCTTACACG-AA-ATCATATAATGATGCCAATGTCCCAGAT
1 ATGGTCTTACATGTAATCTCATAT-ACGATGCCAATGT-CCAGAC
* *
88890055 ATGGTCTTACATGTAATCGCA-ATACAATGCCAATGTCCTAGAC
1 ATGGTCTTACATGTAATCTCATATACGATGCCAATGTCC-AGAC
88890098 ATGGTCTTACATGTAATCTCAT
1 ATGGTCTTACATGTAATCTCAT
88890120 CTCGATAATC
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
41 6 0.07
42 3 0.03
43 72 0.82
44 5 0.06
45 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCTCATATACGATGCCAATGTCCAGAC
Found at i:88892266 original size:12 final size:13
Alignment explanation
Indices: 88892234--88892272 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
88892224 AGTAAATAAT
*
88892234 TTTTACTTATTTTA
1 TTTTAATTA-TTTA
88892248 TTTTAATTATTTA
1 TTTTAATTATTTA
88892261 -TTTAATTATTTA
1 TTTTAATTATTTA
88892273 ATTATTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 4 0.17
14 8 0.33
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAATTATTTA
Found at i:88892346 original size:19 final size:18
Alignment explanation
Indices: 88892314--88892349 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
88892304 GTTCCTGGAC
88892314 GTTTCTTTCCCTTTTGTG
1 GTTTCTTTCCCTTTTGTG
*
88892332 GTTTCCTTTCTCTTTTGT
1 GTTT-CTTTCCCTTTTGT
88892350 TTTTCTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.00, C:0.22, G:0.14, T:0.64
Consensus pattern (18 bp):
GTTTCTTTCCCTTTTGTG
Found at i:88894083 original size:80 final size:80
Alignment explanation
Indices: 88893950--88894131 Score: 289
Period size: 80 Copynumber: 2.3 Consensus size: 80
88893940 TATTCGAATG
*
88893950 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCA
*
88894015 TTTGT-GCTAGT-GACT
66 TTTGTAG-GAGTCG-CT
*
88894030 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCA
88894095 TTTGTAGGAGTCGCT
66 TTTGTAGGAGTCGCT
*
88894110 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
88894132 TACTTGGGTT
Statistics
Matches: 96, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
79 15 0.16
80 79 0.82
81 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTAGGAGTCGCT
Found at i:88894117 original size:40 final size:40
Alignment explanation
Indices: 88893950--88894099 Score: 273
Period size: 40 Copynumber: 3.8 Consensus size: 40
88893940 TATTCGAATG
88893950 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
88893990 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
88894030 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
88894070 ATATCCGGGCTAAGACCCGAAGGCATTTGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT
88894100 AGGAGTCGCT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:88898235 original size:142 final size:143
Alignment explanation
Indices: 88898021--88898291 Score: 345
Period size: 142 Copynumber: 1.9 Consensus size: 143
88898011 GCATTGAGAC
* * * * * *
88898021 GAGAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGGGATATACAAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATAAAAGCTAATGTAAGAC
* * *
88898086 TTGTCTGGGACATGGCATC-AGCTTGTTATGTG-T-CAGTGTAAGACC-TGTTTGGGACATGGCA
66 CTGTCTGGGACATGGCATCGA-CTT-TAATGTGCTACAGTGTAAGACCATGTCTGGGACATGGCA
88898147 CTGACACCAATAGAT
129 CTGACACCAATAGAT
* * *
88898162 GAGAGCCAGTGTAAGACCTGTCTGGGACATGGTATCGACCTCGATATATAAAAG-TCAATGTAAG
1 GAGAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGACCTCGAGATATAAAAGCT-AATGTAAG
88898226 ACCTGTCTGGGACATGGCATCGACTTTAATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGG
64 ACCTGTCTGGGACATGGCATCGACTTTAATGTGCTA--CAGTGTAAGACCATGTCTGGGACATGG
88898291 C
127 C
88898292 GTTGACATTT
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
141 34 0.31
142 49 0.45
143 1 0.01
145 12 0.11
146 14 0.13
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (143 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATAAAAGCTAATGTAAGAC
CTGTCTGGGACATGGCATCGACTTTAATGTGCTACAGTGTAAGACCATGTCTGGGACATGGCACT
GACACCAATAGAT
Found at i:88900987 original size:14 final size:13
Alignment explanation
Indices: 88900966--88901003 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
88900956 AAATATTTGA
88900966 CTTGTTCTTAATT
1 CTTGTTCTTAATT
88900979 CTGTGTTCTTAATT
1 CT-TGTTCTTAATT
88900993 CTTGTT-TTAAT
1 CTTGTTCTTAAT
88901004 ATTCCAGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 6 0.25
14 13 0.54
ACGTcount: A:0.16, C:0.13, G:0.11, T:0.61
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:88906679 original size:46 final size:46
Alignment explanation
Indices: 88906626--88906762 Score: 166
Period size: 46 Copynumber: 3.0 Consensus size: 46
88906616 TATATATACA
* * * * *
88906626 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACGTATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
88906672 CATCTCATACACGTTTTGCATTAGCCACTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* **
88906718 CATCTCATACACATTTCGCATTAGCCATTCAGCTTCGCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
88906763 ATACACTTCC
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:88906807 original size:47 final size:46
Alignment explanation
Indices: 88906756--88907026 Score: 185
Period size: 47 Copynumber: 5.7 Consensus size: 46
88906746 TCAGCTTCGC
* *
88906756 CACATATATACACTTCCACGTTCATCACATTGGCCATTCTA-CCTTAT
1 CACATATATGCA-TTCCACATTCATCACATTGGCCATTC-AGCCTTAT
*
88906803 CACATATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTAT
1 CACATATATGCAT-TCCACATTCATCACATTGGCCATTCAGCCTTAT
* * * *
88906850 CACACATATGCATGCTCACATTCATCACATTGGCCACAT-ATGCATGT-T
1 CACATATATGCATTC-CACATTCATCACATTGGCCA-TTCA-GCCT-TAT
* * ** * * *
88906898 CACAT-TCATCACATTGGC-CATTCGGC-CTTATCGCACATATTCGGCCTTAT
1 CACATAT-AT-GCATT-CCACATTCATCACAT-TGGC-C--ATTCAGCCTTAT
* * *
88906948 CACACATATGCATGTTCACATTCATCACATTGGCCATTCTGGCCTTAT
1 CACATATATGCAT-TCCACATTCATCACATTGGCCATTC-AGCCTTAT
*
88906996 CACATATATGCATGCTCACATTCATCACATT
1 CACATATATGCATTC-CACATTCATCACATT
88907027 AAAATCCTAA
Statistics
Matches: 174, Mismatches: 29, Indels: 41
0.71 0.12 0.17
Matches are distributed among these distances:
46 2 0.01
47 80 0.46
48 55 0.32
49 12 0.07
50 21 0.12
51 4 0.02
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (46 bp):
CACATATATGCATTCCACATTCATCACATTGGCCATTCAGCCTTAT
Found at i:88906851 original size:22 final size:21
Alignment explanation
Indices: 88906779--88906853 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 21
88906769 TTCCACGTTC
88906779 ATCACATTGGCCATTCTACCTT
1 ATCACATTGGCCATTC-ACCTT
* *
88906801 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCA--TTCACCTT
88906825 CATCACATTGGCCATTCAGCCTT
1 -ATCACATTGGCCATTCA-CCTT
88906848 ATCACA
1 ATCACA
88906854 CATATGCATG
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
22 17 0.40
23 7 0.17
24 8 0.19
25 10 0.24
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (21 bp):
ATCACATTGGCCATTCACCTT
Found at i:88906889 original size:32 final size:32
Alignment explanation
Indices: 88906852--88906917 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
88906842 AGCCTTATCA
88906852 CACATATGCATGCTCACATTCATCACATTGGC
1 CACATATGCATGCTCACATTCATCACATTGGC
*
88906884 CACATATGCATGTTCACATTCATCACATTGGC
1 CACATATGCATGCTCACATTCATCACATTGGC
88906916 CA
1 CA
88906918 TTCGGCCTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (32 bp):
CACATATGCATGCTCACATTCATCACATTGGC
Found at i:88906941 original size:19 final size:19
Alignment explanation
Indices: 88906917--88906956 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
88906907 CACATTGGCC
*
88906917 ATTCGGCCTTATCGCACAT
1 ATTCGGCCTTATCACACAT
88906936 ATTCGGCCTTATCACACAT
1 ATTCGGCCTTATCACACAT
88906955 AT
1 AT
88906957 GCATGTTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (19 bp):
ATTCGGCCTTATCACACAT
Found at i:88907018 original size:98 final size:93
Alignment explanation
Indices: 88906776--88907026 Score: 249
Period size: 98 Copynumber: 2.6 Consensus size: 93
88906766 CACTTCCACG
* * *
88906776 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATG-TCACATTCAGCACATTCGCCATT
88906841 CAGCCTTATCACACATATGCATGCTCACA
65 CAGCCTTATCACACATATGCATGCTCACA
* * * * * * *
88906870 TTCATCACATTGGCCACATATGCATGT-TCACAT-TCATCACATTGGC-CATTCGGC-CTTATCG
1 TTCATCACATTGGCCA-TTCTGCCT-TATCACATAT-AT-GCA-TGTCACATTCAGCACAT-TCG
* *
88906931 CACATATTCGGCCTTATCACACATATGCATGTTCACA
60 C-C--ATTCAGCCTTATCACACATATGCATGCTCACA
*
88906968 TTCATCACATTGGCCATTCTGGCCTTATCACATATATGCATGCTCACATTCATCACATT
1 TTCATCACATTGGCCATTCT-GCCTTATCACATATATGCATG-TCACATTCAGCACATT
88907027 AAAATCCTAA
Statistics
Matches: 122, Mismatches: 20, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
94 19 0.16
95 21 0.17
96 7 0.06
97 8 0.07
98 64 0.52
99 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (93 bp):
TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTCACATTCAGCACATTCGCCATTC
AGCCTTATCACACATATGCATGCTCACA
Found at i:88920091 original size:42 final size:42
Alignment explanation
Indices: 88920025--88920133 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
88920015 TAAGATTCCG
* * *
88920025 TATAAGACCATATCCGAGATATGGCCTTGGTATG-TGATTTCA
1 TATAAGACCATATCGGAGATATGGCCTCGATATGAT-ATTTCA
* * * *
88920067 TATAAGACCATGTCGGGGACATGGCGTCGATATGATATTTCA
1 TATAAGACCATATCGGAGATATGGCCTCGATATGATATTTCA
*
88920109 TGTAAGACCATATCGGAGATATGGC
1 TATAAGACCATATCGGAGATATGGC
88920134 ACTGAAACGT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 54 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
