Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 88 of 168
Found at i:26130597 original size:15 final size:15
Alignment explanation
Indices: 26130550--26130589 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
26130540 TATAAGCAAC
26130550 AAAACATAGTAATTA
1 AAAACATAGTAATTA
* *
26130565 AAAAAATAATTAATTA
1 AAAACAT-AGTAATTA
26130581 AAAACATAG
1 AAAACATAG
26130590 CTATTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (15 bp):
AAAACATAGTAATTA
Found at i:26130807 original size:19 final size:20
Alignment explanation
Indices: 26130783--26130820 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
26130773 TGAGCTGGTT
26130783 GGAGCTGAAA-TGAGCTAAG
1 GGAGCTGAAATTGAGCTAAG
26130802 GGAGCTGAAATTGAGCTAA
1 GGAGCTGAAATTGAGCTAA
26130821 AATAGCTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAG
Found at i:26130827 original size:20 final size:19
Alignment explanation
Indices: 26130784--26130827 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
26130774 GAGCTGGTTG
**
26130784 GAGCTGAAATGAGCTAAGG
1 GAGCTGAAATGAGCTAAAA
26130803 GAGCTGAAATTGAGCTAAAA
1 GAGCTGAAA-TGAGCTAAAA
*
26130823 TAGCT
1 GAGCT
26130828 TGCACTAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.39, C:0.11, G:0.30, T:0.20
Consensus pattern (19 bp):
GAGCTGAAATGAGCTAAAA
Found at i:26131112 original size:20 final size:19
Alignment explanation
Indices: 26131087--26131124 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
26131077 GCAAGTTGAT
*
26131087 TTTAGCTCGATTTTAGCTCC
1 TTTAGCTCG-TTTCAGCTCC
26131107 TTTAGCTCGTTTCAGCTC
1 TTTAGCTCGTTTCAGCTC
26131125 TAACCAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (19 bp):
TTTAGCTCGTTTCAGCTCC
Found at i:26134558 original size:20 final size:20
Alignment explanation
Indices: 26134533--26134571 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26134523 GTGCAAAATA
*
26134533 AAGCTCGATCCAGCTCAATC
1 AAGCTCAATCCAGCTCAATC
*
26134553 AAGCTCAATTCAGCTCAAT
1 AAGCTCAATCCAGCTCAAT
26134572 TTTAGCTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.23
Consensus pattern (20 bp):
AAGCTCAATCCAGCTCAATC
Found at i:26135069 original size:27 final size:27
Alignment explanation
Indices: 26135021--26135072 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
26135011 AATTGGTAGG
* *
26135021 TACATGCATGGACAGCATTGAAGATAA
1 TACATACATGGACAGCAATGAAGATAA
**
26135048 TACATACATGGATGGCAATGAAGAT
1 TACATACATGGACAGCAATGAAGAT
26135073 GCTTCAATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (27 bp):
TACATACATGGACAGCAATGAAGATAA
Found at i:26138931 original size:20 final size:20
Alignment explanation
Indices: 26138908--26138954 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
26138898 GGGTTGAGGT
26138908 TGAGCTGAATTGAACTCGAA
1 TGAGCTGAATTGAACTCGAA
* * *
26138928 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGAATTGAACTCGAA
26138948 TGAGCTG
1 TGAGCTG
26138955 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTGAACTCGAA
Found at i:26139725 original size:27 final size:27
Alignment explanation
Indices: 26139701--26139754 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
26139691 ACATTTTTGT
26139701 TCAATCTCACTCTCGTTTTTCTTTTTC
1 TCAATCTCACTCTCGTTTTTCTTTTTC
* * *
26139728 TCACTCTCACTGTC-TTTTT-TTCTTC
1 TCAATCTCACTCTCGTTTTTCTTTTTC
26139753 TC
1 TC
26139755 TCGAGTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 5 0.21
27 12 0.50
ACGTcount: A:0.09, C:0.31, G:0.04, T:0.56
Consensus pattern (27 bp):
TCAATCTCACTCTCGTTTTTCTTTTTC
Found at i:26140777 original size:11 final size:11
Alignment explanation
Indices: 26140760--26140804 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
26140750 GAATGGAAAT
26140760 ATTTTTTTT-A
1 ATTTTTTTTCA
26140770 ATTTTTTTTCGA
1 ATTTTTTTTC-A
26140782 ATTTTTTTTCA
1 ATTTTTTTTCA
*
26140793 AATTTTTTTCA
1 ATTTTTTTTCA
26140804 A
1 A
26140805 AGAAACTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
10 9 0.28
11 12 0.38
12 11 0.34
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (11 bp):
ATTTTTTTTCA
Found at i:26140778 original size:12 final size:12
Alignment explanation
Indices: 26140760--26140805 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
26140750 GAATGGAAAT
26140760 ATTTTTTTT--A
1 ATTTTTTTTCAA
*
26140770 ATTTTTTTTCGA
1 ATTTTTTTTCAA
26140782 ATTTTTTTTCAA
1 ATTTTTTTTCAA
26140794 A-TTTTTTTCAA
1 ATTTTTTTTCAA
26140805 A
1 A
26140806 GAAACTACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
10 9 0.27
11 11 0.33
12 13 0.39
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (12 bp):
ATTTTTTTTCAA
Found at i:26143800 original size:43 final size:43
Alignment explanation
Indices: 26143752--26144124 Score: 373
Period size: 43 Copynumber: 8.7 Consensus size: 43
26143742 TTATAGAAAA
*
26143752 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCCAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCTAC
*
26143795 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGC-TTCTCCAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCTAC
* * *
26143837 AAACGCCGCTATAGAGT-AGTGTCTTTAGCGTCGCTTTTTCTAC
1 AAACGCCGCTATAGA-TCAGGGTCTTTAGCGGCGCTTTCTCTAC
* *
26143880 AAACGCCGCTATAGATCAGGGTCTTTAGCGGTGCTTT-TTTAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCTAC
* * *
26143922 AAACGCCGCTATAGATCAGGGTCTTTAGCGACGC-TTCTTTTGC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTC-TCTAC
* * ** * * * *
26143965 AAATGCCACTATAGATCAGGACCTTTAGCGGCACTTTTTTTAA
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCTAC
* * * *
26144008 AAACGCTGTTATAGATCA-GGACTTTTAGCGGCGCCTTT-T-TAA
1 AAACGCCGCTATAGATCAGGGTC-TTTAGCGGCG-CTTTCTCTAC
* * * *
26144050 AAACGCCGCTATAGATCAGGATCTTTAGTGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCTAC
* * ** **
26144093 AAATGCCACTATATCTCAGGACCTTTAGCGGC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGC
26144125 ATTTTTTTAT
Statistics
Matches: 279, Mismatches: 40, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
41 6 0.02
42 106 0.38
43 161 0.58
44 6 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCTAC
Found at i:26143882 original size:85 final size:85
Alignment explanation
Indices: 26143752--26144141 Score: 410
Period size: 85 Copynumber: 4.6 Consensus size: 85
26143742 TTATAGAAAA
** *
26143752 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCCACAAACGCCGCTATAGATCAGGGT
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTT-TTTACAAACGCCGCTATAGATCAGGAT
*
26143817 CTTTAGCGGCGC-TTCTCCAC
65 CTTTAGCGGCGCTTTTTCCAC
* * *
26143837 AAACGCCGCTATAGAGT-AGTGTCTTTAGCGTCGCTTTTTCTACAAACGCCGCTATAGATCAGGG
1 AAACGCCGCTATAGA-TCAGGGTCTTTAGCGGCGCTTTTT-TACAAACGCCGCTATAGATCAGGA
* *
26143901 TCTTTAGCGGTGCTTTTT-TAC
64 TCTTTAGCGGCGCTTTTTCCAC
* * * * *
26143922 AAACGCCGCTATAGATCAGGGTCTTTAGCGACGCTTCTTTTGCAAATGCCACTATAGATCAGGAC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTT-TTTTACAAACGCCGCTATAGATCAGGAT
* ** *
26143987 CTTTAGCGGCACTTTTTTTAA
65 CTTTAGCGGCGCTTTTTCCAC
* * * * *
26144008 AAACGCTGTTATAGATCA-GGACTTTTAGCGGCGCCTTTTTAAAAACGCCGCTATAGATCAGGAT
1 AAACGCCGCTATAGATCAGGGTC-TTTAGCGGCGCTTTTTTACAAACGCCGCTATAGATCAGGAT
*
26144072 CTTTAGTGGCGCTTTTTCCAC
65 CTTTAGCGGCGCTTTTTCCAC
* * ** ** ** *
26144093 AAATGCCACTATATCTCAGGACCTTTAGCGGCATTTTTTTATAAACGCC
1 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTACAAACGCC
26144142 ACTAATTTTA
Statistics
Matches: 253, Mismatches: 44, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
84 2 0.01
85 213 0.84
86 38 0.15
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (85 bp):
AAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTACAAACGCCGCTATAGATCAGGATC
TTTAGCGGCGCTTTTTCCAC
Found at i:26143991 original size:128 final size:128
Alignment explanation
Indices: 26143750--26144141 Score: 472
Period size: 128 Copynumber: 3.1 Consensus size: 128
26143740 ATTTATAGAA
**
26143750 AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTCTCCACAAACGCCGCTATAGATCAGG
1 AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTT-TTTACAAACGCCGCTATAGATCAGG
* * * * * *
26143815 GTCTTTAGCGGCGCTTC-TCCACAAACGCCGCTATAGAGT-AGTG-TCTTTAGCGTCGCTTTTTC
65 GTCTTTAGCGGCGCTTCTTTCACAAATGCCACTATAGA-TCAG-GACCTTTAGCGGCACTTTTTC
26143877 T
128 T
* *
26143878 ACAAACGCCGCTATAGATCAGGGTCTTTAGCGGTGCTTTTTTACAAACGCCGCTATAGATCAGGG
1 AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTACAAACGCCGCTATAGATCAGGG
* ** *
26143943 TCTTTAGCGACGCTTCTTTTGCAAATGCCACTATAGATCAGGACCTTTAGCGGCACTTTTTTT
66 TCTTTAGCGGCGCTTCTTTCACAAATGCCACTATAGATCAGGACCTTTAGCGGCACTTTTTCT
* * * * *
26144006 AAAAACGCTGTTATAGATCA-GGACTTTTAGCGGCGCCTTTTTAAAAACGCCGCTATAGATCAGG
1 AAAAACGCCGCTATAGATCAGGGTC-TTTAGCGGCGCTTTTTTACAAACGCCGCTATAGATCAGG
* * ** *
26144070 ATCTTTAGTGGCGCTT-TTTCCACAAATGCCACTATATCTCAGGACCTTTAGCGGCA-TTTTTTT
65 GTCTTTAGCGGCGCTTCTTT-CACAAATGCCACTATAGATCAGGACCTTTAGCGGCACTTTTTCT
*
26144133 ATAAACGCC
1 AAAAACGCC
26144142 ACTAATTTTA
Statistics
Matches: 229, Mismatches: 30, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
127 61 0.27
128 168 0.73
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (128 bp):
AAAAACGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTTTACAAACGCCGCTATAGATCAGGG
TCTTTAGCGGCGCTTCTTTCACAAATGCCACTATAGATCAGGACCTTTAGCGGCACTTTTTCT
Found at i:26144523 original size:21 final size:21
Alignment explanation
Indices: 26144499--26144544 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
26144489 TTGAACCCCA
* *
26144499 GCTTCTCTCGCTACTGCCTCT
1 GCTTCCCTCGCTACAGCCTCT
*
26144520 GCTTCCCTCGTTACAGCCTCT
1 GCTTCCCTCGCTACAGCCTCT
26144541 GCTT
1 GCTT
26144545 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.41, G:0.15, T:0.37
Consensus pattern (21 bp):
GCTTCCCTCGCTACAGCCTCT
Found at i:26158468 original size:32 final size:32
Alignment explanation
Indices: 26158423--26158509 Score: 156
Period size: 32 Copynumber: 2.7 Consensus size: 32
26158413 NNNNNNNNCA
* *
26158423 TGCATGGACGGCATTAATTAGTTGCTGGAGCT
1 TGCATGCATGGCATTAATTAGTTGCTGGAGCT
26158455 TGCATGCATGGCATTAATTAGTTGCTGGAGCT
1 TGCATGCATGGCATTAATTAGTTGCTGGAGCT
26158487 TGCATGCATGGCATTAATTAGTT
1 TGCATGCATGGCATTAATTAGTT
