Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 211 of 378
Found at i:62518640 original size:40 final size:40
Alignment explanation
Indices: 62518542--62518732 Score: 220
Period size: 40 Copynumber: 4.8 Consensus size: 40
62518532 CGAATGGTGT
* * * * * *
62518542 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* * *
62518583 CCGGGTCAATTCTCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
62518623 CCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
62518663 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
62518703 CCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
62518733 ATCACTATAA
Statistics
Matches: 129, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 106 0.82
41 23 0.18
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:62518745 original size:80 final size:78
Alignment explanation
Indices: 62518541--62518774 Score: 227
Period size: 80 Copynumber: 2.9 Consensus size: 78
62518531 TCGAATGGTG
* * * * *
62518541 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCTCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGCGAA-TCACTAAA-CCGGGTCAAGTCCCGAAGGCATT
*
62518606 TGTGCGAGTTACCAAA
63 CGTGCGAGTTACCAAA
* * * * * * *
62518622 ACCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATT-GTGCGAATCA-CTAAACCGGGTCAAGTCCCGAAGGCATTC
*
62518687 GTGCGAGTTACTAAA
64 GTGCGAGTTACCAAA
* * *
62518702 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAAT
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGCGAATCACTA-AACCGGGTCAA-GTCCCGAAGGCATT
*
62518766 CGAGCGAGT
63 CGTGCGAGT
62518775 CGCTATATCC
Statistics
Matches: 124, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
79 4 0.03
80 90 0.73
81 30 0.24
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAATCACTAAACCGGGTCAAGTCCCGAAGGCATTCGT
GCGAGTTACCAAA
Found at i:62518747 original size:40 final size:39
Alignment explanation
Indices: 62518542--62518774 Score: 186
Period size: 40 Copynumber: 5.8 Consensus size: 39
62518532 CGAATGGTGT
** * *
62518542 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAA
* * * *
62518582 TCCGGG-TCAATTCTCGAAGGCATTTGTGCGAGTTACCAAAA
1 -CCGGGCT-AAGTCCCGAAGGCAATTGTGCGAGTTA-CTAAA
* * *
62518623 CCGGGTTAAGTCCCGAAGGC-ATTCGTACGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTA-CTAAA
*
62518663 CCGGGTTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTACTAAA
* * *
62518702 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
* * *
62518743 CCGGGC-AATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAA-GTCCCGAAGGCAATTGTGCGAGT
62518775 CGCTATATCC
Statistics
Matches: 163, Mismatches: 21, Indels: 17
0.81 0.10 0.08
Matches are distributed among these distances:
39 8 0.05
40 122 0.75
41 33 0.20
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
Found at i:62518756 original size:120 final size:121
Alignment explanation
Indices: 62518542--62518760 Score: 291
Period size: 120 Copynumber: 1.8 Consensus size: 121
62518532 CGAATGGTGT
* * * *
62518542 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCTCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* * *
62518607 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTACCAAAA
66 GTGCGAATCACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTACGAGTTACCAAAA
* * *
62518663 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
62518726 TGTGCGAATCACTATAACCGGG-CAATGTCCCGAAG
65 TGTGCGAATCACCAAAACCGGGTCAA-GTCCCGAAG
62518761 ACAATCGAGC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 3 0.04
120 56 0.67
121 25 0.30
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATCACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTACGAGTTACCAAAA
Found at i:62523276 original size:28 final size:29
Alignment explanation
Indices: 62523207--62523279 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
62523197 TAATCAACCA
*
62523207 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
*
62523236 CGCACACTTAGTGCCATGCA-TTTCAAGC-
1 CGCACACTTAGTGCCATGCACTTT-AAACT
62523264 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
62523280 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
28 19 0.46
29 22 0.54
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:62523937 original size:2 final size:2
Alignment explanation
Indices: 62523919--62523952 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
62523909 TGATGGCCGA
* *
62523919 AT AT CT AT AT CT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62523953 CAACTATACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62528944 original size:40 final size:40
Alignment explanation
Indices: 62528819--62528970 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
62528809 TCGAATGATG
*
62528819 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * * *
62528859 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
62528899 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
62528940 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
62528971 TCGCTATATC
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 80 0.87
41 11 0.12
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:62531335 original size:103 final size:102
Alignment explanation
Indices: 62531165--62531370 Score: 367
Period size: 103 Copynumber: 2.0 Consensus size: 102
62531155 TGGGCATTGG
62531165 TCAGTTTGGGCCACTTTGGGCCAAGTGGGTCGTGTAGGCCCTACAAGCTCGTAGGCTCAGCACGG
1 TCAGTTTGGGCCACTTTGGGCCAAGTGGGTCGTGTAGGCCCTACAAGCTCGTAGGCTCAGCACGG
* *
62531230 GTAAACTGCACGGATGTGTGAAGATTTTTGGGCCGGC
66 GTAAACTGAACGGATGTGTGAAGATTTTCGGGCCGGC
* *
62531267 TCAGTTTGGGCCACTTTGGGCCAAGATGGGTCGTGTGGGCCCTACAAGCTCGTAGGCTCAGCATG
1 TCAGTTTGGGCCACTTTGGGCCAAG-TGGGTCGTGTAGGCCCTACAAGCTCGTAGGCTCAGCACG
62531332 GGTAAACTGAACGGATGTGTGAAGATTTTCGGGCCGGC
65 GGTAAACTGAACGGATGTGTGAAGATTTTCGGGCCGGC
62531370 T
1 T
62531371 GTGTAGTATG
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
102 25 0.25
103 74 0.75
ACGTcount: A:0.19, C:0.22, G:0.34, T:0.25
Consensus pattern (102 bp):
TCAGTTTGGGCCACTTTGGGCCAAGTGGGTCGTGTAGGCCCTACAAGCTCGTAGGCTCAGCACGG
GTAAACTGAACGGATGTGTGAAGATTTTCGGGCCGGC
Found at i:62537164 original size:40 final size:40
Alignment explanation
Indices: 62537079--62537229 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
62537069 AATTGAATGA
* * *
62537079 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
62537119 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
62537160 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
62537199 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
62537230 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:62537243 original size:40 final size:40
Alignment explanation
Indices: 62537115--62537245 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
62537105 TATGCTGGAA
* * *
62537115 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
62537155 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
62537195 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
62537235 ATTATATCCGG
1 ATTATATCCGG
62537246 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:62545241 original size:40 final size:40
Alignment explanation
Indices: 62545113--62545243 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
62545103 TATGCTGGAA
* * * *
62545113 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
62545153 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
62545193 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
62545233 ATTATATCCGG
1 ATTATATCCGG
62545244 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:62553201 original size:20 final size:20
Alignment explanation
Indices: 62553176--62553215 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
62553166 TGGAGGCCAC
*
62553176 TTTGTGAATATAATAGCTTT
1 TTTGTGAATATAATAACTTT
62553196 TTTGTGAATATAATAACTTT
1 TTTGTGAATATAATAACTTT
62553216 GGACACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTGTGAATATAATAACTTT
Found at i:62553308 original size:51 final size:51
Alignment explanation
Indices: 62553196--62553345 Score: 221
Period size: 51 Copynumber: 3.0 Consensus size: 51
62553186 TAATAGCTTT
* *
62553196 TTTGTGAATATAATAACTTTGGACACAAGTGTGGTACTATGT-AAGGCCAC
1 TTTGTGAATAAAATAACTTTGGATACAAGTGTGGTACTATGTGAAGGCCAC
* * *
62553246 TTTGTGAATAAAATAGCTTTGGATACAAGTTTGGTACTGTGTGAAGGCCAC
1 TTTGTGAATAAAATAACTTTGGATACAAGTGTGGTACTATGTGAAGGCCAC
* * *
62553297 TTTGTGAATAAAATATCTTTGGCTACAAGGGTGGTACTATGTGAAGGCC
1 TTTGTGAATAAAATAACTTTGGATACAAGTGTGGTACTATGTGAAGGCC
62553346 GCCGTGTATA
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 37 0.42
51 52 0.58
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (51 bp):
TTTGTGAATAAAATAACTTTGGATACAAGTGTGGTACTATGTGAAGGCCAC
Found at i:62554213 original size:41 final size:41
Alignment explanation
Indices: 62554156--62554239 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
62554146 AAAAGCATGT
62554156 TAATAAATTTCTTACTATTTACATACCAACTTACTAAGCTA
1 TAATAAATTTCTTACTATTTACATACCAACTTACTAAGCTA
62554197 TAATAAATTTCTTACTATTTACATACCAACTTACTAAGCTA
1 TAATAAATTTCTTACTATTTACATACCAACTTACTAAGCTA
62554238 TA
1 TA
62554240 TAGCTTACTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.39
Consensus pattern (41 bp):
TAATAAATTTCTTACTATTTACATACCAACTTACTAAGCTA
Found at i:62554917 original size:34 final size:34
Alignment explanation
Indices: 62554879--62554946 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
62554869 TTCGGTGTTG
*
62554879 AACACGGGTAAGGGGTGTTACAAGAAGGAAGTTT
1 AACACGGGTAAGAGGTGTTACAAGAAGGAAGTTT
*
62554913 AACACGGGTAAGAGGTGTTATAAGAAGGAAGTTT
1 AACACGGGTAAGAGGTGTTACAAGAAGGAAGTTT
62554947 GATTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.37, C:0.07, G:0.34, T:0.22
Consensus pattern (34 bp):
AACACGGGTAAGAGGTGTTACAAGAAGGAAGTTT
Found at i:62557091 original size:19 final size:19
Alignment explanation
Indices: 62557024--62557097 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 19
62557014 TAAGTTAAAT
62557024 TAAAAAATATTAATTACTA
1 TAAAAAATATTAATTACTA
* *
62557043 TATACAATATTAATTTACATAA
1 TAAAAAATATTAA-TTAC-T-A
*
62557065 TTTAAAAAATAATAATTACTA
1 --TAAAAAATATTAATTACTA
62557086 TAAAAAAGTATT
1 TAAAAAA-TATT
62557098 GGTACAATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
19 18 0.42
20 7 0.16
21 2 0.05
22 2 0.05
23 4 0.09
24 10 0.23
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.38
Consensus pattern (19 bp):
TAAAAAATATTAATTACTA
Found at i:62559450 original size:42 final size:42
Alignment explanation
