Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 155 of 204
Found at i:47119847 original size:176 final size:176
Alignment explanation
Indices: 47119552--47119986 Score: 667
Period size: 176 Copynumber: 2.5 Consensus size: 176
47119542 ATTCACAATC
* ** ** * * * *
47119552 TTTAACCTATTCCACTGCTAA-CCAGGGAGATAGGGCTAGG-GTCATCGATCTGTTTCCCTGTAG
1 TTTAACCTACTCCACTGC-AACCCAGGGAGGCAAAGCT-GGTGTCTTCGATCTGCTTCGCTGTCG
*
47119615 GTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGT
64 GTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGT
47119680 GTCTTCGATCTGCTTCGATGTCGGTGCAGGAAGGCAAGATCTGCTATT
129 GTCTTCGATCTGCTTCGATGTCGGTGCAGGAAGGCAAGATCTGCTATT
*
47119728 TTTAACCTGCTCCACTGCAACCCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
1 TTTAACCTACTCCACTGCAACCCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
* * *
47119793 GCAGGAAGGCAAGATTTGCTATTTTTAGCCTGCTCCGCTGCAACCCATGGAGGCAAGGCTAGTGT
66 GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGT
*
47119858 CTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATT
131 CTTCGATCTGCTTCGATGTCGGTGCAGGAAGGCAAGATCTGCTATT
* * * *
47119904 TTTAGCCTACTCCGCTGGAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
1 TTTAACCTACTCCACTGCAACCCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
47119969 GCAGGAAGGCAAGATCTG
66 GCAGGAAGGCAAGATCTG
47119987 ATATCTTCGA
Statistics
Matches: 236, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
175 4 0.02
176 232 0.98
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.27
Consensus pattern (176 bp):
TTTAACCTACTCCACTGCAACCCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGT
CTTCGATCTGCTTCGATGTCGGTGCAGGAAGGCAAGATCTGCTATT
Found at i:47119891 original size:44 final size:44
Alignment explanation
Indices: 47119662--47119981 Score: 124
Period size: 44 Copynumber: 7.3 Consensus size: 44
47119652 CGCTGCAACC
* * *
47119662 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGATGTCGGTG
1 CAGGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * ** * * * ****
47119706 CAGGAAGGCAAGATCT-GCTATTTTTAACCTGCTCCACTG-CAACC
1 CAGGAAGGCAAG-GCTAG-TGTCTTCGATCTGCTTCGCTGTCGGTG
* * *
47119750 CAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * * ****
47119794 CAGGAAGGCAAGATTTGCTA-T-TTTTAG-CCTGCTCCGCTG-CAACC
1 CAGGAAGGCAAG----GCTAGTGTCTTCGATCTGCTTCGCTGTCGGTG
47119838 CATGG-AGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CA-GGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * * * ***
47119882 CAGGAAGGCAAGATCTGCTA-T-TTTTAG-CCTACTCCGCTG--GAACC
1 CAGGAAGGCAAG----GCTAGTGTCTTCGATCTGCTTCGCTGTCG-GTG
* *
47119926 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTG
47119970 CAGGAAGGCAAG
1 CAGGAAGGCAAG
47119982 ATCTGATATC
Statistics
Matches: 186, Mismatches: 66, Indels: 48
0.62 0.22 0.16
Matches are distributed among these distances:
40 7 0.04
41 2 0.01
42 8 0.04
43 38 0.20
44 77 0.41
45 37 0.20
46 8 0.04
47 2 0.01
48 7 0.04
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTG
Found at i:47120038 original size:44 final size:44
Alignment explanation
Indices: 47119973--47120525 Score: 438
Period size: 44 Copynumber: 12.5 Consensus size: 44
47119963 GTCGGTGCAG
* * * * *
47119973 GAAGGCAAGATCTGATATCTTCGATCTATTTAACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAT
* * * * * **
47120017 GAAAACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATATAT
* * *
47120062 GAAGACAAGATCTGC-ATCTTCGATCCACTTCACTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAT
* * * * *
47120106 GAAGACAGGATATGCCATCTTCAATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAT
*
47120150 GAAGACAAGATCTGCTTTCTTCGATCTACTT--CGCC-ATCAGTAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAAT-A-TAT
* * * * *
47120193 GGGAAGAGAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAG
1 --GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAT
*
47120239 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAT
* * * * * * *
47120283 GAAGACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGTCTAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATATAT
* * * ** * *
47120328 GGAGAGAAGATCTGC-ATCTTCGATCCACTTTGCTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAT
* * *
47120372 GAAGACAAGATCTTCTA-CATTCGATCTACTTCATGCCAATACAT
1 GAAGACAAGATCTGCTATC-TTCGATCTACTTCACGCCAATATAT
* * * * **
47120416 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATATAT
* ** * *
47120461 GAAGACAAGATCTGC-ATCTTCGATCCACTTTGCTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATATAT
*
47120505 GAAGACAGGATCTGCTATCTT
1 GAAGACAAGATCTGCTATCTT
47120526 TACTGATCTG
Statistics
Matches: 404, Mismatches: 85, Indels: 39
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.00
42 5 0.01
43 5 0.01
44 262 0.65
45 122 0.30
46 3 0.01
47 3 0.01
48 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATATAT
Found at i:47120145 original size:133 final size:133
Alignment explanation
Indices: 47119971--47120525 Score: 898
Period size: 133 Copynumber: 4.2 Consensus size: 133
47119961 CTGTCGGTGC
* * * * *
47119971 AGGAAGGCAAGATCTGATATCTTCGATCTATTTAACGCCAATACATGAAAACAAGATCTGCTTTC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
*
47120036 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACTACCAA
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAA
47120101 TAT
131 TAT
* * * *
47120104 AGGAAGACAGGATATGCCATCTTCAATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* *
47120169 TTCGATCTACTTCGCCATCAGTATGGGAAGAGAAGATCTGCATCTTCGATCCACTTCGCTACCAA
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAA
47120234 TAT
131 TAT
*
47120237 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAATATCTGCTTTC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * *
47120302 TTCGATCTACTTCGCCACCAGTCTAGGG-AGAGAAGATCTGCATCTTCGATCCACTTTGCTACCA
66 TTCGATCTACTTCGCCACCAGTAT-GGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCA
47120366 ATAT
130 ATAT
* *
47120370 AGGAAGACAAGATCTTCTA-CATTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTT
1 AGGAAGACAAGATCTGCTATC-TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
*
47120434 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTTGCTACCA
65 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCA
47120499 ATAT
130 ATAT
*
47120503 AGGAAGACAGGATCTGCTATCTT
1 AGGAAGACAAGATCTGCTATCTT
47120526 TACTGATCTG
Statistics
Matches: 391, Mismatches: 27, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
132 4 0.01
133 383 0.98
134 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (133 bp):
AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAA
TAT
Found at i:47126790 original size:57 final size:57
Alignment explanation
Indices: 47126705--47126818 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
47126695 CCACCTTTAA
47126705 AAAAACTACCAATCGTTCTCCCTTTTTATTGATTTTTCTCCTCTTCCTCTTTTTTTT
1 AAAAACTACCAATCGTTCTCCCTTTTTATTGATTTTTCTCCTCTTCCTCTTTTTTTT
* * *
47126762 AAAAACTGCCAATCGTTCTCCTTTTTTATTTATTTTTCTCCTCTTCCTCTTTTTTTT
1 AAAAACTACCAATCGTTCTCCCTTTTTATTGATTTTTCTCCTCTTCCTCTTTTTTTT
47126819 TTACAATGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.17, C:0.25, G:0.04, T:0.54
Consensus pattern (57 bp):
AAAAACTACCAATCGTTCTCCCTTTTTATTGATTTTTCTCCTCTTCCTCTTTTTTTT
Found at i:47126973 original size:19 final size:19
Alignment explanation
Indices: 47126949--47127040 Score: 166
Period size: 19 Copynumber: 4.8 Consensus size: 19
47126939 AATCATATCT
47126949 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
47126968 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
47126987 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
47127006 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
47127025 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
47127041 CTTGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47126998 original size:38 final size:38
Alignment explanation
Indices: 47126926--47127040 Score: 185
Period size: 38 Copynumber: 2.9 Consensus size: 38
47126916 AAATTAAATC
*
47126926 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
47126968 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
47127006 TCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
47127041 CTTGAAGATT
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 54 0.75
41 7 0.10
42 11 0.15
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:47128321 original size:13 final size:13
Alignment explanation
Indices: 47128303--47128329 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47128293 CACATTCGGC
47128303 TACCATATATATA
1 TACCATATATATA
47128316 TACCATATATATA
1 TACCATATATATA
47128329 T
1 T
47128330 TCGCATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (13 bp):
TACCATATATATA
Found at i:47133621 original size:17 final size:15
Alignment explanation
Indices: 47133601--47133635 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
47133591 GAATTGAATA
47133601 ATTGTATGATTATAGTT
1 ATTGTATG-TTATA-TT
47133618 ATTGTATGTTATATT
1 ATTGTATGTTATATT
47133633 ATT
1 ATT
47133636 TTACTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 5 0.28
17 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (15 bp):
ATTGTATGTTATATT
Found at i:47139240 original size:37 final size:37
Alignment explanation
Indices: 47139175--47139320 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
47139165 TACGTATGAT
* *
47139175 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
47139210 CACCTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47139247 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
47139284 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47139321 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:47139337 original size:46 final size:46
Alignment explanation
Indices: 47139284--47139584 Score: 404
Period size: 46 Copynumber: 6.3 Consensus size: 46
47139274 TAAGTGTAGC
* * **
47139284 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
47139330 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
47139376 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
47139428 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
47139480 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
47139526 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
47139572 TACTTATCACTTT
1 CACTTATCACTTT
47139585 CCCAAAATTT
Statistics
Matches: 238, Mismatches: 10, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
46 143 0.60
49 1 0.00
50 1 0.00
51 3 0.01
52 90 0.38
