Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 160 of 325
Found at i:49076760 original size:40 final size:39
Alignment explanation
Indices: 49076636--49076785 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
49076626 ATTGAATGAT
* * * * * * *
49076636 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
49076676 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
49076716 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
49076756 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
49076786 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:49084793 original size:40 final size:40
Alignment explanation
Indices: 49084685--49084794 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
49084675 ATTGAATGAT
* * * * *
49084685 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
49084725 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
49084765 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
49084795 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:49084809 original size:40 final size:39
Alignment explanation
Indices: 49084685--49084833 Score: 124
Period size: 40 Copynumber: 3.8 Consensus size: 39
49084675 ATTGAATGAT
* * * * * * *
49084685 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
49084725 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
49084765 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
49084805 ATCCGGGTTAAG-TCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
49084834 GGGTTACCAT
Statistics
Matches: 91, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 15 0.16
40 70 0.77
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:49088516 original size:49 final size:49
Alignment explanation
Indices: 49088381--49088504 Score: 212
Period size: 49 Copynumber: 2.5 Consensus size: 49
49088371 TGAGGTCACT
** *
49088381 TGTGTAGTACTAAGTGCAAACTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
*
49088430 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
49088479 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
49088505 TGCATACCAG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:49089514 original size:39 final size:39
Alignment explanation
Indices: 49089438--49089514 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 39
49089428 TTCAGTGATG
** * ** *
49089438 TATATCCGGACTTAGGGTCCGCAGGCTATGTGTTGGAAT
1 TATATCCGGACTTAAAGTCCACAGGCTACATGCTGGAAT
*
49089477 TATATCCGGACTTAAAGTCTACAGGCTACATGCTGGAA
1 TATATCCGGACTTAAAGTCCACAGGCTACATGCTGGAA
49089515 ATATGTCCAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCACAGGCTACATGCTGGAAT
Found at i:49094106 original size:43 final size:43
Alignment explanation
Indices: 49094051--49094248 Score: 342
Period size: 43 Copynumber: 4.6 Consensus size: 43
49094041 GCTGGTATTA
*
49094051 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
*
49094094 TATTCGAGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
* *
49094137 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
*
49094180 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
*
49094223 TATTCGGGCCTTCGTGCCTAGTAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
49094249 GTAATACCGG
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 148 1.00
ACGTcount: A:0.13, C:0.25, G:0.32, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
Found at i:49097432 original size:15 final size:15
Alignment explanation
Indices: 49097412--49097456 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
49097402 TATCCTATCT
49097412 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
*
49097427 TGGGTTTCTCTA-TC
1 TGGGTTTCTTTATTC
*
49097441 TAGGATTTCTTTATTC
1 T-GGGTTTCTTTATTC
49097457 AGTTTTCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 3 0.12
15 20 0.80
16 2 0.08
ACGTcount: A:0.11, C:0.16, G:0.18, T:0.56
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:49099998 original size:49 final size:49
Alignment explanation
Indices: 49099926--49100113 Score: 223
Period size: 49 Copynumber: 3.8 Consensus size: 49
49099916 TGAGGTCACG
* *
49099926 TGTGTAGTACTAAGTGCAGGCTACTACGTTTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
49099975 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* * *
49100026 TGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
49100075 TGTGTAGTACTAAGCGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
49100114 GCTTTGGCTA
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 73 0.64
50 2 0.02
51 39 0.34
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:49100094 original size:100 final size:100
Alignment explanation
Indices: 49099921--49100108 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
49099911 TATTGTGAGG
* * * *
49099921 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTTTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGAATGTGTAGTACT
*
49099986 AAGTGCAGGCTACTATGCGTACCCGAAAACTATGA
66 AAGCGCAGGCTACTATGCGTACCCGAAAACTATGA
*
49100021 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGAATGTGTAGTACT
1 TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGAATGTGTAGTACT
49100086 AAGCGCAGGCTACTATGCGTACC
66 AAGCGCAGGCTACTATGCGTACC
49100109 AGATAGCTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACAAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGAATGTGTAGTACT
AAGCGCAGGCTACTATGCGTACCCGAAAACTATGA
Found at i:49103782 original size:27 final size:26
Alignment explanation
Indices: 49103744--49103823 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 26
49103734 TGGAGGAAGC
*
49103744 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
49103771 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
49103797 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
49103824 ATTATGGTAG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 9 0.18
27 40 0.82
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:49115731 original size:14 final size:16
Alignment explanation
Indices: 49115707--49115739 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
49115697 ATTTTCAGTG
49115707 TTTATTATGTGT-GAA
1 TTTATTATGTGTGGAA
49115722 TTTA-TATGTGTGGAA
1 TTTATTATGTGTGGAA
49115737 TTT
1 TTT
49115740 TCGTGTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (16 bp):
TTTATTATGTGTGGAA
Found at i:49116380 original size:10 final size:10
Alignment explanation
Indices: 49116365--49116390 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
49116355 GTAAATGAAA
49116365 TGTATGGACT
1 TGTATGGACT
49116375 TGTATGGACT
1 TGTATGGACT
49116385 TGTATG
1 TGTATG
49116391 AACACAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (10 bp):
TGTATGGACT
Found at i:49116567 original size:15 final size:15
Alignment explanation
Indices: 49116547--49116577 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49116537 GTGAAAATAT
49116547 GTTTGAATAAGTTTA
1 GTTTGAATAAGTTTA
*
49116562 GTTTGAATATGTTTA
1 GTTTGAATAAGTTTA
49116577 G
1 G
49116578 ATCAAGAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (15 bp):
GTTTGAATAAGTTTA
Found at i:49122662 original size:39 final size:39
Alignment explanation
Indices: 49122608--49122686 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
49122598 TAACGCCCCG
49122608 AATTTGGGGCTAGAAAGAATGGGCCTTGAGTAGGGTAAC
1 AATTTGGGGCTAGAAAGAATGGGCCTTGAGTAGGGTAAC
49122647 AATTTGGGGCTAGAAAGAATGGGCCTTGAGTAGGGTAAC
1 AATTTGGGGCTAGAAAGAATGGGCCTTGAGTAGGGTAAC
49122686 A
1 A
49122687 GTGAGAAGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.32, C:0.10, G:0.35, T:0.23
Consensus pattern (39 bp):
AATTTGGGGCTAGAAAGAATGGGCCTTGAGTAGGGTAAC
Found at i:49124887 original size:54 final size:54
Alignment explanation
Indices: 49124776--49124889 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
49124766 CCCCGATTCA
* * **
49124776 TAAAATTACCGAAATACCCCCTATTTGTAAAATTATCAAAATACCTCTACATTG
1 TAAAATTACCGAAATACCCCCTATTTGTAAAATTAGCAAAATACCCCTACAGGG
* * * *
49124830 TAAAATTATCGAAATACCCTC-AGTTTGTAAAATTAGCGAAATACCCCTATAGGG
1 TAAAATTACCGAAATACCCCCTA-TTTGTAAAATTAGCAAAATACCCCTACAGGG
49124884 TAAAAT
1 TAAAAT
49124890 GATTGTTTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 50 0.98
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCCCTATTTGTAAAATTAGCAAAATACCCCTACAGGG
Found at i:49124889 original size:27 final size:26
Alignment explanation
Indices: 49124776--49124879 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 26
49124766 CCCCGATTCA
*
49124776 TAAAATTACCGAAATACCCCCTATTTG
1 TAAAATTATCGAAATA-CCCCTATTTG
* * *
49124803 TAAAATTATCAAAATACCTCTACATTG
1 TAAAATTATCGAAATACCCCTA-TTTG
49124830 TAAAATTATCGAAATA-CCCTCAGTTTG
1 TAAAATTATCGAAATACCCCT-A-TTTG
*
49124857 TAAAATTAGCGAAATACCCCTAT
1 TAAAATTATCGAAATACCCCTAT
49124880 AGGGTAAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 9 0.14
27 52 0.80
28 4 0.06
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (26 bp):
TAAAATTATCGAAATACCCCTATTTG
Found at i:49125297 original size:22 final size:22
Alignment explanation
Indices: 49125244--49125308 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
49125234 ACCGCGTAAT
* *
49125244 CTGATTATGGCTCTGTGGCAAC
1 CTGAATATGGCTCTGTGCCAAC
* * *
49125266 CTAAAAATGGCTCTGTGCCATC
1 CTGAATATGGCTCTGTGCCAAC
* *
49125288 CTGACTATGGCTTTGTGCCAA
1 CTGAATATGGCTCTGTGCCAA
49125309 ATGTATTTAC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGAATATGGCTCTGTGCCAAC
