Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 171 of 276
Found at i:56027094 original size:42 final size:42
Alignment explanation
Indices: 56027035--56027141 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
56027025 TGTTGGTTTA
56027035 GGCACTAAGTGTGCGGGTGTAAACATTTATGATCATGAGATT
1 GGCACTAAGTGTGCGGGTGTAAACATTTATGATCATGAGATT
56027077 GGCACTAAGTGTGCGGGTGTAAACATTTATGATCATGAGATT
1 GGCACTAAGTGTGCGGGTGTAAACATTTATGATCATGAGATT
*
56027119 GGCACTAAGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTGTAAA
56027142 TTGTACAGCA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTGTAAACATTTATGATCATGAGATT
Found at i:56027162 original size:29 final size:28
Alignment explanation
Indices: 56027119--56027196 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
56027109 TCATGAGATT
56027119 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
56027149 -GCACTAAGTGTGCGAGTTTACAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
56027176 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
56027197 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:56027450 original size:174 final size:174
Alignment explanation
Indices: 56027151--56027476 Score: 510
Period size: 174 Copynumber: 1.9 Consensus size: 174
56027141 ATTGTACAGC
* * * *
56027151 ACTAAGTGTGCGAGTTTACAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTATGTG
* ** *
56027216 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
66 TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
56027281 TTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
131 TTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
* * * * *
56027326 ACTAAGTGTGTGAGTTTAAAGTGCATGGCACTGAGTGTGCGTGGGTGATTACTAAACATTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTATGTG
*
56027391 TGC-AACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGGCTTTACCGAGTCAATT
66 TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
56027455 TTGGACAGCGGAAAAGGTAAGT
131 TTGGACAGCGGAAAAGGTAAGT
56027477 ACCTTGAGTT
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
173 11 0.08
174 67 0.49
175 59 0.43
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTATGTG
TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
Found at i:56034753 original size:21 final size:21
Alignment explanation
Indices: 56034729--56034779 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
56034719 AATTGTAGAC
56034729 GACCGTGTGGGTCAATGGCCA
1 GACCGTGTGGGTCAATGGCCA
56034750 GACCGTGTGGGTCAATGGCCA
1 GACCGTGTGGGTCAATGGCCA
56034771 GACCGTGTG
1 GACCGTGTG
56034780 AATCGTGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.24, G:0.39, T:0.20
Consensus pattern (21 bp):
GACCGTGTGGGTCAATGGCCA
Found at i:56036790 original size:6 final size:6
Alignment explanation
Indices: 56036779--56036851 Score: 146
Period size: 6 Copynumber: 12.2 Consensus size: 6
56036769 AGAAAATAAT
56036779 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
56036827 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
56036852 GAAGATAAGA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:56042428 original size:39 final size:39
Alignment explanation
Indices: 56042317--56042446 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
56042307 GGACTAAGAT
* * *
56042317 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
**
56042357 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
56042397 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
56042436 CCGAAGGCATT
1 CCGAAGGCATT
56042447 TGAACGAGGA
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 36 0.46
40 39 0.50
41 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:56052859 original size:46 final size:47
Alignment explanation
Indices: 56052792--56052966 Score: 166
Period size: 46 Copynumber: 3.8 Consensus size: 47
56052782 TGTAACCCGC
56052792 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGC-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCAGTTCGCAT
* * * * * *
56052838 CCATAAGTGAACTCAGACTCAACTCAAAGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC--A-GGC-AGTTCGCAT
* *
56052888 -C-TCA-CGAACTCGGGCTCAACTCAACGAGCTC-GGACAG-TCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CAGTTCGCAT
* *
56052931 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAG
56052967 ATGCCCAAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.01
43 6 0.06
44 2 0.02
45 2 0.02
46 54 0.54
47 23 0.23
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCAGTTCGCAT
Found at i:56052913 original size:93 final size:93
Alignment explanation
Indices: 56052799--56052971 Score: 278
Period size: 93 Copynumber: 1.9 Consensus size: 93
56052789 CGCCCATAAG
56052799 CGAACTCGGACTCAACTCAACGAGCTCAGG-C-GTTCGCATCCATAAGTGAACTCAGACTCAACT
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACAG-TCGCATCCATAAGTGAACTCAGACTCAACT
*
56052862 CAAAGAGTTCGGATGCCTAGTTACATCTCA
64 CAAAGAGTTCAGATGCCTAGTTACATCTCA
* *
56052892 CGAACTCGGGCTCAACTCAACGAGCTCGGACAGTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACAGTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
56052957 ACGAGTTCAGATGCC
66 AAGAGTTCAGATGCC
56052972 CAAATATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 2 0.03
93 71 0.96
94 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACAGTCGCATCCATAAGTGAACTCAGACTCAACTCA
AAGAGTTCAGATGCCTAGTTACATCTCA
Found at i:56055236 original size:18 final size:18
Alignment explanation
Indices: 56055213--56055248 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
56055203 TAAAGAGTTC
56055213 TCCAATGTGTCATTTACA
1 TCCAATGTGTCATTTACA
56055231 TCCAATGTGTCATTTACA
1 TCCAATGTGTCATTTACA
56055249 AAATTATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
TCCAATGTGTCATTTACA
Found at i:56059528 original size:32 final size:32
Alignment explanation
Indices: 56059487--56059559 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
56059477 CCATGTGCTA
* * * * *
56059487 GCCCATGTGCCACACACAGGGCTAGTAGACAT
1 GCCCGTGTGCCACACACACGGCCAATAGACAC
*
56059519 GCCTGTGTGCCACACACACGGCCAATAGACAC
1 GCCCGTGTGCCACACACACGGCCAATAGACAC
56059551 GCCCGTGTG
1 GCCCGTGTG
56059560 TCTAGGCTGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.25, C:0.34, G:0.26, T:0.15
Consensus pattern (32 bp):
GCCCGTGTGCCACACACACGGCCAATAGACAC
Found at i:56059827 original size:20 final size:21
Alignment explanation
Indices: 56059790--56059828 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
56059780 GCATCCAAAA
56059790 CATGCTATTCGATACACATAT
1 CATGCTATTCGATACACATAT
* *
56059811 CATGC-ATTCTATTCACAT
1 CATGCTATTCGATACACAT
56059829 CCATTTCATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (21 bp):
CATGCTATTCGATACACATAT
Found at i:56060670 original size:43 final size:42
Alignment explanation
Indices: 56060605--56060821 Score: 181
Period size: 43 Copynumber: 5.1 Consensus size: 42
56060595 AGCTCATACA
* * * *
56060605 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
56060647 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCGA-TTAACG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGTAATC-ACATATCG
**
56060690 ATGCCGATGTCCCAGACATGGTCTTACACGTAATCGTATAAT-G
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAATCACAT-ATCG
** * * *
56060733 ATGTGAATGTCCCAGACATGGTCTTACA-GATAGTCATA-ATACA
1 ATG-CCATGTCCCAGACATGGTCTTACACG-TAATCACATAT-CG
* * *
56060776 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCATCTCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAATCACATATCG
56060819 ATG
1 ATG
56060822 ATCCTAATGT
Statistics
Matches: 140, Mismatches: 23, Indels: 23
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.01
42 7 0.05
43 126 0.90
44 5 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:56068859 original size:72 final size:72
Alignment explanation
Indices: 56068742--56068885 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
56068732 GATGTCGTGA
56068742 ATCTTTTCAAGTTCAGGGGGCAAAATCAATCGATACGCAACTGGACCGACTCGTTCGGATATTTC
1 ATCTTTTCAAGTTCAGGGGGCAAAATCAATCGATACGCAACTGGACCGACTCGTTCGGATATTTC
56068807 ATATGGC
66 ATATGGC
*
56068814 ATCTTTTCAAGTTCAGGGGGCAAAATCAATCGATACGCAACTGGACCGACTCGTTCGGATATTTT
1 ATCTTTTCAAGTTCAGGGGGCAAAATCAATCGATACGCAACTGGACCGACTCGTTCGGATATTTC
56068879 ATATGGC
66 ATATGGC
56068886 CCGATGAACC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (72 bp):
ATCTTTTCAAGTTCAGGGGGCAAAATCAATCGATACGCAACTGGACCGACTCGTTCGGATATTTC
ATATGGC
Found at i:56071180 original size:75 final size:75
Alignment explanation
Indices: 56071057--56071203 Score: 276
Period size: 75 Copynumber: 2.0 Consensus size: 75
56071047 ACTGAGGCTT
*
56071057 CCTTTAGTTGATCAAACAAATCATCAATACGTGGCATCGGATATTTATTCTTTATTGTCACCTTA
1 CCTTTAGTTGATCAAACAAATCATCAATACGTGGCATCGGATATTTATTCTTTACTGTCACCTTA
56071122 TTCAGCTAAA
66 TTCAGCTAAA
*
56071132 CCTTTAGTTGATCAAACAAATCGTCAATACGTGGCATCGGATATTTATTCTTTACTGTCACCTTA
1 CCTTTAGTTGATCAAACAAATCATCAATACGTGGCATCGGATATTTATTCTTTACTGTCACCTTA
56071197 TTCAGCT
66 TTCAGCT
56071204 GACGATAGTC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (75 bp):
CCTTTAGTTGATCAAACAAATCATCAATACGTGGCATCGGATATTTATTCTTTACTGTCACCTTA
TTCAGCTAAA
Found at i:56082984 original size:43 final size:43
Alignment explanation
Indices: 56082936--56083125 Score: 190
Period size: 43 Copynumber: 4.4 Consensus size: 43
56082926 CTAGATATGA
* * * *
56082936 TCTTACATGTTATCTCATATCGATGCCACTGTCCCAGACAGGG
1 TCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACATGG
* *
56082979 TCTTACACGTAATC-GATTAACGATGCCAATGTCCCAGACATGG
1 TCTTACACGTAATCTCA-TATCGATGCCAATGTCCCAGACATGG
*
56083022 TCTTACACGTAATCGT-ATAAT-GATGCCAATGTCCTAGACATGG
1 TCTTACACGTAATC-TCAT-ATCGATGCCAATGTCCCAGACATGG
* * * * * *
56083065 TCTTACACATAATC-AAAATACAATGCCAATGTCCTAGACACGG
1 TCTTACACGTAATCTCATAT-CGATGCCAATGTCCCAGACATGG
*
56083108 TCTTACATGTAATCTCAT
1 TCTTACACGTAATCTCAT
56083126 CTTGGTGATC
Statistics
