Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 44 of 221
Found at i:12436273 original size:57 final size:59
Alignment explanation
Indices: 12436152--12436274 Score: 173
Period size: 57 Copynumber: 2.1 Consensus size: 59
12436142 TAGAAATTGA
*
12436152 GAAAATGGATAAATGGGAAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAACGAAAT
1 GAAAATGGAGAAATGGGAAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAACGAAAT
* *
12436211 CAAAATGGAGAAAT-GG-AAACATTTGGAAATG-AATGTGGTTTTC-CCTAAAATGAAAAT
1 GAAAATGGAGAAATGGGAAAACATTTGGAAATGAAATGTGGTTTTCTCC-AAAACG-AAAT
12436268 GAAAATG
1 GAAAATG
12436275 ACCTGAAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
55 2 0.03
56 17 0.29
57 25 0.43
58 2 0.03
59 12 0.21
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.25
Consensus pattern (59 bp):
GAAAATGGAGAAATGGGAAAACATTTGGAAATGAAATGTGGTTTTCTCCAAAACGAAAT
Found at i:12437260 original size:5 final size:5
Alignment explanation
Indices: 12437252--12437282 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
12437242 AGGTTTAGTT
*
12437252 TTCTC TTCTC TTCTC TTCTT TTCTC TTCTC T
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC T
12437283 ATAGATTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (5 bp):
TTCTC
Found at i:12446810 original size:13 final size:13
Alignment explanation
Indices: 12446792--12446816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12446782 AGAAAGGTGA
12446792 TTAGGTTTCAATC
1 TTAGGTTTCAATC
12446805 TTAGGTTTCAAT
1 TTAGGTTTCAAT
12446817 TTAAGAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (13 bp):
TTAGGTTTCAATC
Found at i:12448154 original size:23 final size:22
Alignment explanation
Indices: 12448114--12448206 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 22
12448104 CACGTAATTC
*
12448114 TCTGTGAAGCCTATGTGGCATAT
1 TCTGTAAAG-CTATGTGGCATAT
*
12448137 TTTGTAAAGTCTATGTGGCATAT
1 TCTGTAAAG-CTATGTGGCATAT
* * *
12448160 TCTGCAAAGCTTGTGTGGCGTAT
1 TCTGTAAAGC-TATGTGGCATAT
* *
12448183 TCTATAAAGCCTATGTGGCGTAT
1 TCTGTAAAG-CTATGTGGCATAT
12448206 T
1 T
12448207 TCGTAAGGTT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
22 1 0.02
23 56 0.97
24 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.38
Consensus pattern (22 bp):
TCTGTAAAGCTATGTGGCATAT
Found at i:12451873 original size:27 final size:27
Alignment explanation
Indices: 12451856--12452080 Score: 265
Period size: 27 Copynumber: 8.3 Consensus size: 27
12451846 AGAATGATCA
* *
12451856 AAATACCCTCGATGGGTAAAATTA-CTG
1 AAATACCCCCAATGGGTAAAATTATC-G
*
12451883 AAATACCCCCAATGGGTAAAATTACCG
1 AAATACCCCCAATGGGTAAAATTATCG
*
12451910 AAATACCCCCAATGGGTAAAATTACCG
1 AAATACCCCCAATGGGTAAAATTATCG
12451937 AAATACCCCCAATGGGTAAAATTATCG
1 AAATACCCCCAATGGGTAAAATTATCG
* * *
12451964 AAATACCCTCGATGGGTAAAATTA-CTA
1 AAATACCCCCAATGGGTAAAATTATC-G
* *
12451991 AAATACCCTCGATGGGTAAAATTATCG
1 AAATACCCCCAATGGGTAAAATTATCG
* * * * *
12452018 AAATACCCCTAAAGGGTAAAATAACCA
1 AAATACCCCCAATGGGTAAAATTATCG
** *
12452045 AAATACCCTTAATAGGTAAAATTATCG
1 AAATACCCCCAATGGGTAAAATTATCG
12452072 AAATACCCC
1 AAATACCCC
12452081 TATAAGGTAA
Statistics
Matches: 174, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 171 0.98
28 2 0.01
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (27 bp):
AAATACCCCCAATGGGTAAAATTATCG
Found at i:12451914 original size:54 final size:54
Alignment explanation
Indices: 12451816--12452079 Score: 298
Period size: 54 Copynumber: 4.9 Consensus size: 54
12451806 CTCCAGAATA
* * * * * * * *
12451816 GGTAAAATGATCAAAATA-CCCCTATAAGGTAGAATGATCAAAATACCCTCGATG
1 GGTAAAATTACCAAAATACCCCCAAT-GGGTAAAATTATCGAAATACCCTCAATG
** * *
12451870 GGTAAAATTACTGAAATACCCCCAATGGGTAAAATTACCGAAATACCCCCAATG
1 GGTAAAATTACCAAAATACCCCCAATGGGTAAAATTATCGAAATACCCTCAATG
* *
12451924 GGTAAAATTACCGAAATACCCCCAATGGGTAAAATTATCGAAATACCCTCGATG
1 GGTAAAATTACCAAAATACCCCCAATGGGTAAAATTATCGAAATACCCTCAATG
* * * *
12451978 GGTAAAATTACTAAAATACCCTCGATGGGTAAAATTATCGAAATACCC-CTAAAG
1 GGTAAAATTACCAAAATACCCCCAATGGGTAAAATTATCGAAATACCCTC-AATG
* ** *
12452032 GGTAAAATAACCAAAATACCCTTAATAGGTAAAATTATCGAAATACCC
1 GGTAAAATTACCAAAATACCCCCAATGGGTAAAATTATCGAAATACCC
12452080 CTATAAGGTA
Statistics
Matches: 181, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 174 0.96
55 6 0.03
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.22
Consensus pattern (54 bp):
GGTAAAATTACCAAAATACCCCCAATGGGTAAAATTATCGAAATACCCTCAATG
Found at i:12452088 original size:27 final size:26
Alignment explanation
Indices: 12451816--12452093 Score: 218
Period size: 27 Copynumber: 10.3 Consensus size: 26
12451806 CTCCAGAATA
* * *
12451816 GGTAAAATGATCAAAATACCCCTATAA
1 GGTAAAATTATCGAAATACCCCTA-AG
* * * * *
12451843 GGTAGAATGATCAAAATACCCTCGATG
1 GGTAAAATTATCGAAATACCC-CTAAG
*
12451870 GGTAAAATTA-CTGAAATACCCCCAATG
1 GGTAAAATTATC-GAAATACCCCTAA-G
* *
12451897 GGTAAAATTACCGAAATACCCCCAATG
1 GGTAAAATTATCGAAATACCCCTAA-G
* *
12451924 GGTAAAATTACCGAAATACCCCCAATG
1 GGTAAAATTATCGAAATACCCCTAA-G
* *
12451951 GGTAAAATTATCGAAATACCCTCGATG
1 GGTAAAATTATCGAAATACCC-CTAAG
* * *
12451978 GGTAAAATTA-CTAAAATACCCTCGATG
1 GGTAAAATTATC-GAAATACCC-CTAAG
12452005 GGTAAAATTATCGAAATACCCCTAAAG
1 GGTAAAATTATCGAAATACCCCT-AAG
* * * * *
12452032 GGTAAAATAACCAAAATACCCTTAATA
1 GGTAAAATTATCGAAATACCCCTAA-G
*
12452059 GGTAAAATTATCGAAATACCCCTATAA
1 GGTAAAATTATCGAAATACCCCTA-AG
12452086 GGTAAAAT
1 GGTAAAAT
12452094 GACCGTTATA
Statistics
Matches: 216, Mismatches: 25, Indels: 20
0.83 0.10 0.08
Matches are distributed among these distances:
26 7 0.03
27 202 0.94
28 7 0.03
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.23
Consensus pattern (26 bp):
GGTAAAATTATCGAAATACCCCTAAG
Found at i:12452090 original size:81 final size:81
Alignment explanation
Indices: 12451812--12452093 Score: 284
Period size: 81 Copynumber: 3.5 Consensus size: 81
12451802 GAGACTCCAG
* * * * *
12451812 AATAGGTAAAATGATCAAAATACCCCTATAAGGTAGAATGATCAAAATA-CCCTCGATGGGTAAA
1 AATAGGTAAAATTATCAAAATACCCCTATAAGGTAAAATTATCGAAATACCCCT-AATGGGTAAA
* *
12451876 ATTACTGAAATACCCCC
65 ATTACCGAAATACCCTC
* * * * * * *
12451893 AATGGGTAAAATTACCGAAATACCCCCA-ATGGGTAAAATTACCGAAATACCCCCAATGGGTAAA
1 AATAGGTAAAATTATCAAAATACCCCTATA-AGGTAAAATTATCGAAATACCCCTAATGGGTAAA
*
12451957 ATTATCGAAATACCCTC
65 ATTACCGAAATACCCTC
* * * * *
12451974 GATGGGTAAAATTA-CTAAAATACCCTCGAT-GGGTAAAATTATCGAAATACCCCTAAAGGGTAA
1 AATAGGTAAAATTATC-AAAATACCC-CTATAAGGTAAAATTATCGAAATACCCCTAATGGGTAA
* * *
12452037 AATAACCAAAATACCCTT
64 AATTACCGAAATACCCTC
*
12452055 AATAGGTAAAATTATCGAAATACCCCTATAAGGTAAAAT
1 AATAGGTAAAATTATCAAAATACCCCTATAAGGTAAAAT
12452094 GACCGTTATA
Statistics
Matches: 164, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
80 5 0.03
81 153 0.93
82 6 0.04
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.23
Consensus pattern (81 bp):
AATAGGTAAAATTATCAAAATACCCCTATAAGGTAAAATTATCGAAATACCCCTAATGGGTAAAA
TTACCGAAATACCCTC
Found at i:12452104 original size:27 final size:27
Alignment explanation
Indices: 12452074--12452129 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
12452064 AATTATCGAA
* *
12452074 ATACCCCTATAAGGTAAAATGACCGTT
1 ATACCCCTAGAAGATAAAATGACCGTT
* *
12452101 ATACCCCTAGGAGATAAAATGACTGTT
1 ATACCCCTAGAAGATAAAATGACCGTT
12452128 AT
1 AT
12452130 GGCCTTATGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (27 bp):
ATACCCCTAGAAGATAAAATGACCGTT
Found at i:12453064 original size:13 final size:13
Alignment explanation
Indices: 12453043--12453106 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
12453033 TTTAAACCAA
12453043 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
12453056 GCTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * *
12453069 GCTTTTCCACAGC
1 ACTTTTCAAAAGC
12453082 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
12453095 ACTTTTCAAAAG