Found at i:49127362 original size:159 final size:159
Alignment explanation
Indices: 49127070--49127391 Score: 464
Period size: 159 Copynumber: 2.0 Consensus size: 159
49127060 TGTGATTATG
* * *
49127070 TGATCTGGGTACTGGTCCTGTACGTCCTAACGGTGATTGAGTATACTAGCATGTGTTGCGGTTAC
1 TGATCTGGGTACTGGTCCTGTACGTCCTAACAGTGACTGAGTATACTAGCATGTGTTGCGATTAC
* * * *
49127135 TTAACAGCTTGTGTGAGCAACACCGTGTAGCTACATCTTGACCCACAGCTTGTGTGAGGAGGCCC
66 TTAACAACTTGTGTGAGCAACACCATGTAGCTACATCTTGACCCACAGCTTGTATGAGCAGGCCC
49127200 GTTGATAGCTCTAGTGTGAGCAGGATATA
131 GTTGATAGCTCTAGTGTGAGCAGGATATA
* * * * * *
49127229 TGATCTGGGTGCTGGTCCTGTACGTCTTACCAGTGGCTGAGTATACTGGCATGTGTTGTGATTAC
1 TGATCTGGGTACTGGTCCTGTACGTCCTAACAGTGACTGAGTATACTAGCATGTGTTGCGATTAC
* * * * *
49127294 TTGATAACTTGTGTGAGCAGCACCATGTAGCTACGTCTTGACCCACAGCTTGTATGAGCAGGCTC
66 TTAACAACTTGTGTGAGCAACACCATGTAGCTACATCTTGACCCACAGCTTGTATGAGCAGGCCC
* *
49127359 GTTGATAGCTCTAGTGTGAGCAGTATATG
131 GTTGATAGCTCTAGTGTGAGCAGGATATA
49127388 TGAT
1 TGAT
49127392 ATGAGATTCT
Statistics
Matches: 143, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
159 143 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (159 bp):
TGATCTGGGTACTGGTCCTGTACGTCCTAACAGTGACTGAGTATACTAGCATGTGTTGCGATTAC
TTAACAACTTGTGTGAGCAACACCATGTAGCTACATCTTGACCCACAGCTTGTATGAGCAGGCCC
GTTGATAGCTCTAGTGTGAGCAGGATATA
Found at i:49131740 original size:39 final size:41
Alignment explanation
Indices: 49131639--49131822 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 41
49131629 TCGAATGATG
* * *
49131639 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
*
49131679 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
49131719 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
49131758 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* * *
49131797 ACCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49131823 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 68 0.54
40 45 0.36
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:49131789 original size:78 final size:80
Alignment explanation
Indices: 49131639--49131816 Score: 229
Period size: 79 Copynumber: 2.2 Consensus size: 80
49131629 TCGAATGATG
* * * * *
49131639 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGATTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTCACTAAATCCGGACTAAGACCCGAAGGCATTT
49131704 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* *
49131718 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGCTAAG-CCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTCACTAAATCCGGACTAAGACCCGAAGGCAT
49131780 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
49131797 ACCGGGCTATGTCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
49131817 TATTTGAACG
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 34 0.40
79 35 0.41
80 17 0.20
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTCACTAAATCCGGACTAAGACCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:49134488 original size:40 final size:39
Alignment explanation
Indices: 49134407--49134550 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 39
49134397 CCGCACCAAG
* * * * * * *
49134407 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AAT
* *
49134447 GCCTTCGGGTCTTAGCCCGGATTTAACAACTGGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC-AAT
* *
49134487 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAA-T
*
49134527 GCCTTCGGGTCTTAACCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
49134551 CATTTTCAGC
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.02
40 87 0.98
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAT
Found at i:49134567 original size:40 final size:41
Alignment explanation
Indices: 49134439--49134594 Score: 158
Period size: 40 Copynumber: 3.9 Consensus size: 41
49134429 ATCACGATTT
* * *** *
49134439 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-TTAACAACTG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
**
49134479 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT-AGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
* *
49134519 GCACAATTGCCTTCGGGTCTTAACCCGGATATCATTTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
* * *
49134559 GCATAATTGTCTTCGGGGCTTAGCCCGGATATCATT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATT
49134595 CAATTTCTCA
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 93 0.92
41 6 0.06
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (41 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATCATTTACTA
Found at i:49140122 original size:37 final size:37
Alignment explanation
Indices: 49140072--49140149 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
49140062 TATAAAAGAA
49140072 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
49140109 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
49140146 GTCT
1 GTCT
49140150 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:49140312 original size:49 final size:49
Alignment explanation
Indices: 49140252--49140374 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
49140242 CATATATTTT
*
49140252 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
49140301 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
49140350 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
49140375 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:49143520 original size:40 final size:41
Alignment explanation
Indices: 49143476--49143574 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
49143466 TCGATTGTTC
* * **
49143476 TCGGGACATAGCCCGG-TTATAGTGA-TTTGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAACGCCT
49143516 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAACGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAACGCCT
*
49143557 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
49143575 ACCATTCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.38
41 30 0.60
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAACGCCT
Found at i:49144095 original size:29 final size:29
Alignment explanation
Indices: 49144058--49144482 Score: 737
Period size: 29 Copynumber: 14.7 Consensus size: 29
49144048 TGTTGAAAAA
* *
49144058 CTCGTACACACAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
*
49144087 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
49144116 TTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49144145 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49144174 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49144203 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49144232 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49144261 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49144290 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49144319 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49144348 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49144377 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49144406 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* * *
49144435 CTCGCACACATAGTG-CTCGGTTAACGGAAT
1 CTCGCACACACAGTGCCTCGATT-ACTG-AT
*
49144465 -TTGCACACACAGTGCCTC
1 CTCGCACACACAGTGCCTC
49144483 TAATCATTCG
Statistics
Matches: 382, Mismatches: 11, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
28 6 0.02
29 371 0.97
30 5 0.01
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCGATTACTGAT
Found at i:49146545 original size:37 final size:37
Alignment explanation
Indices: 49146495--49146572 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
49146485 TATAAAAGAA
49146495 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
49146532 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
49146569 GTCT
1 GTCT
49146573 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:49146735 original size:49 final size:49
Alignment explanation
Indices: 49146675--49146797 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
49146665 CATATATTTT
*
49146675 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
49146724 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
49146773 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
49146798 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:49149943 original size:40 final size:41
Alignment explanation
Indices: 49149899--49149997 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
49149889 TCGATTGTTC
* * **
49149899 TCGGGACATAGCCCGG-TTATAGTGA-TTTGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAACGCCT
49149939 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAACGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAACGCCT
*
49149980 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
49149998 ACCATTCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.38
41 30 0.60
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAACGCCT
Found at i:49150518 original size:29 final size:29
Alignment explanation
Indices: 49150481--49150790 Score: 496
Period size: 29 Copynumber: 10.7 Consensus size: 29
49150471 TGTTGAAAAA
* *
49150481 CTCGTACACACAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
49150510 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