26158510 AATTTTTCGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (32 bp):
TGCATGCATGGCATTAATTAGTTGCTGGAGCT
Found at i:26159328 original size:62 final size:62
Alignment explanation
Indices: 26159251--26159375 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
26159241 GAAAATAAGC
26159251 TGACTTTTTAGCTGCTCAAGTGTCCATTCGGCTAGCTTAGGAATTTGACTATAAATAGCTTG
1 TGACTTTTTAGCTGCTCAAGTGTCCATTCGGCTAGCTTAGGAATTTGACTATAAATAGCTTG
26159313 TGACTTTTTAGCTGCTCAAGTGTCCATTCGGCTAGCTTAGGAATTTGACTATAAATAGCTTG
1 TGACTTTTTAGCTGCTCAAGTGTCCATTCGGCTAGCTTAGGAATTTGACTATAAATAGCTTG
26159375 T
1 T
26159376 TTTGTATTCG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (62 bp):
TGACTTTTTAGCTGCTCAAGTGTCCATTCGGCTAGCTTAGGAATTTGACTATAAATAGCTTG
Found at i:26161114 original size:20 final size:22
Alignment explanation
Indices: 26161084--26161127 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
26161074 AATCTTGAAT
*
26161084 GAAATTGAGAGAAGAA-AAAAA
1 GAAATTGAGAGAAAAATAAAAA
26161105 GAAA-TGAGAGAAAAATAAAAA
1 GAAATTGAGAGAAAAATAAAAA
26161126 GA
1 GA
26161128 TGAAAATGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.09
Consensus pattern (22 bp):
GAAATTGAGAGAAAAATAAAAA
Found at i:26161183 original size:12 final size:12
Alignment explanation
Indices: 26161166--26161239 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
26161156 AGTGAAAAGC
26161166 AAAAAGAGATTG
1 AAAAAGAGATTG
*
26161178 AAAAAGAAATTG
1 AAAAAGAGATTG
26161190 AAAAAGA-A--G
1 AAAAAGAGATTG
*
26161199 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
26161214 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
26161226 AAAGAGAGCTTG
1 AAAAAGAGATTG
26161238 AA
1 AA
26161240 CAGAAATTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
9 7 0.14
11 2 0.04
12 32 0.64
13 2 0.04
15 7 0.14
ACGTcount: A:0.62, C:0.01, G:0.24, T:0.12
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:26162926 original size:82 final size:82
Alignment explanation
Indices: 26162766--26162928 Score: 229
Period size: 82 Copynumber: 2.0 Consensus size: 82
26162756 TTGTGTCTGC
* * * * *
26162766 AGGTCATTGAATTCGGCTACTTAATGGCTAAGGAGACATGCATTTTAGGTGCTGTTAACATGCAA
1 AGGTCATTGAATTCGGCTACTTAATGGCAAAGGAAACATGCATTTAAGGAGATGTTAACATGCAA
26162831 GGAACGGCATTTAAAGA
66 GGAACGGCATTTAAAGA
**
26162848 AGGTCATTGAAATTCGGCTACTTAATGGCAAAGGAAACATGCA-TTAAGGAGATGTTCCCATGCA
1 AGGTCATTG-AATTCGGCTACTTAATGGCAAAGGAAACATGCATTTAAGGAGATGTTAACATGCA
* *
26162912 TGGAACGGTATTTAAAG
65 AGGAACGGCATTTAAAG
26162929 GGAAGTAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 40 0.56
83 31 0.44
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (82 bp):
AGGTCATTGAATTCGGCTACTTAATGGCAAAGGAAACATGCATTTAAGGAGATGTTAACATGCAA
GGAACGGCATTTAAAGA
Found at i:26163000 original size:32 final size:32
Alignment explanation
Indices: 26162964--26163050 Score: 156
Period size: 32 Copynumber: 2.7 Consensus size: 32
26162954 GGTGTTCCCA
* *
26162964 TGCATGGACGGCATTAATTAGTTGCTGGAGCT
1 TGCATGCATGGCATTAATTAGTTGCTGGAGCT
26162996 TGCATGCATGGCATTAATTAGTTGCTGGAGCT
1 TGCATGCATGGCATTAATTAGTTGCTGGAGCT
26163028 TGCATGCATGGCATTAATTAGTT
1 TGCATGCATGGCATTAATTAGTT
26163051 AATTTTTCGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (32 bp):
TGCATGCATGGCATTAATTAGTTGCTGGAGCT
Found at i:26163869 original size:62 final size:63
Alignment explanation
Indices: 26163792--26163917 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
26163782 GAAAATAAGC
26163792 TGACTTTTTAGCTGCTCAAGTGTCCA-TTCGGCTAGCTTAGGAATTTGACTATAAATAGCTTG
1 TGACTTTTTAGCTGCTCAAGTGTCCATTTCGGCTAGCTTAGGAATTTGACTATAAATAGCTTG
26163854 TGACTTTTTAGCTGCTCAAGTGTCCATTTCGGCTAGCTTAGGAATTTGACTATAAATAGCTTG
1 TGACTTTTTAGCTGCTCAAGTGTCCATTTCGGCTAGCTTAGGAATTTGACTATAAATAGCTTG
26163917 T
1 T
26163918 TTTGTATTCG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 26 0.41
63 37 0.59
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (63 bp):
TGACTTTTTAGCTGCTCAAGTGTCCATTTCGGCTAGCTTAGGAATTTGACTATAAATAGCTTG
Found at i:26164509 original size:12 final size:12
Alignment explanation
Indices: 26164494--26164536 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
26164484 AAAAAAAAGG
26164494 AAAAAAATTTGA
1 AAAAAAATTTGA
*
26164506 AAAAAAAATT--
1 AAAAAAATTTGA
*
26164516 AAAAAAATTCGA
1 AAAAAAATTTGA
26164528 AAAAAAATT
1 AAAAAAATT
26164537 GTATTCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 8 0.31
12 18 0.69
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (12 bp):
AAAAAAATTTGA
Found at i:26164536 original size:21 final size:22
Alignment explanation
Indices: 26164484--26164534 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
26164474 TCGGTATTGT
** *
26164484 AAAAAAAAGGAAAAAAATTTGA
1 AAAAAAAATTAAAAAAATTCGA
26164506 AAAAAAAATTAAAAAAATTCGA
1 AAAAAAAATTAAAAAAATTCGA
26164528 AAAAAAA
1 AAAAAAA
26164535 TTGTATTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (22 bp):
AAAAAAAATTAAAAAAATTCGA
Found at i:26164643 original size:24 final size:22
Alignment explanation
Indices: 26164579--26164643 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
26164569 TTCAGTATTG
* *
26164579 AAAAAAAAAAG-A-GGAAATTC
1 AAAAAAAAAAGTATTGAAATTA
* * *
26164599 GAAAAAAAAAGTTTTGGAATTA
1 AAAAAAAAAAGTATTGAAATTA
26164621 AAAAAAAAAGAGTGATTGAAATT
1 AAAAAAAAA-AGT-ATTGAAATT
26164644 CATTTTGGGT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 10 0.30
22 13 0.39
23 3 0.09
24 7 0.21
ACGTcount: A:0.62, C:0.02, G:0.17, T:0.20
Consensus pattern (22 bp):
AAAAAAAAAAGTATTGAAATTA
Found at i:26165654 original size:12 final size:12
Alignment explanation
Indices: 26165637--26165710 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
26165627 AGTGAAAAGC
26165637 AAAAAGAGATTG
1 AAAAAGAGATTG
*
26165649 AAAAAGAAATTG
1 AAAAAGAGATTG
26165661 AAAAAGA-A--G
1 AAAAAGAGATTG
*
26165670 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
26165685 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
26165697 AAAGAGAGCTTG
1 AAAAAGAGATTG
26165709 AA
1 AA
26165711 CAGAAATTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
9 7 0.14
11 2 0.04
12 32 0.64
13 2 0.04
15 7 0.14
ACGTcount: A:0.62, C:0.01, G:0.24, T:0.12
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:26167396 original size:82 final size:82
Alignment explanation
Indices: 26167236--26167398 Score: 229
Period size: 82 Copynumber: 2.0 Consensus size: 82
26167226 TTGTGTCTGC
* * * * *
26167236 AGGTCATTGAATTCGGCTACTTAATGGCTAAGGAGACATGCATTTTAGGTGCTGTTAACATGCAA
1 AGGTCATTGAATTCGGCTACTTAATGGCAAAGGAAACATGCATTTAAGGAGATGTTAACATGCAA
26167301 GGAACGGCATTTAAAGA
66 GGAACGGCATTTAAAGA
**
26167318 AGGTCATTGAAATTCGGCTACTTAATGGCAAAGGAAACATGCA-TTAAGGAGATGTTCCCATGCA
1 AGGTCATTG-AATTCGGCTACTTAATGGCAAAGGAAACATGCATTTAAGGAGATGTTAACATGCA
* *
26167382 TGGAACGGTATTTAAAG
65 AGGAACGGCATTTAAAG
26167399 GGAAGTAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 40 0.56
83 31 0.44
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (82 bp):
AGGTCATTGAATTCGGCTACTTAATGGCAAAGGAAACATGCATTTAAGGAGATGTTAACATGCAA
GGAACGGCATTTAAAGA
Found at i:26167470 original size:32 final size:32
Alignment explanation
Indices: 26167434--26167520 Score: 156
Period size: 32 Copynumber: 2.7 Consensus size: 32
26167424 GGTGTTCCCA
* *
26167434 TGCATGGACGGCATTAATTAGTTGCTGGAGCT
1 TGCATGCATGGCATTAATTAGTTGCTGGAGCT
26167466 TGCATGCATGGCATTAATTAGTTGCTGGAGCT
1 TGCATGCATGGCATTAATTAGTTGCTGGAGCT
26167498 TGCATGCATGGCATTAATTAGTT
1 TGCATGCATGGCATTAATTAGTT
26167521 AATTTTTCGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (32 bp):
TGCATGCATGGCATTAATTAGTTGCTGGAGCT
Found at i:26200082 original size:20 final size:20
Alignment explanation
Indices: 26200059--26200105 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
26200049 GGGTTAAAAT
*
26200059 TGAGCTGAATTGATCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
26200079 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
26200099 TGAGCTG
1 TGAGCTG
26200106 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:26202018 original size:21 final size:19
Alignment explanation
Indices: 26201992--26202046 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 19
26201982 TTTTCAAGCT
26201992 CTCTTTCAATTTCTTTTTC
1 CTCTTTCAATTTCTTTTTC
*
26202011 CAC--TC--TTTCTTTTTC
1 CTCTTTCAATTTCTTTTTC
26202026 TTCTCTTTCAATTTCTTTTTC
1 --CTCTTTCAATTTCTTTTTC
26202047 AATCTGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
15 10 0.36
17 4 0.14
19 4 0.14
21 10 0.36
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (19 bp):
CTCTTTCAATTTCTTTTTC
Found at i:26202107 original size:15 final size:15
Alignment explanation
Indices: 26202087--26202128 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
26202077 TTTTGAAATC
26202087 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
26202102 TCATTTTCATTTCTT
1 TCATTTTCATTTCTT
26202117 TCATTTTCATTT
1 TCATTTTCATTT
26202129 TCTCGCTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 2 0.08
15 24 0.92
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:26204714 original size:10 final size:10
Alignment explanation
Indices: 26204699--26204748 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
26204689 ATTGGGTTAA
26204699 AATTGAGCTG
1 AATTGAGCTG
*
26204709 AATTGATCTCG
1 AATTGAGCT-G
26204720 AA-TGAGCTG
1 AATTGAGCTG
*
26204729 AATTGAGCTC
1 AATTGAGCTG
*
26204739 AAGTGAGCTG
1 AATTGAGCTG
26204749 GAAACGAGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
9 3 0.09
10 27 0.82
11 3 0.09
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (10 bp):
AATTGAGCTG
Found at i:26204725 original size:20 final size:20
Alignment explanation
Indices: 26204702--26204748 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
26204692 GGGTTAAAAT
*
26204702 TGAGCTGAATTGATCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
26204722 TGAGCTGAATTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
26204742 TGAGCTG
1 TGAGCTG
26204749 GAAACGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:26209479 original size:13 final size:13
Alignment explanation
Indices: 26209458--26209492 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