TATAAGACCATATCGGAGATATGGCCTCGATATGATATTTCA
Found at i:88922145 original size:21 final size:20
Alignment explanation
Indices: 88922120--88922159 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
88922110 GGCAACAGGG
88922120 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTT-CCCTT
88922141 CCACACGGGCGTGTTCCCT
1 CCACACGGGCGTGTTCCCT
88922160 GTTTCAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.10, C:0.40, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACGGGCGTGTTCCCTT
Found at i:88926081 original size:53 final size:54
Alignment explanation
Indices: 88925903--88926106 Score: 230
Period size: 53 Copynumber: 3.8 Consensus size: 54
88925893 CATAGGGTTT
* * * *
88925903 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCGATAAGGC
* * * * * * * *
88925957 AAGGAAATCATGTAAGAGCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCGATAAGGC
* * * * *
88926012 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCGATAAGGC
*
88926065 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAA
88926107 ATTTAAAAAG
Statistics
Matches: 121, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 43 0.36
54 36 0.30
55 42 0.35
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCGATAAGGC
Found at i:88930095 original size:43 final size:41
Alignment explanation
Indices: 88930005--88930142 Score: 114
Period size: 43 Copynumber: 3.2 Consensus size: 41
88929995 ACATTACATG
* * *
88930005 TAAGACCATGTCTGGGACATTGGCATTGTATTGTAATTACTTG
1 TAAGACCATGTCTGGGACATTGGCATCGTATTG--ATTACGTA
* * *
88930048 TAAGACCGTGTTTGGGACATTGGCATCGTTATATGATTTCGTA
1 TAAGACCATGTCTGGGACATTGGCATCG-TAT-TGATTACGTA
* * * * * *
88930091 TAAGACCCTGTCTAGGACAATGGCATCGATATGTGATAACATG
1 TAAGACCATGTCTGGGACATTGGCATCG-TAT-TGATTACGTA
88930134 TAAGACCAT
1 TAAGACCAT
88930143 ATTCGGGATA
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
43 71 0.93
44 3 0.04
45 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (41 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATTGATTACGTA
Found at i:88931891 original size:30 final size:30
Alignment explanation
Indices: 88931857--88931922 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
88931847 TCTGGTAGCC
* * *
88931857 GTGTGAGGCTCACGGCCTGTTAACACGGGT
1 GTGTGAGGCACACGGCCTGTTAACAAGGGA
* *
88931887 GTGTGAGGCACATGGCTTGTTAACAAGGGA
1 GTGTGAGGCACACGGCCTGTTAACAAGGGA
88931917 GTGTGA
1 GTGTGA
88931923 CCTTTAAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.17, G:0.38, T:0.24
Consensus pattern (30 bp):
GTGTGAGGCACACGGCCTGTTAACAAGGGA
Found at i:88935581 original size:46 final size:46
Alignment explanation
Indices: 88935528--88935796 Score: 214
Period size: 46 Copynumber: 5.8 Consensus size: 46
88935518 TATTTGGGCA
*
88935528 TCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88935574 TCCGAACTCGTTGAGTTGAGTCTGAGTT---TGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * *
88935619 CATCCTAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *** * *
88935667 TCTGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* * *
88935714 TCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TG
*
88935761 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88935797 GCGGGTTACA
Statistics
Matches: 174, Mismatches: 30, Indels: 38
0.72 0.12 0.16
Matches are distributed among these distances:
42 3 0.02
43 8 0.05
44 3 0.02
45 2 0.01
46 89 0.51
47 53 0.30
48 2 0.01
49 3 0.02
50 8 0.05
51 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88935683 original size:93 final size:93
Alignment explanation
Indices: 88935524--88935788 Score: 424
Period size: 93 Copynumber: 2.8 Consensus size: 93
88935514 AGGATATTTG
* *
88935524 GGCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
88935589 TTGAGTCTGAGTTTGAGAGATGTAACTA
66 TTGAGTCTGAGTTCGAGAGATGTAACTA
* * *
88935617 GGCATCCTAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
88935682 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCTGAGTTCGAGAGATGTAACTA
* * *
88935710 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACAG-CCGAGCTCGTTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TGTCCGAACTCGTTGA
*
88935774 GTTGAGTCCGAGTTC
65 GTTGAGTCTGAGTTC
88935789 ACTTATGGGC
Statistics
Matches: 158, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
93 157 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCTGAGTTCGAGAGATGTAACTA
Found at i:88935742 original size:47 final size:47
Alignment explanation
Indices: 88935574--88935742 Score: 157
Period size: 47 Copynumber: 3.6 Consensus size: 47
88935564 GATGCGAATG
* *
88935574 TCCGAACTCGTTGAGTTGAGTCTGAGTTTGAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
* * * *** * *
88935621 TCCTAGCTCGTTGAGTTGAGTTCGAGTTC-ACTTATG-GA-T-GCGAA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA
* *
88935665 TGTCTGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAGGCA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
* *
88935714 TCCGAGCTCGTTGAGTTGAGTCCAAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
88935743 ACTTATGGAT
Statistics
Matches: 91, Mismatches: 24, Indels: 14
0.71 0.19 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 28 0.31
47 53 0.58
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA
Found at i:88937310 original size:39 final size:39
Alignment explanation
Indices: 88937220--88937436 Score: 285
Period size: 39 Copynumber: 5.5 Consensus size: 39
88937210 ACAAAGCATG
* * * *
88937220 CGGGACTTTAAGCCCGAATATAATACCAGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
88937260 CGGGACTTTAGCACAGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
88937300 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
88937339 TGGGACTTAGCCCGAATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
**
88937378 CAAGACTTAGCCCGGATATAACA-CAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
88937416 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
88937437 TTCTCCATTA
Statistics
Matches: 156, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 33 0.21
39 103 0.66
40 20 0.13
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:88944758 original size:43 final size:43
Alignment explanation
Indices: 88944665--88944762 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
88944655 CTGTAATTAT
* * **
88944665 ATGTAAGACCATGTCTGGGACATAGGCATCGTTATATGATTTC
1 ATGTAAGACCATGTCTGGGACATAGACATCGATATATGATAAC
* * *
88944708 ATATAAGACCTTGTCTGGGACAGT-GACATCGATATGTGATAAC
1 ATGTAAGACCATGTCTGGGACA-TAGACATCGATATATGATAAC
88944751 ATGTAAGACCAT
1 ATGTAAGACCAT
88944763 ATCCGAGATA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (43 bp):
ATGTAAGACCATGTCTGGGACATAGACATCGATATATGATAAC
Found at i:88945804 original size:103 final size:103
Alignment explanation
Indices: 88945625--88945823 Score: 326
Period size: 103 Copynumber: 1.9 Consensus size: 103
88945615 ATGAGTTGTG
* ** * *
88945625 ATGTTTAGTCTATGATTGATGTATTAATACTTTTATTGTAAGTTTGTGATTTGAATTGGCATATT
1 ATGTTTAGTCTATGATTGATATATTAATACTTCGATTGTAAATTGGTGATTTGAATTGGCATATT
88945690 TAGGTATGGAGTTGGATGTTTAAATGGTTAATGTGTTA
66 TAGGTATGGAGTTGGATGTTTAAATGGTTAATGTGTTA
* * *
88945728 ATGTTTGGTCTATGGTTGATATATTGATACTTCGATTGTAAATTGGTGATTTGAATTGGCATATT
1 ATGTTTAGTCTATGATTGATATATTAATACTTCGATTGTAAATTGGTGATTTGAATTGGCATATT
88945793 TAGGTATGGAGTTGGATGTTTAAATGGTTAA
66 TAGGTATGGAGTTGGATGTTTAAATGGTTAA
88945824 GGATAAGTGA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 88 1.00
ACGTcount: A:0.26, C:0.04, G:0.25, T:0.46
Consensus pattern (103 bp):
ATGTTTAGTCTATGATTGATATATTAATACTTCGATTGTAAATTGGTGATTTGAATTGGCATATT
TAGGTATGGAGTTGGATGTTTAAATGGTTAATGTGTTA
Found at i:88948046 original size:39 final size:40
Alignment explanation
Indices: 88948001--88948185 Score: 169
Period size: 40 Copynumber: 4.7 Consensus size: 40
88947991 GCTCCTCGTT
* * *
88948001 CAAATGCCTTCGGGACATAGCCCGGATTTCGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
** *
88948041 C-AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
88948080 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
88948120 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
88948161 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
88948186 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 36 0.30
40 73 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:88948174 original size:80 final size:78
Alignment explanation
Indices: 88948001--88948185 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 78
88947991 GCTCCTCGTT
* * *
88948001 CAAATGCCTTCGGGACATAGCCCGGATTTCGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
* *
88948066 TTTAACAATTCGCA
65 TATAACAATTAGCA
* * * * * *
88948080 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCG
* *
88948144 GATATATTCACTTAGCA
63 GATATA-ACAATTAGCA
88948161 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
88948186 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
79 35 0.40
80 44 0.51
81 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGAT
ATAACAATTAGCA
Found at i:88949643 original size:26 final size:26
Alignment explanation
Indices: 88949603--88949652 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
88949593 AGTATCACAT
88949603 TCAAACATTTCGGTGACTCGGTTTAG
1 TCAAACATTTCGGTGACTCGGTTTAG
*
88949629 TCAAACATTTTGGTGACTCGGTTT
1 TCAAACATTTCGGTGACTCGGTTT
88949653 TGCGGTCCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (26 bp):