49150539 TTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49150568 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49150597 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49150626 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49150655 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49150684 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
*
49150713 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* * *
49150742 CTCGCACACATAGTGCCTCGGTTAATGGAAT
1 CTCGCACACACAGTGCCTCGATTACT-G-AT
*
49150773 -TTGCACACACAGTGCCTC
1 CTCGCACACACAGTGCCTC
49150791 TAATCATTCG
Statistics
Matches: 268, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
29 249 0.93
30 17 0.06
31 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCGATTACTGAT
Found at i:49152854 original size:37 final size:37
Alignment explanation
Indices: 49152804--49152881 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
49152794 TATAAAAGAA
49152804 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
49152841 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
49152878 GTCT
1 GTCT
49152882 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:49153044 original size:49 final size:49
Alignment explanation
Indices: 49152984--49153106 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
49152974 CATATATTTT
*
49152984 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
49153033 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
49153082 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
49153107 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:49156249 original size:40 final size:41
Alignment explanation
Indices: 49156205--49156303 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
49156195 TCGATTGTTC
* * **
49156205 TCGGGACATAGCCCGG-TTATAGTGA-TTTGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAACGCCT
49156245 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAACGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAACGCCT
*
49156286 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
49156304 ACCATTCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.38
41 30 0.60
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAACGCCT
Found at i:49156824 original size:29 final size:29
Alignment explanation
Indices: 49156787--49157269 Score: 835
Period size: 29 Copynumber: 16.7 Consensus size: 29
49156777 TGTTGAAAAA
* *
49156787 CTCGTACACACAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
49156816 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* *
49156845 TTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49156874 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49156903 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49156932 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49156961 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49156990 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49157019 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49157048 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49157077 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49157106 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49157135 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
49157164 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
*
49157193 CTCGCACACACAGTGCCTCGATTACTGGT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* * *
49157222 CTCGCACACATAGTG-CTCGGTTAACGGAAT
1 CTCGCACACACAGTGCCTCGATT-ACTG-AT
*
49157252 -TTGCACACACAGTGCCTC
1 CTCGCACACACAGTGCCTC
49157270 TAATCATTCG
Statistics
Matches: 438, Mismatches: 13, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
28 6 0.01
29 428 0.98
30 4 0.01
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCGATTACTGAT
Found at i:49159333 original size:37 final size:37
Alignment explanation
Indices: 49159283--49159360 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
49159273 TATAAAAGAA
49159283 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
49159320 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
49159357 GTCT
1 GTCT
49159361 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:49159523 original size:49 final size:49
Alignment explanation
Indices: 49159463--49159585 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
49159453 CATATATTTT
*
49159463 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
49159512 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
49159561 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
49159586 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:49162414 original size:46 final size:46
Alignment explanation
Indices: 49162360--49162532 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
49162350 TGGTTGAGCA
*
49162360 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
49162406 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
49162453 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
49162499 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49162533 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 59 0.56
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:49162516 original size:93 final size:93
Alignment explanation
Indices: 49162357--49162527 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
49162347 GGATGGTTGA
*
49162357 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCAAACTCGTTGAGT
49162422 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
49162450 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-AAACTCGTTGAG
49162514 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
49162528 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49168704 original size:39 final size:38
Alignment explanation
Indices: 49168655--49168768 Score: 156
Period size: 39 Copynumber: 2.9 Consensus size: 38
49168645 TATCACGATT
*
49168655 TGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* *
49168694 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCTAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAAC
*
49168733 TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
1 T-GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAA
49168769 TTTCCAGCAT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 38 0.57
40 29 0.43
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (38 bp):
TGCACAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
Found at i:49168762 original size:40 final size:40
Alignment explanation
Indices: 49168624--49168806 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
49168614 CCGCACCAAG
* * * * * * * *
49168624 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
49168664 GCCTTCGGGTCTTAGCCCGGATTTAACAACT-GCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
49168703 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * * *
49168743 GCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
49168783 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
49168807 CATTCAATTT
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 35 0.29
40 86 0.71
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:49173740 original size:40 final size:40
Alignment explanation
Indices: 49173681--49173849 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
49173671 CGGGACTTTA
* * *
49173681 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
49173721 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
49173761 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
49173801 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
49173841 CCCGGATAT
1 CCCGGATAT
49173850 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:49180793 original size:39 final size:41
Alignment explanation
Indices: 49180692--49180875 Score: 222
Period size: 39 Copynumber: 4.6 Consensus size: 41
49180682 TCGAATGATG
* * *
49180692 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
*
49180732 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
49180772 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
49180811 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
49180850 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49180876 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
38 1 0.01
39 68 0.54
40 46 0.37
41 11 0.09
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:49180869 original size:79 final size:81
Alignment explanation
Indices: 49180693--49180873 Score: 237
Period size: 79 Copynumber: 2.3 Consensus size: 81
49180683 CGAATGATGT
* * * * *
49180693 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGATTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGACCCGAAGGCATTT
*
49180757 GTGCGAGTTACTAATT
66 GTGCGAGTTACTAATA
* *
49180773 CCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGCTAAG-CCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGACCCGAAGGCATTT
49180835 GTGCGAGTTACT-ATAA
66 GTGCGAGTTACTAAT-A
*
49180851 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
49180874 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 2 0.02
78 33 0.37
79 38 0.43
80 16 0.18
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTCACTAAATCCGGACTAAGACCCGAAGGCATTT
GTGCGAGTTACTAATA
Found at i:49180893 original size:79 final size:79
Alignment explanation
Indices: 49180728--49180894 Score: 214
Period size: 79 Copynumber: 2.1 Consensus size: 79