Matches: 123, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 116 0.94
44 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
TCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACATGG
Found at i:56083091 original size:86 final size:86
Alignment explanation
Indices: 56082957--56083121 Score: 224
Period size: 86 Copynumber: 1.9 Consensus size: 86
56082947 ATCTCATATC
* * * * * *
56082957 GATGCCACTGTCCCAGACAGGGTCTTACACGTAATCGATTAACGATGCCAATGTCCCAGACATGG
1 GATGCCAATGTCCCAGACAGGGTCTTACACATAATCAAATAACAATGCCAATGTCCCAGACACGG
56083022 TCTTACACGTAATCGTATAAT
66 TCTTACACGTAATCGTATAAT
* * *
56083043 GATGCCAATGTCCTAGACATGGTCTTACACATAATCAAA-ATACAATGCCAATGTCCTAGACACG
1 GATGCCAATGTCCCAGACAGGGTCTTACACATAATCAAATA-ACAATGCCAATGTCCCAGACACG
*
56083107 GTCTTACATGTAATC
65 GTCTTACACGTAATC
56083122 TCATCTTGGT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 1 0.01
86 67 0.99
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (86 bp):
GATGCCAATGTCCCAGACAGGGTCTTACACATAATCAAATAACAATGCCAATGTCCCAGACACGG
TCTTACACGTAATCGTATAAT
Found at i:56087531 original size:74 final size:75
Alignment explanation
Indices: 56087405--56087554 Score: 230
Period size: 74 Copynumber: 2.0 Consensus size: 75
56087395 ATACTTAGAT
* * *
56087405 TTTTAGGGTGTTACAACTCTACCCCCTAAAAGAAAATTTCGGCTTTGAAATTTACCTGATTAAAA
1 TTTTAGGGCGTTACAACTCTACCCCCTAAAAGAAAATTTCGGCCTCGAAATTTACCTGATTAAAA
*
56087470 CAGATGAGGA
66 CAGAGGAGGA
* * *
56087480 TTTTGGGGCGTTACAACTCTACCCCC-AGAAGAAAATTTTGGCCTCGAAATTTACCTGATTAAAA
1 TTTTAGGGCGTTACAACTCTACCCCCTAAAAGAAAATTTCGGCCTCGAAATTTACCTGATTAAAA
56087544 CAGAGGAGGA
66 CAGAGGAGGA
56087554 T
1 T
56087555 GTTGTTGTCG
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
74 44 0.65
75 24 0.35
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (75 bp):
TTTTAGGGCGTTACAACTCTACCCCCTAAAAGAAAATTTCGGCCTCGAAATTTACCTGATTAAAA
CAGAGGAGGA
Found at i:56096724 original size:24 final size:24
Alignment explanation
Indices: 56096692--56096737 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
56096682 GCCCATCAGG
56096692 CCCAATTCACATTCATATGGCCTA
1 CCCAATTCACATTCATATGGCCTA
*
56096716 CCCAATTCATATTCATATGGCC
1 CCCAATTCACATTCATATGGCC
56096738 CATCAGGCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.30
Consensus pattern (24 bp):
CCCAATTCACATTCATATGGCCTA
Found at i:56096762 original size:29 final size:29
Alignment explanation
Indices: 56096643--56096762 Score: 110
Period size: 29 Copynumber: 4.3 Consensus size: 29
56096633 ACCCCTGCAT
* *
56096643 ACATGCATATGGCCCA-CTTGGCCCAA-TC
1 ACATTCATATGGCCCATC-AGGCCCAATTC
* **
56096671 TCATTTTTATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
56096700 ACATTCATATGG-CC-T-A--CCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* *
56096724 ATATTCATATGGCCCATCAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAATTC
*
56096753 ACATTAATAT
1 ACATTCATAT
56096763 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
24 19 0.26
25 2 0.03
26 2 0.03
27 2 0.03
28 21 0.29
29 27 0.37
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAATTC
Found at i:56106197 original size:40 final size:40
Alignment explanation
Indices: 56106114--56106327 Score: 229
Period size: 40 Copynumber: 5.4 Consensus size: 40
56106104 ACCCAAGTAT
** * *
56106114 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
56106152 CTTCGGGTCGTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56106192 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
56106232 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
56106272 CTTCGGATCTTAGTCCGGATAGAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56106312 TTTCGGGACTTAGCCC
1 CTTCGGGTCTTAGCCC
56106328 AGGTATCATT
Statistics
Matches: 146, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 10 0.07
39 16 0.11
40 118 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:56115789 original size:6 final size:6
Alignment explanation
Indices: 56115778--56115858 Score: 67
Period size: 6 Copynumber: 13.2 Consensus size: 6
56115768 TATCAAAACT
* *
56115778 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGATTC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
56115827 AGTATC AGTATC AGGTAA-C AGAATC AAAATC A
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC A
56115859 AAATGTGAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
5 3 0.05
6 51 0.82
7 6 0.10
8 2 0.03
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:56115813 original size:19 final size:18
Alignment explanation
Indices: 56115789--56115858 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
56115779 GAATCAGAAT
56115789 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGT-A
* *
56115808 CAGAATCAGAATCAGATT
1 CAGAATCAGAATCAGGTA
* *
56115826 CAGTATCAGTATCAGGTAA
1 CAGAATCAGAATCAGGT-A
*
56115845 CAGAATCAAAATCA
1 CAGAATCAGAATCA
56115859 AAATGTGAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.34
19 27 0.66
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (18 bp):
CAGAATCAGAATCAGGTA
Found at i:56115820 original size:37 final size:37
Alignment explanation
Indices: 56115778--56115858 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
56115768 TATCAAAACT
*
56115778 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
56115815 AGAATCAGATTCAGTATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
*
56115852 AAAATCA
1 AGAATCA
56115859 AAATGTGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:56116300 original size:27 final size:27
Alignment explanation
Indices: 56116270--56116438 Score: 257
Period size: 27 Copynumber: 6.3 Consensus size: 27
56116260 GGGGCAAACT
* * *
56116270 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56116297 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56116324 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56116351 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56116378 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
56116405 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56116432 GATAATT
1 GGTAATT
56116439 TCACAAATTA
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:56116454 original size:54 final size:52
Alignment explanation
Indices: 56116283--56116465 Score: 178
Period size: 54 Copynumber: 3.4 Consensus size: 52
56116273 AATTTTACCC
* *
56116283 CACA-AGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTA
1 CACATAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTTC-A
* *
56116334 CCCTACA-AGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTC-AGTAATTCTACC
1 --C-ACATAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA-TAATT-T-CA
*
56116390 CTACA-AGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTTCA
1 C-ACATAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTTCA
* *
56116442 CAAATTAGGGGTATTTTGGTAATT
1 CACA-TA-GGGTATTTCGGTAATT
56116466 TTACAAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
51 2 0.02
52 2 0.02
53 3 0.03
54 99 0.88
55 4 0.04
56 1 0.01
57 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (52 bp):
CACATAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTTCA
Found at i:56116464 original size:81 final size:81
Alignment explanation
Indices: 56116288--56116465 Score: 234
Period size: 81 Copynumber: 2.2 Consensus size: 81
56116278 TACCCCACAA
* * * * *
56116288 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGA
**
56116353 TAATTCTACCCTACAG
66 TAATTCTACAATACAG
*
56116369 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGA
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGA
*
56116434 TAATT-TCACAA-ATTAG
66 TAATTCT-ACAATA-CAG
*
56116450 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
56116466 TTACAAACCA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.02
81 82 0.98
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGA
TAATTCTACAATACAG
Found at i:56116481 original size:81 final size:81
Alignment explanation
Indices: 56116288--56116492 Score: 209
Period size: 81 Copynumber: 2.5 Consensus size: 81
56116278 TACCCCACAA
* * ** * * *
56116288 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGG
1 GGGTATTTCAGTAATTCTACCAAACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGA
**
56116353 TAATTCTACCCTACAG
66 TAATTCTACAATACAG
** *
56116369 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGA
1 GGGTATTTCAGTAATTCTACCAAACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGA
*
56116434 TAATT-TCACAA-ATTAG
66 TAATTCT-ACAATA-CAG
** * *
56116450 GGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTCTACCAAA-CAGGGGTATTTCGGTAATT
56116493 TTATTGATCG
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
80 4 0.04
81 101 0.96
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (81 bp):
GGGTATTTCAGTAATTCTACCAAACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGA
TAATTCTACAATACAG
Found at i:56116494 original size:27 final size:27
Alignment explanation
Indices: 56116423--56116549 Score: 103
Period size: 27 Copynumber: 4.7 Consensus size: 27
56116413 TACCCTACAA
* * * **
56116423 GGGTATTTCGATAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
56116450 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*** *
56116477 GGGTATTTTGGTAATTTTATTGATC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
56116503 AGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTACAAACCAG
* **
56116531 TGGTATTTCAGTAATTTTA
1 GGGTATTTTGGTAATTTTA
56116550 TAAATCGAGG
Statistics
Matches: 80, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 1 0.01
27 79 0.99
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:56116508 original size:54 final size:54
Alignment explanation
Indices: 56116420--56116562 Score: 155
Period size: 54 Copynumber: 2.6 Consensus size: 54
56116410 TTCTACCCTA
* * *
56116420 CAAGGGTATTTC-GATAATTTCACAAAT-TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCAG-TAATTTTATAAATCGA-GGGTATTTTGGTAATTTTACAAAC