TCAAACATTTCGGTGACTCGGTTTAG
Found at i:88952178 original size:106 final size:106
Alignment explanation
Indices: 88951983--88952196 Score: 374
Period size: 106 Copynumber: 2.0 Consensus size: 106
88951973 CTAGCCTCAG
* *
88951983 ATGCTCAGCATGTTCGGTCTCATCTCTTGAATAGACCAAGATGTCATCAATAAACACAACTACGA
1 ATGCTCAGCATGTTCGGTCTCATCTCTTGAATAAACCAAAATGTCATCAATAAACACAACTACGA
88952048 ACCGATCCAAATACGGCCTAAAGATCCGATTCATCAAATCC
66 ACCGATCCAAATACGGCCTAAAGATCCGATTCATCAAATCC
*
88952089 ATGCTCAGCATGTTCGGTCTCATCTCTTGAATAAACCAAAATGTCATCAATGAACACAACTACGA
1 ATGCTCAGCATGTTCGGTCTCATCTCTTGAATAAACCAAAATGTCATCAATAAACACAACTACGA
* * *
88952154 ACCGATCCAAATATGGTCTGAAGATCCGATTCATCAAATCC
66 ACCGATCCAAATACGGCCTAAAGATCCGATTCATCAAATCC
88952195 AT
1 AT
88952197 AAATACCGCA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 102 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (106 bp):
ATGCTCAGCATGTTCGGTCTCATCTCTTGAATAAACCAAAATGTCATCAATAAACACAACTACGA
ACCGATCCAAATACGGCCTAAAGATCCGATTCATCAAATCC
Found at i:88952553 original size:111 final size:111
Alignment explanation
Indices: 88952353--88952579 Score: 436
Period size: 111 Copynumber: 2.0 Consensus size: 111
88952343 CTGTGGCTCC
88952353 CTTCAGTTGGTCGAACAAATCATCGATGCGCGGCAACGGATATTTATTCATTATCGTCACTTTAT
1 CTTCAGTTGGTCGAACAAATCATCGATGCGCGGCAACGGATATTTATTCATTATCGTCACTTTAT
*
88952418 TCAGTTGACGATAGTCGATACACAACCTCATGGTTCCGTCCTTCTT
66 TCAGTTGACGATAGTCAATACACAACCTCATGGTTCCGTCCTTCTT
88952464 CTTCAGTTGGTCGAACAAATCATCGATGCGCGGCAACGGATATTTATTCATTATCGTCACTTTAT
1 CTTCAGTTGGTCGAACAAATCATCGATGCGCGGCAACGGATATTTATTCATTATCGTCACTTTAT
*
88952529 TCAGTTGACGATAGTCAATGCACAACCTCATGGTTCCGTCCTTCTT
66 TCAGTTGACGATAGTCAATACACAACCTCATGGTTCCGTCCTTCTT
88952575 CTTCA
1 CTTCA
88952580 CGAACAATAC
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 114 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (111 bp):
CTTCAGTTGGTCGAACAAATCATCGATGCGCGGCAACGGATATTTATTCATTATCGTCACTTTAT
TCAGTTGACGATAGTCAATACACAACCTCATGGTTCCGTCCTTCTT
Found at i:88960274 original size:40 final size:40
Alignment explanation
Indices: 88960230--88961018 Score: 1535
Period size: 40 Copynumber: 19.7 Consensus size: 40
88960220 GCTCCTCGTT
* * *
88960230 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTAGCA
88960270 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960310 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960350 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960390 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960430 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960470 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960510 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960550 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960590 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960630 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960670 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960710 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960750 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960790 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960830 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960870 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960910 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960950 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
88960990 CAAATGCCTTCGGGACTTAACCCGGATTT
1 CAAATGCCTTCGGGACTTAACCCGGATTT
88961019 NTATGTTTAA
Statistics
Matches: 745, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
40 743 1.00
41 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
Found at i:88961879 original size:79 final size:82
Alignment explanation
Indices: 88961738--88961925 Score: 235
Period size: 79 Copynumber: 2.4 Consensus size: 82
88961728 GTTATTCGAA
* * *
88961738 TAATGTCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG
1 TAATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG
88961802 GCATTTGTGCGAGTTAC
66 GCATTTGTGCGAGTTAC
* * * **
88961819 TAAT-TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAA
1 TAATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAA
88961880 GGCATTTGTGCGAGTTAC
65 GGCATTTGTGCGAGTTAC
* *
88961898 T-ATAACCGGGCTATGTCCCGAAGGCATT
1 TAATATCCGGGCTAAGTCCCGAAGGCATT
88961926 TGAACGAGTA
Statistics
Matches: 94, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.62
80 29 0.31
81 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (82 bp):
TAATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAG
GCATTTGTGCGAGTTAC
Found at i:88961941 original size:40 final size:40
Alignment explanation
Indices: 88961744--88961927 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
88961734 CGAATAATGT
* * * *
88961744 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
88961784 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
88961824 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
88961862 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
88961903 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
88961928 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:88961949 original size:79 final size:79
Alignment explanation
Indices: 88961796--88961960 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
88961786 GGACTAAGAT
* **
88961796 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
88961861 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
88961875 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
88961938 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
88961954 CCGAAGG
1 CCGAAGG
88961961 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:88963989 original size:48 final size:47
Alignment explanation
Indices: 88963745--88963977 Score: 340
Period size: 48 Copynumber: 4.9 Consensus size: 47
88963735 AATGTGCCTG
* *
88963745 TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCC-A
* *
88963793 TGTAAGACCATGTCTGGGACATGGCATCGGGGATGATATGTGTACCA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* *
88963840 GTGTAAGACCATTTCTGGGACATGGCATCGGCGATGATATGTGGGCCA
1 -TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
* * **
88963888 GTGTAAGACCATGTTTGGGGCATGGCATCGGTAATGATATGTGTGCCAA
1 -TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCC-A
88963937 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGT
88963978 AGATTCATGT
Statistics
Matches: 165, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 163 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCA
Found at i:88966254 original size:13 final size:12
Alignment explanation
Indices: 88966218--88966268 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
88966208 GATTGAGCTG
88966218 AATTTTATATT-T
1 AATTTTAT-TTAT
* *
88966230 TATTTAATTTAT
1 AATTTTATTTAT
88966242 AATTGTTATTTAT
1 AATT-TTATTTAT
88966255 AATTTT-TTTAT
1 AATTTTATTTAT
88966266 AAT
1 AAT
88966269 ATAAAACCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
11 10 0.30
12 12 0.36
13 11 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (12 bp):
AATTTTATTTAT
Found at i:88966266 original size:11 final size:13
Alignment explanation
Indices: 88966236--88966268 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
88966226 ATTTTATTTA
88966236 ATTTATAATTGTT
1 ATTTATAATTGTT
88966249 ATTTATAATT-TT
1 ATTTATAATTGTT
88966261 -TTTATAAT
1 ATTTATAAT
88966269 ATAAAACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 2 0.10
13 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (13 bp):
ATTTATAATTGTT
Found at i:88970505 original size:46 final size:46
Alignment explanation
Indices: 88970438--88970796 Score: 187
Period size: 49 Copynumber: 7.6 Consensus size: 46
88970428 TATGTGTGCT
* * *
88970438 AGTGTAGGACATGTTTGGGACATTCATCGGCCACATATTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATATTGAGAGCC
* * * * *
88970484 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATAT-ACTAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATAT-TGA-GAGCC
* ** *
88970532 AGTGTAAGACATGTCTGGGACATGCATCGG-CA-TTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAT-A-TTGAGAGCC
* * * * *
88970578 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATTGA-GAGCC
* * * * * * * **
88970625 AGTGTAAGACCTGTCTGGGACATG--GC-GTCAGCTTGTTGTGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATATTGAGAGCC
* * *
88970669 AGTGTAAGACCTGACTGGGACATAGCATC-GACACCGATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCA-C-ATAT-TGAGAGCC
* * * **
88970718 ACTGTAAGACATGTATGGGACATGGCATCGGCCTCGATATATG-GAAGTT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-ATAT-TGAG-AGCC
*
88970767 AGTGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACATGTCTGGGACAT-GCATCG
88970797 ACTTTGATGT
Statistics
Matches: 237, Mismatches: 57, Indels: 35
0.72 0.17 0.11
Matches are distributed among these distances:
44 28 0.12
45 3 0.01
46 62 0.26
47 39 0.16
48 37 0.16
49 66 0.28
50 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATATTGAGAGCC
Found at i:88970543 original size:48 final size:46
Alignment explanation
Indices: 88970438--88970648 Score: 208
Period size: 46 Copynumber: 4.5 Consensus size: 46
88970428 TATGTGTGCT
* * * * * * *
88970438 AGTGTAGGACATGTTTGGGACATTCATCGGCCAC-ATATTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATT-ACAACC
* *
88970484 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATATACTAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT-TAC-AACC