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:47139403 original size:52 final size:52
Alignment explanation
Indices: 47139327--47139584 Score: 360
Period size: 52 Copynumber: 5.2 Consensus size: 52
47139317 TAGCTAAAGC
* *
47139327 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
47139380 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
47139432 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
47139484 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
47139530 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
47139576 TATCACTTT
1 TATCACTTT
47139585 CCCAAAATTT
Statistics
Matches: 192, Mismatches: 9, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
46 84 0.44
47 2 0.01
48 1 0.01
52 93 0.48
53 12 0.06
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:47139406 original size:98 final size:98
Alignment explanation
Indices: 47139284--47139584 Score: 407
Period size: 98 Copynumber: 3.1 Consensus size: 98
47139274 TAAGTGTAGC
* * ** *
47139284 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACT
47139349 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
47139383 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC--T----TTG
* *
47139448 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
60 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
47139487 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
*
47139546 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
47139579 CACTTT
1 CACTTT
47139585 CCCAAAATTT
Statistics
Matches: 181, Mismatches: 12, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
92 41 0.23
96 1 0.01
98 86 0.48
99 9 0.05
100 1 0.01
101 1 0.01
104 42 0.23
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:47150081 original size:11 final size:11
Alignment explanation
Indices: 47150058--47150143 Score: 57
Period size: 14 Copynumber: 7.0 Consensus size: 11
47150048 TTTTTTTTTT
47150058 AAGTTTTGCATC
1 AAGTTTT-CATC
47150070 AAGTTCTT-ATC
1 AAGTT-TTCATC
47150081 AAGCTTTTCATC
1 AAG-TTTTCATC
47150093 AAGTGTTTTTCATC
1 AA--G-TTTTCATC
47150107 AAGTGTTTTTCATC
1 AA--G-TTTTCATC
* *
47150121 AAGTCATTAATC
1 AAGT-TTTCATC
47150133 AAGTTTTCATC
1 AAGTTTTCATC
47150144 TTTGGAATAC
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
11 14 0.22
12 22 0.35
13 2 0.03
14 25 0.40
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (11 bp):
AAGTTTTCATC
Found at i:47150104 original size:14 final size:14
Alignment explanation
Indices: 47150085--47150124 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
47150075 CTTATCAAGC
47150085 TTTTCATCAAGTGT
1 TTTTCATCAAGTGT
47150099 TTTTCATCAAGTGT
1 TTTTCATCAAGTGT
47150113 TTTTCATCAAGT
1 TTTTCATCAAGT
47150125 CATTAATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (14 bp):
TTTTCATCAAGTGT
Found at i:47154373 original size:7 final size:7
Alignment explanation
Indices: 47154363--47154401 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
47154353 CGGTTGAGGG
47154363 TTTTTTA
1 TTTTTTA
47154370 TTTTTTA
1 TTTTTTA
*
47154377 TTTTTGA
1 TTTTTTA
47154384 TTTTTTTAA
1 -TTTTTT-A
47154393 TTTTTTA
1 TTTTTTA
47154400 TT
1 TT
47154402 GAGAAAGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 16 0.57
8 11 0.39
9 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTTTTA
Found at i:47154627 original size:16 final size:16
Alignment explanation
Indices: 47154606--47154638 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47154596 GTCTCCCTGC
47154606 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
*
47154622 AAAAATGAAATAAAAT
1 AAAAATAAAATAAAAT
47154638 A
1 A
47154639 GTAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:47154662 original size:19 final size:18
Alignment explanation
Indices: 47154608--47154668 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
47154598 CTCCCTGCAA
47154608 AAATAAAATAAAATAAAAAT
1 AAATAAAAT--AATAAAAAT
*
47154628 GAAATAAAATAGTAAAAAT
1 -AAATAAAATAATAAAAAT
* *
47154647 AAATAATGATAATAAAATT
1 AAATAA-AATAATAAAAAT
47154666 AAA
1 AAA
47154669 ATTAAAATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 6 0.17
19 20 0.57
21 9 0.26
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAAAATAATAAAAAT
Found at i:47165256 original size:7 final size:7
Alignment explanation
Indices: 47165244--47165278 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
47165234 TTAAAAAAAT
47165244 AATTGAG
1 AATTGAG
47165251 AATTGAG
1 AATTGAG
*
47165258 GATTGAG
1 AATTGAG
47165265 AATTGAG
1 AATTGAG
47165272 AATTGAG
1 AATTGAG
47165279 TTGAAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (7 bp):
AATTGAG
Found at i:47166627 original size:22 final size:20
Alignment explanation
Indices: 47166590--47166632 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
47166580 AGTTGAACCA
47166590 ATTTTTTTTTAATTTTTAAT
1 ATTTTTTTTTAATTTTTAAT
*
47166610 ATTTTATTTTTATTTTTTTAAT
1 ATTTT-TTTTTA-ATTTTTAAT
47166632 A
1 A
47166633 ATATATTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 6 0.30
22 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTTTTTTAATTTTTAAT
Found at i:47169723 original size:18 final size:18
Alignment explanation
Indices: 47169702--47169744 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
47169692 TCCGGTGAGA
47169702 ATGATGAGGAGTTATCAG
1 ATGATGAGGAGTTATCAG
** * *
47169720 ATGATGCTGAGTTTTCGG
1 ATGATGAGGAGTTATCAG
47169738 ATGATGA
1 ATGATGA
47169745 AAAGGAGGCT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.33, T:0.33
Consensus pattern (18 bp):
ATGATGAGGAGTTATCAG
Found at i:47171052 original size:84 final size:83
Alignment explanation
Indices: 47170901--47171059 Score: 207
Period size: 84 Copynumber: 1.9 Consensus size: 83
47170891 ATATGCCTCG
* *
47170901 TCATTTTTAGTACTCAAACCTAATTGAACCAAAAAAATTCTATATAAAATATTCAGCCTTTTGTA
1 TCATTTTTAGTACTCAAACATAATTGAACCAAAAAAATTCTATATAAAATAATCAGCCTTTTGTA
*
47170966 TGCTTTTGCAAATATGGC
66 TGCTTCTGCAAATATGGC
* * *
47170984 TCATATTTTATTACTCAAACATAATTGAA-TAAAAAAA-TCTATATAAAATAATCATTGTCTTCT
1 TCAT-TTTTAGTACTCAAACATAATTGAACCAAAAAAATTCTATATAAAATAATCA--GCCTT-T
47171047 T-TATGCTTCTGCA
62 TGTATGCTTCTGCA
47171060 GCCCGATAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
82 16 0.24
83 11 0.17
84 37 0.56
85 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (83 bp):
TCATTTTTAGTACTCAAACATAATTGAACCAAAAAAATTCTATATAAAATAATCAGCCTTTTGTA
TGCTTCTGCAAATATGGC
Found at i:47173368 original size:2 final size:2
Alignment explanation
Indices: 47173361--47173405 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
47173351 TGTAGATTTA
47173361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47173402 AT AT
1 AT AT
47173406 TTCTATTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47176143 original size:14 final size:15
Alignment explanation
Indices: 47176120--47176148 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47176110 TATTTAGATG
47176120 TTTTGATTATTAAAT
1 TTTTGATTATTAAAT
47176135 TTTTG-TTATTAAAT
1 TTTTGATTATTAAAT
47176149 ATTCTTGAAA
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:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTTGATTATTAAAT
Found at i:47180073 original size:9 final size:9
Alignment explanation
Indices: 47180050--47180090 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
47180040 ATTGCTTTTA
47180050 TATTTTCTT
1 TATTTTCTT
47180059 TA--TTCTT
1 TATTTTCTT
47180066 TATTTTCTT
1 TATTTTCTT
*
47180075 TATCTCTCTT
1 TAT-TTTCTT
47180085 TATTTT
1 TATTTT
47180091 ATAACAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
7 7 0.26
9 12 0.44
10 8 0.30
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (9 bp):
TATTTTCTT
Found at i:47181240 original size:12 final size:11
Alignment explanation
Indices: 47181223--47181283 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 11
47181213 AACAAATCCT
47181223 CTCTCATATTTC
1 CTCTCA-ATTTC
47181235 CTCTCAA-TTC
1 CTCTCAATTTC
47181245 CTCTCAATTTC
1 CTCTCAATTTC
*
47181256 CT-TCCAAAATT-
1 CTCT-C-AATTTC
47181267 CTCTCAATTTC
1 CTCTCAATTTC
47181278 CT-TCAA
1 CTCTCAA
47181284 AAATTCTCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
10 19 0.45
11 12 0.29
12 11 0.26
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:47181270 original size:22 final size:22
Alignment explanation
Indices: 47181240--47181295 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
47181230 ATTTCCTCTC
*
47181240 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCAAA
47181263 AATTCTCTCAATTTCCTTCAAA
1 AATTCTCTCAATTTCCTTCAAA
47181285 AATTCTCTCAA
1 AATTCTCTCAA
47181296 ATCCATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCAAA
Found at i:47183167 original size:18 final size:18
Alignment explanation
Indices: 47183141--47183175 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47183131 AGGTGCGTTT
*
47183141 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
47183159 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
47183176 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:47183648 original size:44 final size:45
Alignment explanation
Indices: 47183600--47183685 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
47183590 ATTTAGCTCC
*
47183600 ATTTTGATATTATTTTATGTAAAAAAAAAGAAATTT-TTTGAATT
1 ATTTTGATATTATTTGATGTAAAAAAAAAGAAATTTATTTGAATT
* * *
47183644 ATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 ATTTTGATATTATTTGATGTAAAAAAAAAGAAATTTATTTGA
47183686 TGTAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 32 0.86
45 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.48
Consensus pattern (45 bp):
ATTTTGATATTATTTGATGTAAAAAAAAAGAAATTTATTTGAATT
Found at i:47183687 original size:25 final size:25
Alignment explanation
Indices: 47183653--47183720 Score: 136
Period size: 25 Copynumber: 2.7 Consensus size: 25
47183643 TATTTTGATA
47183653 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
47183678 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
47183703 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
47183721 ACCCTAACCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:47183780 original size:29 final size:29
Alignment explanation
Indices: 47183736--47184519 Score: 263
Period size: 29 Copynumber: 25.4 Consensus size: 29
47183726 AACCTAATTT
* *
47183736 AACCCTAAACCCTAACCTAAATTAATTAAA
1 AACCCT-AACCTTAACCTAATTTAATTAAA
47183766 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
47183795 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
*
47183824 AACTCTAACCTAATTTAAACCCTAAACCCTAATTTAATTAAA
1 AACCCTAACC----TT-AA-CC-------TAATTTAATTAAA