* ** ** **
56116474 CAGGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
*
56116528 CAATGGTATTTCAGTAATTTTATAAATCGAGGGTA
1 CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTA
56116563 AAACGGTAAT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
54 70 0.97
55 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
Found at i:56116553 original size:27 final size:27
Alignment explanation
Indices: 56116450--56116562 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 27
56116440 CACAAATTAG
* *
56116450 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
** * *
56116477 GGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
56116504 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* ** * *
56116531 TGGTATTTCAGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
56116558 GGGTA
1 GGGTA
56116563 AAACGGTAAT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:56116571 original size:27 final size:27
Alignment explanation
Indices: 56116541--56116751 Score: 287
Period size: 27 Copynumber: 7.8 Consensus size: 27
56116531 TGGTATTTCA
* *
56116541 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
56116568 GTAATTCTGTAAATTGAGGGTAAGACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
56116595 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
56116622 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
56116649 GTAATTCTATAAATTGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
56116676 GTAATTTTATAAATCGAGGGTATAGCG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
56116703 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
56116730 GTAATTCTGTAAATCTAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
56116752 CTTTGGTAAT
Statistics
Matches: 162, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:56116587 original size:81 final size:81
Alignment explanation
Indices: 56116513--56116770 Score: 295
Period size: 81 Copynumber: 3.2 Consensus size: 81
56116503 AGGGTATTTT
* * * * *
56116513 GGTAATTTTGTAAACCAATGGTATTTCAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGT
1 GGTAATTTTGTAAACCGAGGGTATATCGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGT
*
56116578 AAATTGAGGGTAAGAC
66 AAATTGAGGGTAATAC
* * * * *
56116594 GGTAATTCTGTAAATCGAGGGTAAAAT-GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTA
1 GGTAATTTTGTAAACCGAGGGT-ATATCGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTG
* *
56116658 TAAATTGAAGGTAAAAC
65 TAAATTGAGGGTAATAC
* * * *
56116675 GGTAATTTTATAAATCGAGGGTATAGCGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGT
1 GGTAATTTTGTAAACCGAGGGTATATCGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGT
* **
56116740 AAATCT-AGGGTACTTT
66 AAAT-TGAGGGTAATAC
*
56116756 GGTAATTTGGTAAAC
1 GGTAATTTTGTAAAC
56116771 TAAAGTATTC
Statistics
Matches: 147, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
80 2 0.01
81 142 0.97
82 3 0.02
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (81 bp):
GGTAATTTTGTAAACCGAGGGTATATCGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGT
AAATTGAGGGTAATAC
Found at i:56117884 original size:21 final size:21
Alignment explanation
Indices: 56117860--56117920 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
56117850 GTACTAGATT
56117860 TTTTTAAATTAGGGTTATT-GG
1 TTTTTAAATTAGGGTT-TTGGG
*
56117881 TTTTTAAGGTTAGGGTTTTGGG
1 TTTTTAA-ATTAGGGTTTTGGG
* *
56117903 TATTTAAAGTAGGGTTTT
1 TTTTTAAATTAGGGTTTT
56117921 TTGGGTTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 18 0.53
22 16 0.47
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (21 bp):
TTTTTAAATTAGGGTTTTGGG
Found at i:56117921 original size:22 final size:22
Alignment explanation
Indices: 56117862--56117926 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
56117852 ACTAGATTTT
* * *
56117862 TTTAAATTAGGGTTATT-GGTT
1 TTTAAAGTAGGGTTTTTGGGTA
*
56117883 TTTAAGGTTAGGG-TTTTGGGTA
1 TTTAAAG-TAGGGTTTTTGGGTA
56117905 TTTAAAGTAGGGTTTTTTGGGT
1 TTTAAAGTAGGG-TTTTTGGGT
56117927 TTAGAGTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 13 0.37
22 14 0.40
23 8 0.23
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (22 bp):
TTTAAAGTAGGGTTTTTGGGTA
Found at i:56122295 original size:19 final size:19
Alignment explanation
Indices: 56122267--56122305 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
56122257 AGAGCGAAAG
56122267 AAACGAG-AAATGGGCCAA
1 AAACGAGAAAATGGGCCAA
56122285 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAATGGGCCAA
56122305 A
1 A
56122306 GTACAAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 3 0.16
20 12 0.63
ACGTcount: A:0.51, C:0.15, G:0.28, T:0.05
Consensus pattern (19 bp):
AAACGAGAAAATGGGCCAA
Found at i:56124171 original size:28 final size:28
Alignment explanation
Indices: 56124139--56124195 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
56124129 TTAAAATATT
*
56124139 TCCTGCTGGCTAAAACA-GCCAAATTACG
1 TCCTGCTGACTAAAA-AGGCCAAATTACG
56124167 TCCTGCTGACTAAAAAGGCCAAATTACG
1 TCCTGCTGACTAAAAAGGCCAAATTACG
56124195 T
1 T
56124196 AATAATATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (28 bp):
TCCTGCTGACTAAAAAGGCCAAATTACG
Found at i:56127751 original size:20 final size:20
Alignment explanation
Indices: 56127708--56127753 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
56127698 ACTGTTTTGT
56127708 TATGGG-CCAACTGTATTAA
1 TATGGGCCCAACTGTATTAA
* * *
56127727 AATGGGCCCAACTGTGTTAC
1 TATGGGCCCAACTGTATTAA
56127747 TATGGGC
1 TATGGGC
56127754 AAGGCCGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (20 bp):
TATGGGCCCAACTGTATTAA
Found at i:56130717 original size:20 final size:20
Alignment explanation
Indices: 56130692--56130733 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
56130682 ACTATATTTG
56130692 ACGTGATGAAATGCCTCAAA
1 ACGTGATGAAATGCCTCAAA
56130712 ACGTGATGAAATGCCTCAAA
1 ACGTGATGAAATGCCTCAAA
56130732 AC
1 AC
56130734 TATATGCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
ACGTGATGAAATGCCTCAAA
Found at i:56132874 original size:40 final size:40
Alignment explanation
Indices: 56132830--56133055 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
56132820 GCTACTCGTT
** * *
56132830 CAAATGCCTTTAGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
56132870 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
56132910 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
56132950 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
56132990 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
56133031 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56133056 CATCATTCGA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.91
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:56133612 original size:41 final size:41
Alignment explanation
Indices: 56133567--56133647 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
56133557 CATATGTACA
56133567 AAATCACGAATCAAATTCAACATACTAGCTAATATTTCCCG
1 AAATCACGAATCAAATTCAACATACTAGCTAATATTTCCCG
*
56133608 AAATCACGAATCGAATTCAACATACTAGCTAATATTTCCC
1 AAATCACGAATCAAATTCAACATACTAGCTAATATTTCCC
56133648 CTTAGCCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (41 bp):
AAATCACGAATCAAATTCAACATACTAGCTAATATTTCCCG
Found at i:56134295 original size:56 final size:56
Alignment explanation
Indices: 56134227--56134343 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 56
56134217 TAGTTTATTG
* *
56134227 CCCATGGTTCTTATTTTATTCTTCCATTAACACGACATGTTTCATGACATGTTTTA
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTA
*
56134283 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTA
56134339 CCCAT
1 CCCAT
56134344 CATCCCTTGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTA
Found at i:56141871 original size:28 final size:29
Alignment explanation
Indices: 56141815--56141873 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
56141805 TATTATTGTC
* *
56141815 CACACGGGCTTGTGTCTAGGCCATGTGTGA
1 CACACGGGCATGTGCCTAGGCCA-GTGTGA
*
56141845 CACACGGGCATGTGCCTTGGCC-GTGTGA
1 CACACGGGCATGTGCCTAGGCCAGTGTGA
56141873 C
1 C
56141874 TTCAATTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 7 0.27
30 19 0.73
ACGTcount: A:0.15, C:0.27, G:0.34, T:0.24
Consensus pattern (29 bp):
CACACGGGCATGTGCCTAGGCCAGTGTGA
Found at i:56144431 original size:79 final size:81
Alignment explanation
Indices: 56144289--56144471 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
56144279 TACTCATTCA
* * *
56144289 AATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
56144353 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* **
56144369 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
56144431 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
56144448 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56144472 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:56144471 original size:40 final size:40
Alignment explanation
Indices: 56144287--56144471 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
56144277 GCTACTCATT
* * *
56144287 CAAATGCCTTCGGGACATAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
56144327 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
56144367 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
56144406 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
56144447 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56144472 CATCATTCGA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:56145671 original size:56 final size:56
Alignment explanation
Indices: 56145601--56145720 Score: 213
Period size: 56 Copynumber: 2.1 Consensus size: 56
56145591 TATTAGTTTA
*
56145601 TTGCCCATGGTTCTTATTTTATTCTTCCACTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCACTAACACAACATGTTTCATGACATGTT
* *
56145657 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCACTAACACAACATGTTTCATGACATGTT
56145713 TTGCCCAT
1 TTGCCCAT