* * ** * * *
88970532 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATTACAACC
* *
88970578 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATTACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATTACAA-CC
*
88970625 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
88970649 GCGTCAGCTT
Statistics
Matches: 136, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
46 68 0.50
47 30 0.22
48 38 0.28
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATTACAACC
Found at i:88970587 original size:94 final size:93
Alignment explanation
Indices: 88970477--88970648 Score: 265
Period size: 94 Copynumber: 1.8 Consensus size: 93
88970467 GCCACATATT
*
88970477 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATATACTAA-CCAGTGTAAGA
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTCAAGAT-TAC-AAGCCAGTGTAAGA
88970541 CATGTCTGGGACATGCATCGGCATTGAGAC
64 CATGTCTGGGACATGCATCGGCATTGAGAC
* * * * *
88970571 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATTACAAGCTAGTGTAAGACC
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTCAAGATTACAAGCCAGTGTAAGACA
88970636 TGTCTGGGACATG
66 TGTCTGGGACATG
88970649 GCGTCAGCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
92 2 0.03
93 27 0.38
94 42 0.59
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (93 bp):
GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCCTCAAGATTACAAGCCAGTGTAAGACA
TGTCTGGGACATGCATCGGCATTGAGAC
Found at i:88975447 original size:18 final size:18
Alignment explanation
Indices: 88975414--88975449 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
88975404 GAGATGGTTG
*
88975414 GAGTTGATAAAGGACTAC
1 GAGTTGATAAACGACTAC
*
88975432 GAGTTGATAATCGACTAC
1 GAGTTGATAAACGACTAC
88975450 CACCCATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (18 bp):
GAGTTGATAAACGACTAC
Found at i:88978319 original size:48 final size:48
Alignment explanation
Indices: 88978211--88978422 Score: 175
Period size: 48 Copynumber: 4.5 Consensus size: 48
88978201 TATGTGTGCT
* * *
88978211 AGTGTAAGACATGTCTGGGAAATGCATCGAC--C-ACATATTGCGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATA-TACGAGCC
* * *
88978257 AGTGTAAGATATGTCTAGGACATGCATCGACATCGAGATATACCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATATACGAGCC
* ** * ** *
88978305 AGTGTAAGACATGTCTGGGACATGGATCGGTATTGAGA-CGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATATACGAGCC
* * * * * *
88978351 AGTGTAAGACATGTCTAGGACATGCATC-AGCCTCAAAATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CATCGAGATATACGAGCC
* *
88978399 AGTGTAAGACCTATCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
88978423 GCGTCAACTT
Statistics
Matches: 130, Mismatches: 30, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
46 60 0.46
47 2 0.02
48 64 0.49
49 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGATATACGAGCC
Found at i:88978355 original size:94 final size:94
Alignment explanation
Indices: 88978252--88978423 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 94
88978242 CACATATTGC
* * * *
88978252 GAGCCAGTGTAAGATATGTCTAGGACATGCATC-GACATCGAGATATACCAGCCAGTGTAAGACA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCAG-CATCAAAATATACAAGCCAGTGTAAGACA
*
88978316 TGTCTGGGACATGGATCGGTATTGAGACGA
65 TATCTGGGACATGGATCGGTATTGAGACGA
* * * *
88978346 GAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTCAAAATATACAAGCTAGTGTAAGACCT
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCATCAAAATATACAAGCCAGTGTAAGACAT
88978411 ATCTGGGACATGG
66 ATCTGGGACATGG
88978424 CGTCAACTTG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
94 67 0.99
95 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (94 bp):
GAGCCAGTGTAAGACATGTCTAGGACATGCATCAGCATCAAAATATACAAGCCAGTGTAAGACAT
ATCTGGGACATGGATCGGTATTGAGACGA
Found at i:88978580 original size:16 final size:16
Alignment explanation
Indices: 88978559--88978590 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
88978549 ACCTGTCTGG
88978559 GACATGGCATCGACTT
1 GACATGGCATCGACTT
88978575 GACATGGCATCGACTT
1 GACATGGCATCGACTT
88978591 TGATGTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (16 bp):
GACATGGCATCGACTT
Found at i:88980297 original size:20 final size:20
Alignment explanation
Indices: 88980268--88980311 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
88980258 AAAATTAAAT
88980268 ACAT-AATGTAGCCATTTAA
1 ACATGAATGTAGCCATTTAA
88980287 ACATGAATGTAGCCATTTAA
1 ACATGAATGTAGCCATTTAA
88980307 ACATG
1 ACATG
88980312 TAGATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
ACATGAATGTAGCCATTTAA
Found at i:88987370 original size:37 final size:37
Alignment explanation
Indices: 88987320--88987398 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
88987310 TTATTACGAA
* * * *
88987320 GTCTTACTCGGACATAATCTCCACACGAAGTTATAGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
* *
88987357 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
88987394 GTCTT
1 GTCTT
88987399 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
Found at i:88987604 original size:47 final size:47
Alignment explanation
Indices: 88987561--88987898 Score: 550
Period size: 47 Copynumber: 7.1 Consensus size: 47
88987551 TTGGCCACTC
*
88987561 GGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
*
88987608 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
* * * *
88987655 GGCCTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
* *
88987702 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
* *
88987749 GGCCCTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
*
88987796 GGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
*
88987843 GGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
88987892 GGCCTTA
1 GGCCTTA
88987899 CTATCATTTC
Statistics
Matches: 274, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 233 0.85
49 41 0.15
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (47 bp):
GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
Found at i:88991952 original size:40 final size:40
Alignment explanation
Indices: 88991908--88992038 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
88991898 AGACTAAGAT
88991908 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
88991948 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
88991988 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
88992028 CCGAAGGCATT
1 CCGAAGGCATT
88992039 GTATGAGTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 81 0.99
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:88992059 original size:39 final size:38
Alignment explanation
Indices: 88991908--88992075 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 38
88991898 AGACTAAGAT
* *
88991908 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCA-TTGTGCGAGTTACTAA-ACCGGGTTAAGTC
* * *
88991948 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAA-ACCGGGTTAAGTC
*
88991988 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATT-GTGCGAGTTACT-AAA-CCGGGTTAAGTC
** * *
88992028 CCGAAGGCATTGTATGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTA-AACCGGGTTAAGTC
88992067 CCGAAGGCA
1 CCGAAGGCA
88992076 CTTGAACGAG
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
39 31 0.28
40 78 0.71
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGAAGGCATTGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:88995646 original size:64 final size:64
Alignment explanation
Indices: 88995545--88995672 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 64
88995535 TGCTTTACGA
88995545 GCGATGAATGTGCACTTGTCTGTTCTACCCGACAATGTGTTCA-TAGCTGAATTAAAAGCCAAAC
1 GCGATGAATGTGCACTTGTCTGTTCTACCCGACAATGTGTT-AGTAGCTGAATTAAAAGCCAAAC
88995609 GCGATGAATGTGCACTTGTCTGTTCTACCCGACAATGTGTTAGTAGCTGAATTAAAAGCCAAAC
1 GCGATGAATGTGCACTTGTCTGTTCTACCCGACAATGTGTTAGTAGCTGAATTAAAAGCCAAAC
88995673 CATTATTGAT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 1 0.02
64 62 0.98
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (64 bp):
GCGATGAATGTGCACTTGTCTGTTCTACCCGACAATGTGTTAGTAGCTGAATTAAAAGCCAAAC
Found at i:88998939 original size:39 final size:41
Alignment explanation
Indices: 88998844--88999027 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
88998834 TTGAATGATG
*
88998844 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
88998883 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
88998923 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
88998962 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
88999002 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88999028 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:88998979 original size:79 final size:81
Alignment explanation
Indices: 88998844--88999027 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
88998834 TTGAATGATG
88998844 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
88998907 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
88998922 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
88998983 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
88999002 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88999028 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:88999049 original size:79 final size:79
Alignment explanation
Indices: 88998896--88999060 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