1 ACTTTTCAAAAG
12453107 TAATGACGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:12455349 original size:18 final size:18
Alignment explanation
Indices: 12455328--12455362 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12455318 ATAATTTTAC
*
12455328 TGAAATCAAAATAAAATA
1 TGAAATCAAAACAAAATA
12455346 TGAAATCAAAACAAAAT
1 TGAAATCAAAACAAAAT
12455363 TAAGTAAAAG
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:0.66, C:0.09, G:0.06, T:0.20
Consensus pattern (18 bp):
TGAAATCAAAACAAAATA
Found at i:12456384 original size:12 final size:12
Alignment explanation
Indices: 12456367--12456396 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12456357 TCAAGCTGTT
12456367 ACACGGCCTAGC
1 ACACGGCCTAGC
*
12456379 ACACGGCCTGGC
1 ACACGGCCTAGC
12456391 ACACGG
1 ACACGG
12456397 GCGTGTGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:12466697 original size:15 final size:15
Alignment explanation
Indices: 12466659--12466698 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
12466649 AGAAGAAAAT
*
12466659 GAAAGAAAACAGAGA
1 GAAAGAAAGCAGAGA
*
12466674 CAAAGGAAAGCAGAGA
1 GAAA-GAAAGCAGAGA
12466690 GAAAGAAAG
1 GAAAGAAAG
12466699 TGGAAGCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.62, C:0.07, G:0.30, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGCAGAGA
Found at i:12475275 original size:13 final size:13
Alignment explanation
Indices: 12475257--12475287 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12475247 TGTGTAAATG
12475257 GAAATGGATATAT
1 GAAATGGATATAT
*
12475270 GAAATGGCTATAT
1 GAAATGGATATAT
12475283 GAAAT
1 GAAAT
12475288 TAGTCATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (13 bp):
GAAATGGATATAT
Found at i:12481285 original size:27 final size:27
Alignment explanation
Indices: 12481255--12481330 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
12481245 CAACTCCCGC
*
12481255 GTTTATTGTCTCGAT-GAACTATCTCAT
1 GTTTAATGTCTCG-TCGAACTATCTCAT
* * *
12481282 GTTTAATGTCCCGTCAAACTATCTCGT
1 GTTTAATGTCTCGTCGAACTATCTCAT
*
12481309 GTTTAATATCTCGTCGAACTAT
1 GTTTAATGTCTCGTCGAACTAT
12481331 GAAAGGATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.02
27 40 0.98
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (27 bp):
GTTTAATGTCTCGTCGAACTATCTCAT
Found at i:12481429 original size:45 final size:44
Alignment explanation
Indices: 12481336--12481511 Score: 172
Period size: 45 Copynumber: 3.9 Consensus size: 44
12481326 ACTATGAAAG
* * * * * *
12481336 GATGTCATAGCGTCTTTTAGCTATGTGGTCTTAGTCTTGTTTACCAT
1 GATGCCATAACGTCTTTCAGCTA--TGGTCTTACTCAT-TTTATCAT
* *
12481383 GATGCCATAGCGTCTTTCAGCCATGGTCTTACTCATTTATATCAT
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCATTT-TATCAT
* * * * *
12481428 GATGTCATAACATCTTTCAACTATGGTCTTACTTATCCTTATCAT
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCAT-TTTATCAT
* *
12481473 GATGCCATAACGTTTTTCAGCTATGATCTTACTCATTTT
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCATTTT
12481512 TAGGCATATA
Statistics
Matches: 107, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
44 4 0.04
45 82 0.77
46 1 0.01
47 20 0.19
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (44 bp):
GATGCCATAACGTCTTTCAGCTATGGTCTTACTCATTTTATCAT
Found at i:12484758 original size:22 final size:23
Alignment explanation
Indices: 12484713--12484760 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
12484703 AAATGGTAGC
* *
12484713 AAAATAGTGAAAAAAATAACAAG
1 AAAATAATGAAAAAAATAAAAAG
*
12484736 AAAATAAT-AAAAAAGTAAAAAG
1 AAAATAATGAAAAAAATAAAAAG
12484758 AAA
1 AAA
12484761 CAAGTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (23 bp):
AAAATAATGAAAAAAATAAAAAG
Found at i:12486127 original size:5 final size:5
Alignment explanation
Indices: 12486117--12486163 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
12486107 ACACATATAC
* * * *
12486117 CATAT CATAT CATAT CATGT CATAT CATGT CATAC CCTAT CATAT CA
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CA
12486164 AAAATTTCAG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (5 bp):
CATAT
Found at i:12489728 original size:16 final size:16
Alignment explanation
Indices: 12489696--12489743 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
12489686 AACCTTTTAA
* *
12489696 AAATTA-TAAAGATAT
1 AAATTATTAAAAAAAT
12489711 AAATTATTAAAAAAAT
1 AAATTATTAAAAAAAT
* *
12489727 AAAATATTATAAAAAT
1 AAATTATTAAAAAAAT
12489743 A
1 A
12489744 TATAATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
AAATTATTAAAAAAAT
Found at i:12491820 original size:22 final size:21
Alignment explanation
Indices: 12491795--12491843 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
12491785 TATTTTAAGG
12491795 TTATTTTATTAATATAAAAAAT
1 TTATTTTATTAATAT-AAAAAT
** **
12491817 TTATAATATTTTTATAAAAAT
1 TTATTTTATTAATATAAAAAT
12491838 TTATTT
1 TTATTT
12491844 CTATATATTA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTTTATTAATATAAAAAT
Found at i:12504954 original size:23 final size:25
Alignment explanation
Indices: 12504911--12504956 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
12504901 AACACAAATT
*
12504911 TTAATTTGTTTATTTTTAAATAATA
1 TTAATTTGTTTATGTTTAAATAATA
12504936 TTAATTT-TTTA-GTTTAAATAA
1 TTAATTTGTTTATGTTTAAATAA
12504957 AAAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (25 bp):
TTAATTTGTTTATGTTTAAATAATA
Found at i:12505891 original size:35 final size:35
Alignment explanation
Indices: 12505841--12505930 Score: 119
Period size: 35 Copynumber: 2.6 Consensus size: 35
12505831 AATCGACTCA
* *
12505841 AAAAAGGTTGAGATAGACCAT-TTTATGCCAACCTT
1 AAAAAGGTTGGGATAGACC-TGTTTAAGCCAACCTT
* *
12505876 AAAAATGTTGGGATAGACCTGTTTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCTGTTTAAGCCAACCTT
*
12505911 AAAAAGGTTGGGATAAACCT
1 AAAAAGGTTGGGATAGACCT
12505931 TGTCTGCGCC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
34 1 0.02
35 47 0.98
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCTGTTTAAGCCAACCTT
Found at i:12513671 original size:19 final size:19
Alignment explanation
Indices: 12513647--12513689 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
12513637 TTTTTTAAAC
12513647 ATTTTATTACATAAAATAA
1 ATTTTATTACATAAAATAA
12513666 ATTTTATTACATAAAATAA
1 ATTTTATTACATAAAATAA
12513685 ATTTT
1 ATTTT
12513690 TAAACAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTATTACATAAAATAA
Found at i:12515271 original size:98 final size:98
Alignment explanation
Indices: 12515102--12515298 Score: 376
Period size: 98 Copynumber: 2.0 Consensus size: 98
12515092 ATGTAAGGCA
12515102 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATA
1 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATA
*
12515167 TACATGACAAGAAAAAGAATGCACATATTCCAC
66 TACATGACAAGAAAAAAAATGCACATATTCCAC
*
12515200 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATG
1 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATA
12515265 TACATGACAAGAAAAAAAATGCACATATTCCAC
66 TACATGACAAGAAAAAAAATGCACATATTCCAC
12515298 A
1 A
12515299 TTTGACGAGT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.21
Consensus pattern (98 bp):
AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATA
TACATGACAAGAAAAAAAATGCACATATTCCAC
Found at i:12525202 original size:22 final size:22
Alignment explanation
Indices: 12525146--12525203 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
12525136 ATTCGGTTAA
*
12525146 TCAGTCGGTGG-CTGAATTTAGT
1 TCAGTCGGAGGTC-GAATTTAGT
* * *
12525168 TTAGTTGGTGGTCGAATTTAGT
1 TCAGTCGGAGGTCGAATTTAGT
*
12525190 TCGGTCGGAGGTCG
1 TCAGTCGGAGGTCG
12525204 GTTAATGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.16, C:0.12, G:0.36, T:0.36
Consensus pattern (22 bp):
TCAGTCGGAGGTCGAATTTAGT
Found at i:12533436 original size:15 final size:15
Alignment explanation
