Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 242 of 444
Found at i:68595028 original size:22 final size:22
Alignment explanation
Indices: 68595000--68595042 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
68594990 AATATTAAAG
68595000 ACCGGAAGAGATAAGAAGAAAC
1 ACCGGAAGAGATAAGAAGAAAC
68595022 ACCGGAAGAGATAAGAAGAAA
1 ACCGGAAGAGATAAGAAGAAA
68595043 GTAGTATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.56, C:0.12, G:0.28, T:0.05
Consensus pattern (22 bp):
ACCGGAAGAGATAAGAAGAAAC
Found at i:68603687 original size:39 final size:39
Alignment explanation
Indices: 68603598--68603760 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
68603588 TATGGTAACC
* *
68603598 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
68603638 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
68603677 CGTACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
68603716 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
68603755 CGCACA
1 CGCACA
68603761 TTCATACACA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:68608856 original size:39 final size:40
Alignment explanation
Indices: 68608802--68608902 Score: 134
Period size: 39 Copynumber: 2.5 Consensus size: 40
68608792 CGTTTGGATA
* *
68608802 AAAAACGCCGTTATAGATCGAGCACTAGCGACGA-TTTT-G
1 AAAAATGCCGCTATAGATCGAGCACTAGCGAC-ACTTTTCG
* *
68608841 AAAAATGCCGCTATAGATCGAGCATTAGCGGCACTTTTCG
1 AAAAATGCCGCTATAGATCGAGCACTAGCGACACTTTTCG
*
68608881 AAAAATGCCACTATAGATCGAG
1 AAAAATGCCGCTATAGATCGAG
68608903 TATTAGTGGC
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.02
39 32 0.58
40 22 0.40
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (40 bp):
AAAAATGCCGCTATAGATCGAGCACTAGCGACACTTTTCG
Found at i:68608884 original size:40 final size:40
Alignment explanation
Indices: 68608802--68608968 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
68608792 CGTTTGGATA
* * * *
68608802 AAAAACGCCGTTATAGATCGAGCACTAGCGACGA-TTTT-G
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGC-ACTTTTCG
68608841 AAAAATGCCGCTATAGATCGAGCATTAGCGGCACTTTTCG
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGCACTTTTCG
* * * * *
68608881 AAAAATGCCACTATAGATCGAGTATTAGTGGCGCTTTTCA
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGCACTTTTCG
* * * ** *
68608921 AAAAATACTGCTATA-AGTCGACCATTAGCGGCGGTTTTTG
1 AAAAATGCCGCTATAGA-TCGAGCATTAGCGGCACTTTTCG
68608961 AAAAATGC
1 AAAAATGC
68608969 AGCAAAAAAA
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.31
40 72 0.68
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (40 bp):
AAAAATGCCGCTATAGATCGAGCATTAGCGGCACTTTTCG
Found at i:68609073 original size:40 final size:40
Alignment explanation
Indices: 68609018--68609121 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
68609008 GCTGTAGTGA
* * *
68609018 CATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATTAAG
1 CATTAGCGGTGCTTTTTAAAAAACGCCGCTATAGATCAAC
* * * *
68609058 CATTAGCGGTGCTTTTTAAAAAATGCCGTTATAGGTCGAC
1 CATTAGCGGTGCTTTTTAAAAAACGCCGCTATAGATCAAC
*
68609098 CATTAGCGGCGCTTTTTTAAAAAA
1 CATTAGCGGTGC-TTTTTAAAAAA
68609122 GCTGCAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 44 0.80
41 11 0.20
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (40 bp):
CATTAGCGGTGCTTTTTAAAAAACGCCGCTATAGATCAAC
Found at i:68609171 original size:155 final size:155
Alignment explanation
Indices: 68608863--68609235 Score: 460
Period size: 155 Copynumber: 2.4 Consensus size: 155
68608853 ATAGATCGAG
* * * * * *
68608863 CATTAGCGGCACTTTTCGAAAAATGCCACTATAGATCGAGTATTAGTGGCGCTTTTCAAAAAATA
1 CATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGATCAAGCATTAGCGGCGCTTTTCAAAAAATA
* * * **
68608928 CTGCTATAAGTCGACCATTAGCGGCGGTTTTTGAAAAATGCAGCAAAAAAAATTAAGCACAACGT
66 CCGCTATAAGTCGACCATTAGCGGCGCTTTTTGAAAAAAGCAGCAAAAAAAATTAAGCACAACAC
68608993 CGTCGTTTTATGTTAGCTGTAGTGA
131 CGTCGTTTTATGTTAGCTGTAGTGA
* * * * * *
68609018 CATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATTAAGCATTAGCGGTGCTTTTTAAAAAATG
1 CATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGATCAAGCATTAGCGGCGCTTTTCAAAAAATA
* * * * *
68609083 CCGTTATAGGTCGACCATTAGCGGCGCTTTTTTAAAAAAGCTGC-AAAAAAATTAAGCATAACAC
66 CCGCTATAAGTCGACCATTAGCGGCGCTTTTTGAAAAAAGCAGCAAAAAAAATTAAGCACAACAC
* *
68609147 CGTCGTTTTATGTTGAGCTTTAGTGG
131 CGTCGTTTTATGTT-AGCTGTAGTGA
* * * * *
68609173 CATTAGCGGCGCTTTTTGGAAAATGCCGCTATAGATCGAGCTTTAGTGTCGCTTTATCAAAAA
1 CATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGATCAAGCATTAGCGGCGCTTT-TCAAAAA
68609236 CACCGTAAAA
Statistics
Matches: 182, Mismatches: 34, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
154 31 0.17
155 145 0.80
156 6 0.03
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (155 bp):
CATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGATCAAGCATTAGCGGCGCTTTTCAAAAAATA
CCGCTATAAGTCGACCATTAGCGGCGCTTTTTGAAAAAAGCAGCAAAAAAAATTAAGCACAACAC
CGTCGTTTTATGTTAGCTGTAGTGA
Found at i:68609307 original size:21 final size:21
Alignment explanation
Indices: 68609282--68609322 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
68609272 TAACTTGTTT
68609282 ATTTA-TATTAATTGAAATACA
1 ATTTATTATTAATT-AAATACA
*
68609303 ATTTATTTTTAATTAAATAC
1 ATTTATTATTAATTAAATAC
68609323 TTAAATTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTATTATTAATTAAATACA
Found at i:68609494 original size:14 final size:14
Alignment explanation
Indices: 68609475--68609524 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
68609465 TTAATTATCA
68609475 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
68609489 TTATAGTTTAGGAT
1 TTATAGTTTAGGGT
* *
68609503 GTATGGTTTAGGGT
1 TTATAGTTTAGGGT
68609517 TTA-AGTTT
1 TTATAGTTT
68609525 TAGGAGTTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 4 0.13
14 26 0.87
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:68609663 original size:14 final size:14
Alignment explanation
Indices: 68609636--68609686 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
68609626 TAAGGGTTAG
* *
68609636 GGGTTTAGGGTTTA
1 GGGTTTATGATTTA
68609650 GGGTTTATGATTTA
1 GGGTTTATGATTTA
* *
68609664 TGTTTTATGATTTA
1 GGGTTTATGATTTA
*
68609678 AGGTTTATG
1 GGGTTTATG
68609687 GGGACAGGAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (14 bp):
GGGTTTATGATTTA
Found at i:68610999 original size:41 final size:41
Alignment explanation
Indices: 68610948--68611038 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 41
68610938 ATTTAGCAAT
**
68610948 AGTGGCGTTTTTGGGTAAAAA-GCCA-CAAAAAGTTGAGCTAC
1 AGTGGCGTTTTT-CATAAAAACG-CAGCAAAAAGTTGAGCTAC
* *
68610989 AGTGGCGTTTTTCATAAAAACGCAGTAAAAAGTTGAGCTAT
1 AGTGGCGTTTTTCATAAAAACGCAGCAAAAAGTTGAGCTAC
68611030 AGTGGCGTT
1 AGTGGCGTT
68611039 ACCAAAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 8 0.18
41 36 0.82
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.27
Consensus pattern (41 bp):
AGTGGCGTTTTTCATAAAAACGCAGCAAAAAGTTGAGCTAC
Found at i:68611157 original size:11 final size:11
Alignment explanation
Indices: 68611143--68611167 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
68611133 CGTTACTCCC
68611143 TCTTCTTCTCA
1 TCTTCTTCTCA
68611154 TCTTCTTCTCA
1 TCTTCTTCTCA
68611165 TCT
1 TCT
68611168 CATTTTACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.36, G:0.00, T:0.56
Consensus pattern (11 bp):
TCTTCTTCTCA
Found at i:68623942 original size:43 final size:43
Alignment explanation
Indices: 68623894--68624005 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
68623884 TATACTTTTC
* *
68623894 AAAGGTCATATTTTTTAGCAGCGTTTGTGGGAAAAGCGCCGCT
1 AAAGGTCATATTCTTTAGCAGCGTTTGTGGGAAAAGCGCAGCT
* *
68623937 AAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCAGCT
1 AAAGGTCATATTCTTTAGCAGCGTTTGTGGGAAAAGCGCAGCT
* * * *
68623980 AAAGATCATGTTCTATAGCGGCGTTT
1 AAAGGTCATATTCTTTAGCAGCGTTT
68624006 TTTTACATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (43 bp):
AAAGGTCATATTCTTTAGCAGCGTTTGTGGGAAAAGCGCAGCT
Found at i:68634532 original size:40 final size:39
Alignment explanation
Indices: 68634405--68634572 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 39
68634395 CAGAATATAA
68634405 CCGGATATAATC-ACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* * *
68634445 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
* * *
68634485 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
* *** * * * *
68634525 CCAGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
68634565 CCGGATAT
1 CCGGATAT
68634573 CATTCAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.97
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:68636382 original size:82 final size:81
Alignment explanation
Indices: 68636272--68636460 Score: 245
Period size: 82 Copynumber: 2.3 Consensus size: 81
68636262 CTTACTGTTG
* * * *
68636272 TTGCTTTACCTTTAGCAGCGTTTATGAGAAAAACGTTGCTATTACTTTACCTTTTGCAGCATTTA
1 TTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACGTTGCTATTACTTTACCCTTTG-AGCAATTA
*
68636337 TGAG-AAAATGCCGCTA