Indices: 62559370--62559526 Score: 111
Period size: 42 Copynumber: 3.6 Consensus size: 42
62559360 GAGTGCCAAA
* * * *
62559370 GCCATGTCCTAGACATGGTCTTATATAGGTCTGTATATCGAT
1 GCCATATCCTAGACATGGTCTTATAAAAGTCTGCATATCGAT
*
62559412 GCCATATCCTAGATATGGTCTTATACAAAGTCT-CATATCGGTGCCGAT
1 GCCATATCCTAGACATGGTCTTATA-AAAGTCTGCATA----T--CGAT
* * * * * *
62559460 TCCATATCCCAGACGTGGTCTTATATAGGACCT-CATATCGAT
1 GCCATATCCTAGACATGGTCTTATAAAAG-TCTGCATATCGAT
* *
62559502 GCCATGTCCCAGACATGGTCTTATA
1 GCCATATCCTAGACATGGTCTTATA
62559527 CGAAATCACT
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
42 52 0.57
43 5 0.05
44 1 0.01
46 1 0.01
47 2 0.02
48 31 0.34
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (42 bp):
GCCATATCCTAGACATGGTCTTATAAAAGTCTGCATATCGAT
Found at i:62559555 original size:90 final size:90
Alignment explanation
Indices: 62559368--62559574 Score: 222
Period size: 90 Copynumber: 2.3 Consensus size: 90
62559358 TAGAGTGCCA
* * * * * * *
62559368 AAGCCATGTCCTAGACATGGTCTTATATAGGTCTGTATATCGATGCCATATCCTAGATATGGTCT
1 AAGCCATATCCCAGACGTGGTCTTATATAGGCCTGCATATCGATGCCATATCCCAGACATGGTCT
* * *
62559433 TATACAAAGTCTCATATCGGTGCCG
66 TATACAAAGTCACATATCGATACCG
** *
62559458 ATTCCATATCCCAGACGTGGTCTTATATAGGACCT-CATATCGATGCCATGTCCCAGACATGGTC
1 AAGCCATATCCCAGACGTGGTCTTATATAGG-CCTGCATATCGATGCCATATCCCAGACATGGTC
*
62559522 TTATACGAAA-TCACTTAAT-GATACCG
65 TTATAC-AAAGTCACAT-ATCGATACCG
* *
62559548 AAGCCATATCCCTGATGTGGTCTTATA
1 AAGCCATATCCCAGACGTGGTCTTATA
62559575 CATGATCACA
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
90 89 0.93
91 7 0.07
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (90 bp):
AAGCCATATCCCAGACGTGGTCTTATATAGGCCTGCATATCGATGCCATATCCCAGACATGGTCT
TATACAAAGTCACATATCGATACCG
Found at i:62559602 original size:48 final size:47
Alignment explanation
Indices: 62559498--62559616 Score: 112
Period size: 48 Copynumber: 2.5 Consensus size: 47
62559488 GACCTCATAT
* * * * *
62559498 CGATGCCATGTCCCAGACATGGTCTTATACGAAATCACTTAATGATAC
1 CGATGCCATATCCCAGACATGGTCTTATAC-AAATCACATATTGGTGC
* * ** *
62559546 CGAAGCCATATCCCTGATGTGGTCTTATACATGATCACATATTGGTGC
1 CGATGCCATATCCCAGACATGGTCTTATACA-AATCACATATTGGTGC
* *
62559594 CGATGCCATGTCCCAGGCATGGT
1 CGATGCCATATCCCAGACATGGT
62559617 ATTACACTAG
Statistics
Matches: 54, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
47 1 0.02
48 53 0.98
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (47 bp):
CGATGCCATATCCCAGACATGGTCTTATACAAATCACATATTGGTGC
Found at i:62559711 original size:49 final size:48
Alignment explanation
Indices: 62559581--62559720 Score: 163
Period size: 48 Copynumber: 2.9 Consensus size: 48
62559571 TATACATGAT
* * *
62559581 CACATATTGGTGCCGATGCCATGTCCCAGGCATGGTATTACACTAGCA
1 CACATATCGATGCCGATGCCATGTCCCAGACATGGTATTACACTAGCA
* ** * * *
62559629 CACATATCTACACCGATACCATGTCCCAAACATGGTATTACACTAGCT
1 CACATATCGATGCCGATGCCATGTCCCAGACATGGTATTACACTAGCA
* * *
62559677 CTCATCTCGGATGCCGATGCCATGTCCCAGACATGGTCTTACAC
1 CACATATC-GATGCCGATGCCATGTCCCAGACATGGTATTACAC
62559721 GGGATCTCAT
Statistics
Matches: 74, Mismatches: 17, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
48 45 0.61
49 29 0.39
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (48 bp):
CACATATCGATGCCGATGCCATGTCCCAGACATGGTATTACACTAGCA
Found at i:62562393 original size:23 final size:23
Alignment explanation
Indices: 62562363--62562433 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
62562353 CACAAAGACA
62562363 ATCATTAGAATCAGAATTATAAC
1 ATCATTAGAATCAGAATTATAAC
*
62562386 ATCATTAGAAT-A-AA-GA-AAC
1 ATCATTAGAATCAGAATTATAAC
*
62562405 AATCATTAGAATCAGAATTATTAC
1 -ATCATTAGAATCAGAATTATAAC
62562429 ATCAT
1 ATCAT
62562434 ATGCATTTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 3 0.08
20 12 0.30
21 3 0.08
22 3 0.08
23 17 0.43
24 2 0.05
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (23 bp):
ATCATTAGAATCAGAATTATAAC
Found at i:62564920 original size:37 final size:37
Alignment explanation
Indices: 62564862--62565043 Score: 292
Period size: 37 Copynumber: 4.9 Consensus size: 37
62564852 GCTCAGACGA
* * * * *
62564862 AATCTCCATACGAAGTTATCGGGTCTTACCTGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
62564899 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* *
62564936 ACTCCCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
62564973 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
62565010 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
62565044 ATATATTTCC
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 135 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:62565247 original size:50 final size:49
Alignment explanation
Indices: 62565193--62565425 Score: 362
Period size: 50 Copynumber: 4.7 Consensus size: 49
62565183 CATCGCCTAC
62565193 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACA-TAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* * *
62565243 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTC--ATAC
1 ATATTTCACATAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
62565291 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACA-TAGCCATTCGGCTTTACCACATATACATATCTCATATAT
*
62565341 ATATTTCACATTAGCCACTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACA-TAGCCATTCGGCTTTACCACATATACATATCTCATATAT
*
62565391 ATATTTCACATTGACCATTCGGCTTTACCACATAT
1 ATATTTCACATAG-CCATTCGGCTTTACCACATAT
62565426 GCATGTTCAT
Statistics
Matches: 169, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
48 42 0.25
49 6 0.04
50 121 0.72
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (49 bp):
ATATTTCACATAGCCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:62565306 original size:98 final size:99
Alignment explanation
Indices: 62565190--62565425 Score: 388
Period size: 98 Copynumber: 2.4 Consensus size: 99
62565180 GCACATCGCC
*
62565190 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
* *
62565255 -GACCATTCGGCTTTACCACATATGCATATCTC-A
66 AG-CCACTCGGCTTTACCACATATACATATCTCAA
62565288 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
62565353 AGCCACTCGGCTTTACCACATATACATATCTCATA
66 AGCCACTCGGCTTTACCACATATACATATCTCA-A
*
62565388 TATATATTTCACATT-GACCATTCGGCTTTACCACATAT
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATAT
62565426 GCATGTTCAT
Statistics
Matches: 130, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
98 92 0.71
99 2 0.02
100 36 0.28
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (99 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
AGCCACTCGGCTTTACCACATATACATATCTCAA
Found at i:62565487 original size:47 final size:47
Alignment explanation
Indices: 62565396--62565587 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
62565386 TATATATATT
* * *
62565396 TCACATTGACCATTCGGCTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
62565441 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
62565488 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* * * **
62565535 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
62565582 TCACAT
1 TCACAT
62565588 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
45 19 0.14
46 1 0.01
47 113 0.85
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:62565514 original size:22 final size:22
Alignment explanation
Indices: 62565487--62565558 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
62565477 GCTCACATTC
62565487 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
62565509 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
62565533 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
62565556 ATC
1 ATC
62565559 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:62571096 original size:43 final size:43
Alignment explanation
Indices: 62570941--62571097 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
62570931 TGTGTTATCG
* * **
62570941 TGTAAGACAAAGTCT-GGAACGTTGGCATCGAT-TTGTGATTTATG
1 TGTAAGACCACGTCTAGG-ACGTTGGCATCGATATT-TGA-TTACA
* * * * * *
62570985 TGTAAGACCATGTCTAGGACATTGGCAT-TATATATAATTTCA
1 TGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTACA
*
62571027 CGTAAGACC-CAGTCTAGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTAGGAC-GTTGGCATCGATATTTGATTACA
*
62571070 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACGTTGGCAT
62571098 TGTAGGAGCT
Statistics
Matches: 88, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
42 26 0.30
43 36 0.41
44 24 0.27
45 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTACA
Found at i:62572280 original size:18 final size:16
Alignment explanation
Indices: 62572248--62572286 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
62572238 TTAGTAAATG
62572248 AATAATAAAATGTTAT
1 AATAATAAAATGTTAT
*
62572264 TATAATAATATATGTTAT
1 AATAATAA-A-ATGTTAT
62572282 AATAA
1 AATAA
62572287 AATTCATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AATAATAAAATGTTAT
Found at i:62572641 original size:29 final size:27
Alignment explanation
Indices: 62572601--62572659 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
62572591 GATTTTGAGT
*
62572601 AATTAGGGCTAAATTGTAAAAATAAT-A
1 AATTAGGGCTAAAATGT-AAAATAATGA
*
62572628 AATTGAGGGACTAAAATGTGAAATAATGA
1 AATT-AGGG-CTAAAATGTAAAATAATGA
62572657 AAT
1 AAT
62572660 ATATGGACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
28 11 0.41
29 12 0.44
ACGTcount: A:0.51, C:0.03, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTAGGGCTAAAATGTAAAATAATGA
Found at i:62574350 original size:15 final size:15
Alignment explanation
Indices: 62574330--62574364 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
62574320 CTTTGTCAAC
62574330 AGACAAACTCTTATT
1 AGACAAACTCTTATT
62574345 AGACAAACTCTTATT
1 AGACAAACTCTTATT
62574360 AGACA
1 AGACA
62574365 CCATATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (15 bp):
AGACAAACTCTTATT
Found at i:62575904 original size:40 final size:40
Alignment explanation
Indices: 62575867--62576092 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
62575857 GCTACTCGTT
*
62575867 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
* * *
62575907 CAGATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCTCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
62575947 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* *
62575987 CGAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * * *
62576027 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
62576068 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
62576093 CATCATTCGA