26209448 ATAAGTTGCT
* *
26209458 GTTAGTTAAATTA
1 GTTAATTAAATAA
26209471 GTTAATTAAATAA
1 GTTAATTAAATAA
26209484 GTTAATTAA
1 GTTAATTAA
26209493 TTTGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
GTTAATTAAATAA
Found at i:26210470 original size:7 final size:7
Alignment explanation
Indices: 26210453--26210494 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
26210443 AGTTTAATGA
26210453 TTTTTAT
1 TTTTTAT
26210460 TTTTT-T
1 TTTTTAT
26210466 ATTTTTAT
1 -TTTTTAT
26210474 TTATTTAT
1 TT-TTTAT
*
26210482 TTCTTAT
1 TTTTTAT
26210489 TTTTTA
1 TTTTTA
26210495 AGTTAGATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 1 0.03
7 21 0.70
8 8 0.27
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTAT
Found at i:26210471 original size:14 final size:14
Alignment explanation
Indices: 26210452--26210493 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
26210442 TAGTTTAATG
26210452 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
*
26210466 ATTTTTATTTATTT
1 ATTTTTATTTTTTT
26210480 ATTTCTTATTTTTT
1 ATTT-TTATTTTTT
26210494 AAGTTAGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:26212604 original size:11 final size:11
Alignment explanation
Indices: 26212589--26212639 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
26212579 TTTTTGCTCG
26212589 ATTTTTTTTCA
1 ATTTTTTTTCA
* *
26212600 CTTTTTTTTGA
1 ATTTTTTTTCA
*
26212611 ATTTTTTTTCG
1 ATTTTTTTTCA
*
26212622 ATTTTCTTTC-
1 ATTTTTTTTCA
26212632 -TTTTTTTT
1 ATTTTTTTT
26212640 AATCCAATAC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
9 7 0.21
11 26 0.79
ACGTcount: A:0.10, C:0.10, G:0.04, T:0.76
Consensus pattern (11 bp):
ATTTTTTTTCA
Found at i:26212616 original size:33 final size:31
Alignment explanation
Indices: 26212579--26212639 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 31
26212569 NNNNNNCTTT
*
26212579 TTTTTGCTCGATTTTTTTTCACTTTTTTTTGAA
1 TTTTTGCTCGATTTTCTTT--CTTTTTTTTGAA
**
26212612 TTTTTTTTCGATTTTCTTTCTTTTTTTT
1 TTTTTGCTCGATTTTCTTTCTTTTTTTT
26212640 AATCCAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 9 0.36
33 16 0.64
ACGTcount: A:0.08, C:0.11, G:0.07, T:0.74
Consensus pattern (31 bp):
TTTTTGCTCGATTTTCTTTCTTTTTTTTGAA
Found at i:26216883 original size:6 final size:6
Alignment explanation
Indices: 26216874--26216994 Score: 66
Period size: 6 Copynumber: 20.0 Consensus size: 6
26216864 AACAAAAAAG
** ** *
26216874 AAGAAA AAGAAA AAG--A AAGTGA AAGTGA AAGAAA ATGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
** * ** ** *
26216920 AAGAAA TTGCAA AAGAAA AAGAAA TCGAAA AAGTGA GAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* *
26216968 ATGAAGAA AAGAAA ATTGAAA AAGAAA
1 AAG-A-AA AAGAAA A-AGAAA AAGAAA
26216995 TTGAGATTTA
Statistics
Matches: 86, Mismatches: 24, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
4 4 0.05
6 71 0.83
7 7 0.08
8 4 0.05
ACGTcount: A:0.69, C:0.02, G:0.21, T:0.08
Consensus pattern (6 bp):
AAGAAA
Found at i:26216951 original size:18 final size:17
Alignment explanation
Indices: 26216868--26216952 Score: 86
Period size: 18 Copynumber: 5.0 Consensus size: 17
26216858 AATAAAAACA
26216868 AAAAAG-AA-GAAAAAG
1 AAAAAGAAATGAAAAAG
**
26216883 AAAAAGAAAGTGAAAGTG
1 AAAAAGAAA-TGAAAAAG
*
26216901 AAAGA-AAATGAAAAAG
1 AAAAAGAAATGAAAAAG
*
26216917 AAAAAGAAATTGCAAAAG
1 AAAAAGAAA-TGAAAAAG
26216935 AAAAAGAAATCGAAAAAG
1 AAAAAGAAAT-GAAAAAG
26216953 TGAGAGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
15 6 0.11
16 12 0.21
17 7 0.12
18 31 0.55
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.07
Consensus pattern (17 bp):
AAAAAGAAATGAAAAAG
Found at i:26221579 original size:32 final size:32
Alignment explanation
Indices: 26221504--26221576 Score: 114
Period size: 31 Copynumber: 2.3 Consensus size: 32
26221494 AGTATTGAAG
*
26221504 AAAAAAAAAAGAAGAAAAAAAAATTCGAAATT
1 AAAAAAAAAAGAAGAAAAAAAAATTCAAAATT
26221536 AAAAAAAAAAGAAG-AAAAAAAA-TCAAAATT
1 AAAAAAAAAAGAAGAAAAAAAAATTCAAAATT
26221566 GAAAAAAAAAA
1 -AAAAAAAAAA
26221577 AGAGTGATTG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 7 0.18
31 18 0.46
32 14 0.36
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.10
Consensus pattern (32 bp):
AAAAAAAAAAGAAGAAAAAAAAATTCAAAATT
Found at i:26222414 original size:21 final size:22
Alignment explanation
Indices: 26222385--26222425 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
26222375 AATCTTGAAT
*
26222385 GAAATTGAGAG-AAGAAAAAAA
1 GAAAATGAGAGTAAGAAAAAAA
26222406 GAAAATGAGAGTAAGAAAAA
1 GAAAATGAGAGTAAGAAAAA
26222426 GAAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.10
Consensus pattern (22 bp):
GAAAATGAGAGTAAGAAAAAAA
Found at i:26237195 original size:12 final size:12
Alignment explanation
Indices: 26237178--26237204 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26237168 GTCATCAAGC
26237178 CAAGGTGAGTAT
1 CAAGGTGAGTAT
26237190 CAAGGTGAGTAT
1 CAAGGTGAGTAT
26237202 CAA
1 CAA
26237205 ATTGAAATGA
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:0.37, C:0.11, G:0.30, T:0.22
Consensus pattern (12 bp):
CAAGGTGAGTAT
Found at i:26242163 original size:10 final size:10
Alignment explanation
Indices: 26242148--26242209 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
26242138 TTTGAACCAT
*
26242148 TACCAATTCG
1 TACCAATTCA
*
26242158 TACCAAATACCA
1 TACC-AAT-TCA
*
26242170 TACCATTTCA
1 TACCAATTCA
26242180 TACCAATTCCA
1 TACCAATT-CA
* *
26242191 TACCATTTCG
1 TACCAATTCA
26242201 TACCAATTC
1 TACCAATTC
26242210 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:26242193 original size:21 final size:21
Alignment explanation
Indices: 26242148--26242210 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
26242138 TTTGAACCAT
* *
26242148 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
26242170 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
26242191 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
26242211 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:26256807 original size:22 final size:23
Alignment explanation
Indices: 26256779--26256827 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 23
26256769 GCAGTTTTGG
26256779 TAATATTCTTGTCAAAAAA-ATA
1 TAATATTCTTGTCAAAAAATATA
26256801 TAATATTCTTGTCAAAAAATATA
1 TAATATTCTTGTCAAAAAATATA
26256824 TAAT
1 TAAT
26256828 TATTATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (23 bp):
TAATATTCTTGTCAAAAAATATA
Found at i:26270114 original size:20 final size:20
Alignment explanation
Indices: 26270089--26270135 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
26270079 AGCTCATTTC
*
26270089 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGATCAAGT
*
26270109 CAGCTCATTCGAGATCAATT
1 CAGCTCATTCGAGATCAAGT
26270129 CAGCTCA
1 CAGCTCA
26270136 ATTTTAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGATCAAGT
Found at i:26270138 original size:10 final size:10
Alignment explanation
Indices: 26270079--26270138 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
26270069 AGCTCTGTTT
*
26270079 AGCTCATTTCC
1 AGCTCAATT-C
* *
26270090 AGCTCACTTG
1 AGCTCAATTC
*
26270100 AGCTCAAGTC
1 AGCTCAATTC
26270110 AGCTC-ATTC
1 AGCTCAATTC
*
26270119 GAGATCAATTC
1 -AGCTCAATTC
26270130 AGCTCAATT
1 AGCTCAATT
26270139 TTAACCCAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
9 3 0.08
10 24 0.62
11 12 0.31
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:26271656 original size:13 final size:14
Alignment explanation
Indices: 26271640--26271669 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
26271630 AAAAAAAATC
26271640 AAAATTC-AAAAAA
1 AAAATTCGAAAAAA
26271653 AAAATTCGAAAAAA
1 AAAATTCGAAAAAA
26271667 AAA
1 AAA
26271670 GAAAAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAATTCGAAAAAA
Found at i:26271690 original size:40 final size:40
Alignment explanation
Indices: 26271646--26271721 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
26271636 AATCAAAATT
*
26271646 CAAAAAAAAAATTCGAAAAAAAAAG-A-AAAAAAGAAGTGAG
1 CAAAAAAAAAA-GC-AAAAAAAAAGAAGAAAAAAGAAGTGAG
*
26271686 CAAAAAAAAGAGCAAAAAAAAAGAAGAAAAAAGAAG
1 CAAAAAAAAAAGCAAAAAAAAAGAAGAAAAAAGAAG
26271722 AAGTGAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 10 0.31
39 2 0.06
40 20 0.62
ACGTcount: A:0.75, C:0.05, G:0.16, T:0.04
Consensus pattern (40 bp):
CAAAAAAAAAAGCAAAAAAAAAGAAGAAAAAAGAAGTGAG
Found at i:26271724 original size:13 final size:12
Alignment explanation
Indices: 26271660--26271722 Score: 56
Period size: 13 Copynumber: 5.0 Consensus size: 12
26271650 AAAAAAATTC
26271660 GAAAAAAAAAGA
1 GAAAAAAAAAGA
*
26271672 -AAAAAAGAAGTGA
1 GAAAAAA-AA-AGA
*
26271685 GCAAAAAAAAGA
1 GAAAAAAAAAGA
26271697 GCAAAAAAAAAGAA
1 G-AAAAAAAAAG-A
*
26271711 GAAAAAAGAAGA
1 GAAAAAAAAAGA
26271723 AGTGAAAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
11 6 0.15
12 6 0.15
13 22 0.54
14 7 0.17
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.02
Consensus pattern (12 bp):
GAAAAAAAAAGA
Found at i:26272904 original size:20 final size:18
Alignment explanation
Indices: 26272852--26272905 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
26272842 AAAAGAGATT
26272852 GAAAAAGAAATTGAAAGA-
1 GAAAAA-AAATTGAAAGAG
*
26272870 GAAGAAAAA--GAAAGAGTG
1 GAAAAAAAATTGAAAGA--G
26272888 GAAAAAAAATTGAAAGAG
1 GAAAAAAAATTGAAAGAG
26272906 AGCTTGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 6 0.21
17 3 0.10
18 14 0.48
20 6 0.21
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (18 bp):
GAAAAAAAATTGAAAGAG
Found at i:26274807 original size:10 final size:10
Alignment explanation
Indices: 26274781--26274840 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
26274771 AGCTCTGTTT
*
26274781 AGCTCATTTCC
1 AGCTCAATT-C
* *
26274792 AGCTCACTTG
1 AGCTCAATTC
26274802 AGCTCAATTC
1 AGCTCAATTC
26274812 AGCTC-ATTC
1 AGCTCAATTC
*
26274821 GAGATCAATTC
1 -AGCTCAATTC
26274832 AGCTCAATT
1 AGCTCAATT
26274841 TTAACCCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
9 4 0.10
10 25 0.61
11 12 0.29
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:26274816 original size:20 final size:20