Indices: 12533416--12533448 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
12533406 CATAAATTAT
12533416 ATTATTTTCATGTTA
1 ATTATTTTCATGTTA
12533431 ATTATTTTCATGTTA
1 ATTATTTTCATGTTA
12533446 ATT
1 ATT
12533449 TTTATTATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTATTTTCATGTTA
Found at i:12534271 original size:18 final size:18
Alignment explanation
Indices: 12534248--12534287 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
12534238 TTAATTCTAT
12534248 TTAGCTAGGATGATTGTG
1 TTAGCTAGGATGATTGTG
12534266 TTAGCTAGGATGATTGTG
1 TTAGCTAGGATGATTGTG
12534284 TTAG
1 TTAG
12534288 TTTAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.33, T:0.40
Consensus pattern (18 bp):
TTAGCTAGGATGATTGTG
Found at i:12543667 original size:20 final size:20
Alignment explanation
Indices: 12543642--12543681 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12543632 TTTGTAATGC
*
12543642 TTTTATCATGTATTATTTTA
1 TTTTATCATGCATTATTTTA
*
12543662 TTTTATTATGCATTATTTTA
1 TTTTATCATGCATTATTTTA
12543682 AATATTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTATCATGCATTATTTTA
Found at i:12549471 original size:9 final size:9
Alignment explanation
Indices: 12549459--12549517 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
12549449 TTTTGGTTAA
12549459 AAATTAACC
1 AAATTAACC
12549468 AAATTAACC
1 AAATTAACC
* *
12549477 TAATTACCC
1 AAATTAACC
* *
12549486 GAATTAACT
1 AAATTAACC
*
12549495 AAATTACCC
1 AAATTAACC
*
12549504 GAATTAACC
1 AAATTAACC
*
12549513 GAATT
1 AAATT
12549518 CAATCACTAC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (9 bp):
AAATTAACC
Found at i:12549490 original size:18 final size:18
Alignment explanation
Indices: 12549469--12549517 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
12549459 AAATTAACCA
12549469 AATTAACCTAATTACCCG
1 AATTAACCTAATTACCCG
12549487 AATTAA-CTAAATTACCCG
1 AATTAACCT-AATTACCCG
*
12549505 AATTAACCGAATT
1 AATTAACCTAATT
12549518 CAATCACTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 25 0.89
19 1 0.04
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (18 bp):
AATTAACCTAATTACCCG
Found at i:12549498 original size:27 final size:27
Alignment explanation
Indices: 12549460--12549517 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
12549450 TTTGGTTAAA
* *
12549460 AATTAACCAAATTAACCTAATTACCCG
1 AATTAACCAAATTAACCGAATTAACCG
* *
12549487 AATTAACTAAATTACCCGAATTAACCG
1 AATTAACCAAATTAACCGAATTAACCG
12549514 AATT
1 AATT
12549518 CAATCACTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.22, G:0.05, T:0.28
Consensus pattern (27 bp):
AATTAACCAAATTAACCGAATTAACCG
Found at i:12549780 original size:18 final size:18
Alignment explanation
Indices: 12549757--12549800 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
12549747 AATTTTTATT
*
12549757 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGATA
12549775 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
12549793 CTTGGGTT
1 ATTGGGTT
12549801 TAGATTGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.02, G:0.45, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:12557221 original size:24 final size:23
Alignment explanation
Indices: 12557192--12557270 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
12557182 TGTATAACAA
12557192 GAAGCTCATAAGAGCCATAATCGG
1 GAAGCTCATAAGAGCCATAA-CGG
*
12557216 GAAGCTCATACGAGCCAATAACGG
1 GAAGCTCATAAGAGCC-ATAACGG
* * *
12557240 GTAGCTTC-GAAGAGCCATTAACAG
1 GAAGC-TCATAAGAGCCA-TAACGG
12557264 GAAGCTC
1 GAAGCTC
12557271 CGGATAGACA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
23 3 0.07
24 37 0.80
25 6 0.13
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.16
Consensus pattern (23 bp):
GAAGCTCATAAGAGCCATAACGG
Found at i:12560635 original size:18 final size:18
Alignment explanation
Indices: 12560609--12560652 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
12560599 TCATTTTTAT
*
12560609 TTTTA-TTTTGTTATATA
1 TTTTATTTTTATTATATA
* *
12560626 TTTTATTTTTATTTTCTA
1 TTTTATTTTTATTATATA
12560644 TTTTATTTT
1 TTTTATTTT
12560653 CTTGCATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTATTTTTATTATATA
Found at i:12561638 original size:112 final size:109
Alignment explanation
Indices: 12561437--12561654 Score: 262
Period size: 111 Copynumber: 2.0 Consensus size: 109
12561427 AAAATTTTAA
* * * * *
12561437 GAGTGTGTTGGGCTAAGTAACCGGGGTGGGGTGCTTGGGTTTTCATTGCACTACGCATCAAAAGG
1 GAGTGTGTGGGGCTAAGTAACCGGGGTGGGGCGCTTGGGTTGTCATTCCACTACGCATCAAAAAG
*
12561502 GCCAAAACATTCTTAAACCAAAAAATATATATAATATAATAAATTAG
66 GCCAAAACATTCTTAAACCAAAAAA-ATA-ATAAAATAA-AAATTAG
* * *
12561549 GAGTGTGTGGGGTTGAA-TAACCGGGGTGGGGCGCTT-GGTTGTCATTCCACTTCGCGTCAAAAA
1 GAGTGTGTGGGGCT-AAGTAACCGGGGTGGGGCGCTTGGGTTGTCATTCCACTACGCATCAAAAA
* *
12561612 GGCCAATACATTCTT-AAGCATTAAAAAATAATAAAATAAAAAT
65 GGCCAAAACATTCTTAAACCA--AAAAAATAATAAAATAAAAAT
12561655 AAATAAATAA
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
109 4 0.04
110 12 0.13
111 39 0.42
112 35 0.38
113 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (109 bp):
GAGTGTGTGGGGCTAAGTAACCGGGGTGGGGCGCTTGGGTTGTCATTCCACTACGCATCAAAAAG
GCCAAAACATTCTTAAACCAAAAAAATAATAAAATAAAAATTAG
Found at i:12563019 original size:18 final size:19
Alignment explanation
Indices: 12562996--12563033 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
12562986 TCGAAAACTA
*
12562996 CTTTTCTCAACT-CTATTT
1 CTTTTCACAACTGCTATTT
*
12563014 CTTTTCACAATTGCTATTT
1 CTTTTCACAACTGCTATTT
12563033 C
1 C
12563034 AATTTATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.18, C:0.26, G:0.03, T:0.53
Consensus pattern (19 bp):
CTTTTCACAACTGCTATTT
Found at i:12572594 original size:22 final size:22
Alignment explanation
Indices: 12572560--12572602 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12572550 AGGGGCTACA
* * *
12572560 TGTCTTGAGACAAAATCCTATT
1 TGTCTCGAAACAAAAGCCTATT
12572582 TGTCTCGAAACAAAAGCCTAT
1 TGTCTCGAAACAAAAGCCTAT
12572603 ATGCATCGAG
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:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (22 bp):
TGTCTCGAAACAAAAGCCTATT
Found at i:12578362 original size:24 final size:24
Alignment explanation
Indices: 12578321--12578372 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
12578311 TTTTGCATGT
* * *
12578321 TATTGTCACATAGGGTTCGCATAC
1 TATTGACACATAAGGTTCACATAC
* *
12578345 TATTGACACATAATGTTCACATAG
1 TATTGACACATAAGGTTCACATAC
12578369 TATT
1 TATT
12578373 AACTCATGGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (24 bp):
TATTGACACATAAGGTTCACATAC
Found at i:12578489 original size:34 final size:34
Alignment explanation
Indices: 12578428--12578560 Score: 149
Period size: 34 Copynumber: 3.9 Consensus size: 34
12578418 CTTGCATACT
* * * * *
12578428 ACCTAGGATCCGCATGACATATTGGCTCGCATAA
1 ACCTAGGGTTCGCATAACATATAGGCTCGCATAG
* * *
12578462 ACCTAGGGTTTGCATAATATGTAGGCTCGCATAG
1 ACCTAGGGTTCGCATAACATATAGGCTCGCATAG
* *
12578496 ACTTAGGGTTCGCATAACATATAGGCTCACATAG
1 ACCTAGGGTTCGCATAACATATAGGCTCGCATAG
* **
12578530 ACCTAGGGTTCACATGGCATATAGGCTCGCA
1 ACCTAGGGTTCGCATAACATATAGGCTCGCA
12578561 CAGGTAGGGC
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 81 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (34 bp):
ACCTAGGGTTCGCATAACATATAGGCTCGCATAG
Found at i:12578751 original size:14 final size:14
Alignment explanation
Indices: 12578730--12578824 Score: 93
Period size: 14 Copynumber: 6.8 Consensus size: 14
12578720 GTGATTTTTA
*
12578730 ACTCGCATGTATTG
1 ACTCGCATATATTG
*
12578744 ATTCGCATATATTG
1 ACTCGCATATATTG
*
12578758 ACTCACATATATTG
1 ACTCGCATATATTG
* ** *
12578772 ACTCGTAGGTGTTG
1 ACTCGCATATATTG
12578786 ACTCAG-ATATATTG
1 ACTC-GCATATATTG
*
12578800 ATTCGCATATATTG
1 ACTCGCATATATTG
*
12578814 ACTTGCATATA
1 ACTCGCATATA
12578825 CAATAGTTTA
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