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.91
41 12 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:62579627 original size:15 final size:15
Alignment explanation
Indices: 62579607--62579641 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
62579597 AGAAAGATCT
62579607 TTTAAAGCATGATTC
1 TTTAAAGCATGATTC
62579622 TTTAAAGCATGATTC
1 TTTAAAGCATGATTC
62579637 TTTAA
1 TTTAA
62579642 GAAGAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (15 bp):
TTTAAAGCATGATTC
Found at i:62580693 original size:25 final size:24
Alignment explanation
Indices: 62580647--62580693 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
62580637 ATAAAAGAAA
* *
62580647 TTAAACTAAATATTATACAAAATG
1 TTAAAATAAATAATATACAAAATG
*
62580671 TTAAAATAATATAATATATAAAA
1 TTAAAATAA-ATAATATACAAAA
62580694 AAAACTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (24 bp):
TTAAAATAAATAATATACAAAATG
Found at i:62580733 original size:28 final size:27
Alignment explanation
Indices: 62580672--62580740 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 27
62580662 TACAAAATGT
* *
62580672 TAAAATAATATAATATATAAAAAAAACT
1 TAAAATAAT-TAATAAATAAAAAAAACG
62580700 TCAAAATAATTACATAAATAAAAACAAA-G
1 T-AAAATAATTA-ATAAATAAAAA-AAACG
*
62580729 TAAAATTATTAA
1 TAAAATAATTAA
62580741 AAAGCTCAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 1 0.03
28 12 0.34
29 19 0.54
30 3 0.09
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (27 bp):
TAAAATAATTAATAAATAAAAAAAACG
Found at i:62582781 original size:179 final size:175
Alignment explanation
Indices: 62582466--62582784 Score: 412
Period size: 179 Copynumber: 1.8 Consensus size: 175
62582456 TGCGTCCTCT
* *
62582466 AATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCTGCTCTTT
1 AATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCTACTCTCT
* * ** *
62582531 TGCAACCTCAGAGAGATAAAGTCAGTGGCTAAAATTTGTTCCATTGCCAATACATGGAGATAAGA
66 TGCAACCTCAGAGAAATAAAGTCAGTGGCTAAAATCTGCCCCATTGCCAACACATGGAGATAAGA
62582596 TTCACCATCTACGAAGATCTCTCCGCTACAATCTCAGGGAGATAA
131 TTCACCATCTACGAAGATCTCTCCGCTACAATCTCAGGGAGATAA
*
62582641 AATCTTCAAT-TCTCAGTCTGCTTCCTTGCTATCTCAGGAAGATAAGACTCATTCTTCAA-C-CT
1 AATCTTCAATCT-TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-A-----CAATCGCT
* * * * *
62582703 ACTCTCTTGCTACCTCAGAGAAAT-AAGGCTGGTGGCTAAACTCTGCCCCATTGCCGACACATGG
59 ACTCTCTTGCAACCTCAGAGAAATAAAGTC-AGTGGCTAAAATCTGCCCCATTGCCAACACATGG
*
62582767 AGATAAGGTTCACCATCT
123 AGATAAGATTCACCATCT
62582785 GCGATTTGTT
Statistics
Matches: 122, Mismatches: 14, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
174 1 0.01
175 46 0.38
176 1 0.01
178 4 0.03
179 66 0.54
180 1 0.01
181 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (175 bp):
AATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCTACTCTCT
TGCAACCTCAGAGAAATAAAGTCAGTGGCTAAAATCTGCCCCATTGCCAACACATGGAGATAAGA
TTCACCATCTACGAAGATCTCTCCGCTACAATCTCAGGGAGATAA
Found at i:62583148 original size:177 final size:178
Alignment explanation
Indices: 62582921--62583272 Score: 512
Period size: 177 Copynumber: 2.0 Consensus size: 178
62582911 ATTTAGTCTA
* *
62582921 CTTCCTTGCTACCTCAAGAAGATAAGACTACAATTGCCAACCTACTCTCTTACTACCTCAGAGAG
1 CTTCCTTGCCACCTCAAGAAGATAAGACTACAATTGCCAACCTACTCTCTTACTAACTCAGAGAG
*
62582986 ATAAGGTCAATAGCTAAAATCTGCTCCATCGCCGATACATGGATATAAGATTCGCCATCCTCGAT
66 ATAAGGTCAATAGCTAAAATCTGCTCCATCGCCGATACATGGAGATAAGATTCGCCATCCTCGAT
62583051 CCACTCCACTACTGCTTAGGGAGATAAGATC-TTCAATCTTCAGTTTG
131 CCACTCCACTACTGCTTAGGGAGATAAGATCTTTCAATCTTCAGTTTG
* * * *
62583098 CTTCCTTGCCACCTCAGGAAGATAAGACTATC-ATCT-TCAACCTGCTCTCTTGCTAACTCAGAG
1 CTTCCTTGCCACCTCAAGAAGATAAGACTA-CAAT-TGCCAACCTACTCTCTTACTAACTCAGAG
* * * * * * *
62583161 AGATAAGGTCAGTGGTTAAAATCTGCTCCATTGCTGATACATGGAGATAAGATTTGCCATCTTCG
64 AGATAAGGTCAATAGCTAAAATCTGCTCCATCGCCGATACATGGAGATAAGATTCGCCATCCTCG
** *
62583226 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTTTCAATCTTCAGT
129 ATCCACTCCACTACTGCTTAGGGAGATAAGATCTTTCAATCTTCAGT
62583273 CTACTCCACT
Statistics
Matches: 155, Mismatches: 17, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
177 140 0.90
178 15 0.10
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (178 bp):
CTTCCTTGCCACCTCAAGAAGATAAGACTACAATTGCCAACCTACTCTCTTACTAACTCAGAGAG
ATAAGGTCAATAGCTAAAATCTGCTCCATCGCCGATACATGGAGATAAGATTCGCCATCCTCGAT
CCACTCCACTACTGCTTAGGGAGATAAGATCTTTCAATCTTCAGTTTG
Found at i:62583727 original size:64 final size:64
Alignment explanation
Indices: 62583571--62583807 Score: 307
Period size: 62 Copynumber: 3.9 Consensus size: 64
62583561 TTCATGTATC
* * *
62583571 ATGCTTATGCCAACTAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGA--TG
1 ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* *
62583633 ATGCTGATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
62583697 ATGCTTATGTCAAATAATTAGGATGC-----T----ATGAATCAAATGCTTCTAACTAGATGTA
1 ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* *
62583752 ATACTGATATCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAAC
1 ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAAC
62583808 ATGTTATGAA
Statistics
Matches: 151, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
55 48 0.32
59 1 0.01
60 1 0.01
62 55 0.36
64 46 0.30
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.30
Consensus pattern (64 bp):
ATGCTGATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:62583790 original size:55 final size:55
Alignment explanation
Indices: 62583669--62583787 Score: 177
Period size: 55 Copynumber: 2.2 Consensus size: 55
62583659 TATGATCGAA
* * * *
62583669 ATGAATCAAATGCTCCTAACTAAATGTGATGCTTATGTCAAATAATTAGGATGCT
1 ATGAATCAAATGCTCCTAACTAAATGTAATACTGATATCAAATAATTAGGATGCT
* *
62583724 ATGAATCAAATGCTTCTAACTAGATGTAATACTGATATCAAATAATTAGGATGCT
1 ATGAATCAAATGCTCCTAACTAAATGTAATACTGATATCAAATAATTAGGATGCT
62583779 ATG-ATCAAA
1 ATGAATCAAA
62583788 ATGAATCAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 6 0.10
55 52 0.90
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (55 bp):
ATGAATCAAATGCTCCTAACTAAATGTAATACTGATATCAAATAATTAGGATGCT
Found at i:62584913 original size:25 final size:25
Alignment explanation
Indices: 62584885--62584942 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
62584875 CTCCTTTTCT
62584885 TTCTTTTTTTAACTTCTTTGATTGA
1 TTCTTTTTTTAACTTCTTTGATTGA
* * * * **
62584910 TTCTTTCTTTCATTTTTTTGATTTT
1 TTCTTTTTTTAACTTCTTTGATTGA
62584935 TTCTTTTT
1 TTCTTTTT
62584943 ATTTCTCTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.72
Consensus pattern (25 bp):
TTCTTTTTTTAACTTCTTTGATTGA
Found at i:62588848 original size:37 final size:37
Alignment explanation
Indices: 62588795--62588880 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
62588785 TTATTACGAA
62588795 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
62588832 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
62588869 GTCTCACCCGGA
1 GTCTTACCCGGA
62588881 ACATTTTCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:62588997 original size:49 final size:49
Alignment explanation
Indices: 62588934--62589190 Score: 349
Period size: 49 Copynumber: 5.1 Consensus size: 49
62588924 TTCACATTAG
*
62588934 CACATATATATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
*
62588983 CACCTATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
62589032 CACATATACATACACTTTCACGCACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
1 CAC--AT--ATACA---T-A--CACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
*
62589091 CACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
* *
62589140 CACATAT--ATACACTTTCACATTCATCACATTGGCCA-TACGGCCTTAT
1 CACATATACATACACTTTCACATTCACCACATCGGCCATTA-GGCCTTAT
62589187 CACA
1 CACA
62589191 CATATATGTA
Statistics
Matches: 192, Mismatches: 5, Indels: 24
0.87 0.02 0.11
Matches are distributed among these distances:
46 2 0.01
47 40 0.21
49 93 0.48
51 2 0.01
52 1 0.01
53 5 0.03
55 5 0.03
56 1 0.01
57 3 0.02
59 40 0.21
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (49 bp):
CACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTAT
Found at i:62589062 original size:59 final size:58
Alignment explanation
Indices: 62588995--62589158 Score: 242
Period size: 59 Copynumber: 3.0 Consensus size: 58
62588985 CCTATACATA
62588995 CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
1 CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
62589053 GCACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCA-
1 -CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
62589111 CA--TT--CA-T---CACATCGGCCATTAGGCCTTATCACATAT--ATACACTTTCAC
1 CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
62589159 ATTCATCACA
Statistics
Matches: 104, Mismatches: 0, Indels: 13
0.89 0.00 0.11
Matches are distributed among these distances:
47 11 0.11
49 29 0.28
52 1 0.01
53 2 0.02
55 2 0.02
57 2 0.02
59 57 0.55
ACGTcount: A:0.29, C:0.33, G:0.08, T:0.30
Consensus pattern (58 bp):
CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
Found at i:62589065 original size:108 final size:106
Alignment explanation
Indices: 62588946--62589158 Score: 390
Period size: 108 Copynumber: 2.0 Consensus size: 106
62588936 CATATATATA
*
62588946 CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACCTATACATACACTTTCACATTCACC
1 CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACC
62589011 ACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACG
66 ACATCGGCCATTAGGCCTTATCACATAT--ATACACTTTCACG
*
62589054 CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCATC
1 CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACC
62589119 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
66 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCAC
62589159 ATTCATCACA
Statistics
Matches: 103, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
106 12 0.12
108 91 0.88
ACGTcount: A:0.29, C:0.33, G:0.08, T:0.30
Consensus pattern (106 bp):
CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACC
ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACG
Found at i:62589169 original size:47 final size:47
Alignment explanation
Indices: 62589054--62589196 Score: 225
Period size: 47 Copynumber: 3.0 Consensus size: 47
62589044 CACTTTCACG
*
62589054 CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT--ATA
62589103 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
* *
62589150 CACTTTCACATTCATCACATTGGCCA-TACGGCCTTATCACACATATA
1 CACTTTCACATTCATCACATCGGCCATTA-GGCCTTATCACATATATA
