Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 266 of 284
Found at i:89480749 original size:46 final size:46
Alignment explanation
Indices: 89480699--89480871 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
89480689 TGGTTGAGCA
89480699 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
89480745 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
89480790 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
89480838 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
89480872 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:89480855 original size:93 final size:93
Alignment explanation
Indices: 89480696--89480866 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
89480686 GGATGGTTGA
* *
89480696 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
89480761 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
89480789 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
89480854 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
89480867 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:89483424 original size:39 final size:38
Alignment explanation
Indices: 89483353--89483495 Score: 164
Period size: 39 Copynumber: 3.7 Consensus size: 38
89483343 ACCAGCTCGA
* * * *
89483353 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATA-TTCCAGCACAT
* *
89483392 AGCCTGCGGACCATAAGTCCGGTTATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATAT-ATTCCAGCACAT
*
89483431 AGCCTGCGGACCTTAAGTCCGGATATATTCCAACACAT
1 AGCCTGCGGACCTTAAGTCCGGATATATTCCAGCACAT
*
89483469 AGCCT-CTGGACCTTAAGTCTGGATATA
1 AGCCTGC-GGACCTTAAGTCCGGATATA
89483496 CTTCATCATT
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
37 1 0.01
38 38 0.42
39 51 0.56
40 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (38 bp):
AGCCTGCGGACCTTAAGTCCGGATATATTCCAGCACAT
Found at i:89484044 original size:12 final size:12
Alignment explanation
Indices: 89484027--89484053 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
89484017 ATTACCCTTT
89484027 ATTCTTTTATTC
1 ATTCTTTTATTC
89484039 ATTCTTTTATTC
1 ATTCTTTTATTC
89484051 ATT
1 ATT
89484054 TAGTTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTCTTTTATTC
Found at i:89487489 original size:17 final size:18
Alignment explanation
Indices: 89487447--89487490 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
89487437 ATTCTGGGCC
89487447 TCGT-TGGGCTAAATGGG
1 TCGTGTGGGCTAAATGGG
*
89487464 TCGTGTGGGCTCAATGGG
1 TCGTGTGGGCTAAATGGG
*
89487482 -CTTGTGGGC
1 TCGTGTGGGC
89487491 CCCATACGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.11, C:0.16, G:0.43, T:0.30
Consensus pattern (18 bp):
TCGTGTGGGCTAAATGGG
Found at i:89487758 original size:27 final size:27
Alignment explanation
Indices: 89487728--89487809 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
89487718 CTGAAATGTA
*
89487728 CCCGGTTTGTAAAATTA-CTAAAACACC
1 CCCGATTTGTAAAATTATC-AAAACACC
* * *
89487755 CCCGATTTATAAAATTATCGAAATACC
1 CCCGATTTGTAAAATTATCAAAACACC
* *
89487782 CCCGATTTGTAAAATTATCGAAATACC
1 CCCGATTTGTAAAATTATCAAAACACC
89487809 C
1 C
89487810 TTGTAGTGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (27 bp):
CCCGATTTGTAAAATTATCAAAACACC
Found at i:89487819 original size:27 final size:27
Alignment explanation
Indices: 89487764--89487850 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
89487754 CCCCGATTTA
* *
89487764 TAAAATTATCGAAATACCCCCG-ATTTG
1 TAAAATTATCGAAATACCCCTGTA-GTG
*
89487791 TAAAATTATCGAAATACCCTTGTAGTG
1 TAAAATTATCGAAATACCCCTGTAGTG
* *
89487818 TAAAATTACCGAAATACCCCTGTAGGG
1 TAAAATTATCGAAATACCCCTGTAGTG
89487845 TAAAAT
1 TAAAAT
89487851 GACTGGTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCCTGTAGTG
Found at i:89488340 original size:27 final size:27
Alignment explanation
Indices: 89488285--89488351 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
89488275 AGTGGCTATA
* * *
89488285 TGCCTATCATATTTATTGATGACTCTG
1 TGCCGATCATATTTACTCATGACTCTG
* * *
89488312 TGTCGATCATATTTACTCATGGCTGTG
1 TGCCGATCATATTTACTCATGACTCTG
*
89488339 TGCCGATTATATT
1 TGCCGATCATATT
89488352 ACCGTCGCTG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (27 bp):
TGCCGATCATATTTACTCATGACTCTG
Found at i:89489237 original size:14 final size:13
Alignment explanation
Indices: 89489213--89489238 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89489203 TTCTTAATAA
89489213 GAAAAAGTTTTTT
1 GAAAAAGTTTTTT
89489226 GAAAAAGTTTTTT
1 GAAAAAGTTTTTT
89489239 AATGTGACAC
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:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
GAAAAAGTTTTTT
Found at i:89492253 original size:27 final size:26
Alignment explanation
Indices: 89492205--89492264 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
89492195 GCGAGGCTGC
*
89492205 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
89492232 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
89492258 CAGATAT
1 CAGATAT
89492265 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:89492277 original size:33 final size:32
Alignment explanation
Indices: 89492226--89492289 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
89492216 ACGAAGTCAC
* *
89492226 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
89492258 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
89492290 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:89492353 original size:27 final size:26
Alignment explanation
Indices: 89492305--89492356 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
89492295 GCGAGGCTGC
*
89492305 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
89492331 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
89492357 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:89494076 original size:127 final size:127
Alignment explanation
Indices: 89493850--89494100 Score: 484
Period size: 127 Copynumber: 2.0 Consensus size: 127
89493840 AGAAAACCCG
* *
89493850 AAAATTGGGGTGTTACAACTCTACCCTCCTTAAAGAAAGTTCGTCCTCAAAATTTTACCTGAATC
1 AAAATTGGGGCGTTACAACTCTACCCTCCTTAAAGAAAGTTCATCCTCAAAATTTTACCTGAATC
89493915 AAACAAATGAGGATATTGTTGACGCATCGCCACTTCTGGCTCCCAAGTAGCTTCCTCTCCCA
66 AAACAAATGAGGATATTGTTGACGCATCGCCACTTCTGGCTCCCAAGTAGCTTCCTCTCCCA
89493977 AAAATTGGGGCGTTACAACTCTACCCTCCTTAAAGAAAGTTCATCCTCAAAATTTTACCTGAATC
1 AAAATTGGGGCGTTACAACTCTACCCTCCTTAAAGAAAGTTCATCCTCAAAATTTTACCTGAATC
89494042 AAACAAATGAGGATATTGTTGACGCATCGCCACTTCTGGCTCCCAAGTAGCTTCCTCTC
66 AAACAAATGAGGATATTGTTGACGCATCGCCACTTCTGGCTCCCAAGTAGCTTCCTCTC
89494101 TGCCATGATT
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
127 122 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (127 bp):
AAAATTGGGGCGTTACAACTCTACCCTCCTTAAAGAAAGTTCATCCTCAAAATTTTACCTGAATC
AAACAAATGAGGATATTGTTGACGCATCGCCACTTCTGGCTCCCAAGTAGCTTCCTCTCCCA
Found at i:89497576 original size:17 final size:18
Alignment explanation
Indices: 89497544--89497577 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89497534 CTTTCCTAAA
*
89497544 ACGATTTTGATCTTTCTC
1 ACGATTCTGATCTTTCTC
89497562 ACGATTCTG-TCTTTCT
1 ACGATTCTGATCTTTCT
89497578 GTATGCTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.24, G:0.12, T:0.50
Consensus pattern (18 bp):
ACGATTCTGATCTTTCTC
Found at i:89506720 original size:27 final size:27
Alignment explanation
Indices: 89506690--89506913 Score: 175
Period size: 27 Copynumber: 8.6 Consensus size: 27
89506680 TAATAAAGAG
*
89506690 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
89506717 AAATTACCGAAATACCCCCGATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
89506744 AAATTA-TCG----A---TCGATTTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
89506764 AAATTATTGAAACACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
89506791 AAATTA-TCGAAACACCCTCAATTTTTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
89506818 AAATTACCGAAACACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
89506845 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
89506872 AAATTACCGAAACACCC-CGGATTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTA
89506899 AAATTA-TCGAAATAC
1 AAATTACT-GAAATAC
89506914 TCTTGTAGTG
Statistics
Matches: 162, Mismatches: 20, Indels: 30
0.76 0.09 0.14
Matches are distributed among these distances:
20 16 0.10
21 1 0.01
23 1 0.01
24 1 0.01
26 2 0.01
27 141 0.87
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:89506901 original size:81 final size:81
Alignment explanation
Indices: 89506757--89506910 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
89506747 TTATCGATCG
* * * * *
89506757 ATTTGTGAAATTATTGAAACACCCTTGATTTGTAAAATTATCGAAACACCCTCAATTTTTAAAAT
1 ATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAAT
89506822 TACCGAAACACCCTCA
66 TACCGAAACACCCTCA
* *
89506838 ATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAACACCC-CGGATTTGTAAAA
1 ATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACCGAAACACCCTC-AATTTGTAAAA
*
89506902 TTATCGAAA
65 TTACCGAAA
89506911 TACTCTTGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.02
81 63 0.98
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (81 bp):
ATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAAT
TACCGAAACACCCTCA
Found at i:89506911 original size:54 final size:53
Alignment explanation
Indices: 89506754--89506913 Score: 221
Period size: 54 Copynumber: 3.0 Consensus size: 53
89506744 AAATTATCGA
* ** * *
89506754 TCGATTTGTGAAATTATTGAAACACCCTTGATTTGTAAAATTATCGAAACACCC
1 TCGATTTGTAAAATTACCGAAACACCC-CGATTTGTAAAATTATCGAAATACCC
* * *
89506808 TCAATTTTTAAAATTACCGAAACACCCTCAATTTGTAAAATTATCGAAATACCC
1 TCGATTTGTAAAATTACCGAAACACCC-CGATTTGTAAAATTATCGAAATACCC
89506862 TCGATTTGTAAAATTACCGAAACACCCCGGATTTGTAAAATTATCGAAATAC
1 TCGATTTGTAAAATTACCGAAACACCCC-GATTTGTAAAATTATCGAAATAC
89506914 TCTTGTAGTG
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 93 0.99
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (53 bp):
TCGATTTGTAAAATTACCGAAACACCCCGATTTGTAAAATTATCGAAATACCC
Found at i:89506925 original size:27 final size:26
Alignment explanation
Indices: 89506895--89506953 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
89506885 ACCCCGGATT
* *
89506895 TGTAAAATTATC-GAAATACTCTTGTAG
1 TGTAAAATTA-CAAAAATACCCTTG-AG
89506922 TGTAAAATTACAAAAATACCCTTGAG
1 TGTAAAATTACAAAAATACCCTTGAG
89506948 TGTAAA
1 TGTAAA
89506954 TGACTGACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (26 bp):
TGTAAAATTACAAAAATACCCTTGAG
Found at i:89506926 original size:54 final size:52
Alignment explanation
Indices: 89506699--89506932 Score: 212
Period size: 54 Copynumber: 4.5 Consensus size: 52
89506689 GAAATTACTA
* * *
89506699 AAATACCCTCGATTTGTAAAATTACCGAAATACCCCCGATTTGTGAAATTATCG
1 AAATA-CCTTGATTTGTAAAATTACCGAAACA-CCCCGATTTGTAAAATTATCG
* ** *
89506753 --AT--C--GATTTGTGAAATTATTGAAACACCCTTGATTTGTAAAATTATCG
1 AAATACCTTGATTTGTAAAATTACCGAAACACCC-CGATTTGTAAAATTATCG
* ** * *