47183866 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
* * *
47183895 AACCCTAACCCTTAA-TTAA--AAACCCTAAA
1 AACCCTAA-CCTTAACCTAATTTAA--TTAAA
* *
47183924 CTTAACCTAATTTAAACCCTAAACCCTAATTTAATTAAA
1 ---AACC----CT-AA-CCTTAA-CCTAATTTAATTAAA
*
47183963 AACTCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
47183992 AA--C---CC-TAACCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
47184015 AACCCTAACCTAATTTAAACCCTAAACCCTAATTTAATTAAA
1 AACCCTAACC----TT-AA-CC-------TAATTTAATTAAA
47184057 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
47184086 AA--C---CC-TAACCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
* * *
47184109 AACCTTAAACCCTTAATTAAAAACCCTAACCTTAACCTAATTTA
1 AACCCT-AA-CC----TT---AA-CCTAA-TTTAA-TTAA---A
***** *
47184153 ATTAAAAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
*
47184182 AA--C---CC-TAGCCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
47184205 AACCCTAACCTAATTTAAACCCTAAACCCTAATTTAATTAAA
1 AACCCTAACC----TT-AA-CC-------TAATTTAATTAAA
*
47184247 GACCCTAACCTTAACCTAATTTAATT---
1 AACCCTAACCTTAACCTAATTTAATTAAA
*
47184273 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
** *
47184302 AACCCTAACCTAATTTAAACCCTAAACCCTAATT-TA
1 AACCCTAACC----TT-AA-CCT-AA-TTTAATTAAA
*
47184338 AACCCTAAACCCTAACCTAATTTAATTAAA
1 AACCCT-AACCTTAACCTAATTTAATTAAA
47184368 AACCCTAA-C-T----TAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
*
47184391 AACCCTAACCTTACCCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
* * ** *
47184420 AACCCTAGCTTAATTAAAAACCCTAACCTAATT-TA
1 AACCCTAAC---CTT---AA-CCTAATTTAATTAAA
* *
47184455 AACCTTAA----ACCCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
47184480 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCTTAACCTAATTTAATTAAA
47184509 AACCCTAACCT
1 AACCCTAACCT
47184520 AATTTAAACC
Statistics
Matches: 581, Mismatches: 55, Indels: 237
0.67 0.06 0.27
Matches are distributed among these distances:
23 80 0.14
24 17 0.03
25 12 0.02
26 24 0.04
27 5 0.01
28 5 0.01
29 196 0.34
30 28 0.05
31 5 0.01
32 12 0.02
33 10 0.02
34 12 0.02
35 20 0.03
36 29 0.05
37 23 0.04
38 9 0.02
39 12 0.02
40 4 0.01
41 5 0.01
42 69 0.12
43 2 0.00
44 2 0.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (29 bp):
AACCCTAACCTTAACCTAATTTAATTAAA
Found at i:47183868 original size:71 final size:71
Alignment explanation
Indices: 47183778--47184169 Score: 264
Period size: 71 Copynumber: 5.4 Consensus size: 71
47183768 CCCTAACCTT
*
47183778 AACCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACTCTAACCTAATT-TAA
1 AACCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACTCTAACCTAATTAAAA
47183842 ACCCTA
66 ACCCTA
*
47183848 AACCCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCCTTAATTA
1 AA-CCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACTCTAA-CC-TAATTA
47183913 AAAACCCTA
63 AAAACCCTA
* ** * *
47183922 AACTTAACCTAATT-TAAACCCTAA----ACCCTAATTTAATTAAAAACTCTAACCTTAACCTAA
1 AACCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAA--CT---C-TAACC---
47183982 TTTAATTAAAAACCCT-
57 --TAATTAAAAACCCTA
* **** * **
47183998 AACCTAATTTAATTAAAAACCCTAACC-TAA--T--TTAAACCCTAAACCCTAATTTAATTAAAA
1 AACCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACTCTAACCTAATTAAAA
47184058 ACCCTAA
66 ACCCT-A
47184065 CCTTAACCTAATTTAATTAAAAA--C---CC-TAACCTAATTTAATTAAAAAC-CTTAAACCCTT
1 ----AACCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACTC-T-AA-CC-T
47184123 AATTAAAAACCCTAA
58 AATTAAAAACCCT-A
47184138 CCTTAACCTAATTTAATTAAAAACCCTAACCT
1 ----AACCTAATTTAATTAAAAACCCTAACCT
47184170 AATTTAATTA
Statistics
Matches: 256, Mismatches: 28, Indels: 67
0.73 0.08 0.19
Matches are distributed among these distances:
65 14 0.05
66 5 0.02
68 19 0.07
69 2 0.01
70 15 0.06
71 73 0.29
72 11 0.04
73 56 0.22
74 14 0.05
75 1 0.00
76 18 0.07
77 24 0.09
78 3 0.01
80 1 0.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (71 bp):
AACCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACTCTAACCTAATTAAAA
ACCCTA
Found at i:47183927 original size:19 final size:20
Alignment explanation
Indices: 47183886--47183928 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
47183876 TTAACCTAAT
*
47183886 TTAATTAAAAACCCTAACCC
1 TTAATTAAAAACCCTAACAC
47183906 TTAATTAAAAACCCTAA-AC
1 TTAATTAAAAACCCTAACAC
47183925 TTAA
1 TTAA
47183929 CCTAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (20 bp):
TTAATTAAAAACCCTAACAC
Found at i:47184045 original size:19 final size:17
Alignment explanation
Indices: 47184014--47184051 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
47184004 ATTTAATTAA
47184014 AAACCCTAACCTAATTT
1 AAACCCTAACCTAATTT
47184031 AAACCCTAAACCCTAATTT
1 AAACCCT-AA-CCTAATTT
47184050 AA
1 AA
47184052 TTAAAAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (17 bp):
AAACCCTAACCTAATTT
Found at i:47184045 original size:191 final size:191
Alignment explanation
Indices: 47183724--47184401 Score: 869
Period size: 190 Copynumber: 3.5 Consensus size: 191
47183714 AATAAAAACC
47183724 CTAACCTAATTT-AACCCTAAACCCTAACCTAAATTAATTAAAAACCCTAACCTTAACCTAATTT
1 CTAACCTAATTTAAACCCTAAACCCTAA--T---TTAATTAAAAACCCTAACCTTAACCTAATTT
*
47183788 AATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACTCTAACCTAATTTAAACCCTAAACCC
61 AATTAAAAA--C---CC-TAACCTAATTTAATTAAAAACCCTAACCTAATTTAAACCCTAAACCC
*
47183853 TAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACC-CTTAATTAAAAA
120 TAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCATTTAATTAAAAA
47183917 CCCTAAA
185 CCCTAAA
*
47183924 CTTAACCTAATTTAAACCCTAAACCCTAATTTAATTAAAAACTCTAACCTTAACCTAATTTAATT
1 C-TAACCTAATTTAAACCCTAAACCCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATT
47183989 AAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAAACCCTAAACCCTAATTTAATT
65 AAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAAACCCTAAACCCTAATTTAATT
*
47184054 AAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAA
130 AAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACC--ATTTAATTAAAAACCCTAAA
* *
47184118 C---CCTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAA--C---CC-TAACCTAATT
1 CTAACC-TAATT-TAAACCCTAA----ACCCTAATTTAATTAAAAACCCTAACCTTAACCTAATT
*
47184174 TAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAACCTAATTTAAACCCTAAACCCTAATT
60 TAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAAACCCTAAACCCTAATT
* *
47184239 TAATTAAAGACCCTAACCTTAACCTAATTTAATTAACCCTAACCCTAACCTAATTTAATTAAAAA
125 TAATTAAAAACCCTAACCTTAACCTAATTTAATTAA---AAACCCTAACC--ATTTAATTAAAAA
47184304 -CC----
185 CCCTAAA
*
47184306 CTAACCTAATTTAAACCCTAAACCCTAA--T--TT--AAACCCTAAACCCTAACCTAATTTAATT
1 CTAACCTAATTTAAACCCTAAACCCTAATTTAATTAAAAACCCT-AACCTTAACCTAATTTAATT
*
47184365 AAAAACCCTAACTTAATTTAATTAAAAACCCTAACCT
65 AAAAACCCTAACCTAATTTAATTAAAAACCCTAACCT
47184402 TACCCTAATT
Statistics
Matches: 440, Mismatches: 14, Indels: 62
0.85 0.03 0.12
Matches are distributed among these distances:
179 3 0.01
181 3 0.01
183 1 0.00
185 8 0.02
186 50 0.11
188 1 0.00
189 9 0.02
190 116 0.26
191 107 0.24
192 12 0.03
193 25 0.06
194 19 0.04
195 1 0.00
196 18 0.04
197 39 0.09
200 2 0.00
201 11 0.03
202 15 0.03
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (191 bp):
CTAACCTAATTTAAACCCTAAACCCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTA
AAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAAACCCTAAACCCTAATTTAATTA
AAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCATTTAATTAAAAACCCTAAA
Found at i:47184235 original size:19 final size:17
Alignment explanation
Indices: 47184204--47184241 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
47184194 ATTTAATTAA
47184204 AAACCCTAACCTAATTT
1 AAACCCTAACCTAATTT
47184221 AAACCCTAAACCCTAATTT
1 AAACCCT-AA-CCTAATTT
47184240 AA
1 AA
47184242 TTAAAGACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (17 bp):
AAACCCTAACCTAATTT
Found at i:47184332 original size:19 final size:19
Alignment explanation
Indices: 47184301--47184352 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
47184291 ATTTAATTAA
47184301 AAACCCT-AA-CCTAATTT
1 AAACCCTAAACCCTAATTT
47184318 AAACCCTAAACCCTAATTT
1 AAACCCTAAACCCTAATTT
47184337 AAACCCTAAACCCTAA
1 AAACCCTAAACCCTAA
47184353 CCTAATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.21
18 2 0.06
19 24 0.73
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (19 bp):
AAACCCTAAACCCTAATTT
Found at i:47184386 original size:23 final size:23
Alignment explanation
Indices: 47183716--47184568 Score: 465
Period size: 23 Copynumber: 35.7 Consensus size: 23
47183706 TTTGATGTAA
*
47183716 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAATTTAAT
*** *
47183739 CCTAAACCCTAACCTAAATTAAT
1 TAAAAACCCTAACCTAATTTAAT
47183762 TAAAAACCCTAACCTTAACCTAATTTAAT
1 TAAAAA--C---CC-TAACCTAATTTAAT
47183791 TAAAAACCCTAACCTTAACCTAATTTAAT
1 TAAAAA--C---CC-TAACCTAATTTAAT
*
47183820 TAAAAACTCTAACCTAA--T--T
1 TAAAAACCCTAACCTAATTTAAT
47183839 T--AAACCCTAAACCCTAATTTAAT
1 TAAAAACCCT-AA-CCTAATTTAAT
47183862 TAAAAACCCTAACCTTAACCTAATTTAAT
1 TAAAAA--C---CC-TAACCTAATTTAAT
*
47183891 TAAAAACCCTAACC---CTTAAT
1 TAAAAACCCTAACCTAATTTAAT
* **
47183911 TAAAAACCCTAAACTTAACCTAAT
1 TAAAAACCCT-AACCTAATTTAAT
*
47183935 T-TAAACCCTAAACCCTAATTTAAT
1 TAAAAACCCT-AA-CCTAATTTAAT
47183959 TAAAAACTCTAACCTTAACCTAATTTAAT
1 TAAAAA--C---CC-TAACCTAATTTAAT
47183988 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
47184011 TAAAAACCCTAACCTAA--T--T
1 TAAAAACCCTAACCTAATTTAAT
47184030 T--AAACCCTAAACCCTAATTTAAT
1 TAAAAACCCT-AA-CCTAATTTAAT
47184053 TAAAAACCCTAACCTTAACCTAATTTAAT
1 TAAAAA--C---CC-TAACCTAATTTAAT
47184082 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
47184105 TAAAAACCTTAAACCCTTAA-TTAA-
1 TAAAAACCCT-AA-CC-TAATTTAAT
*
47184129 -AAACCCTAACCTTAACCTAATTTAAT
1 TAAA----AACCCTAACCTAATTTAAT
47184155 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
47184178 TAAAAACCCTAGCCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
47184201 TAAAAACCCTAACCTAA--T--T
1 TAAAAACCCTAACCTAATTTAAT
47184220 T--AAACCCTAAACCCTAATTTAAT
1 TAAAAACCCT-AA-CCTAATTTAAT
*
47184243 TAAAGACCCTAACCTTAACCTAATTTAAT
1 T-AA-A----AACCCTAACCTAATTTAAT
**
47184272 TAACCCTAACCCTAACCTAATTTAAT
1 TAA--AA-ACCCTAACCTAATTTAAT
47184298 TAAAAACCCTAACCTAA--T--T
1 TAAAAACCCTAACCTAATTTAAT
*
47184317 T--AAACCCTAAACCCTAATTTAAAC
1 TAAAAACCCT-AA-CCTAATTT-AAT
***
47184341 CCTAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
47184364 TAAAAACCCTAACTTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