62589197 TGTATATCAT
Statistics
Matches: 90, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
46 2 0.02
47 45 0.50
49 43 0.48
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.30
Consensus pattern (47 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:62593551 original size:23 final size:25
Alignment explanation
Indices: 62593516--62593576 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
62593506 ATATGTACAG
*
62593516 ATAATAATA-AAAAT-TTAAACTAA-
1 ATAAT-ATACAAAATGTTAAAATAAT
*
62593539 ATATTATACAAAATGTTAAAATAAT
1 ATAATATACAAAATGTTAAAATAAT
*
62593564 ATAATATATAAAA
1 ATAATATACAAAA
62593577 AAACTTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 3 0.10
23 9 0.29
24 8 0.26
25 11 0.35
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (25 bp):
ATAATATACAAAATGTTAAAATAAT
Found at i:62601892 original size:39 final size:39
Alignment explanation
Indices: 62601838--62601981 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
62601828 GAATGTTCGA
62601838 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
62601877 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
62601916 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
62601955 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
62601982 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:62601928 original size:78 final size:79
Alignment explanation
Indices: 62601839--62602021 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
62601829 AATGTTCGAG
62601839 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
62601903 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
62601917 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
62601982 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
62601996 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
62602022 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:62609910 original size:38 final size:39
Alignment explanation
Indices: 62609858--62610000 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
62609848 GAATGTTCGA
62609858 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
62609897 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
62609935 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
62609974 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
62610001 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:62609946 original size:77 final size:79
Alignment explanation
Indices: 62609859--62610040 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
62609849 AATGTTCGAG
62609859 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATA-CCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
62609922 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
62609936 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
62610001 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
62610015 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
62610041 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:62612339 original size:40 final size:40
Alignment explanation
Indices: 62612312--62612494 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
62612302 TACTTGATCG
* *
62612312 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
62612352 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
62612392 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
62612432 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
62612472 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
62612495 TTAACATCCA
Statistics
Matches: 136, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
39 1 0.01
40 135 0.99
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:62616036 original size:29 final size:29
Alignment explanation
Indices: 62616001--62616132 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
62615991 GTGACGAGAT
62616001 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
62616030 TGGCACTAAGTGTGCATGCTAGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
62616059 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
62616088 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
62616117 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
62616133 GGCTTAAATC
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:62617869 original size:40 final size:41
Alignment explanation
Indices: 62617816--62618039 Score: 152
Period size: 40 Copynumber: 5.3 Consensus size: 41
62617806 ACTCAATATC
* *
62617816 TCGCACACAAAGTGTCGT-TCATAGCCAAAGCTATCTC-AAA
1 TCGCACACTAAGTGTCATAT-ATAGCCAAAGCTATCTCGAAA
** **
62617856 TCGCACACTAAGTGTCATATATAGCTGAAGCTATCTCGATC
1 TCGCACACTAAGTGTCATATATAGCCAAAGCTATCTCGAAA
** *
62617897 TCGCACACTAAGTGTCATATATAGCTGAAGCTATGTCG-AA
1 TCGCACACTAAGTGTCATATATAGCCAAAGCTATCTCGAAA
* ** *
62617937 TCTCACATTAAGTACCATATAAGTGTCATATATAGCTGAAGCTATGTCG-AA
1 TCGCAC-------A-C---TAAGTGTCATATATAGCCAAAGCTATCTCGAAA
* * * *
62617988 TCGCACACTAAGTGCCATATATAGCCGAAGGTATGTCG-AA
1 TCGCACACTAAGTGTCATATATAGCCAAAGCTATCTCGAAA
62618028 TCGCACACTAAG
1 TCGCACACTAAG
62618040 AGCCATGTAT
Statistics
Matches: 157, Mismatches: 14, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
40 77 0.49
41 39 0.25
43 1 0.01
44 1 0.01
47 1 0.01
48 1 0.01
51 37 0.24
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (41 bp):
TCGCACACTAAGTGTCATATATAGCCAAAGCTATCTCGAAA
Found at i:62617965 original size:51 final size:51
Alignment explanation
Indices: 62617905--62618008 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
62617895 TCTCGCACAC
* *
62617905 TAAGTGTCATATATAGCTGAAGCTATGTCGAATCTCACATTAAGTACCATA
1 TAAGTGTCATATATAGCTGAAGCTATGTCGAATCGCACACTAAGTACCATA
*
62617956 TAAGTGTCATATATAGCTGAAGCTATGTCGAATCGCACACTAAGTGCCATA
1 TAAGTGTCATATATAGCTGAAGCTATGTCGAATCGCACACTAAGTACCATA
62618007 TA
1 TA
62618009 TAGCCGAAGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (51 bp):
TAAGTGTCATATATAGCTGAAGCTATGTCGAATCGCACACTAAGTACCATA
Found at i:62618023 original size:91 final size:92
Alignment explanation
Indices: 62617864--62618039 Score: 282
Period size: 91 Copynumber: 1.9 Consensus size: 92
62617854 AATCGCACAC
* * *
62617864 TAAGTGTCATATATAGCTGAAGCTATCTCGATCTCGCACACTAAGTGTCATATATAGCTGAAGCT
1 TAAGTGTCATATATAGCTGAAGCTATCTCGATATCGCACACTAAGTGCCATATATAGCCGAAGCT
* *
62617929 ATGTCGAATCTCACATTAAGTACCATA
66 ATGTCGAATCGCACACTAAGTACCATA
* *
62617956 TAAGTGTCATATATAGCTGAAGCTATGTCGA-ATCGCACACTAAGTGCCATATATAGCCGAAGGT
1 TAAGTGTCATATATAGCTGAAGCTATCTCGATATCGCACACTAAGTGCCATATATAGCCGAAGCT
62618020 ATGTCGAATCGCACACTAAG
66 ATGTCGAATCGCACACTAAG
62618040 AGCCATGTAT
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 47 0.61
92 30 0.39
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (92 bp):
TAAGTGTCATATATAGCTGAAGCTATCTCGATATCGCACACTAAGTGCCATATATAGCCGAAGCT
ATGTCGAATCGCACACTAAGTACCATA
Found at i:62618045 original size:40 final size:40
Alignment explanation
Indices: 62617956--62618090 Score: 171
Period size: 40 Copynumber: 3.4 Consensus size: 40
62617946 AAGTACCATA
* *
62617956 TAAGTGTCATATATAGCTGAAGCTATGTCGAATCGCACAC
1 TAAGTGCCATATATAGCCGAAGCTATGTCGAATCGCACAC
*
62617996 TAAGTGCCATATATAGCCGAAGGTATGTCGAATCGCACAC
1 TAAGTGCCATATATAGCCGAAGCTATGTCGAATCGCACAC
* * ** * * *
62618036 TAAGAGCCATGTATAATCGAAGCTTTGTTGAATTGCACAC
1 TAAGTGCCATATATAGCCGAAGCTATGTCGAATCGCACAC
*
62618076 TAAGTGCCACATATA
1 TAAGTGCCATATATA
62618091 TATATGATTT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (40 bp):
TAAGTGCCATATATAGCCGAAGCTATGTCGAATCGCACAC
Found at i:62624458 original size:30 final size:30
Alignment explanation
Indices: 62624424--62624480 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
62624414 TAACGTGCTT
62624424 TAATGATTCAGATTTATTTTTAAGATCTAA
1 TAATGATTCAGATTTATTTTTAAGATCTAA
* *
62624454 TAATGATTCTGGTTTATTTTTAAGATC
1 TAATGATTCAGATTTATTTTTAAGATC
62624481 CATTGGATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (30 bp):
TAATGATTCAGATTTATTTTTAAGATCTAA
Found at i:62629410 original size:16 final size:16
Alignment explanation
Indices: 62629375--62629413 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
62629365 TATTATAATC
*
62629375 TATAATATAATAATAGT
1 TATAA-ATAATAATACT
*
62629392 TATAAATACTAATACT
1 TATAAATAATAATACT
62629408 TATAAA
1 TATAAA
62629414 ATATATTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (16 bp):
TATAAATAATAATACT
Found at i:62629587 original size:10 final size:10
Alignment explanation
Indices: 62629572--62629617 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
62629562 CTACTACTAC
*
62629572 ATTATATAAT
1 ATTATATCAT
62629582 ATTATATCAT
1 ATTATATCAT
*
62629592 ATCATATCAT
1 ATTATATCAT
62629602 A-TAGTAT-AT
1 ATTA-TATCAT
62629611 ATTATAT
1 ATTATAT
62629618 TGATAGTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 7 0.23
10 24 0.77
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (10 bp):
ATTATATCAT
Found at i:62629961 original size:256 final size:257
Alignment explanation
Indices: 62629468--62630029 Score: 744
Period size: 256 Copynumber: 2.2 Consensus size: 257
62629458 GTAGAATATA
**
62629468 ATATATTAATTATTATCATATATTATTGTTTATTATTATACTCGTTGAAATAGGCTCTAAGTCCC
1 ATATATTAATTATTA--ATATATTATTGTTTATTATTATACTATTTGAAATAGGCTCTAAGTCCC
* * *
62629533 TATACTTTTTAGACATTTGAAAATTATCCCTACTACTACATTATATAATATTATATCATATCATA
64 TATACTTTTCAGACATTTGAAAATTAGCCCTACTACTA-ATTATATAATATTATATAATATCATA
* * *
62629598 TCATATAGTATATATTATATTGATAGTTTTTATATATGCATCAATGATTAAATATTATAATATCA
128 TCATATAGTATATATTATATTGATAGTATATATATATGCATCAATGATTAAACATTATAATATCA
* *
62629663 TGTAATTCTATATCTTTTATTGTAATCTATAATATAATAATAGTTATATATAATAGA-AGTAAAT
193 TGTAATCCTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATA-ATAGTAAAT
62629727 T
257 T
* * *
62629728 ATATATTAATTATTAAT-TATTAATGTTTATTATTATACTATTTGAAATATGCTCTAAGTTCCTA
1 ATATATTAATTATTAATATATTATTGTTTATTATTATACTATTTGAAATAGGCTCTAAGTCCCTA
* * * *
62629792 TACTTTTCATAGATTTGAAAGTTAGCCCT-CTTACT-ATTATATAATGTTATATAATATCATAT-
66 TACTTTTCAGACATTTGAAAATTAGCCCTAC-TACTAATTATATAATATTATATAATATCATATC
* * * *
62629854 ATTATA-TAATATATTAATAGTTTATA-TATATATATATGTATTAATTATTAAACATTATAATAT
130 A-TATAGT-ATATATT-ATA-TTGATAGTATATATATATGCATCAATGATTAAACATTATAATAT
* * * *
62629917 CATGTACTCCTATATTTTTTATTATAATCTATAATATAATAATAGTTATATATGATAATAGTACA
191 CATGTAATCCTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAATAGTAAA
62629982 TT
256 TT
*
62629984 ATATATTAATTATT-ATATATTATTGTTTATTATTATATTATATTGA
1 ATATATTAATTATTAATATATTATTGTTTATTATTATACTAT-TTGA
62630030 TTATTGAATA
