Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 77 of 171
Found at i:26458132 original size:29 final size:28
Alignment explanation
Indices: 26458067--26458168 Score: 80
Period size: 29 Copynumber: 3.4 Consensus size: 28
26458057 ATAAAAATAA
* *
26458067 ATAAAA-TAATAAAAAATAAATCAAGAGGG
1 ATAAAATTAA-AAAAAAAAAAT-AAAAGGG
*
26458096 TTAAAATTAAAAAAAAAGAAATAAAAGGG
1 ATAAAATTAAAAAAAAA-AAATAAAAGGG
* *
26458125 CTAAAATTTAAAAGAAATAAAATAATGAAGGG
1 ATAAAA-TTAAAA-AAAAAAAATAA--AAGGG
*
26458157 ATTAAATTAAAA
1 ATAAAATTAAAA
26458169 CTAAAACAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
29 22 0.37
30 19 0.32
31 10 0.17
32 9 0.15
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.21
Consensus pattern (28 bp):
ATAAAATTAAAAAAAAAAAATAAAAGGG
Found at i:26458136 original size:30 final size:30
Alignment explanation
Indices: 26458068--26458137 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
26458058 TAAAAATAAA
* * * *
26458068 TAAAA-TAATAAAAAATAAATCAAGAGGGT
1 TAAAATTAAAAAAAAAGAAATCAAAAGGGC
26458097 TAAAATTAAAAAAAAAGAAAT-AAAAGGGC
1 TAAAATTAAAAAAAAAGAAATCAAAAGGGC
*
26458126 TAAAATTTAAAA
1 TAAAATTAAAAA
26458138 GAAATAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 22 0.63
30 13 0.37
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (30 bp):
TAAAATTAAAAAAAAAGAAATCAAAAGGGC
Found at i:26463337 original size:21 final size:20
Alignment explanation
Indices: 26463312--26463359 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
26463302 TGTTATAAAA
26463312 GTTATATATTA-TAAATTTTAT
1 GTTAT-TATTATTAAA-TTTAT
*
26463333 GTTATTTTTATTAAATTTAT
1 GTTATTATTATTAAATTTAT
26463353 G-TATTAT
1 GTTATTAT
26463360 AAAAAGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (20 bp):
GTTATTATTATTAAATTTAT
Found at i:26467149 original size:54 final size:54
Alignment explanation
Indices: 26467081--26467183 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
26467071 TCGTTTTTCG
* *
26467081 TTTTACTCCATGTTGA-CCTAAAGTTCATACTTGTTACCAGTATATGATGGCTCA
1 TTTTACTCCATGTTGAGCC-AAAGGTCATACTTGTTACCAATATATGATGGCTCA
* * *
26467135 TTTTACTCCCTGTTGAGCCAAAGGTCATGCTTGTTACTAATATATGATG
1 TTTTACTCCATGTTGAGCCAAAGGTCATACTTGTTACCAATATATGATG
26467184 CTGCTCACAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 41 0.95
55 2 0.05
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (54 bp):
TTTTACTCCATGTTGAGCCAAAGGTCATACTTGTTACCAATATATGATGGCTCA
Found at i:26470883 original size:6 final size:6
Alignment explanation
Indices: 26470874--26470941 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
26470864 TTTTAATTTT
* *
26470874 ATTTAA ATTTAA ATTT-A TTTTAA ATTTAA ATTTAA TTATTTAA ATCT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* *
26470922 CTTTGA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA AT
26470942 AAAAATTAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 7 0.14
6 38 0.75
8 6 0.12
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:26470895 original size:17 final size:16
Alignment explanation
Indices: 26470865--26470938 Score: 80
Period size: 17 Copynumber: 4.6 Consensus size: 16
26470855 TAAATTGATT
*
26470865 TTTAATTTTATTTAAA
1 TTTAAATTTATTTAAA
26470881 TTTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
*
26470898 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
* *
26470912 TTTAAATCTACTTTGAA
1 TTTAAATTTA-TTTAAA
26470929 TTTAAATTTA
1 TTTAAATTTA
26470939 AATAAAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
14 10 0.20
15 2 0.04
16 11 0.22
17 26 0.53
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:26472693 original size:30 final size:30
Alignment explanation
Indices: 26472656--26472963 Score: 444
Period size: 30 Copynumber: 10.3 Consensus size: 30
26472646 TTGCTTTGTA
* *
26472656 GACCCCAAAACTTTTCCAAATTTATATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
* *
26472686 AACCCCAAAACTTTTCAAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
**
26472716 GATTCCAAAACTTTTCCAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
* *
26472746 GACCCTAAAACTTTTCTAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
*
26472776 AACCCCAAAACTTTTCCAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
26472806 GACCCCAAAACTTTTCCAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
26472836 GACCCCAAAACTTTTCCAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
* *
26472866 GACCTCAAAACTTTTCAAAAATTACATTTT
1 GACCCCAAAACTTTTCCAAAATTACATTTT
*
26472896 GACCCCAAAAC-TTTCAAAAATTATCATTTT
1 GACCCCAAAACTTTTCCAAAATTA-CATTTT
*
26472926 -ACCCCAAAAC-TTTCAAAAATTATCATTTT
1 GACCCCAAAACTTTTCCAAAATTA-CATTTT
26472955 -ACCCACAAA
1 GACCC-CAAA
26472964 CTTCCCTAAA
Statistics
Matches: 257, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
29 45 0.18
30 212 0.82
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (30 bp):
GACCCCAAAACTTTTCCAAAATTACATTTT
Found at i:26472815 original size:19 final size:19
Alignment explanation
Indices: 26472791--26472845 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 19
26472781 CAAAACTTTT
26472791 CCAAAATTACATTTTGACC
1 CCAAAATTACATTTTGACC
26472810 CC-AAA--AC-TTTT----
1 CCAAAATTACATTTTGACC
26472821 CCAAAATTACATTTTGACC
1 CCAAAATTACATTTTGACC
26472840 CCAAAA
1 CCAAAA
26472846 CTTTTCCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 2 0.07
12 3 0.11
14 2 0.07
15 8 0.29
16 2 0.07
18 3 0.11
19 8 0.29
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (19 bp):
CCAAAATTACATTTTGACC
Found at i:26473033 original size:30 final size:30
Alignment explanation
Indices: 26472999--26473093 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
26472989 CGATTTCACC
26472999 AAAATTTACCATTTTACCCCCGAATCTTTT
1 AAAATTTACCATTTTACCCCCGAATCTTTT
* * **
26473029 AAAA--TCCCATTTTTAACCCC-AAT-TTCACC
1 AAAATTTACCA-TTTTACCCCCGAATCTT--TT
* * *
26473058 AAAAATTACTATTTTACCCCCGAAGCTTTT
1 AAAATTTACCATTTTACCCCCGAATCTTTT
26473088 AAAATT
1 AAAATT
26473094 CCGTTTTTAA
Statistics
Matches: 47, Mismatches: 11, Indels: 14
0.65 0.15 0.19
Matches are distributed among these distances:
27 2 0.04
28 7 0.15
29 13 0.28
30 18 0.38
31 5 0.11
32 2 0.04
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTTACCATTTTACCCCCGAATCTTTT
Found at i:26473034 original size:59 final size:58
Alignment explanation
Indices: 26472971--26473196 Score: 294
Period size: 59 Copynumber: 3.9 Consensus size: 58
26472961 AAACTTCCCT
26472971 AAATCCCATTTTTAACCTCGATTTCACCAAAATTTACCATTTTACCCCCGAATCTTTTA
1 AAATCCCATTTTTAACCTCGATTTCACCAAAA-TTACCATTTTACCCCCGAATCTTTTA
* * * *
26473030 AAATCCCATTTTTAACCCCAATTTCACCAAAAATTACTATTTTACCCCCGAAGCTTTTA
1 AAATCCCATTTTTAACCTCGATTTCACC-AAAATTACCATTTTACCCCCGAATCTTTTA
* * * *
26473089 AAATTCCGTTTTTAACCTCGGTTTCATCGAAAATTACCATTTTACCCCCCGAATC--TTA
1 AAATCCCATTTTTAACCTCGATTTCA-CCAAAATTACCATTTTA-CCCCCGAATCTTTTA
* ** *
26473147 AAATTCCATTTTTAACCTCGATGACACCAAAATTACCATTTTGCCCCCGA
1 AAATCCCATTTTTAACCTCGATTTCACCAAAATTACCATTTTACCCCCGA
26473197 GTATCCATAA
Statistics
Matches: 146, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
56 7 0.05
57 15 0.10
58 25 0.17
59 85 0.58
60 14 0.10
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.35
Consensus pattern (58 bp):
AAATCCCATTTTTAACCTCGATTTCACCAAAATTACCATTTTACCCCCGAATCTTTTA
Found at i:26473050 original size:118 final size:115
Alignment explanation
Indices: 26472939--26473163 Score: 271
Period size: 118 Copynumber: 1.9 Consensus size: 115
26472929 CCAAAACTTT
26472939 CAAAAATTA-TCATTTTACCCAC-AAACTTCCCT-AAATCCCATTTTTAACCTCGATTTCA-CCA
1 CAAAAATTACT-ATTTTACCCACGAAACTT--CTAAAATCCCATTTTTAACCTCGATTTCATCCA
26473000 AAATTTACCATTTTA-CCCCCGAATCTTTTAAAATCCCATTTTTAACCCCAATTTCAC
63 AAA-TTACCATTTTACCCCCCGAATC--TTAAAATCCCATTTTTAACCCCAATTT--C
* * * * * * *
26473057 CAAAAATTACTATTTTACCCCCGAAGCTTTTAAAATTCCGTTTTTAACCTCGGTTTCATCGAAAA
1 CAAAAATTACTATTTTACCCACGAAACTTCTAAAATCCCATTTTTAACCTCGATTTCATCCAAAA
*
26473122 TTACCATTTTACCCCCCGAATCTTAAAATTCCATTTTTAACC
66 TTACCATTTTACCCCCCGAATCTTAAAATCCCATTTTTAACC
26473164 TCGATGACAC
Statistics
Matches: 94, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
117 20 0.21
118 53 0.56
119 21 0.22
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (115 bp):
CAAAAATTACTATTTTACCCACGAAACTTCTAAAATCCCATTTTTAACCTCGATTTCATCCAAAA
TTACCATTTTACCCCCCGAATCTTAAAATCCCATTTTTAACCCCAATTTC
Found at i:26477940 original size:54 final size:54
Alignment explanation
Indices: 26477858--26478005 Score: 269
Period size: 54 Copynumber: 2.7 Consensus size: 54
26477848 TGATCGCTAT
* *
26477858 TCATTTTGCTCCCTGTTGACCTAAAGGTCATGCCTGTTACCAATATATGATAGC
1 TCATTTTACTCCCTGTTGACCCAAAGGTCATGCCTGTTACCAATATATGATAGC
26477912 TCATTTTACTCCCTGTTGACCCAAAGGTCATGCCTGTTACCAATATATGATAGC
1 TCATTTTACTCCCTGTTGACCCAAAGGTCATGCCTGTTACCAATATATGATAGC
*
26477966 TCATTTTACTCCCTATTGACCCAAAGGTCATGCCTGTTAC
1 TCATTTTACTCCCTGTTGACCCAAAGGTCATGCCTGTTAC
26478006 TAGTATACAA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.34
Consensus pattern (54 bp):
TCATTTTACTCCCTGTTGACCCAAAGGTCATGCCTGTTACCAATATATGATAGC
Found at i:26487693 original size:25 final size:25
Alignment explanation
Indices: 26487637--26487697 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 25
26487627 TATCGTTGAA
26487637 TCGAGTCTAATCAAATAAAAATATT
1 TCGAGTCTAATCAAATAAAAATATT
26487662 TCGGAGTCTAATCAAATAAAAATATT
1 TC-GAGTCTAATCAAATAAAAATATT
26487688 TCGAGT-TAAT
1 TCGAGTCTAAT
26487698 TAAGTTGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.11
25 6 0.17
26 25 0.71
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (25 bp):
TCGAGTCTAATCAAATAAAAATATT
Found at i:26489534 original size:3 final size:3
Alignment explanation
Indices: 26489526--26489556 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
26489516 ATTTATTTTG
26489526 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
26489557 TAAATTCGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26489852 original size:22 final size:22
Alignment explanation
Indices: 26489801--26489852 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
26489791 AACCACATTC
*
26489801 CCTTAAGGTTTTCTATCCAAAA
1 CCTTAAGTTTTTCTATCCAAAA
26489823 CCTTAAGTTTTTCTATCCAAAA
1 CCTTAAGTTTTTCTATCCAAAA
26489845 CCTTAAGT
1 CCTTAAGT
26489853 AACACCTCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (22 bp):
CCTTAAGTTTTTCTATCCAAAA
Found at i:26489889 original size:15 final size:17
Alignment explanation
Indices: 26489863--26489894 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26489853 AACACCTCAC
26489863 AAAATGAGATAA-AATA
1 AAAATGAGATAATAATA
26489879 AAAATGA-ATAATAATA
1 AAAATGAGATAATAATA
26489895 TACTTCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (17 bp):
AAAATGAGATAATAATA
Found at i:26490406 original size:43 final size:43
Alignment explanation
Indices: 26490338--26490667 Score: 231
Period size: 43 Copynumber: 7.7 Consensus size: 43
26490328 TTATGTGGAA
* * * * *
26490338 AAACGCCGCTATAGAACATGGTCTTTAGCGGTGCTTTTACCAA
1 AAACTCCGCTAAAGACCATGATCTTTAGCGGTGCTTTTACCAC
* * *
26490381 AAACTCCGCTAAATACCACGATCTTTAGTGGTGCTTTT-CACAC
1 AAACTCCGCTAAAGACCATGATCTTTAGCGGTGCTTTTAC-CAC
** * ** * *
26490424 AAACAGCGCTAAAGATCATGATCTTTAGCGACGCTTTTCCCAT
1 AAACTCCGCTAAAGACCATGATCTTTAGCGGTGCTTTTACCAC
* * * * * *
26490467 TAACAT-AGCTAAAGAACATGGTCTTTAACGATGCTTTTACCAC
1 AAAC-TCCGCTAAAGACCATGATCTTTAGCGGTGCTTTTACCAC
* * * *
26490510 AAA-TGCCACTAAAGACCATGTTCTTTAGCTGTGTTTTTACCAC