47184387 TAAAAACCCTAACCTTACCCTAATTTAAT
1 TAAAAACCCT-A----A-CCTAATTTAAT
*
47184416 TAAAAACCCT-AGC----TTAAT
1 TAAAAACCCTAACCTAATTTAAT
47184434 TAAAAACCCTAACCTAATTTAAACCT
1 TAAAAACCCTAACCTAATTT-AA--T
**
47184460 T--AAACCCTAATTTAA-TTAA-
1 TAAAAACCCTAACCTAATTTAAT
*
47184479 -AAACCCTAACCTTAACCTAATTTAAT
1 TAAA----AACCCTAACCTAATTTAAT
*
47184505 TAAAAACCCTAACCTAATTTAAAC
1 TAAAAACCCTAACCTAATTT-AAT
*** *
47184529 CCTAAACCTTAAACCCTAATTTAAT
1 TAAAAACCCT-AA-CCTAATTTAAT
*
47184554 TAAAAACACTAACCT
1 TAAAAACCCTAACCT
47184569 TAACGTAATG
Statistics
Matches: 666, Mismatches: 57, Indels: 214
0.71 0.06 0.23
Matches are distributed among these distances:
17 27 0.04
18 23 0.03
19 30 0.05
20 16 0.02
21 11 0.02
22 3 0.00
23 229 0.34
24 70 0.11
25 37 0.06
26 42 0.06
27 20 0.03
28 5 0.01
29 131 0.20
30 14 0.02
31 8 0.01
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:47184426 original size:18 final size:18
Alignment explanation
Indices: 47184403--47184493 Score: 83
Period size: 18 Copynumber: 4.7 Consensus size: 18
47184393 CCCTAACCTT
*
47184403 ACCCTAATTTAATTAAAA
1 ACCCTAACTTAATTAAAA
*
47184421 ACCCTAGCTTAATTAAAA
1 ACCCTAACTTAATTAAAA
*
47184439 ACCCTAACCTAATTTAAACCTTAA
1 ACCCTAACTTAA-TT-AA----AA
*
47184463 ACCCTAATTTAATTAAAA
1 ACCCTAACTTAATTAAAA
47184481 ACCCTAACCTTAA
1 ACCCTAA-CTTAA
47184494 CCTAATTTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
18 35 0.59
19 6 0.10
20 2 0.03
22 2 0.03
23 2 0.03
24 12 0.20
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (18 bp):
ACCCTAACTTAATTAAAA
Found at i:47184455 original size:19 final size:18
Alignment explanation
Indices: 47184412--47184533 Score: 71
Period size: 18 Copynumber: 6.9 Consensus size: 18
47184402 TACCCTAATT
* *
47184412 TAATTAAAAACCCTAGCT
1 TAATTAAAAACCCTAACC
47184430 TAATTAAAAACCCTAACC
1 TAATTAAAAACCCTAACC
**
47184448 TAATTTAAACCTTAAACCCTAATT
1 TAA-TT-AA----AAACCCTAACC
47184472 TAATTAAAAACCCTAACC
1 TAATTAAAAACCCTAACC
**
47184490 ---TT---AA-CCTAATT
1 TAATTAAAAACCCTAACC
47184501 TAATTAAAAACCCTAACC
1 TAATTAAAAACCCTAACC
*
47184519 TAATT-TAAACCCTAA
1 TAATTAAAAACCCTAA
47184534 ACCTTAAACC
Statistics
Matches: 80, Mismatches: 11, Indels: 27
0.68 0.09 0.23
Matches are distributed among these distances:
11 5 0.06
12 2 0.03
14 2 0.03
15 2 0.03
17 11 0.14
18 38 0.47
19 2 0.03
20 2 0.03
22 2 0.03
23 2 0.03
24 12 0.15
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.30
Consensus pattern (18 bp):
TAATTAAAAACCCTAACC
Found at i:47184456 original size:89 final size:90
Alignment explanation
Indices: 47184344--47184533 Score: 253
Period size: 89 Copynumber: 2.1 Consensus size: 90
47184334 TTTAAACCCT
* *
47184344 AAACCCTAACCTAATTTAATTAAAAACCCT-AA-CTTAATTTAATTAAAAACCCTAACCTTACCC
1 AAACCCTAACCTAA-TT-ATT--AAACCCTAAACCCTAATTTAATTAAAAACCCTAACCTTAACC
* *
47184407 TAATTTAATTAAAAACCCTAGCTTAATTAA
62 TAATTTAATTAAAAACCCTAACCTAATT-A
*
47184437 AAACCCTAACCTAA-T-TTAAACCTTAAACCCTAATTTAATTAAAAACCCTAACCTTAACCTAAT
1 AAACCCTAACCTAATTATTAAACCCTAAACCCTAATTTAATTAAAAACCCTAACCTTAACCTAAT
*
47184500 TTAATTAAAAACCCTAACCTAATTT
66 TTAATTAAAAACCCTAACCTAATTA
47184525 AAACCCTAA
1 AAACCCTAA
47184534 ACCTTAAACC
Statistics
Matches: 89, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
87 6 0.07
88 11 0.12
89 57 0.64
91 1 0.01
93 14 0.16
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (90 bp):
AAACCCTAACCTAATTATTAAACCCTAAACCCTAATTTAATTAAAAACCCTAACCTTAACCTAAT
TTAATTAAAAACCCTAACCTAATTA
Found at i:47184554 original size:31 final size:31
Alignment explanation
Indices: 47184508--47184571 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
47184498 ATTTAATTAA
* *
47184508 AAACCCTAACCTAATT-TAAACCCTAAACCTT
1 AAACCCTAACCTAATTAAAAACACT-AACCTT
**
47184539 AAACCCTAATTTAATTAAAAACACTAACCTT
1 AAACCCTAACCTAATTAAAAACACTAACCTT
47184570 AA
1 AA
47184572 CGTAATGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 22 0.79
32 6 0.21
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (31 bp):
AAACCCTAACCTAATTAAAAACACTAACCTT
Found at i:47184778 original size:116 final size:116
Alignment explanation
Indices: 47184574--47184791 Score: 382
Period size: 116 Copynumber: 1.9 Consensus size: 116
47184564 AACCTTAACG
* * *
47184574 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATG
1 TAATGTTAAATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
*
47184639 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACGTAATAATTTTACATTCACA
* *
47184690 TAATGTTAAATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTGTATATAATTTGATA
1 TAATGTTAAATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
47184755 ATTTTACTAACCATTAATACAATTTTTTGACGTAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACGTAATA
47184792 CAATTTATCA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 96 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (116 bp):
TAATGTTAAATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACGTAATAATTTTACATTCACA
Found at i:47186972 original size:126 final size:125
Alignment explanation
Indices: 47186657--47187006 Score: 512
Period size: 126 Copynumber: 2.8 Consensus size: 125
47186647 CCCAAACATG
*
47186657 CTACT-TAGCAAAAGCGCGTCCACGAGTGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
** * *
47186721 TAGAAGTAATTTTTTATTATTTTCTCAGAAACGTC--AAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTTCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
*
47186779 CTACTGTAGCAAAAGCGCG-CTAACGA-GGCTGCGATTTCACAAATTCTTCTCAAATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGC-GCGATTTCACAAATTCTTCTCAAATAGCATCCT
* * *
47186842 GCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
64 GCTAGAAGCGATTTTATACTATTTTCTCAGAAACGTCAAAAAAA-AATTATTTCTTACATGAC
* * *
47186905 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATACCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
47186970 TAGAAGCGATTTTATACTATTTTATCAGAAACATCAA
66 TAGAAGCGATTTTATACTATTTTCTCAGAAACGTCAA
47187007 CTCGAAATTA
Statistics
Matches: 204, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
122 8 0.04
123 82 0.40
125 5 0.02
126 105 0.51
127 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTTCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:47189992 original size:12 final size:12
Alignment explanation
Indices: 47189977--47190001 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47189967 GATGAAAATG
47189977 TAAATAAAGAAA
1 TAAATAAAGAAA
47189989 TAAATAAAGAAA
1 TAAATAAAGAAA
47190001 T
1 T
47190002 GAGCAAGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (12 bp):
TAAATAAAGAAA
Found at i:47190430 original size:44 final size:44
Alignment explanation
Indices: 47190378--47190566 Score: 127
Period size: 44 Copynumber: 4.3 Consensus size: 44
47190368 CCACTGTAAC
* * *
47190378 CTTAGGGAGGTAAAATTCGCTATCTTCTATCTGCTCCACTACTG
1 CTTAGGGAGATAAAATTCGCTATCTTCAATCTACTCCACTACTG
* * * *
47190422 CTTAGGGAGATAAGA-TCTG-TAATCCTCAATCTATTCCACTGCTG
1 CTTAGGGAGATAAAATTC-GCT-ATCTTCAATCTACTCCACTACTG
** * * ** * *
47190466 CCCAGGGAGATAGAATT-ACTGGCTTCAATGTACTCCATTGTAAC--
1 CTTAGGGAGATAAAATTCGCTATCTTCAATCTACTCCA--CT-ACTG
* * * *
47190510 CTTAGGGAGGTAAAATTCGCTATCTTCGATCTGCTCCATTACTG
1 CTTAGGGAGATAAAATTCGCTATCTTCAATCTACTCCACTACTG
47190554 CTTAGGGAGATAA
1 CTTAGGGAGATAA
47190567 GATCTGTAAT
Statistics
Matches: 104, Mismatches: 31, Indels: 20
0.67 0.20 0.13
Matches are distributed among these distances:
42 2 0.02
43 16 0.15
44 69 0.66
45 16 0.15
46 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTAGGGAGATAAAATTCGCTATCTTCAATCTACTCCACTACTG
Found at i:47190668 original size:132 final size:132
Alignment explanation
Indices: 47190353--47190655 Score: 525
Period size: 132 Copynumber: 2.3 Consensus size: 132
47190343 TAAGACTTGT
*
47190353 TGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATTCGCTATCTTCTATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATTCGCTATCTTCGATCTGCTCCACT
* *
47190418 ACTGCTTAGGGAGATAAGATCTGTAATCCTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
66 ACTGCTTAGGGAGATAAGATCTGTAATACTCAATCTATTCCACTGCTACCCAGGGAGATAGAATT
47190483 AC
131 AC
* *
47190485 TGGCTTCAATGTACTCCATTGTAACCTTAGGGAGGTAAAATTCGCTATCTTCGATCTGCTCCATT
1 TGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATTCGCTATCTTCGATCTGCTCCACT
*
47190550 ACTGCTTAGGGAGATAAGATCTGTAATATTCAATCTATTCCACTGCTACCCAGGGAGATAGAATT
66 ACTGCTTAGGGAGATAAGATCTGTAATACTCAATCTATTCCACTGCTACCCAGGGAGATAGAATT
47190615 AC
131 AC
* * *
47190617 TGGCTTCAAAGTACTCCACTGTAATCGTAGGGAGGTAAA
1 TGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAA
47190656 GTCTGCCATC
Statistics
Matches: 161, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 161 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (132 bp):
TGGCTTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATTCGCTATCTTCGATCTGCTCCACT
ACTGCTTAGGGAGATAAGATCTGTAATACTCAATCTATTCCACTGCTACCCAGGGAGATAGAATT
AC
Found at i:47190864 original size:128 final size:124
Alignment explanation
Indices: 47190749--47191160 Score: 361
Period size: 128 Copynumber: 3.3 Consensus size: 124
47190739 GATTACTATC
* * *
47190749 TTCAATCTGTTCCACTGTAATCTCAGGGAGATAAG-AT-CTGAAAT-TCTTCAGTCTGTAATCTT
1 TTCAATCCGCTCCACTGTAATCTCAGGGAGATAAGTATCCTGAAATCTC-TCAG-CTGTAATCTC
* * *
47190811 AGGGAGATAAGACCTAATGCGATCTACTCTGCGGTAACTTCAGAGAGATAAGATCCTTTAT
64 AGGGAGATAAGACCTAATACGATCTACTCTACGGTAACTTCAGAGAGATAAGATCATTTAT
* ** *
47190872 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTATCGCTTCAATCTGCTCCGCTGTAATC
1 TTCAATCCGCTCCACTGTAATCTCAGGGAGATAAG--TATC-CTGAAATCT-CTCAGCTGTAATC
* * * * *
47190937 TCAGGGAGATAAGACCTGATATGATCTACTCTACTGTAACTTCTGAGAGATAAGATC-TGTGAT
62 TCAGGGAGATAAGACCTAATACGATCTACTCTACGGTAACTTCAGAGAGATAAGATCAT-TTAT
* * * ** *
47191000 TTTAATCCACTCCACTGTAA-CTTCAGGGAGATAGGATTATCGCTTCAATCTGCTCCGCTGTAAT
1 TTCAATCCGCTCCACTGTAATC-TCAGGGAGATA--AGTATC-CTGAAATCT-CTCAGCTGTAAT
* ** * ** *
47191064 CTTAGGGAGATAAGACCGGATACGATCTATTCTACTATAACTTCAGAGAGATAAGATC-TGTGAT
61 CTCAGGGAGATAAGACCTAATACGATCTACTCTACGGTAACTTCAGAGAGATAAGATCAT-TTAT
* * * *
47191128 TTTAATGCACTCCACTATAA-CTTCAGGGAGATA
1 TTCAATCCGCTCCACTGTAATC-TCAGGGAGATA
47191161 GGAATATCGG
Statistics
Matches: 254, Mismatches: 24, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
123 32 0.13
126 2 0.01
127 2 0.01
128 212 0.83
129 4 0.02
130 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (124 bp):
TTCAATCCGCTCCACTGTAATCTCAGGGAGATAAGTATCCTGAAATCTCTCAGCTGTAATCTCAG
GGAGATAAGACCTAATACGATCTACTCTACGGTAACTTCAGAGAGATAAGATCATTTAT
Found at i:47190933 original size:43 final size:42