89506800 AAACACCCTCAATTTTTAAAATTACCGAAACACCCTCAATTTGTAAAATTATCG
1 AAATA-CCTTGATTTGTAAAATTACCGAAACACCC-CGATTTGTAAAATTATCG
*
89506854 AAATACCCTCGATTTGTAAAATTACCGAAACACCCCGGATTTGTAAAATTATCG
1 AAATA-CCTTGATTTGTAAAATTACCGAAACACCCC-GATTTGTAAAATTATCG
*
89506908 AAATACTCTTG-TAGTGTAAAATTAC
1 AAATAC-CTTGAT-TTGTAAAATTAC
89506933 AAAAATACCC
Statistics
Matches: 149, Mismatches: 20, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
46 3 0.02
47 34 0.23
49 2 0.01
52 3 0.02
53 3 0.02
54 104 0.70
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (52 bp):
AAATACCTTGATTTGTAAAATTACCGAAACACCCCGATTTGTAAAATTATCG
Found at i:89509125 original size:20 final size:20
Alignment explanation
Indices: 89509100--89509137 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
89509090 TCACATCCAA
89509100 CATGGGTAAAATTTTAAACT
1 CATGGGTAAAATTTTAAACT
89509120 CATGGGTAAAATTTTAAA
1 CATGGGTAAAATTTTAAA
89509138 TTTTAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (20 bp):
CATGGGTAAAATTTTAAACT
Found at i:89515002 original size:16 final size:16
Alignment explanation
Indices: 89514981--89515013 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
89514971 AACCGAATTC
89514981 TCTGCTCATCTCTTCT
1 TCTGCTCATCTCTTCT
*
89514997 TCTGCTCATCTTTTCT
1 TCTGCTCATCTCTTCT
89515013 T
1 T
89515014 TTTCTTTAGC
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:0.06, C:0.33, G:0.06, T:0.55
Consensus pattern (16 bp):
TCTGCTCATCTCTTCT
Found at i:89516052 original size:28 final size:29
Alignment explanation
Indices: 89516020--89516095 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
89516010 AAGAATAGTT
* *
89516020 AAATTACTTG-AATACGCCTATGTATGGA
1 AAATTACTTGTAATACCCCTATCTATGGA
* *
89516048 AAATT-GTTGTTATACCCCTATCTATGGA
1 AAATTACTTGTAATACCCCTATCTATGGA
*
89516076 AAATTAC-TGTTATACCCCTA
1 AAATTACTTGTAATACCCCTA
89516096 GGGGTTCTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 3 0.07
28 38 0.93
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (29 bp):
AAATTACTTGTAATACCCCTATCTATGGA
Found at i:89516205 original size:27 final size:26
Alignment explanation
Indices: 89516165--89516276 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
89516155 AGGAAGCGTC
*
89516165 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
89516192 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
89516219 CTGGTGGCTCTGCCATGATTATCTGTAT
1 CTGGTGGCTCTGCCA-CATTATCTG-AT
* * *
89516247 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
89516273 CTGG
1 CTGG
89516277 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:89516269 original size:54 final size:54
Alignment explanation
Indices: 89516165--89516276 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
89516155 AGGAAGCGTC
*
89516165 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* ** *
89516219 CTGGTGGCTCTGCCATGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
89516273 CTGG
1 CTGG
89516277 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:89517276 original size:15 final size:16
Alignment explanation
Indices: 89517247--89517277 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
89517237 AATAGGTTTA
89517247 CAAAAACAAAGATTTT
1 CAAAAACAAAGATTTT
89517263 CAAAAACAAA-ATTTT
1 CAAAAACAAAGATTTT
89517278 ATAAAGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (16 bp):
CAAAAACAAAGATTTT
Found at i:89523866 original size:28 final size:29
Alignment explanation
Indices: 89523834--89523909 Score: 104
Period size: 28 Copynumber: 2.7 Consensus size: 29
89523824 AAGAATAGTT
*
89523834 AAATTACTTG-AATACGCCTATGTATGGA
1 AAATTACTTGTAATACCCCTATGTATGGA
*
89523862 AAATTAC-TGTTATACCCCTATGTATGGA
1 AAATTACTTGTAATACCCCTATGTATGGA
*
89523890 AAATTAC-TGTTATACCCCTA
1 AAATTACTTGTAATACCCCTA
89523910 GGGGTACTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 2 0.04
28 43 0.96
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (29 bp):
AAATTACTTGTAATACCCCTATGTATGGA
Found at i:89524116 original size:27 final size:26
Alignment explanation
Indices: 89524015--89524126 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 26
89524005 AGGAAGCGTC
* * *
89524015 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCAC-ATTATCTGTT
* * * *
89524042 CTAGTGGCTCCGCCACATATATCTATT
1 CTGGTGACTCTGCCACAT-TATCTGTT
*
89524069 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGACTCTGCCAC-ATTATCTGT-T
* *
89524097 CTGGTGACTTTGTCACATTATCTGTT
1 CTGGTGACTCTGCCACATTATCTGTT
89524123 CTGG
1 CTGG
89524127 CAGCCATGCC
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.68
28 16 0.23
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGTT
Found at i:89527295 original size:43 final size:43
Alignment explanation
Indices: 89527248--89527394 Score: 135
Period size: 43 Copynumber: 3.4 Consensus size: 43
89527238 TTCTTGTGTC
* *
89527248 AGACCACGTCTGGGACGTTGGCATTGATATGTGATTTCGAGTA
1 AGACCACGTCTGGGACGTCGGCATCGATATGTGATTTCGAGTA
* * *
89527291 AGACCATGTTTGGGACATCGGCATCG-TAATTGTGATTTCTGA--A
1 AGACCACGTCTGGGACGTCGGCATCGAT-A-TGTGATTTC-GAGTA
*
89527334 AGACC-CTGTCTGGGACAG-CGGCATCGACATGTGATTTC-ATGTA
1 AGACCAC-GTCTGGGAC-GTCGGCATCGATATGTGATTTCGA-GTA
*
89527377 AGACCATGTCTGGGACGT
1 AGACCACGTCTGGGACGT
89527395 TGTCATTGTA
Statistics
Matches: 83, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
40 1 0.01
42 11 0.13
43 60 0.72
44 9 0.11
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (43 bp):
AGACCACGTCTGGGACGTCGGCATCGATATGTGATTTCGAGTA
Found at i:89533386 original size:18 final size:19
Alignment explanation
Indices: 89533353--89533391 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
89533343 TTAGTAGATA
*
89533353 AATAATAAAATATTATTAT
1 AATAATAAAATATTATAAT
*
89533372 AATAAT-AAATGTTATAAT
1 AATAATAAAATATTATAAT
89533390 AA
1 AA
89533392 AATTAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AATAATAAAATATTATAAT
Found at i:89534436 original size:43 final size:42
Alignment explanation
Indices: 89534294--89534428 Score: 150
Period size: 43 Copynumber: 3.1 Consensus size: 42
89534284 AGACCACATT
*
89534294 TGGGACATTGGCATCGATATGTGATTTCGA-GTAAGACCATGTC
1 TGGGACATCGGCATCGA-ATGTGATTTC-ATGTAAGACCATGTC
* *
89534337 TGGAACATCGGCATCGTAATTGTGATTTC-TCG-AAGACCCTGTC
1 TGGGACATCGGCATCG-AA-TGTGATTTCAT-GTAAGACCATGTC
* *
89534380 TGGGATAGCGGCATCGACATGTGATTTCATGTAAGACCATGTC
1 TGGGACATCGGCATCGA-ATGTGATTTCATGTAAGACCATGTC
89534423 TGGGAC
1 TGGGAC
89534429 GTTGGCATTG
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
42 11 0.14
43 55 0.71
44 11 0.14
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
TGGGACATCGGCATCGAATGTGATTTCATGTAAGACCATGTC
Found at i:89535686 original size:9 final size:9
Alignment explanation
Indices: 89535672--89535696 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
89535662 TGGTTGTGGT
89535672 TTTGGTTGA
1 TTTGGTTGA
89535681 TTTGGTTGA
1 TTTGGTTGA
89535690 TTTGGTT
1 TTTGGTT
89535697 TTGGTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.60
Consensus pattern (9 bp):
TTTGGTTGA
Found at i:89545169 original size:30 final size:30
Alignment explanation
Indices: 89545125--89545213 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
89545115 CAAAGATAAC
89545125 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
89545154 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
89545184 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
89545214 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:89545173 original size:15 final size:15
Alignment explanation
Indices: 89545125--89545204 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
89545115 CAAAGATAAC
*
89545125 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
89545139 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
89545154 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
89545169 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
89545184 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
89545199 AAGAAA
1 AAGAAA
89545205 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:89545213 original size:15 final size:15
Alignment explanation
Indices: 89545136--89545213 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
89545126 AGAAAACCGA
89545136 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
89545151 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
89545165 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
89545180 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
89545196 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
89545211 ATA
1 ATA
89545214 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:89548248 original size:93 final size:93
Alignment explanation
Indices: 89548136--89548306 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
89548126 GCCCATAAGT
* *
89548136 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
89548201 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
89548229 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
89548294 CGAGTTCGGATGC
66 CGAGCTCGGATGC
89548307 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:89548303 original size:46 final size:46
Alignment explanation
Indices: 89548128--89548303 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
89548118 TGTAACCCGC
* *
89548128 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
89548174 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
89548224 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
89548267 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
89548304 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 65 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:89552796 original size:34 final size:34
Alignment explanation
Indices: 89552753--89552851 Score: 126
Period size: 37 Copynumber: 2.8 Consensus size: 34
89552743 AATTAAACTC
*
89552753 ATTTTAGTTAATTGAGTTGCTAGAATAAATACTT
1 ATTTTAGTTAATTGAGTTTCTAGAATAAATACTT
*
89552787 ATTTTAGTTATTAATTGAGTTTCTAGAATAAATGCTT
1 ATTTTAG---TTAATTGAGTTTCTAGAATAAATACTT
* * *
89552824 ATCTTAGTTAATTTAGTTTCTGGAATAA
1 ATTTTAGTTAATTGAGTTTCTAGAATAA
89552852 TGTAACACCC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
34 26 0.46
37 31 0.54
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.46
Consensus pattern (34 bp):
ATTTTAGTTAATTGAGTTTCTAGAATAAATACTT
Found at i:89554287 original size:40 final size:40
Alignment explanation
Indices: 89554206--89554386 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
89554196 AAACCAAGTA
* * *
89554206 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
89554245 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
89554285 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
89554325 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
89554365 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
89554387 CAATCCGAAT
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 27 0.21
40 104 0.79