Statistics
Matches: 267, Mismatches: 27, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
254 2 0.01
255 39 0.15
256 130 0.49
257 79 0.30
258 2 0.01
260 15 0.06
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (257 bp):
ATATATTAATTATTAATATATTATTGTTTATTATTATACTATTTGAAATAGGCTCTAAGTCCCTA
TACTTTTCAGACATTTGAAAATTAGCCCTACTACTAATTATATAATATTATATAATATCATATCA
TATAGTATATATTATATTGATAGTATATATATATGCATCAATGATTAAACATTATAATATCATGT
AATCCTATATCTTTTATTATAATCTATAATATAATAATAGTTATATATAATAATAGTAAATT
Found at i:62630017 original size:20 final size:20
Alignment explanation
Indices: 62629992--62630034 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
62629982 TTATATATTA
*
62629992 ATTATTATA-TATTATTGTTT
1 ATTATTATATTA-TATTGATT
62630012 ATTATTATATTATATTGATT
1 ATTATTATATTATATTGATT
62630032 ATT
1 ATT
62630035 GAATAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTATTATATTATATTGATT
Found at i:62631085 original size:248 final size:244
Alignment explanation
Indices: 62630519--62631154 Score: 615
Period size: 248 Copynumber: 2.6 Consensus size: 244
62630509 CATTATTACC
* * * * * * * *
62630519 ATATATTATTATTTATGATTATAATG-TTTGAAATATGCTTTAAGTCCC--T-ATTTTCCTACAT
1 ATATATTATTGTTTATTATCAT-ATGAGTTGAAATATACTCTAAGTCCCTATAATTTTCGTAAAT
* * * * * *
62630580 TTGAAAGTTAACCCGCCTACTTTATTATATAATTCTATATTATTTCATATAGTATATAATATATT
65 TTGAAAGTTAATCCTCCTACTATATTACATAA-T-GATA-TA--TCATAT--CATATAATATATT
*
62630645 AATAGTTTATATATATACGCATCAATGATTAAACATTATAATATAATGTAATATTACATCTTTTA
123 AATAGTTTATA-A-ATATGCATCAATGATTAAACATTATAATATAATGTAATATTACATCTTTTA
* * * * * *
62630710 TTACATTCTATAATATAATAGTAGTACATTATATATATTAGTTATTATAAAAAAATATA
186 TTACAATATATAATATAATAATAGTACATTATAAATAGTAGTCATTATAAAAAAATATA
* * * *
62630769 ATATATTATTGTTTATTATTATATGGGTTGAAATATACTCTAAGTCCCTATAATTTTTGTACATT
1 ATATATTATTGTTTATTATCATATGAGTTGAAATATACTCTAAGTCCCTATAATTTTCGTAAATT
* * * *
62630834 TGAAAGTTAATCCTCCTATTATTTTACATAATGCTATATCATATCATATAATATGTTAATAGTTT
66 TGAAAGTTAATCCTCCTACTATATTACATAATGATATATCATATCATATAATATATTAATAGTTT
* * * * *
62630899 ATAAATATGCATCAATGATTAAACATTATAATATCATGTAATGTTATATTTTTTAATTATAATAT
131 ATAAATATGCATCAATGATTAAACATTATAATATAATGTAATATTACATCTTTT-ATTACAATAT
** * *
62630964 ATAATATAATAATA-TTTA-TATAAATAGTAGTGCATTATATATTACATATTATTA
195 ATAATATAATAATAGTACATTATAAATAGTAGT-CATTATA-A--A-AAAATA-TA
* * * *
62631018 CATATATT-TT-TTTATTATCCTACT-AGTTGAAATATGCTCTAAGTCCTTATTATTTTCGTAAA
1 -ATATATTATTGTTTATTATCATA-TGAGTTGAAATATACTCTAAGTCCCTATAATTTTCGTAAA
* * * *
62631080 TTTGAAAGTTAGTCCTCTTACTATATTATATAATGATATATCATATCATATAATTTATTAATAGT
64 TTTGAAAGTTAATCCTCCTACTATATTACATAATGATATATCATATCATATAATATATTAATAGT
*
62631145 TTATATATAT
129 TTATAAATAT
62631155 ACATGCATCA
Statistics
Matches: 323, Mismatches: 50, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
243 11 0.03
244 53 0.16
245 22 0.07
246 22 0.07
247 1 0.00
248 118 0.37
249 8 0.02
250 48 0.15
251 2 0.01
252 2 0.01
253 36 0.11
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (244 bp):
ATATATTATTGTTTATTATCATATGAGTTGAAATATACTCTAAGTCCCTATAATTTTCGTAAATT
TGAAAGTTAATCCTCCTACTATATTACATAATGATATATCATATCATATAATATATTAATAGTTT
ATAAATATGCATCAATGATTAAACATTATAATATAATGTAATATTACATCTTTTATTACAATATA
TAATATAATAATAGTACATTATAAATAGTAGTCATTATAAAAAAATATA
Found at i:62632927 original size:29 final size:28
Alignment explanation
Indices: 62632886--62632942 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
62632876 TCCGAAGTAC
*
62632886 TGATATCATGGCCCAAAGTCAAATCAGT
1 TGATATCATGGCCCAAAGCCAAATCAGT
*
62632914 TGATATGCATGGCCCAATGCCAAATCAGT
1 TGATAT-CATGGCCCAAAGCCAAATCAGT
62632943 ATAACTCGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (28 bp):
TGATATCATGGCCCAAAGCCAAATCAGT
Found at i:62634555 original size:12 final size:12
Alignment explanation
Indices: 62634538--62634563 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62634528 GTGTTCTTTA
62634538 TTTTATTTTATT
1 TTTTATTTTATT
62634550 TTTTATTTTATT
1 TTTTATTTTATT
62634562 TT
1 TT
62634564 CACAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:62638984 original size:5 final size:5
Alignment explanation
Indices: 62638974--62639001 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
62638964 TTACGTATTC
62638974 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
62639002 CACAGTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:62641009 original size:46 final size:46
Alignment explanation
Indices: 62640959--62641131 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
62640949 TGGTTGAGCA
*
62640959 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62641005 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
62641050 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62641098 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62641132 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62641115 original size:93 final size:93
Alignment explanation
Indices: 62640956--62641126 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
62640946 GGATGGTTGA
* * * *
62640956 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62641021 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62641049 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
62641114 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
62641127 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62646480 original size:42 final size:43
Alignment explanation
Indices: 62646353--62646504 Score: 121
Period size: 43 Copynumber: 3.5 Consensus size: 43
62646343 CATAGGATTC
* * * ** *
62646353 CGATATGTGATTTCATGTGAGACCACATCTGGGAC-GTTGGCAT
1 CGATATATGATTTCGTGTAAGACCATGTCTGAGACAG-TGGCAT
* *
62646396 CGATTTGA-GATTTACGTGTAAGACCATGTCTGAGACATTGGCAT
1 CGATAT-ATGATTT-CGTGTAAGACCATGTCTGAGACAGTGGCAT
* * * *
62646440 CG-TATATGATTTCGTGTAAGACCCTGTTTGGGATAGTGGCAT
1 CGATATATGATTTCGTGTAAGACCATGTCTGAGACAGTGGCAT
* * *
62646482 CGATATTTGATTACATGTAAGAC
1 CGATATATGATTTCGTGTAAGAC
62646505 TTGTCTGGGA
Statistics
Matches: 87, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
42 28 0.32
43 34 0.39
44 25 0.29
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATATGATTTCGTGTAAGACCATGTCTGAGACAGTGGCAT
Found at i:62646514 original size:42 final size:43
Alignment explanation
Indices: 62646353--62646523 Score: 127
Period size: 42 Copynumber: 4.0 Consensus size: 43
62646343 CATAGGATTC
* * * * **
62646353 CGATATGTGATTTCATGTGAGACCACATCTGGGAC-GTTGGCAT
1 CGATATTTGATTACGTGTAAGACCATGTCTGGGACAG-TGGCAT
* * *
62646396 CGAT-TTGAGATTTACGTGTAAGACCATGTCTGAGACATTGGCAT
1 CGATATT-TGA-TTACGTGTAAGACCATGTCTGGGACAGTGGCAT
* * * * *
62646440 CG-TATATGATTTCGTGTAAGACCCTGTTTGGGATAGTGGCAT
1 CGATATTTGATTACGTGTAAGACCATGTCTGGGACAGTGGCAT
* *
62646482 CGATATTTGATTACATGTAAGA-CTTGTCTGGGAC-GTTGGCAT
1 CGATATTTGATTACGTGTAAGACCATGTCTGGGACAG-TGGCAT
62646524 TGTACAAGCT
Statistics
Matches: 99, Mismatches: 23, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
41 1 0.01
42 45 0.45
43 25 0.25
44 28 0.28
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:62653193 original size:39 final size:39
Alignment explanation
Indices: 62653150--62653292 Score: 110
Period size: 39 Copynumber: 3.6 Consensus size: 39
62653140 GGGCTAAGTC
*
62653150 CCGAAGGC-TTTGTGCTAAGTGACT-ATATCCGGACTAAAT
1 CCGAAGGCATTCGTGC-AAGTGACTAAT-TCCGGACTAAAT
* * * *
62653189 CCGAAGGCATTCGTGCGAGTTACTAATTCCGGGCTAAGT
1 CCGAAGGCATTCGTGCAAGTGACTAATTCCGGACTAAAT
* * * * ** *
62653228 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGT
1 CCGAAGGCATTCGTGCAAGTGACTAATTCCGGACTAAAT
* * *
62653267 CCCGAAGGCATTTGTGCGAGTTACTA
1 -CCGAAGGCATTCGTGCAAGTGACTA
62653293 TAACCGGGCT
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 60 0.65
40 32 0.35
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCAAGTGACTAATTCCGGACTAAAT
Found at i:62653284 original size:40 final size:40
Alignment explanation
Indices: 62653137--62653320 Score: 232
Period size: 40 Copynumber: 4.7 Consensus size: 40
62653127 TCGAATGATG
* * *
62653137 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
62653177 TCCGGACTAAAT-CCGAAGGCATTCGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62653216 TCCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62653255 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62653296 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62653321 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 61 0.48
40 63 0.50
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62653353 original size:79 final size:79
Alignment explanation
Indices: 62653138--62653353 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 79
62653128 CGAATGATGT
* *
62653138 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAA-TCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAATTCCGAAGGCATT
*
62653200 CGTGCGAGTTACTAATT
63 CGTGCGAGTTACTAATA
* * * * *
62653217 CCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGGCATTC
62653280 GTGCGAGTTACT-ATAA
64 GTGCGAGTTACTAAT-A
* ** *
62653296 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCTGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAATTCCGAAGG
62653354 TACGTGATTC
Statistics
Matches: 113, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
78 22 0.19
79 68 0.60
80 23 0.20
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAATTCCGAAGGCATTCGT
GCGAGTTACTAATA
Found at i:62656203 original size:86 final size:87
Alignment explanation
Indices: 62656058--62656245 Score: 270
Period size: 86 Copynumber: 2.2 Consensus size: 87
62656048 GCATCGATTA
* ** * * *
62656058 ATGAAAAGGGATAGTTTCGACTATCGACTATGAAACGGGATGGTGACAACCATCAAATATGAAAA
1 ATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCAAATATGAAAA
62656123 GGGATGGTGACGACCAT-AAAT
66 GGGATGGTGACGACCATCAAAT
* ** *
62656144 ATGAAAAGGGATGGTGACGACCATCAACTTTGAAAAGGGATGGTGACCCCCATCGAATATGAAAA
1 ATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCAAATATGAAAA
*
62656209 GGGATGGTGACGACCATCAACT
66 GGGATGGTGACGACCATCAAAT
62656231 ATGAAAAGGGATGGT
1 ATGAAAAGGGATGGT
62656246 TTCGACTATC
Statistics
Matches: 90, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 72 0.80
87 18 0.20
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.20
Consensus pattern (87 bp):
ATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCAAATATGAAAA
GGGATGGTGACGACCATCAAAT
Found at i:62656223 original size:58 final size:58
Alignment explanation
Indices: 62656080--62656245 Score: 253
Period size: 57 Copynumber: 2.9 Consensus size: 58
