Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 24 of 168
Found at i:6215257 original size:217 final size:217
Alignment explanation
Indices: 6214873--6215657 Score: 1232
Period size: 217 Copynumber: 3.6 Consensus size: 217
6214863 GTATAAGGCT
* *
6214873 TTGCTTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGC
1 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGC
* * * * *
6214938 AACTTCAGAGAGATAGGATCTAAGGTTTTAATCCGCTCTACTGCAACCTTAGAGAGATAGGATTA
66 AACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTA
* * * *
6215003 TCGGCTTTAATCTGCTCCACTGCCACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCAC
131 TCGGATTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTTAGTCTGCCTAAC
6215068 TGCAACTTCAAGAGGATAAGAC
196 TGCAACTTCAAGAGGATAAGAC
*
6215090 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTAC
1 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGC
*
6215155 AACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTA
66 AACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTA
* * *
6215220 TCGGTTTTAATCTGCTCTACTGCAACTTCAAGGAGATAAGATTTGCCATCTTTAGTCTGCCTAAT
131 TCGGATTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTTAGTCTGCCTAAC
6215285 TGCAACTTCAAGAGGATAAGAC
196 TGCAACTTCAAGAGGATAAGAC
* * *
6215307 TTGCTTACTTTGTCTGCTCCACTGCAACTTCCGGGAGATAAGACTAGATGCAATCTGCTCTCTGC
1 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGC
* * *
6215372 AACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTTAAGGAGATAGGATTA
66 AACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTA
* * * *
6215437 TCGGATTTAATCTGCTCCAATGCAACTTC-AGGAAGATAAGACTTGCCATCTTCAGTCTGCCTTA
131 TCGGATTTAATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTGCCATCTTTAGTCTGCCTAA
*
6215501 CTGCAACTTCAGGAGGATAAGAC
195 CTGCAACTTCAAGAGGATAAGAC
* * *
6215524 TTGCTTACTTAGTTTGCTCCACTACAACTTTC-GGGAGATAAGACTAGATGCGATCTACTCTCTG
1 TTGCTTACTTAGTCTGCTCCACTGCAAC-TTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTG
* * *
6215588 CAACTTCAGAGAGATAAGATTCCAAGGTTTTAATTCGCTCCATTGCAACTTCAGGGAGATAGGAT
65 CAACTTCAGAGAGATAAGA-TCCAAGGTTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGAT
6215653 TATCG
129 TATCG
6215658 ACTACCGATC
Statistics
Matches: 527, Mismatches: 38, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
216 3 0.01
217 475 0.90
218 49 0.09
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGC
AACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTA
TCGGATTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTTAGTCTGCCTAAC
TGCAACTTCAAGAGGATAAGAC
Found at i:6215337 original size:44 final size:44
Alignment explanation
Indices: 6214873--6215568 Score: 244
Period size: 44 Copynumber: 16.0 Consensus size: 44
6214863 GTATAAGGCT
* *
6214873 TTGCTTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGAC
1 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGAC
* * * * * * *
6214917 TAG-ATGC-GA-TATGCT-CTCTGCAACTTCAGAGAGATAGGATC
1 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGA-C
* * * * * * *
6214958 TAAGGTT--TTAATCCGCTCTACTGCAACCTT-AGAGAGATAGGAT
1 T-TGCTTACTTAGTCTGCTCCACTGCAA-CTTCAGAGAGATAAGAC
* * * *
6215001 TATCGGC-T--TTAATCTGCTCCACTGCCACTTCAGGGAGATAAGAT
1 T-T--GCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGAC
*
6215045 TTGC-CATCTTTAGTCTGC-CTCACTGCAACTTCA-AGAGGATAAGAC
1 TTGCTTA-C-TTAGTCTGCTC-CACTGCAACTTCAGAGA-GATAAGAC
*
6215090 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
1 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGAC
* * * * * *
6215134 TAG-ATGC-GA-TCTGCT-CTCTACAACTTCAGAGAGATAAGATC
1 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGA-C
* * * * * * * *
6215175 TAAGGTT--TTAATCCGCTCCACTGCAACCTCAGGGAGATAGGAT
1 T-TGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGAC
* * * *
6215218 TATCGGTT--TTAATCTGCTCTACTGCAACTTCA-AGGAGATAAGAT
1 T-T-GCTTACTTAGTCTGCTCCACTGCAACTTCAGA-GAGATAAGAC
* * *
6215262 TTGC-CATCTTTAGTCTGC-CTAATTGCAACTTCA-AGAGGATAAGAC
1 TTGCTTA-C-TTAGTCTGCTC-CACTGCAACTTCAGAGA-GATAAGAC
* * *
6215307 TTGCTTACTTTGTCTGCTCCACTGCAACTTCCGGGAGATAAGAC
1 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGAC
* * * * *
6215351 TAG-ATGC--AATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCC
1 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGA--C
** * * * * *
6215393 AAGGTT--TTAATCCGCTCCACTGCAACTTTA-AGGAGATAGGA-
1 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGA-GAGATAAGAC
* ** * * *
6215434 TTATCGGATTTAATCTGCTCCAATGCAACTTCAG-GAAGATAAGAC
1 TT-GCTTACTTAGTCTGCTCCACTGCAACTTCAGAG-AGATAAGAC
* *
6215479 TTGC-CATCTTCAGTCTGC-CTTACTGCAACTTCAG-GAGGATAAGAC
1 TTGCTTA-CTT-AGTCTGCTC-CACTGCAACTTCAGAGA-GATAAGAC
* * *
6215524 TTGCTTACTTAGTTTGCTCCACTACAACTTTC-GGGAGATAAGAC
1 TTGCTTACTTAGTCTGCTCCACTGCAAC-TTCAGAGAGATAAGAC
6215568 T
1 T
6215569 AGATGCGATC
Statistics
Matches: 497, Mismatches: 98, Indels: 114
0.70 0.14 0.16
Matches are distributed among these distances:
40 62 0.12
41 23 0.05
42 12 0.02
43 37 0.07
44 244 0.49
45 116 0.23
46 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGAC
Found at i:6227837 original size:2 final size:2
Alignment explanation
Indices: 6227825--6227857 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6227815 TCGAAAATAA
*
6227825 AT AT CT 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 A
6227858 AGAAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6234658 original size:16 final size:16
Alignment explanation
Indices: 6234616--6234663 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
6234606 TTCCGGAGCG
* *
6234616 ACAACTATTGTTTAGA
1 ACAACTATTGTTCAAA
* * *
6234632 ATAATTGTTGTTCAAA
1 ACAACTATTGTTCAAA
6234648 ACAACTATTGTTCAAA
1 ACAACTATTGTTCAAA
6234664 GAATAATTAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (16 bp):
ACAACTATTGTTCAAA
Found at i:6241043 original size:31 final size:30
Alignment explanation
Indices: 6241008--6241079 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
6240998 AACAACTTAA
* * *
6241008 TGACTAAAATGTTACAATATGATAACGTAAG
1 TGACTAAAATGTTAAAATATCA-AACATAAG
* *
6241039 TGACTAAAACG-TAAAATTTCAAACATAAG
1 TGACTAAAATGTTAAAATATCAAACATAAG
6241068 TGACTAAAATGT
1 TGACTAAAATGT
6241080 AACCTGATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 17 0.50
30 7 0.21
31 10 0.29
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (30 bp):
TGACTAAAATGTTAAAATATCAAACATAAG
Found at i:6242802 original size:35 final size:35
Alignment explanation
Indices: 6242736--6242804 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 35
6242726 GCCAAATGTG
6242736 ACCTTAAAAAGGTTGGGATAGACAGATTCTAAGGCA
1 ACCTTAAAAAGGTTGGGATAGACAGA-TCTAAGGCA
*
6242772 ACCTTAAAAGGGTTGGGATAGACATG-TCTAAGG
1 ACCTTAAAAAGGTTGGGATAGACA-GATCTAAGG
6242805 TAATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 7 0.23
36 23 0.74
37 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (35 bp):
ACCTTAAAAAGGTTGGGATAGACAGATCTAAGGCA
Found at i:6243306 original size:22 final size:22
Alignment explanation
Indices: 6243252--6243294 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
6243242 TTTATTGTTC
6243252 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
6243274 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
6243295 TAGCCATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:6245785 original size:13 final size:13
Alignment explanation
Indices: 6245767--6245791 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6245757 CATAAATTGT
6245767 CAAATATACCATA
1 CAAATATACCATA
6245780 CAAATATACCAT
1 CAAATATACCAT
6245792 CACTCCAATT
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:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (13 bp):
CAAATATACCATA
Found at i:6250861 original size:40 final size:40
Alignment explanation
Indices: 6250789--6250864 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
6250779 ACTGTTCATG
* *
6250789 CCACGTCAGCAAATCGCGTCCTAGGGGGCGCGATTTGTGT
1 CCACGTCAGCAAATAGCGTCCTAGGGGACGCGATTTGTGT
* *
6250829 CCACGTCAGCAAATAGCG-CTTACGTGGACGCGATTT
1 CCACGTCAGCAAATAGCGTCCTA-GGGGACGCGATTT
6250865 CCTGGCGCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.10
40 28 0.90
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.22
Consensus pattern (40 bp):
CCACGTCAGCAAATAGCGTCCTAGGGGACGCGATTTGTGT
Found at i:6251221 original size:21 final size:21
Alignment explanation
Indices: 6251192--6251235 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6251182 ACGAAAAGAA
6251192 TTATCATTTA-TTTAATCTCAT
1 TTATCATTTATTTTAATC-CAT
*
6251213 TTATTATTTATTTTAATCCAT
1 TTATCATTTATTTTAATCCAT
6251234 TT
1 TT
6251236 CTAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATCATTTATTTTAATCCAT
Found at i:6256627 original size:28 final size:28
Alignment explanation
Indices: 6256585--6256642 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
6256575 CCGATTTGCT
*
6256585 CCCTCCGTTTCTTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTTTTCTTTTCTG
*
6256613 CCCTCTGTTTATTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTTTTCTTTTCTG
6256641 CC
1 CC
6256643 GATTTGCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.02, C:0.31, G:0.07, T:0.60
Consensus pattern (28 bp):
CCCTCCGTTTATTTTCTTTTCTTTTCTG