Alignment explanation
Indices: 47190875--47191078 Score: 155
Period size: 43 Copynumber: 4.8 Consensus size: 42
47190865 CCTTTATTTT
*
47190875 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTATCGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAT-GCTTC
* ** *
47190918 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-CCTGATAT-
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTATGCT-TC
* * * * * * * *
47190959 GATCTACTCTACTGTAA-CTTCTGAGAGATAAGATCTGTGATTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-TATG-CTTC
** *
47191003 AATCCACTCCACTGTAA-CTTCAGGGAGATAGGATTATCGCTTC
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAT-GCTTC
* *
47191046 AATCTGCTCCGCTGTAATCTTAGGGAGATAAGA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA
47191079 CCGGATACGA
Statistics
Matches: 125, Mismatches: 28, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
40 1 0.01
41 27 0.22
42 2 0.02
43 64 0.51
44 31 0.25
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (42 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTATGCTTC
Found at i:47191161 original size:128 final size:128
Alignment explanation
Indices: 47190801--47191180 Score: 575
Period size: 128 Copynumber: 3.0 Consensus size: 128
47190791 ATTCTTCAGT
* * * *
47190801 CTGTAATCTTAGGGAGATAAGACCTAATGCGATCTACTCTGCGGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTTAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-
* * *
47190866 CT-TTATTTTAATCCGCTCCACTGTAA-TCTCAGGGAGATAAGATTATCGCTTCAATCTGCTCCG
65 CTGTGATTTTAATCCACTCCACTGTAACT-TCAGGGAGATAGGATTATCGCTTCAATCTGCTCCG
* * *
47190929 CTGTAATCTCAGGGAGATAAGACCTGATATGATCTACTCTACTGTAACTTCTGAGAGATAAGATC
1 CTGTAATCTTAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
47190994 TGTGATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCGCTTCAATCTGCTCCG
66 TGTGATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCGCTTCAATCTGCTCCG
* * *
47191057 CTGTAATCTTAGGGAGATAAGACCGGATACGATCTATTCTACTATAACTTCAGAGAGATAAGATC
1 CTGTAATCTTAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
* * *
47191122 TGTGATTTTAATGCACTCCACTATAACTTCAGGGAGATAGGAATATCGGCTTCAATCTG
66 TGTGATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATTATC-GCTTCAATCTG
47191181 ATGTGATCTA
Statistics
Matches: 230, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
127 2 0.01
128 216 0.94
129 12 0.05
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (128 bp):
CTGTAATCTTAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
TGTGATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCGCTTCAATCTGCTCCG
Found at i:47191258 original size:44 final size:45
Alignment explanation
Indices: 47191195--47191308 Score: 119
Period size: 44 Copynumber: 2.6 Consensus size: 45
47191185 GATCTACTCT
* * *
47191195 ACTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTTAATCCGCTCC
1 ACTGTAATCTT-AGGGAGATAAGAT-CTACTATCTTCAATCCGCTCC
* *
47191239 ACTGTAATCTTAGGGAGATAGGAT-TACTATCTTCAATCTGCTCC
1 ACTGTAATCTTAGGGAGATAAGATCTACTATCTTCAATCCGCTCC
* *
47191283 GCTGTAATCTCAGGGAGATAAGATCT
1 ACTGTAATCTTAGGGAGATAAGATCT
47191309 GAAATTCTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
42 1 0.02
43 3 0.05
44 50 0.86
45 4 0.07
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (45 bp):
ACTGTAATCTTAGGGAGATAAGATCTACTATCTTCAATCCGCTCC
Found at i:47191273 original size:98 final size:98
Alignment explanation
Indices: 47191087--47191278 Score: 255
Period size: 98 Copynumber: 2.0 Consensus size: 98
47191077 GACCGGATAC
* *
47191087 GATCTATTCTACTATAACTTCAGAGAGATAAGATCTGTGATTTTAATGCACTCCACTATAACTTC
1 GATCTACTCTACTATAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTATAACTTC
*
47191152 AGGGAGATAGGAATATCGGCTTCAATCTGATGT
66 AGGGAGATAGGAATATCAGCTTCAATCTGATGT
* * * *
47191185 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTAATCCGCTCCACTGTAATCT
1 GATCTACTCTACTATAACTTCAGAGAGATAAGAT-CTGTGATTTTAATCCACTCCACTATAA-CT
* *
47191249 T-AGGGAGATAGGATTA-CTATCTTCAATCTG
64 TCAGGGAGATAGGAATATC-AGCTTCAATCTG
47191279 CTCCGCTGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
97 1 0.01
98 76 0.93
99 5 0.06
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (98 bp):
GATCTACTCTACTATAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTATAACTTC
AGGGAGATAGGAATATCAGCTTCAATCTGATGT
Found at i:47193493 original size:19 final size:20
Alignment explanation
Indices: 47193442--47193505 Score: 73
Period size: 19 Copynumber: 3.3 Consensus size: 20
47193432 TCTTTTCTTT
47193442 TTCATTCTCATTTTTTCA-TC
1 TTCATTCTC-TTTTTTCATTC
*
47193462 TTGATTCTCTTTTTTCATTC
1 TTCATTCTCTTTTTTCATTC
47193482 TTC-TT-TCTTTTTCTCATT-
1 TTCATTCTCTTTTT-TCATTC
47193500 TTCATT
1 TTCATT
47193506 TTGATTTTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.26
19 17 0.44
20 12 0.31
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.66
Consensus pattern (20 bp):
TTCATTCTCTTTTTTCATTC
Found at i:47193537 original size:18 final size:17
Alignment explanation
Indices: 47193516--47193569 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
47193506 TTGATTTTGA
* *
47193516 TTTTTTTCTTCTTTCTTT
1 TTTTTTTATT-TTTATTT
47193534 TTTTTTTATTTTTATTT
1 TTTTTTTATTTTTATTT
47193551 TTTATTTT-TTTTTCATTT
1 TTT-TTTTATTTTT-ATTT
47193569 T
1 T
47193570 CATTTTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 14 0.44
18 18 0.56
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTATTTTTATTT
Found at i:47193545 original size:6 final size:6
Alignment explanation
Indices: 47193531--47193606 Score: 57
Period size: 6 Copynumber: 12.8 Consensus size: 6
47193521 TTCTTCTTTC
* * *
47193531 TTTTT- TTTTTA TTTTTA TTTTTTA TTTTT- TTTTCA TTTTCA TTTTCA
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * * * *
47193578 TTTTGA CTTTGA TTTTGA TTTTTC TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
47193607 CTTCCCTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
5 9 0.15
6 47 0.76
7 6 0.10
ACGTcount: A:0.12, C:0.07, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:47193545 original size:24 final size:24
Alignment explanation
Indices: 47193518--47193569 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
47193508 GATTTTGATT
* * *
47193518 TTTTTCTTCTTTCTTTTTTTTTTA
1 TTTTTATTCTTTATTTTTTTTTCA
*
47193542 TTTTTATTTTTTATTTTTTTTTCA
1 TTTTTATTCTTTATTTTTTTTTCA
47193566 TTTT
1 TTTT
47193570 CATTTTCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (24 bp):
TTTTTATTCTTTATTTTTTTTTCA
Found at i:47193551 original size:13 final size:12
Alignment explanation
Indices: 47193531--47193563 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
47193521 TTCTTCTTTC
47193531 TTTTTTTTTTAT
1 TTTTTTTTTTAT
47193543 TTTTATTTTTTAT
1 TTTT-TTTTTTAT
47193556 TTTTTTTT
1 TTTTTTTT
47193564 CATTTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTAT
Found at i:47193558 original size:39 final size:41
Alignment explanation
Indices: 47193479--47193593 Score: 129
Period size: 36 Copynumber: 3.0 Consensus size: 41
47193469 TCTTTTTTCA
47193479 TTCTTCTTTCTTTTTCTCATTTTCATTTTGATTTTGATTTTT
1 TTCTTCTTTCTTTTTCT-ATTTTCATTTTGATTTTGATTTTT
* *
47193521 TTCTTCTTTCTTTTT-T-TTTT-ATTTTTATTTT--TTATT
1 TTCTTCTTTCTTTTTCTATTTTCATTTTGATTTTGATTTTT
* *
47193557 TT-TT-TTTCATTTTC-ATTTTCATTTTGACTTTGATTTT
1 TTCTTCTTTCTTTTTCTATTTTCATTTTGATTTTGATTTT
47193594 GATTTTTCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
34 8 0.13
35 6 0.10
36 15 0.24
38 13 0.21
39 4 0.06
41 1 0.02
42 15 0.24
ACGTcount: A:0.10, C:0.11, G:0.03, T:0.75
Consensus pattern (41 bp):
TTCTTCTTTCTTTTTCTATTTTCATTTTGATTTTGATTTTT
Found at i:47197723 original size:12 final size:12
Alignment explanation
Indices: 47197708--47197732 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47197698 GATGAAAATG
47197708 TAAATAAAGAAA
1 TAAATAAAGAAA
47197720 TAAATAAAGAAA
1 TAAATAAAGAAA
47197732 T
1 T
47197733 GAACAAGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (12 bp):
TAAATAAAGAAA
Found at i:47198038 original size:20 final size:22
Alignment explanation
Indices: 47197987--47198038 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
47197977 TTTGAATAAT
*
47197987 AATAATACATGGTAAATTTATAC
1 AATAATA-ATGATAAATTTATAC
* *
47198010 AATATTAATGATAGATTTA-A-
1 AATAATAATGATAAATTTATAC
47198030 AATAATAAT
1 AATAATAAT
47198039 ATATTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 8 0.32
21 1 0.04
22 10 0.40
23 6 0.24
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (22 bp):
AATAATAATGATAAATTTATAC
Found at i:47202204 original size:39 final size:40
Alignment explanation
Indices: 47202125--47202217 Score: 118
Period size: 39 Copynumber: 2.3 Consensus size: 40
47202115 ACATTAAAAA
* *
47202125 GTATTATATTAAAAAACATTACCATAAATATAATACATATT
1 GTATTATATT-AAAAACATTACAATAAATATAATAAATATT
*
47202166 TTATTATATTAAAAA-A-TACAAATAAATATAATAAATATT
1 GTATTATATTAAAAACATTAC-AATAAATATAATAAATATT
*
47202205 GTATTGTATTAAA
1 GTATTATATTAAA
47202218 TATAATTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 3 0.07
39 29 0.63
40 5 0.11
41 9 0.20
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (40 bp):
GTATTATATTAAAAACATTACAATAAATATAATAAATATT
Found at i:47211192 original size:3 final size:3
Alignment explanation
Indices: 47211113--47211176 Score: 65
Period size: 3 Copynumber: 21.3 Consensus size: 3
47211103 ACTAATTAGG
* ** * *
47211113 TTA TTA TTA TTA CTA AAA TTA TTA TTA TTA GTA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
47211161 ATA TTA TTG TTA TTA T
1 TTA TTA TTA TTA TTA T
47211177 CATCATAACT
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:47211331 original size:18 final size:18
Alignment explanation
Indices: 47211300--47211334 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47211290 ATATATACGC
* *
47211300 TTATATTTTTTATATATT
1 TTATAATTTATATATATT
47211318 TTATAATTTATATATAT
1 TTATAATTTATATATAT
47211335 GTATGTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATAATTTATATATATT
Found at i:47216790 original size:38 final size:38
Alignment explanation
Indices: 47216739--47216816 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
47216729 CCTTTCTAAG
47216739 TAAAAAAACAAGCAACTAATATTTCTTATTAAAATTAC
1 TAAAAAAACAAGCAACTAATATTTCTTATTAAAATTAC
47216777 TAAAAAAACAAGCAACTAATATTTCTTATTAAAATTAC
1 TAAAAAAACAAGCAACTAATATTTCTTATTAAAATTAC
47216815 TA
1 TA
47216817 TTTTATTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.32
Consensus pattern (38 bp):
TAAAAAAACAAGCAACTAATATTTCTTATTAAAATTAC
Found at i:47217684 original size:31 final size:29