49180718 GCTAAGTGAT
* *
49180728 TATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCA
1 TATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA
**
49180793 TTGGTGCGAGTCAC
66 TTGGAACGAGTCAC
* * *
49180807 TAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGG
1 TATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGG
*
49180870 CATTTGAACGAGT-AGC
64 CATTGGAACGAGTCA-C
49180886 TATATCCGG
1 TATATCCGG
49180895 TTAAACTCCG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
77 2 0.03
78 34 0.45
79 40 0.53
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA
TTGGAACGAGTCAC
Found at i:49182950 original size:56 final size:56
Alignment explanation
Indices: 49182890--49183084 Score: 311
Period size: 56 Copynumber: 3.5 Consensus size: 56
49182880 TCCTAGACAG
* * *
49182890 GGTCTTACTCACACACATATATCGGAGTCACATATCGATGCCAATGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAATGT
*
49182946 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACATATAAAACT-T
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAA-TGT
* *
49183002 GGTCTTACTCGCACACATATATTGAAGTCACATATCAATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAATGT
*
49183058 GGTCTTCCTCGCACACATATATCGAAG
1 GGTCTTACTCGCACACATATATCGAAG
49183085 CCATGGTCTT
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
55 1 0.01
56 126 0.98
57 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAATGT
Found at i:49184127 original size:14 final size:15
Alignment explanation
Indices: 49184110--49184138 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49184100 TCACGAAAAT
49184110 TTCACACAT-ATAAA
1 TTCACACATAATAAA
49184124 TTCACACATAATAAA
1 TTCACACATAATAAA
49184139 AATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:49190298 original size:27 final size:27
Alignment explanation
Indices: 49190258--49190362 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
49190248 AGGAAGCGTC
*
49190258 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
49190285 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
49190312 CTGGTGGCTCTGCCACTATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
49190340 CTGGTGACTTTGTCAC-ATTATCT
1 CTGGTGGCTCTGCCACAATTATCT
49190363 ATTCTGGCAG
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 3 0.04
27 48 0.71
28 17 0.25
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:49190368 original size:54 final size:54
Alignment explanation
Indices: 49190258--49190369 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
49190248 AGGAAGCGTC
* * *
49190258 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * * *
49190312 CTGGTGGCTCTGCCACTATTATCTGTATCTGGTGACTTTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
49190366 CTGG
1 CTGG
49190370 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:49191364 original size:17 final size:18
Alignment explanation
Indices: 49191333--49191368 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
49191323 GTCGAATGGG
*
49191333 TTCACAAAAACAAAAATT
1 TTCACAAAAAAAAAAATT
49191351 TTCA-AAAAAAAAAAATT
1 TTCACAAAAAAAAAAATT
49191368 T
1 T
49191369 AAAAGAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (18 bp):
TTCACAAAAAAAAAAATT
Found at i:49192836 original size:464 final size:465
Alignment explanation
Indices: 49191967--49192895 Score: 1716
Period size: 464 Copynumber: 2.0 Consensus size: 465
49191957 CAGGTATCAC
* *
49191967 CCCGAATGTGGCAGAATATTGGTTGGAGGCCACAGAATGAATTATGGATGACTTGGATTGCTCTA
1 CCCGAATGTGGAAGAATATTGGTTGGAGGCCACAGAACGAATTATGGATGACTTGGATTGCTCTA
49192032 TGGAGCAGAAACTGAAGGGAGCCATATCATTGCTACGGGACGAGGCTTACCAGTGGTGGCTCACT
66 TGGAGCAGAAACTGAAGGGAGCCATATCATTGCTACGGGACGAGGCTTACCAGTGGTGGCTCACT
* *
49192097 ATGAGAGAAGGAACCCCAGCTGATAGGGTAACTTGGGAACTGTTTAAGATGGCCTTTAAAGGCAA
131 ATGAGAGAAAGAACCCCAGCTAATAGGGTAACTTGGGAACTGTTTAAGATGGCCTTTAAAGGCAA
49192162 GTATGTTGGGGCAAGTTATGTGGAAGCTCGCAGGAAGGAATTCTTGAATCTGGTGCAAGGAGGTA
196 GTATGTTGGGGCAAGTTATGTGGAAGCTCGCAGGAAGGAATTCTTGAATCTGGTGCAAGGAGGTA
* *
49192227 AGACAGTTGCTGAGTACGAGGCCAAGTTTCTGAGGTTGAGCCGGTATGTCGTGAGCATAGTTGCT
261 AGACAATTGCTGAGTACGAGGCCAAGTTTCTGAGGTTGAGCCGGTATGCCGTGAGCATAGTTGCT
*
49192292 ACGGAATATGAGTGAAGTGTACGCTTCGAGGATGGTCTTAGGGATGACCTGAGGGTGTTGATTGC
326 ACGGAATATGAGCGAAGTGTACGCTTCGAGGATGGTCTTAGGGATGACCTGAGGGTGTTGATTGC
*
49192357 TCCGCAGAGGGAGCGAGAC-TTACAGTCTTGGTGGAGAAGGAAAAGATAGCAGAGGAGGTTAAGC
391 TCCGCAGAAGGAGCGAGACTTTACAGTCTTGGTGGAGAAGGAAAAGATAGCAGAGGAGGTTAAGC
49192421 GGGCTGAAAA
456 GGGCTGAAAA
*
49192431 CCCGAATGTGGAAGAATATTGGTTGGAGGCCACAGAACGAATTATGGATGACTTGGATTGCTCTG
1 CCCGAATGTGGAAGAATATTGGTTGGAGGCCACAGAACGAATTATGGATGACTTGGATTGCTCTA
49192496 TGGAGCAGAAACTGAAGGGAGCCATATCATTGCTACGGGACGAGGCTTACCAGTGGTGGCTCACT
66 TGGAGCAGAAACTGAAGGGAGCCATATCATTGCTACGGGACGAGGCTTACCAGTGGTGGCTCACT
49192561 ATGAGAGAAAGAACCCCAGCTAATAGGGTAACTTGGGAACTGTTTAAGATGGCCTTTAAAGGCAA
131 ATGAGAGAAAGAACCCCAGCTAATAGGGTAACTTGGGAACTGTTTAAGATGGCCTTTAAAGGCAA
*
49192626 GTATGTTGGGGCAAGTTATGTGGACGCTCGCAGGAAGGAATTCTTGAATCTGGTGCAAGGAGGTA
196 GTATGTTGGGGCAAGTTATGTGGAAGCTCGCAGGAAGGAATTCTTGAATCTGGTGCAAGGAGGTA
*
49192691 AGATAATTGCTGAGTACGAGGCCAAGTTTCTGAGGTTGAGCCGGTATGCCGTGAGCATAGTTGCT
261 AGACAATTGCTGAGTACGAGGCCAAGTTTCTGAGGTTGAGCCGGTATGCCGTGAGCATAGTTGCT
49192756 ACGGAATATGAGCGAAGTGTACGCTTCGAGGATGGTCTTAGGGATGACCTGAGGGTGTTGATTGC
326 ACGGAATATGAGCGAAGTGTACGCTTCGAGGATGGTCTTAGGGATGACCTGAGGGTGTTGATTGC
* * * *
49192821 TCCGCAGAAGGAGCGAGACTTTACGGTCTTGGTGGAGAAGGCAAAGATAGCAGCGGAGGTTAAGG
391 TCCGCAGAAGGAGCGAGACTTTACAGTCTTGGTGGAGAAGGAAAAGATAGCAGAGGAGGTTAAGC
49192886 GGGCTGAAAA
456 GGGCTGAAAA
49192896 GCAGAATCGA
Statistics
Matches: 449, Mismatches: 15, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
464 398 0.89
465 51 0.11
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (465 bp):
CCCGAATGTGGAAGAATATTGGTTGGAGGCCACAGAACGAATTATGGATGACTTGGATTGCTCTA
TGGAGCAGAAACTGAAGGGAGCCATATCATTGCTACGGGACGAGGCTTACCAGTGGTGGCTCACT
ATGAGAGAAAGAACCCCAGCTAATAGGGTAACTTGGGAACTGTTTAAGATGGCCTTTAAAGGCAA
GTATGTTGGGGCAAGTTATGTGGAAGCTCGCAGGAAGGAATTCTTGAATCTGGTGCAAGGAGGTA
AGACAATTGCTGAGTACGAGGCCAAGTTTCTGAGGTTGAGCCGGTATGCCGTGAGCATAGTTGCT
ACGGAATATGAGCGAAGTGTACGCTTCGAGGATGGTCTTAGGGATGACCTGAGGGTGTTGATTGC
TCCGCAGAAGGAGCGAGACTTTACAGTCTTGGTGGAGAAGGAAAAGATAGCAGAGGAGGTTAAGC
GGGCTGAAAA
Found at i:49196731 original size:17 final size:18
Alignment explanation
Indices: 49196689--49196737 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
49196679 AGTTGAAAAG
49196689 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
49196708 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
49196725 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
49196738 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:49197625 original size:40 final size:40
Alignment explanation
Indices: 49197559--49197725 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
49197549 AAATTGAATG
* * *
49197559 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49197598 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
49197638 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49197678 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49197718 ATATCCGG
1 ATATCCGG
49197726 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49204750 original size:17 final size:18
Alignment explanation
Indices: 49204708--49204756 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
49204698 AGTTGAAAAG
49204708 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
49204727 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
49204744 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
49204757 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:49205642 original size:40 final size:40
Alignment explanation
Indices: 49205576--49205742 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
49205566 AAATTGAATG
* * *
49205576 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49205615 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
49205655 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49205695 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49205735 ATATCCGG
1 ATATCCGG
49205743 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49209835 original size:27 final size:27
Alignment explanation
Indices: 49209795--49209906 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
49209785 AGGAAGCGTC
*
49209795 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
49209822 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
49209849 CTGGTGGCTCTGCCACTATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
49209877 CTGGTGACTCTGTCA-TATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
49209903 CTGG
1 CTGG
49209907 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 50 0.67
28 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:49209901 original size:54 final size:53
Alignment explanation
Indices: 49209795--49209906 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 53
49209785 AGGAAGCGTC
*
49209795 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTG-CACATATTTCTGTT
* * *
49209849 CTGGTGGCTCTGCCACTATTATCTGTATCTGGTGACTCTG-TCATATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCACATATT-TCTGTT
49209903 CTGG
1 CTGG
49209907 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
53 6 0.12