Found at i:6256655 original size:38 final size:38
Alignment explanation
Indices: 6256613--6256725 Score: 190
Period size: 38 Copynumber: 3.0 Consensus size: 38
6256603 TTCTTTTCTG
*
6256613 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
1 CCCTCTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGCT
*
6256651 CCCTCCGTTTCTTTTCTTTTCTTTTCTGCCGATTTGCT
1 CCCTCTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGCT
* *
6256689 CCCTTTGTTTCTTTTCTTTTCTTTTCTGTCGATTTGC
1 CCCTCTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGC
6256726 CAGTTTCTGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 70 1.00
ACGTcount: A:0.04, C:0.27, G:0.11, T:0.58
Consensus pattern (38 bp):
CCCTCTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGCT
Found at i:6256700 original size:66 final size:66
Alignment explanation
Indices: 6256571--6256705 Score: 191
Period size: 66 Copynumber: 2.0 Consensus size: 66
6256561 CCTTCTAGCC
* * * * *
6256571 TCTGCCGATTTGCTCCCTCCGTTTCTTTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTT
1 TCTGCCGATTTGCTCCCTCCGTTTCTTTTCTTTTCTTTTCTGCCATCTGCTCACTTTCGTTTCTT
6256636 T
66 T
* *
6256637 TCTGCCGATTTGCTCCCTCCGTTTCTTTTCTTTTCTTTTCTGCCGATTTGCTCCCTTT-GTTTCT
1 TCTGCCGATTTGCTCCCTCCGTTTCTTTTCTTTTCTTTTCTGCC-ATCTGCTCACTTTCGTTTCT
6256701 TT
65 TT
6256703 TCT
1 TCT
6256706 TTTCTTTTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 54 0.89
67 7 0.11
ACGTcount: A:0.03, C:0.30, G:0.10, T:0.57
Consensus pattern (66 bp):
TCTGCCGATTTGCTCCCTCCGTTTCTTTTCTTTTCTTTTCTGCCATCTGCTCACTTTCGTTTCTT
T
Found at i:6261595 original size:44 final size:45
Alignment explanation
Indices: 6261547--6261671 Score: 107
Period size: 44 Copynumber: 2.8 Consensus size: 45
6261537 TTGATTTGAG
*
6261547 TAATTTTATGAAATTATATATCATTATTAAATTAAATTTAATAT-
1 TAATTTTATGAAATTATATATAATTATTAAATTAAATTTAATATC
* * *
6261591 TAATTATT-TTAAATTGTATA-AATTCATATAAGA--AAATTTATTATC
1 TAATT-TTATGAAATTATATATAATT-AT-TAA-ATTAAATTTAATATC
* *
6261636 AAGGATTTTATGAAATTATATATTATTATTAAATTA
1 TA--ATTTTATGAAATTATATATAATTATTAAATTA
6261672 TACAAATTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
43 3 0.05
44 27 0.44
45 7 0.11
46 6 0.10
47 16 0.26
48 3 0.05
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (45 bp):
TAATTTTATGAAATTATATATAATTATTAAATTAAATTTAATATC
Found at i:6261822 original size:66 final size:64
Alignment explanation
Indices: 6261752--6261974 Score: 181
Period size: 66 Copynumber: 3.6 Consensus size: 64
6261742 AAATATATTT
6261752 AATATTAATTATTTAAAATTATCTTTTATAATATAATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTTAAAATTAT-TTTTATAATAT-ATATATTATGATTTGAGTAAATTCATATAA
6261817 G
64 G
* * * **
6261818 AATATTAATTA-TTAAGAATT-TTATTA-AAT-TATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTAA-AATTATTTTTATAATATATATATTATGATTTGAGTAAATTCATATAAG
* * *
6261872 AATAATAATTATGTT-AATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAAATTAT-TTTTATAATAT-ATATATTATGATTTGAGTAAATTCATATA
6261936 AG
63 AG
* *
6261938 AATATTGATTA-TTAAGAATT-TTATTA-AAT-TATATATT
1 AATATTAATTATTTAA-AATTATTTTTATAATATATATATT
6261975 TTAATTATAA
Statistics
Matches: 122, Mismatches: 18, Indels: 39
0.68 0.10 0.22
Matches are distributed among these distances:
54 13 0.11
55 6 0.05
56 7 0.06
57 4 0.03
58 2 0.02
59 8 0.07
60 8 0.07
61 15 0.12
62 3 0.02
63 7 0.06
64 11 0.09
65 11 0.09
66 27 0.22
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAAATTATTTTTATAATATATATATTATGATTTGAGTAAATTCATATAAG
Found at i:6261838 original size:120 final size:120
Alignment explanation
Indices: 6261714--6262011 Score: 481
Period size: 120 Copynumber: 2.5 Consensus size: 120
6261704 AATTATTTTA
* * * * *
6261714 AATTTTATTAAATCAGATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
6261778 TATAATATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAATATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
6261834 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* * *
6261899 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAATATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
6261954 AATTTTATTAAATTATATATTTTAATTATAATTTATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
6262012 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
120 158 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAATATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:6261874 original size:15 final size:15
Alignment explanation
Indices: 6261839--6261890 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
6261829 TTAAGAATTT
*
6261839 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6261853 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6261867 TATTTAATAATAAT-
1 TATTTAATTATAATA
6261881 TATGTTAATT
1 TAT-TTAATT
6261891 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6261972 original size:61 final size:61
Alignment explanation
Indices: 6261787--6261974 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
6261777 TTATAATATA
*
6261787 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
6261848 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
6261907 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
6261968 ATATATT
1 ATATATT
6261975 TTAATTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 25 0.26
61 36 0.38
62 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:6262180 original size:39 final size:40
Alignment explanation
Indices: 6262137--6262241 Score: 115
Period size: 44 Copynumber: 2.5 Consensus size: 40
6262127 TTCCATTATG
6262137 CTATTACACCTCTATTCCATTCAACCAAACACA-AGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACA-ATAGATTTA
* * *
6262176 CTATTACGCCTCTATTCCATTACATTCAACCAAACAATTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACAATAGATTTA
6262221 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
6262242 ACGCCTCTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
39 15 0.27
40 5 0.09
43 1 0.02
44 17 0.31
45 17 0.31
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACAATAGATTTA
Found at i:6262235 original size:45 final size:44
Alignment explanation
Indices: 6262135--6262243 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
6262125 TTTTCCATTA
6262135 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * *
6262174 TACTATTACGCCTCTATTCCATTACATTCAACCAAACA-ATTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACA-AGA-T
6262219 TGCTATTACACCTCTATTCCATTAC
1 TGCTATTACACCTCTATTCCATTAC
6262244 GCCTCTATTC
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
43 1 0.02
44 16 0.28
45 24 0.41
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:6262248 original size:16 final size:16
Alignment explanation
Indices: 6262223--6262271 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
6262213 TTGATTTGCT
*
6262223 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
6262239 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
6262255 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
6262271 A
1 A
6262272 ATACAGCGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.22, C:0.37, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:6262502 original size:6 final size:6
Alignment explanation
Indices: 6262491--6262524 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6262481 AAAAGGCAAG
* *
6262491 GGTGAT GGTGAT GGTGAT GGTAAT GGTGAG GGTG
1 GGTGAT GGTGAT GGTGAT GGTGAT GGTGAT GGTG
6262525 GAGTTTGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.53, T:0.29
Consensus pattern (6 bp):
GGTGAT
Found at i:6263517 original size:34 final size:34
Alignment explanation
Indices: 6263479--6263550 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
6263469 CTTAATCCCT
*
6263479 ATCAATTTCGAAATTCAGCGATTAATGAAAATTA
1 ATCAATTTCGAAAGTCAGCGATTAATGAAAATTA
* *
6263513 ATCAATTTCGAAAGTGAGCGATTAATGACAATTA
1 ATCAATTTCGAAAGTCAGCGATTAATGAAAATTA
6263547 ATCA
1 ATCA
6263551 TAGCATTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (34 bp):
ATCAATTTCGAAAGTCAGCGATTAATGAAAATTA
Found at i:6265144 original size:2 final size:2
Alignment explanation
Indices: 6265133--6265162 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6265123 CATGCATTCT
6265133 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6265163 GCATATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6265210 original size:12 final size:10
Alignment explanation
Indices: 6265182--6265209 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
6265172 AACTTTTAAA
6265182 ATATATATGC
1 ATATATATGC
6265192 ATATATATGC
1 ATATATATGC
6265202 ATATATAT
1 ATATATAT
6265210 AAAGCCATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (10 bp):
ATATATATGC
Found at i:6270763 original size:29 final size:29
Alignment explanation
Indices: 6270688--6270763 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
6270678 TCCTTGTACT
*
6270688 CTTTATAAATTT-AAAATTTAATCTCTATA
1 CTTT-TAAATTTCAAAATTTAATCTATATA
* *
6270717 CTTTT-ATTTTCAAGAATTTAGTCTAT-TA
1 CTTTTAAATTTCAA-AATTTAATCTATATA
6270745 CTTTTCAAATTTCAAAATT
1 CTTTT-AAATTTCAAAATT
6270764 CATATTCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
27 4 0.10
28 10 0.26
29 18 0.46
30 7 0.18
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.50