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:89562339 original size:40 final size:40
Alignment explanation
Indices: 89562262--89562442 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
89562252 AAACCAAGTA
** * *
89562262 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
89562301 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
89562341 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
89562381 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
89562421 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
89562443 CAATCCGAAT
Statistics
Matches: 134, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 26 0.19
40 108 0.81
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:89564222 original size:9 final size:9
Alignment explanation
Indices: 89564210--89564268 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
89564200 AGTTAATTAA
89564210 GTTTAATGT
1 GTTTAATGT
89564219 GTTTAATGT
1 GTTTAATGT
*
89564228 GTTTAACGT
1 GTTTAATGT
* *
89564237 GCTTAAAGT
1 GTTTAATGT
* *
89564246 GCTTAATTT
1 GTTTAATGT
89564255 GTTTTAATGT
1 G-TTTAATGT
89564265 GTTT
1 GTTT
89564269 GTTAATGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
9 35 0.83
10 7 0.17
ACGTcount: A:0.22, C:0.05, G:0.20, T:0.53
Consensus pattern (9 bp):
GTTTAATGT
Found at i:89569464 original size:30 final size:30
Alignment explanation
Indices: 89569429--89569489 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
89569419 TCCTTAACTC
89569429 AAAC-TTTGACAAAATTACAATTTTGCCCCT
1 AAACTTTTG-CAAAATTACAATTTTGCCCCT
* * *
89569459 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
89569489 A
1 A
89569490 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:89570926 original size:19 final size:20
Alignment explanation
Indices: 89570884--89570927 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
89570874 CTATATCAGC
** *
89570884 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
89570904 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
89570923 ACAGT
1 ACAGT
89570928 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:89572958 original size:10 final size:9
Alignment explanation
Indices: 89572935--89572959 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
89572925 TTGGAAATTA
89572935 CAAAAATCC
1 CAAAAATCC
89572944 CAAAAATCC
1 CAAAAATCC
89572953 CAAAAAT
1 CAAAAAT
89572960 TAGGGCGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (9 bp):
CAAAAATCC
Found at i:89577100 original size:25 final size:23
Alignment explanation
Indices: 89577045--89577100 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
89577035 GTTTCGCTAG
89577045 AGAAGAAAAGAAGGAGAAAAAGA
1 AGAAGAAAAGAAGGAGAAAAAGA
*
89577068 AAATAGAAGAAGAGAGGAG-AAAAGA
1 AGA-AGAA-AAGA-AGGAGAAAAAGA
89577093 AGGAAGAA
1 A-GAAGAA
89577101 TTCGGCACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.07
24 4 0.15
25 15 0.56
26 6 0.22
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (23 bp):
AGAAGAAAAGAAGGAGAAAAAGA
Found at i:89580690 original size:43 final size:42
Alignment explanation
Indices: 89580642--89580797 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
89580632 GACATATACA
89580642 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAA-ATCG
* * * *
89580685 ATGCCACTGTCCCAGAC-GGAGTCTTACATGAAATC-AGATACG
1 ATGCCAATGTCCCAGACATG-GTCTTACATGTAATCAAAAT-CG
** * * * * *
89580727 ATG-TGATGTACCAGACATGGCCTTACACGTAAAACATAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGT-AATCA-AAATCG
*
89580770 ATGCCAATGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
89580798 CGAAAACACA
Statistics
Matches: 86, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
41 19 0.22
42 11 0.13
43 35 0.41
44 21 0.24
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAAATCG
Found at i:89580795 original size:85 final size:84
Alignment explanation
Indices: 89580648--89580802 Score: 206
Period size: 85 Copynumber: 1.8 Consensus size: 84
89580638 TACAATGCCA
* * * * *
89580648 ATGTCCCAGACATGGTCTTACATGTAATCAAACATCGATGCCACTGTCCCAGACGGAGTCTTACA
1 ATGTACCAGACATGGCCTTACACGTAAACAAACATCGATGCCAATGTCCCAGACGGAGTCTTACA
*
89580713 TGAAATCAGATACGATGTG
66 CGAAATCAGATACGATGTG
*
89580732 ATGTACCAGACATGGCCTTACACGTAAAACATAA-GTCGATGCCAATGTCCCAGACGTG-GTCTT
1 ATGTACCAGACATGGCCTTACACGT-AAACA-AACATCGATGCCAATGTCCCAGACG-GAGTCTT
89580795 ACACGAAA
63 ACACGAAA
89580803 ACACATATCG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
84 22 0.36
85 36 0.59
86 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (84 bp):
ATGTACCAGACATGGCCTTACACGTAAACAAACATCGATGCCAATGTCCCAGACGGAGTCTTACA
CGAAATCAGATACGATGTG
Found at i:89580823 original size:43 final size:43
Alignment explanation
Indices: 89580633--89580823 Score: 126
Period size: 43 Copynumber: 4.4 Consensus size: 43
89580623 AGCTCATAGG
* * * * *
89580633 ACATATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 ACATAT-CGATGCCTATGTCCCAGACATGGTCTTACACGAAAAC
* * * * *
89580677 AAACATCGATGCC-ACTGTCCCAGAC-GGAGTCTTACATGAAATC
1 ACATATCGATGCCTA-TGTCCCAGACATG-GTCTTACACGAAAAC
* * * *
89580720 AGATA-CGATG--TGATGTACCAGACATGGCCTTACACGTAAA-
1 ACATATCGATGCCT-ATGTCCCAGACATGGTCTTACACGAAAAC
* *
89580760 ACATAAGTCGATGCCAATGTCCCAGACGTGGTCTTACACGAAAAC
1 ACAT-A-TCGATGCCTATGTCCCAGACATGGTCTTACACGAAAAC
89580805 ACATATCGAAT-CCTATGTC
1 ACATATCG-ATGCCTATGTC
89580824 ATGACATATG
Statistics
Matches: 115, Mismatches: 20, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
40 3 0.03
41 20 0.17
42 9 0.08
43 48 0.42
44 31 0.27
45 4 0.03
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ACATATCGATGCCTATGTCCCAGACATGGTCTTACACGAAAAC
Found at i:89594977 original size:43 final size:42
Alignment explanation
Indices: 89594929--89595092 Score: 186
Period size: 43 Copynumber: 3.9 Consensus size: 42
89594919 ATGGAGATGT
*
89594929 GATTACATGTATGACCATGTCTGGGATATTGGCATTATATTGA
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATTATATT-A
* * * *
89594972 GATTACATGTAAGACCATGTCTGGGACATTGGCATCATTAATC
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATTA-TATTA
* * * *
89595015 GATTTCATGTAAGACCCTGTCTGGGATAGTGGCATTGATATTT
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATT-ATATTA
* * *
89595058 GATAACACGTAAGACCATATCTGGGATA-TGGCATT
1 GATTACATGTAAGACCATGTCTGGGATATTGGCATT
89595093 GTACGAGCTA
Statistics
Matches: 102, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 7 0.07
43 91 0.89
44 4 0.04
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGATATTGGCATTATATTA
Found at i:89595081 original size:86 final size:85
Alignment explanation
Indices: 89594929--89595091 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 85
89594919 ATGGAGATGT
* * * * *
89594929 GATTACATGTATGACCATGTCTGGGATATTGGCATTATATTGAGATTACATGTAAGACCATGTCT
1 GATTACATGTAAGACCATGTCTGGGATAGTGGCATTATATTGAGATAACACGTAAGACCATATCT
89594994 GGGACATTGGCATCATTAATC
66 GGGACA-TGGCATCATTAATC
* * *
89595015 GATTTCATGTAAGACCCTGTCTGGGATAGTGGCATTGATATT-TGATAACACGTAAGACCATATC
1 GATTACATGTAAGACCATGTCTGGGATAGTGGCATT-ATATTGAGATAACACGTAAGACCATATC
*
89595079 TGGGATATGGCAT
65 TGGGACATGGCAT
89595092 TGTACGAGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 6 0.09
86 56 0.84
87 5 0.07
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (85 bp):
GATTACATGTAAGACCATGTCTGGGATAGTGGCATTATATTGAGATAACACGTAAGACCATATCT
GGGACATGGCATCATTAATC
Found at i:89600727 original size:40 final size:41
Alignment explanation
Indices: 89600624--89600736 Score: 160
Period size: 41 Copynumber: 2.8 Consensus size: 41
89600614 TTATAATCTT
89600624 GCACACTAAGTGCCTTTCATAGCCGAAGCTATGTCAGTCTC
1 GCACACTAAGTGCCTTTCATAGCCGAAGCTATGTCAGTCTC
*
89600665 GCACACTAAGTGCCTTTCATAGCCGAAGCTAT-TCCGAT-TC
1 GCACACTAAGTGCCTTTCATAGCCGAAGCTATGTCAG-TCTC
* *
89600705 GCACACTAAGTG-CTTTATATAGCTGAAGCTAT
1 GCACACTAAGTGCCTTT-CATAGCCGAAGCTAT
89600737 CTCGGAACGT
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
39 4 0.06
40 30 0.45
41 33 0.49
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (41 bp):
GCACACTAAGTGCCTTTCATAGCCGAAGCTATGTCAGTCTC
Found at i:89602496 original size:31 final size:31
Alignment explanation
Indices: 89602461--89602538 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
89602451 ATGTCCCAAG
* * *
89602461 CCACACGGGCGTGTGAGACGACACGGCCTAC
1 CCACATGGACGTGTGAGACCACACGGCCTAC
*
89602492 CCACATGGATGTGTGAGACCACACGGCCTAC
1 CCACATGGACGTGTGAGACCACACGGCCTAC
89602523 CCACATGGACGTGTGA
1 CCACATGGACGTGTGA
89602539 CCCTCCAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.14
Consensus pattern (31 bp):
CCACATGGACGTGTGAGACCACACGGCCTAC
Found at i:89604853 original size:33 final size:33
Alignment explanation
Indices: 89604778--89604862 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 33
89604768 TTAGGCCTAC
*
89604778 ACTGTTACTGTATAAGGCTAAAGCCCACACTAT
1 ACTGTTACTGTATAGGGCTAAAGCCCACACTAT
* * * * *
89604811 TCTGTTACTGTATAGGGCTAAGGCTCAGACTGT
1 ACTGTTACTGTATAGGGCTAAAGCCCACACTAT
* *
89604844 ACTGATACTGAATAGGGCT
1 ACTGTTACTGTATAGGGCT
89604863 CAGGGCTAGA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (33 bp):
ACTGTTACTGTATAGGGCTAAAGCCCACACTAT
Found at i:89605545 original size:26 final size:27
Alignment explanation
Indices: 89605509--89605599 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
89605499 AGCATAACTG
*
89605509 CCAGAAACAGTAAATGTGGCA-AGCCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
* * *
89605535 CTAGTATCAGTAATTGTGGCATAGCCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
* * *
89605562 CCAGTAACAGTGAATGTGACATAGTCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
89605589 CCAGT-ACAGTA
1 CCAGTAACAGTA
89605600 CTTCCTCCAT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 22 0.42
27 31 0.58
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGGCATAGCCA
Found at i:89605767 original size:27 final size:27
Alignment explanation
Indices: 89605727--89605814 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
89605717 CAGAACATAA
* *
89605727 GGGTATAATCGTCATTTTACCATACAG
1 GGGTATTATGGTCATTTTACCATACAG
* *
89605754 GGGTATTATGGTCATTTTACCCTATAG
1 GGGTATTATGGTCATTTTACCATACAG
* * *
89605781 GGGTATTACGGTCATTTTACGATACAA
1 GGGTATTATGGTCATTTTACCATACAG
89605808 GGGTATT
1 GGGTATT
89605815 TCAGTAATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (27 bp):
GGGTATTATGGTCATTTTACCATACAG
Found at i:89605837 original size:27 final size:25
Alignment explanation
Indices: 89605807--89605876 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 25
89605797 TTACGATACA
*
89605807 AGGGTATTTCAGTAATTTTACAAACC
1 AGGGTATTTC-GTAATTTCACAAACC
*
89605833 GAGGGTATTTCGATAATTTCACAAATC
1 -AGGGTATTTCG-TAATTTCACAAACC
89605860 AGGGGTATTTCTGTAAT
1 A-GGGTATTTC-GTAAT
89605877 GCCCCTAACC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 2 0.05
27 35 0.92
28 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (25 bp):
AGGGTATTTCGTAATTTCACAAACC
Found at i:89606798 original size:39 final size:39