1 AAACT-CCGCTAAAGACCATGATCTTTAGCGGTGCTTTTACCAC
* ** * ** * *
26490553 AAACGCCGCTAAAGACGTTGTTCTTTAGCGACGCTTCTCCCAC
1 AAACTCCGCTAAAGACCATGATCTTTAGCGGTGCTTTTACCAC
* * *
26490596 AAA-TGCCGCTAAATACCATGATCTTTAACGGCGCTGTTT-CCAC
1 AAACT-CCGCTAAAGACCATGATCTTTAGCGGTGCT-TTTACCAC
*
26490639 AAACGT-CGCTAAAGACCATGATTTTTAGC
1 AAAC-TCCGCTAAAGACCATGATCTTTAGC
26490668 AACACTTTTC
Statistics
Matches: 221, Mismatches: 56, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 215 0.97
44 3 0.01
45 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
AAACTCCGCTAAAGACCATGATCTTTAGCGGTGCTTTTACCAC
Found at i:26490607 original size:129 final size:132
Alignment explanation
Indices: 26490342--26490667 Score: 334
Period size: 129 Copynumber: 2.5 Consensus size: 132
26490332 GTGGAAAAAC
* * * * * *
26490342 GCCGCTATAGAACATGGTCTTTAGCGGTGCTTTTACCAAAAACT-CCGCTAAATACCACGATCTT
1 GCCGCTAAAGAACATGGTCTTTAACGGTGCTTTTACCACAAA-TGCCGCTAAAGACCATGTTCTT
* *
26490406 TAG-TGGTGCTTTTCACACAAACAGCGCTAAAGATCATGATCTTTAGCGACGCTTTTCCCATTAA
65 TAGCTGGTGCTTTTCACACAAACAGCGCTAAAGATCATGATCTTTAGCGACGCTTCTCCCATCAA
26490470 CAT
130 CAT
* * *
26490473 --AGCTAAAGAACATGGTCTTTAACGATGCTTTTACCACAAATGCCACTAAAGACCATGTTCTTT
1 GCCGCTAAAGAACATGGTCTTTAACGGTGCTTTTACCACAAATGCCGCTAAAGACCATGTTCTTT
* * *
26490536 AGCT-GTG-TTTTTACCACAAAC-GCCGCTAAAGA-CGTTGTTCTTTAGCGACGCTTCTCCCA-C
66 AGCTGGTGCTTTTCA-CACAAACAG-CGCTAAAGATC-ATGATCTTTAGCGACGCTTCTCCCATC
26490596 AA-AT
128 AACAT
* * * * * *
26490600 GCCGCTAAATACCATGATCTTTAACGGCGCTGTTT-CCACAAACGTCGCTAAAGACCATGATT-T
1 GCCGCTAAAGAACATGGTCTTTAACGGTGCT-TTTACCACAAATGCCGCTAAAGACCATG-TTCT
26490663 TTAGC
64 TTAGC
26490668 AACACTTTTC
Statistics
Matches: 163, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
127 2 0.01
128 10 0.06
129 145 0.89
130 6 0.04
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (132 bp):
GCCGCTAAAGAACATGGTCTTTAACGGTGCTTTTACCACAAATGCCGCTAAAGACCATGTTCTTT
AGCTGGTGCTTTTCACACAAACAGCGCTAAAGATCATGATCTTTAGCGACGCTTCTCCCATCAAC
AT
Found at i:26490684 original size:43 final size:42
Alignment explanation
Indices: 26490338--26490730 Score: 215
Period size: 43 Copynumber: 9.1 Consensus size: 42
26490328 TTATGTGGAA
* * * * ** *
26490338 AAACGCCGCTATAGAACATGGTCTTTAGCGGTGCTTTTACCAA
1 AAACGCCGCTAAAGACCATGATTTTTAGCGACGCTTTT-CCAC
* * * * * **
26490381 AAACTCCGCTAAATACCACGATCTTTAGTGGTGCTTTTCACAC
1 AAACGCCGCTAAAGACCATGATTTTTAGCGACGCTTTTC-CAC
* *
26490424 AAACAG-CGCTAAAGATCATGATCTTTAGCGACGCTTTTCC-C
1 AAAC-GCCGCTAAAGACCATGATTTTTAGCGACGCTTTTCCAC
*** * * * * *
26490465 ATTAACATAGCTAAAGAACATGGTCTTTAACGATGCTTTTACCAC
1 A--AACGCCGCTAAAGACCATGATTTTTAGCGACGCTTTT-CCAC
* * * *
26490510 AAATGCCACTAAAGACCATG-TTCTTTAGCTG-TGTTTTTACCAC
1 AAACGCCGCTAAAGACCATGATT-TTTAGC-GACGCTTTT-CCAC
** *
26490553 AAACGCCGCTAAAGACGTTG-TTCTTTAGCGACGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGATT-TTTAGCGACGCTT-TTCCAC
* * * * *
26490596 AAATGCCGCTAAATACCATGATCTTTAACGGCGCTGTTTCCAC
1 AAACGCCGCTAAAGACCATGATTTTTAGCGACGCT-TTTCCAC
* * *
26490639 AAACGTCGCTAAAGACCATGATTTTTAGCAACACTTTTCCTAC
1 AAACGCCGCTAAAGACCATGATTTTTAGCGACGCTTTTCC-AC
* * *
26490682 AAACGCCACTATAA-AACATG-TTATTTAGCGACGTTTTTCCCAC
1 AAACGCCGCTA-AAGACCATGATT-TTTAGCGACGCTTTT-CCAC
26490725 AAACGC
1 AAACGC
26490731 TTCTAACATT
Statistics
Matches: 274, Mismatches: 59, Indels: 34
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.01
42 11 0.04
43 249 0.91
44 10 0.04
45 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCATGATTTTTAGCGACGCTTTTCCAC
Found at i:26490993 original size:26 final size:25
Alignment explanation
Indices: 26490954--26491002 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
26490944 ATCAAAATAC
*
26490954 ACTAACATTTAACCGAAATGTATATA
1 ACTAACATTCAACC-AAATGTATATA
* *
26490980 ACTAGCATTCAACCCAATGTATA
1 ACTAACATTCAACCAAATGTATA
26491003 GAAGTAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (25 bp):
ACTAACATTCAACCAAATGTATATA
Found at i:26494415 original size:18 final size:18
Alignment explanation
Indices: 26494394--26494435 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
26494384 TTTATATAAG
26494394 TTTTAAAATTTTAAATTT
1 TTTTAAAATTTTAAATTT
*
26494412 TTTTAAAATTTTAGATTT
1 TTTTAAAATTTTAAATTT
26494430 TTTTAA
1 TTTTAA
26494436 GTTTATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTAAAATTTTAAATTT
Found at i:26494609 original size:41 final size:41
Alignment explanation
Indices: 26494545--26494762 Score: 229
Period size: 41 Copynumber: 5.3 Consensus size: 41
26494535 TTATTGCTTA
* *
26494545 ACCTTTAGCGGCGCTTTCTCATAAGCACCGCTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCCCATAAACACCGCTAATGCTCTG
* * * ** * * *
26494586 ACATTTAGCGGTGCTTTCACATAAACGTCGTTATTGCTCTA
1 ACCTTTAGCGGCGCTTTCCCATAAACACCGCTAATGCTCTG
* * * * * *
26494627 ATCTTTAGCGGCGTTTTCTCATAAACACAGTTAATGCTCTC
1 ACCTTTAGCGGCGCTTTCCCATAAACACCGCTAATGCTCTG
* * * *
26494668 ACCTTTAGCGGTGCTTTCCCATAAGCATCGCTATTGCTCTG
1 ACCTTTAGCGGCGCTTTCCCATAAACACCGCTAATGCTCTG
* **
26494709 ACCTTTAGTGGCGCTTTCCCATAAACGGCGCTAATGCTCTG
1 ACCTTTAGCGGCGCTTTCCCATAAACACCGCTAATGCTCTG
26494750 ACCTTTAGCGGCG
1 ACCTTTAGCGGCG
26494763 TTTATGGGTA
Statistics
Matches: 141, Mismatches: 36, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 141 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.33
Consensus pattern (41 bp):
ACCTTTAGCGGCGCTTTCCCATAAACACCGCTAATGCTCTG
Found at i:26494675 original size:82 final size:81
Alignment explanation
Indices: 26494527--26494760 Score: 308
Period size: 82 Copynumber: 2.9 Consensus size: 81
26494517 GTTTATGAGA
* *
26494527 AAACATCGTTATTGCT-TAACCTTTAGCGGCGCTTTCTCATAAGCACCGCTAATGCTCTGACATT
1 AAACATCGTTATTGCTCTAACCTTTAGCGGCGCTTTCTCATAAACA-CGCTAATGCTCTGACCTT
26494591 TAGCGGTGCTTTCACAT
65 TAGCGGTGCTTTCACAT
* * * * *
26494608 AAACGTCGTTATTGCTCTAATCTTTAGCGGCGTTTTCTCATAAACACAGTTAATGCTCTCACCTT
1 AAACATCGTTATTGCTCTAACCTTTAGCGGCGCTTTCTCATAAACAC-GCTAATGCTCTGACCTT
*
26494673 TAGCGGTGCTTTCCCAT
65 TAGCGGTGCTTTCACAT
* * * * * *
26494690 AAGCATCGCTATTGCTCTGACCTTTAGTGGCGCTTTCCCATAAACGGCGCTAATGCTCTGACCTT
1 AAACATCGTTATTGCTCTAACCTTTAGCGGCGCTTTCTCATAAAC-ACGCTAATGCTCTGACCTT
26494755 TAGCGG
65 TAGCGG
26494761 CGTTTATGGG
Statistics
Matches: 131, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
81 16 0.12
82 114 0.87
83 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.33
Consensus pattern (81 bp):
AAACATCGTTATTGCTCTAACCTTTAGCGGCGCTTTCTCATAAACACGCTAATGCTCTGACCTTT
AGCGGTGCTTTCACAT
Found at i:26497002 original size:41 final size:41
Alignment explanation
Indices: 26496958--26497280 Score: 306
Period size: 41 Copynumber: 7.9 Consensus size: 41
26496948 TAGCGGCATT
* * * *
26496958 TTTCCCATAAGCGCCGCTAATGCTTTGACATTTAGCAGCGT
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCAGCGC
* * * * * *
26496999 TTTCTCATAAACGCTGCTATTACTCTGACCTTTAGTAGCAC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCAGCGC
* * *
26497040 TTTTCCATAAACGCCGCTAATGCTCTAATCTTTAGCAGCGC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCAGCGC
* * * * *
26497081 TTTCCCATAAGCGTCGTTAATGCTCTGATCTTTAGCTGCGC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCAGCGC
* *
26497122 TTTCCCATAAGCGCCGCTAATGCTCTGACCTTTAGCGGCGC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCAGCGC
* * * * **
26497163 TTTCTCATAAACGCCGCTAATGTTTTGACCTTTAGCGGCATT
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCAGC-GC
* * * * * * *
26497205 TTTTCTATAAACGCTGCTATTGCT-TTACCTTTTGCGGCGC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCAGCGC
* * *
26497245 TTTCTCATAAACGCCGCTAGTGCTTTGACCTTTAGC
1 TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGC
26497281 GGTATTTTTT
Statistics
Matches: 228, Mismatches: 52, Indels: 4
0.80 0.18 0.01
Matches are distributed among these distances:
40 19 0.08
41 191 0.84
42 18 0.08
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (41 bp):
TTTCCCATAAACGCCGCTAATGCTCTGACCTTTAGCAGCGC
Found at i:26497055 original size:82 final size:82
Alignment explanation
Indices: 26496943--26497282 Score: 358
Period size: 82 Copynumber: 4.1 Consensus size: 82
26496933 CTATTGCTTA
* * * * *
26496943 ACCTTTAGCGGCATTTTTCCCATAAGCGCCGCTAATGCTTTGACATTTAGCAGCGTTTTCTCATA
1 ACCTTTAGCGGCACTTTT-CCATAAACGCCGCTAATGCTCTGACCTTTAGCAGCGCTTTCTCATA
* * *
26497008 AACGCTGCTATTACTCTG
65 AACGCCGCTAATGCTCTG
** * * *
26497026 ACCTTTAGTAGCACTTTTCCATAAACGCCGCTAATGCTCTAATCTTTAGCAGCGCTTTCCCATAA
1 ACCTTTAGCGGCACTTTTCCATAAACGCCGCTAATGCTCTGACCTTTAGCAGCGCTTTCTCATAA
* * *
26497091 GCGTCGTTAATGCTCTG
66 ACGCCGCTAATGCTCTG
* * * * * *
26497108 ATCTTTAGCTGCGCTTTCCCATAAGCGCCGCTAATGCTCTGACCTTTAGCGGCGCTTTCTCATAA
1 ACCTTTAGCGGCACTTTTCCATAAACGCCGCTAATGCTCTGACCTTTAGCAGCGCTTTCTCATAA
* *
26497173 ACGCCGCTAATGTTTTG
66 ACGCCGCTAATGCTCTG
* * * * * * *
26497190 ACCTTTAGCGGCATTTTTTCTATAAACGCTGCTATTGCT-TTACCTTTTGCGGCGCTTTCTCATA
1 ACCTTTAGCGGCA-CTTTTCCATAAACGCCGCTAATGCTCTGACCTTTAGCAGCGCTTTCTCATA
* *
26497254 AACGCCGCTAGTGCTTTG
65 AACGCCGCTAATGCTCTG
26497272 ACCTTTAGCGG
1 ACCTTTAGCGG
26497283 TATTTTTTTT
Statistics
Matches: 212, Mismatches: 44, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
82 178 0.84
83 34 0.16
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (82 bp):
ACCTTTAGCGGCACTTTTCCATAAACGCCGCTAATGCTCTGACCTTTAGCAGCGCTTTCTCATAA
ACGCCGCTAATGCTCTG
Found at i:26497281 original size:123 final size:123
Alignment explanation
Indices: 26496931--26497282 Score: 361
Period size: 123 Copynumber: 2.9 Consensus size: 123
26496921 GGAAAATCGT
* * *
26496931 CGCTATTGCT-TAACCTTTAGCGGCATTTTTCCCATAAGCGCCGCTAATGCTTTGACATTTAGCA
1 CGCTAATGCTCTAACCTTTAGCGGCATTTTTCCCATAAGCGCTGCTAATGCTTT-ACCTTTAGCA
* * * * **
26496995 GCGTTTTCTCATAAACGCTGCTATTACTCTGACCTTTAGTAGCACTTTTCCATAAACGC
65 GCGCTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCACTTTTCCATAAACGC
* * ** * * *
26497054 CGCTAATGCTCTAATCTTTAGCAGC-GCTTTCCCATAAGCG-TCGTTAATGCTCTGATCTTTAGC
1 CGCTAATGCTCTAACCTTTAGCGGCATTTTTCCCATAAGCGCT-GCTAATGCT-TTACCTTTAGC
* * * *
26497117 TGCGCTTTCCCATAAGCGCCGCTAATGCTCTGACCTTTAGCGGCGC-TTTCTCATAAACGC
64 AGCGCTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCACTTTTC-CATAAACGC
* * * * * * * * *
26497177 CGCTAATGTTTTGACCTTTAGCGGCATTTTTTCTATAAACGCTGCTATTGCTTTACCTTTTGCGG
1 CGCTAATGCTCTAACCTTTAGCGGCATTTTTCCCATAAGCGCTGCTAATGCTTTACCTTTAGCAG
* *
26497242 CGCTTTCTCATAAACGCCGCTAGTGCTTTGACCTTTAGCGG
66 CGCTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGCGG
26497283 TATTTTTTTT
Statistics
Matches: 183, Mismatches: 40, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
122 4 0.02
123 148 0.81
124 30 0.16
125 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (123 bp):
CGCTAATGCTCTAACCTTTAGCGGCATTTTTCCCATAAGCGCTGCTAATGCTTTACCTTTAGCAG
CGCTTTCTCATAAACGCCGCTAATGCTCTGACCTTTAGCGGCACTTTTCCATAAACGC
Found at i:26497288 original size:82 final size:83
Alignment explanation
Indices: 26497149--26497327 Score: 270
Period size: 82 Copynumber: 2.2 Consensus size: 83
26497139 TAATGCTCTG
* * *
26497149 ACCTTTAGCGGCGCTTTCTCATAAACGCCGCTAATGTTTTGACCTTTAGCGGCA-TTTTTTCTAT
1 ACCTTTTGCGGCGCTTTCTCATAAACGCCGCTAATGCTTTGACCTTTAGCGGCATTTTTTTCTAC
*
26497213 AAACGCTGCTATTGCTTT
66 AAAAGCTGCTATTGCTTT
* * *
26497231 ACCTTTTGCGGCGCTTTCTCATAAACGCCGCTAGTGCTTTGACCTTTAGCGGTATTTTTTTTTTA
1 ACCTTTTGCGGCGCTTTCTCATAAACGCCGCTAATGCTTTGACCTTTAGCGGCA-TTTTTTTCTA
*