88998886 GGACTAAGAT
* ** *
88998896 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
88998961 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
88998975 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
88999037 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
88999054 CCGAAGG
1 CCGAAGG
88999061 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:88999327 original size:126 final size:126
Alignment explanation
Indices: 88999102--88999355 Score: 490
Period size: 126 Copynumber: 2.0 Consensus size: 126
88999092 AAAATTCCAG
88999102 TTAATACTCTCGAAACATCCCAACATTGAGGTATGTTTCGTATGTGCTTGAATTTAGTTGAGCCC
1 TTAATACTCTCGAAACATCCCAACATTGAGGTATGTTTCGTATGTGCTTGAATTTAGTTGAGCCC
88999167 TTACAAATAAGTATTCGCTCAGTTGATAAACGAGCTACCGGCCTTTGGCTGAGTTGATCTT
66 TTACAAATAAGTATTCGCTCAGTTGATAAACGAGCTACCGGCCTTTGGCTGAGTTGATCTT
* *
88999228 TTAATCCTCTCTAAACATCCCAACATTGAGGTATGTTTCGTATGTGCTTGAATTTAGTTGAGCCC
1 TTAATACTCTCGAAACATCCCAACATTGAGGTATGTTTCGTATGTGCTTGAATTTAGTTGAGCCC
88999293 TTACAAATAAGTATTCGCTCAGTTGATAAACGAGCTACCGGCCTTTGGCTGAGTTGATCTT
66 TTACAAATAAGTATTCGCTCAGTTGATAAACGAGCTACCGGCCTTTGGCTGAGTTGATCTT
88999354 TT
1 TT
88999356 GTGTATGTAC
Statistics
Matches: 126, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (126 bp):
TTAATACTCTCGAAACATCCCAACATTGAGGTATGTTTCGTATGTGCTTGAATTTAGTTGAGCCC
TTACAAATAAGTATTCGCTCAGTTGATAAACGAGCTACCGGCCTTTGGCTGAGTTGATCTT
Found at i:89002878 original size:50 final size:50
Alignment explanation
Indices: 89002803--89003042 Score: 245
Period size: 50 Copynumber: 4.8 Consensus size: 50
89002793 GACCATGGCG
* * * * *
89002803 ATATGAGAGCCAGTGTAAGACCATGTCTATGACAGGGCATCGGCACCGGT
1 ATATGCGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCGAT
* * * *
89002853 ATATGCGAGCCAGTGTAAGACCATGTCTGGGACGTGGCATCGGCACCAAT
1 ATATGCGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCGAT
* * * * * **
89002903 ATGTGCAAGCTAATGTAAGACCATGT-TTGGACCATGGCATCAGCATTG-T
1 ATATGCGAGCTAGTGTAAGACCATGTCTAGGA-CATGGCATCGGCACCGAT
*
89002952 -TATGTC-AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
1 ATATG-CGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCGAT
* * * *
89003001 ATATGAGAGCTGGTGTAAGACCATATCCAGGACATGGCATCG
1 ATATGCGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCG
89003043 ACATTTTATC
Statistics
Matches: 156, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
48 34 0.22
49 11 0.07
50 111 0.71
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
ATATGCGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCGAT
Found at i:89003037 original size:98 final size:98
Alignment explanation
Indices: 89002864--89003041 Score: 252
Period size: 98 Copynumber: 1.8 Consensus size: 98
89002854 TATGCGAGCC
* * *
89002864 AGTGTAAGACCATGTCTGGGACGTGGCATCGGCACCAATATGTGCAAGCTAATGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGCAAGCTAATGTAAGACCATAT
**
89002929 TTGGACCATGGCATCAGCATTGTTATGTCAGCT
66 CAGGACCATGGCATCAGCATTGTTATGTCAGCT
* **
89002962 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATATG-AGAGCTGGTGTAAGACCATA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGCA-AGCTAATGTAAGACCATA
89003026 TCCAGGA-CATGGCATC
65 T-CAGGACCATGGCATC
89003042 GACATTTTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
97 1 0.01
98 66 0.94
99 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (98 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCAATATATGCAAGCTAATGTAAGACCATAT
CAGGACCATGGCATCAGCATTGTTATGTCAGCT
Found at i:89007267 original size:50 final size:51
Alignment explanation
Indices: 89007136--89007430 Score: 265
Period size: 50 Copynumber: 5.8 Consensus size: 51
89007126 CTTGTAACTG
* * * * * * *
89007136 AAGCTATCTGGTACGCATAATAGCCTACACTTAGTACTACACATGCGACC-
1 AAGCCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
* * * * *
89007186 AA-CAATCCGGTCCACATAGTAGCCTGCACTTAGTACTACACACATGACCT
1 AAGCCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
** * * *
89007236 AA-CCATCTGATATTCGTAGTAGCCTGCACTTAGTACTACACACGTGATCG
1 AAGCCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
*** * * * * *
89007286 AAGTTGTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 AAGCCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
* * * *
89007337 AA-CTATCTGTTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCT
1 AAGCCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
* * *
89007387 AAAGCCATCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 -AAGCCATCTGATACACATAGTAGCCTGCACTTAGTACTACACA
89007431 TGTGTTCTCA
Statistics
Matches: 194, Mismatches: 47, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
49 38 0.20
50 83 0.43
51 40 0.21
52 33 0.17
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
AAGCCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
Found at i:89007327 original size:101 final size:101
Alignment explanation
Indices: 89007200--89007383 Score: 296
Period size: 101 Copynumber: 1.8 Consensus size: 101
89007190 ATCCGGTCCA
* ** *
89007200 CATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATATTCGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACCATCTGATACACGTAGTAGCCTACAC
89007265 TTAGTACTACACACGTGATCGAAGTTGTCGGGTACG
66 TTAGTACTACACACGTGATCGAAGTTGTCGGGTACG
** * *
89007301 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGTTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACCATCTGATACACGTAGTAGCCTACAC
89007366 TTAGTACTACACACGTGA
66 TTAGTACTACACACGTGA
89007384 CCTAAAGCCA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 75 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (101 bp):
CATAGTAGCCTGCACTTAGTACTACACACACGACCTAACCATCTGATACACGTAGTAGCCTACAC
TTAGTACTACACACGTGATCGAAGTTGTCGGGTACG
Found at i:89010840 original size:71 final size:71
Alignment explanation
Indices: 89010762--89010902 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 71
89010752 ATAATATAAA
89010762 TAATTTTAATTTATACCCAATTTAATTTGGGCTAAATAAATTATTATTAATTAATTATGAAAAAA
1 TAATTTTAATTTATACCCAATTTAATTTGGGCTAAATAAATTATTATTAATTAATTATGAAAAAA
89010827 GTGGTT
66 GTGGTT
* *
89010833 TAATTTTAATTTATACCCAATTTACTTTGGGCTAAATAAATTATTATTAATTAATTATGGAAAAA
1 TAATTTTAATTTATACCCAATTTAATTTGGGCTAAATAAATTATTATTAATTAATTATGAAAAAA
89010898 GTGGT
66 GTGGT
89010903 CCATTGAACC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (71 bp):
TAATTTTAATTTATACCCAATTTAATTTGGGCTAAATAAATTATTATTAATTAATTATGAAAAAA
GTGGTT
Found at i:89014749 original size:46 final size:46
Alignment explanation
Indices: 89014699--89014871 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
89014689 TGGTTGAGCA
89014699 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
89014745 TCCGAACTCGTTGAGTTGAGTCCGAGTT-AGTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
89014790 CATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
89014838 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
89014872 GGGGAGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 58 0.56
47 27 0.26
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:89014855 original size:93 final size:93
Alignment explanation
Indices: 89014696--89014865 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
89014686 GGATGGTTGA
* * * *
89014696 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
89014761 TGAGTCCGAGTTAGTGAAATGTAACTAG
66 TGAGTCCGAGTTAGTGAAATGTAACTAG
*
89014789 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
89014854 TGAGTCCGAGTT
66 TGAGTCCGAGTT
89014866 CACTTAGGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTAGTGAAATGTAACTAG
Found at i:89030597 original size:16 final size:16
Alignment explanation
Indices: 89030576--89030616 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
89030566 GTTTCAGCTA
89030576 GAAGAAAAAGAAAAAG
1 GAAGAAAAAGAAAAAG
*
89030592 GAAG--AAAGAAAATG
1 GAAGAAAAAGAAAAAG
*
89030606 GAGGAAAAAGA
1 GAAGAAAAAGA
89030617 GAGGAAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 12 0.57
16 9 0.43
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (16 bp):
GAAGAAAAAGAAAAAG
Found at i:89032077 original size:22 final size:19
Alignment explanation
Indices: 89032044--89032090 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
89032034 AAGGATGATA
89032044 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
89032067 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
89032086 ATTAT
1 ATTAT
89032091 CAACTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:89032086 original size:16 final size:15
Alignment explanation
Indices: 89032046--89032087 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
89032036 GGATGATAAT
89032046 TATTAATATATAATTA
1 TATTAAT-TATAATTA
89032062 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
89032078 TATTAATTAT
1 TATTAATTAT
89032088 TATCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:89034059 original size:19 final size:20
Alignment explanation
Indices: 89034035--89034072 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
89034025 GGTACCACCA
89034035 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
89034054 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
89034073 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:89034412 original size:93 final size:93
Alignment explanation
Indices: 89034302--89034472 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
89034292 GCCCCTAAAT
* * *