56145721 CATCCCTTGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCACTAACACAACATGTTTCATGACATGTT
Found at i:56146892 original size:40 final size:41
Alignment explanation
Indices: 56146828--56146925 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 41
56146818 GTCCCCACCC
* * *
56146828 GTGTGACTCACTGAGTAGGGTCACACA-GCCGTGT-CGTAGATT
1 GTGTAACTCACTGAGT--TGTCACACACGCCGTGTGC-TAGACT
* *
56146870 GTGTAACTCTCTGAGTTGTCACACACGGTCGTGTGCTAGACT
1 GTGTAACTCACTGAGTTGTCACACAC-GCCGTGTGCTAGACT
56146912 GTGTAACTCACTGA
1 GTGTAACTCACTGA
56146926 CTTTAAACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
40 8 0.17
42 38 0.81
43 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (41 bp):
GTGTAACTCACTGAGTTGTCACACACGCCGTGTGCTAGACT
Found at i:56152440 original size:12 final size:12
Alignment explanation
Indices: 56152423--56152449 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56152413 TATTAATAAG
56152423 TTTTATTTTATT
1 TTTTATTTTATT
56152435 TTTTATTTTATT
1 TTTTATTTTATT
56152447 TTT
1 TTT
56152450 GAGTTATACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:56156559 original size:22 final size:22
Alignment explanation
Indices: 56156519--56156583 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
56156509 CGGTGATATT
* *
56156519 TACGGCCTTTAGCCGTCCTGTC
1 TACGGCGTTGAGCCGTCCTGTC
* * *
56156541 TATGGCGTTGAGCCATCCTATC
1 TACGGCGTTGAGCCGTCCTGTC
56156563 TACGGCGTTGAGCCGTCCTGT
1 TACGGCGTTGAGCCGTCCTGT
56156584 TAACTTAGCG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.12, C:0.31, G:0.26, T:0.31
Consensus pattern (22 bp):
TACGGCGTTGAGCCGTCCTGTC
Found at i:56159794 original size:17 final size:17
Alignment explanation
Indices: 56159774--56159807 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
56159764 GTATGGTAGA
*
56159774 ATGACGATTATGCCCTT
1 ATGACGATTATACCCTT
56159791 ATGACGATTATACCCTT
1 ATGACGATTATACCCTT
56159808 GCTTGGTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (17 bp):
ATGACGATTATACCCTT
Found at i:56162198 original size:18 final size:18
Alignment explanation
Indices: 56162175--56162210 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
56162165 AATGGTCGAA
56162175 CACCCTAAGCTTTATTTC
1 CACCCTAAGCTTTATTTC
56162193 CACCCTAAGCTTTATTTC
1 CACCCTAAGCTTTATTTC
56162211 TTTTCTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (18 bp):
CACCCTAAGCTTTATTTC
Found at i:56163601 original size:53 final size:54
Alignment explanation
Indices: 56163533--56163739 Score: 184
Period size: 53 Copynumber: 3.8 Consensus size: 54
56163523 TTCCTTTTTA
* *
56163533 AACTTACCATTGCCATCTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATCTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
56163586 AACTCACCATTGCCATGC-CTTGGCATGGTTTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCAT-CTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * ** * * * * *
56163640 TAGTGTATTAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTGTAG
1 AACT-TACCAATGCCATCTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * **
56163695 AACTTACCAATGCCATGACTTGGCATGGTCTTATTTGGTATCCTT
1 AACTTACCAATGCCATCTCTTGACATGGTCTTACATGGTATCCTT
56163740 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 31, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
53 44 0.37
54 37 0.31
55 38 0.32
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATCTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:56171093 original size:53 final size:53
Alignment explanation
Indices: 56171015--56171219 Score: 212
Period size: 53 Copynumber: 3.8 Consensus size: 53
56171005 CCTTTTTAAC
* * * *
56171015 CTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
* * * * * *
56171068 CTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAATA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA-A
* * * * * *
56171122 GTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAA
1 -CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
* * *
56171177 CTTACTAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
56171220 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
53 44 0.36
54 36 0.30
55 40 0.33
56 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
Found at i:56171168 original size:55 final size:52
Alignment explanation
Indices: 56171026--56171219 Score: 199
Period size: 55 Copynumber: 3.6 Consensus size: 52
56171016 TTACCATTGT
* * * * *
56171026 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGC
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAACTTA-CAATGC
* * * *
56171079 CATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAATAGTTTATCAATGC
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAA-A-CTTA-CAATGC
* * * *
56171134 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAACTTACTAATGC
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA-AACTTAC-AATGC
* *
56171188 CATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CATGCCTTGACATGGTCTTACATGGTATCCTT
56171220 AAACCCTAAT
Statistics
Matches: 114, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
53 36 0.32
54 36 0.32
55 41 0.36
56 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (52 bp):
CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAACTTACAATGC
Found at i:56172680 original size:14 final size:16
Alignment explanation
Indices: 56172654--56172686 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
56172644 TAAAGCACGA
56172654 AAATTTCACACAT-AT
1 AAATTTCACACATAAT
56172669 AAATTT-ACACATAAT
1 AAATTTCACACATAAT
56172684 AAA
1 AAA
56172687 CATAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTTCACACATAAT
Found at i:56172942 original size:93 final size:93
Alignment explanation
Indices: 56172783--56172989 Score: 288
Period size: 93 Copynumber: 2.2 Consensus size: 93
56172773 ACAATAGAAT
* * *
56172783 ATTACCGCATTGCATTGTACCGCACGTACGTTAGCTGCGCTACGTACCATTGACTGAACTGGCAG
1 ATTACCGCATTGCACTGTACCACACGTACATTAGCTGCGCTACGTACCATTGACTGAACTGGCAG
* *
56172848 TTTCATTGCAAACCTATCAGTGTAGCGG
66 TTTCACTGCAAACCTATCAGTATAGCGG
* ** * * *
56172876 ATTACCGCCTTGCACTGTACCACATTTACATTAGCTGGGCTATGTACCATTGACTGAATTGGCAG
1 ATTACCGCATTGCACTGTACCACACGTACATTAGCTGCGCTACGTACCATTGACTGAACTGGCAG
**
56172941 TTTCACTGCAAACCTATTGGTATAGCGG
66 TTTCACTGCAAACCTATCAGTATAGCGG
*
56172969 ATTACTGCATTGCACTGTACC
1 ATTACCGCATTGCACTGTACC
56172990 TAATGTACGT
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 99 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (93 bp):
ATTACCGCATTGCACTGTACCACACGTACATTAGCTGCGCTACGTACCATTGACTGAACTGGCAG
TTTCACTGCAAACCTATCAGTATAGCGG
Found at i:56177439 original size:56 final size:56
Alignment explanation
Indices: 56177378--56177544 Score: 219
Period size: 56 Copynumber: 3.0 Consensus size: 56
56177368 ACCATGGCAT
* *
56177378 CGATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATTGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* *
56177434 CGATATATGTGTGCGAGTATGACCACGTTTATTACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* * * * * **
56177490 TGATATATGTGTGTGAGTAAGACC-CTGTCTGAGACAATGGCATCGATATGTGATT
1 CGATATATGTGTGCGAGTAAGACCAC-GTTTAATACGTTGGCATCGATATGTGATT
56177545 ACATGTAAGA
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
55 1 0.01
56 96 0.99
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
Found at i:56177808 original size:19 final size:19
Alignment explanation
Indices: 56177784--56177821 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
56177774 TAATTGTGAA
*
56177784 GTATATTCGGTCATAAGTT
1 GTATATTCGATCATAAGTT
56177803 GTATATTCGATCATAAGTT
1 GTATATTCGATCATAAGTT
56177822 AAGTGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (19 bp):
GTATATTCGATCATAAGTT
Found at i:56189869 original size:62 final size:62
Alignment explanation
Indices: 56189772--56189894 Score: 219
Period size: 62 Copynumber: 2.0 Consensus size: 62
56189762 GGCTTATTTG
*
56189772 ACCTTATTTGGTCAGTTACCGGAGGTATTGTAGGTGCGGGGGTTGTATTAGTCGGGAATGGA
1 ACCTTATTTGGTCAGTTACCGGAGGTATTGTAGGTGCGGGGGTGGTATTAGTCGGGAATGGA
* *
56189834 ACCTTATTTGGTCAGTTACCGGAGGTATTGTAGGTGCGGGGGTGGTGTTTGTCGGGAATGG
1 ACCTTATTTGGTCAGTTACCGGAGGTATTGTAGGTGCGGGGGTGGTATTAGTCGGGAATGG
56189895 GGGTTGTGGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.17, C:0.11, G:0.39, T:0.33
Consensus pattern (62 bp):
ACCTTATTTGGTCAGTTACCGGAGGTATTGTAGGTGCGGGGGTGGTATTAGTCGGGAATGGA
Found at i:56193438 original size:47 final size:47
Alignment explanation
Indices: 56193387--56193486 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 47
56193377 GATTTTATGA
*
56193387 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGT
*
56193434 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGT
56193481 GATGAA
1 GATGAA
56193487 CGTGGAAGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGT
Found at i:56193519 original size:47 final size:47
Alignment explanation
Indices: 56193387--56193526 Score: 158
Period size: 47 Copynumber: 3.0 Consensus size: 47
56193377 GATTTTATGA
* *
56193387 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGT
* * **
56193434 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAACGTGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGT
* * * *
56193481 GATGAACGTGGAA-GTGTATATATGTGGCGAA-GCCGAATGGCTAATG
1 GATGAACGT-GAACATGCATATATGT-GAGAAGGCCGAATGGCCAATG
56193527 CGAAACGTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 75 0.93
48 6 0.07
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
GATGAACGTGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGT
Found at i:56193560 original size:46 final size:46
Alignment explanation
Indices: 56193510--56193636 Score: 209
Period size: 46 Copynumber: 2.8 Consensus size: 46
56193500 ATATGTGGCG
*
56193510 AAGCCGAATGGCTAATGCGAAACGTGTATGAGTTGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
56193556 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
* * **