54 33 0.63
55 13 0.25
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCACATATTTCTGTT
Found at i:49215060 original size:43 final size:42
Alignment explanation
Indices: 49215012--49215169 Score: 115
Period size: 43 Copynumber: 3.7 Consensus size: 42
49215002 AGCATATACA
*
49215012 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGTAATCAAA-ATCG
* * * *
49215055 ATGCC-ACTGTCCTAGACAG-GGTCTTACACGAAATCAGATAT-G
1 ATGCCAAC-GTCCCAGA-TGTGGTCTTACACGTAATCA-AAATCG
* * * * ** * *
49215097 ATGTCGATGTCCTAGACATGGTCTTACACGTAAAACAGAAGTCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACGT-AATCA-AAATCG
*
49215141 GTGCCAACGTCCCAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGATGTGGTCTTACAC
49215170 AAAAACACGT
Statistics
Matches: 88, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
42 26 0.30
43 37 0.42
44 25 0.28
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACGTAATCAAAATCG
Found at i:49215649 original size:50 final size:50
Alignment explanation
Indices: 49215602--49215702 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
49215592 AAAATACACA
* *
49215602 TAATTTGCACATACTCGTGCTTGGCCGAATATTCATCGCACTCATACAAG
1 TAATTTGCACATACTCATGCTTGGCCGAATATTCATAGCACTCATACAAG
49215652 TAATTTGCACATACTCATGCTTGGCCGAATATTCATAGCACTCATACAAG
1 TAATTTGCACATACTCATGCTTGGCCGAATATTCATAGCACTCATACAAG
49215702 T
1 T
49215703 CCACACATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (50 bp):
TAATTTGCACATACTCATGCTTGGCCGAATATTCATAGCACTCATACAAG
Found at i:49221047 original size:64 final size:65
Alignment explanation
Indices: 49220887--49221053 Score: 178
Period size: 68 Copynumber: 2.5 Consensus size: 65
49220877 ATACAAATAG
* * *
49220887 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACGT
1 TATGTAGCTAGGTCACATGTGT-GTACTAAGTGCACACCATGTGTACAAGAGAGCTACAAGACG-
49220952 TA
64 TA
* * * **
49220954 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGA-
1 T-ATGTAGCTAGGTCACATGTGTG-TACTAAGTGCACACCATGT-GTACAAGAGAGCTACAAGAC
49221017 G-A
63 GTA
*
49221019 TATGTAGCTAGGTCGCATGTGTAGTACTAAGTGCA
1 TATGTAGCTAGGTCACATGTGT-GTACTAAGTGCA
49221054 GGCTACTATG
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
64 28 0.33
65 3 0.04
67 3 0.04
68 49 0.58
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (65 bp):
TATGTAGCTAGGTCACATGTGTGTACTAAGTGCACACCATGTGTACAAGAGAGCTACAAGACGTA
Found at i:49225741 original size:27 final size:27
Alignment explanation
Indices: 49225689--49225743 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
49225679 TATTGTTCTG
* *
49225689 GTGGCTTTGCCACGTATTCTGATATTA
1 GTGGCTATGCCACGTATTCCGATATTA
*
49225716 GTGGCTATGCCACGT-TTACCGTTATTA
1 GTGGCTATGCCACGTATT-CCGATATTA
49225743 G
1 G
49225744 CAGCTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACGTATTCCGATATTA
Found at i:49225765 original size:23 final size:23
Alignment explanation
Indices: 49225738--49225792 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
49225728 CGTTTACCGT
*
49225738 TATTAGCAGCTTTAATGCGTTAC
1 TATTAGCAGCTTTAATACGTTAC
* **
49225761 TATTAGTAGCTTTTCTACGTTAC
1 TATTAGCAGCTTTAATACGTTAC
49225784 TATTAGCAG
1 TATTAGCAG
49225793 TTACGCTGCG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (23 bp):
TATTAGCAGCTTTAATACGTTAC
Found at i:49228478 original size:35 final size:35
Alignment explanation
Indices: 49228432--49228501 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
49228422 GGATTATTTG
49228432 CCGTTGGCAAAGTTTGCTTATAACAACAGCTACCA
1 CCGTTGGCAAAGTTTGCTTATAACAACAGCTACCA
*
49228467 CCGTTGGCAAAGTTTGTTTATAACAACAGCTACCA
1 CCGTTGGCAAAGTTTGCTTATAACAACAGCTACCA
49228502 GTCTAGTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (35 bp):
CCGTTGGCAAAGTTTGCTTATAACAACAGCTACCA
Found at i:49230670 original size:23 final size:23
Alignment explanation
Indices: 49230644--49230703 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
49230634 CCATGTTTAC
* * *
49230644 TACTATTAATATCTTTGTTGCGT
1 TACTATTAACAGCTTTGCTGCGT
*
49230667 TACTATTAGCAGCTTTGCTGCGT
1 TACTATTAACAGCTTTGCTGCGT
*
49230690 TACTATTAGCAGCT
1 TACTATTAACAGCT
49230704 ACACTGTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (23 bp):
TACTATTAACAGCTTTGCTGCGT
Found at i:49234669 original size:40 final size:40
Alignment explanation
Indices: 49234594--49234690 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
49234584 TCAGTTATTG
* *
49234594 TGGCACTTAGTGTGCAATTCGACATAACTTTGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAACTTCGGCTATATA
* * * *
49234634 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAACTTCGGCTATATA
***
49234674 CAACACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
49234691 GATATCGAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAACTTCGGCTATATA
Found at i:49234720 original size:28 final size:28
Alignment explanation
Indices: 49234677--49234748 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
49234667 CTATGTACAA
* * *
49234677 CACTTAGTGTGCGAGATATCGAGTGTGG
1 CACTTAGTGTGTGAGATATCGAATATGG
* *
49234705 CACTTAGTGTATGAGATATCGAATATTG
1 CACTTAGTGTGTGAGATATCGAATATGG
49234733 CACTTAGTGTGTGAGA
1 CACTTAGTGTGTGAGA
49234749 CATTAAGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.32
Consensus pattern (28 bp):
CACTTAGTGTGTGAGATATCGAATATGG
Found at i:49234759 original size:28 final size:28
Alignment explanation
Indices: 49234677--49234759 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 28
49234667 CTATGTACAA
* * * *
49234677 CACTTAGTGTGCGAGATATCGAGTGTGG
1 CACTTAGTGTGTGAGATATCAAGTATTG
*
49234705 CACTTAGTGTATGAGATATCGAA-TATTG
1 CACTTAGTGTGTGAGATATC-AAGTATTG
* *
49234733 CACTTAGTGTGTGAGACATTAAGTATT
1 CACTTAGTGTGTGAGATATCAAGTATT
49234760 CAACGGCATT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.04
28 42 0.93
29 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CACTTAGTGTGTGAGATATCAAGTATTG
Found at i:49235440 original size:21 final size:21
Alignment explanation
Indices: 49235414--49235455 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
49235404 TAATAATGCA
49235414 TATTTTGTAAATGGCCATTTT
1 TATTTTGTAAATGGCCATTTT
*
49235435 TATTTTGTAAATGGTCATTTT
1 TATTTTGTAAATGGCCATTTT
49235456 GATATTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (21 bp):
TATTTTGTAAATGGCCATTTT
Found at i:49237689 original size:27 final size:27
Alignment explanation
Indices: 49237637--49237690 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
49237627 ATCATAGCAT
*
49237637 AAATCAGTCATTTACCCTCAAGGGGTA
1 AAATCAGTCATTTACCCTCAACGGGTA
49237664 AAAT-AGTCATTTTACCCT-ATACGGGTA
1 AAATCAGTCA-TTTACCCTCA-ACGGGTA
49237691 TTTTGGTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCAACGGGTA
Found at i:49246594 original size:50 final size:49
Alignment explanation
Indices: 49246470--49246656 Score: 180
Period size: 49 Copynumber: 3.8 Consensus size: 49
49246460 TGAGGTCGCA
* * * * *
49246470 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACT-ATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGCTGGTCACG
** *
49246521 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGCT--GGTCACG
* * * * *
49246571 TGTATAGTACTAAGTGCAAGCTACTATGTGTACCAGACTGCTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGCTGGTCACG
* *
49246620 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
49246657 TAGCTCCGGC
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 39 0.34
50 38 0.33
51 33 0.29
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGCTGGTCACG
Found at i:49250471 original size:24 final size:24
Alignment explanation
Indices: 49250444--49250534 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
49250434 CTTATTATGT
**
49250444 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
49250468 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
49250492 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
49250516 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
49250535 TATCCAGCAC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:49250574 original size:29 final size:29
Alignment explanation
Indices: 49250517--49250617 Score: 170
Period size: 29 Copynumber: 3.6 Consensus size: 29
49250507 CATAGTAAAT
*
49250517 CGCACACATAGTGCCATATA--TCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49250544 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49250573 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
49250602 CGCACGCTTAGTGCCA
1 CGCACACTTAGTGCCA
49250618 ATCTCGTCAC
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
27 19 0.27
29 51 0.73
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:49258367 original size:24 final size:24
Alignment explanation
Indices: 49258340--49258430 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
49258330 CTTATTATGT
**
49258340 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
49258364 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
49258388 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
49258412 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
49258431 TATCCAGCAC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:49258451 original size:27 final size:28
Alignment explanation
Indices: 49258413--49258484 Score: 119
Period size: 29 Copynumber: 2.6 Consensus size: 28
49258403 CATAGTAAAT
*
49258413 CGCACACATAGTGCCATATA-TCCAGCA
1 CGCACACTTAGTGCCATATATTCCAGCA