13 1 0.02
14 62 0.97
15 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (14 bp):
ACTCGCATATATTG
Found at i:12578970 original size:29 final size:29
Alignment explanation
Indices: 12578936--12578998 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
12578926 TTATGCATGT
* *
12578936 GGGGTCACA-ATAGGA-GGTTTGCATGCATA
1 GGGGTCACATATAAGAGGGTTCGCAT--ATA
12578965 GGGGTCACATATAAGAGGGTTCGCATATA
1 GGGGTCACATATAAGAGGGTTCGCATATA
12578994 GGGGT
1 GGGGT
12578999 TTACATGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 17 0.57
30 5 0.17
31 8 0.27
ACGTcount: A:0.27, C:0.13, G:0.37, T:0.24
Consensus pattern (29 bp):
GGGGTCACATATAAGAGGGTTCGCATATA
Found at i:12579984 original size:11 final size:11
Alignment explanation
Indices: 12579968--12579993 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12579958 ACCCACATTT
12579968 TTTTCCCTTTA
1 TTTTCCCTTTA
12579979 TTTTCCCTTTA
1 TTTTCCCTTTA
12579990 TTTT
1 TTTT
12579994 TCTATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTCCCTTTA
Found at i:12579994 original size:12 final size:12
Alignment explanation
Indices: 12579967--12579995 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
12579957 AACCCACATT
12579967 TTTTTCCCTTTA
1 TTTTTCCCTTTA
12579979 -TTTTCCCTTTA
1 TTTTTCCCTTTA
12579990 TTTTTC
1 TTTTTC
12579996 TATTTTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTTCCCTTTA
Found at i:12580368 original size:18 final size:19
Alignment explanation
Indices: 12580345--12580433 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 19
12580335 TCTATTCTAG
12580345 AATTATAAAAATATAA-AA
1 AATTATAAAAATATAATAA
12580363 AATTATAAAAA-ATAATTAA
1 AATTATAAAAATATAA-TAA
*
12580382 ACATTATAAAAAT-TATTAGA
1 A-ATTATAAAAATATAATA-A
* *
12580402 AATTAATTAAAA-ACAATAA
1 AATT-ATAAAAATATAATAA
12580421 AATTTATAAAAAT
1 AA-TTATAAAAAT
12580434 TTTATATTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
17 4 0.07
18 11 0.19
19 17 0.30
20 25 0.44
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (19 bp):
AATTATAAAAATATAATAA
Found at i:12580421 original size:30 final size:30
Alignment explanation
Indices: 12580360--12580432 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
12580350 TAAAAATATA
* **
12580360 AAAAATTA-TAAAAAATAATTAAACATTAT
1 AAAAATTATTAAAAAATAATTAAAAACAAT
* *
12580389 AAAAATTATTAGAAATTAATTAAAAACAAT
1 AAAAATTATTAAAAAATAATTAAAAACAAT
*
12580419 AAAATTTA-TAAAAA
1 AAAAATTATTAAAAA
12580433 TTTTATATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 13 0.36
30 23 0.64
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (30 bp):
AAAAATTATTAAAAAATAATTAAAAACAAT
Found at i:12580428 original size:39 final size:39
Alignment explanation
Indices: 12580346--12580434 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 39
12580336 CTATTCTAGA
*
12580346 ATTATAAAAA-TATAAAAAATTATAAAAAATAATTAAAC
1 ATTATAAAAATTATAAAAAATTATAAAAAACAATTAAAC
* * *
12580384 ATTATAAAAATTATTAGAAATTAATTAAAAACAA-TAAA-
1 ATTATAAAAATTATAAAAAATT-ATAAAAAACAATTAAAC
12580422 ATTTATAAAAATT
1 A-TTATAAAAATT
12580435 TTATATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
38 11 0.25
39 24 0.55
40 9 0.20
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (39 bp):
ATTATAAAAATTATAAAAAATTATAAAAAACAATTAAAC
Found at i:12580435 original size:10 final size:9
Alignment explanation
Indices: 12580345--12580434 Score: 65
Period size: 9 Copynumber: 9.4 Consensus size: 9
12580335 TCTATTCTAG
12580345 AATTATAAA
1 AATTATAAA
12580354 AA-TATAAAA
1 AATTAT-AAA
12580363 AATTATAAAA
1 AATTAT-AAA
*
12580373 AATAATTAAA
1 AATTA-TAAA
*
12580383 CATTATAAA
1 AATTATAAA
*
12580392 AATTATTAGA
1 AATTA-TAAA
12580402 AATTAATTAAA
1 AATT-A-TAAA
**
12580413 AACAATAAA
1 AATTATAAA
*
12580422 ATTTATAAA
1 AATTATAAA
12580431 AATT
1 AATT
12580435 TTATATTTAT
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
8 3 0.05
9 28 0.44
10 25 0.39
11 8 0.12
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:12580784 original size:16 final size:18
Alignment explanation
Indices: 12580751--12580791 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 18
12580741 TTCATTGTAT
12580751 ATTTTTTTAAATAATTTTA
1 ATTTTTTTAAAT-ATTTTA
12580770 ATTTTTTT-AAT-TTTTA
1 ATTTTTTTAAATATTTTA
12580786 ATTTTT
1 ATTTTT
12580792 GTTGATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.50
18 3 0.14
19 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTTTAAATATTTTA
Found at i:12581909 original size:36 final size:39
Alignment explanation
Indices: 12581869--12581942 Score: 109
Period size: 36 Copynumber: 2.0 Consensus size: 39
12581859 TATAATAAAT
*
12581869 AAATATTTTTTATTC-TTTAAT-TTTAAAAT-ATTTTTA
1 AAATACTTTTTATTCTTTTAATATTTAAAATAATTTTTA
*
12581905 AAATACTTTTTATTCTTTTTATATTTAAAATAATTTTT
1 AAATACTTTTTATTCTTTTAATATTTAAAATAATTTTT
12581943 TTGGTGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 14 0.42
37 5 0.15
38 8 0.24
39 6 0.18
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (39 bp):
AAATACTTTTTATTCTTTTAATATTTAAAATAATTTTTA
Found at i:12582188 original size:15 final size:15
Alignment explanation
Indices: 12582168--12582208 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
12582158 TTTTTAACCC
*
12582168 TAAACCCTAAAATCA
1 TAAACCTTAAAATCA
*
12582183 TAAACCTTAAAATCC
1 TAAACCTTAAAATCA
12582198 TAAACCTTAAA
1 TAAACCTTAAA
12582209 CCCTAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAACCTTAAAATCA
Found at i:12582219 original size:15 final size:15
Alignment explanation
Indices: 12582163--12582215 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
12582153 TTTAATTTTT
*
12582163 AACCCTAAACCCTAA
1 AACCCTAAACCTTAA
* *
12582178 AATCATAAACCTTAA
1 AACCCTAAACCTTAA
*
12582193 AATCCTAAACCTT-A
1 AACCCTAAACCTTAA
12582207 AACCCTAAA
1 AACCCTAAA
12582216 ACCTAGAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 9 0.27
15 24 0.73
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCTAAACCTTAA
Found at i:12587826 original size:2 final size:2
Alignment explanation
Indices: 12587821--12587850 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12587811 AATTCTGTGT
12587821 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
12587851 TGGATGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:12589062 original size:17 final size:19
Alignment explanation
Indices: 12589042--12589086 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
12589032 TATCTTAAAC
12589042 TATATTTATT-AAAA-ATA
1 TATATTTATTGAAAAGATA
*
12589059 TATATTAATTGAAAATGATA
1 TATATTTATTGAAAA-GATA
12589079 TATATTTA
1 TATATTTA
12589087 GCATAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 9 0.39
18 4 0.17
20 10 0.43
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
TATATTTATTGAAAAGATA
Found at i:12589944 original size:26 final size:25
Alignment explanation
Indices: 12589895--12589953 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
12589885 TACGTGTTTA
*
12589895 TTTTTAAAATTTATTAAATAATATC
1 TTTTTAAAATTTATTAAAAAATATC
*
12589920 TTTTTATAAATTT-TTAAAAATATATA
1 TTTTTA-AAATTTATTAAAAA-ATATC
12589946 TTTGTTAA
1 TTT-TTAA
12589954 TTAAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 12 0.41
26 14 0.48
27 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTTTAAAATTTATTAAAAAATATC
Found at i:12592092 original size:15 final size:15
Alignment explanation
Indices: 12592072--12592101 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12592062 ACTATTAATA
12592072 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
12592087 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
12592102 TACCATACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:12594301 original size:21 final size:21
Alignment explanation
Indices: 12594263--12594309 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
12594253 AAGTTTCGAT
*
12594263 TTTTGAATTTTGGATTTCAAA