65 TGAGAAAAACGCCGCTA
* * * * * *
68636353 TTGCTTTTAACTTTTGCGGCGTTTATGAGAAAAATGTTGCTATTGCTTTTCCCTTTGTGGAATTA
1 TTGC-TTTACCTTTTGCGGCGTTTATGAGAAAAACGTTGCTATTACTTTACCCTTTGAGCAATTA
*
68636418 TGAGAAAAACGCTGCTA
65 TGAGAAAAACGCCGCTA
68636435 TTGCTTTACCTTTTGCGGCGTTTATG
1 TTGCTTTACCTTTTGCGGCGTTTATG
68636461 CAAAAAAGCA
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
81 34 0.37
82 59 0.63
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (81 bp):
TTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACGTTGCTATTACTTTACCCTTTGAGCAATTAT
GAGAAAAACGCCGCTA
Found at i:68636434 original size:40 final size:40
Alignment explanation
Indices: 68636292--68636449 Score: 147
Period size: 40 Copynumber: 3.9 Consensus size: 40
68636282 TTTAGCAGCG
* * * *
68636292 TTTATGAGAAAAACGTTGCTATTACTTTACCTTTTGCAGCA
1 TTTATGAGAAAAACGCTGCTATTGCTTTTCCTTTTG-AGGA
* * * * *
68636333 TTTATGAG-AAAATGCCGCTATTGCTTTTAACTTTTGCGGCG
1 TTTATGAGAAAAACGCTGCTATTGCTTTT-CCTTTTGAGG-A
* * * *
68636374 TTTATGAGAAAAATGTTGCTATTGCTTTTCCCTTTGTGGA
1 TTTATGAGAAAAACGCTGCTATTGCTTTTCCTTTTGAGGA
* *
68636414 ATTATGAGAAAAACGCTGCTATTGCTTTACCTTTTG
1 TTTATGAGAAAAACGCTGCTATTGCTTTTCCTTTTG
68636450 CGGCGTTTAT
Statistics
Matches: 94, Mismatches: 20, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
40 47 0.50
41 29 0.31
42 18 0.19
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (40 bp):
TTTATGAGAAAAACGCTGCTATTGCTTTTCCTTTTGAGGA
Found at i:68636466 original size:40 final size:41
Alignment explanation
Indices: 68636272--68636460 Score: 211
Period size: 41 Copynumber: 4.6 Consensus size: 41
68636262 CTTACTGTTG
* * *
68636272 TTGCTTTACCTTTAGCAGCGTTTATGAGAAAAACGTTGCTA
1 TTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACGCTGCTA
* * * * *
68636313 TTACTTTACCTTTTGCAGCATTTATGAG-AAAATGCCGCTA
1 TTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACGCTGCTA
* * *
68636353 TTGCTTTTAACTTTTGCGGCGTTTATGAGAAAAATGTTGCTA
1 TTGC-TTTACCTTTTGCGGCGTTTATGAGAAAAACGCTGCTA
* * * **
68636395 TTGCTTTTCCCTTTGTGG-AATTATGAGAAAAACGCTGCTA
1 TTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACGCTGCTA
68636435 TTGCTTTACCTTTTGCGGCGTTTATG
1 TTGCTTTACCTTTTGCGGCGTTTATG
68636461 CAAAAAAGCA
Statistics
Matches: 120, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
40 45 0.38
41 61 0.51
42 14 0.12
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (41 bp):
TTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACGCTGCTA
Found at i:68639386 original size:40 final size:40
Alignment explanation
Indices: 68639331--68639538 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
68639321 TGAATGATAC
* * *
68639331 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
68639371 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
68639411 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
68639451 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
68639491 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
68639531 CC-GGCTAA
1 CCGGGCTAA
68639539 ATTCGAAGAA
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 5 0.03
40 145 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:68646362 original size:40 final size:40
Alignment explanation
Indices: 68646307--68646455 Score: 201
Period size: 40 Copynumber: 3.7 Consensus size: 40
68646297 TGAATGATAC
* * *
68646307 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
68646347 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
68646387 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
68646427 CCGGGTTAAAGACCCGAAGGCAATTGTGC
1 CCGGGCT-AAGACCCGAAGGCATTTGTGC
68646456 TTGTGGTTAT
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 76 0.78
41 22 0.22
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:68646474 original size:80 final size:80
Alignment explanation
Indices: 68646307--68646475 Score: 200
Period size: 80 Copynumber: 2.1 Consensus size: 80
68646297 TGAATGATAC
* * * *
68646307 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCATTCG
*
68646372 TGCGAGTTGTTATAT
66 TGCGAGTGGTTATAT
* *
68646387 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAAGACCCGAAGGCAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCT-AAGACCCGAAGGC-AT
**
68646451 T-GTGCTTGTGGTTATAT
63 TCGTGCGAGTGGTTATAT
*
68646468 TC-GGCTAA
1 CCGGGCTAA
68646476 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
80 44 0.58
81 29 0.38
82 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTGGTTATAT
Found at i:68651032 original size:29 final size:28
Alignment explanation
Indices: 68650977--68651046 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
68650967 TATTTATCCT
*
68650977 GAGCACTATGTGTGCGAGATTGGTAATT
1 GAGCACTATGTGTGCGAGATTGGTAATC
**
68651005 GAGGCACTATGTGTGCGAG-TTCTTTAATC
1 GA-GCACTATGTGTGCGAGATT-GGTAATC
*
68651034 GAGCGCTATGTGT
1 GAGCACTATGTGT
68651047 ACGAAATCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.39
29 22 0.61
ACGTcount: A:0.21, C:0.14, G:0.31, T:0.33
Consensus pattern (28 bp):
GAGCACTATGTGTGCGAGATTGGTAATC
Found at i:68651788 original size:2 final size:2
Alignment explanation
Indices: 68651781--68651806 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
68651771 CATGTATAAA
68651781 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
68651807 TTTTTCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68654852 original size:24 final size:24
Alignment explanation
Indices: 68654779--68654853 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
68654769 AACATGCATT
*
68654779 TGTGTGATAAGGCCGAATGGCCAA
1 TGTGTGATAATGCCGAATGGCCAA
*
68654803 --TGTGATGAATG-TGAACAT-G-CATA
1 TGTGTGAT-AATGCCG-A-ATGGCCA-A
68654826 TGTGTGATAATGCCGAATGGCCAA
1 TGTGTGATAATGCCGAATGGCCAA
68654850 TGTG
1 TGTG
68654854 ATGAATATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 18
0.65 0.05 0.30
Matches are distributed among these distances:
22 9 0.23
23 8 0.21
24 13 0.33
25 9 0.23
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (24 bp):
TGTGTGATAATGCCGAATGGCCAA
Found at i:68654909 original size:142 final size:142
Alignment explanation
Indices: 68654739--68655000 Score: 443
Period size: 142 Copynumber: 1.8 Consensus size: 142
68654729 ATATATGAGC
* * * *
68654739 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCAAT
1 TAAGGCCGAATGGCAAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAAT
* * * *
68654804 GTGATGAATGTGAACATGCATATGTGTGATAATGCCGAATGGCCAATGTGATGAATATGAACATG
66 GTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAATATGAACATG
68654869 CACATATGTGAA
131 CACATATGTGAA
*
68654881 TAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAAT
1 TAAGGCCGAATGGCAAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAAT
68654946 GTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAA
66 GTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAA
68655001 CGTGGAAGTG
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
142 111 1.00
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.25
Consensus pattern (142 bp):
TAAGGCCGAATGGCAAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAAT
GTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAATATGAACATG
CACATATGTGAA
Found at i:68654917 original size:95 final size:94
Alignment explanation
Indices: 68654729--68654997 Score: 412
Period size: 95 Copynumber: 2.9 Consensus size: 94
68654719 GTGAATGTGT
* * * * *
68654729 ATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCG
*
68654794 AATGGCCAATGTGATGAATGTGAACATGC
66 AATGGCCAATGTGATAAATGTGAACATGC
* * * *
68654823 ATATGTGTGATAATGCCGAATGGCCAATGTGATGAATATGAACATGCACATATGTGAATAAGGCC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTG-ATAAGGCC
68654888 GAATGGCCAATGTGATAAATGTGAACATGC
65 GAATGGCCAATGTGATAAATGTGAACATGC
* * *
68654918 ATATATGTGATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCG
68654983 AATGGCCAATGTGAT
66 AATGGCCAATGTGAT
68654998 GAACGTGGAA
Statistics
Matches: 157, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
94 70 0.45
95 87 0.55
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (94 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCG
AATGGCCAATGTGATAAATGTGAACATGC
Found at i:68654925 original size:25 final size:25
Alignment explanation
Indices: 68654897--68654977 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
68654887 CGAATGGCCA
68654897 ATGTGATAAATGTGAACATGCATAT
1 ATGTGATAAATGTGAACATGCATAT
*
68654922 ATGTGAT-AA-G-GCAGA-ATGGC-CA-
1 ATGTGATAAATGTG-A-ACAT-GCATAT
68654944 ATGTGATAAATGTGAACATGCATAT
1 ATGTGATAAATGTGAACATGCATAT
68654969 ATGTGATAA
1 ATGTGATAA
68654978 GGCAGAATGG
Statistics
Matches: 45, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
22 8 0.18
23 10 0.22
24 10 0.22
25 17 0.38
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (25 bp):
ATGTGATAAATGTGAACATGCATAT
Found at i:68654950 original size:22 final size:22
Alignment explanation
Indices: 68654922--68654997 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 22