89034302 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAATGGACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
89034367 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* ** *
89034395 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
89034460 CGAGTTCGGATGC
66 CGAGTTCGGATGC
89034473 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:89034469 original size:46 final size:45
Alignment explanation
Indices: 89034299--89034469 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 45
89034289 CCCGCCCCTA
* * * *
89034299 AATGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCAT
1 AATGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCAT
* *
89034344 AAATGGACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T
1 -AATGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACATCCAT
* * *
89034392 CACGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
1 AATGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCAT
89034437 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AA-TGAACTCGGACTCAACTCAACGAGTTCGGA
89034470 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.55
47 29 0.28
48 1 0.01
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AATGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCAT
Found at i:89034926 original size:30 final size:30
Alignment explanation
Indices: 89034892--89034951 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
89034882 AATTAATACG
89034892 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
89034922 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
89034952 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:89037405 original size:48 final size:48
Alignment explanation
Indices: 89037334--89037581 Score: 365
Period size: 48 Copynumber: 5.2 Consensus size: 48
89037324 CAAGATAAAT
* * * *
89037334 ATATATATGTGTGGTAAATCCGAATGGCTAATGTGAAAAATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
89037382 ATATGTAGATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
89037430 ATATATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
89037478 ATA--TATATGCGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
89037524 ATATGTATATGTGGTAAAGCCGTATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
89037572 ATGTGTATAT
1 ATATGTATAT
89037582 ATTGTGGCCG
Statistics
Matches: 181, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 42 0.23
48 139 0.77
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:89037519 original size:94 final size:95
Alignment explanation
Indices: 89037334--89037573 Score: 365
Period size: 94 Copynumber: 2.5 Consensus size: 95
89037324 CAAGATAAAT
* * * *
89037334 ATATATATGTGTGGTAAATCCGAATGGCTAATGTGAAAAATGTATGAGATATGTAGATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA-GTAGATGCGGTAA
89037399 AGCCGAATGGCTAATATGAAATATGTATGAG
65 AGCCGAATGGCTAATATGAAATATGTATGAG
** *
89037430 ATATATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATA-TATATGCGGTAAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAGTAGATGCGGTAAA
* *
89037494 TCCGAATGGCTAATGTGAAATATGTATGAG
66 GCCGAATGGCTAATATGAAATATGTATGAG
* *
89037524 ATATGTATATGTGGTAAAGCCGTATGGCTAATGTGAAATATGTATGAGAT
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
89037574 GTGTATATAT
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
94 85 0.65
96 46 0.35
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (95 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAGTAGATGCGGTAAA
GCCGAATGGCTAATATGAAATATGTATGAG
Found at i:89039569 original size:43 final size:43
Alignment explanation
Indices: 89039450--89039747 Score: 490
Period size: 43 Copynumber: 7.0 Consensus size: 43
89039440 TGAAACTCGA
* *
89039450 TGATATATATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
*
89039493 TGATATGTATT-TGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
* *
89039535 TGATATGTATTCGGGTCTTCGTGTCTAGCAGGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
*
89039578 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
*
89039621 TGATATGTATTCGGGCCTTCGTGCCTAGCATGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
* *
89039664 TGATATATATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
* *
89039707 TGATATGTATCCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCC
89039748 TAGTAGGCTT
Statistics
Matches: 237, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
42 41 0.17
43 196 0.83
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.33
Consensus pattern (43 bp):
TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
Found at i:89039748 original size:16 final size:16
Alignment explanation
Indices: 89039723--89039763 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
89039713 GTATCCGGGC
89039723 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
* *
89039739 CTTTGTGCCTAGTAGG
1 CTTCGTGCCTAGCAGG
89039755 CTTCGTGCC
1 CTTCGTGCC
89039764 GGTGATATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.10, C:0.29, G:0.29, T:0.32
Consensus pattern (16 bp):
CTTCGTGCCTAGCAGG
Found at i:89039748 original size:59 final size:59
Alignment explanation
Indices: 89039680--89039800 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 59
89039670 ATATTCGGGC
89039680 CTTTGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATCCGGGCCTTCGTGCCTAGCAGG
1 CTTTGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATCCGGGCCTTCGTGCCTAGCAGG
* * *
89039739 CTTTGTGCCTAGTAGGCTTCGTGCCGGTGATATGTATTCGGGTCTTCGTGCCTAGCAGG
1 CTTTGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATCCGGGCCTTCGTGCCTAGCAGG
89039798 CTT
1 CTT
89039801 AATGCCGGTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.32
Consensus pattern (59 bp):
CTTTGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATCCGGGCCTTCGTGCCTAGCAGG
Found at i:89039975 original size:29 final size:29
Alignment explanation
Indices: 89039943--89040077 Score: 89
Period size: 29 Copynumber: 4.7 Consensus size: 29
89039933 AATGAATATG
*
89039943 GGCATTATGTGTGCGAGATCAGTAATTGA
1 GGCACTATGTGTGCGAGATCAGTAATTGA
* ** **
89039972 GGCACTGTGTGTGCGA-ATTCCTTTAACCGA
1 GGCACTATGTGTGCGAGA-T-CAGTAATTGA
* **
89040002 -GCATTATGTGTGCGAGATTGGTAATTGA
1 GGCACTATGTGTGCGAGATCAGTAATTGA
* * * **
89040030 GGCACTGTGTGTGCGAGTTC-TTCAACCGA
1 GGCACTATGTGTGCGAGATCAGT-AATTGA
89040059 -GCACTATGTGTGCGAGATC
1 GGCACTATGTGTGCGAGATC
89040078 GGTCAGTGGG
Statistics
Matches: 79, Mismatches: 22, Indels: 11
0.71 0.20 0.10
Matches are distributed among these distances:
28 24 0.30
29 48 0.61
30 7 0.09
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (29 bp):
GGCACTATGTGTGCGAGATCAGTAATTGA
Found at i:89040090 original size:28 final size:28
Alignment explanation
Indices: 89040006--89040098 Score: 71
Period size: 28 Copynumber: 3.3 Consensus size: 28
89039996 AACCGAGCAT
* * *
89040006 TATGTGTGCGAGATTGGTAATTGAGGCAC
1 TATGTGTGCGAGATCGGTCACTG-GGCAC
* * * * *
89040035 TGTGTGTGCGAGTTC-TTCAACCGAGCAC
1 TATGTGTGCGAGATCGGTC-ACTGGGCAC
*
89040063 TATGTGTGCGAGATCGGTCAGTGGGCAC
1 TATGTGTGCGAGATCGGTCACTGGGCAC
*
89040091 TAAGTGTG
1 TATGTGTG
89040099 TGAAATGAGA
Statistics
Matches: 47, Mismatches: 15, Indels: 5
0.70 0.22 0.07
Matches are distributed among these distances:
28 31 0.66
29 16 0.34
ACGTcount: A:0.20, C:0.16, G:0.34, T:0.29
Consensus pattern (28 bp):
TATGTGTGCGAGATCGGTCACTGGGCAC
Found at i:89040100 original size:58 final size:58
Alignment explanation
Indices: 89039948--89040080 Score: 214
Period size: 58 Copynumber: 2.3 Consensus size: 58
89039938 ATATGGGCAT
* * *
89039948 TATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCAT
1 TATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCGAATTCCTTCAACCGAGCAC
* *
89040006 TATGTGTGCGAGATTGGTAATTGAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCAC
1 TATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCGAATTCCTTCAACCGAGCAC
89040063 TATGTGTGCGAGATCGGT
1 TATGTGTGCGAGATCGGT
89040081 CAGTGGGCAC
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
57 29 0.42
58 40 0.58
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.31
Consensus pattern (58 bp):
TATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCGAATTCCTTCAACCGAGCAC
Found at i:89040303 original size:29 final size:30
Alignment explanation
Indices: 89040261--89040319 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
89040251 CAAGTACGAC
*
89040261 GCTCTTTAAATTGACAAA-GTTTAGGAAGT
1 GCTCTTTAAATTGACAAATGTTAAGGAAGT
89040290 GCTCTTTAAATTGACAAATGTTAAGGAAGT
1 GCTCTTTAAATTGACAAATGTTAAGGAAGT
89040320 AGAATTGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (30 bp):
GCTCTTTAAATTGACAAATGTTAAGGAAGT
Found at i:89071408 original size:37 final size:37
Alignment explanation
Indices: 89071349--89071457 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
89071339 AGCTCAGACG
* * *
89071349 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
89071386 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
89071423 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
89071458 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:89071740 original size:47 final size:47
Alignment explanation
Indices: 89071666--89072101 Score: 593
Period size: 47 Copynumber: 9.1 Consensus size: 47
89071656 ACACGTTTCG
* * * * **
89071666 CATTAGCCATTCGGCCATACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * *
89071713 CATTGGCCATTCGGTCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