Alignment explanation
Indices: 89606755--89606893 Score: 233
Period size: 39 Copynumber: 3.6 Consensus size: 39
89606745 GAATTTAAGC
*
89606755 CCGGATATAATTCCAGCTCATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
* *
89606794 CCGGATATAATTCCAGCACATAGCTTGCGGACCTAAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
89606833 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
* *
89606872 CCGAATATAATTTCAGCACATA
1 CCGGATATAATTCCAGCACATA
89606894 CAATTATGAT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
Found at i:89614727 original size:40 final size:40
Alignment explanation
Indices: 89614672--89614893 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
89614662 TACTCGGACG
89614672 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
89614712 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
89614752 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
89614792 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
89614832 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
89614872 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
89614894 TACTTGGTTT
Statistics
Matches: 173, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 17 0.10
40 156 0.90
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:89627998 original size:29 final size:30
Alignment explanation
Indices: 89627966--89628023 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
89627956 ATTAGCCAGA
89627966 GCTAG-TTAAATCGCACACTTAGTGCCAAG
1 GCTAGTTTAAATCGCACACTTAGTGCCAAG
*
89627995 GCTAGTTTAAATCGTACACTTAGTGCCAA
1 GCTAGTTTAAATCGCACACTTAGTGCCAA
89628024 AACCTTCGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (30 bp):
GCTAGTTTAAATCGCACACTTAGTGCCAAG
Found at i:89634699 original size:30 final size:29
Alignment explanation
Indices: 89634658--89634715 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
89634648 AGTGGCCAGA
*
89634658 GCTAGTTAAATCGCACATTTAGTGCCAAG
1 GCTAGTTAAATCGCACACTTAGTGCCAAG
89634687 GCTAGTTTAAATCGCACACTTAGTGCCAA
1 GCTAG-TTAAATCGCACACTTAGTGCCAA
89634716 AACTTTCGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (29 bp):
GCTAGTTAAATCGCACACTTAGTGCCAAG
Found at i:89639570 original size:55 final size:55
Alignment explanation
Indices: 89639486--89639619 Score: 180
Period size: 55 Copynumber: 2.5 Consensus size: 55
89639476 GTGCCTTAAT
* * * * *
89639486 CCCGTGTGCAACACTAACTTTAAAACACGGCTATGGCATACGCCCGTGTGGCCTG
1 CCCGTGTACAAAACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTGGCCTG
* **
89639541 CCCGTGTACAATACTGACTTTAAAACACGGCCATGGCACACGCTTGTGTGGCCTG
1 CCCGTGTACAAAACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTGGCCTG
*
89639596 CCCGTGTACAAAAATGAC-TTAAAA
1 CCCGTGTACAAAACTGACTTTAAAA
89639620 TTTTAAGTGC
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 6 0.09
55 64 0.91
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (55 bp):
CCCGTGTACAAAACTGACTTTAAAACACGGCCATGGCACACGCCCGTGTGGCCTG
Found at i:89640238 original size:48 final size:48
Alignment explanation
Indices: 89640177--89640274 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
89640167 TTACTTATGC
*
89640177 ATACTAAATAGGTACTTGTACCACTCACAACATTATTATACTTACCTT
1 ATACTAAATAGGTACCTGTACCACTCACAACATTATTATACTTACCTT
89640225 ATACTAAATAGGTACCTGTACCACTCACAACATTATTATACTTACCTT
1 ATACTAAATAGGTACCTGTACCACTCACAACATTATTATACTTACCTT
89640273 AT
1 AT
89640275 TAAATCACTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (48 bp):
ATACTAAATAGGTACCTGTACCACTCACAACATTATTATACTTACCTT
Found at i:89640626 original size:48 final size:46
Alignment explanation
Indices: 89640546--89640675 Score: 154
Period size: 48 Copynumber: 2.8 Consensus size: 46
89640536 CACCGTCGAG
* * *
89640546 GCCGATGCGTGTCCCAGACATGTCTTACACTGGCACTCAT-CTCTAC
1 GCCGATGCATCTCCCAGACATGTCTTACACTGGCACTCATAATCT-C
* ** * *
89640592 GCCGATGCCATGTCTTAGACATGGTCTTACACTGGCACTCATAATGTG
1 GCCGATG-CATCTCCCAGACAT-GTCTTACACTGGCACTCATAATCTC
89640640 GCCGATGCATCTCCCAGACATGTCTTACACTGGCAC
1 GCCGATGCATCTCCCAGACATGTCTTACACTGGCAC
89640676 ACAAGAAATT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 22 0.31
47 22 0.31
48 26 0.36
49 2 0.03
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (46 bp):
GCCGATGCATCTCCCAGACATGTCTTACACTGGCACTCATAATCTC
Found at i:89641044 original size:30 final size:30
Alignment explanation
Indices: 89641003--89641060 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
89640993 AAATTCACAT
* * *
89641003 CTTTGGTAAAATGGCCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
89641033 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
89641061 TGCTCAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:89642324 original size:43 final size:43
Alignment explanation
Indices: 89642276--89642423 Score: 158
Period size: 43 Copynumber: 3.4 Consensus size: 43
89642266 CTCATATATA
* * *
89642276 GTCTTACATGTTATCACATATCGATGCCGATAGCCCAG-CTATG
1 GTCTTACACGTAATCACATATCGATGCCAATAGCCCAGAC-ATG
* * * *
89642319 GTCTTACACGAAATCAAATAACGATGCCAAT-GTCCTAGACATG
1 GTCTTACACGTAATCACATATCGATGCCAATAG-CCCAGACATG
* *
89642362 GTCTTACACGTAATCTCATAAT-GATGCCAATATCCCAGACATG
1 GTCTTACACGTAATCACAT-ATCGATGCCAATAGCCCAGACATG
*
89642405 GTCTTACACATAATCACAT
1 GTCTTACACGTAATCACAT
89642424 CTCATTAATC
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 83 0.97
44 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
GTCTTACACGTAATCACATATCGATGCCAATAGCCCAGACATG
Found at i:89646172 original size:6 final size:6
Alignment explanation
Indices: 89646154--89646299 Score: 120
Period size: 6 Copynumber: 23.8 Consensus size: 6
89646144 AAGAAATATT
*
89646154 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
89646201 GTGACAGA ATCAAA ATCAGA ATCAGT ATCAGT ATCAAGTA A-CAGA ATCAAA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA
* * *
89646252 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
89646300 GTAACAGAAT
Statistics
Matches: 114, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
5 6 0.05
6 95 0.83
7 10 0.09
8 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:89646212 original size:31 final size:31
Alignment explanation
Indices: 89646154--89646314 Score: 175
Period size: 31 Copynumber: 5.0 Consensus size: 31
89646144 AAGAAATATT
*
89646154 ATCAGAA-CTAGAATCA-G-AATCAGAATCAGA
1 ATCAGAATC-AGAATCAGGTAA-CAGAATCAAA
* *
89646184 ATTAGAATCAGAATCAGGTGACAGAATCAAA
1 ATCAGAATCAGAATCAGGTAACAGAATCAAA
*
89646215 ATCAGAATCAGTATCAGTATCAAGTAACAGAATCAAA
1 ATCAGAATCAG----A--ATCAGGTAACAGAATCAAA
*
89646252 ATCAGAATCAGTATCAGGTAACAGAATCAAA
1 ATCAGAATCAGAATCAGGTAACAGAATCAAA
*
89646283 ATCAGAATCAGTATCAGGTAACAGAATCAAA
1 ATCAGAATCAGAATCAGGTAACAGAATCAAA
89646314 A
1 A
89646315 ATAAGAATGT
Statistics
Matches: 114, Mismatches: 8, Indels: 17
0.82 0.06 0.12
Matches are distributed among these distances:
30 13 0.11
31 71 0.62
32 1 0.01
35 1 0.01
37 28 0.25
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGGTAACAGAATCAAA
Found at i:89646218 original size:37 final size:37
Alignment explanation
Indices: 89646168--89646299 Score: 159
Period size: 37 Copynumber: 3.7 Consensus size: 37
89646158 GAACTAGAAT
* * * *
89646168 CAGAATCAGAATCAGAATTAGAATCAGAATCAGGTGA
1 CAGAATCAAAATCAGAATCAGAATCAGTATCAGGTAA
* *
89646205 CAGAATCAAAATCAGAATCAGTATCAGTATCAAGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGTATCAGGTAA
89646242 CAGAATC---A--A-AATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGTATCAGGTAA
*
89646273 CAGAATCAAAATCAGAATCAGTATCAG
1 CAGAATCAAAATCAGAATCAGAATCAG
89646300 GTAACAGAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
31 27 0.34
32 1 0.01
34 2 0.03
36 1 0.01
37 49 0.61
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.20
Consensus pattern (37 bp):
CAGAATCAAAATCAGAATCAGAATCAGTATCAGGTAA
Found at i:89646278 original size:19 final size:19
Alignment explanation
Indices: 89646254--89646311 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
89646244 GAATCAAAAT
89646254 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
89646273 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
89646285 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
89646304 CAGAATCA
1 CAGAATCA
89646312 AAAATAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:89646501 original size:27 final size:26
Alignment explanation
Indices: 89646462--89646525 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
89646452 CATTTATCAT
* * *
89646462 ATATTGTGACAGAGTCACTAGATACAG
1 ATATTGTGGCAGAGCCACCAGA-ACAG
89646489 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAGAACAG
*
89646515 ATAATGTGGCA
1 ATATTGTGGCA
89646526 AATCCACTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAGAACAG
Found at i:89646719 original size:22 final size:22
Alignment explanation
Indices: 89646691--89646755 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
89646681 GCAAATACGT
*
89646691 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
89646713 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
89646735 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
89646756 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:89647239 original size:27 final size:27
Alignment explanation
Indices: 89647181--89647618 Score: 481
Period size: 27 Copynumber: 16.3 Consensus size: 27
89647171 AGGGGCAAAA
* * *
89647181 TGGTAATTTTACCCTACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
89647207 TGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
89647234 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
89647261 CGGTAATTTTACCCTACAGGGGTATTA
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
89647288 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
** * * *
89647315 CAGTAATTCTACCCTATA-AGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
*
89647341 TAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
89647368 TGGTAATTCTACCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
89647395 CGGTAATTATACCTTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
89647422 TGATAATTCCACCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
89647449 CGGTAATTCTACCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
89647476 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
89647503 CGGTAATTCTATCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
89647530 TAGTAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* **
89647557 CGGTAATT-T-CACAAATCAGGGGTATTT
1 TGGTAATTCTAC-CCTA-CAGGGGTATTT
* **
89647584 TGGTAATTTTA-CAAACTAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
89647611 TGGTAATT
1 TGGTAATT
89647619 TTATTGATCG
Statistics
Matches: 354, Mismatches: 51, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
25 1 0.00
26 42 0.12
27 310 0.88
28 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:89647619 original size:27 final size:26
Alignment explanation
Indices: 89647549--89648103 Score: 142