Alignment explanation
Indices: 47217619--47217684 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 29
47217609 GTTAGTGATT
47217619 TAATATAAATATATAATTATTATTTAACA
1 TAATATAAATATATAATTATTATTTAACA
* *
47217648 T-ATATAATTAATATAA-TATTTTTTAGAACA
1 TAATATAAAT-ATATAATTATTATTT--AACA
47217678 TAATATA
1 TAATATA
47217685 TTTAGGCCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 14 0.45
29 7 0.23
30 5 0.16
31 5 0.16
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (29 bp):
TAATATAAATATATAATTATTATTTAACA
Found at i:47220208 original size:18 final size:18
Alignment explanation
Indices: 47220187--47220229 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
47220177 TACACCGCCC
* *
47220187 TCTCGATCGCCACCTCCA
1 TCTCCATCGACACCTCCA
*
47220205 TCTCCCTCGACACCTCCA
1 TCTCCATCGACACCTCCA
47220223 TCTCCAT
1 TCTCCAT
47220230 GCTCATGCGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.51, G:0.07, T:0.26
Consensus pattern (18 bp):
TCTCCATCGACACCTCCA
Found at i:47223483 original size:19 final size:20
Alignment explanation
Indices: 47223461--47223510 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
47223451 ATATATTGGT
*
47223461 TATATTTTA-ATATTTAAAA
1 TATATTTTATATATTCAAAA
* *
47223480 TATAGTTTATATATTCAAAT
1 TATATTTTATATATTCAAAA
*
47223500 TAAATTTTATA
1 TATATTTTATA
47223511 AATATTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TATATTTTATATATTCAAAA
Found at i:47226217 original size:14 final size:15
Alignment explanation
Indices: 47226198--47226226 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47226188 GTTTCCATGG
47226198 AAAGGGA-TTTAATT
1 AAAGGGACTTTAATT
47226212 AAAGGGACTTTAATT
1 AAAGGGACTTTAATT
47226227 TGTGTGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.34
Consensus pattern (15 bp):
AAAGGGACTTTAATT
Found at i:47229689 original size:13 final size:13
Alignment explanation
Indices: 47229671--47229695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47229661 TTATAATGTA
47229671 AAAAGAAAAAAAG
1 AAAAGAAAAAAAG
47229684 AAAAGAAAAAAA
1 AAAAGAAAAAAA
47229696 AAGAGCAAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:47238948 original size:25 final size:25
Alignment explanation
Indices: 47238920--47238986 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
47238910 TCCTATACAT
47238920 GTATGCTCATACAAGCTATGAATCA
1 GTATGCTCATACAAGCTATGAATCA
**
47238945 GTATGCTC-T-CATGAGCTATGAATTG
1 GTATGCTCATACA--AGCTATGAATCA
* *
47238970 GTAAGCTCATACGAGCT
1 GTATGCTCATACAAGCT
47238987 GAGAATTGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
23 2 0.06
24 1 0.03
25 29 0.85
26 1 0.03
27 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (25 bp):
GTATGCTCATACAAGCTATGAATCA
Found at i:47246342 original size:12 final size:13
Alignment explanation
Indices: 47246325--47246358 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
47246315 TTTCCATCTA
47246325 TCTTCTTTATT-T
1 TCTTCTTTATTGT
47246337 TCTTCTTTATTGT
1 TCTTCTTTATTGT
*
47246350 TCTTTTTTA
1 TCTTCTTTA
47246359 AGACTAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.09, C:0.15, G:0.03, T:0.74
Consensus pattern (13 bp):
TCTTCTTTATTGT
Found at i:47251563 original size:67 final size:67
Alignment explanation
Indices: 47251395--47251794 Score: 434
Period size: 67 Copynumber: 6.0 Consensus size: 67
47251385 ATGGACTATA
* * * * * * **
47251395 ATGGGGTATAATTTGTAAAACCATAGCTCGGCTATGGAAACATAGAGAGTCCGCCAAAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGTCAGGACATTAA
*
47251460 GC
66 AC
* * *
47251462 AT-GGGTATAATGTTTAAGACCATAACTTGACTATGGCAACATAGAGAGTTCGTCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGTCAGGACATTAA
*
47251526 GC
66 AC
* * ** * **
47251528 ATGTGGTATAATGTGTAAGACCATAGCTCAACTATGAAAACATAGAGAGTACACCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGTCAGGACATTAA
47251593 AC
66 AC
*
47251595 ATGGGGTATAATGTGTAAGACCATAG-TGCAACTATGGCAACATAGAGAGTTCGTCAGGACATTA
1 ATGGGGTATAATGTGTAAGACCATAGCT-CGACTATGGCAACATAGAGAGTTCGTCAGGACATTA
47251659 AAC
65 AAC
* * * * *
47251662 ATGGGGTATAACGTGTAAGACTATAGCTCGGCTATGGCAACCT-GAAGAG-TC-TGCTAGGAAAT
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAG-AGAGTTCGT-C-AGGACAT
47251724 TAAAC
63 TAAAC
* * * * * *
47251729 ATGGGGTAT-GTGTGTAAGACCTTGGCTCGGCTATGACAACATAGAGAGTTTGTCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGTCAGGACATTAA
47251793 AC
66 AC
47251795 GCTGGGTAGT
Statistics
Matches: 281, Mismatches: 43, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
65 1 0.00
66 101 0.36
67 177 0.63
68 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (67 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGTCAGGACATTAA
AC
Found at i:47251794 original size:200 final size:200
Alignment explanation
Indices: 47251395--47251777 Score: 452
Period size: 200 Copynumber: 1.9 Consensus size: 200
47251385 ATGGACTATA
* **
47251395 ATGGGGTATAATTTGTAAAACCATAGCTCGGCTATGGAAACATAGAGAGTCCGCCAAAACATTAA
1 ATGGGGTATAATGTGTAAAACCATAGCTCAACTATGGAAACATAGAGAGTCCGCCAAAACATTAA
* * * * *
47251460 GCATGGGTATAATGTTTAAGACCATAACTTGACTATGGCAACATAGAGAGTTCGTCAGGACATTA
66 ACATGGGTATAACGTGTAAGACCATAACTCGACTATGGCAACATAGAGAGTTCGTCAGGAAATTA
* *
47251525 AGCATGTGGTATAATGTGTAAGACCATAGCTCAACTATGAAAACATAGAGAGTACACCAGGACAT
131 AACATGGGGTATAATGTGTAAGACCATAGCTCAACTATGAAAACATAGAGAGTACACCAGGACAT
47251590 TAAAC
196 TAAAC
* * * * **
47251595 ATGGGGTATAATGTGTAAGACCATAG-TGCAACTATGGCAACATAGAGAGTTCGTCAGGACATTA
1 ATGGGGTATAATGTGTAAAACCATAGCT-CAACTATGGAAACATAGAGAGTCCGCCAAAACATTA
* * * *
47251659 AACATGGGGTATAACGTGTAAGACTATAGCTCGGCTATGGCAACCT-GAAGAG-TC-TGCTAGGA
65 AACAT-GGGTATAACGTGTAAGACCATAACTCGACTATGGCAACATAG-AGAGTTCGT-C-AGGA
* * * ** *
47251721 AATTAAACATGGGGTAT-GTGTGTAAGACCTTGGCTCGGCTATGACAACATAGAGAGT
126 AATTAAACATGGGGTATAATGTGTAAGACCATAGCTCAACTATGAAAACATAGAGAGT
47251778 TTGTCAGGAC
Statistics
Matches: 152, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
199 2 0.01
200 95 0.62
201 55 0.36
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (200 bp):
ATGGGGTATAATGTGTAAAACCATAGCTCAACTATGGAAACATAGAGAGTCCGCCAAAACATTAA
ACATGGGTATAACGTGTAAGACCATAACTCGACTATGGCAACATAGAGAGTTCGTCAGGAAATTA
AACATGGGGTATAATGTGTAAGACCATAGCTCAACTATGAAAACATAGAGAGTACACCAGGACAT
TAAAC
Found at i:47251815 original size:27 final size:27
Alignment explanation
Indices: 47251785--47251857 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
47251775 AGTTTGTCAG
*
47251785 GACATTAAACGCTGGGTAGTTCGTCGA
1 GACATTAAATGCTGGGTAGTTCGTCGA
* * * * *
47251812 GACATTAAATGCTAGGTATTTTGTTGG
1 GACATTAAATGCTGGGTAGTTCGTCGA
*
47251839 GACATTAAATGCGGGGTAG
1 GACATTAAATGCTGGGTAG
47251858 CCCGCCGAGA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.30
Consensus pattern (27 bp):
GACATTAAATGCTGGGTAGTTCGTCGA
Found at i:47254326 original size:13 final size:13
Alignment explanation
Indices: 47254308--47254333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47254298 AATTGATACC
47254308 AATATAAAATTTT
1 AATATAAAATTTT
47254321 AATATAAAATTTT
1 AATATAAAATTTT
47254334 TTGGCGTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATATAAAATTTT
Found at i:47255023 original size:17 final size:17
Alignment explanation
Indices: 47255001--47255040 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
47254991 AAAGAGGAAA
47255001 GATAGGATGAACAAAA-T
1 GATAGGATGAA-AAAAGT
47255018 GATAGGA-GAAAAAAGT
1 GATAGGATGAAAAAAGT
47255034 GA-AGGAT
1 GATAGGAT
47255041 AATAGGTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.38
16 6 0.29
17 7 0.33
ACGTcount: A:0.53, C:0.03, G:0.30, T:0.15
Consensus pattern (17 bp):
GATAGGATGAAAAAAGT
Found at i:47259215 original size:22 final size:24
Alignment explanation
Indices: 47259181--47259233 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
47259171 AGAAATTAAA
47259181 AAAATAAGAAAAA-AT-AG-ATAAT
1 AAAATAAGAAAAACATAAGCAT-AT
47259203 AAAATAA-ATAAAACATAAGCATAT
1 AAAATAAGA-AAAACATAAGCATAT
47259227 AAAATAA
1 AAAATAA
47259234 TAATTTACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.04
22 11 0.41
23 2 0.07
24 11 0.41
25 2 0.07
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.19
Consensus pattern (24 bp):
AAAATAAGAAAAACATAAGCATAT
Found at i:47259630 original size:3 final size:3
Alignment explanation
Indices: 47259622--47259663 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
47259612 AAATTTTTGC
47259622 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
47259664 AGATAAGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:47263370 original size:15 final size:15
Alignment explanation
Indices: 47263340--47263400 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 15
47263330 TAACTTAAAC
* *
47263340 TCAATATTTAAATTT
1 TCAATACTTAATTTT
47263355 TCAATACTTAATTTT
1 TCAATACTTAATTTT
* * *
47263370 TTAATGCTTATTTTT
1 TCAATACTTAATTTT
**
47263385 TCAGCACTTAATTTT
1 TCAATACTTAATTTT
47263400 T
1 T
47263401 TAGTTCATCA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.30, C:0.11, G:0.03, T:0.56
Consensus pattern (15 bp):
TCAATACTTAATTTT
Found at i:47269830 original size:10 final size:10
Alignment explanation
Indices: 47269783--47269831 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
47269773 TCTTTCTTCA
47269783 TTTCTTTTTT
1 TTTCTTTTTT
*
47269793 ATTT-TTGTTT
1 -TTTCTTTTTT
* *
47269803 CTTCTTTCTT
1 TTTCTTTTTT
47269813 TTTCTTTTTT
1 TTTCTTTTTT
47269823 TTTCTTTTT
1 TTTCTTTTT
47269832 GATTGCATTC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
9 2 0.06
10 26 0.84
11 3 0.10
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:47271712 original size:44 final size:43
Alignment explanation
Indices: 47271654--47271742 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 43
47271644 GTTGAAATAA
* * *
47271654 AATAGAAGATTGATAATTATACATTTAGAAATAATTATAATTT
1 AATAGAAGATTGATAATTACACATTTAAAAATAATTAAAATTT
*
47271697 AATAGAAGTTGTGATAATTACACATTTAAAAATAATTAAAATTT
1 AATAGAAGAT-TGATAATTACACATTTAAAAATAATTAAAATTT
47271741 AA
1 AA
47271743 GTTACAATTG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 9 0.22
44 32 0.78
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (43 bp):
AATAGAAGATTGATAATTACACATTTAAAAATAATTAAAATTT
Found at i:47272748 original size:23 final size:23
Alignment explanation
Indices: 47272721--47272765 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
47272711 CTCTCATCTC
47272721 ACAATTTTTCTCTCCACTTTCTT
1 ACAATTTTTCTCTCCACTTTCTT
47272744 ACAATTTTTCTCTCCACTTTCT
1 ACAATTTTTCTCTCCACTTTCT
47272766 CACTTGTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.31, G:0.00, T:0.51
Consensus pattern (23 bp):