Alignment explanation
Indices: 26274781--26274837 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
26274771 AGCTCTGTTT
*
26274781 AGCTCATTTCCAGCTCACTT-G
1 AGCTCAATT-CAGCTCA-TTCG
26274802 AGCTCAATTCAGCTCATTCG
1 AGCTCAATTCAGCTCATTCG
*
26274822 AGATCAATTCAGCTCA
1 AGCTCAATTCAGCTCA
26274838 ATTTTAACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 23 0.70
21 8 0.24
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTCG
Found at i:26281903 original size:20 final size:19
Alignment explanation
Indices: 26281867--26281927 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
26281857 TATAAAAGCC
*
26281867 ATTGAGCTTAAAATGAGCTG
1 ATTGAGC-TAAAGTGAGCTG
26281887 ATTGAGCTAAGAGTGAGCTCG
1 ATTGAGCTAA-AGTGAGCT-G
26281908 A-TGAGCTAAAGTTGAGCTG
1 ATTGAGCTAAAG-TGAGCTG
26281927 A
1 A
26281928 ATGAACTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 7 0.19
20 28 0.76
21 2 0.05
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (19 bp):
ATTGAGCTAAAGTGAGCTG
Found at i:26288275 original size:20 final size:20
Alignment explanation
Indices: 26288224--26288275 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
26288214 GAGCTTAAAA
*
26288224 TGAGCTGATTGACCTAAGAG
1 TGAGCTGAATGACCTAAGAG
*
26288244 TGAGCTCG-ATGAGCTAA-AG
1 TGAGCT-GAATGACCTAAGAG
26288263 TTGAGCTGAATGA
1 -TGAGCTGAATGA
26288276 ACTTGAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.11
20 23 0.85
21 1 0.04
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (20 bp):
TGAGCTGAATGACCTAAGAG
Found at i:26291796 original size:17 final size:17
Alignment explanation
Indices: 26291776--26291825 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
26291766 AAAAGAGTCC
*
26291776 GCCAAACCCTAGAGTTT
1 GCCAAACCTTAGAGTTT
26291793 GCCAAACCTTAGAGTTT
1 GCCAAACCTTAGAGTTT
*
26291810 TCCAAACCTTAGAGTT
1 GCCAAACCTTAGAGTT
26291826 CTCCAGATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (17 bp):
GCCAAACCTTAGAGTTT
Found at i:26300147 original size:17 final size:17
Alignment explanation
Indices: 26300112--26300159 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
26300102 ATTGTAGCTT
* *
26300112 AGAAAAAAAATTGGAAAA
1 AGAAAAAAAAAT-CAAAA
*
26300130 AAAATAAAAAAATCAAAA
1 AGAA-AAAAAAATCAAAA
26300148 AGAAAAAAAAAT
1 AGAAAAAAAAAT
26300160 TGGATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 8 0.32
18 10 0.40
19 7 0.28
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.10
Consensus pattern (17 bp):
AGAAAAAAAAATCAAAA
Found at i:26300287 original size:17 final size:17
Alignment explanation
Indices: 26300267--26300321 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
26300257 AAAAGAGTCC
26300267 GCCAAAGCC-TAGAGTTT
1 GCCAAA-CCTTAGAGTTT
26300284 GCCAAACCTTAGAGTTT
1 GCCAAACCTTAGAGTTT
* *
26300301 TCCAAACCTTAGAGTTC
1 GCCAAACCTTAGAGTTT
26300318 GCCA
1 GCCA
26300322 GATCATCTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 2 0.06
17 32 0.94
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (17 bp):
GCCAAACCTTAGAGTTT
Found at i:26306408 original size:17 final size:16
Alignment explanation
Indices: 26306394--26306431 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
26306384 TCGAAAAAGT
26306394 GAAAAAATAGAAAAATA
1 GAAAAAA-AGAAAAATA
26306411 CGAAAAAAAGAAAAATA
1 -GAAAAAAAGAAAAATA
26306428 -AAAA
1 GAAAA
26306432 TATTATATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
17 9 0.45
18 7 0.35
ACGTcount: A:0.79, C:0.03, G:0.11, T:0.08
Consensus pattern (16 bp):
GAAAAAAAGAAAAATA
Found at i:26308849 original size:18 final size:19
Alignment explanation
Indices: 26308820--26308855 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26308810 TGATATGGCC
*
26308820 AAAATCACTTTTTCACTTA
1 AAAATCACTTTTACACTTA
26308839 AAAATCA-TTTTACACTT
1 AAAATCACTTTTACACTT
26308856 TGGCATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATCACTTTTACACTTA
Found at i:26324373 original size:21 final size:19
Alignment explanation
Indices: 26324330--26324374 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
26324320 GAGCTCAAAT
* *
26324330 GAGCTGAAATGAGTTCATG
1 GAGCTGAAATGAGCTAATG
26324349 GAGCTGGAAATGAGCTAATTG
1 GAGCT-GAAATGAGCTAA-TG
26324370 GAGCT
1 GAGCT
26324375 CAATGAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 10 0.45
21 7 0.32
ACGTcount: A:0.31, C:0.11, G:0.33, T:0.24
Consensus pattern (19 bp):
GAGCTGAAATGAGCTAATG
Found at i:26342099 original size:20 final size:20
Alignment explanation
Indices: 26342076--26342122 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
26342066 GGGTTAAAAT
*
26342076 TGAGCTGAATTGATCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
26342096 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
26342116 TGAGCTG
1 TGAGCTG
26342123 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:26344735 original size:12 final size:12
Alignment explanation
Indices: 26344702--26344782 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 12
26344692 TTTCCACTCG
26344702 ATTTC-TTTTCA
1 ATTTCTTTTTCA
** *
26344713 AGCTCTCTTTCA
1 ATTTCTTTTTCA
26344725 ATTTCTTTTTCCA
1 ATTTCTTTTT-CA
*
26344738 CTCTTTCTTTTTC-
1 --ATTTCTTTTTCA
*
26344751 --TTCTCTTTCA
1 ATTTCTTTTTCA
26344761 ATTTCTTTTTCA
1 ATTTCTTTTTCA
*
26344773 ATCTCTTTTT
1 ATTTCTTTTT
26344783 GCTTTTCACT
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
9 8 0.15
11 3 0.06
12 30 0.57
13 2 0.04
14 1 0.02
15 9 0.17
ACGTcount: A:0.12, C:0.25, G:0.01, T:0.62
Consensus pattern (12 bp):
ATTTCTTTTTCA
Found at i:26344743 original size:21 final size:20
Alignment explanation
Indices: 26344717--26344772 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 20
26344707 TTTTCAAGCT
26344717 CTCTTTCAATTTCTTTTTCCA
1 CTCTTTCAATTTCTTTTT-CA
*
26344738 CTCTTTC--TTT-TTCTT--
1 CTCTTTCAATTTCTTTTTCA
26344753 CTCTTTCAATTTCTTTTTCA
1 CTCTTTCAATTTCTTTTTCA
26344773 ATCTCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
15 7 0.25
17 3 0.11
18 8 0.29
19 3 0.11
21 7 0.25
ACGTcount: A:0.11, C:0.27, G:0.00, T:0.62
Consensus pattern (20 bp):
CTCTTTCAATTTCTTTTTCA
Found at i:26345939 original size:16 final size:14
Alignment explanation
Indices: 26345895--26345942 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
26345885 CTCGCAAGAC
26345895 TTTTCACTTCTTTT
1 TTTTCACTTCTTTT
* *
26345909 TTTTACTCTTTTTTT
1 TTTT-CACTTCTTTT
26345924 TTTGCTCACTTCTTTT
1 TTT--TCACTTCTTTT
26345940 TTT
1 TTT
26345943 CTTTTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 4 0.15
15 11 0.41
16 11 0.41
17 1 0.04
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTCACTTCTTTT
Found at i:26345959 original size:18 final size:17
Alignment explanation
Indices: 26345937--26345982 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
26345927 GCTCACTTCT
*
26345937 TTTTTTCTTTTTTTTTCGA
1 TTTTTT-TTTTATTTT-GA
26345956 TTTTTTTTTTAATTTTGA
1 TTTTTTTTTT-ATTTTGA
26345974 TTTTTTTTT
1 TTTTTTTTT
26345983 GTGATACTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.09, C:0.04, G:0.04, T:0.83
Consensus pattern (17 bp):
TTTTTTTTTTATTTTGA
Found at i:26347503 original size:20 final size:20
Alignment explanation
Indices: 26347480--26347526 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
26347470 GGGTTAAAAT
*
26347480 TGAGCTGAATTGATCTCGAA-
1 TGAGCTGAATTGAGCTC-AAG
*
26347500 TGAGCTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
26347520 TGAGCTG
1 TGAGCTG
26347527 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:26349973 original size:21 final size:22
Alignment explanation
Indices: 26349948--26349990 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
26349938 AGCCAAACAA
*
26349948 ATGGCCA-TTTAACCAAAATAC
1 ATGGCCACATTAACCAAAATAC
*
26349969 ATGGCCACATTAGCCAAAATAC
1 ATGGCCACATTAACCAAAATAC
26349991 CTATGCATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.21
Consensus pattern (22 bp):
ATGGCCACATTAACCAAAATAC
Found at i:26350493 original size:25 final size:25
Alignment explanation
Indices: 26350424--26350510 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
26350414 TTCTATATGA
* * *
26350424 ATGCTCACACGAGCTATAAATTGGT
1 ATGCTCTCACGAGTTATAAATCGGT
* *
26350449 ATGCTCTCACAAGTAATAAATCGGT
1 ATGCTCTCACGAGTTATAAATCGGT
* * *
26350474 TTGCTCTCACGAGTTGTAAA-CAGT
1 ATGCTCTCACGAGTTATAAATCGGT
26350498 ATGCTCTCACGAG
1 ATGCTCTCACGAG
26350511 CTGTGGGTCA
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 15 0.29
25 36 0.71
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
ATGCTCTCACGAGTTATAAATCGGT
Found at i:26354641 original size:30 final size:30
Alignment explanation
Indices: 26354589--26354645 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
26354579 CCCTCTGTGC
* **
26354589 CGCATTTTCTAGTGCAGTAAACCCTAGCAT
1 CGCATTTTCTAATGCAAAAAACCCTAGCAT
*
26354619 CGCATTTTCTAATGTAAAAAACCCTAG
1 CGCATTTTCTAATGCAAAAAACCCTAG
26354646 TGCCGTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (30 bp):
CGCATTTTCTAATGCAAAAAACCCTAGCAT
Found at i:26358325 original size:16 final size:16
Alignment explanation
Indices: 26358270--26358328 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
26358260 GCTTTTACTT
26358270 GATTTCTTTCTTCACTC
1 GATTTCTTTC-TCACTC
26358287 G-TTTCTTT-TGCAGACTC
1 GATTTCTTTCT-C--ACTC
**
26358304 TTTTTCTTTCTCACTC
1 GATTTCTTTCTCACTC
26358320 GATTTCTTT
1 GATTTCTTT
26358329 TCAAACTCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
14 1 0.03
15 1 0.03
16 18 0.53
17 5 0.15
18 8 0.24
19 1 0.03
ACGTcount: A:0.10, C:0.25, G:0.08, T:0.56
Consensus pattern (16 bp):
GATTTCTTTCTCACTC
Found at i:26358337 original size:33 final size:34
Alignment explanation
Indices: 26358272--26358345 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
26358262 TTTTACTTGA
* *
26358272 TTTCTTTCTTCACTCGTTTCTTTTGCAGACTCTT
1 TTTCTTTCTTCACTCGTTTCTTTTGCAAACTCTC
26358306 TTTCTTTC-TCACTCGATTTCTTTT-CAAACTCTC
1 TTTCTTTCTTCACTCG-TTTCTTTTGCAAACTCTC
26358339 TTTCTTT
1 TTTCTTT
26358346 TTCTTTTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 21 0.57
34 16 0.43
ACGTcount: A:0.11, C:0.27, G:0.05, T:0.57
Consensus pattern (34 bp):
TTTCTTTCTTCACTCGTTTCTTTTGCAAACTCTC