1 TTTTGAATTATGGATTTCAAA
* *
12594284 TTTTGAGTTATGGGTTTCAAA
1 TTTTGAATTATGGATTTCAAA
12594305 TTTTG
1 TTTTG
12594310 GGTTTGATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.04, G:0.19, T:0.53
Consensus pattern (21 bp):
TTTTGAATTATGGATTTCAAA
Found at i:12594405 original size:26 final size:26
Alignment explanation
Indices: 12594346--12594395 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
12594336 GTTTAACCAT
*
12594346 TATAATTAATATTTATTTTTAAATAA
1 TATAATTTATATTTATTTTTAAATAA
*
12594372 TATTATTTATATTTATTTTTAAAT
1 TATAATTTATATTTATTTTTAAAT
12594396 CCTTCAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATAATTTATATTTATTTTTAAATAA
Found at i:12599395 original size:51 final size:52
Alignment explanation
Indices: 12599333--12599439 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 52
12599323 TTATAAAACT
* * *
12599333 TATATATATATAAAATACA-TAATGCATTTATGAAAACAATGAAA-ATATAAA
1 TATATACATATAAAATACATTAATGCATTTA-CAAAAAAATGAAATATATAAA
* * *
12599384 TATATACATATAAAATATATTCATGCATTTACAAAAAAATGAAATATATAAG
1 TATATACATATAAAATACATTAATGCATTTACAAAAAAATGAAATATATAAA
12599436 TATA
1 TATA
12599440 ATATAAAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 28 0.58
52 20 0.42
ACGTcount: A:0.55, C:0.07, G:0.06, T:0.33
Consensus pattern (52 bp):
TATATACATATAAAATACATTAATGCATTTACAAAAAAATGAAATATATAAA
Found at i:12599652 original size:27 final size:29
Alignment explanation
Indices: 12599622--12599678 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
12599612 ATAATAAAGT
12599622 ATGTTT-ATA-ATATGTATATATATTAAA
1 ATGTTTAATATATATGTATATATATTAAA
12599649 ATGTTTAAAATATATATGTATATATATTAA
1 ATGTTT--AATATATATGTATATATATTAA
12599679 CATGCATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 6 0.23
30 3 0.12
31 17 0.65
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (29 bp):
ATGTTTAATATATATGTATATATATTAAA
Found at i:12599714 original size:3 final size:3
Alignment explanation
Indices: 12599706--12599751 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
12599696 ATATGTAGAT
12599706 ATA ATA ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
12599751 A
1 A
12599752 CAAAATTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:12599761 original size:24 final size:27
Alignment explanation
Indices: 12599704--12599767 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
12599694 ATATATGTAG
*
12599704 ATATAATAATAATAATAATAATATATA
1 ATATAATAATAATAATAATAACATATA
12599731 ATATAATAATAATAATAATAACA-A-A
1 ATATAATAATAATAATAATAACATATA
12599756 AT-TAATAA-AATA
1 ATATAATAATAATA
12599768 GACTAAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
23 4 0.11
24 6 0.17
25 3 0.08
26 1 0.03
27 22 0.61
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
ATATAATAATAATAATAATAACATATA
Found at i:12600209 original size:22 final size:21
Alignment explanation
Indices: 12600174--12600280 Score: 73
Period size: 19 Copynumber: 5.2 Consensus size: 21
12600164 AAAGGGTATC
* *
12600174 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
12600195 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
12600218 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
12600237 TGCATGTATCATA--TCTAAGAT
1 TACA--AATCATATCTCTAAGAT
* *
12600258 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
12600277 TACA
1 TACA
12600281 TATCCTCGAA
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
19 29 0.38
21 22 0.29
22 15 0.19
23 11 0.14
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:12600217 original size:23 final size:22
Alignment explanation
Indices: 12600174--12600231 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
12600164 AAAGGGTATC
* *
12600174 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12600195 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
12600218 TACATATCATATCT
1 TACAAATCATATCT
12600232 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12600234 original size:19 final size:19
Alignment explanation
Indices: 12600187--12600284 Score: 115
Period size: 19 Copynumber: 4.8 Consensus size: 19
12600177 AAATTAAATC
*
12600187 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
12600207 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
12600229 TCTAAGATTGCATGTATCATA
1 TCTAAGATTACA--TATCATA
*
12600250 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
12600269 TCTAAGATTACATATC
1 TCTAAGATTACATATC
12600285 CTCGAAGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
19 33 0.47
21 19 0.27
22 7 0.10
23 11 0.16
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:12601111 original size:44 final size:43
Alignment explanation
Indices: 12601057--12601432 Score: 379
Period size: 44 Copynumber: 8.7 Consensus size: 43
12601047 GCTATTCTCC
* * * * *
12601057 ACCTACTCCACTGTTGCTCAGGGAGATAGGGTTCACGATCTTCA
1 ACCTATTCCACTGCTGC-CAGGGAGATAGGATTCACAATCTTTA
** * *
12601101 ACCTATTCCACTGCTGACCATAGAGATAGGA-CCTACAATCTTCA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTC-ACAATCTTTA
* * * * *
12601145 ATCTATTCCACTGCTGCCCAGGGCGCTAGAATTCTCAATCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
* * *
12601189 ACCTATTTCACTGCTGACCAGGGAGATAAGATTTACAATCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
* **
12601233 ACTTATTCCACTGCTGTTTAGGGAGATAGGA-T-----TCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
* * * * *
12601271 ATCTATTCCACTACTGTCCAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
*
12601315 ACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
12601359 ACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATCTTTA
12601403 ACCTATTCCACTGCTGACCAGGGAGATAGG
1 ACCTATTCCACTGCTG-CCAGGGAGATAGG
12601433 GCTGGGGTCA
Statistics
Matches: 276, Mismatches: 47, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
38 31 0.11
39 1 0.00
43 2 0.01
44 240 0.87
45 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
ACCTATTCCACTGCTGCCAGGGAGATAGGATTCACAATCTTTA
Found at i:12601332 original size:126 final size:126
Alignment explanation
Indices: 12601075--12601392 Score: 402
Period size: 126 Copynumber: 2.5 Consensus size: 126
12601065 CACTGTTGCT
* * * * * **
12601075 CAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTGCTGACCATAGAGATAGGACCTACAAT
1 CAGGGAGATAAGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGA--T----T
* * * * * *
12601140 CTTCAATCTATTCCACTGCTGCCCAGGGCGCTAGAATTCTCAATCTTTAACCTATTTCACTGCTG
60 CTTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTACTG
12601205 AC
125 AC
* * ** *
12601207 CAGGGAGATAAGATTTACAATCTTTAACTTATTCCACTGCTGTTTAGGGAGATAGGATTCTTTAA
1 CAGGGAGATAAGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCTTCAA
*
12601272 TCTATTCCACTACTGTCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTACTGAC
66 TCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTACTGAC
*
12601333 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTC
1 CAGGGAGATAAGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTC
12601393 ACAATCTTTA
Statistics
Matches: 162, Mismatches: 24, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
126 115 0.71
130 1 0.01
132 46 0.28
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (126 bp):
CAGGGAGATAAGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCTTCAA
TCTATTCCACTACTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTACTGAC
Found at i:12601546 original size:43 final size:43
Alignment explanation
Indices: 12601493--12601626 Score: 117
Period size: 44 Copynumber: 3.1 Consensus size: 43
12601483 TATTTTTAAC
12601493 CTGCTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTCTTCGAT
1 CTGCTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTCTTCGAT
* ***** * * * * * *
12601536 CTGCTTCGCTGTCGGTGTAGGAAGACAAGATCTGCTATTTTC-AG
1 CTGCTCCGCTG-CAACCCAGGGAGACAAG-GCTGGTGTCTTCGAT
*