68654912 ACATGCATAT
68654922 ATGTGATAAGGCAGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
68654944 ATGTGATAAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
68654968 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
68654991 ATGTGAT
1 ATGTGAT
68654998 GAACGTGGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
22 15 0.35
23 10 0.23
24 10 0.23
25 8 0.19
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:68655018 original size:142 final size:141
Alignment explanation
Indices: 68654708--68655034 Score: 440
Period size: 142 Copynumber: 2.3 Consensus size: 141
68654698 TTAGGATTTT
* * * * *
68654708 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCAAATGTGATAAATGTGAACA
* * * * * *
68654773 TGCATTTGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAATG
66 TGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGG
*
68654838 CCGAATGGCCA
131 CAGAATGGCCA
* * * * *
68654849 ATGTGATGAATATGAACATGCACATATGTGAATAAGGCCGAATGGCCAATGTGATAAATGTGAAC
1 ATGTGATGAATGTGAACGTGTATATATGTG-ATAAGGCCGAATGGCAAATGTGATAAATGTGAAC
68654914 ATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAG
65 ATGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAG
68654979 GCAGAATGGCCA
130 GCAGAATGGCCA
* ** *
68654991 ATGTGATGAACGTGGAA-GTGTATATATGTGGGAAAGCCGAATGG
1 ATGTGATGAATGT-GAACGTGTATATATGTGATAAGGCCGAATGG
68655035 TTAATGCGAA
Statistics
Matches: 159, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
141 34 0.21
142 122 0.77
143 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (141 bp):
ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCAAATGTGATAAATGTGAACA
TGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGG
CAGAATGGCCA
Found at i:68655020 original size:47 final size:47
Alignment explanation
Indices: 68654708--68655000 Score: 424
Period size: 47 Copynumber: 6.2 Consensus size: 47
68654698 TTAGGATTTT
* ** * * * *
68654708 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
68654755 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
68654802 ATGTGATGAATGTGAACATGCATATGTGTGATAATGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
68654849 ATGTGATGAATATGAACATGCACATATGTGAATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTG-ATAAGGCCGAATGGCCA
* *
68654897 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
68654944 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
68654991 ATGTGATGAA
1 ATGTGATGAA
68655001 CGTGGAAGTG
Statistics
Matches: 225, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 182 0.81
48 43 0.19
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:68655033 original size:47 final size:47
Alignment explanation
Indices: 68654708--68655034 Score: 386
Period size: 47 Copynumber: 6.9 Consensus size: 47
68654698 TTAGGATTTT
* ** * * * * *
68654708 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
* * *
68654755 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
* *
68654802 ATGTGATGAATGTGAACATGCATATGTGTGATAATGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
* * *
68654849 ATGTGATGAATATGAACATGCACATATGTGAATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTG-ATAAAGCCGAATGGCCA
* * *
68654897 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
* * *
68654944 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
* * * **
68654991 ATGTGATGAACGTGGAA-GTGTATATATGTGGGAAAGCCGAATGG
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAAGCCGAATGG
68655035 TTAATGCGAA
Statistics
Matches: 251, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
47 205 0.82
48 46 0.18
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAAGCCGAATGGCCA
Found at i:68655067 original size:46 final size:46
Alignment explanation
Indices: 68655014--68655104 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
68655004 GGAAGTGTAT
* * *
68655014 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
68655060 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
68655105 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:68657744 original size:28 final size:28
Alignment explanation
Indices: 68657675--68657775 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
68657665 GACAAGATTG
* * * *
68657675 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
68657705 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
68657733 GCACTAAGTGTGCGAG-CTGAATATATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
68657762 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
68657776 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:68657769 original size:29 final size:28
Alignment explanation
Indices: 68657704--68657775 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
68657694 AAAATTGTAC
*
68657704 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
68657732 AGCACTAAGTGTGCGAG-CTGAATATATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
68657761 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
68657776 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:68666667 original size:9 final size:9
Alignment explanation
Indices: 68666653--68666679 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
68666643 AAATGGTACA
68666653 GATTAAATT
1 GATTAAATT
68666662 GATTAAATT
1 GATTAAATT
68666671 GATTAAATT
1 GATTAAATT
68666680 AAGTTTTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (9 bp):
GATTAAATT
Found at i:68667734 original size:23 final size:23
Alignment explanation
Indices: 68667705--68667757 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
68667695 GTTCAATTAT
68667705 ATGTTCATGAACATATTTGTTTA
1 ATGTTCATGAACATATTTGTTTA
*
68667728 ATGTTCATGAACATGTTTGTTTA
1 ATGTTCATGAACATATTTGTTTA
*
68667751 ATATTCA
1 ATGTTCA
68667758 CAAATATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.47
Consensus pattern (23 bp):
ATGTTCATGAACATATTTGTTTA
Found at i:68667766 original size:23 final size:23
Alignment explanation
Indices: 68667714--68667774 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
68667704 TATGTTCATG
* * **
68667714 AACATATTTGTTTAATGTTCATG
1 AACATGTTTGTTTAATATTCACA
68667737 AACATGTTTGTTTAATATTCACA
1 AACATGTTTGTTTAATATTCACA
* *
68667760 AATATGTTCGTTTAA
1 AACATGTTTGTTTAA
68667775 CTTAAACAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (23 bp):
AACATGTTTGTTTAATATTCACA
Found at i:68677231 original size:23 final size:23
Alignment explanation
Indices: 68677205--68677250 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
68677195 TTTAGTACTA
68677205 TGGTGCTCCTGAAA-CTAGCACTT
1 TGGTGCTCCT-AAATCTAGCACTT
*
68677228 TGGTGCTCCTAAATTTAGCACTT
1 TGGTGCTCCTAAATCTAGCACTT
68677251 ACGTGCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (23 bp):
TGGTGCTCCTAAATCTAGCACTT
Found at i:68677256 original size:23 final size:23
Alignment explanation
Indices: 68677207--68677258 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
68677197 TAGTACTATG
**
68677207 GTGCTCCTGAAACTAGCACTTTG
1 GTGCTCCTGAAACTAGCACTTAC
*
68677230 GTGCTCCT-AAATTTAGCACTTAC
1 GTGCTCCTGAAA-CTAGCACTTAC
68677253 GTGCTC
1 GTGCTC
68677259 TTGTATTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (23 bp):
GTGCTCCTGAAACTAGCACTTAC
Found at i:68690731 original size:27 final size:28
Alignment explanation
Indices: 68690674--68690743 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
68690664 AAATTTGTAC
**
68690674 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
68690702 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
68690729 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
68690744 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:68690752 original size:27 final size:27
Alignment explanation
Indices: 68690674--68690755 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
68690664 AAATTTGTAC
* *
68690674 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
68690702 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
68690729 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
68690756 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:68699990 original size:29 final size:28
Alignment explanation
Indices: 68699920--68699994 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
68699910 ATACTCGATT
* *
68699920 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
68699948 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
68699977 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
68699995 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:68700011 original size:29 final size:29
Alignment explanation
Indices: 68699978--68700051 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
68699968 CCTTCGAGCT
68699978 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
68700007 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
68700036 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
68700052 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:68707862 original size:29 final size:28
Alignment explanation