Found at i:26358354 original size:12 final size:12
Alignment explanation
Indices: 26358339--26358387 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
26358329 TCAAACTCTC
*
26358339 TTTCTTTTTCTT
1 TTTCATTTTCTT
26358351 TTTC-TTTTC--
1 TTTCATTTTCTT
*
26358360 TTTCAATTTCTT
1 TTTCATTTTCTT
*
26358372 TTTCATTTTCAT
1 TTTCATTTTCTT
26358384 TTTC
1 TTTC
26358388 TCGCTCGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 4 0.13
10 4 0.13
11 5 0.16
12 18 0.58
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTCATTTTCTT
Found at i:26358364 original size:33 final size:34
Alignment explanation
Indices: 26358322--26358388 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
26358312 TCTCACTCGA
* *
26358322 TTTCTTTTCAAACTCTCTTTCTTTTTCTTTTTCT
1 TTTCTTTTCAAACTCTCTTTCATTTTCATTTTCT
** *
26358356 TTTC-TTTCAATTTCTTTTTCATTTTCATTTTCT
1 TTTCTTTTCAAACTCTCTTTCATTTTCATTTTCT
26358389 CGCTCGCAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (34 bp):
TTTCTTTTCAAACTCTCTTTCATTTTCATTTTCT
Found at i:26362402 original size:27 final size:27
Alignment explanation
Indices: 26362364--26362431 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
26362354 CATAGACCAT
*
26362364 ATAGTCAATTTATAACATAGGGGAATA
1 ATAGTCATTTTATAACATAGGGGAATA
* * * *
26362391 ATAGTCATTTTATCACGTGGGGGCATA
1 ATAGTCATTTTATAACATAGGGGAATA
*
26362418 ACAGTCATTTTATA
1 ATAGTCATTTTATA
26362432 TCAGTTTTGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (27 bp):
ATAGTCATTTTATAACATAGGGGAATA
Found at i:26372822 original size:12 final size:11
Alignment explanation
Indices: 26372805--26372847 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 11
26372795 TTGTAGTTTC
26372805 AAAAAAAATTCG
1 AAAAAAAA-TCG
26372817 AAAAAAAAATC-
1 -AAAAAAAATCG
26372828 AAAAAAAATCG
1 AAAAAAAATCG
26372839 AAAAGAAAA
1 AAAA-AAAA
26372848 AAAAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.36
11 4 0.14
12 6 0.21
13 8 0.29
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.09
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:26372834 original size:22 final size:23
Alignment explanation
Indices: 26372803--26372848 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
26372793 AATTGTAGTT
26372803 TCAAAAAAAATTCGAAAA-AAAAA
1 TCAAAAAAAA-TCGAAAAGAAAAA
26372826 TCAAAAAAAATCGAAAAGAAAAA
1 TCAAAAAAAATCGAAAAGAAAAA
26372849 AAAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.74, C:0.09, G:0.07, T:0.11
Consensus pattern (23 bp):
TCAAAAAAAATCGAAAAGAAAAA
Found at i:26375114 original size:19 final size:21
Alignment explanation
Indices: 26375078--26375141 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 21
26375068 AGAAAAGAAG
26375078 AAAAACAAAAAGATGAGTGAT
1 AAAAACAAAAAGATGAGTGAT
*
26375099 AAAAA-AAAGAGA-GAGTGATT
1 AAAAACAAAAAGATGAGTGA-T
* *
26375119 CAAAAGAAAAAGAAATGAGTGAT
1 AAAAACAAAAAG--ATGAGTGAT
26375142 GAGATTGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
19 6 0.17
20 11 0.31
21 10 0.29
23 2 0.06
24 6 0.17
ACGTcount: A:0.61, C:0.03, G:0.22, T:0.14
Consensus pattern (21 bp):
AAAAACAAAAAGATGAGTGAT
Found at i:26378027 original size:22 final size:22
Alignment explanation
Indices: 26377999--26378060 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
26377989 TTTATTGTTC
26377999 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
*
26378021 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTG
**
26378043 AGCCATGAGAGCTTAGTA
1 AAACATGAGAGCTTAGTA
26378061 ACGAGCTGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:26379581 original size:26 final size:26
Alignment explanation
Indices: 26379559--26379609 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
26379549 TCAATTTATA
26379559 ACATAGGGGCATAACAATCATTTTAC
1 ACATAGGGGCATAACAATCATTTTAC
* * *
26379585 ACGTGGGGGCATAACAGTCATTTTA
1 ACATAGGGGCATAACAATCATTTTA
26379610 TATCAGTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (26 bp):
ACATAGGGGCATAACAATCATTTTAC
Found at i:26381460 original size:16 final size:17
Alignment explanation
Indices: 26381441--26381473 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
26381431 ATAGTTAAAC
26381441 AAATT-GGAAATAAATT
1 AAATTGGGAAATAAATT
26381457 AAATTGGGAAATAAATT
1 AAATTGGGAAATAAATT
26381474 TGGATTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (17 bp):
AAATTGGGAAATAAATT
Found at i:26383056 original size:4 final size:4
Alignment explanation
Indices: 26383047--26383095 Score: 71
Period size: 4 Copynumber: 12.0 Consensus size: 4
26383037 AACTAGAGCT
* *
26383047 TTTA TTTA TTTA TTTA TTCA TTCA TTTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA
26383096 CAAGCAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
4 39 0.93
5 3 0.07
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:26383075 original size:21 final size:21
Alignment explanation
Indices: 26383051--26383094 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
26383041 AGAGCTTTTA
26383051 TTTATTTATTTATTCATTCAT
1 TTTATTTATTTATTCATTCAT
* *
26383072 TTTATTTATTTATTTATTTAT
1 TTTATTTATTTATTCATTCAT
26383093 TT
1 TT
26383095 ACAAGCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTATTTATTTATTCATTCAT
Found at i:26383670 original size:16 final size:17
Alignment explanation
Indices: 26383650--26383710 Score: 83
Period size: 16 Copynumber: 3.8 Consensus size: 17
26383640 GTTTTGTTCA
26383650 CTGTAATGGAATATGA-
1 CTGTAATGGAATATGAG
*
26383666 CTGTAATTGAATA-GAG
1 CTGTAATGGAATATGAG
26383682 CTGTAATGGAATAT-AG
1 CTGTAATGGAATATGAG
*
26383698 TTGTAATGGAATA
1 CTGTAATGGAATA
26383711 AAGTTGTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
15 2 0.05
16 38 0.95
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (17 bp):
CTGTAATGGAATATGAG
Found at i:26383703 original size:32 final size:32
Alignment explanation
Indices: 26383650--26383720 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
26383640 GTTTTGTTCA
* *
26383650 CTGTAATGGAATATGACTGTAATTGAATAGAG
1 CTGTAATGGAATATGACTGTAATGGAATAAAG
*
26383682 CTGTAATGGAATAT-AGTTGTAATGGAATAAAG
1 CTGTAATGGAATATGA-CTGTAATGGAATAAAG
*
26383714 TTGTAAT
1 CTGTAAT
26383721 CAGTAATTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.03
32 33 0.97
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (32 bp):
CTGTAATGGAATATGACTGTAATGGAATAAAG
Found at i:26383715 original size:16 final size:16
Alignment explanation
Indices: 26383667--26383720 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
26383657 GGAATATGAC
* * *
26383667 TGTAATTGAATAGAGC
1 TGTAATGGAATAAAGT
*
26383683 TGTAATGGAATATAGT
1 TGTAATGGAATAAAGT
26383699 TGTAATGGAATAAAGT
1 TGTAATGGAATAAAGT
26383715 TGTAAT
1 TGTAAT
26383721 CAGTAATTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (16 bp):
TGTAATGGAATAAAGT
Found at i:26383958 original size:55 final size:57
Alignment explanation
Indices: 26383887--26384020 Score: 168
Period size: 55 Copynumber: 2.4 Consensus size: 57
26383877 TTGTTATTAA
* * * * *
26383887 ATTTTAATA-AATTTATTTTTAAATATATTTTAATAAAAATAA-ATA-A-TTTAATCAT
1 ATTTTAATATAA-TTATTATTAAATAAAATTTAAT-AAAATAATATATAGTTTAATAAC
26383942 ATTTTAATATAATTATTATTAAATAAAATTTAATAAAATAATATATAGTTTAATAAC
1 ATTTTAATATAATTATTATTAAATAAAATTTAATAAAATAATATATAGTTTAATAAC
26383999 ATTCTTAATATAATTATTATTA
1 ATT-TTAATATAATTATTATTA
26384021 TATGAATAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
54 7 0.10
55 31 0.45
56 3 0.04
57 10 0.14
58 18 0.26
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAATAAAATTTAATAAAATAATATATAGTTTAATAAC
Found at i:26386907 original size:13 final size:13
Alignment explanation
Indices: 26386884--26386952 Score: 70
Period size: 13 Copynumber: 5.3 Consensus size: 13
26386874 GACGAGCGAG
26386884 CTGCGAGCTCAGT
1 CTGCGAGCTCAGT
* *
26386897 CCGCGATCTCA-T
1 CTGCGAGCTCAGT
26386909 CATGCGAGCTCAGT
1 C-TGCGAGCTCAGT
* *
26386923 CTGCGATCTC-TT
1 CTGCGAGCTCAGT
26386935 CATGCGAGCTCAGT
1 C-TGCGAGCTCAGT
26386949 CTGC
1 CTGC
26386953 AACCTCGTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
12 4 0.09
13 36 0.82
14 4 0.09
ACGTcount: A:0.16, C:0.33, G:0.25, T:0.26
Consensus pattern (13 bp):
CTGCGAGCTCAGT
Found at i:26386950 original size:26 final size:26
Alignment explanation
Indices: 26386885--26386952 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
26386875 ACGAGCGAGC
*
26386885 TGCGAGCTCAGTCCGCGATCTCATCA
1 TGCGAGCTCAGTCTGCGATCTCATCA
*
26386911 TGCGAGCTCAGTCTGCGATCTCTTCA
1 TGCGAGCTCAGTCTGCGATCTCATCA
26386937 TGCGAGCTCAGTCTGC
1 TGCGAGCTCAGTCTGC
26386953 AACCTCGTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.16, C:0.32, G:0.25, T:0.26
Consensus pattern (26 bp):
TGCGAGCTCAGTCTGCGATCTCATCA
Found at i:26386988 original size:48 final size:48
Alignment explanation
Indices: 26386926--26387021 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
26386916 GCTCAGTCTG
* *
26386926 CGATCTCTTCATGCGAGCTCAGTCTGCAACCTCGTGTGTTTGGGCCAA
1 CGATCTCTTCATGCGAGCTCAGTCTGCAACCACGTGGGTTTGGGCCAA
* * **
26386974 CGATCT-TATCATGCGAGTTCAGTTTGCGGCCACGTGGGTTTGGGCCAA
1 CGATCTCT-TCATGCGAGCTCAGTCTGCAACCACGTGGGTTTGGGCCAA
26387022 TGTCGGCCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.02
48 40 0.98
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (48 bp):
CGATCTCTTCATGCGAGCTCAGTCTGCAACCACGTGGGTTTGGGCCAA
Found at i:26391898 original size:12 final size:12
Alignment explanation
Indices: 26391859--26391902 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
26391849 CTTAACTCTC
*
26391859 TTTTTTTAAATA
1 TTTTTTAAAATA
* *
26391871 ATTTTAAAAATA
1 TTTTTTAAAATA
26391883 TTTTTTAAAAT-
1 TTTTTTAAAATA
26391894 TTTTTTAAA
1 TTTTTTAAA
26391903 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:26393016 original size:7 final size:7
Alignment explanation
Indices: 26393004--26393028 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
26392994 AGTTGATTGA
26393004 TATTTAG
1 TATTTAG
26393011 TATTTAG
1 TATTTAG
26393018 TATTTAG
1 TATTTAG
26393025 TATT
1 TATT
26393029 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:26394199 original size:10 final size:10
Alignment explanation
Indices: 26394177--26394221 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