26497296 CAAAAGTTGCTATTGCTTT
65 CAAAAGCTGCTATTGCTTT
26497315 ACCTTTTGCGGCG
1 ACCTTTTGCGGCG
26497328 TGTATGGAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
82 50 0.57
84 37 0.43
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (83 bp):
ACCTTTTGCGGCGCTTTCTCATAAACGCCGCTAATGCTTTGACCTTTAGCGGCATTTTTTTCTAC
AAAAGCTGCTATTGCTTT
Found at i:26497351 original size:36 final size:37
Alignment explanation
Indices: 26497311--26497383 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 37
26497301 GTTGCTATTG
*
26497311 CTTTACCTTTTGCGGCGTGTATGG-AAAACGCTGCTA
1 CTTTACCTTTTGCGGCATGTATGGAAAAACGCTGCTA
*
26497347 CTTTACCTTTTGCGGCATTTATGGAAAAACGCTGCTA
1 CTTTACCTTTTGCGGCATGTATGGAAAAACGCTGCTA
26497384 TTGCTTTACT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 22 0.65
37 12 0.35
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (37 bp):
CTTTACCTTTTGCGGCATGTATGGAAAAACGCTGCTA
Found at i:26497708 original size:41 final size:41
Alignment explanation
Indices: 26497663--26497745 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
26497653 GAAGTCTTCC
* *
26497663 AAGTATCGGTAGAACTGAAGTTGTTTCGATAATCTTGGCCA
1 AAGTATCAGTAGAACTGAAGTTGTTTCGATAATATTGGCCA
26497704 AAGTATCAGTAGAACTGAAGTTGTTTCGATAATATTGGCCA
1 AAGTATCAGTAGAACTGAAGTTGTTTCGATAATATTGGCCA
26497745 A
1 A
26497746 GATAAAGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (41 bp):
AAGTATCAGTAGAACTGAAGTTGTTTCGATAATATTGGCCA
Found at i:26498697 original size:22 final size:21
Alignment explanation
Indices: 26498650--26498706 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
26498640 TTCTTTATGA
*
26498650 AAACCCAA-TTTTTTCCTAAG
1 AAACCCAATTTTTTTACTAAG
*
26498670 ATAACCCAATTTTTTTATTGAAG
1 A-AACCCAATTTTTTTACT-AAG
*
26498693 AAACCTAGATTTTT
1 AAACCCA-ATTTTT
26498707 CCTTTTACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 7 0.23
22 12 0.40
23 10 0.33
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (21 bp):
AAACCCAATTTTTTTACTAAG
Found at i:26499065 original size:25 final size:26
Alignment explanation
Indices: 26499037--26499092 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
26499027 TTTTACGGAA
*
26499037 AAAATTAAAATTAATATTA-AAAAAT
1 AAAATTAAAATAAATATTAGAAAAAT
* * *
26499062 AAAAATAAAATAAATTTTAGAAATAT
1 AAAATTAAAATAAATATTAGAAAAAT
26499088 AAAAT
1 AAAAT
26499093 GAGTGATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (26 bp):
AAAATTAAAATAAATATTAGAAAAAT
Found at i:26499624 original size:21 final size:21
Alignment explanation
Indices: 26499598--26499674 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 21
26499588 AATATTTAAC
26499598 TAAATTACATAGTATTTATTA
1 TAAATTACATAGTATTTATTA
*
26499619 TAAATTATAT-GT-TTTAATTTTAA
1 TAAATTACATAGTATTT-A--TT-A
**
26499642 CTAAATTACATAAAATTTATTA
1 -TAAATTACATAGTATTTATTA
*
26499664 TTAATTACATA
1 TAAATTACATA
26499675 TCAAAGGACT
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
19 3 0.07
20 3 0.07
21 19 0.43
22 3 0.07
23 3 0.07
24 9 0.20
25 1 0.02
26 3 0.07
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (21 bp):
TAAATTACATAGTATTTATTA
Found at i:26500710 original size:20 final size:21
Alignment explanation
Indices: 26500656--26500711 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
26500646 GTTTAAGGAA
26500656 TTATTTTTAATAATA-ATATTT
1 TTATTTTTAA-AATATATATTT
* *
26500677 TAATTTTT-AGATATAT-TTT
1 TTATTTTTAAAATATATATTT
26500696 TTATTTTTAAAATATA
1 TTATTTTTAAAATATA
26500712 ATTATATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 13 0.45
20 9 0.31
21 7 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTATTTTTAAAATATATATTT
Found at i:26501962 original size:39 final size:39
Alignment explanation
Indices: 26501887--26501964 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
26501877 TTATGCCTGT
* * *
26501887 TCTACATTTGGGCTTTTAGTGTTATGGATTACATGCAAC
1 TCTACATTTGGGCTCTTAGTGTTATAGATTAAATGCAAC
*
26501926 TCTACATTTGGTCTCTTAGTGTTATA-AGTTAAATGCAAC
1 TCTACATTTGGGCTCTTAGTGTTATAGA-TTAAATGCAAC
26501965 CTTAACTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 33 0.97
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (39 bp):
TCTACATTTGGGCTCTTAGTGTTATAGATTAAATGCAAC
Found at i:26502119 original size:24 final size:24
Alignment explanation
Indices: 26502079--26502124 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
26502069 TGATCGCCAC
* *
26502079 AGGGATAGGGATAGAGATAAGGGT
1 AGGGATAGGGACAGAGAAAAGGGT
*
26502103 AGGGATAGGGACCGAGAAAAGG
1 AGGGATAGGGACAGAGAAAAGG
26502125 ATCGTGATCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.04, G:0.46, T:0.11
Consensus pattern (24 bp):
AGGGATAGGGACAGAGAAAAGGGT
Found at i:26507227 original size:2 final size:2
Alignment explanation
Indices: 26507220--26507276 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
26507210 CCAGATAAAT
*
26507220 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC GC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
26507262 AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC A
26507277 TATATATATA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.49, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:26513182 original size:95 final size:96
Alignment explanation
Indices: 26513009--26513189 Score: 260
Period size: 95 Copynumber: 1.9 Consensus size: 96
26512999 TTTGGAAAAG
** *
26513009 GATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAAATTTTCAAAATCGAATA
1 GATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAAAATCGAATA
26513074 TAAAGAAACATTGCCTCGATTAAGGGTATTT
66 TAAAGAAACATTGCCTCGATTAAGGGTATTT
* *
26513105 GATTATTTCGATTTGAA-AAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCCAAACTCGAA-
1 GATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTT-CAAAATCGAAT
* *
26513168 ATAAA-AGAATATTGCCTTGATT
65 ATAAAGA-AACATTGCCTCGATT
26513190 TTAAAGTTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
94 1 0.01
95 50 0.66
96 25 0.33
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (96 bp):
GATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAAAATCGAATA
TAAAGAAACATTGCCTCGATTAAGGGTATTT
Found at i:26513436 original size:28 final size:28
Alignment explanation
Indices: 26513405--26513466 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
26513395 AAAATGAGAC
* *
26513405 TTTTGGA-TACCCGAGGGCAAAATGGTAA
1 TTTTGGACT-CCCGAGGGCAAAACGATAA
* *
26513433 TTTTAGACTCTCGAGGGCAAAACGATAA
1 TTTTGGACTCCCGAGGGCAAAACGATAA
26513461 TTTTGG
1 TTTTGG
26513467 GAAAGTTCGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (28 bp):
TTTTGGACTCCCGAGGGCAAAACGATAA
Found at i:26513600 original size:29 final size:29
Alignment explanation
Indices: 26513568--26513768 Score: 183
Period size: 30 Copynumber: 6.8 Consensus size: 29
26513558 CATCCGAGGT
26513568 TAAAAATGGAATTTTTGGAAGTTCGGGGG
1 TAAAAATGGAATTTTTGGAAGTTCGGGGG
*
26513597 T-AAAAT-GAATTTTTGGAAGTT-TGGGG
1 TAAAAATGGAATTTTTGGAAGTTCGGGGG
* * *
26513623 TCAAAACTAGAATTTTTGGAAGTTTTGGGGG
1 T-AAAAATGGAATTTTTGGAAG-TTCGGGGG
* * * *
26513654 TCAAAAATGAAATTTTTGGAAGTTCAAGAGT
1 T-AAAAATGGAATTTTTGGAAGTTC-GGGGG
* * ***
26513685 TAAAAATGTAATTTTTGAAAGTTTTAGGG
1 TAAAAATGGAATTTTTGGAAGTTCGGGGG
* *
26513714 TCAAAAATGGAATTTTTGGAAGTTCGAGGT
1 T-AAAAATGGAATTTTTGGAAGTTCGGGGG
*
26513744 TAAAAATGTAATTTTTGGACAGTTC
1 TAAAAATGGAATTTTTGGA-AGTTC
26513769 AGGGACCTTT
Statistics
Matches: 141, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
26 5 0.04
27 15 0.11
28 9 0.06
29 33 0.23
30 53 0.38
31 26 0.18
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.36
Consensus pattern (29 bp):
TAAAAATGGAATTTTTGGAAGTTCGGGGG
Found at i:26513715 original size:60 final size:58
Alignment explanation
Indices: 26513538--26513767 Score: 234
Period size: 60 Copynumber: 3.9 Consensus size: 58
26513528 AAAATCAGGA
* * * * **
26513538 TCAAAAATGTTATTTTTGGACA-TCCGAGGTTAAAAATGGAATTTTTGGAAGTTCGGGGG
1 TCAAAAATG-AATTTTTGGA-AGTTCAAGGTTAAAAATGTAATTTTTGGAAGTTTTGGGG
*** * *
26513597 T--AAAATGAATTTTTGGAAGTTTGGGGTCAAAACTAG-AATTTTTGGAAGTTTTGGGGG
1 TCAAAAATGAATTTTTGGAAGTTCAAGGTTAAAAAT-GTAATTTTTGGAAGTTTT-GGGG
* *
26513654 TCAAAAATGAAATTTTTGGAAGTTCAAGAGTTAAAAATGTAATTTTTGAAAGTTTTAGGG
1 TCAAAAATG-AATTTTTGGAAGTTCAAG-GTTAAAAATGTAATTTTTGGAAGTTTTGGGG
*
26513714 TCAAAAATGGAATTTTTGGAAGTTCGAGGTTAAAAATGTAATTTTTGGACAGTT
1 TCAAAAAT-GAATTTTTGGAAGTTCAAGGTTAAAAATGTAATTTTTGGA-AGTT
26513768 CAGGGACCTT
Statistics
Matches: 144, Mismatches: 17, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
55 1 0.01
56 33 0.23
57 12 0.08
59 27 0.19
60 48 0.33
61 23 0.16
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (58 bp):
TCAAAAATGAATTTTTGGAAGTTCAAGGTTAAAAATGTAATTTTTGGAAGTTTTGGGG
Found at i:26514650 original size:23 final size:23
Alignment explanation
Indices: 26514619--26514666 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
26514609 AAAAAAAAAT
*
26514619 AAGCACTTTCCTTTTTTCTTTTA
1 AAGCACTTTCCTTCTTTCTTTTA
* * *
26514642 AAGCCCTTTTCTTCTTTGTTTTA
1 AAGCACTTTCCTTCTTTCTTTTA
26514665 AA
1 AA
26514667 AATCCATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.21, G:0.06, T:0.54
Consensus pattern (23 bp):
AAGCACTTTCCTTCTTTCTTTTA
Found at i:26515751 original size:17 final size:17
Alignment explanation
Indices: 26515726--26515797 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
26515716 CTTTAATTTT
*
26515726 ATTTTAATTTAAAATAA
1 ATTTAAATTTAAAATAA
*
26515743 ATTTAAATTAAAAAGTAA
1 ATTTAAATTTAAAA-TAA
* * * *
26515761 ATTCAAACTCAAAATGA
1 ATTTAAATTTAAAATAA
*
26515778 ATTTGAATTTAAAATAA
1 ATTTAAATTTAAAATAA
26515795 ATT
1 ATT
26515798 CAAACTTATT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
17 29 0.67
18 14 0.33
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:26520152 original size:30 final size:30
Alignment explanation
Indices: 26520090--26520194 Score: 89
Period size: 28 Copynumber: 3.6 Consensus size: 30
26520080 AATTTGGGGT
**
26520090 TAAAATGG-AA-TTTT-GGAAAGTTTAGGGG
1 TAAAATGGTAATTTTTGGGAAAGTCGA-GGG
*
26520118 TAAAATGGTAATTTTTGGTGAAA-TCGAGGT
1 TAAAATGGTAATTTTTGG-GAAAGTCGAGGG
26520148 TAAAAATGG-AA-TTTT-GGAAAGTTCGAGGG
1 T-AAAATGGTAATTTTTGGGAAAG-TCGAGGG
*
26520177 TAAAATGGTAATTCTTGG
1 TAAAATGGTAATTTTTGG
26520195 AAGTTTTGGG
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
27 4 0.06
28 16 0.26
29 15 0.24
30 12 0.19
31 11 0.18
32 4 0.06
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (30 bp):
TAAAATGGTAATTTTTGGGAAAGTCGAGGG
Found at i:26520240 original size:59 final size:57
Alignment explanation
Indices: 26520062--26520288 Score: 176
Period size: 59 Copynumber: 3.9 Consensus size: 57
26520052 CTTAGTGGCA
* **
26520062 AAAATGAT-ATTTTAGGAAAATTTGGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTAGGAAGTTTTGGGGTTAAAATGGAATTTTGGAAAGTTT-GGGGT
* * * * *
26520119 AAAATGGTAATTTTTGGTGAA--ATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAA-TTTTAG-GAAGTTTTGGGGTT-AAAATGGAATTTTGGAAAGTTTG-GGGT
* * *
26520178 AAAATGGTAATTCTT-GGAAGTTTTGGGGTTAAAATGTAATTTTTGGAAAATTTGTGGTT
1 AAAATGGTAATT-TTAGGAAGTTTTGGGGTTAAAATGGAA-TTTTGGAAAGTTTG-GGGT
** * * ** *
26520237 AAAATGG-AATTTTAAAAAGTTTAGGGGTCAAAATATAACTTTTGGACAGTTT
1 AAAATGGTAATTTTAGGAAGTTTTGGGGTTAAAATGGAA-TTTTGGAAAGTTT
26520289 AGGGACCTTT
Statistics
Matches: 138, Mismatches: 22, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
57 12 0.09
58 53 0.38
59 70 0.51
60 3 0.02
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (57 bp):