Period size: 27 Copynumber: 20.7 Consensus size: 26
89647539 TACCCTACAA
* *
89647549 GGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAAT-AG
89647576 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAA-TAG
*** *
89647603 GGGTATTTTGGTAATTTTATTGATCG
1 GGGTATTTTGGTAATTTTACAAATAG
** * *
89647629 AGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTACAAA-TAG
** ** *
89647657 GGGTATTTCAGTAATTTTGTAAATCG
1 GGGTATTTTGGTAATTTTACAAATAG
**** * ** *
89647683 AGGGTAAAAGGGTAATTCTGTAAATTG
1 -GGGTATTTTGGTAATTTTACAAATAG
**** * * *
89647710 AGGGTAAGACGGTAATTCTATAAATCG
1 -GGGTATTTTGGTAATTTTACAAATAG
*** * * *
89647737 AGGGTAAAATGGTAATTCTATAAATCG
1 -GGGTATTTTGGTAATTTTACAAATAG
*** * ** *
89647764 AGGGTAAAATGGTAATTCTATCTTACAG
1 -GGGTATTTTGGTAATTTTA-CAAATAG
* *** *
89647792 GAGTATTTCAATAATTTTACAAATCG
1 GGGTATTTTGGTAATTTTACAAATAG
**
89647818 AGGGTATTTTAATAATTTTACAAACT-G
1 -GGGTATTTTGGTAATTTTACAAA-TAG
* *
89647845 AGGGTATTTCGGTAATTTTACAAATCG
1 -GGGTATTTTGGTAATTTTACAAATAG
* * * * *
89647872 AGGATATTTGGGTAACTTTATAAATCGG
1 -GGGTATTTTGGTAATTTTACAAAT-AG
* * * *
89647900 GGGTACTTTAGTAATTTTACAAGTCG
1 GGGTATTTTGGTAATTTTACAAATAG
*** *
89647926 AGGGTATTTCAATAATTTTACAAATCG
1 -GGGTATTTTGGTAATTTTACAAATAG
** * *
89647953 AGGGTATTTCAGTAATTTTGCAAAATAA
1 -GGGTATTTTGGTAATTTTAC-AAATAG
*
89647981 GGGTATTTTGGTAATTTTACAAATCG
1 GGGTATTTTGGTAATTTTACAAATAG
* ** * *
89648007 AGTGTATTTCAGTAATTTTGC-AATCG
1 -GGGTATTTTGGTAATTTTACAAATAG
** * ** *
89648033 ACAGTATTTCGGTAATTTTGTAAACCAG
1 -GGGTATTTTGGTAATTTTACAAA-TAG
* * *
89648061 GGGTACTTTGGTAATTTTACAACTGG
1 GGGTATTTTGGTAATTTTACAAATAG
**
89648087 GGGTATTTCAGTAATTT
1 GGGTATTTTGGTAATTT
89648104 GGTAAACTAA
Statistics
Matches: 414, Mismatches: 100, Indels: 29
0.76 0.18 0.05
Matches are distributed among these distances:
26 48 0.12
27 356 0.86
28 10 0.02
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATAG
Found at i:89647633 original size:81 final size:81
Alignment explanation
Indices: 89647548--89648103 Score: 337
Period size: 81 Copynumber: 6.9 Consensus size: 81
89647538 CTACCCTACA
* * *
89647548 AGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTT
1 AGGGTATTTCGGTAATTTCATAAATCAGGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTC
**
89647612 GGTAATTTTATTGATCG
65 GGTAATTTTATAAATCG
* ** * * ** ** ****
89647629 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAAGG
1 AGGGTATTTCGGTAATTTCATAAATCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCG
* * *
89647694 GTAATTCTGTAAATTG
66 GTAATTTTATAAATCG
*** *** * * **
89647710 AGGGTAAGACGGTAA-TTCTATAAATC-GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
1 AGGGTATTTCGGTAATTTC-ATAAATCAG-GGGTATTTTGGTAATTTTACAAATCGAGGGT-ATT
* **
89647773 T-GGTAATTCTAT-CTTAC-
63 TCGGTAATTTTATAAAT-CG
** * * **
89647790 AGGAGTATTTCAATAATTTTACAAATC-GAGGGTATTTTAATAATTTTACAAA-CTGAGGGTATT
1 AGG-GTATTTCGGTAATTTCATAAATCAG-GGGTATTTTGGTAATTTTACAAATC-GAGGGTATT
*
89647853 TCGGTAATTTTACAAATCG
63 TCGGTAATTTTATAAATCG
* * * * * *
89647872 AGGATATTTGGGTAACTTT-ATAAATCGGGGGTACTTTAGTAATTTTACAAGTCGAGGGTATTTC
1 AGGGTATTTCGGTAA-TTTCATAAATCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTC
** *
89647936 AATAATTTTACAAATCG
65 GGTAATTTTATAAATCG
* * *
89647953 AGGGTATTTCAGTAATTTTGCA-AAAT-AAGGGTATTTTGGTAATTTTACAAATCGAGTGTATTT
1 AGGGTATTTCGGTAA-TTT-CATAAATCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTT
* **
89648016 CAGTAATTTT-GCAATCG
64 CGGTAATTTTATAAATCG
** ** * * * * *
89648033 ACAGTATTTCGGTAATTTTGTAAACCAGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCA
1 AGGGTATTTCGGTAATTTCATAAATCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCG
89648097 GTAATTT
66 GTAATTT
89648104 GGTAAACTAA
Statistics
Matches: 363, Mismatches: 94, Indels: 38
0.73 0.19 0.08
Matches are distributed among these distances:
79 23 0.06
80 49 0.13
81 270 0.74
82 20 0.06
83 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTTCATAAATCAGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCG
GTAATTTTATAAATCG
Found at i:89647661 original size:54 final size:54
Alignment explanation
Indices: 89647546--89648103 Score: 234
Period size: 54 Copynumber: 10.4 Consensus size: 54
89647536 TTCTACCCTA
* * *
89647546 CAAGGGTATTTCGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTACAAAC
* * ** ** **
89647600 TAGGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
* **** * ** *
89647654 CAAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAAGGGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
** *** * * *** * * *
89647708 TGAGGGTAAGACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAAT
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
* ** * * ** *** *
89647762 CGAGGGTAAAAT-GGTAATTCTAT-CTTAC-AGGAGTATTTCAATAATTTTACAAAT
1 CAAGGGT-ATTTCAGTAATTTTATAAAT-CGAGG-GTATTTTGGTAATTTTACAAAC
* * * * * *
89647816 CGAGGGTATTTTAATAATTTTACAAA-CTGAGGGTATTTCGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTATAAATC-GAGGGTATTTTGGTAATTTTACAAAC
* * ** * * * * **
89647870 CGAGGATATTTGGGTAACTTTATAAATCGGGGGTACTTTAGTAATTTTACAAGT
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
* * * ** * *
89647924 CGAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAAA
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
* ** * * ** * *
89647978 TAAGGGTATTTTGGTAATTTTACAAATCGAGTGTATTTCAGTAATTTTGCAATC
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
* * * * *
89648032 GACA--GTATTTCGGTAATTTTGTAAA-CCAGGGGTACTTTGGTAATTTTAC-AAC
1 CA-AGGGTATTTCAGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTACAAAC
***
89648084 TGGGGGTATTTCAGTAATTT
1 CAAGGGTATTTCAGTAATTT
89648104 GGTAAACTAA
Statistics
Matches: 390, Mismatches: 101, Indels: 27
0.75 0.19 0.05
Matches are distributed among these distances:
52 4 0.01
53 54 0.14
54 324 0.83
55 8 0.02
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
Found at i:89650872 original size:47 final size:47
Alignment explanation
Indices: 89650798--89651027 Score: 198
Period size: 47 Copynumber: 4.8 Consensus size: 47
89650788 ATAGGGTATA
* *
89650798 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATACATC
* * *
89650845 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATTGAAATC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-T-ACATC
* * * * *
89650893 AAGGTCGACGCCATGTACCAGACATGGTCTTACACTAGCTC-TCACGTATTC
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-AC--A-TC
* * * * * *
89650944 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTTATATT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATACATC
* *
89650991 GTGGCCGATG-CATGTCTCAGACAT-GTCTTACACTGGC
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
89651028 ACACAAATAA
Statistics
Matches: 149, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
46 13 0.09
47 52 0.35
48 13 0.09
49 34 0.23
50 34 0.23
51 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATACATC
Found at i:89650919 original size:49 final size:47
Alignment explanation
Indices: 89650806--89650983 Score: 164
Period size: 49 Copynumber: 3.7 Consensus size: 47
89650796 TAATGCTGAT
* ** * *
89650806 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCATGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATAAATCAGGTCGAC
89650853 GCCATGTCCCAGACATGGTCTTACACTGACT-ATTGAAATCAAGGTCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCA-T-AAATC-AGGTCGAC
* * * * *
89650902 GCCATGTACCAGACATGGTCTTACACTAGCTCTCACGT-ATTC-GTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-G-ACTCA--TAAATCAG-GTCGAC
*
89650952 GCCATGTCCCAAACATGGTCTTACACTGACTC
1 GCCATGTCCCAGACATGGTCTTACACTGACTC
89650984 TTATATTGTG
Statistics
Matches: 109, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
46 1 0.01
47 31 0.28
48 6 0.06
49 34 0.31
50 30 0.28
51 5 0.05
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATAAATCAGGTCGAC
Found at i:89650974 original size:99 final size:96
Alignment explanation
Indices: 89650806--89650982 Score: 266
Period size: 99 Copynumber: 1.8 Consensus size: 96
89650796 TAATGCTGAT
* * * *
89650806 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCATGTCGATGCCATGTCCCAGACATGG
1 GCCATGTACCAGACATGGTCTTACACTAGCTCATCCATCATGCCGATGCCATGTCCCAAACATGG
89650871 TCTTACACTGACTATTGAAATCAAGGTCGAC
66 TCTTACACTGACTATTGAAATCAAGGTCGAC
*
89650902 GCCATGTACCAGACATGGTCTTACACTAGCTC-TCACGTATTCGTGCCGATGCCATGTCCCAAAC
1 GCCATGTACCAGACATGGTCTTACACTAGCTCATC-C--A-TCATGCCGATGCCATGTCCCAAAC
89650966 ATGGTCTTACACTGACT
62 ATGGTCTTACACTGACT
89650983 CTTATATTGT
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
95 2 0.03
96 31 0.43
98 1 0.01
99 38 0.53
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (96 bp):
GCCATGTACCAGACATGGTCTTACACTAGCTCATCCATCATGCCGATGCCATGTCCCAAACATGG
TCTTACACTGACTATTGAAATCAAGGTCGAC
Found at i:89651584 original size:30 final size:30
Alignment explanation
Indices: 89651550--89651624 Score: 132
Period size: 30 Copynumber: 2.5 Consensus size: 30
89651540 CACTTTTTGG
*
89651550 CAAAATGACCATTTTGCCCCTAGACTTTCA
1 CAAAATGACCATTTTGCCCCAAGACTTTCA
*
89651580 CAAAATGACCATTTTGCCCCAAGGCTTTCA
1 CAAAATGACCATTTTGCCCCAAGACTTTCA
89651610 CAAAATGACCATTTT
1 CAAAATGACCATTTT
89651625 ACCCTTAGGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.29
Consensus pattern (30 bp):
CAAAATGACCATTTTGCCCCAAGACTTTCA
Found at i:89653357 original size:33 final size:32
Alignment explanation
Indices: 89653316--89653398 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 32
89653306 TTTCATGGCC
* *
89653316 CAGCTATGGTCTTACATTAGTAGTGCCATAACCT
1 CAGCTATGGTCTTACATCA-AAGTGCCAT-ACCT
* * *
89653350 -AGTTATGGCCTTATCATCAAAGTGCCATAGCT
1 CAGCTATGGTCTTA-CATCAAAGTGCCATACCT
89653382 CAGCTATGGTCTTACAT
1 CAGCTATGGTCTTACAT
89653399 ATAAATATTG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
32 6 0.15
33 30 0.75
34 4 0.10
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (32 bp):
CAGCTATGGTCTTACATCAAAGTGCCATACCT
Found at i:89657625 original size:23 final size:22
Alignment explanation
Indices: 89657582--89657639 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
89657572 AAAAGGTATC
* *
89657582 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
89657603 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
89657626 TGCATATCATATCT
1 TACAAATCATATCT
89657640 AAAATTGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:89657633 original size:17 final size:19
Alignment explanation
Indices: 89657618--89657689 Score: 105
Period size: 17 Copynumber: 3.9 Consensus size: 19
89657608 AATCATATCT
89657618 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
89657637 TCTAAAATTGTA-ATCATA
1 TCTAAGATTGCATATCATA
89657655 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
89657672 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
89657690 TGAAGATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 16 0.34
18 15 0.32
19 16 0.34