26394167 TAAAATATAA
26394177 ATTTTTGAA-
1 ATTTTTGAAT
26394186 ATTTTTGAAT
1 ATTTTTGAAT
26394196 A-TTTTGAAT
1 ATTTTTGAAT
26394205 A-TTTTG-AT
1 ATTTTTGAAT
26394213 ATTATTTGA
1 ATT-TTTGA
26394222 GAATTCTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 3 0.09
9 24 0.75
10 5 0.16
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (10 bp):
ATTTTTGAAT
Found at i:26394277 original size:23 final size:23
Alignment explanation
Indices: 26394246--26394781 Score: 781
Period size: 23 Copynumber: 23.8 Consensus size: 23
26394236 ATTAATACCC
*
26394246 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* * *
26394269 TTTAATTAAAAACCTTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
*
26394291 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
26394314 TTAAATTAAAAACCTTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
26394337 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
26394358 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
26394381 TTAAATTACAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
26394404 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
26394427 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
26394450 TTAAATTAAAAACCATAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
26394471 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
26394494 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
26394515 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
26394538 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
26394561 TTAAATTAAAAACCCCAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
26394584 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
26394605 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
26394628 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
26394651 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
26394674 TTAACTTAAAAA-CCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
26394696 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
26394719 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
26394742 TTAAATT-AAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
26394764 TTTAATTAAAAACCCTAA
1 TTAAATTAAAAACCCTAA
26394782 ACCCTAAACT
Statistics
Matches: 462, Mismatches: 38, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
21 79 0.17
22 56 0.12
23 323 0.70
24 4 0.01
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.26
Consensus pattern (23 bp):
TTAAATTAAAAACCCTAACCTAA
Found at i:26394382 original size:67 final size:68
Alignment explanation
Indices: 26394246--26394781 Score: 743
Period size: 67 Copynumber: 7.9 Consensus size: 68
26394236 ATTAATACCC
* * * *
26394246 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACC-CTTAACTTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AACCAATTAACTTAAAAACCCTAAC
26394310 CTAA
65 CTAA
* *
26394314 TTAAATTAAAAACCTTAACCTAATTAAATTAAAAACCCTAACC-CTTAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCAATTAACTTAAAAACCCTAACC
26394378 TAA
66 TAA
* * *
26394381 TTAAATTACAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC-AATTAACTTAAAAACCCTAAC
26394446 CTAA
65 CTAA
* * * *
26394450 TTAAATTAAAAACCATAACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC-AATTAACTTAAAAACCCTAAC
*
26394513 C--C
65 CTAA
* * *
26394515 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCCAAC
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC-AATTAACTTAAAAACCCTAAC
26394580 CTAA
65 CTAA
* *
26394584 TTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC-AATTAACTTAAAAACCCTAAC
26394647 CTAA
65 CTAA
*
26394651 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAA-CCTAACCTAATTAACTTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC-AATTAACTTAAAAACCCTAAC
26394715 CTAA
65 CTAA
26394719 TTAAATTAAAAACCCTAACCTAATTAAATT-AAAACCCTAACCTAATTTAA-TTAAAAACCCTAA
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC-AA-TTAACTTAAAAACCCTAA
26394782 ACCCTAAACT
Statistics
Matches: 432, Mismatches: 26, Indels: 20
0.90 0.05 0.04
Matches are distributed among these distances:
65 18 0.04
67 219 0.51
68 120 0.28
69 75 0.17
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.26
Consensus pattern (68 bp):
TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCAATTAACTTAAAAACCCTAACC
TAA
Found at i:26394404 original size:90 final size:91
Alignment explanation
Indices: 26394246--26394781 Score: 761
Period size: 90 Copynumber: 5.9 Consensus size: 91
26394236 ATTAATACCC
* * * *
26394246 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACC--CTTAACTTAAAAACCCTAA
1 TTAACTTAAAAACCCTAACC-AATTAAATTAAAAACCCT-AACCTAATTAAATTAAAAACCCTAA
*
26394309 CCTAATTAAATTAAAAACCTTAACCTAA
64 CCTAATTAAATTAAAAACCCTAACCTAA
* * * *
26394337 TTAAATTAAAAACCCTAACC-CTTAACTTAAAAACCCTAACCTAATTAAATTACAAACCCTAACC
1 TTAACTTAAAAACCCTAACCAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
*
26394401 TAATTAACTTAAAAACCCTAACCTAA
66 TAATTAAATTAAAAACCCTAACCTAA
* * * *
26394427 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCATAACC--CTTAACTTAAAAACCCTAAC
1 TTAACTTAAAAACCCTAACC-AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
*
26394490 CTAATTAAATTAAAAACCCTAACC--C
65 CTAATTAAATTAAAAACCCTAACCTAA
*
26394515 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCCAAC
1 TTAACTTAAAAACCCTAACC-AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
*
26394580 CTAATTAAATTAAAAACCCTAACC--C
65 CTAATTAAATTAAAAACCCTAACCTAA
*
26394605 TTAACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
1 TTAACTTAAAAACCCTAACC-AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
*
26394670 CTAATTAACTTAAAAA-CCTAACCTAA
65 CTAATTAAATTAAAAACCCTAACCTAA
26394696 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATT-AAAACCCTAAC
1 TTAACTTAAAAACCCTAACC-AATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
*
26394760 CTAATTTAATTAAAAACCCTAA
65 CTAATTAAATTAAAAACCCTAA
26394782 ACCCTAAACT
Statistics
Matches: 406, Mismatches: 30, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
88 45 0.11
89 20 0.05
90 247 0.61
91 76 0.19
92 18 0.04
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.26
Consensus pattern (91 bp):
TTAACTTAAAAACCCTAACCAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
TAATTAAATTAAAAACCCTAACCTAA
Found at i:26394446 original size:113 final size:113
Alignment explanation
Indices: 26394242--26394781 Score: 835
Period size: 113 Copynumber: 4.8 Consensus size: 113
26394232 AACAATTAAT
* * *
26394242 ACCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACC--CTTAACTTAAAAACC
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AACCTAATTAACTTAAAAACC
*
26394305 CTAACCTAATTAAATTAAAAACCTTAACCTAATTAAATTAAAAACCCTA
65 CTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
*
26394354 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTACAAACCCTAACCTAATTAACTTAAAAACCC
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCC
*
26394419 TAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCATA
66 TAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
*
26394467 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCC
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCC
*
26394530 TAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCCA
66 TAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* * * *
26394578 ACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACCTAATTAACTTAAAAAC
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAACTTAAAAAC
*
26394641 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAACTTAAAAA-CCTA
64 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
* *
26394690 ACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATT-AAAAC
1 ACC--CTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAACTTAAAAAC
*
26394754 CCTAACCTAATTTAATTAAAAACCCTAA
64 CCTAACCTAATTAAATTAAAAACCCTAA
26394782 ACCCTAAACT
Statistics
Matches: 398, Mismatches: 22, Indels: 15
0.91 0.05 0.03
Matches are distributed among these distances:
111 87 0.22
112 68 0.17
113 215 0.54
114 28 0.07
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (113 bp):
ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCC
TAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTA
Found at i:26397966 original size:123 final size:124
Alignment explanation
Indices: 26397639--26398008 Score: 616
Period size: 125 Copynumber: 3.0 Consensus size: 124
26397629 CCCAAACATG
* * *
26397639 CTACTGTAGCAAAAGCGCCTCCACGAGGGCGTGATTTTCATAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
26397704 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-TTATTTCTTCCATGAC
26397764 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* *
26397829 CTAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAAAAAATGATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTCCATGAC
* *
26397888 CTACTGTAGCAAAAGCGCGTCCACTAGGGTGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
** *
26397952 CTAGAAGCGATTTTATACTATTTTATCAGAAACGTCAACTCAAAATTATTTCTTCCA
66 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA--AAAAATTATTTCTTCCA
26398009 GGATCTAAAA
Statistics
Matches: 231, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
123 65 0.28
124 47 0.20
125 119 0.52
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTCCATGAC
Found at i:26399328 original size:22 final size:22
Alignment explanation
Indices: 26399303--26399345 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
26399293 TGTGACAGAT
26399303 AGAAGTAATATAATGGTGGTAG
1 AGAAGTAATATAATGGTGGTAG
26399325 AGAAGTAATATAATGGTGGTA
1 AGAAGTAATATAATGGTGGTA
26399346 AAATGATGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (22 bp):
AGAAGTAATATAATGGTGGTAG
Found at i:26401912 original size:20 final size:20
Alignment explanation
Indices: 26401887--26401933 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
26401877 AGCTCGTTTC
*
26401887 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGATCAAGT
*
26401907 CAGCTCATTCGAGATCAATT
1 CAGCTCATTCGAGATCAAGT
26401927 CAGCTCA
1 CAGCTCA