AAAATGGTAATTTTAGGAAGTTTTGGGGTTAAAATGGAATTTTGGAAAGTTTGGGGT
Found at i:26520247 original size:29 final size:29
Alignment explanation
Indices: 26520062--26520249 Score: 152
Period size: 29 Copynumber: 6.4 Consensus size: 29
26520052 CTTAGTGGCA
* *
26520062 AAAAT-GATATTTTAGGAAAATTTGGGGTT
1 AAAATGGA-ATTTTTGGAAAATTTGAGGTT
* *
26520091 AAAATGGAA-TTTTGGAAAGTTT-AGGGGT
1 AAAATGGAATTTTTGGAAAATTTGA-GGTT
* *
26520119 AAAATGGTAATTTTTGGTGAAA-TCGAGGTT
1 AAAATGG-AATTTTTGG-AAAATTTGAGGTT
* * *
26520149 AAAAATGGAA-TTTTGGAAAGTTCGAGGGT
1 -AAAATGGAATTTTTGGAAAATTTGAGGTT
* ** *
26520178 AAAATGGTAATTCTTGGAAGTTTTGGGGTT
1 AAAATGG-AATTTTTGGAAAATTTGAGGTT
* *
26520208 AAAATGTAATTTTTGGAAAATTTGTGGTT
1 AAAATGGAATTTTTGGAAAATTTGAGGTT
26520237 AAAATGGAATTTT
1 AAAATGGAATTTT
26520250 AAAAAGTTTA
Statistics
Matches: 126, Mismatches: 23, Indels: 20
0.75 0.14 0.12
Matches are distributed among these distances:
28 30 0.24
29 53 0.42
30 33 0.26
31 10 0.08
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.37
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAAATTTGAGGTT
Found at i:26520270 original size:88 final size:86
Alignment explanation
Indices: 26520061--26520292 Score: 224
Period size: 88 Copynumber: 2.6 Consensus size: 86
26520051 TCTTAGTGGC
26520061 AAAAAT-GATATTTTAGGAAAA-TTTGGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGTAAAAT
1 AAAAATGGA-ATTTTA--AAAAGTTTGGGG-TAAAATGGAATTTTGGAAAGTTTAGGGGTAAAAT
*
26520124 GGTAATTTTTGGTGAAATCGAGGTT
62 GGTAATTTTTGGTAAAATCGAGGTT
** * *
26520149 AAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTCTTGG-AAGTTTTGGGGTTAAAAT
1 AAAAATGGAATTTTAAAAAGTTTG-GGGTAAAATGG-AATT-TTGGAAAGTTTAGGGG-TAAAAT
* *
26520213 -GTAATTTTTGG-AAAATTTGTGGTT
62 GGTAATTTTTGGTAAAA-TCGAGGTT
** *
26520237 -AAAATGGAATTTTAAAAAGTTTAGGGGTCAAAATATAACTTTTGGACAGTTTAGGG
1 AAAAATGGAATTTTAAAAAGTTT-GGGGT-AAAATGGAA-TTTTGGAAAGTTTAGGG
26520293 ACCTTTAAGG
Statistics
Matches: 119, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
86 3 0.03
87 43 0.36
88 61 0.51
89 12 0.10
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (86 bp):
AAAAATGGAATTTTAAAAAGTTTGGGGTAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTA
ATTTTTGGTAAAATCGAGGTT
Found at i:26521480 original size:15 final size:15
Alignment explanation
Indices: 26521462--26521504 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
26521452 ATATCATATT
26521462 TATTATTATTAACAC
1 TATTATTATTAACAC
**
26521477 TATTATTATTAGTAC
1 TATTATTATTAACAC
26521492 TATTTATTATTAA
1 TA-TTATTATTAA
26521505 AACGTTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (15 bp):
TATTATTATTAACAC
Found at i:26527697 original size:103 final size:103
Alignment explanation
Indices: 26527516--26527707 Score: 242
Period size: 103 Copynumber: 1.9 Consensus size: 103
26527506 TATGGAATAG
* * * *
26527516 TAAACTAGGAGTGTGTTGGGTCGAGTAACCGGGATGGAGTGCTTAGGTTGTCATTTCATTTCACG
1 TAAACTAGGAGTATGTTGGGTCGAGTAACCGGGATGGAGTACTTAGGTTGTCATTCCATTTCACC
* *
26527581 TTAAAATGGCCAATACATTCTTAAGTAAAAAGTGATAA
66 TAAAAAAGGCCAATACATTCTTAAGTAAAAAGTGATAA
* * * * **
26527619 TAAACTGGGAGTATGTTGGG-CTGAGTAACCGGGATGGGGTACTTGGGTTGTCGTTCCATTTTGC
1 TAAACTAGGAGTATGTTGGGTC-GAGTAACCGGGATGGAGTACTTAGGTTGTCATTCCATTTCAC
* *
26527683 CTAAAAAAGTCCAATATATTCTTAA
65 CTAAAAAAGGCCAATACATTCTTAA
26527708 AGGAAGAAGA
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
102 1 0.01
103 73 0.99
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (103 bp):
TAAACTAGGAGTATGTTGGGTCGAGTAACCGGGATGGAGTACTTAGGTTGTCATTCCATTTCACC
TAAAAAAGGCCAATACATTCTTAAGTAAAAAGTGATAA
Found at i:26528876 original size:48 final size:49
Alignment explanation
Indices: 26528541--26528983 Score: 175
Period size: 50 Copynumber: 9.0 Consensus size: 49
26528531 CTGAGAAAAA
* * * * * * * *
26528541 CATGAAGATTTGACGGGAAAGGTTAAGACCGCAACGGCGAACCCGGTAC
1 CATGAAGATGTGATGAGAAAGGTTGAGGCCGCAACGACGAATCCGATAC
* * * * * ** * *
26528590 CTTAAAAGATGTGACGGGAAAGGTTAAGGCTACAACGATGAACCCGATAC
1 CAT-GAAGATGTGATGAGAAAGGTTGAGGCCGCAACGACGAATCCGATAC
* * * **
26528640 CTATGAAGATTTTGA-GGGAAAGATTGAGGCCGC-ACGACGAATTTGATAC
1 C-ATGAAGA-TGTGATGAGAAAGGTTGAGGCCGCAACGACGAATCCGATAC
* * * *
26528689 CATGAA-AGGTGAT-AGGAAAGGTTGAGACCGCAACGATGAA-CCCAGTAC
1 CATGAAGATGTGATGA-GAAAGGTTGAGGCCGCAACGACGAATCCGA-TAC
* * * * * * * * *
26528737 CATGAAGATTTGAAGGGAGATGTTGAGGCCGCAACGGCAAACCCAATAC
1 CATGAAGATGTGATGAGAAAGGTTGAGGCCGCAACGACGAATCCGATAC
* * * * * * * *
26528786 C-TCAAACGATGTGATGGGAAAGATTAAGACCGTAACGGCGAATCTGATAC
1 CAT-GAA-GATGTGATGAGAAAGGTTGAGGCCGCAACGACGAATCCGATAC
* * *
26528836 CATGAA-ATGTGATGAGAAAGGTTGAGGCCGCAATGACGAATTCGGTAC
1 CATGAAGATGTGATGAGAAAGGTTGAGGCCGCAACGACGAATCCGATAC
* * * * * ** * *
26528884 CACGAAGATTTTAAGGGAAAGGTTGAGGCTACAA-TAGCGAA-CCTGGTAC
1 CATGAAGATGTGATGAGAAAGGTTGAGGCCGCAACGA-CGAATCC-GATAC
* * * * * * *
26528933 CTTAAAAGATATGATGGGAAAGGTTGAGGCTGCAACGGCGAACCCGATAC
1 CAT-GAAGATGTGATGAGAAAGGTTGAGGCCGCAACGACGAATCCGATAC
26528983 C
1 C
26528984 TTAGAAAACA
Statistics
Matches: 292, Mismatches: 83, Indels: 37
0.71 0.20 0.09
Matches are distributed among these distances:
46 3 0.01
47 16 0.05
48 61 0.21
49 75 0.26
50 129 0.44
51 8 0.03
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (49 bp):
CATGAAGATGTGATGAGAAAGGTTGAGGCCGCAACGACGAATCCGATAC
Found at i:26528970 original size:147 final size:147
Alignment explanation
Indices: 26528556--26528983 Score: 366
Period size: 147 Copynumber: 2.9 Consensus size: 147
26528546 AGATTTGACG
* * * * * * *
26528556 GGAAAGGTTAAGACCGCAACGGCGAACCCGGTACCTTA-AAAGATGTGACGGGAAAGGTTAAGGC
1 GGAAAGGTTGAGACCGCAACGACGAACCCAGTACC--ACGAAGATTTGAAGGGAAAGGTTGAGGC
* * * * *
26528620 TACAAC-G-ATGAACCCGATACCT-ATGAAGATTTTGA-GGGAAAGATTGAGGCCGC-ACGACGA
64 CACAACAGCA--AACCCAATACCTCA-AAAGA-TATGATGGGAAAGATTGAGGCCGCAACGGCGA
*
26528680 ATTTGATACCATGAAAGGTGATA
125 ATCTGATACCATGAAAGGTGATA
* * * * *
26528703 GGAAAGGTTGAGACCGCAACGATGAACCCAGTACCATGAAGATTTGAAGGGAGATGTTGAGGCCG
1 GGAAAGGTTGAGACCGCAACGACGAACCCAGTACCACGAAGATTTGAAGGGAAAGGTTGAGGCCA
* * * * * *
26528768 CAACGGCAAACCCAATACCTCAAACGATGTGATGGGAAAGATTAAGACCGTAACGGCGAATCTGA
66 CAACAGCAAACCCAATACCTCAAAAGATATGATGGGAAAGATTGAGGCCGCAACGGCGAATCTGA
*
26528833 TACCATGAAATGTGAT-
131 TACCATGAAAGGTGATA
* * ** * * *
26528849 GAGAAAGGTTGAGGCCGCAATGACGAATTCGGTACCACGAAGATTTTAAGGGAAAGGTTGAGGCT
1 G-GAAAGGTTGAGACCGCAACGACGAACCCAGTACCACGAAGATTTGAAGGGAAAGGTTGAGGCC
* * *** * * * * *
26528914 ACAATAGCGAACCTGGTACCTTAAAAGATATGATGGGAAAGGTTGAGGCTGCAACGGCGAACCCG
65 ACAACAGCAAACCCAATACCTCAAAAGATATGATGGGAAAGATTGAGGCCGCAACGGCGAATCTG
26528979 ATACC
130 ATACC
26528984 TTAGAAAACA
Statistics
Matches: 224, Mismatches: 50, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
145 5 0.02
146 54 0.24
147 164 0.73
148 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (147 bp):
GGAAAGGTTGAGACCGCAACGACGAACCCAGTACCACGAAGATTTGAAGGGAAAGGTTGAGGCCA
CAACAGCAAACCCAATACCTCAAAAGATATGATGGGAAAGATTGAGGCCGCAACGGCGAATCTGA
TACCATGAAAGGTGATA
Found at i:26529296 original size:39 final size:39
Alignment explanation
Indices: 26529252--26529899 Score: 378
Period size: 39 Copynumber: 16.7 Consensus size: 39
26529242 GAAGATTTTG
*
26529252 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATTAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATTAGCCA
*
26529291 ATCTCTTACCCCGAGCCTGGGGCAGCTTGCAGCCATCT-G---
1 ATCTCTTACCCCGAGCCTGGGGCAG-AT-CA-CCAT-TAGCCA
* ** * * *
26529330 ATCTTTTACCCTAAGCTTGGGGCAAATCACCATAAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATTAGCCA
* * *
26529369 ATCTCTTACCCCGAGCCTGGGACAGATTGTAGCCATT---CG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATTAGCCA
* * * * *
26529408 ATCTCTTACCCCCAACTTGGGGCAGATCACTATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATTAGCCA
* * *
26529447 ATCTCTTACCCTGAGCCTGAGGCAGATTGCAGCCATT---CG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATTAGCCA
* * *
26529486 ATCTTTTACCTCGAGCCTGGGG-AGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATTAGCCA
* ** * * *
26529524 ATCTCTTACCCCGAGCCT-GGGCAAAT-TGCAGTCAGTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCA-TTAGCCA
* * * *
26529562 ATCTTTTACACCGAGCTTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATTAGCCA
* * *
26529601 ATCTCTTACCCCGAGCCTAGGGCAGATTGTAACCA-T--CCG
1 ATCTCTTACCCCGAGCCTGGGGCAGA---TCACCATTAGCCA
* * * *
26529640 ATCTTTTACCCCGAACCTGAGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATTAGCCA
* * * *
26529679 ATCTCTTACCCTGAGCCTGAGGCAAATTGCATCCA-T--CCG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATTAGCCA
* * *
26529718 ATCTCTTACCCCGAGCCTGAGGTAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATTAGCCA
*
26529757 ATCTCTTACCCCGAGCCT-GGGTAGATTGCAGCCATCT-G---
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCAT-TAGCCA
* * *
26529795 ATCTTTTACCCCGAGCCTGGGGCAGATTGCAGTCATT---CG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATTAGCCA
* * * * *
26529834 ATCTTTTACCCTGAGCCTGGGGCAGATCATCATCAGCAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATTAGCCA
* *
26529873 ATCTCTTACCCCGAGCCTAGGGTAGAT
1 ATCTCTTACCCCGAGCCTGGGGCAGAT
26529900 TGCAAAGCCT
Statistics
Matches: 470, Mismatches: 93, Indels: 92
0.72 0.14 0.14
Matches are distributed among these distances:
35 4 0.01
36 22 0.05
37 13 0.03
38 71 0.15
39 319 0.68
40 8 0.02
41 12 0.03
42 20 0.04
43 1 0.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATTAGCCA
Found at i:26529347 original size:78 final size:78
Alignment explanation
Indices: 26529250--26529821 Score: 733
Period size: 78 Copynumber: 7.4 Consensus size: 78
26529240 TTGAAGATTT
* * *
26529250 TGATCTCTTACCCCGAGCTTGGGGCAGATCACCATTAGCCAATCTCTTACCCCGAGCCTGGGGCA
1 TGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
*
26529315 GCTTGCAGCCATC
66 GATTGCAGCCATC
** * * * *
26529328 TGATCTTTTACCCTAAGCTTGGGGCAAATCACCATAAGCCAATCTCTTACCCCGAGCCTGGGACA
1 TGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
*
26529393 GATTGTAGCCAT-
66 GATTGCAGCCATC
* * * * * * *
26529405 TCGATCTCTTACCCCCAACTTGGGGCAGATCACTATCAGCCAATCTCTTACCCTGAGCCTGAGGC
1 T-GATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGC
26529470 AGATTGCAGCCAT-
65 AGATTGCAGCCATC
*
26529483 TCGATCTTTTACCTCGAGCCTGGGG-AGATCACCATCAGCCAATCTCTTACCCCGAGCCT-GGGC
1 T-GATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGC
* *
26529546 AAATTGCAGTCAGTC
65 AGATTGCAGCCA-TC
* * *
26529561 -GATCTTTTACACCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCA
1 TGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
* *
26529625 GATTGTAACCATC
66 GATTGCAGCCATC
* * * * *
26529638 CGATCTTTTACCCCGAACCTGAGGCAGATCACCATCAGCCAATCTCTTACCCTGAGCCTGAGGCA
1 TGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
* *
26529703 AATTGCATCCATC
66 GATTGCAGCCATC
* * * * *
26529716 CGATCTCTTACCCCGAGCCTGAGGTAGATCACCATCAGCCAATCTCTTACCCCGAGCCT-GGGTA
1 TGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
26529780 GATTGCAGCCATC
66 GATTGCAGCCATC
26529793 TGATCTTTTACCCCGAGCCTGGGGCAGAT
1 TGATCTTTTACCCCGAGCCTGGGGCAGAT
26529822 TGCAGTCATT
Statistics
Matches: 430, Mismatches: 58, Indels: 13
0.86 0.12 0.03
Matches are distributed among these distances:
76 33 0.08
77 109 0.25
78 288 0.67
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.24
Consensus pattern (78 bp):
TGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
GATTGCAGCCATC