Consensus pattern (29 bp):
CTTTTAAATTTCAAAATTTAATCTATATA
Found at i:6273958 original size:9 final size:9
Alignment explanation
Indices: 6273944--6273974 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6273934 TTTGGTTAAA
6273944 AATTACCCG
1 AATTACCCG
6273953 AATTACCCG
1 AATTACCCG
*
6273962 AATTAACCG
1 AATTACCCG
6273971 AATT
1 AATT
6273975 GAATCACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTACCCG
Found at i:6297839 original size:6 final size:6
Alignment explanation
Indices: 6297828--6297859 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
6297818 AAAGCCTTTG
6297828 AATAAA AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA
6297860 AATGATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:6305498 original size:29 final size:30
Alignment explanation
Indices: 6305448--6305505 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
6305438 AAATTTTGTT
*
6305448 AAATAAATCTCAATATTTTTA-TTGTATTG
1 AAATAAATCTCAATATTGTTATTTGTATTG
*
6305477 AAATAAATCTCGAGT-TTGTTATTTGTATT
1 AAATAAATCTC-AATATTGTTATTTGTATT
6305506 TTTTTTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (30 bp):
AAATAAATCTCAATATTGTTATTTGTATTG
Found at i:6306473 original size:16 final size:17
Alignment explanation
Indices: 6306452--6306490 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
6306442 TCTAATACTT
6306452 TTTTTA-TTTTCTTAAA
1 TTTTTATTTTTCTTAAA
*
6306468 TTTTTATTTTTTTTAAA
1 TTTTTATTTTTCTTAAA
6306485 TTTTTA
1 TTTTTA
6306491 CAATCTTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTATTTTTCTTAAA
Found at i:6307259 original size:34 final size:34
Alignment explanation
Indices: 6307215--6307305 Score: 130
Period size: 34 Copynumber: 2.7 Consensus size: 34
6307205 TGTTTTTTTA
* *
6307215 AAAATTAATTAAATTAGGTTTTAGGGGTTTTAA-
1 AAAATTAATTAAATTAGGGTTTAGAGGTTTTAAG
* *
6307248 ATAAATAAATTAAATTAGGGTTTAGAGTTTTTAAG
1 A-AAATTAATTAAATTAGGGTTTAGAGGTTTTAAG
6307283 AAAATTAATTAAATTAGGGTTTA
1 AAAATTAATTAAATTAGGGTTTA
6307306 TTTTTTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
33 1 0.02
34 49 0.96
35 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (34 bp):
AAAATTAATTAAATTAGGGTTTAGAGGTTTTAAG
Found at i:6307507 original size:127 final size:127
Alignment explanation
Indices: 6307371--6307897 Score: 736
Period size: 127 Copynumber: 4.2 Consensus size: 127
6307361 ACAATAAGGA
* * *
6307371 TTTTTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAGTATAA
1 TTTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAGTGTCA
** * * * *
6307436 AAAATGCTTCAAGTAGGATGCATTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGC
66 AAAACACTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGC
* *
6307498 TTTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACAGTTTTGAACAAATAGTGTCA
1 TTTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAGTGTCA
* * * * *
6307563 AAAACGCTTCAAGCAGGATGCACTGTTAACAAAATTGATG-AAAAAGCTCCTAGGTGGATGC
66 AAAACACTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGC
* * * * * * *
6307624 -TCTTTTTCTACAGTAGTTCTTGAAAAAATGATTTTGAGAAGATGGTTCTGAATAAATAATGTCA
1 TTTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAGTGTCA
* *
6307688 AAAACACTTCAAGCAGGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCATGTGGACGC
66 AAAACACTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGC
* * * *
6307750 TTTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATCCTGAACAAAAAGTGTCA
1 TTTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAGTGTCA
* * *
6307815 AAAATACTTCAAGCAGGATGCATTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGGCGC
66 AAAACACTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGC
*
6307877 -TCTTTTTCTACAGTAGTTCCT
1 TTTTTTTTCTACAGTAGTTCCT
6307898 ATTTGGCCTT
Statistics
Matches: 354, Mismatches: 44, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
125 92 0.26
126 55 0.16
127 207 0.58
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (127 bp):
TTTTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAGTGTCA
AAAACACTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGC
Found at i:6307827 original size:252 final size:253
Alignment explanation
Indices: 6307374--6307897 Score: 782
Period size: 252 Copynumber: 2.1 Consensus size: 253
6307364 ATAAGGATTT
* *
6307374 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAGTATAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAATATAAAAA
** * *
6307439 ATGCTTCAAGTAGGATGCATTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTTTTTT
66 ACACTTCAAGCAGGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTTTTTT
** * *
6307504 TTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACAGTTTTGAACAAATAGTGTCAAAAACG
131 TTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACAGTCCTGAACAAAAAGTGTCAAAAACA
* * * *
6307569 CTTCAAGCAGGATGCACTGTTAACAAAATTGATG-AAAAAGCTCCTAGGTGGATGCTC
196 CTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
* * * * * * *
6307626 TTTTTCTACAGTAGTTCTTGAAAAAATGATTTTGAGAAGATGGTTCTGAATAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAATATAAAAA
**
6307691 ACACTTCAAGCAGGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCATGTGGACGCTTTTTT
66 ACACTTCAAGCAGGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTTTTTT
* *
6307756 TTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAC-GATCCTGAACAAAAAGTGTCAAAAAT
131 TTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACAG-TCCTGAACAAAAAGTGTCAAAAAC
* *
6307820 ACTTCAAGCAGGATGCATTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGGCGCTC
195 ACTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
6307879 TTTTTCTACAGTAGTTCCT
1 TTTTTCTACAGTAGTTCCT
6307898 ATTTGGCCTT
Statistics
Matches: 242, Mismatches: 28, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
251 1 0.00
252 204 0.84
253 37 0.15
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (253 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTGAACAAATAATATAAAAA
ACACTTCAAGCAGGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTTTTTT
TTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACAGTCCTGAACAAAAAGTGTCAAAAACA
CTTCAAGCAGGATGCACTGTCAACAAAATTGATGAAAAAAGCTCCCACGTGGACGCTC
Found at i:6311518 original size:30 final size:30
Alignment explanation
Indices: 6311453--6311521 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
6311443 ATTCATTAAA
*
6311453 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGTTTTGAGAAATTTAAGGAGAAATTT
6311483 GAGAGTTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGTTTTGAGAAATTTAAGGAGAAATTT
6311513 GAGAGTTTT
1 GAGAGTTTT
6311522 TTGCCATGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.38, C:0.01, G:0.28, T:0.33
Consensus pattern (30 bp):
GAGAGTTTTGAGAAATTTAAGGAGAAATTT
Found at i:6312998 original size:20 final size:21
Alignment explanation
Indices: 6312962--6313001 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
6312952 TGGGTTAGTG
6312962 ATTTAACATAAATATAATTATT
1 ATTTAACAT-AATATAATTATT
6312984 ATTTAACAT-ATATAATTA
1 ATTTAACATAATATAATTA
6313002 ATATAGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTAACATAATATAATTATT
Found at i:6314052 original size:2 final size:2
Alignment explanation
Indices: 6314045--6314069 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6314035 CAGCGCTTAA
6314045 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
6314070 GTCTATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6323095 original size:21 final size:21
Alignment explanation
Indices: 6323071--6323128 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
6323061 TTTTTTTTAA
*
6323071 TTGATTCGAGTGTAAA-GAAAT
1 TTGAATCGAGTG-AAATGAAAT
*
6323092 TTGAATCGGGTGAAATGAAAT
1 TTGAATCGAGTGAAATGAAAT
** *
6323113 TCAAATCAAGTGAAAT
1 TTGAATCGAGTGAAAT
6323129 TGTTGGAGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (21 bp):
TTGAATCGAGTGAAATGAAAT
Found at i:6323376 original size:18 final size:19
Alignment explanation
Indices: 6323346--6323386 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
6323336 TTTTATTTTA
*
6323346 TTTATTTATTTTTAGAATT
1 TTTATTTATTTTTACAATT
6323365 TTTATTTA-TTTTACAATT
1 TTTATTTATTTTTACAATT
6323383 TTTA
1 TTTA
6323387 AAAATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTATTTATTTTTACAATT
Found at i:6323421 original size:20 final size:20
Alignment explanation
Indices: 6323396--6323442 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
6323386 AAAAATATAA
*
6323396 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAA-TTTTAGAAATT
6323416 ATTTTG-AATTTTAGAAATT
1 ATTTTGAAATTTTAGAAATT
6323435 ATTTTGAA
1 ATTTTGAA
6323443 TTATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 9 0.38
20 7 0.29
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTTTGAAATTTTAGAAATT
Found at i:6323427 original size:19 final size:19
Alignment explanation
Indices: 6323396--6323457 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 19
6323386 AAAAATATAA
6323396 ATTTTGAAATTTTTATAAAT
1 ATTTTG-AATTTTTATAAAT
*
6323416 ATTTTGAA-TTTTAGAAATT
1 ATTTTGAATTTTTATAAA-T
6323435 ATTTTGAATTATTT-TAAAT
1 ATTTTGAATT-TTTATAAAT
6323454 -TTTT
1 ATTTT
6323458 TTTTTGTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 12 0.32
19 12 0.32
20 10 0.27