49258440 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATA-TTCCAGCA
49258469 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49258485 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
27 19 0.45
29 23 0.55
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.22
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCCAGCA
Found at i:49260210 original size:38 final size:38
Alignment explanation
Indices: 49260157--49260237 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
49260147 ATATTTGATG
* * * *
49260157 TATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
49260195 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
49260233 TATAT
1 TATAT
49260238 TTGGGCCTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
Found at i:49260298 original size:43 final size:43
Alignment explanation
Indices: 49260242--49260441 Score: 301
Period size: 43 Copynumber: 4.7 Consensus size: 43
49260232 TTATATTTGG
49260242 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCGA
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCGA
* * *
49260285 GCCTTCGTTCCTAGCAGGTTTAGTGCCGGTGATGTGCATTCGA
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCGA
* * * *
49260328 GCTTTCGTGCCTAGCAGGCTTTGTGCTGGTGATGTGTATTCGG
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCGA
* *
49260371 GCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGG
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCGA
* *
49260414 GCCTTCGTGCCTAGCAGGCGTAATGCCG
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCG
49260442 ATGAAATGAT
Statistics
Matches: 141, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 141 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (43 bp):
GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCGA
Found at i:49265863 original size:50 final size:49
Alignment explanation
Indices: 49265791--49265920 Score: 188
Period size: 50 Copynumber: 2.6 Consensus size: 49
49265781 AAAACTGTGA
* *
49265791 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATGGT-AGG
* * *
49265841 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGGTTGTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATGGTAGG
* *
49265890 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
49265921 TGCATACCAG
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 31 0.42
50 42 0.58
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATGGTAGG
Found at i:49289387 original size:48 final size:48
Alignment explanation
Indices: 49289333--49289599 Score: 215
Period size: 48 Copynumber: 5.6 Consensus size: 48
49289323 GTAAATTGCT
*
49289333 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-A-CATGTCGAGCCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-G-G-CC
* * *
49289381 GATGCCATATCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
* * * * * * ** *
49289429 GTTGCCATGTCCTAGACATGGTCTTACACTAGCGCACCTAACAAT-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAA-TGTGGCC
** * * ** *
49289477 GATGCCATGTCCTGGATATGGTCTTACACT-ACTCTCATAACATTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
* * * * *
49289524 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCTCATATTATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
*
49289572 GA--CGATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
49289600 AGCACACATA
Statistics
Matches: 174, Mismatches: 39, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
46 24 0.14
47 32 0.18
48 109 0.63
49 3 0.02
50 2 0.01
51 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:49291255 original size:24 final size:25
Alignment explanation
Indices: 49291197--49291256 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
49291187 ACTTATGCAT
49291197 ATCTGTATCTGTAATTTGAATCTGG
1 ATCTGTATCTGTAATTTGAATCTGG
*
49291222 ATCTAG-ATCTG-ATTTTGAATCTGG
1 ATCT-GTATCTGTAATTTGAATCTGG
49291246 AAT-TGTATCTG
1 -ATCTGTATCTG
49291257 CTTCTGACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.03
24 18 0.58
25 11 0.35
26 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (25 bp):
ATCTGTATCTGTAATTTGAATCTGG
Found at i:49292748 original size:40 final size:40
Alignment explanation
Indices: 49292665--49292882 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
49292655 AAGCCAAGTA
* * *
49292665 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
49292703 CCTTCGGGACATAGCCCGGATATAGTAACTCACACTAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49292743 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
49292783 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
49292823 CCTTCGAGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
*
49292864 CCTTAGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49292883 TTATCATCCA
Statistics
Matches: 158, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 12 0.08
39 16 0.10
40 104 0.66
41 22 0.14
42 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49296929 original size:30 final size:30
Alignment explanation
Indices: 49296894--49296951 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
49296884 CCTTAACTCT
*
49296894 AACTTTTGCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
49296924 AACTTTTACATATTTACACTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
49296952 AAAGCTCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:49299232 original size:46 final size:46
Alignment explanation
Indices: 49299089--49299232 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
49299079 CCTGCCCATA
* * *
49299089 AGTGAGCTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * * *
49299138 --CGAACTCGAACTCAACTCAACGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
49299181 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
49299228 AGTGA
1 AGTGA
49299233 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 33 0.45
47 26 0.35
48 6 0.08
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:49301802 original size:48 final size:48
Alignment explanation
Indices: 49301666--49301791 Score: 191
Period size: 48 Copynumber: 2.6 Consensus size: 48
49301656 TTGAATTTTA
* *
49301666 AAAACTCTTTTAAATAATAATTTAAATTCTATTTAATTATCCTTTATTT
1 AAAACTCTTTTAAATAATAA-TTAAATTCTATTTAATTATCATTTATCT
* *
49301715 AAAACTCTTGTAAATAATAATT-AATTTTATTTTAATTATCATTTATCT
1 AAAACTCTTTTAAATAATAATTAAATTCTA-TTTAATTATCATTTATCT
49301763 AAAACTCTTTTAAATAATAATTAAATTCT
1 AAAACTCTTTTAAATAATAATTAAATTCT
49301792 CTTTCCTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
47 6 0.09
48 39 0.57
49 24 0.35
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.48
Consensus pattern (48 bp):
AAAACTCTTTTAAATAATAATTAAATTCTATTTAATTATCATTTATCT
Found at i:49304880 original size:40 final size:40
Alignment explanation
Indices: 49304708--49304873 Score: 246
Period size: 40 Copynumber: 4.2 Consensus size: 40
49304698 AACCCAAGTA
* * * *
49304708 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
49304747 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
49304787 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
49304827 CCTTCGGGACTTAGCCCGGATATAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
49304867 CCTTCGG
1 CCTTCGG
49304874 ATCTTAGTTC
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.10
40 103 0.89
41 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:49306303 original size:13 final size:13
Alignment explanation
Indices: 49306287--49306314 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49306277 TTTATTATTT
49306287 TTAACACAAAATA
1 TTAACACAAAATA
49306300 TTAACACAAAATA
1 TTAACACAAAATA
49306313 TT
1 TT
49306315 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:49312891 original size:40 final size:40
Alignment explanation
Indices: 49312817--49313034 Score: 260
Period size: 40 Copynumber: 5.2 Consensus size: 40
49312807 AACCCAAGTA
* *
49312817 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
49312856 CCTTCGGGAGTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
49312896 CCTTCGGGACTTAGCCCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 ----C----CTT----CGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
49312948 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
49312988 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
49313028 CCTTCGG
1 CCTTCGG
49313035 ATCTTAGTCC
Statistics
Matches: 158, Mismatches: 7, Indels: 27
0.82 0.04 0.14
Matches are distributed among these distances:
39 13 0.08
40 102 0.65
41 1 0.01
44 4 0.03
48 4 0.03
52 34 0.22
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:49312917 original size:12 final size:12
Alignment explanation
Indices: 49312900--49312926 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
49312890 CAAATGCCTT
49312900 CGGGACTTAGCC
1 CGGGACTTAGCC
49312912 CGGGACTTAGCC
1 CGGGACTTAGCC
49312924 CGG
1 CGG
49312927 ATATAGTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (12 bp):
CGGGACTTAGCC
Found at i:49312923 original size:52 final size:52
Alignment explanation
Indices: 49312860--49312966 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
49312850 CAAATGCCTT
*
49312860 CGGGAGTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCC
1 CGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCC
*
49312912 CGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
1 CGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCC
49312964 CGG
1 CGG
49312967 ATATAGTAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (52 bp):
CGGGACTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCC
Found at i:49312988 original size:92 final size:91
Alignment explanation
Indices: 49312821--49313006 Score: 302
Period size: 92 Copynumber: 2.0 Consensus size: 91
49312811 CAAGTACCTT
* * * *
49312821 CGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGAGTTAGCCCGGATATAATCACT
1 CGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACT
49312886 AGCACAAATGCCTTCGGGACTTAGCC
66 AGCACAAATGCCTTCGGGACTTAGCC
*
49312912 CGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CGGGACTTAG-CCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAA
49312976 CTAGCACAAATGCCTTCGGGACTTAGCC
64 CTAGCACAAATGCCTTCGGGACTTAGCC
49313004 CGG
1 CGG
49313007 ATATAGTCAC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
91 9 0.10
92 78 0.89
93 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.22
Consensus pattern (91 bp):
CGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACT
AGCACAAATGCCTTCGGGACTTAGCC
Found at i:49314468 original size:13 final size:13
Alignment explanation
Indices: 49314452--49314479 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49314442 TTTATTATTT
49314452 TTAACACAAAATA
1 TTAACACAAAATA
49314465 TTAACACAAAATA
1 TTAACACAAAATA
49314478 TT
1 TT
49314480 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:49315980 original size:8 final size:8
Alignment explanation
Indices: 49315967--49315996 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
49315957 AGTCCCTAAT
49315967 TCACAAAA
1 TCACAAAA
49315975 TCACAAAA
1 TCACAAAA
49315983 TCACAAAA
1 TCACAAAA
49315991 TACACA
1 T-CACA
49315997 TAATTTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (8 bp):
TCACAAAA
Found at i:49318497 original size:46 final size:46
Alignment explanation
Indices: 49318444--49318569 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
49318434 ATTTTGAGCA
*
49318444 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
49318490 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
49318536 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49318570 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:49318829 original size:19 final size:20
Alignment explanation
Indices: 49318794--49318831 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
49318784 ATAAGGTGGT
49318794 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
49318814 AAGAT-ATGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
49318832 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:49326020 original size:46 final size:46
Alignment explanation
Indices: 49325970--49326142 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
49325960 TGGTTGAGCA
*
49325970 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
49326016 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
49326063 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
49326109 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49326143 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:49326126 original size:93 final size:93
Alignment explanation
Indices: 49325967--49326137 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
49325957 GGATGGTTGA
* *
49325967 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
49326032 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
49326060 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
49326125 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
49326138 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49326403 original size:19 final size:20
Alignment explanation
Indices: 49326366--49326403 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
49326356 ATAAGGTGGT
49326366 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
49326386 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
49326404 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:49328981 original size:29 final size:29
Alignment explanation
Indices: 49328948--49329079 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
49328938 CCTCCGAACT
** * * *
49328948 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
49328977 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49329006 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49329035 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49329064 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49329080 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:49336954 original size:29 final size:29
Alignment explanation
Indices: 49336921--49337052 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
49336911 CCTCCGAACT
** * * *
49336921 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
49336950 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49336979 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49337008 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49337037 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49337053 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:49345132 original size:30 final size:30
Alignment explanation
Indices: 49345096--49345226 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
49345086 GACAAGATTG
* * * * *
49345096 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
49345126 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
49345154 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49345184 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49345213 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49345227 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:49345187 original size:58 final size:58
Alignment explanation
Indices: 49345096--49345226 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
49345086 GACAAGATTG
* * * * * *
49345096 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
49345154 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
49345213 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49345227 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:49353067 original size:30 final size:30
Alignment explanation
Indices: 49353031--49353161 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
49353021 GACAAGATTG
* * * * *
49353031 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
49353061 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
49353089 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49353119 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
49353148 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49353162 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:49353122 original size:58 final size:58
Alignment explanation
Indices: 49353031--49353161 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
49353021 GACAAGATTG
* * * * * *
49353031 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
49353089 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
49353148 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49353162 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:49355385 original size:71 final size:71
Alignment explanation
Indices: 49355297--49355460 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
49355287 GAGATGTATC
49355297 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
49355362 AGGACA
66 AGGACA
*
49355368 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
49355433 CGGACA
66 AGGACA
49355439 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
49355461 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:49363493 original size:48 final size:48
Alignment explanation
Indices: 49363420--49363530 Score: 159
Period size: 48 Copynumber: 2.3 Consensus size: 48
49363410 TAAGCTCCCG
* *
49363420 TATAAGACCATATCTGGGATATGGCATCGGCATCGATATATGATCCTA
1 TATAAGACCATGTCTGGGACATGGCATCGGCATCGATATATGATCCTA
* * * * *
49363468 TGTAAGACCATGTTTGGGACATGGCATTGGCATCGTTATGTGATCCTA
1 TATAAGACCATGTCTGGGACATGGCATCGGCATCGATATATGATCCTA
49363516 TATAAGACCATGTCT
1 TATAAGACCATGTCT
49363531 AGGATATTGC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (48 bp):
TATAAGACCATGTCTGGGACATGGCATCGGCATCGATATATGATCCTA
Found at i:49363728 original size:250 final size:250
Alignment explanation
Indices: 49363287--49363749 Score: 759
Period size: 250 Copynumber: 1.9 Consensus size: 250
49363277 ACACTTAATG
*
49363287 TTGCATGAATTGTACATTGTCTTCGTGAGTATTATTGATGTTGTCTGACGAAGATTTGAGGAGAT
1 TTGCATGAATTGTACATTGTCTTCGTGAGTATTATTGATGTTGTCCGACGAAGATTTGAGGAGAT
* *
49363352 GAAAGCCGGTTGAACTTTAGGAATACTTAGGGCATACATATCATGATATTTGGGTTGTTAAGCTC
66 GAAAGCCGGTTGAACTTTAGGAATACTTAGGGCATACATATCATGATATTCGGGTTGTTAAGATC
* * * *
49363417 CCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATATGATCCTATGTAAGACCATGTT
131 CCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATATGATCCCATATAAGACCATATC
*
49363482 TGGGACATGGCATTGGCATCGTTATGTGATCCTATATAAGACCATGTCTAGGATA
196 CGGGACATGGCATTGGCATCGTTATGTGATCCTATATAAGACCATGTCTAGGATA
49363537 TTGCATGAATTGTACATTGTCTTCGTGAGTATTATTGATGTTGTCCGACGAAGATTTGAGGAGAT
1 TTGCATGAATTGTACATTGTCTTCGTGAGTATTATTGATGTTGTCCGACGAAGATTTGAGGAGAT
* *
49363602 GAAAGCCGGTTGAA-TGTTAGGAATACTTAGGGCTTACATATCATGATATTCGGGTTGTTGAGAT
66 GAAAGCCGGTTGAACT-TTAGGAATACTTAGGGCATACATATCATGATATTCGGGTTGTTAAGAT