Found at i:26529854 original size:310 final size:310
Alignment explanation
Indices: 26529251--26529821 Score: 835
Period size: 310 Copynumber: 1.8 Consensus size: 310
26529241 TGAAGATTTT
* * *
26529251 GATCTCTTACCCCGAGCTTGGGGCAGATCACCATTAGCCAATCTCTTACCCCGAGCCTGGGGCAG
1 GATCTCTTACACCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
* * * * * *
26529316 CTTGCAGCCATCTGATCTTTTACCCTAAGCTTGGGGCAAATCACCATAAGCCAATCTCTTACCCC
66 ATTGCAACCATCCGATCTTTTACCCGAAGCCTGAGGCAAATCACCATAAGCCAATCTCTTACCCC
* * * * * *
26529381 GAGCCTGGGACAGATTGTAGCCATTCGATCTCTTACCCCCAACTTGGGGCAGATCACTATCAGCC
131 GAGCCTGGGACAAATTGCAGCCATCCGATCTCTTACCCCCAACCTGAGGCAGATCACCATCAGCC
* *
26529446 AATCTCTTACCCTGAGCCTGAGGCAGATTGCAGCCATTCGATCTTTTACCTCGAGCCTGGGGAGA
196 AATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGAGA
26529511 TCACCATCAGCCAATCTCTTACCCCGAGCCTGGGCAAATTGCAGTCAGTC
261 TCACCATCAGCCAATCTCTTACCCCGAGCCTGGGCAAATTGCAGTCAGTC
*
26529561 GATCTTTTACACCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
1 GATCTCTTACACCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
* * *
26529626 ATTGTAACCATCCGATCTTTTACCCCGAA-CCTGAGGCAGATCACCATCAGCCAATCTCTTACCC
66 ATTGCAACCATCCGATCTTTTA-CCCGAAGCCTGAGGCAAATCACCATAAGCCAATCTCTTACCC
* * * * *
26529690 TGAGCCTGAGG-CAAATTGCATCCATCCGATCTCTTACCCCGAGCCTGAGGTAGATCACCATCAG
130 CGAGCCTG-GGACAAATTGCAGCCATCCGATCTCTTACCCCCAACCTGAGGCAGATCACCATCAG
*
26529754 CCAATCTCTTACCCCGAGCCTG-GGTAGATTGCAGCCA-TCTGATCTTTTACCCCGAGCCTGGGG
194 CCAATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATTC-GATCTTTTACCCCGAGCCTGGGG
26529817 CAGAT
258 -AGAT
26529822 TGCAGTCATT
Statistics
Matches: 230, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
308 2 0.01
309 36 0.16
310 185 0.80
311 7 0.03
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.24
Consensus pattern (310 bp):
GATCTCTTACACCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
ATTGCAACCATCCGATCTTTTACCCGAAGCCTGAGGCAAATCACCATAAGCCAATCTCTTACCCC
GAGCCTGGGACAAATTGCAGCCATCCGATCTCTTACCCCCAACCTGAGGCAGATCACCATCAGCC
AATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGAGA
TCACCATCAGCCAATCTCTTACCCCGAGCCTGGGCAAATTGCAGTCAGTC
Found at i:26530046 original size:39 final size:38
Alignment explanation
Indices: 26529939--26530062 Score: 106
Period size: 39 Copynumber: 3.2 Consensus size: 38
26529929 AAATCTCTTG
*
26529939 GGGCAGATTGCAACCATTCGATCTCTTACCTTGAGCCTAT
1 GGGCAGATTGCAACCATTCGATCTCTTACCTCGAG-CT-T
** * * ** * *
26529979 -GGCAGATCACCATCAGCCAATCTTTTACCTCGAGCTT
1 GGGCAGATTGCAACCATTCGATCTCTTACCTCGAGCTT
* **
26530016 GGGACAGATTGCAACCATTCGATCTCTTACCCCGAGCCC
1 GGG-CAGATTGCAACCATTCGATCTCTTACCTCGAGCTT
26530055 GGGCAGAT
1 GGGCAGAT
26530063 CATTATCAGC
Statistics
Matches: 62, Mismatches: 20, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
37 1 0.02
38 9 0.15
39 52 0.84
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (38 bp):
GGGCAGATTGCAACCATTCGATCTCTTACCTCGAGCTT
Found at i:26530112 original size:77 final size:78
Alignment explanation
Indices: 26529937--26530101 Score: 208
Period size: 78 Copynumber: 2.1 Consensus size: 78
26529927 GCAAATCTCT
** *
26529937 TGGGGCAGATTGCAACCATTCGATCTCTTACCTTGAGCCTATGGCAGATCACCATCAGCCAATCT
1 TGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCT
* *
26530002 TTTACCTCGAGCT
66 CTTACCTCGAGCA
* * ** *
26530015 TGGGACAGATTGCAACCATTCGATCTCTTACCCCGAGCC-CGGGCAGATCATTATCAGCTAATCT
1 TGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCT
*
26530079 CTTA-CTCTGATCA
66 CTTACCTC-GAGCA
26530092 TGGGGCAGAT
1 TGGGGCAGAT
26530102 GGCAGTCATT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
76 3 0.04
77 35 0.47
78 36 0.49
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (78 bp):
TGGGGCAGATTGCAACCATTCGATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCT
CTTACCTCGAGCA
Found at i:26530530 original size:17 final size:16
Alignment explanation
Indices: 26530510--26530558 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
26530500 TAAACCCAAT
*
26530510 TTTTAATTTTTAATTTA
1 TTTTAA-TTTTAAATTA
*
26530527 TTTTAAGTTTAAATTA
1 TTTTAATTTTAAATTA
*
26530543 TTTCAAATTTTAAATT
1 TTT-TAATTTTAAATT
26530559 TGAAATTTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTTAATTTTAAATTA
Found at i:26531043 original size:34 final size:34
Alignment explanation
Indices: 26530999--26531078 Score: 151
Period size: 34 Copynumber: 2.4 Consensus size: 34
26530989 TAGAAAAAAG
26530999 CATTCAAAATCAGTTGTGAGGGTTACTTTTTTAT
1 CATTCAAAATCAGTTGTGAGGGTTACTTTTTTAT
*
26531033 TATTCAAAATCAGTTGTGAGGGTTACTTTTTTAT
1 CATTCAAAATCAGTTGTGAGGGTTACTTTTTTAT
26531067 CATTCAAAATCA
1 CATTCAAAATCA
26531079 ATACATAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (34 bp):
CATTCAAAATCAGTTGTGAGGGTTACTTTTTTAT
Found at i:26532545 original size:30 final size:30
Alignment explanation
Indices: 26532503--26532715 Score: 142
Period size: 30 Copynumber: 7.2 Consensus size: 30
26532493 TGAACTGTTT
* *
26532503 AAAAA-TCATATTTTAACCCCTAAACTTTTC
1 AAAAATTC-TATTTTGACCCCTAAACTTCTC
* * *
26532533 CAAAATTCTATTTTGACCCTTAAACTTTTC
1 AAAAATTCTATTTTGACCCCTAAACTTCTC
* * * *
26532563 CAAAA-TCACATTTTGACCCTTAAAATTCTC
1 AAAAATTC-TATTTTGACCCCTAAACTTCTC
* *
26532593 AAAAATTATATTTTTA-CCCTAAACTTCTC
1 AAAAATTCTATTTTGACCCCTAAACTTCTC
* *
26532622 AAAAATTAC-ATTTTTACCCCTGAACTTC-C
1 AAAAATT-CTATTTTGACCCCTAAACTTCTC
* * *
26532651 AAAAAATAC-A-TTTGACCCCCAAACTTATC
1 -AAAAATTCTATTTTGACCCCTAAACTTCTC
26532680 AAAAATTAC-ATTTTTG--CCCTCAAACTTC-C
1 AAAAATT-CTA-TTTTGACCCCT-AAACTTCTC
26532709 AAAAATT
1 AAAAATT
26532716 ACATTTTTAC
Statistics
Matches: 150, Mismatches: 22, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
28 19 0.13
29 44 0.29
30 80 0.53
31 7 0.05
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAAATTCTATTTTGACCCCTAAACTTCTC
Found at i:26532615 original size:29 final size:29
Alignment explanation
Indices: 26532520--26532848 Score: 246
Period size: 29 Copynumber: 11.3 Consensus size: 29
26532510 ATATTTTAAC
* * *
26532520 CCCTAAACTTTTCCAAAATT-CTATTTTGA
1 CCCTAAACTTCTCAAAAATTAC-ATTTTTA
* * * *
26532549 CCCTTAAACTTTTCCAAAATCACATTTTGA
1 CCC-TAAACTTCTCAAAAATTACATTTTTA
* *
26532579 CCCTTAAAATTCTCAAAAATTATATTTTTA
1 CCC-TAAACTTCTCAAAAATTACATTTTTA
26532609 CCCTAAACTTCTCAAAAATTACATTTTTA
1 CCCTAAACTTCTCAAAAATTACATTTTTA
* * *
26532638 CCCCTGAACTTC-CAAAAAATACA-TTTGA
1 -CCCTAAACTTCTCAAAAATTACATTTTTA
* * *
26532666 CCCCCAAACTTATCAAAAATTACATTTTTG
1 -CCCTAAACTTCTCAAAAATTACATTTTTA
26532696 CCCTCAAACTTC-CAAAAATTACATTTTTA
1 CCCT-AAACTTCTCAAAAATTACATTTTTA
** *
26532725 CCCTCGTACTTC-CAAAAATTACATTTTTG
1 CCCT-AAACTTCTCAAAAATTACATTTTTA
* *
26532754 CCTCCAAACTTC-CAAAAA-T-CATGTTTTGC
1 CC-CTAAACTTCTCAAAAATTACAT-TTTT-A
* * * *
26532783 CCCCAAATTTC-CCAAAATGACATTTTTA
1 CCCTAAACTTCTCAAAAATTACATTTTTA
* *
26532811 CCCTAAAACTT-TCCAAAATTACATTTTAA
1 CCCT-AAACTTCTCAAAAATTACATTTTTA
*
26532840 CCCCAAACT
1 CCCTAAACT
26532849 CTTCGAAACT
Statistics
Matches: 250, Mismatches: 37, Indels: 27
0.80 0.12 0.09
Matches are distributed among these distances:
27 3 0.01
28 39 0.16
29 134 0.54
30 73 0.29
31 1 0.00
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.35
Consensus pattern (29 bp):
CCCTAAACTTCTCAAAAATTACATTTTTA
Found at i:26532999 original size:14 final size:15
Alignment explanation
Indices: 26532960--26532999 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
26532950 TTGATTCATA
26532960 ATTCGTAT-TTTATT
1 ATTCGTATATTTATT
26532974 ATTC-TCATATTTATT
1 ATTCGT-ATATTTATT
26532989 -TTCGTATATTT
1 ATTCGTATATTT
26533000 GTTCATTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.04
14 15 0.65
15 7 0.30
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (15 bp):
ATTCGTATATTTATT
Found at i:26539303 original size:30 final size:31
Alignment explanation
Indices: 26539247--26539312 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
26539237 AATAGCTTAT
*
26539247 ATTTTTATAACTTTTAAAGGATTAAATCA-A
1 ATTTTTATAACTTTTAAAGGACTAAATCATA
* * *
26539277 ATTTTTATTA-TTTTTAAGGAGCTAAATTATA
1 ATTTTTATAACTTTTAAAGGA-CTAAATCATA
26539308 ATTTT
1 ATTTT
26539313 ACCTTTCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.30
30 15 0.50
31 6 0.20
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.50
Consensus pattern (31 bp):
ATTTTTATAACTTTTAAAGGACTAAATCATA
Found at i:26539691 original size:11 final size:11
Alignment explanation
Indices: 26539677--26539746 Score: 52
Period size: 11 Copynumber: 6.0 Consensus size: 11
26539667 TTTAAATGGG
26539677 TTTTAAATTTA
1 TTTTAAATTTA
26539688 TTTTAAATTTAA
1 TTTTAAATTT-A
* *
26539700 GTTT-ATTTTAA
1 TTTTAAATTT-A
*
26539711 ATTTAAATTTA
1 TTTTAAATTTA
26539722 CTTATTTAAATTTA
1 --T-TTTAAATTTA
*
26539736 CTTTAAATTTA
1 TTTTAAATTTA
26539747 GGTTTAAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
11 30 0.62
12 8 0.17
14 10 0.21
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:26539698 original size:6 final size:6
Alignment explanation
Indices: 26539678--26539746 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
26539668 TTAAATGGGT
* * * *
26539678 TTTAAA TTT-AT TTTAAA TTTAAG TTT-AT TTTAAA TTTAAA TTTACTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA
*
26539726 TTTAAA TTT-AC TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTA
26539747 GGTTTAAACA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
5 12 0.24
6 32 0.65
8 5 0.10
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:26539730 original size:14 final size:14
Alignment explanation
Indices: 26539711--26539738 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26539701 TTTATTTTAA
26539711 ATTTAAATTTACTT
1 ATTTAAATTTACTT
26539725 ATTTAAATTTACTT
1 ATTTAAATTTACTT
26539739 TAAATTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTAAATTTACTT
Found at i:26539752 original size:17 final size:17
Alignment explanation
Indices: 26539678--26539746 Score: 90
Period size: 17 Copynumber: 4.2 Consensus size: 17
26539668 TTAAATGGGT
*
26539678 TTTAAATTTATTTTAAA
1 TTTAAATTTACTTTAAA
* *
26539695 TTTAAGTTTATTTTAAA
1 TTTAAATTTACTTTAAA
26539712 TTTAAATTTAC-TT--A
1 TTTAAATTTACTTTAAA
26539726 TTTAAATTTACTTTAAA
1 TTTAAATTTACTTTAAA
26539743 TTTA
1 TTTA
26539747 GGTTTAAACA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
14 12 0.26
15 2 0.04
16 2 0.04
17 30 0.65
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:26540488 original size:3 final size:3
Alignment explanation
Indices: 26540469--26540507 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
26540459 CTATTTATAC
* *
26540469 TTA TTG TTA TCA TTA TTA TTTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
26540508 TCTGACTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:26540497 original size:19 final size:19
Alignment explanation
Indices: 26540469--26540508 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
26540459 CTATTTATAC
*
26540469 TTATTGTTATCATTATTAT
1 TTATTATTATCATTATTAT
*
26540488 TTATTATTATTATTATTAT
1 TTATTATTATCATTATTAT
26540507 TT
1 TT
26540509 CTGACTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
TTATTATTATCATTATTAT
Found at i:26540585 original size:9 final size:9
Alignment explanation
Indices: 26540573--26540621 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
26540563 CAATAATGCT
*
26540573 TTAATAACA
1 TTAATAATA
26540582 TTAATTAATA
1 TTAA-TAATA
26540592 TTAATAATA
1 TTAATAATA
26540601 TTAATAATA