21 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTTATAAAT
Found at i:6323458 original size:19 final size:18
Alignment explanation
Indices: 6323397--6323458 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 18
6323387 AAAATATAAA
*
6323397 TTTTGAAATTTTTATAAATA
1 TTTTG-AATTTTT-TAAATT
**
6323417 TTTTGAATTTTAGAAATT
1 TTTTGAATTTTTTAAATT
6323435 ATTTTGAATTATTTTAAATT
1 -TTTTGAATT-TTTTAAATT
6323455 TTTT
1 TTTT
6323459 TTTTGTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 4 0.11
19 19 0.54
20 12 0.34
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTTGAATTTTTTAAATT
Found at i:6323822 original size:21 final size:21
Alignment explanation
Indices: 6323793--6323833 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6323783 AGGTAAATTT
*
6323793 TGTTCTTATGGTCTTGAGACA
1 TGTTCTTATGGTCTCGAGACA
* *
6323814 TGTTTTTATTGTCTCGAGAC
1 TGTTCTTATGGTCTCGAGAC
6323834 TCAATGTCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.15, G:0.22, T:0.46
Consensus pattern (21 bp):
TGTTCTTATGGTCTCGAGACA
Found at i:6324221 original size:19 final size:21
Alignment explanation
Indices: 6324180--6324222 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6324170 AACAAACAAA
*
6324180 ATCATACATTGAGTAATATAT
1 ATCATACACTGAGTAATATAT
6324201 ATCATACACTGAGTAATATAT
1 ATCATACACTGAGTAATATAT
6324222 A
1 A
6324223 CTCAGTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCATACACTGAGTAATATAT
Found at i:6325392 original size:10 final size:10
Alignment explanation
Indices: 6325379--6325420 Score: 57
Period size: 10 Copynumber: 3.9 Consensus size: 10
6325369 ATATTCTGTA
6325379 ATAATATCCT
1 ATAATATCCT
6325389 ATAATATCCTGT
1 ATAATATCC--T
6325401 AATAATATCCT
1 -ATAATATCCT
6325412 ATAATATCC
1 ATAATATCC
6325421 CATTAGGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 18 0.62
11 1 0.03
12 1 0.03
13 9 0.31
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (10 bp):
ATAATATCCT
Found at i:6325400 original size:23 final size:23
Alignment explanation
Indices: 6325366--6325420 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
6325356 TTGCTAAAAG
*
6325366 ATAATATTCTGTAATAATATCCT
1 ATAATATCCTGTAATAATATCCT
6325389 ATAATATCCTGTAATAATATCCT
1 ATAATATCCTGTAATAATATCCT
6325412 ATAATATCC
1 ATAATATCC
6325421 CATTAGGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (23 bp):
ATAATATCCTGTAATAATATCCT
Found at i:6325409 original size:13 final size:13
Alignment explanation
Indices: 6325366--6325417 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
6325356 TTGCTAAAAG
*
6325366 ATAATATTCTGTA
1 ATAATATCCTGTA
6325379 ATAATATCC--T-
1 ATAATATCCTGTA
6325389 ATAATATCCTGTA
1 ATAATATCCTGTA
*
6325402 ATAATATCCTATA
1 ATAATATCCTGTA
6325415 ATA
1 ATA
6325418 TCCCATTAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
12 1 0.03
13 23 0.68
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (13 bp):
ATAATATCCTGTA
Found at i:6325461 original size:43 final size:43
Alignment explanation
Indices: 6325402--6325541 Score: 212
Period size: 43 Copynumber: 3.3 Consensus size: 43
6325392 ATATCCTGTA
*
6325402 ATAATATCCTATAATATCCCATTAGGAATCAAATTGCTAAGAG
1 ATAATATCCTACAATATCCCATTAGGAATCAAATTGCTAAGAG
6325445 ATAATATCCTACAATATCCCATTAGGAATCAAATTGCTAAGAG
1 ATAATATCCTACAATATCCCATTAGGAATCAAATTGCTAAGAG
* * *
6325488 ATAATATCCTACAATATCGCAATT-GAAATAAAATTGCTAA-AGG
1 ATAATATCCTACAATATC-CCATTAGGAATCAAATTGCTAAGA-G
6325531 ATAATATCCTA
1 ATAATATCCTA
6325542 ATAGTTTTCC
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
42 1 0.01
43 86 0.95
44 4 0.04
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (43 bp):
ATAATATCCTACAATATCCCATTAGGAATCAAATTGCTAAGAG
Found at i:6329618 original size:64 final size:70
Alignment explanation
Indices: 6329548--6329682 Score: 183
Period size: 73 Copynumber: 2.0 Consensus size: 70
6329538 TAATTGATGG
6329548 AAGTAATAAAG-TG-T-GCATAA-TAAAAT-T-AAAATATTAAAATAAAGATTTAGCTTAGTGAT
1 AAGTAATAAAGATGATAGCATAATTAAAATGTAAAAATATTAAAATAAAGATTTAGCTTAGTGAT
6329607 AAAGT
66 AAAGT
* *
6329612 AAGTAATAAAGTATGCATAGTATAATTAAAATGTAAAAAATATTAAAATAAAGCTTTAGCTTAGT
1 AAGTAATAAAG-ATG-ATAGCATAATTAAAATGT-AAAAATATTAAAATAAAGATTTAGCTTAGT
6329677 GATAAA
63 GATAAA
6329683 TTAAAGGTTC
Statistics
Matches: 60, Mismatches: 2, Indels: 9
0.85 0.03 0.13
Matches are distributed among these distances:
64 11 0.18
66 2 0.03
68 1 0.02
69 5 0.08
70 6 0.10
71 1 0.02
73 34 0.57
ACGTcount: A:0.52, C:0.04, G:0.13, T:0.31
Consensus pattern (70 bp):
AAGTAATAAAGATGATAGCATAATTAAAATGTAAAAATATTAAAATAAAGATTTAGCTTAGTGAT
AAAGT
Found at i:6336135 original size:29 final size:29
Alignment explanation
Indices: 6336104--6336162 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
6336094 GAAATGGATC
*
6336104 AAATAAAAAATTCATGTATAAAATTGCACA
1 AAAT-AAAAATTCATGTATAAAACTGCACA
* *
6336134 AAATCAAAGTTCATGTATAAAACTGCACA
1 AAATAAAAATTCATGTATAAAACTGCACA
6336163 TTGTTGGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (29 bp):
AAATAAAAATTCATGTATAAAACTGCACA
Found at i:6339186 original size:27 final size:27
Alignment explanation
Indices: 6339148--6339200 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
6339138 CGCACCTTGC
*
6339148 TAGCTCGCAGTCAACCCTGTAAACCCT
1 TAGCTCGCAGTCAACCCTGAAAACCCT
* *
6339175 TAGCTCGTAGTCAACTCTGAAAACCC
1 TAGCTCGCAGTCAACCCTGAAAACCC
6339201 CTATTTCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (27 bp):
TAGCTCGCAGTCAACCCTGAAAACCCT
Found at i:6352098 original size:67 final size:67
Alignment explanation
Indices: 6351990--6352616 Score: 685
Period size: 67 Copynumber: 9.4 Consensus size: 67
6351980 AAACATAGGT
* * *
6351990 GACCATAGCTTGGCTATGGCAGCATAGAGAG-TCTGCTAGGACATTAAACATGAGGTATGATGTG
1 GACCATAGCTCGGCTATGGCAACATAGAGAGTTC-GCCAGGACATTAAACATGAGGTATGATGTG
6352054 TAA
65 TAA
* * * ** * *
6352057 GACCATAGCTTGGCTATGACAGCATAGAGAGCCCACTAGGACATTAAACATGAGGTATGATGTGT
1 GACCATAGCTCGGCTATGGCAACATAGAGAGTTCGCCAGGACATTAAACATGAGGTATGATGTGT
6352122 AA
66 AA
* ** * * * *
6352124 GACCATAGCTCGACTATGG-AGTATAGGGAGTTCGTCAGGACATTAAACATGGGGTATGACGTGT
1 GACCATAGCTCGGCTATGGCAACATAGAGAGTTCGCCAGGACATTAAACATGAGGTATGATGTGT
6352188 AA
66 AA
* * * * * * *
6352190 GACCAGATCTTGTCTATGACAACATAGAGAGTTCGCTAGGACATTAGACATG-GTGTATGATGTG
1 GACCATAGCTCGGCTATGGCAACATAGAGAGTTCGCCAGGACATTAAACATGAG-GTATGATGTG
6352254 TAA
65 TAA
* * * * ** *
6352257 TACTATAGTTCGACTATGGCAGTATAGAGAGTTCGCCAGGACATTAAACATGTGGTATGATGTGT
1 GACCATAGCTCGGCTATGGCAACATAGAGAGTTCGCCAGGACATTAAACATGAGGTATGATGTGT
6352322 AA
66 AA
* * * *
6352324 GACCATAACTCAGCTATGGCAACATGGAGAGTTCGCCAGGACATTAAACATGGGGTATGATGTGT
1 GACCATAGCTCGGCTATGGCAACATAGAGAGTTCGCCAGGACATTAAACATGAGGTATGATGTGT
6352389 AA
66 AA
* * * *
6352391 GACCATAGCTCGGCTACGCCAACATTGAGAG-TCTGCCAAGACATTAAACAT-AGGGTATGATGC
1 GACCATAGCTCGGCTATGGCAACATAGAGAGTTC-GCCAGGACATTAAACATGA-GGTATGATG-
6352454 T-TAA
63 TGTAA
* **
6352458 GACCATAGCTCGGCTATGGCAACATAGAAAGCCCGCCAGGACATTAAACAT-AGGGTATGATGTG
1 GACCATAGCTCGGCTATGGCAACATAGAGAGTTCGCCAGGACATTAAACATGA-GGTATGATGTG
6352522 TAA
65 TAA
* * * *
6352525 GACCATAGCTCGGTTATGGCAACATAGAGAGTTTGACAGGTCATTAAACATG-GGTTATGATGTG
1 GACCATAGCTCGGCTATGGCAACATAGAGAGTTCGCCAGGACATTAAACATGAGG-TATGATGTG
6352589 TAA
65 TAA
* * * *
6352592 GGCCATAGTTTGGCTATGGGAACAT
1 GACCATAGCTCGGCTATGGCAACAT
6352617 GTAGACTTAA
Statistics
Matches: 475, Mismatches: 74, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
66 58 0.12
67 413 0.87
68 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (67 bp):
GACCATAGCTCGGCTATGGCAACATAGAGAGTTCGCCAGGACATTAAACATGAGGTATGATGTGT
AA
Found at i:6352452 original size:201 final size:198
Alignment explanation
Indices: 6351990--6352609 Score: 755
Period size: 201 Copynumber: 3.1 Consensus size: 198
6351980 AAACATAGGT
* *
6351990 GACCATAGCTTGGCTATGGCAGCATAGAGAGTCTGCTAGGACATTAAACATGAGGTATGATGTGT
1 GACCATAGCTTGGCTATGACAACATAGAGAGTCTGCTAGGACATTAAACATG-GGTATGATGTGT
* * *
6352055 AAGACCATAGCTT-GGCTATGACAGCATAGAGAGCCCACTAGGACATTAAACATGAGGTATGATG
65 AAGACCATAG-TTCGGCTATGGCAGCATAGAGAGCCCGCCAGGACATTAAACATG-GGTATGATG
** *
6352119 TGTAAGACCATAGCTCGACTATGG-AGTATAGG-GAGTTCGTCAGGACATTAAACATGGGGTATG
128 TGTAAGACCATAGCTCG-CTATGGCAACAT-GGAGAGTTCGACAGGACATTAAACATGGGGTATG
*
6352182 ACGTGTAA
191 ATGTGTAA
* * * *
6352190 GACCAGATCTTGTCTATGACAACATAGAGAGT-TCGCTAGGACATTAGACATGGTGTATGATGTG
1 GACCATAGCTTGGCTATGACAACATAGAGAGTCT-GCTAGGACATTAAACATGG-GTATGATGTG
* * * * **
6352254 TAATACTATAGTTCGACTATGGCAGTATAGAGAGTTCGCCAGGACATTAAACATGTGGTATGATG
64 TAAGACCATAGTTCGGCTATGGCAGCATAGAGAGCCCGCCAGGACATTAAACATG-GGTATGATG
* *
6352319 TGTAAGACCATAACTCAGCTATGGCAACATGGAGAGTTCGCCAGGACATTAAACATGGGGTATGA
128 TGTAAGACCATAGCTC-GCTATGGCAACATGGAGAGTTCGACAGGACATTAAACATGGGGTATGA
6352384 TGTGTAA
192 TGTGTAA
* * * * * *
6352391 GACCATAGCTCGGCTACGCCAACATTGAGAGTCTGCCAAGACATTAAACATAGGGTATGATGCT-
1 GACCATAGCTTGGCTATGACAACATAGAGAGTCTGCTAGGACATTAAACAT-GGGTATGATG-TG
* * *
6352455 TAAGACCATAGCTCGGCTATGGCAACATAGAAAGCCCGCCAGGACATTAAACATAGGGTATGATG
64 TAAGACCATAGTTCGGCTATGGCAGCATAGAGAGCCCGCCAGGACATTAAACAT-GGGTATGATG
* * * * *
6352520 TGTAAGACCATAGCTCGGTTATGGCAACATAGAGAGTTTGACAGGTCATTAAACATGGGTTATGA
128 TGTAAGACCATAGCTC-GCTATGGCAACATGGAGAGTTCGACAGGACATTAAACATGGGGTATGA
6352585 TGTGTAA
192 TGTGTAA
* *
6352592 GGCCATAGTTTGGCTATG