Indices: 68707792--68707866 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
68707782 ATACTCGATT
* *
68707792 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
68707820 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
68707849 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
68707867 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:68707883 original size:29 final size:29
Alignment explanation
Indices: 68707850--68707923 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
68707840 CCTTCGAGCT
68707850 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
68707879 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
68707908 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
68707924 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:68710961 original size:15 final size:15
Alignment explanation
Indices: 68710941--68710992 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
68710931 AGGCACGGGC
68710941 TGTCACACGACTGTG
1 TGTCACACGACTGTG
*
68710956 TGTCACAC-A-TGGG
1 TGTCACACGACTGTG
*
68710969 CTGTCACATGACTGTG
1 -TGTCACACGACTGTG
68710985 TGTCACAC
1 TGTCACAC
68710993 ACGGGCTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 3 0.10
14 8 0.27
15 16 0.53
16 3 0.10
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (15 bp):
TGTCACACGACTGTG
Found at i:68711018 original size:30 final size:29
Alignment explanation
Indices: 68710934--68711001 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
68710924 CGGTCTAAGG
*
68710934 CACGGGCTGTCACACGACTGTGTGTCACA
1 CACGGGCTGTCACATGACTGTGTGTCACA
*
68710963 CATGGGCTGTCACATGACTGTGTGTCACA
1 CACGGGCTGTCACATGACTGTGTGTCACA
68710992 CACGGGCTGT
1 CACGGGCTGT
68711002 TCGAATGGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.24
Consensus pattern (29 bp):
CACGGGCTGTCACATGACTGTGTGTCACA
Found at i:68711394 original size:27 final size:27
Alignment explanation
Indices: 68711364--68711417 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
68711354 AAAGTATTTT
68711364 TTATCATATTTAAATTAAGTTATTGAA
1 TTATCATATTTAAATTAAGTTATTGAA
68711391 TTATCATATTTAAATTAAGTTATTGAA
1 TTATCATATTTAAATTAAGTTATTGAA
68711418 AATAAATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (27 bp):
TTATCATATTTAAATTAAGTTATTGAA
Found at i:68711433 original size:27 final size:27
Alignment explanation
Indices: 68711369--68711433 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
68711359 ATTTTTTATC
* * *
68711369 ATATTTAAATTAAGTTATTGAATTATC
1 ATATGTAAATTAAGTTATTGAAATATA
*
68711396 ATATTTAAATTAAGTTATTGAAA-ATAA
1 ATATGTAAATTAAGTTATTGAAATAT-A
*
68711423 ATATGTGAATT
1 ATATGTAAATT
68711434 GAATGTTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (27 bp):
ATATGTAAATTAAGTTATTGAAATATA
Found at i:68726869 original size:62 final size:62
Alignment explanation
Indices: 68726795--68726912 Score: 191
Period size: 62 Copynumber: 1.9 Consensus size: 62
68726785 TATATCTCAT
* * *
68726795 GAGTATAGGGCATTTATTATATTTTGGTTCGAAACGTTATAAGTATTAAATAAAAATCTTAC
1 GAGTATAAGGCATTTATTATATCTTAGTTCGAAACGTTATAAGTATTAAATAAAAATCTTAC
* *
68726857 GAGTATAAGGCATTTATTATATCTTAGTTCGAGATGTTATAAGTATTAAATAAAAA
1 GAGTATAAGGCATTTATTATATCTTAGTTCGAAACGTTATAAGTATTAAATAAAAA
68726913 ATATCTGAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (62 bp):
GAGTATAAGGCATTTATTATATCTTAGTTCGAAACGTTATAAGTATTAAATAAAAATCTTAC
Found at i:68729568 original size:18 final size:18
Alignment explanation
Indices: 68729536--68729578 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
68729526 ATTAATTATT
68729536 ATATTTA-AAATAAAATC
1 ATATTTATAAATAAAATC
* *
68729553 ATATTTATATATAAAATG
1 ATATTTATAAATAAAATC
68729571 ATATTTAT
1 ATATTTAT
68729579 TTAATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
ATATTTATAAATAAAATC
Found at i:68729745 original size:21 final size:22
Alignment explanation
Indices: 68729721--68729762 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
68729711 TTAATTTCAA
68729721 ATTAATA-TAACTTTT-TTATTC
1 ATTAATATTAA-TTTTGTTATTC
68729742 ATTAATATTAATTTTGTTATT
1 ATTAATATTAATTTTGTTATT
68729763 ATCACATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTAATATTAATTTTGTTATTC
Found at i:68733239 original size:19 final size:18
Alignment explanation
Indices: 68733215--68733250 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
68733205 ATTTAGCCTT
*
68733215 TTTTTACTTTAATATTTTG
1 TTTTTAATTTAAT-TTTTG
68733234 TTTTTAATTTAATTTTT
1 TTTTTAATTTAATTTTT
68733251 ACATTTTAAT
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:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTAATTTAATTTTTG
Found at i:68739983 original size:8 final size:8
Alignment explanation
Indices: 68739970--68740002 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
68739960 CTAGATCTGC
68739970 AAAAGCCG
1 AAAAGCCG
68739978 AAAAGCCG
1 AAAAGCCG
*
68739986 AAATGCCG
1 AAAAGCCG
68739994 AAAAGCCG
1 AAAAGCCG
68740002 A
1 A
68740003 TATTTTGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.48, C:0.24, G:0.24, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:68740430 original size:27 final size:26
Alignment explanation
Indices: 68740389--68740500 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
68740379 AGAAAGCGTC
*
68740389 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
68740416 CTGGTGGCTCCGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
68740443 TTGGTGGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-GAT
* * *
68740471 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
68740497 CTGG
1 CTGG
68740501 CAGCGATGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.10
27 47 0.67
28 16 0.23
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:68740493 original size:54 final size:54
Alignment explanation
Indices: 68740390--68740496 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
68740380 GAAAGCGTCC
*
68740390 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCCGCCACATATATCTGTTT
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCCGCCACATATATCTGTTT
* * * * *
68740444 TGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCACAT-TATCTGTT
1 TGGTGGCTATGCCACAATTATCT-GATCTGGTGACTCCGCCACATATATCTGTT
68740497 CTGGCAGCGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.63
55 17 0.37
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.37
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCCGCCACATATATCTGTTT
Found at i:68741098 original size:18 final size:18
Alignment explanation
Indices: 68741075--68741114 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
68741065 CAAGCAAAGC
68741075 TTCCGAAATGAAAATATT
1 TTCCGAAATGAAAATATT
68741093 TTCCGAAATGAAAATATT
1 TTCCGAAATGAAAATATT
68741111 TTCC
1 TTCC
68741115 TAAAAAGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (18 bp):
TTCCGAAATGAAAATATT
Found at i:68741506 original size:17 final size:17
Alignment explanation
Indices: 68741464--68741506 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
68741454 GTGGAATGGG
* *
68741464 TTTACAAAAACAAAGAT
1 TTTATAAAAACAAAAAT
*
68741481 TTT-TGAAAACAAAAAT
1 TTTATAAAAACAAAAAT
68741497 TTTATAAAAA
1 TTTATAAAAA
68741507 TTGAAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (17 bp):
TTTATAAAAACAAAAAT
Found at i:68748346 original size:54 final size:54
Alignment explanation
Indices: 68748242--68748353 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
68748232 AGGAAGCGTC
*
68748242 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCTGTT
* * * *
68748296 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-AATCTGGTGACTCTGCCACATATATCTGTT
68748350 CTGG
1 CTGG
68748354 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTGCCACATATATCTGTT
Found at i:68748347 original size:27 final size:26
Alignment explanation
Indices: 68748242--68748353 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
68748232 AGGAAGCGTC
* **
68748242 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
68748269 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
68748296 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
68748324 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
68748350 CTGG
1 CTGG
68748354 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 7 0.09
27 53 0.69
28 17 0.22
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:68751509 original size:40 final size:40
Alignment explanation
Indices: 68751464--68751647 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
68751454 CTCGCACAAG
* *
68751464 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
68751504 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
68751544 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* * * *
68751584 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
68751624 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
68751648 CATTCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.02
40 123 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:68759596 original size:40 final size:40