1 TTAATAATA
*
26540610 ATAATAAATA
1 TTAAT-AATA
26540620 TT
1 TT
26540622 TTTAGTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
9 22 0.63
10 13 0.37
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
TTAATAATA
Found at i:26540619 original size:19 final size:19
Alignment explanation
Indices: 26540581--26540639 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
26540571 CTTTAATAAC
*
26540581 ATTAATTAATATTAAT-AAT
1 ATTAA-TAATAATAATAAAT
26540600 ATTAATAATAATAATAAAT
1 ATTAATAATAATAATAAAT
** *
26540619 ATTTTTAGTAATAATAAAT
1 ATTAATAATAATAATAAAT
26540638 AT
1 AT
26540640 ATATATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.26
19 26 0.74
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAATAATAATAATAAAT
Found at i:26540651 original size:19 final size:19
Alignment explanation
Indices: 26540608--26540644 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26540598 ATATTAATAA
* *
26540608 TAATAATAAATATTTTTAG
1 TAATAATAAATATATATAG
26540627 TAATAATAAATATATATA
1 TAATAATAAATATATATA
26540645 TATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
TAATAATAAATATATATAG
Found at i:26540971 original size:11 final size:12
Alignment explanation
Indices: 26540955--26540983 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
26540945 AGTTTTAAAG
26540955 AAAGAAAGA-AA
1 AAAGAAAGAGAA
26540966 AAAGAAAGAGAA
1 AAAGAAAGAGAA
26540978 AAAGAA
1 AAAGAA
26540984 GGGAAGCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAGAA
Found at i:26541749 original size:30 final size:29
Alignment explanation
Indices: 26541708--26541867 Score: 125
Period size: 30 Copynumber: 5.4 Consensus size: 29
26541698 TAAACTTTCC
*
26541708 AAAATTCCATTTTAACTCC-AGTTTTACCA
1 AAAATTCCATTTTAAC-CCGAATTTTACCA
* *
26541737 AAAATTACCATTTTACCCCCGAACTTT-CC-
1 AAAATT-CCATTTTA-ACCCGAATTTTACCA
*
26541766 AAAATTCCATTTTCACCCCG-ATTTTACCA
1 AAAATTCCATTTT-AACCCGAATTTTACCA
* *
26541795 CAAATTACCATTTTAAGCCCGAACTTT-CC-
1 AAAATT-CCATTTTAA-CCCGAATTTTACCA
** *
26541824 AAAATTCCATTTTTAACCCCTATTTCACCA
1 AAAATTCCA-TTTTAACCCGAATTTTACCA
26541854 AAAATTACCATTTT
1 AAAATT-CCATTTT
26541868 GCCCCTGGGT
Statistics
Matches: 106, Mismatches: 12, Indels: 25
0.74 0.08 0.17
Matches are distributed among these distances:
27 4 0.04
28 23 0.22
29 32 0.30
30 35 0.33
31 12 0.11
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATTCCATTTTAACCCGAATTTTACCA
Found at i:26541854 original size:29 final size:29
Alignment explanation
Indices: 26541679--26541867 Score: 151
Period size: 29 Copynumber: 6.5 Consensus size: 29
26541669 GGACTATCTA
*
26541679 AAAATTACCATTTT-GCCCCTAAACTTT-CC
1 AAAATTACCATTTTAACCCC--AACTTTACC
* **
26541708 AAAATT-CCATTTTAACTCCAGTTTTACC
1 AAAATTACCATTTTAACCCCAACTTTACC
*
26541736 AAAAATTACCATTTTACCCCCGAACTTT-CC
1 -AAAATTACCATTTTAACCCC-AACTTTACC
* * *
26541766 AAAATT-CCATTTTCACCCCGATTTTACC
1 AAAATTACCATTTTAACCCCAACTTTACC
*
26541794 ACAAATTACCATTTTAAGCCCGAACTTT-CC
1 A-AAATTACCATTTTAA-CCCCAACTTTACC
*
26541824 AAAATT-CCATTTTTAACCCCTA-TTTCACC
1 AAAATTACCA-TTTTAACCCCAACTTT-ACC
26541853 AAAAATTACCATTTT
1 -AAAATTACCATTTT
26541868 GCCCCTGGGT
Statistics
Matches: 128, Mismatches: 18, Indels: 27
0.74 0.10 0.16
Matches are distributed among these distances:
27 11 0.09
28 30 0.23
29 39 0.30
30 34 0.27
31 14 0.11
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTAACCCCAACTTTACC
Found at i:26541883 original size:58 final size:58
Alignment explanation
Indices: 26541678--26541909 Score: 256
Period size: 58 Copynumber: 4.0 Consensus size: 58
26541668 TGGACTATCT
* * *
26541678 AAAAATTACCATTTTGCCCCTAAACTTTCCAAAATTCCATTTTAACTCC-AGTTTTACC
1 AAAAATTACCATTTTGCCCCTGAACTTTCCAAAATTCCATTTTAACCCCGA-TTTCACC
* * * *
26541736 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTCACCCCGATTTTACC
1 AAAAATTACCATTTTGCCCCTGAACTTTCCAAAATTCCATTTTAACCCCGATTTCACC
* *
26541794 ACAAATTACCATTTTAAG-CCC-GAACTTTCCAAAATTCCATTTTTAACCCCTATTTCACC
1 AAAAATTACCATTTT--GCCCCTGAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCACC
** * * *
26541853 AAAAATTACCATTTTGCCCCTG-GGTATCCAAAAGTCCCGTTTTCAACCCCGATTTCA
1 AAAAATTACCATTTTGCCCCTGAACTTTCCAAAA-TTCCATTTT-AACCCCGATTTCA
26541910 TCGTTTCTTC
Statistics
Matches: 149, Mismatches: 17, Indels: 15
0.82 0.09 0.08
Matches are distributed among these distances:
57 1 0.01
58 98 0.66
59 50 0.34
ACGTcount: A:0.31, C:0.30, G:0.06, T:0.33
Consensus pattern (58 bp):
AAAAATTACCATTTTGCCCCTGAACTTTCCAAAATTCCATTTTAACCCCGATTTCACC
Found at i:26547723 original size:19 final size:19
Alignment explanation
Indices: 26547678--26547729 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
26547668 TGAGTAATGA
**
26547678 AATAAAATAATAATACTAC
1 AATAAAATAATAATAAAAC
* *
26547697 AATCAAATAATAATAAAAT
1 AATAAAATAATAATAAAAC
26547716 AATAAAATAATAAT
1 AATAAAATAATAAT
26547730 GGGAATAGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAAAATAATAATAAAAC
Found at i:26547895 original size:29 final size:28
Alignment explanation
Indices: 26547859--26547913 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
26547849 ATTGAAAATA
26547859 ATAATTAAAGGATGAAAATAAAAATGAT
1 ATAATTAAAGGATGAAAATAAAAATGAT
* * *
26547887 ATAATTTAAAGGGTGAGAATATAAATG
1 ATAA-TTAAAGGATGAAAATAAAAATG
26547914 GCATGAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (28 bp):
ATAATTAAAGGATGAAAATAAAAATGAT
Found at i:26548035 original size:4 final size:4
Alignment explanation
Indices: 26548026--26548066 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
26548016 AAAAATGTTA
*
26548026 AAAT AAAT AAAT AAAT AGAAAT AAAC AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT --AAAT AAAT AAAT AAAT AAAT AAA
26548067 ATGAGGAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 29 0.88
6 4 0.12
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:26548047 original size:18 final size:18
Alignment explanation
Indices: 26548026--26548060 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26548016 AAAAATGTTA
*
26548026 AAATAAATAAATAAATAG
1 AAATAAACAAATAAATAG
26548044 AAATAAACAAATAAATA
1 AAATAAACAAATAAATA
26548061 AATAAAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (18 bp):
AAATAAACAAATAAATAG
Found at i:26548148 original size:25 final size:25
Alignment explanation
Indices: 26548120--26548173 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
26548110 AAACAAAACT
*
26548120 TAAAGTAT-AAATTAAAAAAAGAATA
1 TAAAGGATCAAATTAAAAAAA-AATA
* *
26548145 TAAAGGATCAAATTTAAATAAAATA
1 TAAAGGATCAAATTAAAAAAAAATA
26548170 TAAA
1 TAAA
26548174 ATGTAGGGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (25 bp):
TAAAGGATCAAATTAAAAAAAAATA
Found at i:26548303 original size:18 final size:18
Alignment explanation
Indices: 26548259--26548294 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
26548249 GACTAAACTG
26548259 CAAAGAAAATAAAATAAAA
1 CAAA-AAAATAAAATAAAA
*
26548278 CTAAAAAATAAAATAAA
1 CAAAAAAATAAAATAAA
26548295 TGAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.14
Consensus pattern (18 bp):
CAAAAAAATAAAATAAAA
Found at i:26551927 original size:3 final size:3
Alignment explanation
Indices: 26551921--26551954 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
26551911 ATTGTGCTCT
26551921 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
26551955 ATAGGTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:26553450 original size:92 final size:92
Alignment explanation
Indices: 26553340--26553525 Score: 372
Period size: 92 Copynumber: 2.0 Consensus size: 92
26553330 TTCATGAATC
26553340 ATAAATCTCAGTTTAAATTGTTCACTAGAAAATATTGAAATTGTTTTAAGAAGCTTATCTGGGTT
1 ATAAATCTCAGTTTAAATTGTTCACTAGAAAATATTGAAATTGTTTTAAGAAGCTTATCTGGGTT
26553405 ATTATTTCCTTTTAATGATGGAGGTTT
66 ATTATTTCCTTTTAATGATGGAGGTTT
26553432 ATAAATCTCAGTTTAAATTGTTCACTAGAAAATATTGAAATTGTTTTAAGAAGCTTATCTGGGTT
1 ATAAATCTCAGTTTAAATTGTTCACTAGAAAATATTGAAATTGTTTTAAGAAGCTTATCTGGGTT
26553497 ATTATTTCCTTTTAATGATGGAGGTTT
66 ATTATTTCCTTTTAATGATGGAGGTTT
26553524 AT
1 AT
26553526 CAACTACTTG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.44
Consensus pattern (92 bp):
ATAAATCTCAGTTTAAATTGTTCACTAGAAAATATTGAAATTGTTTTAAGAAGCTTATCTGGGTT
ATTATTTCCTTTTAATGATGGAGGTTT
Found at i:26554325 original size:20 final size:20
Alignment explanation
Indices: 26554300--26554341 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
26554290 AGGTCCTGCG
*
26554300 TTATATTACTTTGCTTTGCT
1 TTATATTACTTTGCTTCGCT
* *
26554320 TTATATTATTTTTCTTCGCT
1 TTATATTACTTTGCTTCGCT
26554340 TT
1 TT
26554342 GCTTTGCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (20 bp):
TTATATTACTTTGCTTCGCT
Found at i:26555683 original size:20 final size:20
Alignment explanation
Indices: 26555658--26555719 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
26555648 AATGTAATTA
*
26555658 ATATTACTTTACTTTGTTTT
1 ATATTACTTTGCTTTGTTTT
*
26555678 ATATTACTCTGCTTTGCTTTGT
1 ATATTACTTTGCTTTG-TTT-T
* *
26555700 ATATAACTTTGTTTTGTTTT
1 ATATTACTTTGCTTTGTTTT
26555720 GTTTTATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 15 0.43
21 6 0.17
22 14 0.40
ACGTcount: A:0.18, C:0.11, G:0.10, T:0.61
Consensus pattern (20 bp):
ATATTACTTTGCTTTGTTTT
Found at i:26556030 original size:29 final size:27
Alignment explanation
Indices: 26555981--26556038 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 27
26555971 TGATAAGTGG
*
26555981 ATTTAATTTATTTAATTATTATTTTTA
1 ATTTAATATATTTAATTATTATTTTTA
26556008 ATTTAAGTATATTTATATTATTATTTTTA
1 ATTTAA-TATATTTA-ATTATTATTTTTA
26556037 AT
1 AT
26556039 AATCATTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 6 0.21
28 7 0.25
29 15 0.54
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (27 bp):
ATTTAATATATTTAATTATTATTTTTA
Found at i:26559094 original size:25 final size:25
Alignment explanation
Indices: 26559065--26559133 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
26559055 TTGCTCTTTG
26559065 CTTTGCTTTGTTTTGCTTTATACTA
1 CTTTGCTTTGTTTTGCTTTATACTA
* * *
26559090 CTTTGATTTGCTTTT-TTTTATATTA
1 CTTTGCTTTG-TTTTGCTTTATACTA
* *
26559115 CTTTGCTTTATATTGCTTT
1 CTTTGCTTTGTTTTGCTTT
26559134 GCTTCATTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
24 3 0.09
25 28 0.80
26 4 0.11
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.64
Consensus pattern (25 bp):
CTTTGCTTTGTTTTGCTTTATACTA
Found at i:26559124 original size:15 final size:15
Alignment explanation
Indices: 26559106--26559137 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26559096 TTTGCTTTTT
26559106 TTTATATTACTTTGC
1 TTTATATTACTTTGC
*
26559121 TTTATATTGCTTTGC
1 TTTATATTACTTTGC
26559136 TT
1 TT
26559138 CATTGTTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.62
Consensus pattern (15 bp):
TTTATATTACTTTGC
Found at i:26561783 original size:15 final size:14
Alignment explanation
Indices: 26561763--26561796 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
26561753 ATCAATGTAA
*
26561763 ATTTTAGTGGTATT
1 ATTTTAGTGATATT
26561777 CATTTTAGTGATATT
1 -ATTTTAGTGATATT
26561792 ATTTT
1 ATTTT
26561797 CATGGTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.59
Consensus pattern (14 bp):
ATTTTAGTGATATT
Found at i:26564740 original size:15 final size:15
Alignment explanation
Indices: 26564720--26564815 Score: 63
Period size: 15 Copynumber: 6.3 Consensus size: 15
26564710 CATATAATAT
26564720 AAAGTAAAGCAAAGC
1 AAAGTAAAGCAAAGC
26564735 AAAGTAAAGCAAA-C
1 AAAGTAAAGCAAAGC