1 GACCATAGCTTGGCTATG
6352610 GGAACATGTA
Statistics
Matches: 358, Mismatches: 52, Indels: 19
0.83 0.12 0.04
Matches are distributed among these distances:
199 4 0.01
200 129 0.36
201 220 0.61
202 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (198 bp):
GACCATAGCTTGGCTATGACAACATAGAGAGTCTGCTAGGACATTAAACATGGGTATGATGTGTA
AGACCATAGTTCGGCTATGGCAGCATAGAGAGCCCGCCAGGACATTAAACATGGGTATGATGTGT
AAGACCATAGCTCGCTATGGCAACATGGAGAGTTCGACAGGACATTAAACATGGGGTATGATGTG
TAA
Found at i:6352818 original size:27 final size:26
Alignment explanation
Indices: 6352751--6352820 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 26
6352741 TAAACACGAG
* * *
6352751 GTAGTCCGCTAGTATAGTAAACATGGA
1 GTAGTCCCCTAG-ATAGTAAAAATAGA
*
6352778 -TAGTCCACCAAGATAGTAAAAATAGA
1 GTAGTCC-CCTAGATAGTAAAAATAGA
6352804 GTAGTCCTCCTAGATAG
1 GTAGTCC-CCTAGATAG
6352821 CAATCATGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 18 0.51
27 17 0.49
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.24
Consensus pattern (26 bp):
GTAGTCCCCTAGATAGTAAAAATAGA
Found at i:6361261 original size:29 final size:29
Alignment explanation
Indices: 6361219--6361275 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
6361209 TATCTATATC
*
6361219 TCTCAAATTAGTACTTATAAT-TTTTTTTA
1 TCTCAAATTAGTACCTA-AATATTTTTTTA
* *
6361248 TCTCAGATTGGTACCTAAATATTTTTTT
1 TCTCAAATTAGTACCTAAATATTTTTTT
6361276 CTATCCACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (29 bp):
TCTCAAATTAGTACCTAAATATTTTTTTA
Found at i:6368315 original size:22 final size:22
Alignment explanation
Indices: 6368290--6368370 Score: 117
Period size: 22 Copynumber: 3.7 Consensus size: 22
6368280 GCAATGGAGC
**
6368290 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAAA
* * *
6368312 CATGAGGGTTTAGTTCGTTAAA
1 CATGAGAGCTTAGTACGTTAAA
6368334 CATGAGAGCTTAGTACGTTAAA
1 CATGAGAGCTTAGTACGTTAAA
6368356 CATGAGAGCTTAGTA
1 CATGAGAGCTTAGTA
6368371 GCAAATGAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.30
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAAA
Found at i:6369027 original size:13 final size:13
Alignment explanation
Indices: 6369009--6369033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6368999 ATAAACTGTA
6369009 ATATACATACATG
1 ATATACATACATG
6369022 ATATACATACAT
1 ATATACATACAT
6369034 ATTTTAAACA
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:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
ATATACATACATG
Found at i:6369069 original size:16 final size:15
Alignment explanation
Indices: 6369048--6369109 Score: 67
Period size: 16 Copynumber: 4.2 Consensus size: 15
6369038 TAAACAGTGC
*
6369048 TAAACATAACATTCA
1 TAAACATAACATACA
6369063 TTAAACATAACATACA
1 -TAAACATAACATACA
*
6369079 TAAACAATAAAATAC-
1 TAAAC-ATAACATACA
6369094 T--ACATAACATACA
1 TAAACATAACATACA
6369107 TAA
1 TAA
6369110 CAGACATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 8 0.21
13 3 0.08
15 6 0.15
16 22 0.56
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACATAACATACA
Found at i:6369157 original size:33 final size:33
Alignment explanation
Indices: 6369120--6369190 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
6369110 CAGACATATT
6369120 CATAACAA-CAATATACCACATAACAATCACATA
1 CATAA-AAGCAATATACCACATAACAATCACATA
* * * *
6369153 CATAAAAGTAATATACCATATAACAGTTACATA
1 CATAAAAGCAATATACCACATAACAATCACATA
6369186 CATAA
1 CATAA
6369191 TAGTAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 2 0.06
33 31 0.94
ACGTcount: A:0.54, C:0.21, G:0.03, T:0.23
Consensus pattern (33 bp):
CATAAAAGCAATATACCACATAACAATCACATA
Found at i:6369196 original size:33 final size:33
Alignment explanation
Indices: 6369129--6369198 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
6369119 TCATAACAAC
6369129 AATATACCACATAACAATCACATACATAAAAGT
1 AATATACCACATAACAATCACATACATAAAAGT
* * * *
6369162 AATATACCATATAACAGTTACATACATAATAGT
1 AATATACCACATAACAATCACATACATAAAAGT
6369195 AATA
1 AATA
6369199 AACATGACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (33 bp):
AATATACCACATAACAATCACATACATAAAAGT
Found at i:6369330 original size:15 final size:15
Alignment explanation
Indices: 6369312--6369349 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6369302 ATAACAACAT
*
6369312 ACATAATAGTAATAA
1 ACATAACAGTAATAA
*
6369327 ACATAACAGTAATAT
1 ACATAACAGTAATAA
6369342 ACATAACA
1 ACATAACA
6369350 TACTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (15 bp):
ACATAACAGTAATAA
Found at i:6374867 original size:42 final size:42
Alignment explanation
Indices: 6374808--6374889 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
6374798 TGTATATTAT
*
6374808 TGTCTTTTACTTTGTAAAAACAGATTCCTTCTTATCTGCTTG
1 TGTCTGTTACTTTGTAAAAACAGATTCCTTCTTATCTGCTTG
* *
6374850 TGTCTGTTACTTTGTAAAAGCAGATTCTTTCTTATCTGCT
1 TGTCTGTTACTTTGTAAAAACAGATTCCTTCTTATCTGCT
6374890 CGTTTAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (42 bp):
TGTCTGTTACTTTGTAAAAACAGATTCCTTCTTATCTGCTTG
Found at i:6379328 original size:16 final size:19
Alignment explanation
Indices: 6379280--6379339 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
6379270 TTTAGTCATA
6379280 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
6379300 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTAATATAT
6379318 TAATAAATTATTTAATAT-T
1 TAATAAATTA-TTAATATAT
6379337 TAA
1 TAA
6379340 ATTTTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.09
17 4 0.11
18 8 0.23
19 5 0.14
20 6 0.17
21 4 0.11
22 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:6388440 original size:15 final size:15
Alignment explanation
Indices: 6388420--6388448 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6388410 AACATCACTT
6388420 ATAGCAACTTTATTC
1 ATAGCAACTTTATTC
6388435 ATAGCAACTTTATT
1 ATAGCAACTTTATT
6388449 TAACACGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (15 bp):
ATAGCAACTTTATTC
Found at i:6389524 original size:21 final size:21
Alignment explanation
Indices: 6389475--6389530 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
6389465 CCATCATCAC
*
6389475 AATAATTTTGACCAATTTCAA
1 AATAATTTTGACCAATTCCAA
*
6389496 AACT-ATTTTGACC-ATATCCAT
1 AA-TAATTTTGACCAAT-TCCAA
6389517 AATAATTTTGACCA
1 AATAATTTTGACCA
6389531 GAAGCCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 3 0.10
21 25 0.86
22 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (21 bp):
AATAATTTTGACCAATTCCAA
Found at i:6395267 original size:26 final size:25
Alignment explanation
Indices: 6395198--6395271 Score: 94
Period size: 27 Copynumber: 2.8 Consensus size: 25
6395188 TATTTTCTCG
*
6395198 AAATTTTTCTAGAGGTAAAATCATCA
1 AAATTTTACTAG-GGTAAAATCATCA
*
6395224 AAATTTTTATCAAGGGTAAAATCATCA
1 AAA-TTTTA-CTAGGGTAAAATCATCA
6395251 AAATTTTACTAGTGGTAAAAT
1 AAATTTTACTAG-GGTAAAAT
6395272 AATAATGAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 3 0.07
26 16 0.38
27 20 0.48
28 3 0.07
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.35
Consensus pattern (25 bp):
AAATTTTACTAGGGTAAAATCATCA
Found at i:6397955 original size:18 final size:20
Alignment explanation
Indices: 6397932--6397975 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
6397922 TAGTCTTCCA
6397932 TTGAA-TAAT-TTTTTATAT
1 TTGAATTAATATTTTTATAT
*
6397950 TTGAATTGATATTTTTATAT
1 TTGAATTAATATTTTTATAT
6397970 TT-AATT
1 TTGAATT
6397976 TTATATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 7 0.30
20 11 0.48
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
TTGAATTAATATTTTTATAT
Found at i:6398968 original size:91 final size:90
Alignment explanation
Indices: 6398803--6399029 Score: 274
Period size: 91 Copynumber: 2.5 Consensus size: 90
6398793 GCGATTCTAT
* * * * * *
6398803 TATTAACCTAGCATGCAGTACCCTCAAAGGATGTGTGCTCAAATAATTAAAATTTGGCTAAGTGA
1 TATTAACTTAGCAAGAAGTACCCTCAAAGGGTGTGTGCTCATATAATTAAAATTTGGCTAACTGA
* * * *
6398868 CTTAGAAGGCTAGCATCCGCTTTGC
66 CTTAAAAGGCTAACAACCGCTCTGC
* * *
6398893 TATTAACTTATCGAGAAGTACCCTCAAAAGGGTGTGTGCTCATATTATTAAAATTTGGCTAACTG
1 TATTAACTTAGCAAGAAGTACCCTC-AAAGGGTGTGTGCTCATATAATTAAAATTTGGCTAACTG
* *
6398958 CCTTAAAAGGCTAACAACGGCTCTGC
65 ACTTAAAAGGCTAACAACCGCTCTGC
* * *
6398984 TATTAACTTAGCAAGTAGTACCCTCGAAACGGTGTCTGCTCATATA
1 TATTAACTTAGCAAGAAGTACCCTC-AAAGGGTGTGTGCTCATATA
6399030 TGAATTTTAA
Statistics
Matches: 114, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
90 20 0.18
91 94 0.82
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (90 bp):
TATTAACTTAGCAAGAAGTACCCTCAAAGGGTGTGTGCTCATATAATTAAAATTTGGCTAACTGA
CTTAAAAGGCTAACAACCGCTCTGC
Found at i:6402242 original size:4 final size:4
Alignment explanation
Indices: 6402225--6402307 Score: 157
Period size: 4 Copynumber: 20.8 Consensus size: 4
6402215 TTATTGTGTT
*
6402225 TATG TATA TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
6402273 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
6402308 TATTTGTGAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 77 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:6402595 original size:31 final size:31
Alignment explanation
Indices: 6402525--6402596 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
6402515 GTATAGCAGA
*
6402525 CACTATGTGTCAGTGTTTATATTGTATTAGG
1 CACTATGTATCAGTGTTTATATTGTATTAGG