26401934 ATTTTAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGATCAAGT
Found at i:26421351 original size:24 final size:24
Alignment explanation
Indices: 26421303--26421354 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
26421293 ACATGTAACA
* *
26421303 CCCACTCAACCTGCTACCGAGGAG
1 CCCACTCAAACTGCTACCGAAGAG
* *
26421327 CCCACTCAAACTGCTGCTGAAGAG
1 CCCACTCAAACTGCTACCGAAGAG
26421351 CCCA
1 CCCA
26421355 AAATGATGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.40, G:0.19, T:0.13
Consensus pattern (24 bp):
CCCACTCAAACTGCTACCGAAGAG
Found at i:26426502 original size:20 final size:19
Alignment explanation
Indices: 26426477--26426527 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
26426467 TATGAACCAC
*
26426477 TCCATTTACTTCCTTATCAT
1 TCCATTTACTTACTTA-CAT
*
26426497 TCCATTTATTTACTTACAT
1 TCCATTTACTTACTTACAT
* *
26426516 TTCATATACTTA
1 TCCATTTACTTA
26426528 GCACAAACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.25, C:0.24, G:0.00, T:0.51
Consensus pattern (19 bp):
TCCATTTACTTACTTACAT
Found at i:26428656 original size:51 final size:51
Alignment explanation
Indices: 26428492--26428830 Score: 300
Period size: 51 Copynumber: 6.7 Consensus size: 51
26428482 TATCATTCGA
* * *
26428492 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTTCCGG
* * *
26428541 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTTCCGG
* *
26428591 CT-GACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGTTTTCCGG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTTCCGG
* * * * * * * * *
26428642 TATC-CATAGTAGCCTTCACTTAGTACCATACATGTAACCATAGTTTACCGA
1 TA-CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTTCCGG
* * **
26428693 TACACGTAGTAGCTTTCACACAGTACTACACACGTG-CTCAAA-ACTTCTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGTTTTC-CGG
* * * * *
26428744 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTAT-CGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTTT-TCCGG
* * *
26428795 TAAACGTAGTAGCCTTCACACAGTACTACATACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
26428831 TTCATCGATA
Statistics
Matches: 234, Mismatches: 45, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
49 38 0.16
50 48 0.21
51 144 0.62
52 3 0.01
53 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (51 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTTTTCCGG
Found at i:26428722 original size:102 final size:103
Alignment explanation
Indices: 26428489--26428830 Score: 380
Period size: 102 Copynumber: 3.4 Consensus size: 103
26428479 TTTTATCATT
* * * * *
26428489 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AGTTTTACAGT-TCACGTAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGTTTTCCGGTATCACATAGT
* * *
26428551 AGCCTTCACATAGTACTACACACGTGATCA-AGTTTTAC
66 AGCCTTCACTTAGTACTACACATGTGACCATAG-TTTAC
* * * * *
26428589 GGCT-GACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGTTTTCCGGTATC-CATAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGTTTTCCGGTATCACATAGT
* * *
26428652 AGCCTTCACTTAGTACCATACATGTAACCATAGTTTAC
66 AGCCTTCACTTAGTACTACACATGTGACCATAGTTTAC
* **
26428690 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTG-CTCAAA-ACTTCTCGGTA-CACATA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGAC-CAAAGTTTTC-CGGTATCACATA
*
26428752 GTAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTAT
64 GTAGCCTTCACTTAGTACTACACATGTGACCA-TAGTTTAC
* *
26428792 CGATAAACGTAGTAGCCTTCACACAGTACTACATACGTG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
26428831 TTCATCGATA
Statistics
Matches: 204, Mismatches: 29, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
99 34 0.17
100 2 0.01
101 50 0.25
102 116 0.57
103 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (103 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGTTTTCCGGTATCACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATAGTTTAC
Found at i:26430405 original size:16 final size:17
Alignment explanation
Indices: 26430382--26430426 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
26430372 ATTATACTAG
26430382 AATAAAATAAAAATGA-
1 AATAAAATAAAAATGAT
* *
26430398 AATGAAATGAAAATGAT
1 AATAAAATAAAAATGAT
26430415 AATAAAATAAAA
1 AATAAAATAAAA
26430427 GAAACAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (17 bp):
AATAAAATAAAAATGAT
Found at i:26430875 original size:36 final size:34
Alignment explanation
Indices: 26430835--26430930 Score: 93
Period size: 34 Copynumber: 2.8 Consensus size: 34
26430825 GGTTTACCCG
*
26430835 ACTAGCGCTGGGCGCAACTCATTGTTGGTACATCCA
1 ACTAGCGCTGGGCGCAA-TCATTGTCGGT-CATCCA
* * * * * *
26430871 ACTAGTGCAGTGCACAATTATTGTCGGTTATCCA
1 ACTAGCGCTGGGCGCAATCATTGTCGGTCATCCA
* *
26430905 ACTAGCGCTGGGTGCAATCTTTGTCG
1 ACTAGCGCTGGGCGCAATCATTGTCG
26430931 ATTTATTCGA
Statistics
Matches: 46, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
34 24 0.52
35 9 0.20
36 13 0.28
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (34 bp):
ACTAGCGCTGGGCGCAATCATTGTCGGTCATCCA
Found at i:26430929 original size:34 final size:34
Alignment explanation
Indices: 26430820--26430930 Score: 89
Period size: 34 Copynumber: 3.2 Consensus size: 34
26430810 AGAATTTAAA
* * *
26430820 TTGTCGGTTTACCCGACTAGCGCTGGGCGCAACTCA
1 TTGTCGG-TTATCCAACTAGCGCTGGGCGCAA-TCT
* * * * * *
26430856 TTGTTGGTACATCCAACTAGTGCAGTGCACAAT-T
1 TTGTCGGT-TATCCAACTAGCGCTGGGCGCAATCT
*
26430890 ATTGTCGGTTATCCAACTAGCGCTGGGTGCAATCT
1 -TTGTCGGTTATCCAACTAGCGCTGGGCGCAATCT
26430925 TTGTCG
1 TTGTCG
26430931 ATTTATTCGA
Statistics
Matches: 56, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
34 24 0.43
35 10 0.18
36 22 0.39
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (34 bp):
TTGTCGGTTATCCAACTAGCGCTGGGCGCAATCT
Found at i:26430992 original size:75 final size:73
Alignment explanation
Indices: 26430905--26431104 Score: 220
Period size: 75 Copynumber: 2.7 Consensus size: 73
26430895 CGGTTATCCA
26430905 ACTAGCGCTGGGTGCAATCTTTGTCGATTTATTCGACTAGTGCTGGGCACACCATAATATTTATC
1 ACTAGCGCTGGGTGCAA-CTTTGTC-ATTTATTCGACTAGTGCTGGGCACACCATAATATTTATC
**
26430970 GGTTTATTAG
64 GGTTTACCAG
* * * * *
26430980 ACTAGCGCTGGGTGTAACCTTTGTCAGTTTATTTGACTAGTGTTGGGCACACCATTATATTTGTC
1 ACTAGCGCTGGGTGCAA-CTTTGTCA-TTTATTCGACTAGTGCTGGGCACACCATAATATTTATC
26431045 GGTTTACCAG
64 GGTTTACCAG
* * * * * **
26431055 GCTAGTGCTAGGCGCAACTTTTATCAATTCGTTCGACTAGTGCTGGGCAC
1 ACTAGCGCTGGGTGCAAC-TTTGTC-ATTTATTCGACTAGTGCTGGGCAC
26431105 GTCTATCGTC
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
74 2 0.02
75 101 0.97
76 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (73 bp):
ACTAGCGCTGGGTGCAACTTTGTCATTTATTCGACTAGTGCTGGGCACACCATAATATTTATCGG
TTTACCAG
Found at i:26431780 original size:8 final size:8
Alignment explanation
Indices: 26431769--26431793 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26431759 TATATATATA
26431769 TATTTGGT
1 TATTTGGT
26431777 TATTTGGT
1 TATTTGGT
26431785 TATTTGGT
1 TATTTGGT
26431793 T
1 T
26431794 GATGTTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (8 bp):
TATTTGGT
Found at i:26434168 original size:17 final size:18
Alignment explanation
Indices: 26434143--26434176 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
26434133 TTTAATTTCT
26434143 ATTTCTTATTTATTTATG
1 ATTTCTTATTTATTTATG
*
26434161 ATTT-TTATTTTTTTAT
1 ATTTCTTATTTATTTAT
26434177 TCTCAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
ATTTCTTATTTATTTATG
Found at i:26434208 original size:22 final size:22
Alignment explanation
Indices: 26434168--26434256 Score: 72
Period size: 23 Copynumber: 4.0 Consensus size: 22
26434158 ATGATTTTTA
* *
26434168 TTTTTTTATTCTCAAATTTCTTC
1 TTTTATTATTTTC-AATTTCTTC
*
26434191 TTTTATTATTTTCGATTTCTT-
1 TTTTATTATTTTCAATTTCTTC
* ** **
26434212 TATTACAAATTTTTTTATTTCTTC
1 TTTTA-TTA-TTTTCAATTTCTTC
26434236 TTTTATTATTTTCAATTTCTT
1 TTTTATTATTTTCAATTTCTT
26434257 TATTACAAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
21 4 0.08
22 19 0.38
23 23 0.46
24 4 0.08
ACGTcount: A:0.19, C:0.12, G:0.01, T:0.67
Consensus pattern (22 bp):
TTTTATTATTTTCAATTTCTTC
Found at i:26434234 original size:45 final size:45
Alignment explanation
Indices: 26434183--26434284 Score: 186
Period size: 45 Copynumber: 2.3 Consensus size: 45
26434173 TTATTCTCAA
*
26434183 ATTTCTTCTTTTATTATTTTCGATTTCTTTATTACAAATTTTTTT
1 ATTTCTTCTTTTATTATTTTCAATTTCTTTATTACAAATTTTTTT
26434228 ATTTCTTCTTTTATTATTTTCAATTTCTTTATTACAAATTTTTTT
1 ATTTCTTCTTTTATTATTTTCAATTTCTTTATTACAAATTTTTTT
*
26434273 ATTTCTTTTTTT
1 ATTTCTTCTTTT
26434285 TCAGATCATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.20, C:0.11, G:0.01, T:0.69
Consensus pattern (45 bp):
ATTTCTTCTTTTATTATTTTCAATTTCTTTATTACAAATTTTTTT
Found at i:26439037 original size:116 final size:116
Alignment explanation
Indices: 26438829--26439046 Score: 409
Period size: 116 Copynumber: 1.9 Consensus size: 116
26438819 TGATAAATTG
26438829 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
26438894 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAACT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAACT
* *
26438945 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
26439010 TAGTACCAGTCAAAACATTTTTTCAAATCTAACATTA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
26439047 CGTTAAGGTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 99 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAACT
Found at i:26439083 original size:22 final size:20
Alignment explanation
Indices: 26439048--26439093 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
26439038 CTAACATTAC
26439048 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
26439068 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
26439090 -TTAA
1 GTTAA
26439094 ATTAGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:26439115 original size:29 final size:29
Alignment explanation
Indices: 26439072--26439152 Score: 126
Period size: 29 Copynumber: 2.7 Consensus size: 29
26439062 TTTTAAGTTA
26439072 AGGGTTTAGGGTTTTTAATTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
*
26439102 AGGGTTAGGATTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