62656070 AGTTTCGACT
* * * * *
62656080 ATCGACTATGAAACGGGATGGTGACAACCATCAAATATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACCACC
* * *
62656138 AT-AAATATGAAAAGGGATGGTGACGACCATCAACTTTGAAAAGGGATGGTGACCCCC
1 ATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACCACC
62656195 ATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGT
1 ATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGT
62656246 TTCGACTATC
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
57 49 0.51
58 48 0.49
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.19
Consensus pattern (58 bp):
ATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACCACC
Found at i:62656256 original size:29 final size:29
Alignment explanation
Indices: 62656058--62656245 Score: 245
Period size: 29 Copynumber: 6.5 Consensus size: 29
62656048 GCATCGATTA
* ** * *
62656058 ATGAAAAGGGATAGTTTCGACTATCGACT
1 ATGAAAAGGGATGGTGACGACCATCAACT
* * *
62656087 ATGAAACGGGATGGTGACAACCATCAAAT
1 ATGAAAAGGGATGGTGACGACCATCAACT
*
62656116 ATGAAAAGGGATGGTGACGACCAT-AAAT
1 ATGAAAAGGGATGGTGACGACCATCAACT
62656144 ATGAAAAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCAACT
* **
62656173 TTGAAAAGGGATGGTGACCCCCATCGAA-T
1 ATGAAAAGGGATGGTGACGACCATC-AACT
62656202 ATGAAAAGGGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCAACT
62656231 ATGAAAAGGGATGGT
1 ATGAAAAGGGATGGT
62656246 TTCGACTATC
Statistics
Matches: 139, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
28 30 0.22
29 107 0.77
30 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.20
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAACT
Found at i:62658087 original size:40 final size:40
Alignment explanation
Indices: 62657998--62658093 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
62657988 ATTTTAGTAT
* **
62657998 CGCACACTTAGTGCCACATATAGCCGAAGCTATTCTAATT
1 CGCACACTAAGTGCCACATATAGCCGAAGCTATTCTAAAA
* * * **
62658038 TGCAAACTAAGTGCTATTTATAGCCGAAGCTA-TCTCAAAA
1 CGCACACTAAGTGCCACATATAGCCGAAGCTATTCT-AAAA
62658078 CGCACACTAAGTGCCA
1 CGCACACTAAGTGCCA
62658094 AACATAGTTG
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
39 3 0.07
40 41 0.93
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (40 bp):
CGCACACTAAGTGCCACATATAGCCGAAGCTATTCTAAAA
Found at i:62662320 original size:39 final size:39
Alignment explanation
Indices: 62662156--62662338 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 39
62662146 TCGAATGATG
* * * *
62662156 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
*
62662196 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATT-GTGCGAGTTACTAAA
*
62662236 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
*
62662276 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
*
62662316 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
62662339 TGAACGAGTA
Statistics
Matches: 129, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
39 37 0.29
40 85 0.66
41 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:62662347 original size:79 final size:80
Alignment explanation
Indices: 62662156--62662373 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 80
62662146 TCGAATGATG
* * **
62662156 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
62662220 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
62662236 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
62662299 T-GTGCGAGTTACTATAA
64 TCGTGCGAGTTACTA-AA
* **
62662316 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
62662374 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 18
0.80 0.07 0.12
Matches are distributed among these distances:
78 16 0.13
79 47 0.39
80 48 0.40
81 8 0.07
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:62670374 original size:40 final size:40
Alignment explanation
Indices: 62670182--62670367 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
62670172 TCGAATGATG
* * *
62670182 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
62670222 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62670262 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62670302 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62670343 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62670368 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62670374 original size:80 final size:80
Alignment explanation
Indices: 62670182--62670400 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 80
62670172 TCGAATGATG
* * **
62670182 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
62670246 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
62670262 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
62670324 TCTGTGCGAGTTACTATAA
64 TC-GTGCGAGTTACTA-AA
* **
62670343 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
62670401 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
79 19 0.16
80 90 0.76
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:62673180 original size:39 final size:39
Alignment explanation
Indices: 62673137--62673215 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
62673127 AATTATATTA
** *
62673137 CCAACACAAAGCCTGTGGGACTTTAGCTCAGATACATTT
1 CCAACACAAAGCCTGCAGGACTTTAGCCCAGATACATTT
* *
62673176 CCAACACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAACACAAAGCCTGCAGGACTTTAGCCCAGATACATTT
62673215 C
1 C
62673216 TAGTGTCTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (39 bp):
CCAACACAAAGCCTGCAGGACTTTAGCCCAGATACATTT
Found at i:62677111 original size:53 final size:53
Alignment explanation
Indices: 62676928--62677134 Score: 193
Period size: 53 Copynumber: 3.8 Consensus size: 53
62676918 ATTAGGGTTT
* * * *
62676928 AAGGATACCAAGTAAGACAATGCCAAGGCATGGCATTGGTAAGTT-ATACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAT--AAGGC
* * * * * * * * *
62676982 AAGGAAATCATGTAAGACCAAGTCAAGACATGGCATTGATAAACTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * *
62677037 AAAGATCCCATGTAAGACCATGCCAA-AGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGA-CATGGCAATGGTAAGTTCATAAGGC
* *
62677090 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
62677135 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 28, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
53 44 0.37
54 37 0.31
55 37 0.31
57 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:62682907 original size:28 final size:28
Alignment explanation
Indices: 62682838--62682938 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
62682828 GACAAGATTG
* * * *
62682838 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
62682868 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
62682896 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
62682925 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62682939 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
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:62690859 original size:28 final size:28
Alignment explanation
Indices: 62690790--62690890 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
62690780 GACAAGATTG
* * * *
62690790 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
62690820 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
62690848 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
62690877 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62690891 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
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:62699401 original size:28 final size:29
Alignment explanation
Indices: 62699320--62699409 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
62699310 TGAGCATGAC
*
62699320 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
* *
62699349 TATAAATGTGATTTGGGCCTAATGGGTCA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
62699378 TATAAATGT-AATTGGGCCTAATGGGCCA
1 TATAAATGTGAATTGGGCCTAATGGGCCA
62699406 TATA
1 TATA
62699410 CAGGTATGTG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 21 0.38
29 35 0.62
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTAATGGGCCA
Found at i:62701055 original size:16 final size:16
Alignment explanation
Indices: 62701034--62701066 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
62701024 ATCAGAGTGC
62701034 GCAGTGGTAGCGTTGT
1 GCAGTGGTAGCGTTGT
62701050 GCAGTGGTAGCGTTGT
1 GCAGTGGTAGCGTTGT
62701066 G
1 G
62701067 GGATAGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.45, T:0.30
Consensus pattern (16 bp):
GCAGTGGTAGCGTTGT
Found at i:62703328 original size:29 final size:29
Alignment explanation
Indices: 62703294--62703371 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
62703284 TGAGCATGAC
* *
62703294 TATAAATGTGAATTGGGCCTGATGATCCA
1 TATAAATGTGAATTGGGCCTAATGAGCCA
*
62703323 TATAAATGT-AATTTGGGCCTAATGGGCCA
1 TATAAATGTGAA-TTGGGCCTAATGAGCCA
62703352 TATAAATGTG-ATTGGGCCTA
1 TATAAATGTGAATTGGGCCTA
62703372 GTAGGCCATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
28 11 0.25
29 33 0.75
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTAATGAGCCA
Found at i:62703378 original size:28 final size:28
Alignment explanation
Indices: 62703294--62703383 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 28
62703284 TGAGCATGAC
*
62703294 TATAAATGTGAATTGGGCCT-G-ATGATCCA
1 TATAAATGTG-ATTGGGCCTAGTA-G-GCCA
* * *
62703323 TATAAATGTAATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTAGGCCA
62703352 TATAAATGTGATTGGGCCTAGTAGGCCA
1 TATAAATGTGATTGGGCCTAGTAGGCCA
62703380 TATA
1 TATA
62703384 CAGGTATATG
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
28 20 0.39
29 30 0.59
30 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTAGGCCA
Found at i:62708888 original size:40 final size:40
Alignment explanation
Indices: 62708844--62708919 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
62708834 TAGTGACACA
62708844 TATAGCCGAAGCTAT-TC-AAATTCGCAAACTAAGTGCTATT
1 TATAGCCGAAGCTATCTCGAAA--CGCAAACTAAGTGCTATT
*
62708884 TATAGCCGAAGCTATCTCGAAACGCACACTAAGTGC
1 TATAGCCGAAGCTATCTCGAAACGCAAACTAAGTGC
62708920 CAAACATAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
40 28 0.85
41 2 0.06
42 3 0.09
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (40 bp):
TATAGCCGAAGCTATCTCGAAACGCAAACTAAGTGCTATT
Found at i:62718074 original size:16 final size:16
Alignment explanation
Indices: 62718038--62718074 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
62718028 AACAACCCGT
62718038 TTTTTGGCTTTTCAGC
1 TTTTTGGCTTTTCAGC
* *
62718054 CTTTTGGCTTTTCTGC
1 TTTTTGGCTTTTCAGC