Alignment explanation
Indices: 68759541--68759723 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
68759531 CTCGCACAAG
* * *
68759541 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
68759581 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
68759621 ACCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* * *
68759661 GCCTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAAT
68759701 GCCTTCGGGACTTAG-CCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
68759724 CATTCGAATA
Statistics
Matches: 125, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
39 12 0.10
40 108 0.86
41 5 0.04
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:68763434 original size:20 final size:20
Alignment explanation
Indices: 68763368--68763434 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
68763358 ATTTTGATAA
*
68763368 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
68763388 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
68763408 ACGTGATATGTATGATATGC
1 ACATGATATGTATGATATGC
68763428 ACATGAT
1 ACATGAT
68763435 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:68763542 original size:24 final size:24
Alignment explanation
Indices: 68763483--68763603 Score: 174
Period size: 24 Copynumber: 5.0 Consensus size: 24
68763473 GGAGGAAGTG
68763483 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
68763507 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
68763532 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
68763556 TAAAAGGGCTT-TTCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
68763579 TAAAAGAGGC-TATGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
68763604 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
23 17 0.20
24 39 0.45
25 31 0.36
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:68763555 original size:49 final size:48
Alignment explanation
Indices: 68763483--68763612 Score: 174
Period size: 49 Copynumber: 2.6 Consensus size: 48
68763473 GGAGGAAGTG
68763483 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTT-TGCCCCAGTTAT
* * *
68763532 TAAAAGGGCTTATGCCCTAGTTATTA-AAAGGGCTTTTCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTTGCCCCAGTTAT
68763579 TAAAAGAGGC-TATGCCTCCAGTTATATGATAAAG
1 TAAAAG-GGCTTATGCC-CCAG-T-TATGATAAAG
68763613 CAGCTATGCT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
47 23 0.32
48 15 0.21
49 25 0.35
50 4 0.06
51 4 0.06
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (48 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTTGCCCCAGTTAT
Found at i:68763832 original size:31 final size:31
Alignment explanation
Indices: 68763797--68763859 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
68763787 CGTTTACAGT
68763797 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
68763828 AAAGGCTTCGGCCCAGTGTTATGAACTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
68763859 A
1 A
68763860 GTGTGAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:68767853 original size:27 final size:28
Alignment explanation
Indices: 68767796--68767864 Score: 122
Period size: 27 Copynumber: 2.5 Consensus size: 28
68767786 AAATTTGTAC
*
68767796 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
68767824 AGCACTAAGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
68767851 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
68767865 AGACTCACTA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:68775781 original size:27 final size:28
Alignment explanation
Indices: 68775724--68775793 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
68775714 AAATTTGTAC
*
68775724 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
68775752 AGCACTAAGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
68775779 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
68775794 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:68782620 original size:20 final size:20
Alignment explanation
Indices: 68782554--68782620 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
68782544 ATTTTGATAA
*
68782554 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
68782574 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
68782594 ACGTGATATGTATGATATGC
1 ACATGATATGTATGATATGC
68782614 ACATGAT
1 ACATGAT
68782621 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:68782728 original size:24 final size:24
Alignment explanation
Indices: 68782669--68782789 Score: 183
Period size: 24 Copynumber: 5.0 Consensus size: 24
68782659 GGAGGAAGTG
68782669 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
68782693 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
68782718 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
68782742 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
68782765 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
68782790 ATGATAAAGC
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
23 19 0.21
24 40 0.44
25 31 0.34
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:68782741 original size:49 final size:48
Alignment explanation
Indices: 68782669--68782798 Score: 183
Period size: 49 Copynumber: 2.6 Consensus size: 48
68782659 GGAGGAAGTG
68782669 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTT-TGCCCCAGTTAT
*
68782718 TAAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTTGCCCCAGTTAT
*
68782765 TAAAAGAGGC-TAGGCCTCCAGTTATATGATAAAG
1 TAAAAG-GGCTTATGCC-CCAG-T-TATGATAAAG
68782799 CAGCTATGCT
Statistics
Matches: 73, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
47 23 0.32
48 16 0.22
49 26 0.36
50 4 0.05
51 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (48 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTTGCCCCAGTTAT
Found at i:68783021 original size:31 final size:31
Alignment explanation
Indices: 68782983--68783045 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
68782973 CGTTTACAGT
68782983 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* ** *
68783014 AAAGGCTTCGGCCCAGTGTTATGAACTATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
68783045 A
1 A
68783046 GTGTGAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:68784307 original size:21 final size:21
Alignment explanation
Indices: 68784283--68784417 Score: 69
Period size: 21 Copynumber: 6.4 Consensus size: 21
68784273 CCAAAGGCTG
68784283 AACAAAAGCTCATAAGAGCTA
1 AACAAAAGCTCATAAGAGCTA
* * * * *
68784304 AACAAAAACCCATAAGTGTTG
1 AACAAAAGCTCATAAGAGCTA
** * *
68784325 AACGGAAGCTCGTAAGAGCTG
1 AACAAAAGCTCATAAGAGCTA
* * *
68784346 AACAGAAA-CCCATAAGGGTTA
1 AACA-AAAGCTCATAAGAGCTA
* *
68784367 AACAGAAGCTCA-ATAGAGCTG
1 AACAAAAGCTCATA-AGAGCTA
* *
68784388 AACAGAAA-CTCATATGAGTTA
1 AACA-AAAGCTCATAAGAGCTA
*
68784409 AACAGAAGC
1 AACAAAAGC
68784418 CTGTGAGAGC
Statistics
Matches: 79, Mismatches: 29, Indels: 12
0.66 0.24 0.10
Matches are distributed among these distances:
20 5 0.06
21 69 0.87
22 5 0.06
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.16
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCTA
Found at i:68784334 original size:42 final size:42
Alignment explanation
Indices: 68784283--68784417 Score: 164
Period size: 42 Copynumber: 3.2 Consensus size: 42
68784273 CCAAAGGCTG
* * * * *
68784283 AACAAAAGCTCATAAGAGCTAAACAAAAACCCATAAGTGTTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTA
* *
68784325 AACGGAAGCTCGTAAGAGCTGAACAGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTA
* * *
68784367 AACAGAAGCTCA-ATAGAGCTGAACAGAAACTCATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTGAACAGAAACCCATAAGGGTTA
68784409 AACAGAAGC
1 AACAGAAGC
68784418 CTGTGAGAGC
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 1 0.01
42 79 0.99
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTA
Found at i:68786437 original size:37 final size:36
Alignment explanation
Indices: 68786391--68786460 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
68786381 ATGATAAACA
*
68786391 TTAAATTAATA-AAATACTATTAAGATAAGTATTAAAT
1 TTAAATTAATATAAA-ACTATTAAAATAA-TATTAAAT
* *
68786428 TTAATTTAATATTAAACTATTAAAATAATATTA
1 TTAAATTAATATAAAACTATTAAAATAATATTA
68786461 TTTTTGGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 5 0.17
37 22 0.76
38 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAAATTAATATAAAACTATTAAAATAATATTAAAT
Found at i:68786898 original size:19 final size:19
Alignment explanation
Indices: 68786860--68786899 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
68786850 AAAATATCAT
*
68786860 ATTAATTTAAATTGATTTG
1 ATTAATTTAAATTGACTTG
* *
68786879 ATTAATTTAATTTTACTTG
1 ATTAATTTAAATTGACTTG
68786898 AT
1 AT
68786900 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTGACTTG
Found at i:68790433 original size:29 final size:29
Alignment explanation
Indices: 68790400--68790531 Score: 210
Period size: 29 Copynumber: 4.6 Consensus size: 29
68790390 CCTTCGAGCT
** * *
68790400 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
68790429 TGCACACTTAGTGTCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
68790458 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
68790487 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
68790516 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
68790532 ATCTCGTCAC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:68790434 original size:58 final size:58
Alignment explanation
Indices: 68790371--68790531 Score: 178
Period size: 58 Copynumber: 2.8 Consensus size: 58
68790361 AATTTAAGCC
* * * * * *
68790371 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
68790429 TGCACACTTAGTGTCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * **
68790487 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCA
68790532 ATCTCGTCAC
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 89 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:68792324 original size:43 final size:43
Alignment explanation
Indices: 68792276--68792358 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
68792266 ACATGTATCA
* *
68792276 CATCCATTATGAACTTGAACCACTCAACGAGCTCGGATGCTCG
1 CATCCATAATGAACTCGAACCACTCAACGAGCTCGGATGCTCG
*
68792319 CATCCATAATGAACTCGAATCACTCAACGAGCTCGGATGC
1 CATCCATAATGAACTCGAACCACTCAACGAGCTCGGATGC
68792359 CACATATATC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (43 bp):
CATCCATAATGAACTCGAACCACTCAACGAGCTCGGATGCTCG
Found at i:68795618 original size:15 final size:15
Alignment explanation
Indices: 68795600--68795659 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
68795590 TATAGATAGC
*
68795600 AAGAAAACCAAGATA
1 AAGAAATCCAAGATA
* *
68795615 AAGAAGTCCGAGATA
1 AAGAAATCCAAGATA
*
68795630 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
68795645 AAGATATCCAAGATA
1 AAGAAATCCAAGATA
68795660 CAATACCGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:68795659 original size:30 final size:30
Alignment explanation
Indices: 68795601--68795659 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
68795591 ATAGATAGCA
*
68795601 AGAAAACCAAGATAAAGAAGTCCGAGATAG
1 AGAAAACCAAGATAAAGAAGTCCAAGATAG
*
68795631 AGAAATCCAAGATAAAGATA-TCCAAGATA
1 AGAAAACCAAGATAAAGA-AGTCCAAGATA
68795660 CAATACCGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.54, C:0.14, G:0.19, T:0.14
Consensus pattern (30 bp):
AGAAAACCAAGATAAAGAAGTCCAAGATAG
Found at i:68800921 original size:40 final size:40
Alignment explanation
Indices: 68800876--68801005 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
68800866 CGGAATATAA
68800876 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
68800916 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
68800956 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
68800996 CCGGATATAA
1 CCGGATATAA
68801006 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68801020 original size:40 final size:40
Alignment explanation
Indices: 68800892--68801043 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
68800882 ATAACCACGT
* * *
68800892 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
68800932 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
68800972 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
68801012 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
68801044 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:68801026 original size:80 final size:80
Alignment explanation
Indices: 68800892--68801041 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
68800882 ATAACCACGT
*
68800892 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
68800956 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
68800972 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
68801035 CCCGGAT
64 CCCGGAT
68801042 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:68808925 original size:40 final size:40
Alignment explanation
Indices: 68808880--68809046 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
68808870 CGGAATATAA
68808880 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
68808920 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
68808960 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
68809000 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
68809039 CCGGATAT
1 CCGGATAT
68809047 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 15 0.14
40 89 0.85
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68809030 original size:80 final size:79
Alignment explanation
Indices: 68808896--68809044 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
68808886 ATAATCACGT
*
68808896 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGG-CTTAGCC
68808961 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
68808976 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGCTTAGC
68809039 CCGGAT
64 CCGGAT
68809045 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:68817300 original size:27 final size:28
Alignment explanation
Indices: 68817243--68817312 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
68817233 AAATTTGTAC
**
68817243 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
68817271 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
68817298 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
68817313 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:68817321 original size:27 final size:27
Alignment explanation
Indices: 68817243--68817324 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
68817233 AAATTTGTAC
* *
68817243 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
68817271 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
68817298 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
68817325 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:68821847 original size:166 final size:166
Alignment explanation
Indices: 68821573--68821905 Score: 621
Period size: 166 Copynumber: 2.0 Consensus size: 166
68821563 TTTGTTGGCT
68821573 ATACTGACAGTGACTGGACTGACTCGATGGATAACATGAAGAGCACCTCAAGGTATGATTTCACC
1 ATACTGACAGTGACTGGACTGACTCGATGGATAACATGAAGAGCACCTCAAGGTATGATTTCACC
68821638 CTTGGCTCAGCCATTTTTTGTTAAAGCTCGAAGAAACAAAATGTAGTTGCTTAGTCAACTGCTGA
66 CTTGGCTCAGCCATTTTTTGTTAAAGCTCGAAGAAACAAAATGTAGTTGCTTAGTCAACTGCTGA
68821703 GGCAGAGTATGTAGCAGCAGCTGGAGCTGTTAACCA
131 GGCAGAGTATGTAGCAGCAGCTGGAGCTGTTAACCA
* * * *
68821739 ATACTGACAGTGACTGGGCTGGCTCGATGGATGACATGAAGAGCACCTCAAGGTATGTTTTCACC
1 ATACTGACAGTGACTGGACTGACTCGATGGATAACATGAAGAGCACCTCAAGGTATGATTTCACC
*
68821804 CTTGGCTCAGCCATTTTTTGTTAGAGCTCGAAGAAACAAAATGTAGTTGCTTAGTCAACTGCTGA
66 CTTGGCTCAGCCATTTTTTGTTAAAGCTCGAAGAAACAAAATGTAGTTGCTTAGTCAACTGCTGA
68821869 GGCAGAGTATGTAGCAGCAGCTGGAGCTGTTAACCA
131 GGCAGAGTATGTAGCAGCAGCTGGAGCTGTTAACCA
68821905 A
1 A
68821906 GCTGTGTGGC
Statistics
Matches: 162, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
166 162 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (166 bp):
ATACTGACAGTGACTGGACTGACTCGATGGATAACATGAAGAGCACCTCAAGGTATGATTTCACC
CTTGGCTCAGCCATTTTTTGTTAAAGCTCGAAGAAACAAAATGTAGTTGCTTAGTCAACTGCTGA
GGCAGAGTATGTAGCAGCAGCTGGAGCTGTTAACCA
Found at i:68835450 original size:54 final size:54
Alignment explanation
Indices: 68835391--68835505 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
68835381 AGCATGGCTG
*
68835391 CCAGAACAGATAT-TGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
68835445 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
*
68835499 TCAGAAC
1 CCAGAAC
68835506 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:68835453 original size:27 final size:27
Alignment explanation
Indices: 68835391--68835505 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
68835381 AGCATGGCTG
* *
68835391 CCAGAACAGAT-ATTGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
68835417 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
68835445 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
68835472 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
68835499 TCAGAAC
1 CCAGAAC
68835506 GCTTCCTCCA
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.67
28 18 0.24
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:68837158 original size:26 final size:26
Alignment explanation
Indices: 68837120--68837203 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
68837110 CATGAAATTC
* *
68837120 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
68837146 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
68837172 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
68837198 TTATCA
1 TTATCA
68837204 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:68841861 original size:46 final size:46
Alignment explanation
Indices: 68841811--68842078 Score: 348
Period size: 46 Copynumber: 5.8 Consensus size: 46
68841801 TGGTTGAGCA
*
68841811 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
68841857 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* *
68841902 CATCCGAATTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