ACAATTTTTCTCTCCACTTTCTT
Found at i:47290396 original size:9 final size:9
Alignment explanation
Indices: 47290395--47290438 Score: 79
Period size: 9 Copynumber: 4.9 Consensus size: 9
47290385 GAATTATTCG
*
47290395 AATCGAGTT
1 AATCGAATT
47290404 AATCGAATT
1 AATCGAATT
47290413 AATCGAATT
1 AATCGAATT
47290422 AATCGAATT
1 AATCGAATT
47290431 AATCGAAT
1 AATCGAAT
47290439 CAATTCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (9 bp):
AATCGAATT
Found at i:47290568 original size:29 final size:29
Alignment explanation
Indices: 47290524--47290580 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
47290514 GAATAAAAAC
*
47290524 TATATTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
47290553 TATATTTTTTTATTTTTAAAATACACTA
1 TATA-TTTTTTATTTTTAAAATACACTA
47290581 TATTTAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:47297338 original size:35 final size:35
Alignment explanation
Indices: 47297292--47297361 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
47297282 TGGAAAAACG
47297292 CAGTGGAAAATAAATTTAAAGAAAAATCAGAGTTT
1 CAGTGGAAAATAAATTTAAAGAAAAATCAGAGTTT
47297327 CAGTGGAAAATAAATTTAAAGAAAAATCAGAGTTT
1 CAGTGGAAAATAAATTTAAAGAAAAATCAGAGTTT
47297362 TAAAAATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (35 bp):
CAGTGGAAAATAAATTTAAAGAAAAATCAGAGTTT
Found at i:47320717 original size:210 final size:209
Alignment explanation
Indices: 47320356--47320777 Score: 826
Period size: 210 Copynumber: 2.0 Consensus size: 209
47320346 TTCATAGTTG
47320356 GATTAAGCCGGCGATGTGCATCCACTACAGGTTTTTTCCTTCTTCTAATCTAATCTTATGTTCAC
1 GATTAAGCCGGCGATGTGCATCCACTACAGGTTTTTTCCTTCTTCTAATCTAATCTTATGTTCAC
47320421 ATAGCACAAGATTGATTCCCTTAATATCAGTAATTATCCATCCTATGACGTTTTTGTGTGTTTTT
66 ATAGCACAAGATTGATTCCCTTAATATCAGTAATTATCCATCCTATGACGTTTTTGTGTGTTTTT
47320486 AAAACACTGAATCAAACCTCTTCTTGTTCTAAATTTATCCCGGTAGCTATAATTACTAGTAATGT
131 AAAACACTGAATCAAACCTCTTCTTGTTCTAAATTTATCCCGGTAGCTATAATTACTAGTAATGT
47320551 ATTTTGCTTCCCCA
196 ATTTTGCTTCCCCA
*
47320565 GATTAAGCCGGCGTTGTGCATCCACTACAGGTTTTTTTCCTTCTTCTAATCTAATCTTATGTTCA
1 GATTAAGCCGGCGATGTGCATCCACTACAGG-TTTTTTCCTTCTTCTAATCTAATCTTATGTTCA
47320630 CATAGCACAAGATTGATTCCCTTAATATCAGTAATTATCCATCCTATGACGTTTTTGTGTGTTTT
65 CATAGCACAAGATTGATTCCCTTAATATCAGTAATTATCCATCCTATGACGTTTTTGTGTGTTTT
47320695 TAAAACACTGAATCAAACCTCTTCTTGTTCTAAATTTATCCCGGTAGCTATAATTACTAGTAATG
130 TAAAACACTGAATCAAACCTCTTCTTGTTCTAAATTTATCCCGGTAGCTATAATTACTAGTAATG
47320760 TATTTTGCTTCCCCA
195 TATTTTGCTTCCCCA
47320775 GAT
1 GAT
47320778 ATCCGTATTT
Statistics
Matches: 211, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
209 30 0.14
210 181 0.86
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (209 bp):
GATTAAGCCGGCGATGTGCATCCACTACAGGTTTTTTCCTTCTTCTAATCTAATCTTATGTTCAC
ATAGCACAAGATTGATTCCCTTAATATCAGTAATTATCCATCCTATGACGTTTTTGTGTGTTTTT
AAAACACTGAATCAAACCTCTTCTTGTTCTAAATTTATCCCGGTAGCTATAATTACTAGTAATGT
ATTTTGCTTCCCCA
Found at i:47322137 original size:18 final size:18
Alignment explanation
Indices: 47322114--47322152 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
47322104 TAATAACAAT
* *
47322114 AATAAATGAAAGAAAAGA
1 AATAAATAAAACAAAAGA
*
47322132 AATAAATAAAACACAAGA
1 AATAAATAAAACAAAAGA
47322150 AAT
1 AAT
47322153 CAAAGAGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.05, G:0.10, T:0.13
Consensus pattern (18 bp):
AATAAATAAAACAAAAGA
Found at i:47323929 original size:42 final size:43
Alignment explanation
Indices: 47323873--47323977 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 43
47323863 AAAATTTACG
* * * *
47323873 TGTAAGACCATGTCTGGGACATTTGCATCG-TATATGATTTCA
1 TGTAAGACCATGTCTGGGACAGTAGCATCGTTATATGAATACA
* *
47323915 TGTAAGACCCTGTCTGGGACAGTAGCATCGTTATTTGAATACA
1 TGTAAGACCATGTCTGGGACAGTAGCATCGTTATATGAATACA
* *
47323958 TGTAAGACTACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
47323978 GTTGGCATTG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 27 0.51
43 26 0.49
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTAGCATCGTTATATGAATACA
Found at i:47323974 original size:43 final size:41
Alignment explanation
Indices: 47323873--47323977 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 41
47323863 AAAATTTACG
* * * * *
47323873 TGTAAGACCATGTCTGGGACATTTGCATCGTATATGATTTCA
1 TGTAAGA-CACGTCTGGGACAGTAGCATCGTATATGAATACA
* *
47323915 TGTAAGACCCTGTCTGGGACAGTAGCATCGTTATTTGAATACA
1 TGTAAGACAC-GTCTGGGACAGTAGCATCG-TATATGAATACA
47323958 TGTAAGACTACGTCTGGGAC
1 TGTAAGAC-ACGTCTGGGAC
47323978 GTTGGCATTG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.02
42 24 0.46
43 26 0.50
44 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (41 bp):
TGTAAGACACGTCTGGGACAGTAGCATCGTATATGAATACA
Found at i:47330877 original size:17 final size:18
Alignment explanation
Indices: 47330846--47330898 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 18
47330836 TGAGTAAATC
* *
47330846 ATTTAGTTTTCTTTATTT
1 ATTTAGTTTTATTTAGTT
47330864 ATTTA-TTTTATTTAGTT
1 ATTTAGTTTTATTTAGTT
*
47330881 -TTTATTTTTATTTAGTT
1 ATTTAGTTTTATTTAGTT
47330898 A
1 A
47330899 AAATTTGACG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 4 0.13
17 22 0.71
18 5 0.16
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.72
Consensus pattern (18 bp):
ATTTAGTTTTATTTAGTT
Found at i:47332342 original size:22 final size:22
Alignment explanation
Indices: 47332299--47332357 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
47332289 GGGTAGGAAA
*
47332299 CTGCATCTGGT-TCTAATCTGTT
1 CTGCATCT-GTATCTGATCTGTT
*
47332321 CTGCATCTGTATCTGATTTGTT
1 CTGCATCTGTATCTGATCTGTT
*
47332343 ATGCATCT-TATCTGA
1 CTGCATCTGTATCTGA
47332358 ACCATTACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 9 0.27
22 24 0.73
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (22 bp):
CTGCATCTGTATCTGATCTGTT
Found at i:47337464 original size:15 final size:15
Alignment explanation
Indices: 47337444--47337475 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
47337434 GCTTGCTATA
47337444 TTGTTCTTTTTTATG
1 TTGTTCTTTTTTATG
47337459 TTGTTCTTTTTTATG
1 TTGTTCTTTTTTATG
47337474 TT
1 TT
47337476 CATGCACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.06, G:0.12, T:0.75
Consensus pattern (15 bp):
TTGTTCTTTTTTATG
Found at i:47339043 original size:44 final size:44
Alignment explanation
Indices: 47338980--47339072 Score: 177
Period size: 44 Copynumber: 2.1 Consensus size: 44
47338970 TCTCGACTTT
47338980 CATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAAC
1 CATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAAC
*
47339024 CATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAAT
1 CATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAAC
47339068 CATTT
1 CATTT
47339073 ATTGAATATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (44 bp):
CATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAAC
Found at i:47339076 original size:21 final size:22
Alignment explanation
Indices: 47339051--47339094 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
47339041 CAAATATAAG
*
47339051 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
47339072 TATTGAATATAACCAAATCATT
1 TATTGAATATAACCAAATCATT
47339094 T
1 T
47339095 TCATATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:47339857 original size:11 final size:12
Alignment explanation
Indices: 47339826--47339858 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
47339816 CCATTGATTC
47339826 ATTTAAATCAAAT
1 ATTTAAAT-AAAT
47339839 ATTTAAATAAAT
1 ATTTAAATAAAT
47339851 A-TTAAATA
1 ATTTAAATA
47339859 TAGCGAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.35
12 5 0.25
13 8 0.40
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTTAAATAAAT
Found at i:47345233 original size:19 final size:18
Alignment explanation
Indices: 47345198--47345233 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
47345188 GAAAAGTTCT
*
47345198 AAAAAAATAAAATAAAAC
1 AAAAAAATAAAAAAAAAC
47345216 AAAACAAATAAAAAAAAA
1 AAAA-AAATAAAAAAAAA
47345234 GAGATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.08
Consensus pattern (18 bp):
AAAAAAATAAAAAAAAAC
Found at i:47350051 original size:40 final size:40
Alignment explanation
Indices: 47350006--47350237 Score: 297
Period size: 40 Copynumber: 5.8 Consensus size: 40
47349996 ATAACCACAA
* * *
47350006 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
47350046 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * *
47350086 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
47350126 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
47350166 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
47350206 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
47350238 CACTCAAATG
Statistics
Matches: 168, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 4 0.02
40 157 0.93
41 7 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:47350219 original size:120 final size:120
Alignment explanation
Indices: 47350006--47350233 Score: 384
Period size: 120 Copynumber: 1.9 Consensus size: 120
47349996 ATAACCACAA
* *
47350006 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
47350071 CGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
66 CGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAACCCGGGTATAGCAACTC
* *
47350126 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
47350191 CGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
66 CGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAACCCGG
47350234 ATATCACTCA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAACCCGGGTATAGCAACTC
Found at i:47350237 original size:80 final size:79
Alignment explanation
Indices: 47349986--47350237 Score: 346
Period size: 80 Copynumber: 3.2 Consensus size: 79
47349976 TCTTCGGAAT
* *
47349986 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAT-ATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
47350050 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
*
47350065 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGAT-ATATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
47350130 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * * * * * *
47350145 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCA
1 TTAGCCCGGATATATC-ACTAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCA
* *
47350209 TAAATGCCTTCGGGAC
64 CAAATGCCTTCGGGTC
47350225 TTAGCCCGGATAT
1 TTAGCCCGGATAT
47350238 CACTCAAATG
Statistics
Matches: 156, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
79 8 0.05
80 144 0.92