12601580 CATGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGAT
1 C-TGCTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTCTTCGAT
12601624 CTG
1 CTG
12601627 TTTCGCTGTC
Statistics
Matches: 62, Mismatches: 25, Indels: 8
0.65 0.26 0.08
Matches are distributed among these distances:
43 20 0.32
44 25 0.40
45 17 0.27
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.25
Consensus pattern (43 bp):
CTGCTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTCTTCGAT
Found at i:12601694 original size:44 final size:44
Alignment explanation
Indices: 12601646--12601873 Score: 110
Period size: 44 Copynumber: 5.2 Consensus size: 44
12601636 CGGTGCAAGA
12601646 AGGCAAGATCTGCTATTTTTTGCCTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTTGCCTGCTCCGCTGCAACCCAGGG
* * * * **** *
12601690 AGGCAAG-GCTGGTGACTTCGATTTG-CT--T-CGTTGTCGGTGCAGGA
1 AGGCAAGATCTGCT-A-TT--TTTTGCCTGCTCCGCTG-CAACCCAGGG
*
12601734 AGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTTGCCTGCTCCGCTGCAACCCAGGG
** * * * * * ** *** *
12601778 AGGC-AGGGCTGGT-GTCTTTGATCTGCTTCGCTATAGGTGCAGGA
1 AGGCAAGATCTGCTATTTTTTG-CCTGCTCCGCTGCA-ACCCAGGG
* * *
12601822 AGGCAAGATCTGCTATTTTTAGTCTGCTTCGCTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTTGCCTGCTCCGCTGCAACCCAGGG
12601866 AGGCAAGA
1 AGGCAAGA
12601874 CTGGTGACTT
Statistics
Matches: 125, Mismatches: 45, Indels: 28
0.63 0.23 0.14
Matches are distributed among these distances:
41 3 0.02
42 6 0.05
43 26 0.21
44 52 0.42
45 28 0.22
46 6 0.05
47 4 0.03
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.27
Consensus pattern (44 bp):
AGGCAAGATCTGCTATTTTTTGCCTGCTCCGCTGCAACCCAGGG
Found at i:12601850 original size:45 final size:45
Alignment explanation
Indices: 12601725--12601854 Score: 113
Period size: 45 Copynumber: 2.9 Consensus size: 45
12601715 CTTCGTTGTC
* * *
12601725 GGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCA
1 GGTGCAGGAAGGCAAGATCTGCTATTTTTAGTCTGCTTCGCTACA
*** * ** * * * *
12601770 -ACCCAGGGAGGC-AGGGCTGGTGTCTTT-GATCTGCTTCGCTATA
1 GGTGCAGGAAGGCAAGATCTGCTATTTTTAG-TCTGCTTCGCTACA
12601813 GGTGCAGGAAGGCAAGATCTGCTATTTTTAGTCTGCTTCGCT
1 GGTGCAGGAAGGCAAGATCTGCTATTTTTAGTCTGCTTCGCT
12601855 GCAACCCAGG
Statistics
Matches: 59, Mismatches: 22, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
42 1 0.02
43 20 0.34
44 16 0.27
45 21 0.36
46 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.29
Consensus pattern (45 bp):
GGTGCAGGAAGGCAAGATCTGCTATTTTTAGTCTGCTTCGCTACA
Found at i:12601966 original size:88 final size:88
Alignment explanation
Indices: 12601432--12602009 Score: 805
Period size: 88 Copynumber: 6.6 Consensus size: 88
12601422 AGGGAGATAG
* * * * * * * *
12601432 GGCTGGGGTCATCAATCTGCTTCGCTGTCGGTGTAGGAAGGTAAGATATACTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
12601497 TCCGCTGCAACCCAGGGAGACAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
12601520 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGAAGACAAGATCTGCTATTTTCAGCATGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
12601585 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
12601608 GGCTGGTGTCTTCGATCTGTTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTTGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
12601673 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
12601696 GGCTGGTGACTTCGATTTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
12601761 TCCGCTGCAACCCAGGGAGGCAG
66 TCCGCTGCAACCCAGGGAGGCAA
* * * *
12601784 GGCTGGTGTCTTTGATCTGCTTCGCTATAGGTGCAGGAAGGCAAGATCTGCTATTTTTAGTCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
*
12601849 TTCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * ** * * *
12601872 GACTGGTGACTTCAATCTGCTTCGCTGTCGGTGCAAAAATGTAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
12601937 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * ** *
12601960 GGCTGGTGTCTTTGATTTGCTTCGCTGCCAATACAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
12602010 TTATCTTCAC
Statistics
Matches: 430, Mismatches: 60, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 430 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:12608531 original size:3 final size:3
Alignment explanation
Indices: 12608523--12608556 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
12608513 ATATGTAGAT
12608523 ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A
12608557 CAAAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:12608537 original size:21 final size:18
Alignment explanation
Indices: 12608521--12608556 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
12608511 ATATATGTAG
12608521 ATATAATAATAATATATA
1 ATATAATAATAATATATA
12608539 ATATAATAATAATA-ATA
1 ATATAATAATAATATATA
12608556 A
1 A
12608557 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATATAATAATAATATATA
Found at i:12608566 original size:21 final size:21
Alignment explanation
Indices: 12608523--12608572 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
12608513 ATATGTAGAT
* *
12608523 ATAATAATAATATATAATATA
1 ATAATAATAATACAAAATATA
12608544 ATAATAATAATAACAAAAT-TA
1 ATAATAATAAT-ACAAAATATA
12608565 ATAA-AATA
1 ATAATAATA
12608573 GACTAAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.15
21 17 0.65
22 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAATAATAATACAAAATATA
Found at i:12608816 original size:19 final size:21
Alignment explanation
Indices: 12608778--12608816 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
12608768 CCTTTTTTAA
*
12608778 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
12608799 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
12608817 AGAAAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:12609019 original size:23 final size:22
Alignment explanation
Indices: 12608976--12609033 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
12608966 AAAGGGTATC
* *
12608976 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
12608997 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
12609020 TACATATCATATCT
1 TACAAATCATATCT
12609034 AAGATTGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:12610430 original size:20 final size:21
Alignment explanation
Indices: 12610390--12610430 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12610380 ATTAGAATTT
*
12610390 AATAGTATTACTAATACATAA
1 AATAATATTACTAATACATAA
*
12610411 AATAATATTA-TAATATATAA
1 AATAATATTACTAATACATAA
12610431 CTATTACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
AATAATATTACTAATACATAA
Found at i:12610442 original size:30 final size:30
Alignment explanation
Indices: 12610389--12610466 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 30
12610379 TATTAGAATT
* *
12610389 TAATAGTATTACTAATACATAAAATAATATT-A
1 TAATA-TATAACTATTACAT-AAA-AATATTAA
12610421 TAATATATAACTATTAC-TAAAAATATTAA
1 TAATATATAACTATTACATAAAAATATTAA
12610450 TACATATATAACTATTA
1 TA-ATATATAACTATTA
12610467 TTATTATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 6 0.14
29 6 0.14
30 15 0.36
31 10 0.24
32 5 0.12
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.38
Consensus pattern (30 bp):
TAATATATAACTATTACATAAAAATATTAA
Found at i:12610855 original size:234 final size:232
Alignment explanation
Indices: 12610463--12611022 Score: 625
Period size: 234 Copynumber: 2.4 Consensus size: 232
12610453 ATATATAACT
* * *
12610463 ATTATTATTATATT---GATTATAAT-AAAGATATAGTATTACACGATA-T-TAATGTTTAATCA
1 ATTATTATTATATTACATATTATAATAAAAGATATAATATTACATGATATTATAATGTTTAATCA
12610522 TTGATGCATATATATATAAACTATTAATA--TATTACATGATATGATATAACATTATATAATAAT
66 TTGATGCATA-A-ATATAAACTATTAATATTTATTACATGATATGATATAACATTATATAATAAT
* * *
12610585 GTAGGAAGTCTAACATTCAAATGTACGAAAAATATAGAG-ACTTAGAGCATATTTCAACTAGTAT
129 GTAGGAAGACTAACATTCAAATGTACGAAAAATATAGAGAAC-TAAAGCATATTTCAACCAGTAT
*
12610649 AATA-ATAAACAACAATATATAATAAT-ATT-TATGTATA