* * **
26564749 TATAGCAATATAAAAGGC
1 -AAAGTAA-AGCAAA-GC
* *
26564767 AAAGAAAATCAAAGC
1 AAAGTAAAGCAAAGC
*
26564782 AATA-TAAAACAAAGC
1 AA-AGTAAAGCAAAGC
26564797 AAA-TAAAAGCAAAGC
1 AAAGT-AAAGCAAAGC
26564812 AAAG
1 AAAG
26564816 CACAACACAT
Statistics
Matches: 64, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
14 3 0.05
15 45 0.70
16 10 0.16
17 5 0.08
18 1 0.02
ACGTcount: A:0.62, C:0.12, G:0.15, T:0.10
Consensus pattern (15 bp):
AAAGTAAAGCAAAGC
Found at i:26564800 original size:25 final size:26
Alignment explanation
Indices: 26564752--26564808 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
26564742 AGCAAACTAT
*
26564752 AGCAATATAAAAGGCAAAGAAAATCAA
1 AGCAATATAAAA-GCAAAGAAAATAAA
*
26564779 AGCAATATAAAA-CAAAGCAAATAAA
1 AGCAATATAAAAGCAAAGAAAATAAA
26564804 AGCAA
1 AGCAA
26564809 AGCAAAGCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 16 0.57
27 12 0.43
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.11
Consensus pattern (26 bp):
AGCAATATAAAAGCAAAGAAAATAAA
Found at i:26564870 original size:54 final size:53
Alignment explanation
Indices: 26564791--26564926 Score: 152
Period size: 54 Copynumber: 2.5 Consensus size: 53
26564781 CAATATAAAA
* *
26564791 CAAAGCAA-ATAAAAGCAAAGCAAAGCACAAC-ACATCAAAATGAAAAG-AAGAG
1 CAAAACAATATAAAAGCAAAGCAAAGCAAAACAACATCAAAAT-AAAAGCAA-AG
* * * *
26564843 CACAACAATATAAAATGAAAAGCAAAGCAAAACAATATCAATATAAAAGCAAAG
1 CAAAACAATATAAAA-GCAAAGCAAAGCAAAACAACATCAAAATAAAAGCAAAG
*
26564897 CAAAACAATATAAAAAGCAAGGCAAAGCAA
1 CAAAACAATAT-AAAAGCAAAGCAAAGCAA
26564927 TATAAAAGCA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
52 6 0.09
53 6 0.09
54 44 0.63
55 14 0.20
ACGTcount: A:0.62, C:0.16, G:0.12, T:0.09
Consensus pattern (53 bp):
CAAAACAATATAAAAGCAAAGCAAAGCAAAACAACATCAAAATAAAAGCAAAG
Found at i:26564894 original size:22 final size:21
Alignment explanation
Indices: 26564866--26565028 Score: 147
Period size: 22 Copynumber: 7.8 Consensus size: 21
26564856 AATGAAAAGC
*
26564866 AAAGCAAAACAATATCAATATA
1 AAAGCAAAACAA-AGCAATATA
* *
26564888 AAAGCAAAGCAAAACAATATAA
1 AAAGCAAAACAAAGCAATAT-A
**
26564910 AAAGCAAGGCAAAGCAATATA
1 AAAGCAAAACAAAGCAATATA
* *
26564931 AAAGCAAAGA-AAAACAA-AGA
1 AAAGCAAA-ACAAAGCAATATA
*
26564951 AAAGCACAACAAAGCAATATAA
1 AAAGCAAAACAAAGCAATAT-A
*
26564973 AAAGCAAAGCAAAGCAATATA
1 AAAGCAAAACAAAGCAATATA
**
26564994 AAAGCAATGCAAAGCAA-A-A
1 AAAGCAAAACAAAGCAATATA
*
26565013 AAA-AAAAACAAAGCAA
1 AAAGCAAAACAAAGCAA
26565029 ACATAACAAA
Statistics
Matches: 119, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
18 10 0.08
19 5 0.04
20 16 0.13
21 39 0.33
22 49 0.41
ACGTcount: A:0.66, C:0.14, G:0.12, T:0.08
Consensus pattern (21 bp):
AAAGCAAAACAAAGCAATATA
Found at i:26564898 original size:5 final size:5
Alignment explanation
Indices: 26564888--26565097 Score: 65
Period size: 5 Copynumber: 41.4 Consensus size: 5
26564878 TATCAATATA
* ** * **
26564888 AAAGC AAAGC AAAAC AATATA AAAAGC AAGGC AAAGC AATATA AAAGC
1 AAAGC AAAGC AAAGC AA-AGC A-AAGC AAAGC AAAGC AA-AGC AAAGC
* * * **
26564936 AAAGA AAAAC AAAGA AAAGC ACAA-C AAAGC AATATAA AAAGC AAAGC
1 AAAGC AAAGC AAAGC AAAGC A-AAGC AAAGC AA-A-GC AAAGC AAAGC
** * ** *
26564983 AAAGC AATATA AAAGC AATGC AAAGC AAA-- AAAAA AAAAC AAAGC AAA-C
1 AAAGC AA-AGC AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC
* * * * * *
26565031 ATAA-C AAAGC AACGC AAAGC ACATC ACAA-C ATAGC AAAGC ACAGC ACAGC
1 A-AAGC AAAGC AAAGC AAAGC AAAGC A-AAGC AAAGC AAAGC AAAGC AAAGC
*
26565081 ACAA-C ACAGC AAAGC AA
1 A-AAGC AAAGC AAAGC AA
26565098 TTTAAAAAGC
Statistics
Matches: 149, Mismatches: 40, Indels: 32
0.67 0.18 0.14
Matches are distributed among these distances:
3 3 0.02
4 8 0.05
5 119 0.80
6 16 0.11
7 3 0.02
ACGTcount: A:0.62, C:0.20, G:0.13, T:0.06
Consensus pattern (5 bp):
AAAGC
Found at i:26564906 original size:27 final size:28
Alignment explanation
Indices: 26564807--26564926 Score: 133
Period size: 27 Copynumber: 4.4 Consensus size: 28
26564797 AAATAAAAGC
* *
26564807 AAAGCAAAGCACAAC-ACATCAAAATGA
1 AAAGCAAAGCAAAACAATATCAAAATGA
*
26564834 AAAG-AAGAGCACAACAATAT-AAAATGA
1 AAAGCAA-AGCAAAACAATATCAAAATGA
*
26564861 AAAGCAAAGCAAAACAATATCAATAT-A
1 AAAGCAAAGCAAAACAATATCAAAATGA
* *
26564888 AAAGCAAAGCAAAACAATAT-AAAAAGC
1 AAAGCAAAGCAAAACAATATCAAAATGA
*
26564915 AAGGCAAAGCAA
1 AAAGCAAAGCAA
26564927 TATAAAAGCA
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.06
27 67 0.83
28 9 0.11
ACGTcount: A:0.62, C:0.16, G:0.12, T:0.09
Consensus pattern (28 bp):
AAAGCAAAGCAAAACAATATCAAAATGA
Found at i:26564930 original size:43 final size:41
Alignment explanation
Indices: 26564881--26565010 Score: 172
Period size: 43 Copynumber: 3.1 Consensus size: 41
26564871 AAAACAATAT
26564881 CAATATAAAAGCAAAGCAAAACAATATAAAAAGCAAGGCAAAG
1 CAATATAAAAGCAAAGCAAAACAATAT-AAAAGCAA-GCAAAG
* * *
26564924 CAATATAAAAGCAAAGAAAAACAA-AGAAAAGCACAACAAAG
1 CAATATAAAAGCAAAGCAAAACAATATAAAAGCA-AGCAAAG
*
26564965 CAATATAAAAAGCAAAGCAAAGCAATATAAAAGCAATGCAAAG
1 CAATAT-AAAAGCAAAGCAAAACAATATAAAAGCAA-GCAAAG
26565008 CAA
1 CAA
26565011 AAAAAAAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
41 18 0.24
42 19 0.25
43 39 0.51
ACGTcount: A:0.64, C:0.15, G:0.13, T:0.08
Consensus pattern (41 bp):
CAATATAAAAGCAAAGCAAAACAATATAAAAGCAAGCAAAG
Found at i:26564969 original size:63 final size:61
Alignment explanation
Indices: 26564887--26565051 Score: 204
Period size: 63 Copynumber: 2.6 Consensus size: 61
26564877 ATATCAATAT
* *
26564887 AAAAGCAAAGCAAAACAATATAAAAAGCAAGGCAAAGCAATATAAAAGCAAAGAAAAACAAA
1 AAAAGCAAA-CAAAGCAATATAAAAAGCAAAGCAAAGCAATATAAAAGCAAAGAAAAACAAA
* * *
26564949 GAAAAGCACAACAAAGCAATATAAAAAGCAAAGCAAAGCAATATAAAAGCAATGCAAAGCAAA
1 -AAAAGCA-AACAAAGCAATATAAAAAGCAAAGCAAAGCAATATAAAAGCAAAGAAAAACAAA
** * *
26565012 AAAAAAAAACAAAGCAAACATAACAAAGCAACGCAAAGCA
1 AAAAGCAAACAAAGC-AATATAA-AAAGCAAAGCAAAGCA
26565052 CATCACAACA
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
61 8 0.09
62 11 0.12
63 69 0.77
64 2 0.02
ACGTcount: A:0.65, C:0.16, G:0.13, T:0.06
Consensus pattern (61 bp):
AAAAGCAAACAAAGCAATATAAAAAGCAAAGCAAAGCAATATAAAAGCAAAGAAAAACAAA
Found at i:26565066 original size:25 final size:25
Alignment explanation
Indices: 26565033--26565097 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
26565023 AAGCAAACAT
* *
26565033 AACAAAGCAACGCAAAGCACATCAC
1 AACAAAGCAAAGCAAAGCACAGCAC
* *
26565058 AACATAGCAAAGCACAGCACAGCAC
1 AACAAAGCAAAGCAAAGCACAGCAC
*
26565083 AACACAGCAAAGCAA
1 AACAAAGCAAAGCAA
26565098 TTTAAAAAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.52, C:0.31, G:0.14, T:0.03
Consensus pattern (25 bp):
AACAAAGCAAAGCAAAGCACAGCAC
Found at i:26565069 original size:30 final size:30
Alignment explanation
Indices: 26565028--26565097 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
26565018 AAACAAAGCA
* *
26565028 AACATAACAAAGCA-ACGCAAAGCACATCAC
1 AACATAGCAAAGCACA-GCAAAGCACAACAC
*
26565058 AACATAGCAAAGCACAGCACAGCACAACAC
1 AACATAGCAAAGCACAGCAAAGCACAACAC
* *
26565088 AGCAAAGCAA
1 AACATAGCAA
26565098 TTTAAAAAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 33 0.97
31 1 0.03
ACGTcount: A:0.53, C:0.30, G:0.13, T:0.04
Consensus pattern (30 bp):
AACATAGCAAAGCACAGCAAAGCACAACAC
Found at i:26565114 original size:5 final size:5
Alignment explanation
Indices: 26564910--26565097 Score: 66
Period size: 5 Copynumber: 37.4 Consensus size: 5
26564900 AACAATATAA
* ** * * *
26564910 AAAGC AAGGC AAAGC AATATA AAAGC AAAGA AAAAC AAAGA AAAGC ACAA-C
1 AAAGC AAAGC AAAGC AA-AGC AAAGC AAAGC AAAGC AAAGC AAAGC A-AAGC
** ** *
26564961 AAAGC AATATAA AAAGC AAAGC AAAGC AATATA AAAGC AATGC AAAGC
1 AAAGC AA-A-GC AAAGC AAAGC AAAGC AA-AGC AAAGC AAAGC AAAGC
** * * * *
26565009 AAA-- AAAAA AAAAC AAAGC AAA-C ATAA-C AAAGC AACGC AAAGC ACATC
1 AAAGC AAAGC AAAGC AAAGC AAAGC A-AAGC AAAGC AAAGC AAAGC AAAGC
* * * *
26565056 ACAA-C ATAGC AAAGC ACAGC ACAGC ACAA-C ACAGC AAAGC AA
1 A-AAGC AAAGC AAAGC AAAGC AAAGC A-AAGC AAAGC AAAGC AA
26565098 TTTAAAAAGC
Statistics
Matches: 134, Mismatches: 35, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
3 3 0.02
4 8 0.06
5 109 0.81
6 12 0.09
7 2 0.01
ACGTcount: A:0.61, C:0.20, G:0.13, T:0.05
Consensus pattern (5 bp):
AAAGC
Found at i:26566438 original size:3 final size:3
Alignment explanation
Indices: 26566430--26566463 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
26566420 TAAAACTGAT
26566430 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
26566464 ATTGGTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:26571860 original size:23 final size:25
Alignment explanation
Indices: 26571834--26571879 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
26571824 CCAATTAGGG
26571834 AATTAT-TGTTTAG-ATTTAATTCA
1 AATTATCTGTTTAGAATTTAATTCA
*
26571857 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
26571880 TGGATCCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCA
Found at i:26574264 original size:3 final size:3
Alignment explanation
Indices: 26574258--26574294 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
26574248 ATTGTGCTCT
*
26574258 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
26574295 ATAGGTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:26576854 original size:27 final size:27
Alignment explanation
Indices: 26576824--26576879 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
26576814 TGATAGGTGG
*
26576824 ATTTAATT-TATTTAATTACTATTTTTA
1 ATTTAATTATATAT-ATTACTATTTTTA
*
26576851 ATTTAATTATATATATTATTATTTTTA
1 ATTTAATTATATATATTACTATTTTTA
26576878 AT
1 AT
26576880 AATTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTAATTATATATATTACTATTTTTA
Found at i:26578000 original size:30 final size:30
Alignment explanation
Indices: 26577961--26578130 Score: 130
Period size: 30 Copynumber: 6.0 Consensus size: 30
26577951 AATGTAATTA
26577961 ATATTGCTTTGCTTTGCTTTATATTA---T
1 ATATTGCTTTGCTTTGCTTTATATTATTTT
* *
26577988 -T-TTGTTTTGCTTTGC----T-TTACTTT
1 ATATTGCTTTGCTTTGCTTTATATTATTTT
* *
26578011 ATATTCCTTTGCTTTGCTTTATATTGTTTT
1 ATATTGCTTTGCTTTGCTTTATATTATTTT
*
26578041 ATATTACTTTGCTTTGCTTTATATTATTTT
1 ATATTGCTTTGCTTTGCTTTATATTATTTT
* * * * *
26578071 GTTTTGCTTT-ATATTCCTTTGCT-TTATTTT
1 ATATTGCTTTGCT-TTGCTTT-ATATTATTTT
* *
26578101 ATATTCCTTTGCTTTGCTTTATATTGTTTT
1 ATATTGCTTTGCTTTGCTTTATATTATTTT
26578131 TTGTGATCAG
Statistics
Matches: 109, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
20 3 0.03
21 1 0.01
23 1 0.01
24 1 0.01
25 25 0.23
26 1 0.01
29 3 0.03
30 72 0.66
31 2 0.02
ACGTcount: A:0.14, C:0.12, G:0.10, T:0.64
Consensus pattern (30 bp):
ATATTGCTTTGCTTTGCTTTATATTATTTT
Found at i:26578021 original size:50 final size:50
Alignment explanation
Indices: 26577961--26578085 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 50
26577951 AATGTAATTA
* * * *
26577961 ATATTGCTTTGCTTTGCTTTATATTATTTTGTTTTGCTTTGCTTTACTTT
1 ATATTACTTTGCTTTGCTTTATATTATTTTATATTACTTTGCTTTACTTT
* * *
26578011 ATATTCCTTTGCTTTGCTTTATATTGTTTTATATTACTTTGCTTTGCTTT
1 ATATTACTTTGCTTTGCTTTATATTATTTTATATTACTTTGCTTTACTTT
* *
26578061 ATATTATTTTGTTTTGCTTTATATT
1 ATATTACTTTGCTTTGCTTTATATT
26578086 CCTTTGCTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.14, C:0.11, G:0.10, T:0.64
Consensus pattern (50 bp):
ATATTACTTTGCTTTGCTTTATATTATTTTATATTACTTTGCTTTACTTT
Found at i:26578022 original size:20 final size:20