81 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:47357162 original size:5 final size:5
Alignment explanation
Indices: 47357152--47357193 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
47357142 TTGCTCTCTG
* *
47357152 TTTCT TTTCT TTTCT TTTCT TTTAT TTT-T ATTTCT TTACT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT -TTTCT TTTCT TT
47357194 CTATTATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.03
5 31 0.94
6 1 0.03
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:47357172 original size:15 final size:15
Alignment explanation
Indices: 47357152--47357198 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
47357142 TTGCTCTCTG
47357152 TTTCTTTTCTTTTCT-
1 TTTCTTTTCTTTT-TA
*
47357167 TTTCTTTTATTTTTA
1 TTTCTTTTCTTTTTA
* *
47357182 TTTCTTTACTTTCTA
1 TTTCTTTTCTTTTTA
47357197 TT
1 TT
47357199 ATAATAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 1 0.04
15 26 0.96
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTCTTTTCTTTTTA
Found at i:47357230 original size:19 final size:19
Alignment explanation
Indices: 47357195--47357249 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
47357185 CTTTACTTTC
* *
47357195 TATT-ATAATAATATAATT
1 TATTAATAATCATTTAATT
47357213 TATTAATAATCATTTAATT
1 TATTAATAATCATTTAATT
* * *
47357232 AATAAAT-ATCTTTTAATT
1 TATTAATAATCATTTAATT
47357250 ATAACATAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATAATCATTTAATT
Found at i:47363532 original size:22 final size:22
Alignment explanation
Indices: 47363486--47363557 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
47363476 AGAGCATCGT
* * *
47363486 AGTGCTAAATAGATAGCACAAA
1 AGTGCTGAATAGAGAGCACAGA
* * * *
47363508 AGTGTTGATTAGAGAGTACTGA
1 AGTGCTGAATAGAGAGCACAGA
*
47363530 AGTACTGAATAGAGAGCACAGA
1 AGTGCTGAATAGAGAGCACAGA
47363552 AGTGCT
1 AGTGCT
47363558 AAACCCCTAC
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.22
Consensus pattern (22 bp):
AGTGCTGAATAGAGAGCACAGA
Found at i:47364506 original size:29 final size:29
Alignment explanation
Indices: 47364473--47364529 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
47364463 CAAAAAATCA
*
47364473 TTAACCAACCT-TTGACCGAATTAGATCGG
1 TTAACCAA-CTATTAACCGAATTAGATCGG
*
47364502 TTAACCGACTGATTAACCGAATTAGATC
1 TTAACCAACT-ATTAACCGAATTAGATC
47364530 AGTTTAGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 7 0.29
30 15 0.62
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (29 bp):
TTAACCAACTATTAACCGAATTAGATCGG
Found at i:47367811 original size:17 final size:17
Alignment explanation
Indices: 47367780--47367820 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
47367770 CTTTTTTTTC
47367780 TTTATTT-TGATTTATA
1 TTTATTTATGATTTATA
*
47367796 TTTATTTATTATTTATA
1 TTTATTTATGATTTATA
47367813 TTT-TTTAT
1 TTTATTTAT
47367821 ACTTTAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTATTTATGATTTATA
Found at i:47368840 original size:22 final size:22
Alignment explanation
Indices: 47368822--47368896 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 22
47368812 ATTAATATCC
47368822 AAAT-AAGTAATAAATAATAAA
1 AAATAAAGTAATAAATAATAAA
47368843 AAATAAAGTAATAAATAAAGTAAAGA
1 AAATAAAGTAATAAAT-AA-T-AA-A
*
47368869 AAATAAAATAAATAAATAAATAATA
1 AAATAAAGT-AATAAAT-AATAA-A
47368894 AAA
1 AAA
47368897 ATTGGCGTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.09
22 11 0.24
23 2 0.04
24 1 0.02
25 8 0.17
26 10 0.22
27 10 0.22
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.21
Consensus pattern (22 bp):
AAATAAAGTAATAAATAATAAA
Found at i:47368861 original size:4 final size:4
Alignment explanation
Indices: 47368830--47368895 Score: 59
Period size: 4 Copynumber: 16.5 Consensus size: 4
47368820 CCAAATAAGT
*
47368830 AATA AAT- AATA AA-A AATA AAGT- AATA AATA AAGTA AAGAA AATAA
1 AATA AATA AATA AATA AATA AA-TA AATA AATA AA-TA AA-TA AAT-A
47368875 AATA AATA AATA AAT- AATA AA
1 AATA AATA AATA AATA AATA AA
47368896 AATTGGCGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
3 10 0.19
4 30 0.57
5 13 0.25
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:47368897 original size:26 final size:26
Alignment explanation
Indices: 47368822--47368898 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
47368812 ATTAATATCC
*
47368822 AAATAAGT-AATAAATAATAAAAAATA
1 AAATAAATAAATAAATAAT-AAAAATA
*
47368848 AAGT-AATAAATAAAGTAA-AGAAAATA
1 AAATAAATAAATAAA-TAATA-AAAATA
47368874 AAATAAATAAATAAATAATAAAAAT
1 AAATAAATAAATAAATAATAAAAAT
47368899 TGGCGTACCT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
25 3 0.07
26 26 0.60
27 14 0.33
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (26 bp):
AAATAAATAAATAAATAATAAAAATA
Found at i:47375365 original size:15 final size:14
Alignment explanation
Indices: 47375344--47375379 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
47375334 ATAATCCTTA
*
47375344 ATAATTATCTTAAT
1 ATAATTATCCTAAT
47375358 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
47375373 ATAATTA
1 ATAATTA
47375380 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:47407776 original size:22 final size:22
Alignment explanation
Indices: 47407751--47407797 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
47407741 ATATGGTACG
47407751 TGTCTTAGCTCAACACCTCACA
1 TGTCTTAGCTCAACACCTCACA
*
47407773 TGTCTTAGTTCAACACCTCACA
1 TGTCTTAGCTCAACACCTCACA
47407795 TGT
1 TGT
47407798 TAGGTAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.32
Consensus pattern (22 bp):
TGTCTTAGCTCAACACCTCACA
Found at i:47414576 original size:13 final size:13
Alignment explanation
Indices: 47414560--47414622 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
47414550 TTTAAACTAA
47414560 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
47414573 ACTTCTC-AAAGC
1 ACTTTTCAAAAGC
*
47414585 ACTTTTCTACAA-C
1 ACTTTTC-AAAAGC
* *
47414598 ATTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
47414611 ATTTTTCAAAAG
1 ACTTTTCAAAAG
47414623 TAATGAAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
12 14 0.34
13 25 0.61
14 2 0.05
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.37
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:47415228 original size:24 final size:23
Alignment explanation
Indices: 47415197--47415245 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
47415187 TCTTTGAAGG
*
47415197 TATTTATATAATG-AAATAAATAA
1 TATTTATAT-ATGTAAATAAAAAA
47415220 TATTGTATATATGTAAATAAAAAA
1 TATT-TATATATGTAAATAAAAAA
47415244 TA
1 TA
47415246 AAAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (23 bp):
TATTTATATATGTAAATAAAAAA
Found at i:47415581 original size:27 final size:27
Alignment explanation
Indices: 47415532--47415584 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
47415522 GAAAGATTAT
*
47415532 AAAAAAAATTTAAAATATATAAAAATA
1 AAAAAAAATTTAAAATACATAAAAATA
*
47415559 AAAAAAAATTATAAAA-ACCTAAAAAT
1 AAAAAAAATT-TAAAATACATAAAAAT
47415585 CTAAATGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (27 bp):
AAAAAAAATTTAAAATACATAAAAATA
Found at i:47416342 original size:15 final size:15
Alignment explanation
Indices: 47416322--47416352 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47416312 ATTTTGATTA
*
47416322 TTATTTTAAAATAAT
1 TTATTTTAAAAAAAT
47416337 TTATTTTAAAAAAAT
1 TTATTTTAAAAAAAT
47416352 T
1 T
47416353 ACTTAGATAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATTTTAAAAAAAT
Found at i:47416600 original size:2 final size:2
Alignment explanation
Indices: 47416593--47416628 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
47416583 CTCTATATTA
47416593 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47416629 GAGCCTTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47416701 original size:14 final size:16
Alignment explanation
Indices: 47416678--47416720 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
47416668 TTAAAAAATA
*
47416678 AACTGCTAAATTTT-T
1 AACTGTTAAATTTTAT
47416693 -ACTGTTAAATTTTAT
1 AACTGTTAAATTTTAT
*
47416708 AAGTGTTAAATTT
1 AACTGTTAAATTT
47416721 ATATTAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.50
15 1 0.04
16 11 0.46
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (16 bp):
AACTGTTAAATTTTAT
Found at i:47418492 original size:9 final size:9
Alignment explanation
Indices: 47418478--47418577 Score: 103
Period size: 9 Copynumber: 11.1 Consensus size: 9
47418468 CCTGGCATTA
47418478 GTGGGATTT
1 GTGGGATTT
*
47418487 GTGGGACTT
1 GTGGGATTT
*
47418496 GTGGGATCT
1 GTGGGATTT
*
47418505 GTGGGATTA
1 GTGGGATTT
*
47418514 GTGGAATTT
1 GTGGGATTT
47418523 GTGGGATTT
1 GTGGGATTT
*
47418532 GTGGGATCT
1 GTGGGATTT
*
47418541 GTGGGATCT
1 GTGGGATTT
*
47418550 GTGGAATTCT
1 GTGGGATT-T
47418560 -TGGGATTT
1 GTGGGATTT
* *
47418568 CTGGAATTT
1 GTGGGATTT
47418577 G
1 G
47418578 AGGAAATGGT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
8 1 0.01
9 73 0.97
10 1 0.01
ACGTcount: A:0.15, C:0.06, G:0.40, T:0.39
Consensus pattern (9 bp):
GTGGGATTT
Found at i:47418564 original size:36 final size:36
Alignment explanation
Indices: 47418474--47418567 Score: 138
Period size: 36 Copynumber: 2.6 Consensus size: 36
47418464 CTGTCCTGGC
* *
47418474 ATTAGTGGGATTTGTGGGACTTGTGGGATCTGTGGG
1 ATTAGTGGAATTTGTGGGATTTGTGGGATCTGTGGG
47418510 ATTAGTGGAATTTGTGGGATTTGTGGGATCTGTGGG
1 ATTAGTGGAATTTGTGGGATTTGTGGGATCTGTGGG
47418546 ATCT-GTGGAATTCT-TGGGATTT
1 AT-TAGTGGAATT-TGTGGGATTT
47418568 CTGGAATTTG
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
36 52 0.96
37 2 0.04
ACGTcount: A:0.16, C:0.05, G:0.39, T:0.39
Consensus pattern (36 bp):
ATTAGTGGAATTTGTGGGATTTGTGGGATCTGTGGG
Found at i:47420916 original size:16 final size:14
Alignment explanation
Indices: 47420897--47420944 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
47420887 AAGAAAATTG
47420897 TTATTTATTATCATTA
1 TTATTTATT-T-ATTA
47420913 TTA-TTATTTATTA
1 TTATTTATTTATTA
47420926 TT-TTTATTT-TTA
1 TTATTTATTTATTA
47420938 TT-TTTAT
1 TTATTTAT
47420945 ATTCATGCGC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 10 0.32
13 12 0.39
14 1 0.03
15 5 0.16
16 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATTTATTTATTA
Found at i:47420921 original size:19 final size:19
Alignment explanation
Indices: 47420897--47420944 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
47420887 AAGAAAATTG
47420897 TTATTTATTATCATTATTA
1 TTATTTATTATCATTATTA
** *
47420916 TTATTTATTATTTTTATTT
1 TTATTTATTATCATTATTA
47420935 TTATTT-TTAT
1 TTATTTATTAT
47420945 ATTCATGCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTATTATCATTATTA
Done.