26439131 AAGGTTAGGGTTTTTAAGTTAA
1 AGGGTTAGGGTTTTTAA-TTAA
26439153 GGGTTTAGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 39 0.83
30 8 0.17
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:26439206 original size:28 final size:23
Alignment explanation
Indices: 26439052--26439646 Score: 371
Period size: 23 Copynumber: 23.5 Consensus size: 23
26439042 CATTACGTTA
26439052 AGGTTAGGGTTTTTAAGTT-AA--
1 AGGTTAGGGTTTTTAA-TTAAATT
*
26439073 GGGTTTAGGGTTTTTAATTAAATT
1 AGG-TTAGGGTTTTTAATTAAATT
26439097 AGGTTAGGGTTAGGATTTTTAATTAAATT
1 AGGTTA--G---GG-TTTTTAATTAAATT
* *
26439126 AGGTTAAGGTTAGGGTTT--TTAAGTT
1 AGGTTAGGGTT----TTTAATTAAATT
26439151 AAGGGTTTAGGGTTTTTAATTAAATT
1 -A-GG-TTAGGGTTTTTAATTAAATT
26439177 AGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
26439200 AGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
* * ***** *
26439223 GGGTTAAGGTTAGGGTTTTAATT
1 AGGTTAGGGTTTTTAATTAAATT
26439246 AAGGGTTTAGGGTTTTTAATTAAATT
1 -A-GG-TTAGGGTTTTTAATTAAATT
*
26439272 AGGTTAAGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
*
26439295 AGATTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
* *
26439318 AGGTTAAGGTTAGGGTTT--TTAAGTT
1 AGGTTAGGGTT----TTTAATTAAATT
26439343 AAGGGTTTAGGGTTTTTAATTAAATT
1 -A-GG-TTAGGGTTTTTAATTAAATT
26439369 AGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGTTAGGGTTTTTAATT-AA--A--TT
*
26439397 AAGGTTAGGGTTTTTAAGTT-AA-G
1 -AGGTTAGGGTTTTTAA-TTAAATT
*
26439420 GGGTTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
26439443 AGGTTAGGGTTAGAGTTTTTAATTAAATT
1 AGGTTA--G---G-GTTTTTAATTAAATT
26439472 AGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGTTAGGGTTTTTAATT-AA--A--TT
26439500 AGGGTTAGGGTTTTTAATTAAATT
1 A-GGTTAGGGTTTTTAATTAAATT
* *
26439524 ATGTTAGGGTTAGAGTTTGTAAATTAATTT
1 AGGTTAGGG-T----TTT-T-AATTAAATT
26439554 AGGTTAGGGGTTAGGGTTTTTAATTAAATTAGGTT
1 A-------GGTTAGGGTTTTTAATTAA---A--TT
26439589 AGGGTTAGGGTTTTTAATTAAATT
1 A-GGTTAGGGTTTTTAATTAAATT
*
26439613 AGATTAGGGTTTTTAATTAAATT
1 AGGTTAGGGTTTTTAATTAAATT
26439636 AGGTTAGGGTT
1 AGGTTAGGGTT
26439647 AGGGTTTTTA
Statistics
Matches: 463, Mismatches: 40, Indels: 140
0.72 0.06 0.22
Matches are distributed among these distances:
21 6 0.01
22 32 0.07
23 180 0.39
24 28 0.06
25 19 0.04
26 32 0.07
27 11 0.02
28 28 0.06
29 95 0.21
30 17 0.04
31 1 0.00
32 3 0.01
35 3 0.01
36 1 0.00
37 7 0.02
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.46
Consensus pattern (23 bp):
AGGTTAGGGTTTTTAATTAAATT
Found at i:26439411 original size:29 final size:29
Alignment explanation
Indices: 26439344--26439884 Score: 606
Period size: 29 Copynumber: 19.4 Consensus size: 29
26439334 TTTTAAGTTA
26439344 AGGGTTTAGGGTTTTTAATT-AA--A--TT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
26439369 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
26439397 AAGGTTAGGGTTTTTAAGTT--A--A-G--
1 AGGGTTAGGGTTTTTAA-TTAAATTAGGTT
26439420 -GGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
26439448 AGGGTTAGAGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
26439472 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
26439500 AGGGTTAGGGTTTTTAATTAAATTATGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
26439529 AGGGTTAGAGTTTGTAAATTAATTTAGGTT
1 AGGGTTAGGGTTT-TTAATTAAATTAGGTT
26439559 AGGGGTTAGGGTTTTTAATTAAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
26439589 AGGGTTAGGGTTTTTAATTAAATTA-G--
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
26439615 A---TTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
26439641 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
26439670 AGTGTTA-GGTTTGT-A-TAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
26439696 AGGGGTTAGGG-TTTTAATTAAATTAGGTA
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
26439725 AGGATATA-GGTTTGTAATTAATTTAGGTT
1 AGGGT-TAGGGTTTTTAATTAAATTAGGTT
26439754 AGGGGTTAGGGTTTTTAATTAAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
*
26439784 AGGGTTAGGGTTTTTAATTAAATTAGGTA
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
26439813 AGGATATA-GGTTTGTAATTAATTTAGGTT
1 AGGGT-TAGGGTTTTTAATTAAATTAGGTT
*
26439842 AGGGGTTAGGGTTTTTAATTAATTTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
26439872 AGGGTTTAGGGTT
1 AGGG-TTAGGGTT
26439885 AAATTAGGTT
Statistics
Matches: 443, Mismatches: 32, Indels: 77
0.80 0.06 0.14
Matches are distributed among these distances:
21 2 0.00
22 15 0.03
23 53 0.12
24 10 0.02
25 3 0.01
26 18 0.04
27 9 0.02
28 24 0.05
29 210 0.47
30 88 0.20
31 11 0.02
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:26439436 original size:192 final size:198
Alignment explanation
Indices: 26439081--26439775 Score: 624
Period size: 192 Copynumber: 3.3 Consensus size: 198
26439071 AAGGGTTTAG
*
26439081 GGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTT
1 GGTTTTTAATTAAATTAGG-TA--GTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTT
*
26439146 AAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
63 AAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTT
** ** * *
26439211 TTTAATTAAATTGGGTTAAGGTTAGGGTTTTAATT-A-A-G-GGTTTAGGGTTTTTAATTAAATT
128 TAGAATT-AATTAAGTTAAGGTTAGGGTTTTAATTAATAGGTGGGTTAGAGTTTTTAATTAAATT
26439272 AGGTTAA
192 AGGTTAA
26439279 GGTTTTTAATTAAATTA-G-A-TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAG
1 GGTTTTTAATTAAATTAGGTAGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAG
26439341 TTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGG-TTAG
66 TTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTTAG
** *
26439405 GGTT-TTTAAGTTAAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAA
131 AATTAATTAAGTTAA--GGTTAGGG-TTTTAATT-AA-TAGG-T-GGGTTAGAGTTTTTAATTAA
*
26439469 ATTAGGTTAG
189 ATTAGGTTAA
* * *
26439479 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTAGAGTTTGT
1 GGTTTTTAATTAAATTAGG-TA--GTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAG-GGTT-T
* *
26439544 AAATTAATTTAGGTTAGGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTA
61 ---TTAAGTTA----AGGGTTTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAATTA
* * ** * * *
26439609 AATTAGATTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGTG
113 AATTAGGTTAAGGTTTAGAATT-AATTAAGTTAAGGTTAGGG-TTTTAATT-AA-TAGG-T-GGG
**
26439674 TTAG-GTTTGTATAATTTAGGTTAGGGGTT-A
172 TTAGAGTTT-T-TAA-TTAAATTA--GGTTAA
* * * *
26439704 GGGTTTTAATTAAATTAGGTAAGGATATA-GGTTTGTAATTAATTTAGGTTAGGGGTTAGGGTTT
1 GGTTTTTAATTAAATTAGGT-A-G-T-TAGGGTTTTTAATTAAATTAGGTTA-AGGTTAGGGTTT
26439768 TTAA-TTAA
61 TTAAGTTAA
26439776 ATTAGGTTAG
Statistics
Matches: 418, Mismatches: 35, Indels: 70
0.80 0.07 0.13
Matches are distributed among these distances:
189 7 0.02
191 12 0.03
192 109 0.26
194 1 0.00
195 1 0.00
196 1 0.00
197 2 0.00
198 17 0.04
200 44 0.11
201 1 0.00
203 1 0.00
206 31 0.07
207 3 0.01
208 1 0.00
211 7 0.02
215 19 0.05
216 3 0.01
218 1 0.00
220 6 0.01
221 37 0.09
222 39 0.09
223 3 0.01
224 17 0.04
225 42 0.10
226 13 0.03
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.45
Consensus pattern (198 bp):
GGTTTTTAATTAAATTAGGTAGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAG
TTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTTAG
AATTAATTAAGTTAAGGTTAGGGTTTTAATTAATAGGTGGGTTAGAGTTTTTAATTAAATTAGGT
TAA
Found at i:26439439 original size:21 final size:22
Alignment explanation
Indices: 26439399--26439439 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
26439389 ATTAGGTTAA
26439399 GGTTAGGGTTTTTAAGTTAAGG
1 GGTTAGGGTTTTTAAGTTAAGG
26439421 GGTTAGGGTTTTTAA-TTAA
1 GGTTAGGGTTTTTAAGTTAA
26439440 ATTAGGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (22 bp):
GGTTAGGGTTTTTAAGTTAAGG
Found at i:26439592 original size:141 final size:138
Alignment explanation
Indices: 26439298--26439877 Score: 757
Period size: 141 Copynumber: 4.2 Consensus size: 138
26439288 TTAAATTAGA
* *
26439298 TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTT-AA--GGGTTTAGGGTTTTT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTA-GGTTTTTAA-TTAAATTAGG-TTAGGGTTTTT
* * *
26439360 AATT-AA--A--TTA-GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTT-T--TTAAGT
63 AATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGTTTGTAATTAATT
26439416 TA----AGGGG
128 TAGGTTAGGGG
26439423 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG-GTTTTTAATTAAATTAGGTTAGGGTTTTTAA
*
26439488 TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTAGAGTTTGTAAATTAATT
65 TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG-GTTTGT-AATTAATT
26439553 TAGGTTAGGGG
128 TAGGTTAGGGG
*
26439564 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGGTTTTTAA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTA-GGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
*
26439629 TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGTGTTAGGTTTGT-A-TAATTTA
65 TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGTTTGTAATTAATTTA
26439692 GGTTAGGGG
130 GGTTAGGGG
* * *
26439701 TTAGGG-TTTTAATTAAATTAGGTAAGGATATAGGTTTGTAATTAATTTAGGTTAGGGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGT-TAGGTTTTTAATTAA---A--TTA--GGTTAGGG
* *
26439765 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTAAGGATATAGGTTTGTAA
58 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT-TAGGTTTGTAA
26439830 TTAATTTAGGTTAGGGG
122 TTAATTTAGGTTAGGGG
*
26439847 TTAGGGTTTTTAATTAATTTAGGTTAGGGTT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTT
26439878 TAGGGTTAAA
Statistics
Matches: 404, Mismatches: 19, Indels: 43
0.87 0.04 0.09
Matches are distributed among these distances:
124 3 0.01
125 41 0.10
126 15 0.04
127 4 0.01
129 1 0.00
131 3 0.01
132 33 0.08
133 3 0.01
134 1 0.00
136 33 0.08
137 31 0.08
138 1 0.00
139 1 0.00
140 6 0.01
141 117 0.29
142 1 0.00
143 57 0.14
144 9 0.02
145 1 0.00
146 23 0.06
147 20 0.05
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (138 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAT
TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGTTTGTAATTAATTTAG
GTTAGGGG
Done.