Alignment explanation
Indices: 26577997--26578125 Score: 125
Period size: 20 Copynumber: 7.0 Consensus size: 20
26577987 TTTTGTTTTG
*
26577997 CTTTGCTTTACTTTATATTC
1 CTTTGCTTTGCTTTATATTC
26578017 CTTTGCTTTGCTTTATA---
1 CTTTGCTTTGCTTTATATTC
*
26578034 --TTG---T--TTTATATTA
1 CTTTGCTTTGCTTTATATTC
*
26578047 CTTTGCTTTGCTTTATATTA
1 CTTTGCTTTGCTTTATATTC
* *
26578067 TTTTGTTTTGCTTTATATTC
1 CTTTGCTTTGCTTTATATTC
**
26578087 CTTTGCTTTATTTTATATTC
1 CTTTGCTTTGCTTTATATTC
26578107 CTTTGCTTTGCTTTATATT
1 CTTTGCTTTGCTTTATATT
26578126 GTTTTTTGTG
Statistics
Matches: 89, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
10 6 0.07
12 1 0.01
15 6 0.07
18 1 0.01
20 75 0.84
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.64
Consensus pattern (20 bp):
CTTTGCTTTGCTTTATATTC
Found at i:26578112 original size:35 final size:34
Alignment explanation
Indices: 26578002--26578115 Score: 95
Period size: 35 Copynumber: 3.3 Consensus size: 34
26577992 TTTTGCTTTG
* **
26578002 CTTTACTTTATATTCCTTTGCTTTGCTTTATATT
1 CTTTGCTTTATATTCCTTTGCTTTATTTTATATT
* ** * * *
26578036 GTTTTATATTACT-TTGCTTTGCTTTATATTATTTT
1 CTTTGCT-TTA-TATTCCTTTGCTTTATTTTATATT
*
26578071 GTTTTGCTTTATATTCCTTTGCTTTATTTTATATT
1 -CTTTGCTTTATATTCCTTTGCTTTATTTTATATT
26578106 CCTTTGCTTT
1 -CTTTGCTTT
26578116 GCTTTATATT
Statistics
Matches: 60, Mismatches: 16, Indels: 7
0.72 0.19 0.08
Matches are distributed among these distances:
34 5 0.08
35 50 0.83
36 5 0.08
ACGTcount: A:0.14, C:0.14, G:0.08, T:0.64
Consensus pattern (34 bp):
CTTTGCTTTATATTCCTTTGCTTTATTTTATATT
Found at i:26581466 original size:5 final size:5
Alignment explanation
Indices: 26581456--26581503 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
26581446 CAGAGCAATG
* * *
26581456 AGCAA AGCAA AGCCA AGCAA AGCAAA GAGCAA AACAA AGTAA AGCAA A
1 AGCAA AGCAA AGCAA AGCAA AGC-AA -AGCAA AGCAA AGCAA AGCAA A
26581504 TTTGAACTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 28 0.80
6 4 0.11
7 3 0.09
ACGTcount: A:0.60, C:0.19, G:0.19, T:0.02
Consensus pattern (5 bp):
AGCAA
Found at i:26581486 original size:22 final size:22
Alignment explanation
Indices: 26581461--26581503 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26581451 CAATGAGCAA
* *
26581461 AGCAAAGCCAAGCAAAGCAAAG
1 AGCAAAACAAAGCAAAGCAAAG
*
26581483 AGCAAAACAAAGTAAAGCAAA
1 AGCAAAACAAAGCAAAGCAAA
26581504 TTTGAACTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.19, G:0.19, T:0.02
Consensus pattern (22 bp):
AGCAAAACAAAGCAAAGCAAAG
Found at i:26581487 original size:27 final size:27
Alignment explanation
Indices: 26581449--26581503 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
26581439 GTTAGTACAG
* * *
26581449 AGCAATGAGCAAAGCAAAGCCAAGCAA
1 AGCAAAGAGCAAAACAAAGCAAAGCAA
*
26581476 AGCAAAGAGCAAAACAAAGTAAAGCAA
1 AGCAAAGAGCAAAACAAAGCAAAGCAA
26581503 A
1 A
26581504 TTTGAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.58, C:0.18, G:0.20, T:0.04
Consensus pattern (27 bp):
AGCAAAGAGCAAAACAAAGCAAAGCAA
Found at i:26584038 original size:73 final size:74
Alignment explanation
Indices: 26583940--26584088 Score: 282
Period size: 73 Copynumber: 2.0 Consensus size: 74
26583930 TAAAATAAAA
*
26583940 AATTAATAAAAAAACCCCATAACCTAATCTAGCGGACAAGGTTTAAATTCCAAGAAAATGAAAAT
1 AATTAATAAAAAAACCCCATAACCTAATCTAGCGGACAAGGTTTAAATTCCAAGAAAAGGAAAAT
26584005 CATAGACAC
66 CATAGACAC
26584014 AATTAATAAAAAAA-CCCATAACCTAATCTAGCGGACAAGGTTTAAATTCCAAGAAAAGGAAAAT
1 AATTAATAAAAAAACCCCATAACCTAATCTAGCGGACAAGGTTTAAATTCCAAGAAAAGGAAAAT
26584078 CATAGACAC
66 CATAGACAC
26584087 AA
1 AA
26584089 AGTGAAATTT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
73 60 0.81
74 14 0.19
ACGTcount: A:0.51, C:0.18, G:0.11, T:0.19
Consensus pattern (74 bp):
AATTAATAAAAAAACCCCATAACCTAATCTAGCGGACAAGGTTTAAATTCCAAGAAAAGGAAAAT
CATAGACAC
Found at i:26586066 original size:25 final size:25
Alignment explanation
Indices: 26586038--26586126 Score: 108
Period size: 25 Copynumber: 3.5 Consensus size: 25
26586028 TAATGTAAAG
*
26586038 TAAAGCAAAGCAAACT-ATAGCAATA
1 TAAAGCAAAGCAAA-TAAAAGCAATA
* * *
26586063 TAAAAAGCAAAGAAAATCAAAGGAATA
1 T--AAAGCAAAGCAAATAAAAGCAATA
26586090 TAAAGCAAAGCAAATAAAAGCAATA
1 TAAAGCAAAGCAAATAAAAGCAATA
26586115 TAAAGCAAAGCA
1 TAAAGCAAAGCA
26586127 CAACACGTCG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
25 34 0.62
26 1 0.02
27 20 0.36
ACGTcount: A:0.62, C:0.12, G:0.13, T:0.12
Consensus pattern (25 bp):
TAAAGCAAAGCAAATAAAAGCAATA
Found at i:26586098 original size:15 final size:15
Alignment explanation
Indices: 26586066--26586112 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
26586056 AGCAATATAA
* *
26586066 AAAGCAAAGAAAATC
1 AAAGCAAATAAAAGC
*
26586081 AAAG-GAATATAAAGC
1 AAAGCAAATA-AAAGC
26586096 AAAGCAAATAAAAGC
1 AAAGCAAATAAAAGC
26586111 AA
1 AA
26586113 TATAAAGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 3 0.12
15 19 0.73
16 4 0.15
ACGTcount: A:0.66, C:0.11, G:0.15, T:0.09
Consensus pattern (15 bp):
AAAGCAAATAAAAGC
Found at i:26586124 original size:15 final size:15
Alignment explanation
Indices: 26586080--26586126 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
26586070 CAAAGAAAAT
*
26586080 CAAAGGAATATAAAG
1 CAAAGCAATATAAAG
26586095 CAAAGCAA-AT--A-
1 CAAAGCAATATAAAG
26586106 -AAAGCAATATAAAG
1 CAAAGCAATATAAAG
26586120 CAAAGCA
1 CAAAGCA
26586127 CAACACGTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 10
0.70 0.03 0.27
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 1 0.04
13 1 0.04
14 2 0.08
15 13 0.50
ACGTcount: A:0.62, C:0.13, G:0.15, T:0.11
Consensus pattern (15 bp):
CAAAGCAATATAAAG
Found at i:26586151 original size:22 final size:22
Alignment explanation
Indices: 26586121--26586168 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
26586111 AATATAAAGC
* * *
26586121 AAAGCACAACACGTCGATATAA
1 AAAGAACAACACGACAATATAA
26586143 AAAGAACAACACGACAATATAA
1 AAAGAACAACACGACAATATAA
26586165 AAAG
1 AAAG
26586169 CAAAGCAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.58, C:0.19, G:0.12, T:0.10
Consensus pattern (22 bp):
AAAGAACAACACGACAATATAA
Found at i:26586175 original size:5 final size:5
Alignment explanation
Indices: 26586165--26586415 Score: 134
Period size: 5 Copynumber: 48.4 Consensus size: 5
26586155 GACAATATAA
* ** **
26586165 AAAGC AAAGC AAAGC AAAAC AAAGC AAAAT AATATAA AAAGC AAAGC AAAGC
1 AAAGC AAAGC AAAGC AAAGC AAAGC AAAGC AA-A-GC AAAGC AAAGC AAAGC
** * **
26586217 AAAAT AAAGT AAAGC ACAA-C AAAGC AATATAA AAAGC AAAGC AAAGC
1 AAAGC AAAGC AAAGC A-AAGC AAAGC AA-A-GC AAAGC AAAGC AAAGC
** ** * *
26586264 AGAA-C AATATAA AAAGC AAAGC AAAGC AATATA AAAGA AAAGA AAAGC
1 A-AAGC AA-A-GC AAAGC AAAGC AAAGC AA-AGC AAAGC AAAGC AAAGC
* *
26586312 AAAGC AAAGA AAAAC AAAGC AAAGC ACAA-C AAAGC AAAGC AAAGC ACAA-C
1 AAAGC AAAGC AAAGC AAAGC AAAGC A-AAGC AAAGC AAAGC AAAGC A-AAGC
* * ** *
26586362 ACAA-C AAAGC AAAGA AAAGA AAAGC AACATAA AAAGC AAAAC AAAGC
1 A-AAGC AAAGC AAAGC AAAGC AAAGC AA-A-GC AAAGC AAAGC AAAGC
26586409 AAAGC AA
1 AAAGC AA
26586416 CATGTTGACA
Statistics
Matches: 195, Mismatches: 34, Indels: 34
0.74 0.13 0.13
Matches are distributed among these distances:
4 7 0.04
5 161 0.83
6 18 0.09
7 9 0.05
ACGTcount: A:0.66, C:0.16, G:0.14, T:0.05
Consensus pattern (5 bp):
AAAGC
Found at i:26586186 original size:27 final size:26
Alignment explanation
Indices: 26586039--26586288 Score: 124
Period size: 27 Copynumber: 9.5 Consensus size: 26
26586029 AATGTAAAGT
* *
26586039 AAAGCAAAGCAAACTATAGCAATATAA
1 AAAGCAAAGCAAAC-AAAACAATATAA
* **
26586066 AAAGCAAAGAAAATCAAAGGAATAT--
1 AAAGCAAAGCAAA-CAAAACAATATAA
*
26586091 AAAGCAAAGCAAATAAAAGCAATAT--
1 AAAGCAAAGCAAACAAAA-CAATATAA
*** *
26586116 AAAGCAAAGCACAACACGTCGATATAA
1 AAAGCAAAGCA-AACAAAACAATATAA
**
26586143 AAAG--AA-C-AACACGACAATATAA
1 AAAGCAAAGCAAACAAAACAATATAA
* *
26586165 AAAGCAAAGCAAAGCAAAACAAAGCAAAA
1 AAAGCAAAGCAAA-CAAAAC-AA-TATAA
** * *
26586194 TAATATAAAAAGCAAAGCAAAGCAA-A-AT
1 -AA-A-GCAAAGCAAA-CAAAACAATATAA
* *
26586222 AAAGTAAAGCACAACAAAGCAATATAA
1 AAAGCAAAGCA-AACAAAACAATATAA
*
26586249 AAAGCAAAGCAAAGCAGAACAATATAA
1 AAAGCAAAGCAAA-CAAAACAATATAA
26586276 AAAGCAAAGCAAA
1 AAAGCAAAGCAAA
26586289 GCAATATAAA
Statistics
Matches: 176, Mismatches: 28, Indels: 38
0.73 0.12 0.16
Matches are distributed among these distances:
22 17 0.10
24 6 0.03
25 50 0.28
26 11 0.06
27 65 0.37
28 4 0.02
29 4 0.02
30 2 0.01
31 3 0.02
32 14 0.08
ACGTcount: A:0.63, C:0.15, G:0.13, T:0.10
Consensus pattern (26 bp):
AAAGCAAAGCAAACAAAACAATATAA
Found at i:26586199 original size:37 final size:37
Alignment explanation
Indices: 26586156--26586362 Score: 155
Period size: 37 Copynumber: 5.8 Consensus size: 37
26586146 GAACAACACG
26586156 ACAATATAAAAAGCAAAGCAAAGCAAAACAAAGCAAA
1 ACAATATAAAAAGCAAAGCAAAGCAAAACAAAGCAAA
* * *
26586193 ATAATATAAAAAGCAAAGCAAAGCAAAATAAAGTAAA
1 ACAATATAAAAAGCAAAGCAAAGCAAAACAAAGCAAA
* * * ** * *
26586230 GC-ACA-ACAAAGCAATATAAAAAGCAAAGCAAAGCAGA
1 ACAATATAAAAAGCAA-A-GCAAAGCAAAACAAAGCAAA
* * *
26586267 ACAATATAAAAAGCAAAGCAAAGCAATA-TAA--AAG
1 ACAATATAAAAAGCAAAGCAAAGCAAAACAAAGCAAA
* *
26586301 A-AA-A-GAAAAGCAAAGCAAAGAAAAACAAAGCAAA
1 ACAATATAAAAAGCAAAGCAAAGCAAAACAAAGCAAA
* * * *
26586335 GC-ACA-ACAAAGCAAAGCAAAGCACAACA
1 ACAATATAAAAAGCAAAGCAAAGCAAAACA
26586363 CAACAAAGCA
Statistics
Matches: 128, Mismatches: 33, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
31 18 0.14
32 3 0.02
33 2 0.02
34 5 0.04
35 28 0.22
36 5 0.04
37 56 0.44
38 3 0.02
39 8 0.06
ACGTcount: A:0.65, C:0.15, G:0.13, T:0.06
Consensus pattern (37 bp):
ACAATATAAAAAGCAAAGCAAAGCAAAACAAAGCAAA
Found at i:26586212 original size:22 final size:22
Alignment explanation
Indices: 26586180--26586299 Score: 100
Period size: 22 Copynumber: 5.1 Consensus size: 22
26586170 AAAGCAAAGC
*
26586180 AAAA-CAAAGCAAAATAATATA
1 AAAAGCAAAGCAAAACAATATA
* *
26586201 AAAAGCAAAGCAAAGCAAAATAA
1 AAAAGCAAAGCAAAACAATAT-A
*
26586224 AGTAAAGCACAA-CAAAGCAATATA
1 A--AAAGCA-AAGCAAAACAATATA
26586248 AAAAGCAAAGCAAAGCAGAACAATATA
1 AAAAGCAAAGC--A--A-AACAATATA
*
26586275 AAAAGCAAAGCAAAGCAATATA
1 AAAAGCAAAGCAAAACAATATA
26586297 AAA
1 AAA
26586300 GAAAAGAAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
21 6 0.07
22 31 0.38
23 3 0.04
24 3 0.04
25 17 0.21
26 3 0.04
27 19 0.23
ACGTcount: A:0.66, C:0.13, G:0.12, T:0.09
Consensus pattern (22 bp):
AAAAGCAAAGCAAAACAATATA
Found at i:26586304 original size:27 final size:26
Alignment explanation
Indices: 26586175--26586337 Score: 135
Period size: 27 Copynumber: 6.4 Consensus size: 26
26586165 AAAGCAAAGC
* * *
26586175 AAAGCAAAACAAAGCAAAATAATATAA
1 AAAGCAAAGCAAAGCAATATAA-AAAA
* **
26586202 AAAGCAAAGCAAAGCAAAAT-AAAGT
1 AAAGCAAAGCAAAGCAATATAAAAAA
*
26586227 AAAGCACAA-CAAAGCAATATAAAAAGC
1 AAAGCA-AAGCAAAGCAATATAAAAA-A
26586254 AAAGCAAAGCAGAA-CAATAT----AA
1 AAAGCAAAGCA-AAGCAATATAAAAAA
*
26586276 AAAGCAAAGCAAAGCAATATAAAAGA
1 AAAGCAAAGCAAAGCAATATAAAAAA
* * *
26586302 AAAGAAAAGCAAAGCAA-AGAAAAAC
1 AAAGCAAAGCAAAGCAATATAAAAAA
26586327 AAAGCAAAGCA
1 AAAGCAAAGCA
26586338 CAACAAAGCA
Statistics
Matches: 112, Mismatches: 14, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
21 2 0.02
22 17 0.15
23 1 0.01
25 32 0.29
26 25 0.22
27 33 0.29
28 2 0.02
ACGTcount: A:0.66, C:0.13, G:0.13, T:0.07
Consensus pattern (26 bp):
AAAGCAAAGCAAAGCAATATAAAAAA
Done.