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:89658118 original size:45 final size:45
Alignment explanation
Indices: 89658069--89658328 Score: 249
Period size: 45 Copynumber: 5.8 Consensus size: 45
89658059 GCTATTTTTG
** *
89658069 ATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTTATCTTCA
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCTGTTATCTTCA
* *
89658114 ATCTGCTCCCCATCTAATATAGAGATGCCAAATCTGCT-TCTTCA
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCTGTTATCTTCA
* *
89658158 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATC-TCTG
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCTGTTATCTTC-A
* * * **
89658203 ATTTGCTCCCCATCTAATACAGAGATGCCAAATCTGTCATATTGG
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAATCTGTTATCTTCA
* * * * * * * * *
89658248 ATCTGCT-TCGATGTAA-ACACATGAAGGTCAGATCTGCTATGTCTTCG
1 ATCTGCTCCCCATCTAATACAGA-G-ATGCCAAATCTG-T-TATCTTCA
*
89658295 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 ATCTGCTCCCCATCTAATACAGAGATGCCAAATC
89658329 ATCTTGGATC
Statistics
Matches: 172, Mismatches: 34, Indels: 16
0.77 0.15 0.07
Matches are distributed among these distances:
43 4 0.02
44 50 0.29
45 88 0.51
46 2 0.01
47 18 0.10
48 6 0.03
49 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCCCATCTAATACAGAGATGCCAAATCTGTTATCTTCA
Found at i:89658173 original size:89 final size:89
Alignment explanation
Indices: 89658069--89658238 Score: 279
Period size: 89 Copynumber: 1.9 Consensus size: 89
89658059 GCTATTTTTG
*
89658069 ATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTTATCT-TCAATCTGCTCCCCATCTAATA
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCT-AATCTGCTCCCCATCTAATA
*
89658133 TAGAGATGCCAAATCTGCTTCTTCA
65 CAGAGATGCCAAATCTGCTTCTTCA
* * *
89658158 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCTGATTTGCTCCCCATCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCTAATCTGCTCCCCATCTAATAC
89658223 AGAGATGCCAAATCTG
66 AGAGATGCCAAATCTG
89658239 TCATATTGGA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
89 74 0.99
90 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.31
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCTAATCTGCTCCCCATCTAATAC
AGAGATGCCAAATCTGCTTCTTCA
Found at i:89658233 original size:134 final size:136
Alignment explanation
Indices: 89658067--89658328 Score: 316
Period size: 134 Copynumber: 1.9 Consensus size: 136
89658057 CTGCTATTTT
** * *
89658067 TGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTTATCTTCAATCTGCTCCCCATCT-AA
1 TGATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTCATATTCAATCTGCT-CCCATCTAAA
* * *
89658131 TATA-GAGATGCCAAATCTGC-T-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCT
65 CACATGA-AGGCCAAATCTGCATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCT
89658193 GTTATCTC
129 GTTATCTC
* * ** * * *
89658201 TGATTTGCTCCCCATCTAATACAGAGATGCCAAATCTGTCATATTGGATCTGCTTCGATGTAAAC
1 TGATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTCATATTCAATCTGCTCCCATCTAAAC
* * *
89658266 ACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
66 ACATGAAGGCCAAATCTGC-ATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
89658329 ATCTTGGATC
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
133 4 0.04
134 60 0.57
135 2 0.02
136 1 0.01
137 39 0.37
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (136 bp):
TGATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTCATATTCAATCTGCTCCCATCTAAAC
ACATGAAGGCCAAATCTGCATGTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
TATCTC
Found at i:89658505 original size:78 final size:78
Alignment explanation
Indices: 89658268--89658561 Score: 457
Period size: 78 Copynumber: 3.8 Consensus size: 78
89658258 ATGTAAACAC
*
89658268 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
89658333 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* ** *
89658346 ATAAAGGTCCA-ATCTATTATGTCTTTGATCTGCTCCCCATCTAATACAGAG-TGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
89658409 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
89658423 ATGAAGGTCAGATCTGCTGTGTCTTTGATCTGTTCCTCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
89658488 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * **
89658501 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCTCTGTCTAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
89658562 TATTTCTTCG
Statistics
Matches: 194, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
76 2 0.01
77 67 0.35
78 123 0.63
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:89658918 original size:222 final size:219
Alignment explanation
Indices: 89658503--89658918 Score: 552
Period size: 222 Copynumber: 1.9 Consensus size: 219
89658493 CTGCTTCAAT
* * *
89658503 GAAGGTCAGATCTGCTATGTCTTTGATCTGCTCTCTGTCTAATATGGAGATGCCAAATCTATTTC
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTC
* * * * *
89658568 TTCGATTTGTTCTCTGAAAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCATAAACACG
66 TTCAATCTGCTCTCTGAAAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAACATAAACAAG
** ** *
89658633 TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTG
131 TGAAAGCCAAATCTGCTATGTCTTCAATCTGCTCCTTCCAAACG-AAGGACGCCAAATCATCTTG
89658698 GATCTACTTCGATGTGAAAACATCC
195 GATCTACTTCGATGTGAAAACATCC
* * *
89658723 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATTTGTTAT
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATT-T
* *
89658788 CTTCAATCTGCTCTCTGACAA-TACAGAGATGCCAAATCATCTTTAGATTTGCTTCAACGTAAAC
65 CTTCAATCTGCTCTCTGA-AAGTACAGAGATGCCAAATCATC-TTAGATCTGCTTCAACATAAAC
* *
89658852 AAGTGAAAGGCAAAT-TATCTATGTCTTCAATCTGCTCCCTTCCAATAC--AGAGACGCCAAATC
128 AAGTGAAAGCCAAATCT-GCTATGTCTTCAATCTGCT-CCTTCCAA-ACGAAG-GACGCCAAATC
89658914 ATCTT
189 ATCTT
89658919 AGATTTGCTT
Statistics
Matches: 169, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
220 57 0.34
221 39 0.23
222 65 0.38
223 6 0.04
224 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (219 bp):
GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTC
TTCAATCTGCTCTCTGAAAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAACATAAACAAG
TGAAAGCCAAATCTGCTATGTCTTCAATCTGCTCCTTCCAAACGAAGGACGCCAAATCATCTTGG
ATCTACTTCGATGTGAAAACATCC
Found at i:89658961 original size:87 final size:87
Alignment explanation
Indices: 89658787--89659451 Score: 672
Period size: 87 Copynumber: 7.6 Consensus size: 87
89658777 AAATTTGTTA
* * * *
89658787 TCTTCAATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTTAGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATC-TTAGATTTGCTTCAACGTAAAC
* * * *
89658852 AAGTGAAAGGCAAATTATCTATG
65 ACGTGAAAGCCAAATCAGCTATG
* *
89658875 TCTTCAATCTGCTCCCTTCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
*
89658940 CGTGAAAACCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* * * *
89658962 TCCTCGATCTGTTCCCTGCCAATACAGAGACGCCAAATCATCCTAGATTTGCTTCAACATAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
*
89659027 AGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* * *
89659049 TCTTCGATCTGCTCACTGCCAATACAGAGACTCCAAATCATCTTAGATTTGCTTCAATGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
89659114 CGTGAAAGCC-AATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* * * * * *
89659135 TCCTCGATCTGCTCCCTTCCAATACAGAGACGCCAAATCTGCTGTCTTTGATCTG-TTC-TCTGC
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAA--T-C-ATCTTAGATTTGCTTCAAC-G-
* * * * *
89659198 CAATACA-GAG-ATGCCAAATCTG-T-TA
60 TAA-ACACGTGAAAGCCAAATCAGCTATG
* * *
89659223 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
* *
89659288 CGTGAAAACCAAATCAGTTATG
66 CGTGAAAGCCAAATCAGCTATG
* * * * ** *
89659310 TCTTCGATCTGCTCCCTGCCAATATAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGC-C
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC----ATCTTAGATTTGCT-TCAACGT
* * *
89659374 AATACA-GAG-ATGCCAAATCTG-TCA--
61 AA-ACACGTGAAAGCCAAATCAGCT-ATG
* * *
89659398 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTTGGATCTGCTT
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTT
89659452 TAGTGTAAAA
Statistics
Matches: 486, Mismatches: 70, Indels: 47
0.81 0.12 0.08
Matches are distributed among these distances:
83 4 0.01
84 26 0.05
85 14 0.03
86 47 0.10
87 222 0.46
88 109 0.22
89 11 0.02
90 28 0.06
91 19 0.04
92 6 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:89659201 original size:44 final size:44
Alignment explanation
Indices: 89659138--89659436 Score: 270
Period size: 44 Copynumber: 6.8 Consensus size: 44
89659128 AGCTATGTCC
* * *
89659138 TCGATCTGCTCCCTTCCAATACAGAGACGCCAAATCTGCTGTCT
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCT
* * * *
89659182 TTGATCTGTTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCT
*
89659226 TCGATCTGCTCTCTGACAATACAGAGACGCCAAA--T-C-ATCT
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCT
* * ** * * ** * *
89659266 TGGATTTGCT-TCAACGTAA-ACACGTGAAAACCAAATCAGTTATGTCT
1 TCGATCTGCTCTCTGC-CAATACA-GAG-ACGCCAAATCTGCTA--TCT
* * * *
89659313 TCGATCTGCTCCCTGCCAATATAGAGATGCCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCT
*
89659357 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTG-TCATCT
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCT-ATCT
* *
89659401 TCGATCTGCTCCCTGACAATACAGAGACGCCAAATC
1 TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATC
89659437 ATCTTGGATC
Statistics
Matches: 204, Mismatches: 39, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
39 5 0.02
40 16 0.08
41 6 0.03
42 1 0.00
43 1 0.00
44 143 0.70
45 1 0.00
46 12 0.06
47 15 0.07
48 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (44 bp):
TCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTATCT
Found at i:89659406 original size:175 final size:174
Alignment explanation
Indices: 89658875--89659451 Score: 754
Period size: 175 Copynumber: 3.3 Consensus size: 174
89658865 ATTATCTATG
* **
89658875 TCTTCAATCTGCTCCCTTCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
*
89658940 CGTGAAAACCAAATCAGCTATGTCCTCGATCTGTTCCCTGCCAATACAGAGACGCCAAATC---A
66 CGTGAAAACCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGTA
* * ** * * * *
89659002 TCCTAGATTTGCT-TC-AACATAAACAAGTGAAAGCCAAATCAG-CTA
131 TCTTAGATCTGCTCTCTGCCA-ATAC-AGAG-ATGCCAAATCTGTC-A
* * * *
89659047 TGTCTTCGATCTGCTCACTGCCAATACAGAGACTCCAAATCATCTTAGATTTGCTTCAATGTAAA
1 --TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
* *
89659112 CACGTGAAAGCC-AATCAGCTATGTCCTCGATCTGCTCCCTTCCAATACAGAGACGCCAAATCTG
64 CACGTGAAAACCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTG
* * * *
89659176 CTGTCTTTGATCTGTTCTCTGCCAATACAGAGATGCCAAATCTGTTA
129 -TATCTTAGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCA
* *
89659223 TCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
* * * *
89659288 CGTGAAAACCAAATCAGTTATGTCTTCGATCTGCTCCCTGCCAATATAGAGATGCCAAATCTGTT
66 CGTGAAAACCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTG-T