56193602 AAGCCGAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
56193637 TGTATATATA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
Found at i:56196678 original size:24 final size:24
Alignment explanation
Indices: 56196643--56196688 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
56196633 TCGATATATC
*
56196643 AGCTCATAAGAGCTTACTGTTTTT
1 AGCTCATAAGAGCTTACCGTTTTT
*
56196667 AGCTCATTAGAGCTTACCGTTT
1 AGCTCATAAGAGCTTACCGTTT
56196689 CAACTCGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (24 bp):
AGCTCATAAGAGCTTACCGTTTTT
Found at i:56200768 original size:21 final size:21
Alignment explanation
Indices: 56200743--56200816 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
56200733 GTCATAAATA
56200743 TTTTTAAAAAAATTTAAAATTC
1 TTTTT-AAAAAATTTAAAATTC
* * *
56200765 TTTTTATAAAA--TATAATTN
1 TTTTTAAAAAATTTAAAATTC
*
56200784 TTTTTTAAAAATTTAAAATTC
1 TTTTTAAAAAATTTAAAATTC
*
56200805 TTTTTATAAAAT
1 TTTTTAAAAAAT
56200817 ATAATTTTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 15 0.37
21 21 0.51
22 5 0.12
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTTAAAAAATTTAAAATTC
Found at i:56200787 original size:19 final size:19
Alignment explanation
Indices: 56200760--56200822 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
56200750 AAAAATTTAA
56200760 AATTCTTTTTATAAAATAT
1 AATTCTTTTTATAAAATAT
* *
56200779 AATTNTTTTT-TAAAAATTTAA
1 AATTCTTTTTAT-AAAA--TAT
56200800 AATTCTTTTTATAAAATAT
1 AATTCTTTTTATAAAATAT
56200819 AATT
1 AATT
56200823 TTATAGGTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
21 15 0.42
22 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTCTTTTTATAAAATAT
Found at i:56200946 original size:15 final size:15
Alignment explanation
Indices: 56200926--56200966 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
56200916 ACTCACATTT
*
56200926 TGCTAAATTTCGTCA
1 TGCTAAATTTCATCA
56200941 TGCTAAATTTCATCA
1 TGCTAAATTTCATCA
*
56200956 AGCT-AATTTCA
1 TGCTAAATTTCA
56200967 AATTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (15 bp):
TGCTAAATTTCATCA
Found at i:56214584 original size:18 final size:18
Alignment explanation
Indices: 56214561--56214602 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
56214551 AATGAATTGT
56214561 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
56214579 ATTAAATTGCTTGATGTG
1 ATTAAATTGCTTGATGTG
56214597 ATTAAA
1 ATTAAA
56214603 AATGCATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (18 bp):
ATTAAATTGCTTGATGTG
Found at i:56215794 original size:47 final size:47
Alignment explanation
Indices: 56215741--56216153 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
56215731 TTAGGATTCT
56215741 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
56215788 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
56215837 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56215884 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56215931 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56215978 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56216025 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
56216072 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
56216119 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
56216154 TCCCGAAGGG
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:56217414 original size:21 final size:22
Alignment explanation
Indices: 56217385--56217428 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
56217375 CTTGTAATAA
*
56217385 TTTCTTATAATTTTTAAATATT
1 TTTCTTATAACTTTTAAATATT
*
56217407 TTTC-TATAGCTTTTAAATATT
1 TTTCTTATAACTTTTAAATATT
56217428 T
1 T
56217429 GTTGATGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTCTTATAACTTTTAAATATT
Found at i:56221859 original size:53 final size:52
Alignment explanation
Indices: 56221789--56221929 Score: 158
Period size: 52 Copynumber: 2.7 Consensus size: 52
56221779 CACATAACAT
* * *
56221789 ACCGATGCCATATCCCAGATATGGTCTTATATGGAATCATAT-TATCACATCAC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATATGGAATC-T-TGAATCACATCAC
* * ***
56221842 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGGATCTTGAATCACATTGT
1 ACCGATGCCATAGCCCAGCTATGGTCTTATATGGAATCTTGAATCACATCAC
* * *
56221894 ACAGGTGTCATAGCCCAGCTATGGTCTTATATGGAA
1 ACCGATGCCATAGCCCAGCTATGGTCTTATATGGAA
56221930 GTACATATCA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
51 1 0.01
52 39 0.53
53 34 0.46
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (52 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATATGGAATCTTGAATCACATCAC
Found at i:56231373 original size:38 final size:38
Alignment explanation
Indices: 56231322--56231540 Score: 312
Period size: 38 Copynumber: 5.7 Consensus size: 38
56231312 ATATTCGATG
56231322 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
56231360 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* ** *
56231398 TATATCCGGGCTTAAAGACCTACAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * *
56231438 AATATCCGGGTTAAATCTCGCAGGATTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
56231476 TATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGATAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
56231514 TATGTCCGGGTTAAATCCCGCAGGCTT
1 TATATCCGGGTTAAATCCCGCAGGCTT
56231541 GGCCTAGCAG
Statistics
Matches: 159, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 122 0.77
39 10 0.06
40 27 0.17
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:56231429 original size:78 final size:76
Alignment explanation
Indices: 56231322--56231540 Score: 303
Period size: 78 Copynumber: 2.9 Consensus size: 76
56231312 ATATTCGATG
* * *
56231322 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTT
1 TATATCCGGGTTAAAACCCACAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTT
56231387 CGTGCTAGTAT
66 CGTGCTAGTAT
* * * *
56231398 TATATCCGGGCTTAAAGACCTACAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCTCGCAGGA
1 TATATCCGGG-TTAAA-ACCCACAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGC
*
56231463 TTCGTGCTGGTAT
64 TTCGTGCTAGTAT
* * * * *
56231476 TATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGATAATATGTCCGGGTTAAATCCCGCAGGCTT
1 TATATCCGGGTTAAAACCCACAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTT
56231541 GGCCTAGCAG
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
76 51 0.41
77 10 0.08
78 63 0.51
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (76 bp):
TATATCCGGGTTAAAACCCACAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTT
CGTGCTAGTAT
Found at i:56234012 original size:47 final size:47
Alignment explanation
Indices: 56233934--56234346 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
56233924 CCCTTCGGGA
* * * * * *
56233934 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56233981 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56234028 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56234075 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56234122 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56234169 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56234216 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56234265 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56234312 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
56234347 AGAATCCTAA
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56234386 original size:143 final size:138
Alignment explanation
Indices: 56233945--56234367 Score: 566
Period size: 143 Copynumber: 3.0 Consensus size: 138
56233935 TTATCACATT
* * * * * * *
56233945 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
56234010 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT-AG--A--A-GC
* *
56234075 CTTATC--ACAT-A
125 CTAATCAAATATAA
56234086 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
56234151 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT-----A-GAAGC
* *
56234216 CTTATCACATAT-A
125 CTAATCAAATATAA
56234229 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
56234294 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATAGAATCCTAAAT
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATAGAAGCCT-AAT
56234359 CAAAATATA
130 C-AAATATA
56234368 GATTTTCATG
Statistics
Matches: 258, Mismatches: 14, Indels: 21
0.88 0.05 0.07
Matches are distributed among these distances:
137 5 0.02
138 4 0.02
139 5 0.02
141 119 0.46
142 1 0.00
143 122 0.47
144 1 0.00
145 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (138 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATAGAAGCCTAATC
AAATATAA
Found at i:56235508 original size:18 final size:18
Alignment explanation
Indices: 56235485--56235526 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
56235475 CATATGCATT
56235485 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
56235503 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
56235521 TTTAAT
1 TTTAAT
56235527 ACAATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (18 bp):
TTTAATCACATCAAGCAA
Found at i:56245652 original size:18 final size:18
Alignment explanation
Indices: 56245600--56245655 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
56245590 TCATTAACAA
*
56245600 TCAG-AACAATTATTTAT
1 TCAGTAACAATTAATTAT
* * *
56245617 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATTAATTAT
*
56245635 TCGGTAACAATTAATTAT
1 TCAGTAACAATTAATTAT
56245653 TCA
1 TCA
56245656 ATAATAACCA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
17 4 0.13
18 26 0.87
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TCAGTAACAATTAATTAT
Found at i:56245668 original size:36 final size:36
Alignment explanation
Indices: 56245604--56245672 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
56245594 TAACAATCAG
* * **
56245604 AACAATTATTTATTCAGTAACAGTCAGTTATTCGGT
1 AACAATTAATTATTCAATAACAACCAGTTATTCGGT
*
56245640 AACAATTAATTATTCAATAATAACCAGTTATTC