* * *
6402556 CCCAATGTATCAGTGTTTATATTTTATTAGG
1 CACTATGTATCAGTGTTTATATTGTATTAGG
*
6402587 TACTATGTAT
1 CACTATGTAT
6402597 TGGTTCTGGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (31 bp):
CACTATGTATCAGTGTTTATATTGTATTAGG
Found at i:6406603 original size:39 final size:39
Alignment explanation
Indices: 6406560--6406636 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 39
6406550 TTTTTATTTT
6406560 TAAAA-ATTCAAAAAAATATAAAAAATATTTTTTAAAAAA
1 TAAAACATTCAAAAAAATA-AAAAAATATTTTTTAAAAAA
* *
6406599 TAAAATCATTTAAAAATATAAAAAAATATTTTTTAAAA
1 TAAAA-CATTCAAAAAAATAAAAAAATATTTTTTAAAA
6406637 TTTGATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 5 0.15
40 18 0.53
41 11 0.32
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.34
Consensus pattern (39 bp):
TAAAACATTCAAAAAAATAAAAAAATATTTTTTAAAAAA
Found at i:6410064 original size:17 final size:16
Alignment explanation
Indices: 6410024--6410070 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
6410014 TCAAGAACTA
6410024 TGAGCTCACCAAAATG
1 TGAGCTCACCAAAATG
*
6410040 TACAAGCTCACCAAATATG
1 T--GAGCTCACCAAA-ATG
6410059 TGAGCTCACCAA
1 TGAGCTCACCAA
6410071 GATCGCTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.04
17 10 0.38
18 11 0.42
19 4 0.15
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.19
Consensus pattern (16 bp):
TGAGCTCACCAAAATG
Found at i:6415473 original size:27 final size:27
Alignment explanation
Indices: 6415406--6415474 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
6415396 ACATAAGGCC
*
6415406 ATAACAGTCATTTCATCTCCTAAGGGT
1 ATAACAGTCATTTTATCTCCTAAGGGT
*
6415433 ATAACAGTCATTTTATCTCCTAGGGGT
1 ATAACAGTCATTTTATCTCCTAAGGGT
6415460 ATAACAGTCATTTTA
1 ATAACAGTCATTTTA
6415475 CCCTATGGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (27 bp):
ATAACAGTCATTTTATCTCCTAAGGGT
Found at i:6415485 original size:27 final size:27
Alignment explanation
Indices: 6415466--6415620 Score: 213
Period size: 27 Copynumber: 5.8 Consensus size: 27
6415456 GGGTATAACA
6415466 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
**
6415493 GTCATTTTACCCTATTAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
6415520 GTCATTTTATCCTATGGGGATATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
6415547 GTCATTTTACCTTATGGGGGTATTTAT
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
6415574 GTCATTTTACCCTATGGGAGAATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
6415601 GTCA-TTTACCCTATGGGGGT
1 GTCATTTTACCCTATGGGGGT
6415621 CTCGGTGTAG
Statistics
Matches: 109, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 14 0.13
27 95 0.87
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:6415497 original size:54 final size:53
Alignment explanation
Indices: 6415439--6415607 Score: 164
Period size: 54 Copynumber: 3.1 Consensus size: 53
6415429 GGGTATAACA
*
6415439 GTCATTTTATCTCCTAGGGGTATAACAGTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTA-CTCCTAGGGGTATTACAGTCATTTTACCCTATGGGGGTATTTCG
* * * * * *
6415493 GTCATTTTAC-CCTATTAGGGTATTTCGGTCATTTTATCCTATGGGGATATTTTG
1 GTCATTTTACTCCTA--GGGGTATTACAGTCATTTTACCCTATGGGGGTATTTCG
* * * *
6415547 GTCATTTTAC-CTTATGGGGGTATTTA-TGTCATTTTACCCTATGGGAGAATTTCG
1 GTCATTTTACTCCTA--GGGGTA-TTACAGTCATTTTACCCTATGGGGGTATTTCG
6415601 GTCATTT
1 GTCATTT
6415608 ACCCTATGGG
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
52 4 0.04
53 1 0.01
54 88 0.93
55 2 0.02
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (53 bp):
GTCATTTTACTCCTAGGGGTATTACAGTCATTTTACCCTATGGGGGTATTTCG
Found at i:6415527 original size:81 final size:81
Alignment explanation
Indices: 6415439--6415618 Score: 215
Period size: 81 Copynumber: 2.2 Consensus size: 81
6415429 GGGTATAACA
*
6415439 GTCATTTTATCTCCTA-GGGG-TATAACAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTA
1 GTCATTTTA--TCCTATGGGGATATAACAGTCATTTTACCCTATGGGGGTATTTAGGTCATTTTA
*
6415502 CCCTATTAGG-GTATTTCG
64 CCCTA-TAGGAGAATTTCG
**** * *
6415520 GTCATTTTATCCTATGGGGATATTTTGGTCATTTTACCTTATGGGGGTATTTATGTCATTTTACC
1 GTCATTTTATCCTATGGGGATATAACAGTCATTTTACCCTATGGGGGTATTTAGGTCATTTTACC
*
6415585 CTATGGGAGAATTTCG
66 CTATAGGAGAATTTCG
*
6415601 GTCA-TTTACCCTATGGGG
1 GTCATTTTATCCTATGGGG
6415619 GTCTCGGTGT
Statistics
Matches: 86, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
79 5 0.06
80 20 0.23
81 61 0.71
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (81 bp):
GTCATTTTATCCTATGGGGATATAACAGTCATTTTACCCTATGGGGGTATTTAGGTCATTTTACC
CTATAGGAGAATTTCG
Found at i:6418125 original size:18 final size:18
Alignment explanation
Indices: 6418102--6418198 Score: 78
Period size: 17 Copynumber: 5.6 Consensus size: 18
6418092 TCACCAGAAC
*
6418102 AGCTCACCAAGAA-CTATG
1 AGCTCACCAA-AATCTACG
*
6418120 AGCTCACCAAAATGTACG
1 AGCTCACCAAAATCTACG
* *
6418138 AGCTCACC-AAATGTGCG
1 AGCTCACCAAAATCTACG
* *
6418155 AGCTCACCAAGATC-GCG
1 AGCTCACCAAAATCTACG
6418172 AGCTCA-CAAACA-CTACG
1 AGCTCACCAAA-ATCTACG
*
6418189 AACTCACCAA
1 AGCTCACCAA
6418199 GCATAAGAGC
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
16 4 0.06
17 35 0.53
18 27 0.41
ACGTcount: A:0.37, C:0.32, G:0.16, T:0.14
Consensus pattern (18 bp):
AGCTCACCAAAATCTACG
Found at i:6418441 original size:23 final size:23
Alignment explanation
Indices: 6418397--6418440 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
6418387 CGAATATAAT
*
6418397 AAATATATTTTTTTTTAATTTTA
1 AAATATATTTTATTTTAATTTTA
*
6418420 AAATA-ATTTTATTTTATTTTT
1 AAATATATTTTATTTTAATTTT
6418441 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
AAATATATTTTATTTTAATTTTA
Found at i:6419163 original size:29 final size:30
Alignment explanation
Indices: 6419130--6419195 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
6419120 TAAGGTTTGG
* *
6419130 ATCAAATGAGTCCTTATATTATT-AAATGA
1 ATCAAATGAGTCCTTATACTATTAAAAAGA
* *
6419159 ATCAATTTAGTCCTTATACTATTAAAAAGA
1 ATCAAATGAGTCCTTATACTATTAAAAAGA
6419189 ATCAAAT
1 ATCAAAT
6419196 AAGTTCAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (30 bp):
ATCAAATGAGTCCTTATACTATTAAAAAGA
Found at i:6419784 original size:14 final size:15
Alignment explanation
Indices: 6419765--6419797 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6419755 GGGACAAAAC
*
6419765 TAAAAAT-TTTGTAT
1 TAAAAATATTTGAAT
6419779 TAAAAATATTTGAAT
1 TAAAAATATTTGAAT
6419794 TAAA
1 TAAA
6419798 TTATTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
TAAAAATATTTGAAT
Found at i:6420113 original size:13 final size:13
Alignment explanation
Indices: 6420095--6420125 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
6420085 ATAATATAAT
6420095 AATTTATTATTAC
1 AATTTATTATTAC
6420108 AATTTATTATTAC
1 AATTTATTATTAC
6420121 AATTT
1 AATTT
6420126 TATTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (13 bp):
AATTTATTATTAC
Found at i:6420208 original size:27 final size:27
Alignment explanation
Indices: 6420178--6420230 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6420168 ATAATATTCT
* *
6420178 TAATATATTATTAAAAAATATTTATAC
1 TAATATATTAATAAAAAATATATATAC
* *
6420205 TAATATTTTAATAATAAATATATATA
1 TAATATATTAATAAAAAATATATATA
6420231 TATTAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
TAATATATTAATAAAAAATATATATAC
Found at i:6420289 original size:39 final size:39
Alignment explanation
Indices: 6420205--6420289 Score: 88
Period size: 38 Copynumber: 2.2 Consensus size: 39
6420195 ATATTTATAC
* *
6420205 TAATAT-TTTAATAATAAATATATATATATTAAAATTTA
1 TAATATATTTAATAACAAATATATATATAGTAAAATTTA
* *
6420243 TAA-ATATTTAATAACAAATGT-TTTATAGTATAAA-TTA
1 TAATATATTTAATAACAAATATATATATAGTA-AAATTTA
6420280 TTAATATATT
1 -TAATATATT
6420290 AATTATATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
37 12 0.31
38 22 0.56
39 5 0.13
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (39 bp):
TAATATATTTAATAACAAATATATATATAGTAAAATTTA
Found at i:6420925 original size:2 final size:2
Alignment explanation
Indices: 6420918--6420946 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6420908 ATAAACAATC
6420918 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6420947 TAGAGCTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6424480 original size:43 final size:43
Alignment explanation
Indices: 6424432--6424518 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
6424422 TTTGCTGATG
*
6424432 TGGCTACAAGCTTGTAATCTTTCATTCTGAATTTATTTAAAAT
1 TGGCTACAAGCTTGCAATCTTTCATTCTGAATTTATTTAAAAT
* *
6424475 TGGCTATAGGCTTGCAATCTTTCATTCTGAATTTATTTAAAAT
1 TGGCTACAAGCTTGCAATCTTTCATTCTGAATTTATTTAAAAT
6424518 T
1 T
6424519 TGTTTTGCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (43 bp):
TGGCTACAAGCTTGCAATCTTTCATTCTGAATTTATTTAAAAT
Found at i:6427583 original size:2 final size:2
Alignment explanation
Indices: 6427576--6427609 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6427566 TTAAAATAAG
*
6427576 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6427610 CACATTGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6429074 original size:50 final size:50
Alignment explanation
Indices: 6429020--6429191 Score: 193
Period size: 50 Copynumber: 3.4 Consensus size: 50
6429010 TGAGTTCCAG
* *
6429020 GCCACGTCGTGACTAGGAACCCCGTCGTCATGATGAGGGT-GGGACAATTT
1 GCCACGTCGTGACGAGGAACCCCGTCGTCAAGATGA-GGTCGGGACAATTT