62718070 TTTTT
1 TTTTT
62718075 AGCCTTTGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.03, C:0.19, G:0.16, T:0.62
Consensus pattern (16 bp):
TTTTTGGCTTTTCAGC
Found at i:62720430 original size:38 final size:38
Alignment explanation
Indices: 62720379--62720457 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
62720369 ATTGGATACA
62720379 TACAGCTTAGCCAGTTTCTACAATGAATAATCTGAGCG
1 TACAGCTTAGCCAGTTTCTACAATGAATAATCTGAGCG
*
62720417 TACAGCTTAGCCAGTTTCTGCAATGAATAATCTGAGCG
1 TACAGCTTAGCCAGTTTCTACAATGAATAATCTGAGCG
62720455 TAC
1 TAC
62720458 TGGTATAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (38 bp):
TACAGCTTAGCCAGTTTCTACAATGAATAATCTGAGCG
Found at i:62731820 original size:43 final size:43
Alignment explanation
Indices: 62731753--62731920 Score: 189
Period size: 43 Copynumber: 3.9 Consensus size: 43
62731743 AAAGCTCATA
* * * *
62731753 CAATGCC-ATATCCCAGATATGGTCTTACATGTTACCACAAAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAAAT
* * * * *
62731795 CGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCACAACA-
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA-AT
* *
62731838 CAATGCCAATGTCCCAGACATGATCTTACATGTAATTAC-AAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAAAT
*
62731880 ACAATGCCAATGTCCCAGACATGGTTTTACATGTAATCACA
1 -CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
62731921 TCTCGATAAC
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 93 0.91
44 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAAAT
Found at i:62736552 original size:53 final size:53
Alignment explanation
Indices: 62736355--62736609 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 53
62736345 ATTAGGGTTT
* * * *
62736355 AAGGATACCATGTAAGACCATGCCAAGGCATGGTAATTGGTATGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTGGTA-AG-TTCATAAGGC
* *
62736410 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAAGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
** *
62736465 AAAGG-T-CCTATGTAAGACCATGTCAAGATGTGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACC-ATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
* * * *
62736518 GAGGATACAATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT--TCAA-G-
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * *
62736568 -AGGATACCATGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
62736610 GCACCTGTGT
Statistics
Matches: 169, Mismatches: 23, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
49 37 0.22
51 2 0.01
52 7 0.04
53 40 0.24
54 10 0.06
55 69 0.41
56 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:62742247 original size:40 final size:40
Alignment explanation
Indices: 62742197--62742346 Score: 149
Period size: 40 Copynumber: 3.7 Consensus size: 40
62742187 TAGTGATTTG
*
62742197 CACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCA
1 CACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTCA
* * * * * *
62742237 CACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCG
1 CACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTCA
* * * *
62742277 TACAAATGCCTTCGGGAATT-GACCCGAATTTAGTCACTTA
1 CACAAATGCCTTCGGGAATTAG-CCCGGATTTAGTAACTCA
* * *
62742317 GCACAAAAGCCTTTGGGACTTAGCCCGGAT
1 -CACAAATGCCTTCGGGAATTAGCCCGGAT
62742347 ACCATTCGAA
Statistics
Matches: 85, Mismatches: 22, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
40 62 0.73
41 22 0.26
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
CACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAACTCA
Found at i:62742263 original size:80 final size:81
Alignment explanation
Indices: 62742179--62742344 Score: 183
Period size: 80 Copynumber: 2.1 Consensus size: 81
62742169 TGGGACATTG
* * * * * *
62742179 CCCGGTTATAGTGATTTGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAACTCA-CACGA
1 CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGAATTTAGTAACTCAGCACAA
*
62742242 ATGCCTTCGGGACTTAA
65 AAGCCTTCGGGACTTAA
* * * * *
62742259 CCCGGTTTTGGTAACTCGTACAAATGCCTTCGGGAATTGACCCGAATTTAGTCACTTAGCACAAA
1 CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGAATTTAGTAACTCAGCACAAA
* *
62742324 AGCCTTTGGGACTTAG
66 AGCCTTCGGGACTTAA
62742340 CCCGG
1 CCCGG
62742345 ATACCATTCG
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
80 46 0.66
81 24 0.34
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (81 bp):
CCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGAATTTAGTAACTCAGCACAAA
AGCCTTCGGGACTTAA
Found at i:62775385 original size:16 final size:16
Alignment explanation
Indices: 62775364--62775394 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62775354 ATAAATTTGA
62775364 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
62775380 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
62775395 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:62782750 original size:53 final size:54
Alignment explanation
Indices: 62782568--62782784 Score: 271
Period size: 55 Copynumber: 4.0 Consensus size: 54
62782558 ATTAGGGTTT
* *
62782568 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTAA-GTTTCATAAGGA
* * * *
62782623 AAGGATACCTTGTAAGACAATGTCAAGACATGGAATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTC-ATAAGG-A
* * *
62782679 AAGG-TCCCATGTAAGACCATGTCAAGACATGGCATTGGTGAG-TTCATAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTCATAAGGA
*
62782731 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTCAAAAGGA
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTAAGTTTCATAAGGA
62782785 TACCACGTCA
Statistics
Matches: 139, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
52 5 0.04
53 43 0.31
54 20 0.14
55 66 0.47
56 5 0.04
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTCATAAGGA
Found at i:62788627 original size:33 final size:33
Alignment explanation
Indices: 62788580--62788677 Score: 90
Period size: 34 Copynumber: 2.9 Consensus size: 33
62788570 CTGATTGCAT
* * *
62788580 ACTGTACTAATTCTGTAATGGGCTTAGGCCC-C
1 ACTGTACTAATTCTGAAATAGGCTCAGGCCCAC
*
62788612 ACTGATACTATTTCTGAAATAGGCTCAGGCCCAC
1 ACTG-TACTAATTCTGAAATAGGCTCAGGCCCAC
** * * *
62788646 ACTGTTTTTGATTCTGAAATGGGCTAAGGCCC
1 ACTG-TACTAATTCTGAAATAGGCTCAGGCCC
62788678 TAACCGAAAC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
32 4 0.08
33 23 0.43
34 26 0.49
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (33 bp):
ACTGTACTAATTCTGAAATAGGCTCAGGCCCAC
Found at i:62791036 original size:28 final size:27
Alignment explanation
Indices: 62790986--62791045 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
62790976 AAATAACATG
* *
62790986 CAGTAACAGTCTGGCCTTAGCCTTATA
1 CAGTAACAGTCTGGCCTAAGCCTAATA
*
62791013 CAGTAACAGTGTGGGCCTAAGCCTAATA
1 CAGTAACAGTCT-GGCCTAAGCCTAATA
*
62791041 TAGTA
1 CAGTA
62791046 TCAGAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (27 bp):
CAGTAACAGTCTGGCCTAAGCCTAATA
Found at i:62791208 original size:27 final size:27
Alignment explanation
Indices: 62791166--62791243 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
62791156 GATATATGTA
*
62791166 AATGTGGCA-AGCCACCAGTATCAG-C
1 AATGTGGCATAGCCACCAGTAACAGTC
*
62791191 AATTGTGGCATAGCCACCAGTAACAGTG
1 AA-TGTGGCATAGCCACCAGTAACAGTC
* *
62791219 AATGTGACATAGTCACCAGT-ACAGT
1 AATGTGGCATAGCCACCAGTAACAGT
62791244 ACTTCCTCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 2 0.04
26 12 0.26
27 30 0.65
28 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (27 bp):
AATGTGGCATAGCCACCAGTAACAGTC
Found at i:62791411 original size:27 final size:27
Alignment explanation
Indices: 62791381--62791550 Score: 227
Period size: 27 Copynumber: 6.3 Consensus size: 27
62791371 GGCATAATCC
* * * *
62791381 TCATTTTACCATACAGGGGTATTAAGG
1 TCATTTTACCCTACAGGGGCATTACGA
* *
62791408 TCATTTTACCCTACAGGGGTATCAC-A
1 TCATTTTACCCTACAGGGGCATTACGA
*
62791434 GTCATTTTACCCTACAGGGGCATTACGG
1 -TCATTTTACCCTACAGGGGCATTACGA
*
62791462 TCATTTTACCCTATAGGGGCATTACGA
1 TCATTTTACCCTACAGGGGCATTACGA
*
62791489 TCATTTTA-CCTACAAGGGCATTACGA
1 TCATTTTACCCTACAGGGGCATTACGA
*
62791515 TCATTTTACCCTATAGGGGCATTACGA
1 TCATTTTACCCTACAGGGGCATTACGA
62791542 TCATTTTAC
1 TCATTTTAC
62791551 AAATCAGGGT
Statistics
Matches: 127, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 24 0.19
27 103 0.81
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGA
Found at i:62791524 original size:53 final size:53
Alignment explanation
Indices: 62791381--62791550 Score: 243
Period size: 53 Copynumber: 3.2 Consensus size: 53
62791371 GGCATAATCC
* * * * *
62791381 TCATTTTACCATACAGGGGTATTAAGGTCATTTTACCCTACAGGGGTATCAC-A
1 TCATTTTACC-TACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGA
62791434 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGA
1 -TCATTTTA-CCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGA
* *
62791489 TCATTTTACCTACAAGGGCATTACGATCATTTTACCCTATAGGGGCATTACGA
1 TCATTTTACCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGA
62791542 TCATTTTAC
1 TCATTTTAC
62791551 AAATCAGGGT
Statistics
Matches: 107, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
53 52 0.49
54 52 0.49
55 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (53 bp):
TCATTTTACCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTACGA
Found at i:62795143 original size:21 final size:21
Alignment explanation
Indices: 62795098--62795146 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
62795088 ATCAGTACAC
* * *
62795098 TCAGATGCATCCATAAGAAAG
1 TCAGATGCATCCACAACAAAA
*
62795119 TCAGATGCATCCACACCAAAA
1 TCAGATGCATCCACAACAAAA
62795140 TCAGATG
1 TCAGATG
62795147 TAGCCATAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.18
Consensus pattern (21 bp):
TCAGATGCATCCACAACAAAA
Found at i:62800372 original size:66 final size:66
Alignment explanation
Indices: 62800302--62800437 Score: 175
Period size: 66 Copynumber: 2.1 Consensus size: 66
62800292 GCACATAGGC
* * *
62800302 GTGTGG-TCGGCCATGAGGAATAAGTCAGTAACCCCTCCAGTTTTCCCACTGTCATGGCACAAGG
1 GTGTGGCT-GGCCATGAGGAACAAGTCAGTAACCCCTCCAGTTTTCCCACAGCCATGGCACAAGG
*
62800366 GT
65 GA
* * * * *
62800368 GTGTGGCTGGCCGTGTGGCACAAGTCAGTAACCCCTCTAGTTTTCCCACAGCCATGGCACATGGG
1 GTGTGGCTGGCCATGAGGAACAAGTCAGTAACCCCTCCAGTTTTCCCACAGCCATGGCACAAGGG
62800433 A
66 A
62800434 GTGT
1 GTGT
62800438 CCTCAACCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
66 59 0.98
67 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (66 bp):
GTGTGGCTGGCCATGAGGAACAAGTCAGTAACCCCTCCAGTTTTCCCACAGCCATGGCACAAGGG
A
Found at i:62800451 original size:66 final size:66