1 AACAATTAATTATTCAATAACAACCAGTTATTC
56245673 AGAATTTCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (36 bp):
AACAATTAATTATTCAATAACAACCAGTTATTCGGT
Found at i:56246405 original size:6 final size:6
Alignment explanation
Indices: 56246394--56246421 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
56246384 TTGATTTTCC
56246394 CTTTTT CTTTTT CTTTTT CTTTTT CTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTT
56246422 CTTTCTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:56246430 original size:18 final size:18
Alignment explanation
Indices: 56246394--56246433 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
56246384 TTGATTTTCC
*
56246394 CTTTTTCTTTTTCTTTTT
1 CTTTTTCTTTTTCTCTTT
56246412 CTTTTTCTTTCTT-TCTTT
1 CTTTTTCTTT-TTCTCTTT
56246430 CTTT
1 CTTT
56246434 CTCCCCTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
CTTTTTCTTTTTCTCTTT
Found at i:56246513 original size:5 final size:5
Alignment explanation
Indices: 56246505--56246542 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
56246495 TTTATATAAT
*
56246505 ATATA ATATA ACATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
56246543 ACAATTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:56246674 original size:21 final size:22
Alignment explanation
Indices: 56246635--56246687 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
56246625 CATACAGTTG
*
56246635 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
56246657 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
56246677 ATAAAATAATA
1 TTAAAATAATA
56246688 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:56249389 original size:13 final size:13
Alignment explanation
Indices: 56249371--56249402 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56249361 ACCAAAATTA
56249371 AGCAAGACAGAAC
1 AGCAAGACAGAAC
*
56249384 AGCAAGACCGAAC
1 AGCAAGACAGAAC
56249397 AGCAAG
1 AGCAAG
56249403 CTAACTGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.25, G:0.25, T:0.00
Consensus pattern (13 bp):
AGCAAGACAGAAC
Found at i:56251583 original size:16 final size:16
Alignment explanation
Indices: 56251562--56251593 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56251552 ATAAAGTAAG
56251562 ATGATTGAAGTAATCA
1 ATGATTGAAGTAATCA
56251578 ATGATTGAAGTAATCA
1 ATGATTGAAGTAATCA
56251594 CTATTAGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGATTGAAGTAATCA
Found at i:56255749 original size:56 final size:56
Alignment explanation
Indices: 56255682--56255913 Score: 437
Period size: 56 Copynumber: 4.1 Consensus size: 56
56255672 TATTAGTTTA
* *
56255682 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
56255738 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
56255794 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
*
56255850 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTACATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
56255906 TTGCCCAT
1 TTGCCCAT
56255914 CATCCCTTGT
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 173 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:56257467 original size:34 final size:34
Alignment explanation
Indices: 56257421--56257489 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
56257411 GATTTTAAGT
56257421 CTTAGAAAATAAATTTGTCAGTAAAGAAGACATA
1 CTTAGAAAATAAATTTGTCAGTAAAGAAGACATA
* *
56257455 CTTAGAACATAAATTTGTCAGTAAAGAAGAGATA
1 CTTAGAAAATAAATTTGTCAGTAAAGAAGACATA
56257489 C
1 C
56257490 CTGGAACCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (34 bp):
CTTAGAAAATAAATTTGTCAGTAAAGAAGACATA
Found at i:56257557 original size:18 final size:18
Alignment explanation
Indices: 56257516--56257557 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
56257506 ATCCTCTTTT
56257516 ATTTTTGTACGATAAAAA
1 ATTTTTGTACGATAAAAA
* *
56257534 AATTTTG-ATGATAATAAA
1 ATTTTTGTACGATAA-AAA
56257552 ATTTTT
1 ATTTTT
56257558 TTAGTCAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (18 bp):
ATTTTTGTACGATAAAAA
Found at i:56257964 original size:227 final size:231
Alignment explanation
Indices: 56257548--56258007 Score: 775
Period size: 227 Copynumber: 2.0 Consensus size: 231
56257538 TTGATGATAA
* *
56257548 TAAAATTTTTTTAGTCAAATGAAAAAGAAAGCAAAAAAAAAAATAGAGGAGATGGACGATTTTTT
1 TAAAAATTTTTTAGTCAAATGAAAAAGAAAGC-AAAAAAAAAATAGAGGAGATGAACGATTTTTT
56257613 CAACTAAGATTTAAGGTTTAAAATTTTTAATTAATTAAATTTATTTAATTAAAAATCTATTCTTA
65 CAACTAAGATTTAAGGTTTAAAATTTTTAATTAATTAAATTTATTTAATTAAAAATCTATTCTTA
* * * *
56257678 TCCCATTTGGAAATCCAAGTTGGCACTCAAAATCTAGTTGGACTACCATGTAGGATTACCGTTAA
130 TCCCATTTGAAAATCCAAGTTAGCACTCAAAATCTAGTTGGACTACCACGTACGATTACCGTTAA
*
56257743 GGA-G-G-TAACAAAACTTAACGGAAGAGTGATCACT
195 GGAGGAGATAACAAAACTTAACAGAAGAGTGATCACT
*
56257777 TAAAAATTTTTTAGTCAAATGAAAAAGAAAGC-TAAAAAAAATAGAGGAGATGAACGATTTTTTC
1 TAAAAATTTTTTAGTCAAATGAAAAAGAAAGCAAAAAAAAAATAGAGGAGATGAACGATTTTTTC
56257841 AACTAAGATTTAAGGTTTAAAATTTTTAATTAATTAAATTTATTTAATTAAAAATCTATTCTTAT
66 AACTAAGATTTAAGGTTTAAAATTTTTAATTAATTAAATTTATTTAATTAAAAATCTATTCTTAT
* *
56257906 CCCATTTGAAAATCCAAGTTAGCACTTAAAATCTAGTTGGACTATCACGTACGATTACCGTTAAG
131 CCCATTTGAAAATCCAAGTTAGCACTCAAAATCTAGTTGGACTACCACGTACGATTACCGTTAAG
* *
56257971 GAGGAGATAACAGAACTTAATAGAAGAGTGATCACT
196 GAGGAGATAACAAAACTTAACAGAAGAGTGATCACT
56258007 T
1 T
56258008 CGTAACAAAA
Statistics
Matches: 216, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
227 156 0.72
228 1 0.00
229 32 0.15
230 27 0.12
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (231 bp):
TAAAAATTTTTTAGTCAAATGAAAAAGAAAGCAAAAAAAAAATAGAGGAGATGAACGATTTTTTC
AACTAAGATTTAAGGTTTAAAATTTTTAATTAATTAAATTTATTTAATTAAAAATCTATTCTTAT
CCCATTTGAAAATCCAAGTTAGCACTCAAAATCTAGTTGGACTACCACGTACGATTACCGTTAAG
GAGGAGATAACAAAACTTAACAGAAGAGTGATCACT
Found at i:56266705 original size:23 final size:23
Alignment explanation
Indices: 56266679--56266724 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
56266669 GTAGGAAGTG
*
56266679 TTTTACAAATTTTATTACTGGAC
1 TTTTACAAATTTTACTACTGGAC
* *
56266702 TTTTACGACTTTTACTACTGGAC
1 TTTTACAAATTTTACTACTGGAC
56266725 CAAAAGTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (23 bp):
TTTTACAAATTTTACTACTGGAC
Found at i:56272334 original size:14 final size:15
Alignment explanation
Indices: 56272315--56272349 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
56272305 GAAATCAAAC
56272315 AAAAGG-GTAAAAAA
1 AAAAGGAGTAAAAAA
56272329 AAAAGGATGTAAAAAA
1 AAAAGGA-GTAAAAAA
56272345 AAAAG
1 AAAAG
56272350 CAGACAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
16 13 0.68
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (15 bp):
AAAAGGAGTAAAAAA
Found at i:56272441 original size:5 final size:5
Alignment explanation
Indices: 56272431--56272471 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
56272421 CCACAAGAAA
*
56272431 AAAAG AAAAG AAAAG AAAAG AACAG AAAAG AAGAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AAAAG
56272472 CTGGTCTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:56281272 original size:12 final size:12
Alignment explanation
Indices: 56281255--56281296 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
56281245 TAGAGTTAAG
56281255 GAAAAAAGAAGA
1 GAAAAAAGAAGA
56281267 GAAAAAA-AAGGA
1 GAAAAAAGAA-GA
56281279 GAAAAAGAGAAGA
1 GAAAAA-AGAAGA
56281292 -AAAAA
1 GAAAAA
56281297 GGGAAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 2 0.07
12 20 0.74
13 3 0.11
14 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
GAAAAAAGAAGA
Found at i:56281283 original size:22 final size:22
Alignment explanation
Indices: 56281252--56281304 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
56281242 AACTAGAGTT
*
56281252 AAGGAAAAAAGAAGAGAA-AAAA
1 AAGGAGAAAA-AAGAGAAGAAAA
56281274 AAGGAG-AAAAAGAGAAGAAAA
1 AAGGAGAAAAAAGAGAAGAAAA
56281295 AAGG-GAAAAA
1 AAGGAGAAAAA
56281305 GATTCAAAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 8 0.29
21 15 0.54
22 5 0.18
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AAGGAGAAAAAAGAGAAGAAAA
Found at i:56281288 original size:20 final size:20
Alignment explanation
Indices: 56281263--56281306 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
56281253 AGGAAAAAAG
56281263 AAGAGAA-AAAAAAGGAGAAA
1 AAGAGAAGAAAAAAGG-GAAA
56281283 AAGAGAAGAAAAAAGGGAAA
1 AAGAGAAGAAAAAAGGGAAA
56281303 AAGA
1 AAGA
56281307 TTCAAAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (20 bp):
AAGAGAAGAAAAAAGGGAAA
Found at i:56284592 original size:50 final size:50
Alignment explanation
Indices: 56284529--56284627 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
56284519 TAGTCTTGGC
56284529 TATCAAAGCAGTTGAATCCACGAGTAGAGACATAGATGTATTCATTGGTG
1 TATCAAAGCAGTTGAATCCACGAGTAGAGACATAGATGTATTCATTGGTG
* *
56284579 TATCAAAGTAGTTGAATCCACGAGTAGAGACATAGGTGTATTCATTGGT
1 TATCAAAGCAGTTGAATCCACGAGTAGAGACATAGATGTATTCATTGGT
56284628 AGAATGATAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (50 bp):
TATCAAAGCAGTTGAATCCACGAGTAGAGACATAGATGTATTCATTGGTG
Found at i:56295388 original size:25 final size:26
Alignment explanation
Indices: 56295360--56295416 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
56295350 GGATTTTCTG
56295360 AAGCTAGTGTTAGCAACATTGAACT-
1 AAGCTAGTGTTAGCAACATTGAACTA
* *
56295385 AAGCTAGTGTTAGCAACCTTGATCTA
1 AAGCTAGTGTTAGCAACATTGAACTA
56295411 AAGCTA
1 AAGCTA
56295417 AAGTTAGCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 23 0.79
26 6 0.21
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (26 bp):
AAGCTAGTGTTAGCAACATTGAACTA
Found at i:56295422 original size:26 final size:25
Alignment explanation
Indices: 56295368--56295424 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
56295358 TGAAGCTAGT
**
56295368 GTTAGCAACATTGAACTAAGCTAGT
1 GTTAGCAACATTGAACTAAGCTAAA
* *
56295393 GTTAGCAACCTTGATCTAAAGCTAAA
1 GTTAGCAACATTGAACT-AAGCTAAA
56295419 GTTAGC
1 GTTAGC