68841950 -CCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
68841996 CCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
68842042 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68842079 GCGGGTTACA
Statistics
Matches: 196, Mismatches: 15, Indels: 22
0.84 0.06 0.09
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
45 5 0.03
46 146 0.74
47 29 0.15
48 3 0.02
50 4 0.02
51 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:68844085 original size:27 final size:26
Alignment explanation
Indices: 68844047--68844162 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
68844037 CAGCATGGCT
* *
68844047 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
68844073 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
68844101 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
** * *
68844128 ACCAGATTAGATATTTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
68844155 ACCAGAAC
1 ACCAGAAC
68844163 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.08
27 56 0.71
28 17 0.22
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:68844106 original size:54 final size:54
Alignment explanation
Indices: 68844047--68844162 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
68844037 CAGCATGGCT
*
68844047 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* * * * *
68844101 ACCAGAACAGATATATGTGGCAGAGCCACCAGATTAGATATTTGTGGCATAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
68844155 ACCAGAAC
1 ACCAGAAC
68844163 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:68845815 original size:26 final size:26
Alignment explanation
Indices: 68845779--68845888 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
68845769 CATGAAATTC
68845779 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
68845805 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
68845831 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
68845857 TTATCATTG-AAGATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
68845883 TTATCA
1 TTATCA
68845889 ATTTGTACCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:68853960 original size:36 final size:36
Alignment explanation
Indices: 68853913--68853984 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
68853903 CACTGAGTTG
68853913 TAAACTCATTTATTTTGTTTGTTTGGATTACAGGTA
1 TAAACTCATTTATTTTGTTTGTTTGGATTACAGGTA
68853949 TAAACTCATTTATTTTGTTTGTTTGGATTACAGGTA
1 TAAACTCATTTATTTTGTTTGTTTGGATTACAGGTA
68853985 ACCCAAAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (36 bp):
TAAACTCATTTATTTTGTTTGTTTGGATTACAGGTA
Found at i:68854522 original size:16 final size:17
Alignment explanation
Indices: 68854503--68854559 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 17
68854493 TAATAAGATT
68854503 TAATATTAAT-TTAATA
1 TAATATTAATATTAATA
* *
68854519 TAATATTTATCTTAATA
1 TAATATTAATATTAATA
*
68854536 -AATATT-ATATTAATT
1 TAATATTAATATTAATA
68854551 TAATATTAA
1 TAATATTAA
68854560 AGTTATTAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 7 0.20
16 21 0.60
17 7 0.20
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATATTAATATTAATA
Found at i:68854545 original size:21 final size:20
Alignment explanation
Indices: 68854485--68854555 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
68854475 ATAAACATTC
* *
68854485 TATTATTTTAATAAGATTTAA
1 TATTAATTTAATAA-ATATAA
68854506 TATTAA-TT--T-AATATAA
1 TATTAATTTAATAAATATAA
* *
68854522 TATTTATCTTAATAAATATTA
1 TATTAAT-TTAATAAATATAA
68854543 TATTAATTTAATA
1 TATTAATTTAATA
68854556 TTAAAGTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
16 10 0.25
17 1 0.03
18 3 0.08
20 9 0.22
21 17 0.43
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (20 bp):
TATTAATTTAATAAATATAA
Found at i:68854553 original size:5 final size:6
Alignment explanation
Indices: 68854502--68854559 Score: 56
Period size: 5 Copynumber: 10.7 Consensus size: 6
68854492 TTAATAAGAT
* *
68854502 TTAATA TTAAT- TTAATA -TAATA TTTATC TTAATA --AATA TT-ATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
68854545 TTAAT- TTAATA TTAA
1 TTAATA TTAATA TTAA
68854560 AGTTATTAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
4 4 0.10
5 20 0.48
6 18 0.43
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:68856550 original size:20 final size:20
Alignment explanation
Indices: 68856517--68856560 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
68856507 CTCAATTATA
*
68856517 TCATATTAGCCATGATCCAT
1 TCATATTAGCCATGAGCCAT
68856537 TCAT-TTAGCACATGAGCCAT
1 TCATATTAGC-CATGAGCCAT
68856557 TCAT
1 TCAT
68856561 CGCACATCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (20 bp):
TCATATTAGCCATGAGCCAT
Found at i:68858797 original size:29 final size:29
Alignment explanation
Indices: 68858755--68858884 Score: 206
Period size: 29 Copynumber: 4.5 Consensus size: 29
68858745 GTGACAAGAT
68858755 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
68858784 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
*
68858813 TGGCACTAAGTGTGCAAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
* * ***
68858842 TGGCACTATGTGTGCGAGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
68858871 TGGCACTAAGTGTG
1 TGGCACTAAGTGTG
68858885 TGAGATCGTT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 93 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTAAATTATA
Found at i:68864942 original size:17 final size:19
Alignment explanation
Indices: 68864900--68864943 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
68864890 ATGAAATTTT
*
68864900 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
68864919 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
68864937 AA-TATTA
1 AATTATTA
68864944 CTATATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:68866804 original size:28 final size:28
Alignment explanation
Indices: 68866772--68866830 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
68866762 GCGTAGATCA
68866772 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
68866800 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
68866828 CGA
1 CGA
68866831 TATACCTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:68870250 original size:29 final size:29
Alignment explanation
Indices: 68870088--68870249 Score: 243
Period size: 29 Copynumber: 5.6 Consensus size: 29
68870078 GTGACAAGAT
*
68870088 TGGCACTAAGTGTGCAAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
*
68870117 TGGCACTAAGTGTGCGAACCTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
*
68870146 TGGCACTAAGTGTGTGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
*
68870175 TGGCACTAAGTGTGCAAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
* * ***
68870204 TGGCACTATGTGTGCGAGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAACTTAAATTATA
68870233 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
68870250 GATCGTTTAT
Statistics
Matches: 120, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 120 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTAAATTATA
Found at i:68881980 original size:40 final size:40
Alignment explanation
Indices: 68881897--68882082 Score: 164
Period size: 40 Copynumber: 4.7 Consensus size: 40
68881887 TCAAATGATG
* * * *
68881897 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
68881937 TCCGGACTAGGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** * *
68881977 TCCGGGTTAAGTCCCAAAGGCATTTATGCGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
** * * *
68882017 TCCGGGTTAAGTCCCGAAGGCGTTTATGCGAGTTGCTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
68882058 -CC-GAGCTATGTCCCGAAGGCGTTTG
1 TCCGGA-CTAAGTCCCGAAGGCATTTG
68882083 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 112 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:68887005 original size:28 final size:28
Alignment explanation
Indices: 68886940--68887040 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
68886930 ATAGTGAATC
*
68886940 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
68886969 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
68886997 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
68887027 CGCACACTTAGTGC
1 CGCACACTTAGTGC
68887041 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:68894975 original size:28 final size:28
Alignment explanation
Indices: 68894910--68895010 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
68894900 ATAGTGAATC
*
68894910 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
68894939 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
68894967 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
68894997 CGCACACTTAGTGC
1 CGCACACTTAGTGC
68895011 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:68900716 original size:93 final size:93
Alignment explanation
Indices: 68900609--68900779 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
68900599 GCCCATAAGT
* *
68900609 GAACTCGGACTCAACTCAACGAGCT-CGAGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTAGGA-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