193 AATATATAAACAACAATATATAATAATAATTATATATATA
12610686 ATTATTATTATATTACATATTATAATAAAAGATATAATATTACATGATATTATAATGTTTAATCA
1 ATTATTATTATATTACATATTATAATAAAAGATATAATATTACATGATATTATAATGTTTAATCA
* * *
12610751 TTGATGCACAAATATAAACTATTAATATTTTATAAACTATATGATATGATATATCATTATATAAT
66 TTGATGCATAAATATAAACTATTAATA-TTTAT----TACATGATATGATATAACATTATATAAT
* *
12610816 -ATAGTAGGATA-ACTAACTTTCAAATGTACGAAAAATATAGGGAACTAAAGCATATTTCAACCA
126 AAT-GTAGGA-AGACTAACATTCAAATGTACGAAAAATATAGAGAACTAAAGCATATTTCAACCA
* *
12610879 GTATAATATATAAACAATAATATATGATAATAATTAATATATATA
189 GTATAATATATAAACAACAATATATAATAATAATT-ATATATATA
* * ** *
12610924 ATGTGTTACTAT-TATATCATAGAATAACATAAAA-AT-T-ATATTACATGATATTATAACGTTT
1 AT-TATTATTATAT-TA-CATATTAT-A-ATAAAAGATATAATATTACATGATATTATAATGTTT
* * ** *
12610985 AATTATTAATGTGTATATATAAACTATTAATATATTAT
61 AATCATTGATGCATAAATATAAACTATTAATAT-TTAT
12611023 GTACTACTCT
Statistics
Matches: 286, Mismatches: 25, Indels: 36
0.82 0.07 0.10
Matches are distributed among these distances:
223 14 0.05
226 8 0.03
227 36 0.13
228 2 0.01
229 22 0.08
230 3 0.01
233 2 0.01
234 84 0.29
235 23 0.08
236 3 0.01
238 11 0.04
239 62 0.22
240 7 0.02
241 3 0.01
242 6 0.02
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.38
Consensus pattern (232 bp):
ATTATTATTATATTACATATTATAATAAAAGATATAATATTACATGATATTATAATGTTTAATCA
TTGATGCATAAATATAAACTATTAATATTTATTACATGATATGATATAACATTATATAATAATGT
AGGAAGACTAACATTCAAATGTACGAAAAATATAGAGAACTAAAGCATATTTCAACCAGTATAAT
ATATAAACAACAATATATAATAATAATTATATATATA
Found at i:12611238 original size:16 final size:14
Alignment explanation
Indices: 12611201--12611243 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 14
12611191 CTCGCAATAT
12611201 ATAAAATATTATTA
1 ATAAAATATTATTA
*
12611215 AAAAAATATTATCTCA
1 ATAAAATATTAT-T-A
12611231 ATAAAATATTATT
1 ATAAAATATTATT
12611244 TTTATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.44
15 2 0.08
16 12 0.48
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAAAATATTATTA
Found at i:12611723 original size:18 final size:18
Alignment explanation
Indices: 12611697--12611732 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12611687 CATATAATAT
*
12611697 CATAGAATAATAAATTTA
1 CATACAATAATAAATTTA
*
12611715 CATACAATAATCAATTTA
1 CATACAATAATAAATTTA
12611733 ATTATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.33
Consensus pattern (18 bp):
CATACAATAATAAATTTA
Found at i:12617807 original size:6 final size:6
Alignment explanation
Indices: 12617776--12617866 Score: 119
Period size: 6 Copynumber: 14.0 Consensus size: 6
12617766 TGAAAAAGTA
12617776 AAAATTG AAAATTG AAAAATG AAAAATG AAAAATG AAAAATG AAAAATG
1 AAAA-TG AAAA-TG -AAAATG -AAAATG -AAAATG -AAAATG -AAAATG
12617825 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
12617867 TTCTCTTTTT
Statistics
Matches: 83, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
6 42 0.51
7 37 0.45
8 4 0.05
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (6 bp):
AAAATG
Found at i:12617836 original size:12 final size:13
Alignment explanation
Indices: 12617765--12617866 Score: 129
Period size: 12 Copynumber: 7.7 Consensus size: 13
12617755 TGAATATACC
*
12617765 ATGAAAAAGTAAAA
1 ATGAAAATG-AAAA
12617779 ATTGAAAATTGAAAA
1 A-TGAAAA-TGAAAA
12617794 ATGAAAAATGAAAA
1 ATG-AAAATGAAAA
12617808 ATGAAAAATGAAAA
1 ATG-AAAATGAAAA
12617822 ATGAAAATG-AAA
1 ATGAAAATGAAAA
12617834 ATGAAAATG-AAA
1 ATGAAAATGAAAA
12617846 ATGAAAATG-AAA
1 ATGAAAATGAAAA
12617858 ATGAAAATG
1 ATGAAAATG
12617867 TTCTCTTTTT
Statistics
Matches: 84, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
12 36 0.43
13 6 0.07
14 26 0.31
15 15 0.18
16 1 0.01
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.18
Consensus pattern (13 bp):
ATGAAAATGAAAA
Found at i:12620033 original size:24 final size:24
Alignment explanation
Indices: 12620000--12620053 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
12619990 GTATCTTGAA
* *
12620000 CTTTGCAATCGGAAGACTTCTAGT
1 CTTTGAAATCGAAAGACTTCTAGT
*
12620024 CTTTGAAATCGAAAGACTTTTAGT
1 CTTTGAAATCGAAAGACTTCTAGT
12620048 CTTTGA
1 CTTTGA
12620054 CTTGTGCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (24 bp):
CTTTGAAATCGAAAGACTTCTAGT
Found at i:12623776 original size:7 final size:7
Alignment explanation
Indices: 12623764--12623809 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
12623754 ACTTCTGATC
12623764 AGTGACA
1 AGTGACA
12623771 AGTGACA
1 AGTGACA
12623778 AGTGACA
1 AGTGACA
12623785 AGTGACA
1 AGTGACA
12623792 AGTGACA
1 AGTGACA
*
12623799 AGTGATA
1 AGTGACA
12623806 AGTG
1 AGTG
12623810 TTACCTTTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.41, C:0.11, G:0.30, T:0.17
Consensus pattern (7 bp):
AGTGACA
Found at i:12623869 original size:51 final size:51
Alignment explanation
Indices: 12623785--12623907 Score: 219
Period size: 51 Copynumber: 2.4 Consensus size: 51
12623775 ACAAGTGACA
* *
12623785 AGTGACAAGTGACAAGTGATAAGTGTTACCTTTAGCTACACTTATTTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTACCTTTAGCTACACTTATCTGATC
*
12623836 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTACCTTTAGCTACACTTATCTGATC
12623887 AGTGACAAGTGACAAGTGATA
1 AGTGACAAGTGACAAGTGATA
12623908 TATGTGATCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGACAAGTGATAAGTGGTACCTTTAGCTACACTTATCTGATC
Found at i:12630256 original size:142 final size:142
Alignment explanation
Indices: 12630000--12630283 Score: 559
Period size: 142 Copynumber: 2.0 Consensus size: 142
12629990 CATGAAGTGC
12630000 TTCGAGTGTGGGCTCGAACCTATTGAATCAAAACTTAGAACTAGAAAAAGTTTTCTTTTATCTTT
1 TTCGAGTGTGGGCTCGAACCTATTGAATCAAAACTTAGAACTAGAAAAAGTTTTCTTTTATCTTT
12630065 GGGGTGAAAAAAATATCTCTTATTTAATAGAAACCAATAAAATTATTATTCTAGAAAAATATATT
66 GGGGTGAAAAAAATATCTCTTATTTAATAGAAACCAATAAAATTATTATTCTAGAAAAATATATT
12630130 TAGTAGTTGAGA
131 TAGTAGTTGAGA
12630142 TTCGAGTGTGGGCTCGAACCTATTGAATCAAAACTTAGAACTAGAAAAAGTTTTCTTTTATCTTT
1 TTCGAGTGTGGGCTCGAACCTATTGAATCAAAACTTAGAACTAGAAAAAGTTTTCTTTTATCTTT
*
12630207 GGGGTGAAAAAAATATCTCTTATTTAATAGAAACCAATAAAATTGTTATTCTAGAAAAATATATT
66 GGGGTGAAAAAAATATCTCTTATTTAATAGAAACCAATAAAATTATTATTCTAGAAAAATATATT
12630272 TAGTAGTTGAGA
131 TAGTAGTTGAGA
12630284 ATAAATTCTC
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 141 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (142 bp):
TTCGAGTGTGGGCTCGAACCTATTGAATCAAAACTTAGAACTAGAAAAAGTTTTCTTTTATCTTT
GGGGTGAAAAAAATATCTCTTATTTAATAGAAACCAATAAAATTATTATTCTAGAAAAATATATT
TAGTAGTTGAGA
Found at i:12634257 original size:23 final size:23
Alignment explanation
Indices: 12634231--12634375 Score: 191
Period size: 23 Copynumber: 6.2 Consensus size: 23
12634221 ATTGGGTATA
* *
12634231 TATATATGCTATCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
12634254 TATAAATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
*
12634277 TATAAATGCTGCCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* * *
12634300 TATATATGCTGTCCAATTTGATA
1 TATAAATGCTGTCCAATTTGGTG
*
12634323 TATATATATGCTGTCCAATTGGGTG
1 TATA-A-ATGCTGTCCAATTTGGTG
* *
12634348 TATAAATGCTGTCCGATTTGATG
1 TATAAATGCTGTCCAATTTGGTG
12634371 TATAA
1 TATAA
12634376 GAGATATCCA
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
23 86 0.81
24 1 0.01
25 19 0.18
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (23 bp):
TATAAATGCTGTCCAATTTGGTG
Found at i:12634386 original size:71 final size:69
Alignment explanation
Indices: 12634231--12634386 Score: 179
Period size: 71 Copynumber: 2.2 Consensus size: 69
12634221 ATTGGGTATA
* * * * *
12634231 TATATATGCTATCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGCCCAATTT
1 TATATAAGATATCCAATTTGATATATAAATGCTGTCCAATTGGGTGTATAAATGCTGCCCAATTT
*
12634296 GGTG
66 GATG
* * * * *
12634300 TATATATGCTGTCCAATTTGATATATATATATGCTGTCCAATTGGGTGTATAAATGCTGTCCGAT