56295425 GGCCCGAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (25 bp):
GTTAGCAACATTGAACTAAGCTAAA
Found at i:56302664 original size:14 final size:14
Alignment explanation
Indices: 56302645--56302674 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
56302635 TGGTAAAGCC
56302645 CAGGTTGTGTGGAT
1 CAGGTTGTGTGGAT
56302659 CAGGTTGTGTGGAT
1 CAGGTTGTGTGGAT
56302673 CA
1 CA
56302675 AGGACATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.40, T:0.33
Consensus pattern (14 bp):
CAGGTTGTGTGGAT
Found at i:56312359 original size:42 final size:42
Alignment explanation
Indices: 56312254--56312364 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 42
56312244 CCGGACCAAC
* * * * * *
56312254 GCCATCTCCCAGATATGGTCCTACATGTATTCTCGTATCGAT
1 GCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCGAT
* *
56312296 GCCAATAGCCCAGATATGGTCTTACACGAAGTCTCATATTGAT
1 GCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGAT
*
56312339 GCCATATCACAGATATGGTCTTACAC
1 GCCATATCCCAGATATGGTCTTACAC
56312365 ATAATCTCAG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCGAT
Found at i:56326836 original size:475 final size:462
Alignment explanation
Indices: 56325959--56326856 Score: 1546
Period size: 475 Copynumber: 1.9 Consensus size: 462
56325949 CGCATTACGA
56325959 TAGTCCTAGAATCGACTAAACCGTAGCTCTGATACCAATCAAATGTAACACCCCGAACCCGAGAC
1 TAGTCCTAGAATCGACTAAACCGTAGCTCTGATACCAATCAAATGTAACACCCCGAACCCGAGAC
*
56326024 CGTCACCGGAGTCGAACACGAGGTGTTAACAGACTTTTAAAAAAAAGTCCAGACACTGCCAATCT
66 CGACACCGGAGTCGAACACGAGGTGTTAACAGACTTTTAAAAAAAAGTCCAGACACTGCCAATCT
* * * ** * *
56326089 GCGTAATAGTCGCTTTAAAAATCATATCTTGAGTTTCACCACTCGAAAATCGGTTTTGTGATTTT
131 GCGTAATAGTCGCTTTAAAAATCATATCTTGAGTTTCACAACTAGAAAATCAGTTCCGTAAATTT
56326154 TCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTCAGGCCAATT
196 TCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTCAGGCCAATT
56326219 AGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACCCTGACCTTTGCGCATTA
261 AGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACCCTGACCTTTGCGCATTA
56326284 CAACTTGAATATCTCCTTGTACAGGGCTCCAATGCTGATCCCGTTTGTTTCTATAGAAACTAGAC
326 CAACTTGAATATCTCCTTGTACAGGGCTCCAATGCTGATCCCGTTTGTTTCTATAGAAACTAGAC
56326349 TCAGAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATT
391 TCAGAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATT
56326414 TCCAAAT
456 TCCAAAT
**
56326421 TAGTCCTAGAATCGACTAAACCGTAGCTCTGATACCAATCAAATGTAACACTTCGAACCCGAGAC
1 TAGTCCTAGAATCGACTAAACCGTAGCTCTGATACCAATCAAATGTAACACCCCGAACCCGAGAC
*
56326486 CGACACCGGAGTCGAACACGAGGTGTTAACAGACTTTAAGCCCCTTATAAAAAAAAATTTCCCAG
66 CGACACCGGAGTCGAACACGAGGTGTTAACAGAC--T-------TT-T-AAAAAAAA-GT-CCAG
* *
56326551 ACACTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGTTTCACAACTAG-GAATCC
118 ACACTGCCAATCTGCGTAATAGTCGCTTTAAAAATCATATCTTGAGTTTCACAACTAGAAAAT-C
56326615 AGTTCCGTAAATTTTCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAGAATTTT
182 AGTTCCGTAAATTTTCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAGAATTTT
56326680 TGGTCAGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACCCTG
247 TGGTCAGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACCCTG
56326745 ACCTTTGCGCATTACAACTTGAATATCTCCTTGTACAGGGCTCCAATGCTGATCCCGTTTGTTTC
312 ACCTTTGCGCATTACAACTTGAATATCTCCTTGTACAGGGCTCCAATGCTGATCCCGTTTGTTTC
56326810 TATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGTATGACT
377 TATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGTATGACT
56326857 ATAGACTCAG
Statistics
Matches: 409, Mismatches: 13, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
462 96 0.23
464 1 0.00
471 2 0.00
472 1 0.00
473 8 0.02
474 4 0.01
475 297 0.73
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (462 bp):
TAGTCCTAGAATCGACTAAACCGTAGCTCTGATACCAATCAAATGTAACACCCCGAACCCGAGAC
CGACACCGGAGTCGAACACGAGGTGTTAACAGACTTTTAAAAAAAAGTCCAGACACTGCCAATCT
GCGTAATAGTCGCTTTAAAAATCATATCTTGAGTTTCACAACTAGAAAATCAGTTCCGTAAATTT
TCCCTGAAACTAGACTCATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTCAGGCCAATT
AGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACCCTGACCTTTGCGCATTA
CAACTTGAATATCTCCTTGTACAGGGCTCCAATGCTGATCCCGTTTGTTTCTATAGAAACTAGAC
TCAGAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATT
TCCAAAT
Found at i:56326873 original size:39 final size:39
Alignment explanation
Indices: 56326819--56326895 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
56326809 CTATAGAAAC
56326819 TAGACTCAGAGAGGAATCTATACATATATGGTATGACTA
1 TAGACTCAGAGAGGAATCTATACATATATGGTATGACTA
*
56326858 TAGACTCAGAGAGGAATCTATCCATATATGGTATGACT
1 TAGACTCAGAGAGGAATCTATACATATATGGTATGACT
56326896 CCTAATTATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (39 bp):
TAGACTCAGAGAGGAATCTATACATATATGGTATGACTA
Found at i:56333893 original size:40 final size:40
Alignment explanation
Indices: 56333788--56334084 Score: 433
Period size: 40 Copynumber: 7.5 Consensus size: 40
56333778 CGGATGATAA
* *
56333788 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
56333828 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTA-TGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
*
56333867 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
56333907 CCGGGCTACGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
56333947 CCGGGCTACGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
56333987 CCGGGCTACGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
56334027 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
56334067 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56334085 TACTTGGTTT
Statistics
Matches: 240, Mismatches: 12, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.00
39 48 0.20
40 190 0.79
41 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:56343336 original size:40 final size:40
Alignment explanation
Indices: 56343134--56343322 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
56343124 TATTCGGATG
* * *
56343134 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
56343174 A-ATTCTGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
56343214 ATAACCGGGCTAAATCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
56343254 TTAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
56343294 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
56343323 AGCAAGTAGC
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 130 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:56346281 original size:27 final size:27
Alignment explanation
Indices: 56346251--56346428 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56346241 ATATTGAGTC
* * * *
56346251 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
56346278 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56346305 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
56346333 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
56346360 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56346387 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56346414 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56346429 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56346390 original size:82 final size:81
Alignment explanation
Indices: 56346272--56346427 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56346262 TGCTATATAA
* *
56346272 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
56346337 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
56346354 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
56346418 CACTTAGTGC
65 CACTTAGTGC
56346428 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:56348644 original size:8 final size:8
Alignment explanation
Indices: 56348631--56348670 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
56348621 TTCAATACAA
56348631 ATTCAATC
1 ATTCAATC
56348639 ATTCAATC
1 ATTCAATC
56348647 ATTCAATC
1 ATTCAATC
*
56348655 ATTCATTTC
1 ATTCA-ATC
56348664 ATTCAAT
1 ATTCAAT
56348671 TTAATACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (8 bp):
ATTCAATC
Found at i:56350027 original size:43 final size:43
Alignment explanation
Indices: 56349948--56350106 Score: 212
Period size: 43 Copynumber: 3.7 Consensus size: 43
56349938 CAATTCCATA
* * * *
56349948 TCCCAGATATGGTTTTACATGTTATCACATATCGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACATAACGATGCCAATG
* * *
56349991 TCCTAGACATGGTCTTACATGAAATCATATAACGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACATAACGATGCCAATG
* * *
56350034 TCCGAGACATGGTCTTACACGTAATCACA-ATACAATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACATA-ACGATGCCAATG
56350077 TCCCAGACATGGTCTTACATGTAATCACAT
1 TCCCAGACATGGTCTTACATGTAATCACAT
56350107 CTCGGTAATC
Statistics
Matches: 100, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 99 0.99
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCACATAACGATGCCAATG
Found at i:56351970 original size:16 final size:16
Alignment explanation
Indices: 56351949--56351979 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56351939 TTAATCAAGC
*
56351949 AAGTCAGGCATATAAT
1 AAGTCAGGCACATAAT
56351965 AAGTCAGGCACATAA
1 AAGTCAGGCACATAA
56351980 CATTATATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (16 bp):
AAGTCAGGCACATAAT
Found at i:56354159 original size:43 final size:42
Alignment explanation
Indices: 56354097--56354217 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
56354087 CAACGTACCA
* *
56354097 ATGCCATA-TCCAGATATGGTCTTACATGTAATCTCGTATCC
1 ATGCCATACCCCAGATATGGTCTTACATGTAATCTCATATCC
* * * *
56354138 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATACCCCAGATATGGTCTTACATGTAA-TCTCATATCC
56354181 ATGCCATACCCCAGATATGGTCTTACATGTAATCTCA
1 ATGCCATACCCCAGATATGGTCTTACATGTAATCTCA
56354218 ATAATCCTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
41 5 0.07
42 31 0.46
43 32 0.47
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATACCCCAGATATGGTCTTACATGTAATCTCATATCC