68900673 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
* * *
68900702 GAACTCGGACTCAACTCAATGAGTTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
68900767 CGAGTTCGGATGC
66 CGAGTTCGGATGC
68900780 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTAGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:68900764 original size:46 final size:46
Alignment explanation
Indices: 68900601--68900772 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
68900591 TGTAACTCGC
* * *
68900601 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTGGAGCATTCGCAT
* *
68900647 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT-GGA-G-C-A-TTCGCAT
* * * *
68900697 --TTCA-CGAACTCGGACTCAACTCAATGAGTTAGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT-GGAGCATTCGCAT
68900740 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
68900773 CGGATGCTCA
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 55 0.54
47 28 0.28
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTGGAGCATTCGCAT
Found at i:68901233 original size:30 final size:30
Alignment explanation
Indices: 68901199--68901257 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
68901189 ATTTAATACG
68901199 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
68901229 AACTTTTGCATAATTACACTTTTGCCCCT
1 AACTTTAAAAAAATTACACTTTTGCCCCT
68901258 GGCTCGAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:68909356 original size:28 final size:28
Alignment explanation
Indices: 68909324--68909388 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
68909314 ATTTACTAGA
*
68909324 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
68909352 ATACCCCTATGTATGCAAAATGATCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
68909380 ATACCCCTA
1 ATACCCCTA
68909389 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:68909567 original size:29 final size:28
Alignment explanation
Indices: 68909504--68909567 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
68909494 CTGGTGGCTA
* *
68909504 TGCCACAAATTATCTGTTCTGATGGCAC
1 TGCCACAAAATATCTGTTCTGATGACAC
* *
68909532 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGATGACAC
*
68909561 TGTCACA
1 TGCCACA
68909568 TTTTTGTATC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGATGACAC
Found at i:68917206 original size:28 final size:28
Alignment explanation
Indices: 68917174--68917238 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
68917164 ATTTACTAGA
*
68917174 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
68917202 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
68917230 ATACCCCTA
1 ATACCCCTA
68917239 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:68917445 original size:29 final size:28
Alignment explanation
Indices: 68917344--68917434 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
68917334 AGGAAGCGTC
*
68917344 CTGGTGGCTA-TGCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
68917372 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
68917400 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
68917429 CTGGTG
1 CTGGTG
68917435 ACTCTGTCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:68917459 original size:56 final size:55
Alignment explanation
Indices: 68917344--68917459 Score: 128
Period size: 56 Copynumber: 2.1 Consensus size: 55
68917334 AGGAAGCGTC
* *
68917344 CTGGTGGCTATGCCACAAATTATCTATTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCAC-AATTATCTGTT
* * * *
68917400 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTAT-TCTGGTGACCCTGCCACAATTATCTGT-T
68917456 CTGG
1 CTGG
68917460 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
55 9 0.18
56 28 0.55
57 14 0.27
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACAATTATCTGTT
Found at i:68927491 original size:47 final size:47
Alignment explanation
Indices: 68927420--68927830 Score: 249
Period size: 47 Copynumber: 8.7 Consensus size: 47
68927410 AGGGTATAGT
*
68927420 GCCGATGCCATGTCCCAGGCATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
* * * * *
68927467 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAACCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATC-AA
* * * * *
68927516 GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTC-TCAGATATCCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC---CAT-CAA
* * * * * * * *
68927566 GCCGATGCCCTGTCCCAGACGTGGTCTTACATTGACACCTCTATACAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCAT-CAA
* * * *
68927614 GCTGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-C-TCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATC-AA
* *
68927660 GCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACAT-C-TCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATCAA
* * *
68927705 GACCGATG-CATGTCCTAGACAT-GTCTCACACTAGCTC-TCGTC-TCAA
1 G-CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATCAA
* * * * ***
68927751 TGGCGATGCCATGTCCCAGACATGATCTTACATTGGATCTCAT-AATGTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCATCCATCAA
68927800 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
68927831 AGCACAAAAA
Statistics
Matches: 291, Mismatches: 52, Indels: 43
0.75 0.13 0.11
Matches are distributed among these distances:
43 1 0.00
44 13 0.04
45 18 0.06
46 61 0.21
47 62 0.21
48 57 0.20
49 38 0.13
50 37 0.13
51 4 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
Found at i:68929103 original size:43 final size:42
Alignment explanation
Indices: 68929039--68929128 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 42
68929029 GGCTGTTACA
* *
68929039 GGCATCGTATTTGATTTCATGTAAGACC-CTGTCTGGGATAGT
1 GGCATCGTATTTGATTACATGTAAGACCAC-GTCTGGGACAGT
*
68929081 GGCATCGATATTTGATTACATGTAAGACCACGTCTGGGACATT
1 GGCATCG-TATTTGATTACATGTAAGACCACGTCTGGGACAGT
68929124 GGCAT
1 GGCAT
68929129 TGTACGAGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 7 0.16
43 35 0.81
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
GGCATCGTATTTGATTACATGTAAGACCACGTCTGGGACAGT
Found at i:68936386 original size:44 final size:41
Alignment explanation
Indices: 68936323--68936484 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 41
68936313 TTTCGTTATG
*
68936323 TGATTTCGTATAAGACCATGTTTGGGACGTTGGCATCGATT
1 TGATTTCGTGTAAGACCATGTTTGGGACGTTGGCATCGATT
* *
68936364 TGAGATTTACGTGTAAGACCATGTATGGGA-GATCGGCATCGTATT
1 T--GATTT-CGTGTAAGACCATGTTTGGGACG-TTGGCATCG-ATT
* * * *
68936409 TGATTTCGTGTAAGACCCTGTTTAGGATAG-TGGCTTCGATTTT
1 TGATTTCGTGTAAGACCATGTTTGGGA-CGTTGGCATCGA--TT
* * * *
68936452 TGATTACATGTAAGACCACGTCTGGGACGTTGG
1 TGATTTCGTGTAAGACCATGTTTGGGACGTTGG
68936485 TATTGTACGA
Statistics
Matches: 96, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
41 2 0.02
42 25 0.26
43 37 0.39
44 28 0.29
45 4 0.04
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.35
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTTTGGGACGTTGGCATCGATT
Found at i:68938059 original size:9 final size:9
Alignment explanation
Indices: 68938045--68938070 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
68938035 ATGTATATAT
68938045 TTGAAATAC
1 TTGAAATAC
68938054 TTGAAATAC
1 TTGAAATAC
68938063 TTGAAATA
1 TTGAAATA
68938071 TGAATGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (9 bp):
TTGAAATAC
Found at i:68938237 original size:23 final size:23
Alignment explanation
Indices: 68938200--68938346 Score: 111
Period size: 23 Copynumber: 6.3 Consensus size: 23
68938190 TCACCACAAC
** *
68938200 TCAGCTCATTGGAGCTTACCGAT
1 TCAGCTCATAAGAGCTTACCGTT
* *
68938223 TCAGCTCGTAAGAGCTTACTGTT
1 TCAGCTCATAAGAGCTTACCGTT
**
68938246 TCAGCTCATTGGAGCTTACCGTT
1 TCAGCTCATAAGAGCTTACCGTT
*
68938269 TCAGCTTGA-AAGAGCTTA-C-TAT
1 TCAGC-TCATAAGAGCTTACCGT-T
* *
68938291 TCAGCTCATTAGAGTTTACCGTT
1 TCAGCTCATAAGAGCTTACCGTT
* * * *
68938314 TTAGCTCATTAGAGCCTACTGTCT
1 TCAGCTCATAAGAGCTTACCGT-T
68938338 ATCAGCTCA
1 -TCAGCTCA
68938347 AGAGAAGCTT
Statistics
Matches: 97, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
21 3 0.03
22 14 0.14
23 69 0.71
24 4 0.04
25 7 0.07
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (23 bp):
TCAGCTCATAAGAGCTTACCGTT
Found at i:68938253 original size:46 final size:46
Alignment explanation
Indices: 68938200--68938346 Score: 179
Period size: 46 Copynumber: 3.2 Consensus size: 46
68938190 TCACCACAAC
*
68938200 TCAGCTCATTGGAGCTTACCGATTCAGCTCGTAAGAGCTTACTGTT
1 TCAGCTCATTGGAGCTTACCGTTTCAGCTCGTAAGAGCTTACTGTT
* * *
68938246 TCAGCTCATTGGAGCTTACCGTTTCAGCTTGAAAGAGCTTACT-AT
1 TCAGCTCATTGGAGCTTACCGTTTCAGCTCGTAAGAGCTTACTGTT
* * * * * *
68938291 TCAGCTCATTAGAGTTTACCGTTTTAGCTCATTAGAGCCTACTGTCT
1 TCAGCTCATTGGAGCTTACCGTTTCAGCTCGTAAGAGCTTACTGT-T
68938338 ATCAGCTCA
1 -TCAGCTCA
68938347 AGAGAAGCTT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
45 36 0.42
46 40 0.47
47 1 0.01
48 8 0.09
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (46 bp):
TCAGCTCATTGGAGCTTACCGTTTCAGCTCGTAAGAGCTTACTGTT
Done.