89071760 CATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
89071807 CATTTGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * ** *
89071854 CATTGGCCATTTGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
89071907 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
89071954 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
89072001 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
89072052 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
89072099 CAT
1 CAT
89072102 AAAATCCTAA
Statistics
Matches: 348, Mismatches: 31, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
47 261 0.75
49 1 0.00
51 45 0.13
53 41 0.12
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:89071807 original size:25 final size:25
Alignment explanation
Indices: 89071778--89071855 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
89071768 ATCCGGCCTT
89071778 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
** * * *
89071803 ATCACATTTGC-CA--TTCGGCCTT-
1 ATCACACATACGCATGTTC-ACATTC
89071825 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
89071850 ATCACA
1 ATCACA
89071856 TTGGCCATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.29
23 5 0.13
24 5 0.13
25 17 0.45
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.29
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:89071932 original size:147 final size:145
Alignment explanation
Indices: 89071666--89072101 Score: 682
Period size: 147 Copynumber: 3.0 Consensus size: 145
89071656 ACACGTTTCG
* * * ** *
89071666 CATTAGCCATTCGGCCATACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGTCTT
1 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * *
89071731 AT--C-T-CATATATGCATGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCA
66 ATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
89071792 TGTTCACATTCATCA
131 TGTTCACATTCATCA
* *
89071807 CATTTGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTTGGCCTT
1 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
89071872 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
66 ATCA--CATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
89071937 CATGTTCACATTCATCA
129 CATGTTCACATTCATCA
*
89071954 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
89072019 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 ATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
*
89072084 TGTTCACATCCATCA
131 TGTTCACATTCATCA
89072099 CAT
1 CAT
89072102 AAAATCCTAA
Statistics
Matches: 272, Mismatches: 17, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
141 59 0.22
145 77 0.28
146 1 0.00
147 135 0.50
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (145 bp):
CATTAGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
TGTTCACATTCATCA
Found at i:89072028 original size:194 final size:195
Alignment explanation
Indices: 89071689--89072079 Score: 631
Period size: 194 Copynumber: 2.0 Consensus size: 195
89071679 GCCATACCAC
* * * * * *
89071689 ATATATTCATGTTCACATTCATCACATTGGCCATTCGGTCTTATCTCATATATGCATGTTCACAT
1 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
*
89071754 TCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCACATTTGCCATTC
66 TCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
* * *
89071819 GGCCTTATCACACATACGCAT-GTTCACATTCATCACATTGGCCATTTGGCCTTATCACGCATAT
131 GGCCTTATCACACATACACATGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
89071883 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
1 ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
*
89071948 TCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
66 TCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
* *
89072013 GGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
131 GGCCTTATCACACATACACAT---GGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
89072078 TA
193 TA
89072080 CGCATGTTCA
Statistics
Matches: 180, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
194 140 0.78
198 40 0.22
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (195 bp):
ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACAT
TCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTC
GGCCTTATCACACATACACATGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
Found at i:89073496 original size:85 final size:85
Alignment explanation
Indices: 89073367--89073692 Score: 625
Period size: 85 Copynumber: 3.8 Consensus size: 85
89073357 TATTTTATTG
*
89073367 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
89073432 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
89073452 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
89073517 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
89073537 CCCATGCTCTTTATTTTATTAATCCTTATATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
89073602 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
89073622 CCCATGCTCTTTATTTTATTAATCCTTATATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
89073687 TAGCCA
66 TAGCCA
89073693 GGGGGGGGGG
Statistics
Matches: 239, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 239 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:89077672 original size:39 final size:40
Alignment explanation
Indices: 89077627--89077794 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
89077617 CGGGGTTTAT
* * *
89077627 CCGGATATAACCACTCGCA-CAACGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAACGCCTTCGGGACTTAAC
*** * *
89077666 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAACGCCTTCGGGACTTAAC
** * * * **
89077706 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAACGCCTTCGGGA-CTTAAC
* ** * * * *
89077746 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAACGCCTTCGGGACTTAAC
89077787 CCGGATAT
1 CCGGATAT
89077795 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAACGCCTTCGGGACTTAAC
Found at i:89077777 original size:41 final size:40
Alignment explanation
Indices: 89077650--89077794 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
89077640 CTCGCACAAC
* * * * *
89077650 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
89077690 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
89077730 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
89077771 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
89077795 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:89080066 original size:43 final size:44
Alignment explanation
Indices: 89079954--89080102 Score: 139
Period size: 43 Copynumber: 3.5 Consensus size: 44
89079944 CAATGCCAAC
* *
89079954 GTCCCAGACGTGGTCTTACATGT-AATCAAATATCGATGCCACT
1 GTCCCAGACGTGGTCTTACATGTAAATCAAATATCAATACCACT
* * *
89079997 ATCCCAGACATGGTCTTACATG-AAATCAAATCT-AATACCGA-T
1 GTCCCAGACGTGGTCTTACATGTAAATCAAATATCAATACC-ACT
* * * * *
89080039 GTCCTAGACGTGGTCTTAGATGTAAATCATAA-GTCGATGCCAAC-
1 GTCCCAGACGTGGTCTTACATGTAAATCA-AATATCAATACC-ACT
89080083 GTCCCAGACGTGGTCTTACA
1 GTCCCAGACGTGGTCTTACA
89080103 CGAAAACACA
Statistics
Matches: 85, Mismatches: 15, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
42 23 0.27
43 37 0.44
44 25 0.29
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (44 bp):
GTCCCAGACGTGGTCTTACATGTAAATCAAATATCAATACCACT
Found at i:89092494 original size:39 final size:39
Alignment explanation
Indices: 89092401--89092660 Score: 289
Period size: 39 Copynumber: 6.6 Consensus size: 39
89092391 GAATGATGTT
*
89092401 CGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATC
1 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TC
* * *
89092440 CGGACTAAGATCCGAAGGCATTTGTGCGAGATACTGATTC
1 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTC
* *
89092480 CGGGCTAAGCCCGAAGGCATTTGTACAAGATACTAATTC
1 CGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTC
89092519 CGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTC
** *
89092558 CGGGCTAAGCCCGAAGGCATTTGTGCGACTTACTAAATC
1 CGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTC
* *
89092597 CGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAAC
1 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TC
*
89092637 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAG-CCCGAAGGCATTTG
89092661 AACGAGGAGC
Statistics
Matches: 193, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
39 124 0.64
40 58 0.30
41 10 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
CGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTC
Found at i:89100970 original size:27 final size:27
Alignment explanation
Indices: 89100939--89101033 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 27
89100929 TTAGTTTACC
* *
89100939 AAATTACTGAAATACCTTCGACTTGTA
1 AAATTACTCAAATACCTTCGATTTGTA
** *
89100966 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTCAAA-TACCTTCGATTTGTA
* *
89100993 AAATTACCCAAATA-TTCTCGATTTGTA
1 AAATTACTCAAATACCT-TCGATTTGTA
* *
89101020 AAATCACTGAAATA
1 AAATTACTCAAATA
89101034 AGATAGAATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
26 3 0.06
27 46 0.87
28 4 0.08
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACTCAAATACCTTCGATTTGTA
Found at i:89101078 original size:27 final size:27
Alignment explanation
Indices: 89101038--89101287 Score: 347
Period size: 27 Copynumber: 9.3 Consensus size: 27
89101028 GAAATAAGAT
*
89101038 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