Found at i:56357550 original size:43 final size:42
Alignment explanation
Indices: 56357488--56357608 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
56357478 CAACGTACCA
* *
56357488 ATGCCATA-TCCAGATATGGTCTTACATGTAATCTCGTATCC
1 ATGCCATACCCCAGATATGGTCTTACATGTAATCTCATATCC
* * * *
56357529 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATACCCCAGATATGGTCTTACATGTAA-TCTCATATCC
56357572 ATGCCATACCCCAGATATGGTCTTACATGTAATCTCA
1 ATGCCATACCCCAGATATGGTCTTACATGTAATCTCA
56357609 ATAATCCTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
41 5 0.07
42 31 0.46
43 32 0.47
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATACCCCAGATATGGTCTTACATGTAATCTCATATCC
Found at i:56361873 original size:39 final size:40
Alignment explanation
Indices: 56361778--56362039 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
56361768 TTGAATGATG
*
56361778 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
56361816 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
56361857 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
56361896 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
56361935 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
56361974 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
56362013 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56362040 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:56375990 original size:47 final size:48
Alignment explanation
Indices: 56375880--56376000 Score: 126
Period size: 47 Copynumber: 2.6 Consensus size: 48
56375870 TGATTTGTGC
* * *
56375880 GCTAGTGTAAGACATGTCTGGGACAT-GCTTCGGCCACATTATGAGAG
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATGACGAGAG
* *
56375927 CCAAG-GTAAGACCATGTCTGGGACATGGCATCGG-CATCCA-GACGAG-G
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCA--CATGACGAGAG
*
56375974 GCTAGTGTAAGACATGTTTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
56376001 CTTCAACCAT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
46 6 0.10
47 37 0.61
48 16 0.26
49 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATGACGAGAG
Found at i:56376042 original size:46 final size:45
Alignment explanation
Indices: 56375886--56376046 Score: 146
Period size: 46 Copynumber: 3.5 Consensus size: 45
56375876 GTGCGCTAGT
*
56375886 GTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCA-A
1 GTAAGACATGTCTGGGACATGCTTC-GCCATATTATGAGAGCCAGA
* * * * * * *
56375931 GGTAAGACCATGTCTGGGACATGGCATCGGCATCCA-GACGAGGGCTAGT
1 -GTAAGA-CATGTCTGGGACAT-GCTTCGCCAT--ATTATGAGAGCCAGA
* * *
56375980 GTAAGACATGTTTGGGACATGCTTCAACCATATTATGAGTGCCAGA
1 GTAAGACATGTCTGGGACATGCTTC-GCCATATTATGAGAGCCAGA
56376026 GTAAGACATGTCTGGGACATG
1 GTAAGACATGTCTGGGACATG
56376047 TATTGGCCTC
Statistics
Matches: 90, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
45 1 0.01
46 38 0.42
47 33 0.37
48 17 0.19
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
GTAAGACATGTCTGGGACATGCTTCGCCATATTATGAGAGCCAGA
Found at i:56381887 original size:12 final size:12
Alignment explanation
Indices: 56381838--56381889 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
56381828 ATTGGTCATT
56381838 GAGGGA-TTGTAG
1 GAGGGATTTG-AG
*
56381850 GAGGGAGTTGAG
1 GAGGGATTTGAG
* *
56381862 GAGAGATATGAG
1 GAGGGATTTGAG
*
56381874 GAGGGATTTTAG
1 GAGGGATTTGAG
56381886 GAGG
1 GAGG
56381890 AAATCAAGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 30 0.91
13 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.50, T:0.21
Consensus pattern (12 bp):
GAGGGATTTGAG
Found at i:56383341 original size:27 final size:27
Alignment explanation
Indices: 56383302--56383451 Score: 157
Period size: 27 Copynumber: 5.7 Consensus size: 27
56383292 GCGTACTTGA
*
56383302 ACCCTTATGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
56383329 ACCCTTATTTGATAAAATGACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
56383356 ACCCTTACGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
56383383 GCCTTTATGTGATAAAATGACAATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
56383410 --GC---TGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* * *
56383432 GCCCTTATGTTATCAAATGA
1 ACCCTTATGTGATAAAATGA
56383452 TCAAAATACC
Statistics
Matches: 101, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
22 18 0.18
24 1 0.01
27 82 0.81
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGACGATTTT
Found at i:56383396 original size:54 final size:53
Alignment explanation
Indices: 56383302--56383451 Score: 191
Period size: 54 Copynumber: 2.9 Consensus size: 53
56383292 GCGTACTTGA
* *
56383302 ACCCTTATGTGATAAAATGATGATTTTACCCTTATTTGATAAAATGACAATTTT
1 ACCCTTA-GTGATAAAATGATGATTTTGCCCTTATGTGATAAAATGACAATTTT
* *
56383356 ACCCTTACGTGATAAAATGACGATTTTGCCTTTATGTGATAAAATGACAATTTT
1 ACCCTTA-GTGATAAAATGATGATTTTGCCCTTATGTGATAAAATGACAATTTT
* * *
56383410 --GC-T-GTGATAAAATGATGATTTTGCCCTTATGTTATCAAATGA
1 ACCCTTAGTGATAAAATGATGATTTTGCCCTTATGTGATAAAATGA
56383452 TCAAAATACC
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
49 35 0.41
51 1 0.01
52 1 0.01
54 49 0.57
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (53 bp):
ACCCTTAGTGATAAAATGATGATTTTGCCCTTATGTGATAAAATGACAATTTT
Found at i:56383418 original size:22 final size:22
Alignment explanation
Indices: 56383390--56383433 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
56383380 TTTGCCTTTA
56383390 TGTGATAAAATGACAATTTTGC
1 TGTGATAAAATGACAATTTTGC
**
56383412 TGTGATAAAATGATGATTTTGC
1 TGTGATAAAATGACAATTTTGC
56383434 CCTTATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (22 bp):
TGTGATAAAATGACAATTTTGC
Found at i:56383476 original size:27 final size:27
Alignment explanation
Indices: 56383446--56383570 Score: 130
Period size: 27 Copynumber: 4.6 Consensus size: 27
56383436 TTATGTTATC
*
56383446 AAATGATCAAAATACCCTCATAGGGTA
1 AAATGATCGAAATACCCTCATAGGGTA
* * *
56383473 AAATCATCGAGATACCCTCATAGGATA
1 AAATGATCGAAATACCCTCATAGGGTA
*
56383500 AAATG-TCTGAAATACCCCCATAGGGTA
1 AAATGATC-GAAATACCCTCATAGGGTA
*
56383527 GAATGA-CTGAAATACTCC-CATAGGGTA
1 AAATGATC-GAAATAC-CCTCATAGGGTA
* *
56383554 GAATGACCGAAATACCC
1 AAATGATCGAAATACCC
56383571 CTACCCCTTA
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
26 4 0.05
27 78 0.92
28 3 0.04
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.21
Consensus pattern (27 bp):
AAATGATCGAAATACCCTCATAGGGTA
Found at i:56383688 original size:24 final size:24
Alignment explanation
Indices: 56383631--56383698 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 24
56383621 GTTCTACGAT
*
56383631 ATGTGTGAT-TGTATTTGAGCATGCC
1 ATGT-TGATATGTATTT-TGCATGCC
56383656 ATGTT-ATATGTATTTTGCAT-CC
1 ATGTTGATATGTATTTTGCATGCC
*
56383678 ATGTATGATAT-TATGTTGCAT
1 ATGT-TGATATGTATTTTGCAT
56383699 TGCATGGGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 6 0.16
23 16 0.42
24 12 0.32
25 4 0.11
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.46
Consensus pattern (24 bp):
ATGTTGATATGTATTTTGCATGCC
Found at i:56387278 original size:27 final size:27
Alignment explanation
Indices: 56387241--56387689 Score: 659
Period size: 27 Copynumber: 16.7 Consensus size: 27
56387231 CGTACTTGAA
* * *
56387241 CCCTCATGTGATAAAATGACAATTTTA
1 CCCTTATGTGATAAAATGACGATTTTG
* *
56387268 CCCTTATGTGATAAAATGATGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTG
*
56387295 CCCTTATGTGA-AAAATGACAATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
56387321 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
56387348 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
*
56387375 CCCTTATGTGATAAAATGACGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTG
* * * *
56387402 CCCTTATATGATAAAATTATGATTTTA
1 CCCTTATGTGATAAAATGACGATTTTG
* * *
56387429 TCCTTATATGATAAAATGATGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
56387456 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
56387483 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
* *
56387510 CCTTTATATGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
*
56387537 CCCTTATGTGATAAAATGGCGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
** *
56387564 CCCTTCCGTGATAAAATGATGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
*
56387591 CCCTTATGTGAGAAAATGACGATTTT-
1 CCCTTATGTGATAAAATGACGATTTTG
* *
56387617 CCCTTTTGTGATAAAATGACGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTG
*
56387644 CCCTTATGTGATAAAATGACGATTTTA
1 CCCTTATGTGATAAAATGACGATTTTG
*
56387671 CCCTTATGTGATCAAATGA
1 CCCTTATGTGATAAAATGA
56387690 TCGAAATACC
Statistics
Matches: 383, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
26 47 0.12
27 336 0.88
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATTTTG
Found at i:56387714 original size:27 final size:27
Alignment explanation
Indices: 56387684--56387824 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
56387674 TTATGTGATC
*
56387684 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * *
56387711 AAATAACCGAAATACCCTCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* * **
56387738 AAATGTTTGAAATACCCCCATAAAGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* *
56387765 GAATGATCGAAATACCCCCATAAGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* **
56387792 GAATGATCGAAATACCCCTGTAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
56387819 AAATGA
1 AAATGA
56387825 CTTTTATACC
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (27 bp):
AAATGATCGAAATACCCCCATAGGGTA
Found at i:56387934 original size:23 final size:23
Alignment explanation
Indices: 56387887--56387936 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
56387877 CTATATTTGA
*
56387887 GCATGCCATGTTATATGTATTTT
1 GCATGCCATGTTATATGTATGTT
56387910 GCAT-CCATGTATGATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
56387933 GCAT
1 GCAT
56387937 TGCATGGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Done.