* *
6429070 GCCACGTCGTGACGAGGAACCCCGTCGCCAAGATGAGGTCGGGACAGTTT
1 GCCACGTCGTGACGAGGAACCCCGTCGTCAAGATGAGGTCGGGACAATTT
* * * * * * * * *
6429120 GTCACGTTGTGACAAGGAACCCCATCATCACGACGAGGTCAGGACAATAT
1 GCCACGTCGTGACGAGGAACCCCGTCGTCAAGATGAGGTCGGGACAATTT
* *
6429170 GTCACGTCGTGACGAGAAACCC
1 GCCACGTCGTGACGAGGAACCC
6429192 TGTAACAACT
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
49 3 0.03
50 100 0.97
ACGTcount: A:0.26, C:0.27, G:0.30, T:0.18
Consensus pattern (50 bp):
GCCACGTCGTGACGAGGAACCCCGTCGTCAAGATGAGGTCGGGACAATTT
Found at i:6429861 original size:19 final size:18
Alignment explanation
Indices: 6429828--6429863 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6429818 TAATATTAGT
*
6429828 TAAACATGTTTAATTAAA
1 TAAACATGATTAATTAAA
6429846 TAAACTATGATTAATTAA
1 TAAAC-ATGATTAATTAA
6429864 TTTTTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
TAAACATGATTAATTAAA
Found at i:6433019 original size:45 final size:45
Alignment explanation
Indices: 6432953--6433045 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
6432943 CTAGGTCGAG
* *
6432953 ATAAAAGTAGGTCTCTGGTGAGTCTCTAAAACCGACTTCTGCATC
1 ATAAAAGTAGGTCTCTAGTGAGTCTCTAAAACCAACTTCTGCATC
* * *
6432998 ATAAAGGTAGGTTTCTAGTGAGTCTCTAGAACCAACTTCTGCATC
1 ATAAAAGTAGGTCTCTAGTGAGTCTCTAAAACCAACTTCTGCATC
6433043 ATA
1 ATA
6433046 TTTTATGGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (45 bp):
ATAAAAGTAGGTCTCTAGTGAGTCTCTAAAACCAACTTCTGCATC
Found at i:6433297 original size:29 final size:29
Alignment explanation
Indices: 6433243--6433299 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
6433233 CAACGGTGCC
*
6433243 TTCGAACCAATCACTCGAATATCACTTGG
1 TTCGAACCAATCACTCGAATACCACTTGG
* *
6433272 TTCGAACCAA-CAGCTTGGATACCACTTG
1 TTCGAACCAATCA-CTCGAATACCACTTG
6433300 TCAGGGGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (29 bp):
TTCGAACCAATCACTCGAATACCACTTGG
Found at i:6434279 original size:15 final size:15
Alignment explanation
Indices: 6434253--6434301 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
6434243 ATTATAAATC
6434253 ATAATA-TACATAAT
1 ATAATATTACATAAT
6434267 ATAATATTACATAAT
1 ATAATATTACATAAT
*
6434282 ATAATAATTATATATAT
1 ATAAT-ATTACATA-AT
6434299 ATA
1 ATA
6434302 CTATAGCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
14 6 0.19
15 13 0.42
16 7 0.23
17 5 0.16
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATATTACATAAT
Found at i:6434279 original size:24 final size:25
Alignment explanation
Indices: 6434252--6434298 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
6434242 AATTATAAAT
6434252 CATAATATACATAA-TATA-ATATTA
1 CATAATATA-ATAATTATATATATTA
6434276 CATAATATAATAATTATATATAT
1 CATAATATAATAATTATATATAT
6434299 ATACTATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (25 bp):
CATAATATAATAATTATATATATTA
Found at i:6435396 original size:13 final size:13
Alignment explanation
Indices: 6435366--6435409 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 13
6435356 TTTAGGTCGA
*
6435366 AAAAAATCTAAACTT
1 AAAAAATTTAAA--T
6435381 AAAAAATTTAAAT
1 AAAAAATTTAAAT
6435394 AAAAAATTATAAAT
1 AAAAAATT-TAAAT
6435408 AA
1 AA
6435410 TCTAAATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.33
14 7 0.26
15 11 0.41
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAAAATTTAAAT
Found at i:6436863 original size:3 final size:3
Alignment explanation
Indices: 6436855--6436889 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
6436845 GAGAGACTGG
*
6436855 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6436890 GCTCACTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6440735 original size:10 final size:11
Alignment explanation
Indices: 6440708--6440748 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
6440698 AAATTAAATA
**
6440708 AAATTATTTTG
1 AAATTATTAAG
6440719 AAATTATTAAG
1 AAATTATTAAG
6440730 -AATTA-TAAG
1 AAATTATTAAG
6440739 AAATTATTAA
1 AAATTATTAA
6440749 ATTTTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 4 0.15
10 10 0.38
11 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (11 bp):
AAATTATTAAG
Found at i:6444404 original size:39 final size:39
Alignment explanation
Indices: 6444350--6444427 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
6444340 TTAATAGAAA
*
6444350 GAACTGATTTGCTCTTTAGTTTAACGTACAGGGTTTAAT
1 GAACTAATTTGCTCTTTAGTTTAACGTACAGGGTTTAAT
6444389 GAACTAATTTGCTCTTTAGTTTAACGTACAGGGTTTAAT
1 GAACTAATTTGCTCTTTAGTTTAACGTACAGGGTTTAAT
6444428 TTGTTCATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (39 bp):
GAACTAATTTGCTCTTTAGTTTAACGTACAGGGTTTAAT
Found at i:6447413 original size:9 final size:9
Alignment explanation
Indices: 6447396--6447432 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
6447386 TGAGTTTTCG
6447396 AATTCGAAT
1 AATTCGAAT
*
6447405 AACTCGAAT
1 AATTCGAAT
6447414 AATTCGAAT
1 AATTCGAAT
6447423 AATTCGAAT
1 AATTCGAAT
6447432 A
1 A
6447433 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:6452927 original size:2 final size:2
Alignment explanation
Indices: 6452920--6452956 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6452910 TAGCAATACA
6452920 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 A
6452957 GCTATTCTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6453207 original size:19 final size:19
Alignment explanation
Indices: 6453183--6453229 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
6453173 ACACACCAAT
6453183 ACGGCACATTATGCCTAAA
1 ACGGCACATTATGCCTAAA
*
6453202 ACGGCACATTGTGCCTAAA
1 ACGGCACATTATGCCTAAA
6453221 ACGGCACAT
1 ACGGCACAT
6453230 AGTACCTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (19 bp):
ACGGCACATTATGCCTAAA
Found at i:6453237 original size:19 final size:19
Alignment explanation
Indices: 6453183--6453238 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
6453173 ACACACCAAT
6453183 ACGGCACATTA-TGCCTAAA
1 ACGGCACA-TAGTGCCTAAA
*
6453202 ACGGCACATTGTGCCTAAA
1 ACGGCACATAGTGCCTAAA
*
6453221 ACGGCACATAGTACCTAA
1 ACGGCACATAGTGCCTAA
6453239 TCAATATACG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 1 0.03
19 32 0.97
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.20
Consensus pattern (19 bp):
ACGGCACATAGTGCCTAAA
Found at i:6453283 original size:21 final size:21
Alignment explanation
Indices: 6453244--6453315 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 21
6453234 CCTAATCAAT
* *
6453244 ATACGACACA-TAAGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
6453264 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
6453285 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
6453306 ATACAACACA
1 ATACGACACA
6453316 TAAAATGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 9 0.20
21 37 0.80
ACGTcount: A:0.36, C:0.28, G:0.22, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:6453337 original size:23 final size:24
Alignment explanation
Indices: 6453304--6453374 Score: 101
Period size: 23 Copynumber: 3.0 Consensus size: 24
6453294 ACGAGGTGCC
* *
6453304 TGATACAACACATAAAATGCCTGA
1 TGATACGACACATAAAGTGCCTGA
6453328 -GATACGACACATAAAGTGCCTGA
1 TGATACGACACATAAAGTGCCTGA
*
6453351 TG-CACGACACATAAAGTGCCTGA
1 TGATACGACACATAAAGTGCCTGA
6453374 T
1 T
6453375 CGGTCAAGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (24 bp):
TGATACGACACATAAAGTGCCTGA
Found at i:6453347 original size:44 final size:43
Alignment explanation
Indices: 6453244--6453373 Score: 138
Period size: 42 Copynumber: 3.0 Consensus size: 43
6453234 CCTAATCAAT
* ** *
6453244 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCT--G
1 ATACGACACATAAGTGCCTGATACGACACATAAAGTGCCTGAG
* * * *
6453285 ATACGACACACGAGGTGCCTGATACAACACATAAAATGCCTGAG
1 ATACGACACA-TAAGTGCCTGATACGACACATAAAGTGCCTGAG
6453329 ATACGACACATAAAGTGCCTGATGCACGACACATAAAGTGCCTGA
1 ATACGACACAT-AAGTGCCTGAT--ACGACACATAAAGTGCCTGA
6453374 TCGGTCAAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
41 10 0.14
42 22 0.31
44 21 0.30
46 18 0.25
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (43 bp):
ATACGACACATAAGTGCCTGATACGACACATAAAGTGCCTGAG
Found at i:6453738 original size:16 final size:17
Alignment explanation
Indices: 6453717--6453748 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6453707 TAATAATAAT
6453717 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
6453733 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
6453749 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:6454895 original size:14 final size:17
Alignment explanation
Indices: 6454876--6454913 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
6454866 ATTTATTTCT
6454876 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
6454890 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
6454907 TAATATA
1 TAATATA
6454914 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:6454931 original size:11 final size:11
Alignment explanation
Indices: 6454893--6454931 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
6454883 ATATTTATAA
6454893 TATAATTAATT
1 TATAATTAATT
*
6454904 TAATAATATACTT
1 T-ATAAT-TAATT
6454917 TATAATTAATT
1 TATAATTAATT
6454928 TATA
1 TATA
6454932 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:6454953 original size:21 final size:20