89101065 AGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
89101092 AAAATTACTGTTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* * *
89101119 AGAATTATCGTTTTACTCTCAATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
89101146 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
** *
89101173 AGAATTACTATTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
89101200 AGAATTACCGTTTTACCCTCAATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
*
89101227 AAAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
** *
89101254 AGAATTACTATTTTATCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
89101281 AAAATTA
1 AGAATTA
89101288 TTGAAATACC
Statistics
Matches: 198, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 198 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
AGAATTACCGTTTTACCCTCGATTTAC
Found at i:89101149 original size:81 final size:81
Alignment explanation
Indices: 89101038--89101287 Score: 392
Period size: 81 Copynumber: 3.1 Consensus size: 81
89101028 GAAATAAGAT
* * * *
89101038 AGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGT
1 AGAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTAT
89101103 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * *
89101119 AGAATTATCGTTTTACTCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTAT
1 AGAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTAT
*
89101184 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *
89101200 AGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACTAT
1 AGAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTAT
*
89101265 TTTATCCTCGATTTAC
66 TTTACCCTCGATTTAC
*
89101281 AAAATTA
1 AGAATTA
89101288 TTGAAATACC
Statistics
Matches: 153, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 153 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
AGAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTAT
TTTACCCTCGATTTAC
Found at i:89101321 original size:27 final size:26
Alignment explanation
Indices: 89101291--89101433 Score: 117
Period size: 27 Copynumber: 5.3 Consensus size: 26
89101281 AAAATTATTG
*
89101291 AAATACCCTTAGTTTACAAAATTACCA
1 AAATACCC-TAGTTTATAAAATTACCA
* * *
89101318 AAATACCCTCGATCAGTAAAATTACCA
1 AAATACCCTAGTTTA-TAAAATTACCA
* * *
89101345 AAATACCCCTGGTTTGTAAAATTACTA
1 AAATA-CCCTAGTTTATAAAATTACCA
* * *
89101372 AAATACTCCTGGTTTGTAAAATTACTA
1 AAATAC-CCTAGTTTATAAAATTACCA
* *
89101399 AAATACCCCT-GACTTGTAAAATTACCA
1 AAATA-CCCTAG-TTTATAAAATTACCA
89101426 AAATACCC
1 AAATACCC
89101434 CTGATTTGTG
Statistics
Matches: 100, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
26 9 0.09
27 84 0.84
28 7 0.07
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (26 bp):
AAATACCCTAGTTTATAAAATTACCA
Found at i:89101330 original size:81 final size:81
Alignment explanation
Indices: 89101038--89101316 Score: 378
Period size: 81 Copynumber: 3.4 Consensus size: 81
89101028 GAAATAAGAT
* * * * * *
89101038 AGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGT
1 AGAATTATCGTTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTAT
89101103 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * *
89101119 AGAATTATCGTTTTACTCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTAT
1 AGAATTATCGTTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTAT
*
89101184 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *
89101200 AGAATTACCGTTTTACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAGAATTACTAT
1 AGAATTATCGTTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTAT
*
89101265 TTTATCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * *** * *
89101281 AAAATTATTGAAATACCCTTAGTTTACAAAATTACC
1 AGAATTATCGTTTTACCCTCAATTTACAAAATTACC
89101317 AAAATACCCT
Statistics
Matches: 174, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 174 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
AGAATTATCGTTTTACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTAT
TTTACCCTCGATTTAC
Found at i:89101339 original size:54 final size:51
Alignment explanation
Indices: 89101281--89101438 Score: 136
Period size: 54 Copynumber: 2.9 Consensus size: 51
89101271 CTCGATTTAC
* *
89101281 AAAATTATTGAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACTAAAATACCCTTAGTTT--AAAATTACCAAAATACCCT-GATCAGT
* * * * * **
89101335 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACTCCTGGTTTGT
1 AAAATTACTAAAATACCCTTAG-TT-TAAAATTACCAAAATAC-CCTGATCAGT
* *
89101389 AAAATTACTAAAATACCCCTGACTTGTAAAATTACCAAAATACCCCTGAT
1 AAAATTACTAAAATA-CCCTTAGTT-TAAAATTACCAAAATA-CCCTGAT
89101439 TTGTGAAATT
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
54 73 0.88
55 9 0.11
56 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (51 bp):
AAAATTACTAAAATACCCTTAGTTTAAAATTACCAAAATACCCTGATCAGT
Found at i:89101366 original size:81 final size:81
Alignment explanation
Indices: 89101281--89101460 Score: 222
Period size: 81 Copynumber: 2.2 Consensus size: 81
89101271 CTCGATTTAC
*
89101281 AAAATTATTGAAATAC-CCTTAGTTTACAAAATTACCAAAATA-CCCTCGA-TCAGTAAAATTAC
1 AAAATTATTAAAATACTCC-TAGTTTACAAAATTACCAAAATACCCCT-GACT-AGTAAAATTAC
*
89101343 CAAAATACCCCTGGTTTGT
63 CAAAATACCCCTGATTTGT
* * ** * *
89101362 AAAATTACTAAAATACTCCTGGTTTGTAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAA
1 AAAATTATTAAAATACTCCTAGTTTACAAAATTACCAAAATACCCCTGACTAGTAAAATTACCAA
89101427 AATACCCCTGATTTGT
66 AATACCCCTGATTTGT
* *
89101443 GAAATTATCAAAATACTC
1 AAAATTATTAAAATACTC
89101461 TCGATTTGTA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
81 78 0.92
82 7 0.08
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
AAAATTATTAAAATACTCCTAGTTTACAAAATTACCAAAATACCCCTGACTAGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:89101434 original size:27 final size:27
Alignment explanation
Indices: 89101308--89101515 Score: 199
Period size: 27 Copynumber: 7.7 Consensus size: 27
89101298 CTTAGTTTAC
**
89101308 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
89101335 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
89101362 AAAATTACTAAAATACTCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
89101389 AAAATTACTAAAATACCCCTGACTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
89101416 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
89101443 GAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * * **
89101470 ATAA-TATCGAAATACCCCTG-TAGGGT
1 AAAATTACCAAAATACCCCTGAT-TTGT
**
89101496 AAAATTACCGGAATACCCCT
1 AAAATTACCAAAATACCCCT
89101516 ATAGGGTAGA
Statistics
Matches: 154, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.01
26 18 0.12
27 131 0.85
28 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:89101520 original size:27 final size:27
Alignment explanation
Indices: 89101477--89101754 Score: 387
Period size: 27 Copynumber: 10.3 Consensus size: 27
89101467 TGTATAATAT
*
89101477 CGAAATACCCCTGTAGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
89101504 CGGAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
89101531 TGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
89101558 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
89101585 CGAAATACCCTTATAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
89101612 TGCAATA-CCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
89101638 CGAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
89101665 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
89101692 CGAAATACCCCTGTAGGGTAGAATTAG
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
89101719 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
89101746 TGAGATACC
1 CGAAATACC
89101755 TTGTGAGGTA
Statistics
Matches: 223, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 22 0.10
27 201 0.90
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:89101680 original size:134 final size:135
Alignment explanation
Indices: 89101480--89101744 Score: 424
Period size: 134 Copynumber: 2.0 Consensus size: 135
89101470 ATAATATCGA
* * *
89101480 AATACCCCTGTAGGGTAAAATTACCGGAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGT
1 AATACCCCTATAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGT
* * *
89101545 AGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAATT
66 AGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATT
89101610 ATTGC
131 ATTGC
* *
89101615 AATA-CCCTATAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGT
1 AATACCCCTATAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGT
** *
89101679 AGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTAGTGAAATACCCCTGTAGGGTAGAATT
66 AGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATT
89101744 A
131 A
89101745 CTGAGATACC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
134 115 0.97
135 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (135 bp):
AATACCCCTATAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGT
AGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATT
ATTGC
Found at i:89102222 original size:25 final size:25
Alignment explanation
Indices: 89102184--89102240 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
89102174 ATTCTGTTTT
* *
89102184 TGATTCTGTTACCTGATACTGATTC
1 TGATTCTGTCACCTAATACTGATTC
*
89102209 TGATTCTGTCACCTAATTCTGATTC
1 TGATTCTGTCACCTAATACTGATTC
89102234 TGATTCT
1 TGATTCT
89102241 AATTCTAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (25 bp):
TGATTCTGTCACCTAATACTGATTC
Done.