*
89659353 ATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCA
130 ATCTTAGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCA
* *
89659398 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTTGGATCTGCTT
1 TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTT
89659452 TAGTGTAAAA
Statistics
Matches: 357, Mismatches: 38, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
173 48 0.13
174 138 0.39
175 141 0.39
176 11 0.03
177 12 0.03
178 5 0.01
179 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (174 bp):
TCTTCGATCTGCTCCCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
CGTGAAAACCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGTA
TCTTAGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCA
Found at i:89665656 original size:17 final size:17
Alignment explanation
Indices: 89665634--89665667 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
89665624 TATCATATCA
89665634 TATCATACCTAAAATTG
1 TATCATACCTAAAATTG
* *
89665651 TATCATATCTAAGATTG
1 TATCATACCTAAAATTG
89665668 CATATCACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (17 bp):
TATCATACCTAAAATTG
Found at i:89665679 original size:19 final size:19
Alignment explanation
Indices: 89665651--89665692 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
89665641 CCTAAAATTG
*
89665651 TATCATATCTAAGATTGCA
1 TATCACATCTAAGATTGCA
89665670 TATCACATCTAAGATTGCA
1 TATCACATCTAAGATTGCA
89665689 TATC
1 TATC
89665693 CTTCATATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (19 bp):
TATCACATCTAAGATTGCA
Found at i:89666516 original size:55 final size:58
Alignment explanation
Indices: 89666457--89666582 Score: 168
Period size: 55 Copynumber: 2.2 Consensus size: 58
89666447 TTTTAAAAAG
* * * * *
89666457 ATTATTATTAAAAATATTTTAATAAAA-AATA-ATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAAAACAATTTAATAAAATAATATATAAATTAATAACATTCTTAACATA
* *
89666512 ATTATTATTAAATACAATTTAATAAAATAATATATAAATTAATAACATTCTTAATATA
1 ATTATTATTAAAAACAATTTAATAAAATAATATATAAATTAATAACATTCTTAACATA
89666570 ATTATTATTAAAA
1 ATTATTATTAAAA
89666583 TATGAATTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
55 24 0.40
56 4 0.07
57 13 0.22
58 19 0.32
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAAAACAATTTAATAAAATAATATATAAATTAATAACATTCTTAACATA
Found at i:89666613 original size:58 final size:55
Alignment explanation
Indices: 89666457--89666613 Score: 142
Period size: 58 Copynumber: 2.8 Consensus size: 55
89666447 TTTTAAAAAG
* * * *
89666457 ATTATTATTAAAA-ATATTTTAATAAAAA-ATAATAATTTAATCATATTTTAACATA
1 ATTATTATTAAAATATA-ATTAATAAAAATATAAT-ATATAATAACATTTTAACATA
* * *
89666512 ATTATTATT-AAATACAATTTAAT-AAAATAATATATAAATTAATAACATTCTTAATATA
1 ATTATTATTAAAATATAA-TTAATAAAAAT-ATA-ATATA-TAATAACATT-TTAACATA
89666570 ATTATTATTAAAATATGAATTAATAAAAATCATAATATATAATA
1 ATTATTATTAAAATAT-AATTAATAAAAAT-ATAATATATAATA
89666614 TTATAGAAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
54 7 0.09
55 16 0.20
56 4 0.05
57 10 0.12
58 21 0.26
59 14 0.17
60 10 0.12
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (55 bp):
ATTATTATTAAAATATAATTAATAAAAATATAATATATAATAACATTTTAACATA
Found at i:89668191 original size:15 final size:16
Alignment explanation
Indices: 89668166--89668199 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
89668156 ACCTTAATAT
89668166 AAATAATAAAAGAAAC
1 AAATAATAAAAGAAAC
*
89668182 AAAT-ATAAAAGCAAC
1 AAATAATAAAAGAAAC
89668197 AAA
1 AAA
89668200 GAATTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.12
Consensus pattern (16 bp):
AAATAATAAAAGAAAC
Found at i:89675030 original size:37 final size:37
Alignment explanation
Indices: 89674971--89675079 Score: 166
Period size: 37 Copynumber: 2.9 Consensus size: 37
89674961 AGCTCAGACG
*
89674971 AAATCTCCACACGA-AGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACAC-ATAGTCATCGGGTCTTACCCGGACA
*
89675008 AAATCTCCACACATAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
* *
89675045 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGA
89675080 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 1 0.02
37 65 0.98
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
Found at i:89675354 original size:48 final size:48
Alignment explanation
Indices: 89675225--89675411 Score: 252
Period size: 48 Copynumber: 3.8 Consensus size: 48
89675215 GCACATCGCC
* *
89675225 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTC----A
* * *
89675277 TATATATTTCGCATT-GACCATTC-AGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGA-CTTTACCACATATACATATCTCA
89675325 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
*
89675373 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGACTTTACCACATATA
89675412 TGCATGTTCA
Statistics
Matches: 122, Mismatches: 9, Indels: 12
0.85 0.06 0.08
Matches are distributed among these distances:
48 80 0.66
49 2 0.02
51 1 0.01
52 39 0.32
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
Found at i:89675453 original size:25 final size:25
Alignment explanation
Indices: 89675425--89675500 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 25
89675415 ATGTTCATAT
89675425 TCACCACATTGGCCATTCGACCTTA
1 TCACCACATTGGCCATTCGACCTTA
*
89675450 TCA-CACATAT-G-CATGCTC-A-CAT-
1 TCACCACAT-TGGCCAT--TCGACCTTA
*
89675472 TCATCACATTGGCCATTCGACCTTA
1 TCACCACATTGGCCATTCGACCTTA
89675497 TCAC
1 TCAC
89675501 ATATGTGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 18
0.65 0.05 0.30
Matches are distributed among these distances:
22 6 0.15
23 12 0.31
24 12 0.31
25 9 0.23
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.29
Consensus pattern (25 bp):
TCACCACATTGGCCATTCGACCTTA
Found at i:89675460 original size:47 final size:47
Alignment explanation
Indices: 89675381--89675573 Score: 253
Period size: 47 Copynumber: 4.1 Consensus size: 47
89675371 CATACATATT
* * * * *
89675381 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
* * *
89675428 CCACATTGGCCATTCGACCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
*
89675475 TCACATTGGCCATTCGACCTTATCACATATGTGCATGTTCACATTCA
1 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
* * * **
89675522 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATT-A
1 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
89675568 TCACAT
1 TCACAT
89675574 AAAATCCTAA
Statistics
Matches: 128, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
46 7 0.05
47 121 0.95
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
Found at i:89675501 original size:22 final size:22
Alignment explanation
Indices: 89675429--89675545 Score: 73
Period size: 24 Copynumber: 5.0 Consensus size: 22
89675419 TCATATTCAC
89675429 CACATTGGCCATTCGACCTTAT
1 CACATTGGCCATTCGACCTTAT
*
89675451 CACACATAT-G-CATGCTC-ACATTCAT
1 --CACAT-TGGCCAT--TCGACCTT-AT
89675476 CACATTGGCCATTCGACCTTAT
1 CACATTGGCCATTCGACCTTAT
*
89675498 CACATATGTG-CATGTTC-ACATTCAT
1 CACAT-TG-GCCA--TTCGACCTT-AT
*
89675523 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCGACCTTAT
89675545 C
1 C
89675546 TCATATATAC
Statistics
Matches: 74, Mismatches: 5, Indels: 30
0.68 0.05 0.28
Matches are distributed among these distances:
22 16 0.22
23 21 0.28
24 22 0.30
25 15 0.20
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.32
Consensus pattern (22 bp):
CACATTGGCCATTCGACCTTAT
Found at i:89675564 original size:94 final size:93
Alignment explanation
Indices: 89675334--89675573 Score: 259
Period size: 94 Copynumber: 2.5 Consensus size: 93
89675324 ATACATATTT
* * * *
89675334 CACATTAGCCATTCGACTTTA-C-CACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 CACATTGGCCATTCGACCTTATCACACATATACACA-CTC--ACAT-TATCACATTAGCCATTCG
* * *
89675397 GCTTTACCACATATATGCATGTTCATATTCAC
62 ACCTTACCACATATATGCATGTTCACATTCAC
* ** *
89675429 CACATTGGCCATTCGACCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGACC
1 CACATTGGCCATTCGACCTTATCACACATATACACACTCACATT-ATCACATTAGCCATTCGACC
* * *
89675494 TTATCACATATGTGCATGTTCACATTCAT
65 TTACCACATATATGCATGTTCACATTCAC
* * * *
89675523 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTATCACAT
1 CACATTGGCCATTCGACCTTATCACACATATACACACTCACATTATCACAT
89675574 AAAATCCTAA
Statistics
Matches: 123, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
93 8 0.07
94 82 0.67
95 19 0.15
96 4 0.03
97 10 0.08
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (93 bp):
CACATTGGCCATTCGACCTTATCACACATATACACACTCACATTATCACATTAGCCATTCGACCT
TACCACATATATGCATGTTCACATTCAC
Found at i:89678270 original size:2 final size:2
Alignment explanation
Indices: 89678263--89678295 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
89678253 AATGTTCAAA
89678263 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
89678296 ACACAAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:89682249 original size:45 final size:45
Alignment explanation
Indices: 89682182--89682340 Score: 234
Period size: 45 Copynumber: 3.6 Consensus size: 45
89682172 CGCACAGTAT
89682182 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGCGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGCGAGATAC
* *
89682227 TATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGCGAGATAC
* * *
89682272 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAAATGA-
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGCGAGAT-AC
*
89682317 TA-TCGGG-CTTCGAGCCTAGCAGGC
1 TATTCGGGCCTTTGAGCCTAGCAGGC
89682341 GAAATGTCAG
Statistics
Matches: 107, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
43 16 0.15
44 5 0.05
45 85 0.79
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGCGAGATAC
Found at i:89682913 original size:16 final size:18
Alignment explanation
Indices: 89682882--89682914 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
89682872 AACTCGTCAC
89682882 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
89682900 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
89682915 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:89685642 original size:6 final size:6
Alignment explanation
Indices: 89685633--89685658 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
89685623 TGTTTCTGCT
89685633 ATCTGA ATCTGA ATCTGA ATCTGA AT
1 ATCTGA ATCTGA ATCTGA ATCTGA AT
89685659 TTGAGACTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (6 bp):
ATCTGA
Found at i:89685672 original size:18 final size:18
Alignment explanation
Indices: 89685627--89685674 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
89685617 CATATCTGTT
89685627 TCTGCTATCTGAATCTGAA
1 TCTG-TATCTGAATCTGAA
* *
89685646 TCTGAATCTGAATTTGAGA
1 TCTGTATCTGAATCTGA-A
89685665 -CTGTATCTGA
1 TCTGTATCTGA
89685675 CTGTGTGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (18 bp):
TCTGTATCTGAATCTGAA
Found at i:89692142 original size:33 final size:33
Alignment explanation
Indices: 89692087--89692154 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