Alignment explanation
Indices: 62800323--62800463 Score: 176
Period size: 66 Copynumber: 2.1 Consensus size: 66
62800313 CATGAGGAAT
* * * * ** *
62800323 AAGTCAGTAACCCCTCCAGTTTTCCCACTGTCATGGCACAAGGGTGTGTGGCTGGCCGTGTGGCA
1 AAGTCAGTAACCCCTCCAGTTTTCCCACAGCCATGGCACAAGGGAGTGTGCCTAACCATGTGGCA
62800388 C
66 C
* * *
62800389 AAGTCAGTAACCCCTCTAGTTTTCCCACAGCCATGGCACATGGGAGTGT-CCTCAACCATGTGGT
1 AAGTCAGTAACCCCTCCAGTTTTCCCACAGCCATGGCACAAGGGAGTGTGCCT-AACCATGTGGC
62800453 AC
65 AC
62800455 AAGTCAGTA
1 AAGTCAGTA
62800464 TGTATTCCCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 2 0.03
66 62 0.97
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (66 bp):
AAGTCAGTAACCCCTCCAGTTTTCCCACAGCCATGGCACAAGGGAGTGTGCCTAACCATGTGGCA
C
Found at i:62804203 original size:28 final size:28
Alignment explanation
Indices: 62804171--62804269 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
62804161 TGCATAAGCC
*
62804171 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
62804199 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
62804227 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
62804256 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62804270 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:62812402 original size:40 final size:40
Alignment explanation
Indices: 62812336--62812502 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
62812326 AAATTGAATG
* * *
62812336 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
62812375 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
62812415 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
62812455 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
62812495 ATATCCGG
1 ATATCCGG
62812503 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:62820458 original size:40 final size:39
Alignment explanation
Indices: 62820363--62820490 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 39
62820353 TGCTGGAAAT
* * * *
62820363 TATATCCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
* *
62820402 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
62820442 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
62820482 TATATCCGG
1 TATATCCGG
62820491 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 27 0.35
40 48 0.62
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:62825928 original size:27 final size:27
Alignment explanation
Indices: 62825898--62825989 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
62825888 GGGCAAATCG
* *
62825898 GTCATATTACCTTACAAGGGTATTACA
1 GTCATTTTACCATACAAGGGTATTACA
62825925 GTCATTTTACCATACAAGGGTATTACA
1 GTCATTTTACCATACAAGGGTATTACA
* *** *
62825952 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCATACAAGGGTATTACA
62825979 GTCATTTTACC
1 GTCATTTTACC
62825990 CTATGGGGGC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACA
Found at i:62825990 original size:27 final size:27
Alignment explanation
Indices: 62825915--62826138 Score: 297
Period size: 27 Copynumber: 8.3 Consensus size: 27
62825905 TACCTTACAA
* * ***
62825915 GGGTATTACAGTCATTTTACCATACAA
1 GGGTATTTCAGTCATTTTACCCTATGG
*
62825942 GGGTATTACAGTCATTTTACCCTATGG
1 GGGTATTTCAGTCATTTTACCCTATGG
62825969 GGGTATTTCAGTCATTTTACCCTATGG
1 GGGTATTTCAGTCATTTTACCCTATGG
* **
62825996 GGGCATTTTGGTCATTTTACCCTATGG
1 GGGTATTTCAGTCATTTTACCCTATGG
* * *
62826023 AGATATTTCAGTCATTTTACCCTTTGG
1 GGGTATTTCAGTCATTTTACCCTATGG
*
62826050 GGGTATTTCAGTTATTTTACCCTATAGG
1 GGGTATTTCAGTCATTTTACCCTAT-GG
62826078 GGG-ATTTCAGTCATTTTACCCTATGG
1 GGGTATTTCAGTCATTTTACCCTATGG
* *
62826104 GGGTATTTCGGTCATTTTACCCTATGA
1 GGGTATTTCAGTCATTTTACCCTATGG
62826131 GGGTATTT
1 GGGTATTT
62826139 GGGCCCAACA
Statistics
Matches: 174, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 5 0.03
27 164 0.94
28 5 0.03
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTCAGTCATTTTACCCTATGG
Found at i:62828546 original size:19 final size:19
Alignment explanation
Indices: 62828522--62828561 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
62828512 ATGTAATTTG
62828522 TTAAGAAT-AAATTTTCTAA
1 TTAAGAATAAAATTTT-TAA
*
62828541 TTAAGATTAAAATTTTTAA
1 TTAAGAATAAAATTTTTAA
62828560 TT
1 TT
62828562 TTCATTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (19 bp):
TTAAGAATAAAATTTTTAA
Found at i:62833525 original size:40 final size:40
Alignment explanation
Indices: 62833440--62833590 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
62833430 AATTGAATGA
* * *
62833440 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
62833480 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
62833521 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
62833560 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
62833591 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:62833604 original size:40 final size:40
Alignment explanation
Indices: 62833477--62833606 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
62833467 ATGCTGGAAA
* * * *
62833477 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
62833517 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
62833557 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
62833597 TTATATCCGG
1 TTATATCCGG
62833607 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:62843744 original size:39 final size:39
Alignment explanation
Indices: 62843663--62843825 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
62843653 TATGGTAACC
** *
62843663 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
62843703 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
62843742 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
62843781 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
62843820 CGCACA
1 CGCACA
62843826 TTCATTCACA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 99 0.86
40 16 0.14
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:62852055 original size:21 final size:21
Alignment explanation
Indices: 62852031--62852074 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
62852021 TGCAATGATA
*
62852031 AAAATACTAGTGAAATGT-CCT
1 AAAATACTACT-AAATGTACCT
*
62852052 AAAATGCTACTAAATGTACCT
1 AAAATACTACTAAATGTACCT
62852073 AA
1 AA
62852075 GTACAAGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.27
Consensus pattern (21 bp):
AAAATACTACTAAATGTACCT
Found at i:62872554 original size:62 final size:62
Alignment explanation
Indices: 62872484--62872609 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
62872474 TTGAACTTAA
62872484 GATAGTTTATTACTAATTAATTTGCTGCTGTAATGCTATAAATTATTGGCTATCCAAATTAG
1 GATAGTTTATTACTAATTAATTTGCTGCTGTAATGCTATAAATTATTGGCTATCCAAATTAG
62872546 GATAGTTTATTACTAATTAATTTGCTGCTGTAATGCTATAAATTATTGGCTATCCAAATTAG
1 GATAGTTTATTACTAATTAATTTGCTGCTGTAATGCTATAAATTATTGGCTATCCAAATTAG
62872608 GA
1 GA
62872610 CAAATTTATG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (62 bp):
GATAGTTTATTACTAATTAATTTGCTGCTGTAATGCTATAAATTATTGGCTATCCAAATTAG
Found at i:62872647 original size:70 final size:70
Alignment explanation
Indices: 62872558--62872692 Score: 200
Period size: 70 Copynumber: 1.9 Consensus size: 70
62872548 TAGTTTATTA
* * * *
62872558 CTAATTAATTTGCTGCTGTAATGCTATAAATTATTGGCTATCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATTTGCTACTGTAATACTATAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTG
62872623 CTTAG
66 CTTAG
* *
62872628 CTAATTAATATT-CTACTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAAT-TTGCTACTGTAATACTATAAATTATTGGCTATCCAAATTAGGACAAAATCATGGT
62872692 G
65 G
62872693 TTATGTGCTA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 56 0.97
71 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (70 bp):
CTAATTAATTTGCTACTGTAATACTATAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:62873531 original size:43 final size:42
Alignment explanation
Indices: 62873478--62873639 Score: 173
Period size: 43 Copynumber: 3.8 Consensus size: 42
62873468 GTGATATACG
* * *
62873478 GGCTTTGGGCCCAGCAGGCTATAATGCCAGTGAAATAATATC
1 GGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATATC
** ** *
62873520 AGGCTTCGGGCCTAGTGGGCTATAATTTCGGTGAGATAATATC
1 -GGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATATC
* *
62873563 GAGCCTCGGGCCTAGCAGGCTATAATGCCGGTGAAATGATATC
1 G-GCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATATC
** *
62873606 GGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 -GGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
62873640 TGAATTCAGA
Statistics
Matches: 98, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
42 13 0.13
43 84 0.86
44 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (42 bp):
GGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATAATATC
Found at i:62873663 original size:42 final size:43
Alignment explanation
Indices: 62873572--62873667 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 43
62873562 CGAGCCTCGG
* * * *
62873572 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCAA
1 GCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAAA
62873615 GCCTAGCAGGCGA-AATGCCGGTG-AATGA-ATTCAGACTTAAA
1 GCCTAGCAGGCGATAATGCCGGTGAAATGATA-TCAGACTTAAA
*
62873656 GGTCTAGCAGGC
1 -GCCTAGCAGGC
62873668 TTATGGCCGG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 1 0.02
41 13 0.28
42 20 0.43
43 12 0.26
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (43 bp):
GCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAAA
Found at i:62878131 original size:34 final size:32
Alignment explanation
Indices: 62878053--62878141 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 32
62878043 TACTGCACTG
* *
62878053 ATTCTGTAATGGGCTTAGGCCCCACTGATACT
1 ATTCTGAAATGGGCTAAGGCCCCACTGATACT
* * * **
62878085 ATTACTGGAATGGGCTCAGGCCCACACTGTTTTTT
1 ATT-CTGAAATGGGCTAAGGCCC-CACTG-ATACT
62878120 ATTCTGAAATGGGCTAAGGCCC
1 ATTCTGAAATGGGCTAAGGCCC
62878142 TAACTGAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
32 3 0.06
33 17 0.36
34 22 0.47
35 5 0.11
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (32 bp):
ATTCTGAAATGGGCTAAGGCCCCACTGATACT
Found at i:62881611 original size:14 final size:14
Alignment explanation
Indices: 62881588--62881618 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
62881578 GTTTTGTTGT
62881588 TTCGACTTTCTTTC
1 TTCGACTTTCTTTC
*
62881602 TTCGATTTTCTTTC
1 TTCGACTTTCTTTC
62881616 TTC
1 TTC
62881619 CTCAACTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.26, G:0.06, T:0.61
Consensus pattern (14 bp):
TTCGACTTTCTTTC
Done.