Alignment explanation
Indices: 6454905--6454954 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
6454895 TAATTAATTT
*
6454905 AATAATATACTTTATAATTA
1 AATAATATACTTTATAAATA
* * *
6454925 ATTTATATATTTATATAAATA
1 AATAATATACTT-TATAAATA
6454946 AATAATATA
1 AATAATATA
6454955 AAAATCTAAG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAATATACTTTATAAATA
Found at i:6460670 original size:30 final size:30
Alignment explanation
Indices: 6460630--6460688 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
6460620 AACAAGAAAA
6460630 TGCCTCTAAAATAATAACAAAATTAACAAG
1 TGCCTCTAAAATAATAACAAAATTAACAAG
*
6460660 TGCCTTTAAAATAATAACAAAATTAACAA
1 TGCCTCTAAAATAATAACAAAATTAACAA
6460689 TAAAATAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.25
Consensus pattern (30 bp):
TGCCTCTAAAATAATAACAAAATTAACAAG
Found at i:6460773 original size:22 final size:22
Alignment explanation
Indices: 6460726--6460773 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
6460716 CAATAACAAC
* *
6460726 AAAATAGTAGCAATATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
*
6460748 AAAATGGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
6460770 AAAA
1 AAAA
6460774 CAACAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.58, C:0.04, G:0.19, T:0.19
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:6467912 original size:37 final size:37
Alignment explanation
Indices: 6467870--6468136 Score: 356
Period size: 37 Copynumber: 7.0 Consensus size: 37
6467860 TAGTTTTAGC
*
6467870 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
* * *
6467907 TACACTTATCTAATCAAGTGACAAAGTGATAAGT-GC
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
*
6467943 TAAACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGT-G--G---T
*
6467986 AGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGC
1 ---TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
*
6468026 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
*
6468063 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
* *
6468100 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
6468137 AGCTTCAGCT
Statistics
Matches: 205, Mismatches: 15, Indels: 20
0.85 0.06 0.08
Matches are distributed among these distances:
36 32 0.16
37 137 0.67
40 1 0.00
43 1 0.00
45 1 0.00
46 33 0.16
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
Found at i:6468050 original size:119 final size:120
Alignment explanation
Indices: 6467836--6468098 Score: 438
Period size: 119 Copynumber: 2.2 Consensus size: 120
6467826 AGTACTTCTA
* * *
6467836 ATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATA
1 ATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATA
* **
6467901 AGTGGTTACACTTATCTAATCAAGTGACAAAGTGATAAGT-GCTAAACTTATCTG
66 AGTGGCTACACTTATCTAATCAAGAAACAAAGTGATAAGTGGCTAAACTTATCTG
6467955 ATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATA
1 ATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATA
* * *
6468020 AGTGGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTG
66 AGTGGCTACACTTATCTAATCAAGAAACAAAGTGATAAGTGGCTAAACTTATCTG
6468075 ATCAAGAGACAAAGTGATAAGTGG
1 ATCAAGAGACAAAGTGATAAGTGG
6468099 CTACACTTAT
Statistics
Matches: 134, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 98 0.73
120 36 0.27
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (120 bp):
ATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATA
AGTGGCTACACTTATCTAATCAAGAAACAAAGTGATAAGTGGCTAAACTTATCTG
Found at i:6468086 original size:156 final size:156
Alignment explanation
Indices: 6467868--6468180 Score: 520
Period size: 156 Copynumber: 2.0 Consensus size: 156
6467858 GGTAGTTTTA
** *
6467868 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTTACACTTATCTAATCAAGTGACAAAG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTAATCAAGAGACAAAG
*
6467933 TGATAAGT-GCTAAACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 TGATAAGTGGCTAAACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
6467997 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATC-AGAGACAAAGTGATAAGTG
*
6468024 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTGATCAAGAGACAAAG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTAATCAAGAGACAAAG
* * *
6468089 TGATAAGTGGCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
66 TGATAAGTGGCTAAACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
* *
6468154 TCTGATCAGTGGCAAAGTGATAAGTG
131 TCTGATCAGAGACAAAGTGATAAGTG
6468180 G
1 G
6468181 TAGCCTAGCT
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
156 87 0.60
157 59 0.40
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (156 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTAATCAAGAGACAAAG
TGATAAGTGGCTAAACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTA
TCTGATCAGAGACAAAGTGATAAGTG
Found at i:6468173 original size:45 final size:45
Alignment explanation
Indices: 6468098--6468192 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
6468088 GTGATAAGTG
* *
6468098 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCT-A
*
6468144 GCTACACTTATCTGATC-AGTGGCAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTA
6468188 GCTAC
1 GCTAC
6468193 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 6 0.13
45 23 0.50
46 17 0.37
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTA
Found at i:6470639 original size:16 final size:16
Alignment explanation
Indices: 6470606--6470638 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6470596 CATAGAAATT
*
6470606 AAGGAATTATTAGAAA
1 AAGGAATTAATAGAAA
6470622 AAGG-ATTAATAGAAA
1 AAGGAATTAATAGAAA
6470637 AA
1 AA
6470639 ACTAATAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (16 bp):
AAGGAATTAATAGAAA
Found at i:6472589 original size:43 final size:43
Alignment explanation
Indices: 6472542--6472659 Score: 125
Period size: 43 Copynumber: 2.7 Consensus size: 43
6472532 AGAAAAAGAC
*
6472542 CAAAAAAAGAAGCTACGTGGAAGAAACCACA-AT-TGCATCCAGA
1 CAAAAAAAGAAGCAACGTGGAAGAAACCACATATATG--TCCAGA
* * * *
6472585 C-AAAAAAGTAAGCAATGTGGAAGGAACCGCATCTATGTCCAGA
1 CAAAAAAAG-AAGCAACGTGGAAGAAACCACATATATGTCCAGA
* *
6472628 CAAAAAAAGAAGCAACGTGGCAGCAACCACAT
1 CAAAAAAAGAAGCAACGTGGAAGAAACCACAT
6472660 CAGGACAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
42 7 0.11
43 45 0.73
44 8 0.13
45 2 0.03
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (43 bp):
CAAAAAAAGAAGCAACGTGGAAGAAACCACATATATGTCCAGA
Found at i:6473279 original size:5 final size:6
Alignment explanation
Indices: 6473262--6473289 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6473252 TGGTAATGAA
6473262 GTGGGG GTGGGG GTGGGG GTGGGG GTGG
1 GTGGGG GTGGGG GTGGGG GTGGGG GTGG
6473290 ATTGCCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.82, T:0.18
Consensus pattern (6 bp):
GTGGGG
Found at i:6476121 original size:32 final size:32
Alignment explanation
Indices: 6476069--6476181 Score: 129
Period size: 32 Copynumber: 3.5 Consensus size: 32
6476059 TAGAGGAATA
*
6476069 TTGTTATCATTTAACAAAAATTAAAGTTGATAT
1 TTGTTATCATTTCAC-AAAATTAAAGTTGATAT
* *
6476102 TTGTTATCATTTCACAAAATTGAACTTG-TAAT
1 TTGTTATCATTTCACAAAATTAAAGTTGAT-AT
* * *
6476134 TTGTTACCATTTCACAAAATGAAAGCTGATAT
1 TTGTTATCATTTCACAAAATTAAAGTTGATAT
* *
6476166 TTATTCTCATTTCACA
1 TTGTTATCATTTCACA
6476182 GAACCACACA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
31 1 0.01
32 51 0.76
33 15 0.22
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (32 bp):
TTGTTATCATTTCACAAAATTAAAGTTGATAT
Found at i:6476631 original size:25 final size:25
Alignment explanation
Indices: 6476583--6476631 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
6476573 TAATTTAATC
*
6476583 GAAATATTAAAAAGGTATCTTAAAA
1 GAAATATTAAAAAGGTATCGTAAAA
6476608 GAAATATTAAAAAGGATAT-GTAAA
1 GAAATATTAAAAAGG-TATCGTAAA
6476632 TGGTAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.57, C:0.02, G:0.14, T:0.27
Consensus pattern (25 bp):
GAAATATTAAAAAGGTATCGTAAAA
Found at i:6482996 original size:23 final size:22
Alignment explanation
Indices: 6482953--6482996 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
6482943 TTTCAAGTCA
6482953 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
6482976 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
6482997 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:6485853 original size:2 final size:2
Alignment explanation
Indices: 6485848--6485897 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
6485838 AAAACCCAAA
*
6485848 AT AT AT AT AG 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 AT AT AT
6485890 AT AT AT AT
1 AT AT AT AT
6485898 TAAAGTATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6490651 original size:19 final size:16
Alignment explanation
Indices: 6490604--6490665 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
6490594 AAGCATTTAA
* **
6490604 TTAATTTTTATTTTTT
1 TTAATTTTTAATAATT
6490620 TTAATTTTTAATAATT
1 TTAATTTTTAATAATT
6490636 TTAATTTTTAA-AA--
1 TTAATTTTTAATAATT
*
6490649 ATAATTTTT-ATAATT
1 TTAATTTTTAATAATT
6490664 TT
1 TT
6490666 TCTGAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 1 0.03
13 10 0.26
15 3 0.08
16 24 0.63
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTAATTTTTAATAATT
Done.