* * * *
49363666 CCCGTATAAGACCATATTTGGGATATGGCATTGGCATTGATA-AGTGGTCCCATATAAGACCATA
130 CCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATA-TGATCCCATATAAGACCATA
*
49363730 TCCGGGATATGGCATTGGCA
194 TCCGGGACATGGCATTGGCA
49363750 CCCTACATGT
Statistics
Matches: 196, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
249 2 0.01
250 194 0.99
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (250 bp):
TTGCATGAATTGTACATTGTCTTCGTGAGTATTATTGATGTTGTCCGACGAAGATTTGAGGAGAT
GAAAGCCGGTTGAACTTTAGGAATACTTAGGGCATACATATCATGATATTCGGGTTGTTAAGATC
CCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATATGATCCCATATAAGACCATATC
CGGGACATGGCATTGGCATCGTTATGTGATCCTATATAAGACCATGTCTAGGATA
Found at i:49368734 original size:43 final size:42
Alignment explanation
Indices: 49368671--49368762 Score: 105
Period size: 43 Copynumber: 2.2 Consensus size: 42
49368661 GGCCATCAAT
* * *
49368671 ATCGTATTTGATTTCGTGTAAGACC-CTATCTGGGACAGTGGC
1 ATCGTATTTGATTACATGTAAGACCAC-ATCTGGGACACTGGC
* *
49368713 ATCGATATTTGATTACATGTAAGGCCACGTCTGGGACACTGGC
1 ATCG-TATTTGATTACATGTAAGACCACATCTGGGACACTGGC
*
49368756 ATTGTAT
1 ATCGTAT
49368763 GAGCTTTCAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
42 7 0.17
43 34 0.81
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
ATCGTATTTGATTACATGTAAGACCACATCTGGGACACTGGC
Found at i:49369466 original size:34 final size:34
Alignment explanation
Indices: 49369401--49369466 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
49369391 AATGTTCAAT
* * *
49369401 TTGGTAAGTTTATGATATGTGCTTATTTGAAGAG
1 TTGGTAAGTTTATGATATGAGATTATATGAAGAG
*
49369435 TTGGTAAGTTTATGGTATGAGATTGA-ATGAAG
1 TTGGTAAGTTTATGATATGAGATT-ATATGAAG
49369467 TGTCTAAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.41
Consensus pattern (34 bp):
TTGGTAAGTTTATGATATGAGATTATATGAAGAG
Found at i:49373384 original size:27 final size:28
Alignment explanation
Indices: 49373327--49373396 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
49373317 AAATTTGTAC
**
49373327 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
49373355 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
49373382 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49373397 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:49373405 original size:27 final size:27
Alignment explanation
Indices: 49373327--49373408 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
49373317 AAATTTGTAC
* *
49373327 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
49373355 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
49373382 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
49373409 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:49381439 original size:27 final size:28
Alignment explanation
Indices: 49381382--49381451 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
49381372 AAATTTGTAC
**
49381382 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
49381410 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
49381437 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49381452 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:49381460 original size:27 final size:27
Alignment explanation
Indices: 49381382--49381463 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
49381372 AAATTTGTAC
* *
49381382 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
49381410 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
49381437 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
49381464 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:49384522 original size:48 final size:47
Alignment explanation
Indices: 49384409--49384570 Score: 168
Period size: 48 Copynumber: 3.4 Consensus size: 47
49384399 TATGTGTGCT
* * * *
49384409 AGTGTAAGACATGTCTGGGACATGCATTAGCCAC-AGCA--TGAGGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAG-ATTTTAAGCC
* * *
49384454 ACTGTAAGGCATGTCTGGGACATGCATCGGCCTCGAGATTTTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGA-TTTTAAGCC
* * *
49384502 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATATATAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGAT-TTTAAGCC
* *
49384550 AGTGTGAGACCTGTCTGGGAC
1 AGTGTAAGACATGTCTGGGAC
49384571 TTGGCGTCAG
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
45 30 0.31
46 2 0.02
47 1 0.01
48 64 0.66
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATTTTAAGCC
Found at i:49389699 original size:40 final size:40
Alignment explanation
Indices: 49389640--49389808 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
49389630 CGGGACTTTA
* * *
49389640 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
49389680 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
49389720 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
49389760 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
49389800 CCCGGATAT
1 CCCGGATAT
49389809 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:49402725 original size:44 final size:44
Alignment explanation
Indices: 49402675--49402832 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 44
49402665 ATGTGTTTTC
*
49402675 GTGTAAGACCATGTCTGGGACGTTGACATCGAT-TTATGATTTAT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGATATT-TGATTTAT
* *
49402719 GTGTAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCAT
1 GTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTT-AT
* * *
49402763 G-G-AAGACCCTATCTGGGACAG-TGGCATCGATATTTGA-TTAC
1 GTGTAAGACCATGTCTGGGAC-GTTGGCATCGATATTTGATTTAT
* * *
49402804 ATGTAAGACCACGTCTGTGACGTTGGCAT
1 GTGTAAGACCATGTCTGGGACGTTGGCAT
49402833 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 25 0.27
43 36 0.38
44 32 0.34
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTTAT
Found at i:49406717 original size:28 final size:29
Alignment explanation
Indices: 49406673--49406787 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
49406663 TACTTGTATC
* * *
49406673 TGGCCCATTAAGACC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
49406701 AGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
49406730 TGGACCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
** *
49406759 TGGCCTGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
49406787 T
1 T
49406788 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
28 25 0.35
29 45 0.63
30 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:49406877 original size:18 final size:19
Alignment explanation
Indices: 49406854--49406889 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
49406844 ATGGGCGTAA
49406854 TAGCCCATCG-GGCCCATT
1 TAGCCCATCGAGGCCCATT
*
49406872 TAGCCCATTGAGGCCCAT
1 TAGCCCATCGAGGCCCAT
49406890 ATGGCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.19, C:0.36, G:0.22, T:0.22
Consensus pattern (19 bp):
TAGCCCATCGAGGCCCATT
Found at i:49407041 original size:16 final size:16
Alignment explanation
Indices: 49406998--49407048 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
49406988 GCAGCCAAAC
*
49406998 TTTTGGCTTTTCGACA
1 TTTTGGCTTTTCGACT
* *
49407014 TATTGCCTTTTCGACT
1 TTTTGGCTTTTCGACT
* *
49407030 TTTTGGCATTTCGGCT
1 TTTTGGCTTTTCGACT
49407046 TTT
1 TTT
49407049 GCCGATACAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.10, C:0.20, G:0.18, T:0.53
Consensus pattern (16 bp):
TTTTGGCTTTTCGACT
Found at i:49408457 original size:18 final size:19
Alignment explanation
Indices: 49408431--49408471 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
49408421 GGCCTCTCGG
49408431 CGGTAGCTG-ACCACC-CCT
1 CGGTAGCTGTA-CACCACCT
*
49408449 CGGTGGCTGTACACCACCT
1 CGGTAGCTGTACACCACCT
49408468 CGGT
1 CGGT
49408472 CCACGATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.39, G:0.27, T:0.20
Consensus pattern (19 bp):
CGGTAGCTGTACACCACCT
Found at i:49411053 original size:28 final size:29
Alignment explanation
Indices: 49411011--49411125 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
49411001 TACTTGTATC
* *
49411011 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
49411039 TGGCCTATTAGGCCCAAATCACCTAT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
49411068 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
49411097 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
49411125 T
1 T
49411126 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.35
29 48 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:49414120 original size:25 final size:25
Alignment explanation
Indices: 49414090--49414142 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
49414080 GGGTTATGAG
* *
49414090 GCATTACTGTATAAAACGCGGTTCA
1 GCATTACTGTATAAAACACGATTCA
49414115 GCATTACTGTATAAAACACGATTCA
1 GCATTACTGTATAAAACACGATTCA
49414140 GCA
1 GCA
49414143 CACTCATTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (25 bp):
GCATTACTGTATAAAACACGATTCA
Found at i:49416154 original size:28 final size:28
Alignment explanation
Indices: 49416123--49416194 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
49416113 TCGATATTTT
*
49416123 GCACACTAAATGTCATTCTCAATATCTC
1 GCACACTAAATGCCATTCTCAATATCTC
* *
49416151 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAATGCCATTCTCAATATCTC
* * *
49416179 GTACACTGAGTGCCAT
1 GCACACTAAATGCCAT
49416195 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAATGCCATTCTCAATATCTC
Done.