89692077 ATGATACCAA
*
89692087 AATAAGCCAAATAAAATTGCTTAACTTATATAC
1 AATAAGCCAAATAAAATGGCTTAACTTATATAC
* * *
89692120 AATAAGCTAAATCACATGGCTTAACTTATATAC
1 AATAAGCCAAATAAAATGGCTTAACTTATATAC
89692153 AA
1 AA
89692155 ATTCATTCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.29
Consensus pattern (33 bp):
AATAAGCCAAATAAAATGGCTTAACTTATATAC
Found at i:89692469 original size:10 final size:11
Alignment explanation
Indices: 89692443--89692475 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
89692433 CAATTCAATT
*
89692443 TAATCATCACC
1 TAATCATCACA
89692454 TAATCA-CACA
1 TAATCATCACA
89692464 TAATCATCACA
1 TAATCATCACA
89692475 T
1 T
89692476 GTTAGTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.27
Consensus pattern (11 bp):
TAATCATCACA
Found at i:89692766 original size:22 final size:23
Alignment explanation
Indices: 89692686--89692814 Score: 111
Period size: 24 Copynumber: 5.5 Consensus size: 23
89692676 GACTCATGAT
*
89692686 CAGTAAGCTCTTACTGAGCTGATAAA
1 CAGTAAGCTC-TATTGAGCTG--AAA
89692712 CAGTAAGCTCTATTGAGCTGAAAA
1 CAGTAAGCTCTATTGAGCTG-AAA
*
89692736 CGGTAAGCTCTATTGAGCTG-AA
1 CAGTAAGCTCTATTGAGCTGAAA
* *
89692758 CAGTAAGCTCT-TTCAGGCTGAAT
1 CAGTAAGCTCTATTGA-GCTGAAA
* * *
89692781 CGGTAAGCTCCAATGA-CTTGAAA
1 CAGTAAGCTCTATTGAGC-TGAAA
*
89692804 TAGTAAGCTCT
1 CAGTAAGCTCT
89692815 TACGAGCTAT
Statistics
Matches: 85, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.04
22 17 0.20
23 22 0.26
24 24 0.28
25 9 0.11
26 10 0.12
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (23 bp):
CAGTAAGCTCTATTGAGCTGAAA
Found at i:89697970 original size:71 final size:68
Alignment explanation
Indices: 89697878--89698029 Score: 207
Period size: 68 Copynumber: 2.2 Consensus size: 68
89697868 AATTTATCTC
* * *
89697878 GTAGCTCTCTTGTCTACATGGTGTCCTTCACCT-GGAGCCACGCATACGACCTAGCTACATCATA
1 GTAGCTCTCTTGTCTACATGGTG---TACACATAGGA-CCACCCATACGACCTAGCTACATCATA
89697942 ATGTCTT
62 ATGTCTT
* * *
89697949 GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
1 GTAGCTCTCTTGTCTACATGGTGTACACATAGGACCACCCATACGACCTAGCTACATCATAATGT
89698014 CTT
66 CTT
89698017 GTAGCTCTCTTGT
1 GTAGCTCTCTTGT
89698030 ACACATGATG
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
68 49 0.66
69 2 0.03
71 23 0.31
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.33
Consensus pattern (68 bp):
GTAGCTCTCTTGTCTACATGGTGTACACATAGGACCACCCATACGACCTAGCTACATCATAATGT
CTT
Found at i:89698065 original size:68 final size:67
Alignment explanation
Indices: 89697878--89698073 Score: 198
Period size: 68 Copynumber: 2.8 Consensus size: 67
89697868 AATTTATCTC
* ** * * *
89697878 GTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAGCCACGCATACGACCTAGCTACATCATAA
1 GTAGCTCTCTTGTCTACATGGTG---TACACAAGCA-CCACACATGCGACCTAGCTACATCATAA
89697943 TGTCTT
62 TGTCTT
* * *
89697949 GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
1 GTAGCTCTCTTGTCTACATGGTGTACACA-AGCACCACACATGCGACCTAGCTACATCATAATGT
89698014 CTT
65 CTT
* * *
89698017 GTAGCTCTCTTGTAC-ACATGATGTGTACTC-AGCACCATACATGTGACCTAGCTACAT
1 GTAGCTCTCTTGT-CTACATG--GTGTACACAAGCACCACACATGCGACCTAGCTACAT
89698074 ACTATCTGTA
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
68 75 0.69
69 3 0.03
70 7 0.06
71 23 0.21
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (67 bp):
GTAGCTCTCTTGTCTACATGGTGTACACAAGCACCACACATGCGACCTAGCTACATCATAATGTC
TT
Found at i:89701553 original size:60 final size:60
Alignment explanation
Indices: 89701481--89701598 Score: 227
Period size: 60 Copynumber: 2.0 Consensus size: 60
89701471 TTCTGTATAT
*
89701481 GTATGCCATGACATATTATTTCTGTTGCATGGGACATGGGTTTATATTGATGGAGGAAAC
1 GTATGCCATGACATATTATTTCTGTTGCATGAGACATGGGTTTATATTGATGGAGGAAAC
89701541 GTATGCCATGACATATTATTTCTGTTGCATGAGACATGGGTTTATATTGATGGAGGAA
1 GTATGCCATGACATATTATTTCTGTTGCATGAGACATGGGTTTATATTGATGGAGGAA
89701599 GTGTTCCGGC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (60 bp):
GTATGCCATGACATATTATTTCTGTTGCATGAGACATGGGTTTATATTGATGGAGGAAAC
Found at i:89701926 original size:6 final size:6
Alignment explanation
Indices: 89701887--89702005 Score: 57
Period size: 6 Copynumber: 19.3 Consensus size: 6
89701877 GTGCATTCAC
* * *
89701887 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
89701936 -TCACCTA ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTA ATTCTC
1 AT--TCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
89701986 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
89702006 AATGTTTCTT
Statistics
Matches: 83, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
5 5 0.06
6 67 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:89701945 original size:13 final size:13
Alignment explanation
Indices: 89701927--89701973 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
89701917 GATTCTGATT
89701927 CTAATTCTGTCAC
1 CTAATTCTGTCAC
*
89701940 CTAATTCTG--ATT
1 CTAATTCTGTCA-C
*
89701952 CTGATTCTGTCAC
1 CTAATTCTGTCAC
89701965 CTAATTCTG
1 CTAATTCTG
89701974 ATTCTAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
11 1 0.04
12 8 0.30
13 17 0.63
14 1 0.04
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.43
Consensus pattern (13 bp):
CTAATTCTGTCAC
Found at i:89701946 original size:25 final size:25
Alignment explanation
Indices: 89701918--89701984 Score: 125
Period size: 25 Copynumber: 2.7 Consensus size: 25
89701908 CCTGATACTG
89701918 ATTCTGATTCTAATTCTGTCACCTA
1 ATTCTGATTCTAATTCTGTCACCTA
*
89701943 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTAATTCTGTCACCTA
89701968 ATTCTGATTCTAATTCT
1 ATTCTGATTCTAATTCT
89701985 CATTTTGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTAATTCTGTCACCTA
Found at i:89701984 original size:31 final size:31
Alignment explanation
Indices: 89701887--89701960 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
89701877 GTGCATTCAC
* * * *
89701887 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
*
89701918 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
89701949 ATTCTGATTCTG
1 ATTCTGATTCTG
89701961 TCACCTAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:89703816 original size:49 final size:51
Alignment explanation
Indices: 89703760--89704049 Score: 273
Period size: 50 Copynumber: 5.7 Consensus size: 51
89703750 AACCGAAGCT
* *
89703760 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-AA-CA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATCA
*
89703809 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC-
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATCA
** * * * * *
89703859 ATCTGGTACATGTAGTAGCCTACACTTAGTACTACACACATGATCGAATTA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATCA
* * ** * * * * *
89703910 GTCGGGTATGCATAGTAGCCTGCACTTAGCACTACAAATGCGACCTAA-CT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATCA
* * * * *
89703960 ATCTGGTACACATAGTAGCCTACATTTAGTACTACACACATGACCTAAAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AATCA
* *** * *
89704012 ATTTTAAACACATAGTAGCCTACACATAGTACTACACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
89704050 TATGTTCTTA
Statistics
Matches: 193, Mismatches: 43, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
49 42 0.22
50 81 0.42
51 37 0.19
52 33 0.17
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (51 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATCA
Found at i:89703955 original size:101 final size:101
Alignment explanation
Indices: 89703758--89704002 Score: 298
Period size: 101 Copynumber: 2.4 Consensus size: 101
89703748 GTAACCGAAG
* * ** * * * * ** *
89703758 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-CAATCTGGTACACG
1 CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGATCGAATTAGTCGGGTATGCA
* * *
89703821 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
66 TAGTAGCCTGCACTTAGCACTACAAACGCGACCTAA
**
89703857 -TCATCTGGTACATGTAGTAGCCTACACTTAGTACTACACACATGATCGAATTAGTCGGGTATGC
1 CT-ATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGATCGAATTAGTCGGGTATGC
*
89703921 ATAGTAGCCTGCACTTAGCACTACAAATGCGACCTAA
65 ATAGTAGCCTGCACTTAGCACTACAAACGCGACCTAA
*
89703958 CTATCTGGTACACATAGTAGCCTACATTTAGTACTACACACATGA
1 CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGA
89704003 CCTAAAACCA
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
98 1 0.01
99 37 0.30
100 3 0.02
101 80 0.66
102 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (101 bp):
CTATCTGGTACACATAGTAGCCTACACTTAGTACTACACACATGATCGAATTAGTCGGGTATGCA
TAGTAGCCTGCACTTAGCACTACAAACGCGACCTAA
Found at i:89704048 original size:12 final size:13
Alignment explanation
Indices: 89704019--89704051 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
89704009 ACCATTTTAA
89704019 ACACATAGTAGCCT
1 ACACATAGTA-CCT
89704033 ACACATAGTA-CT
1 ACACATAGTACCT
89704045 ACACATA
1 ACACATA
89704052 TGTTCTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.47
14 10 0.53
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.21
Consensus pattern (13 bp):
ACACATAGTACCT
Found at i:89704049 original size:151 final size:149
Alignment explanation
Indices: 89703764--89704050 Score: 378
Period size: 151 Copynumber: 1.9 Consensus size: 149
89703754 GAAGCTATCT
* * * *
89703764 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGCACTACAAATGCGACCAACAATCTGGTACACATAGTAGCC
* * * ** ** *
89703829 TGCACTTAGTACTACACACGTGACCTAATCATCTGGTACATGTAGTAGCCTACACTTAGTACTAC
66 TACACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTACACATAGTACTA-
89703894 ACACATGATCGAATTAGTCG
130 ACACATGATCGAATTAGTCG
* *
89703914 GGTATGCATAGTAGCCTGCACTTAGCACTACAAATGCGACCTAACTATCTGGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGCACTACAAATGCGACC-AACAATCTGGTACACATAGTAGC
* * *
89703979 CTACATTTAGTACTACACACATGACCTAAAACCATTTTAAACACATAGTAGCCTACACATAGTAC
65 CTACACTTAGTACTACACACATGACCT--AACCATCTGAAACACATAGTAGCCTACACATAGTAC
89704044 T-ACACAT
128 TAACACAT
89704051 ATGTTCTTAC
Statistics
Matches: 117, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
150 37 0.32
151 51 0.44
153 29 0.25
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (149 bp):
GGTACGCATAGTAGCCTGCACTTAGCACTACAAATGCGACCAACAATCTGGTACACATAGTAGCC
TACACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTACACATAGTACTAA
CACATGATCGAATTAGTCG
Found at i:89710558 original size:39 final size:40
Alignment explanation
Indices: 89710458--89710642 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
89710448 TCGAATGATG
* * *
89710458 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
89710497 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
89710538 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
89710577 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * *
89710616 AACCGGCCTATGTCCCAAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
89710643 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.30
40 76 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Done.