1 TATATAAGATATCCAATTTGATATATA-A-ATGCTGTCCAATTGGGTGTATAAATGCTGCCCAAT
12634365 TTGATG
64 TTGATG
12634371 TATA-AGAGATATCCAA
1 TATATA-AGATATCCAA
12634387 ATAGGGTAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
69 24 0.32
70 2 0.03
71 48 0.65
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (69 bp):
TATATAAGATATCCAATTTGATATATAAATGCTGTCCAATTGGGTGTATAAATGCTGCCCAATTT
GATG
Found at i:12639118 original size:21 final size:22
Alignment explanation
Indices: 12639092--12639141 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
12639082 TTTCAAAAAC
12639092 TGAATTTC-TAT-CAGTGTTTT
1 TGAATTTCGTATGCAGTGTTTT
*
12639112 TGAAATTCGTATGCAGTGTTTT
1 TGAATTTCGTATGCAGTGTTTT
12639134 TGAATTTC
1 TGAATTTC
12639142 AGGTCGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 7 0.27
21 3 0.12
22 16 0.62
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.50
Consensus pattern (22 bp):
TGAATTTCGTATGCAGTGTTTT
Found at i:12640819 original size:56 final size:51
Alignment explanation
Indices: 12640602--12640849 Score: 236
Period size: 50 Copynumber: 4.8 Consensus size: 51
12640592 TGATAATAAC
* ** * * *
12640602 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TTCTTAT-A
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCATCTCA
* * ** * *
12640651 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATTTCT-CATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCATCTCA
* * * *
12640701 GTGCCCATGCTATGTCCGAGACATGGTCTTACGA-GGGACCTC-CCATCTCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCCATCTCA
* *
12640751 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--CATCTC-A
*
12640805 TGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 --ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
12640850 TTACCCAAAT
Statistics
Matches: 164, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
49 42 0.26
50 73 0.45
51 2 0.01
53 5 0.03
54 1 0.01
56 41 0.25
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (51 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCCATCTCA
Found at i:12642351 original size:13 final size:13
Alignment explanation
Indices: 12642333--12642357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12642323 GAATTAATAT
12642333 GTGTGAAAATTTC
1 GTGTGAAAATTTC
12642346 GTGTGAAAATTT
1 GTGTGAAAATTT
12642358 TATTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:12643530 original size:43 final size:42
Alignment explanation
Indices: 12643467--12643592 Score: 141
Period size: 43 Copynumber: 2.9 Consensus size: 42
12643457 AAGATTCCGT
12643467 TATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCATCAAC
1 TATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATC-AC
**
12643511 T-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGT
1 TATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAC
* *
12643553 TATGTGATTACATGTAAGACCACGTCTGGAACGTTGGCAT
1 TATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
12643593 TGTACGATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 3 0.04
43 62 0.87
44 6 0.08
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (42 bp):
TATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCATCAC
Found at i:12645483 original size:102 final size:101
Alignment explanation
Indices: 12645307--12645650 Score: 478
Period size: 102 Copynumber: 3.4 Consensus size: 101
12645297 TATCGATGAA
* * * *
12645307 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGATCGCTAAATAATGGTCACATGTGCAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGTAGTAC
*
12645372 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGGT
* *
12645409 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGATCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGTAGTAC
12645474 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* * * *
12645511 TACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGATCACGTGTATAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGATCACATGTGTAGTA
* * * * *
12645574 CTATGTGAAGGCTACTACGTGAACCGTAAAAC-TTGAT
65 CTAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
*
12645611 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
12645651 ATGATAAAAG
Statistics
Matches: 218, Mismatches: 21, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
100 41 0.19
101 46 0.21
102 130 0.60
103 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGCTTTGGT
Found at i:12645577 original size:50 final size:50
Alignment explanation
Indices: 12645307--12645649 Score: 368
Period size: 51 Copynumber: 6.8 Consensus size: 50
12645297 TATCGATGAA
* * *
12645307 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGATCGCTAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGAT
* * * * * * * * *
12645358 CACATGTGCAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTA-AAAC-TTGAT
* ***
12645409 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAAACTTGAT
* * * * * *
12645460 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAA-C-TTGAT
*
12645511 TACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGAT
* *
12645561 CACGTGTATAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGAT
*
12645611 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG
12645650 AATGATAAAA
Statistics
Matches: 240, Mismatches: 44, Indels: 17
0.80 0.15 0.06
Matches are distributed among these distances:
49 4 0.02
50 89 0.37
51 140 0.58
52 6 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGTAAAACTTGAT
Found at i:12647615 original size:23 final size:22
Alignment explanation
Indices: 12647584--12647729 Score: 123
Period size: 23 Copynumber: 6.2 Consensus size: 22
12647574 TGATTGGGTA
12647584 TATATATACTGTCCAATTTGGTG
1 TATA-ATACTGTCCAATTTGGTG
*
12647607 TATCAATACTATCCAATTTGGTG
1 TAT-AATACTGTCCAATTTGGTG
*
12647630 TATAAAATGCTGTCCAATTTGGTG
1 TAT--AATACTGTCCAATTTGGTG
*
12647654 TATATATGA-TGTCCAATTTGGTA
1 TATA-AT-ACTGTCCAATTTGGTG
* *
12647677 TATATATATGCTGTCCGATTTGATG
1 TATA-ATA--CTGTCCAATTTGGTG
* * *
12647702 TATAAGAGCTGTCCGATTTGATG
1 TATAATA-CTGTCCAATTTGGTG
12647725 TATAA
1 TATAA
12647730 GAGTTGTCCA
Statistics
Matches: 106, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
22 2 0.02
23 66 0.62
24 23 0.22
25 15 0.14
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (22 bp):
TATAATACTGTCCAATTTGGTG
Found at i:12647651 original size:47 final size:48
Alignment explanation
Indices: 12647582--12647705 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 48
12647572 ATTGATTGGG
* * *
12647582 TATATATATACTGTCCAATTTGGTGTATCA-AT-ACTATCCAATTTGGTG
1 TATATAAATGCTGTCCAATTTGGTGTAT-ATATGA-TATCCAATTTGGTA
*
12647630 TATA-AAATGCTGTCCAATTTGGTGTATATATGATGTCCAATTTGGTA
1 TATATAAATGCTGTCCAATTTGGTGTATATATGATATCCAATTTGGTA
* * *
12647677 TATATATATGCTGTCCGATTTGATGTATA
1 TATATAAATGCTGTCCAATTTGGTGTATA
12647706 AGAGCTGTCC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
46 1 0.02
47 39 0.59
48 26 0.39
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (48 bp):
TATATAAATGCTGTCCAATTTGGTGTATATATGATATCCAATTTGGTA
Found at i:12647730 original size:23 final size:23
Alignment explanation
Indices: 12647686--12647738 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
12647676 ATATATATAT
12647686 GCTGTCCGATTTGATGTATAAGA
1 GCTGTCCGATTTGATGTATAAGA
12647709 GCTGTCCGATTTGATGTATAAGA
1 GCTGTCCGATTTGATGTATAAGA
*
12647732 GTTGTCC
1 GCTGTCC
12647739 AAATAGGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (23 bp):
GCTGTCCGATTTGATGTATAAGA
Found at i:12654260 original size:43 final size:43
Alignment explanation
Indices: 12654211--12654311 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
12654201 AATGAAAAAT
* * **
12654211 TACTGGCACATATAGTACATCATCAGGT-AAGCTGAAGCAATTA
1 TACTGGCACACAAAGTACATCATCAAATGAA-CTGAAGCAATTA
* *
12654254 TGCTGGCACACAAAGTGCATCATCAAATGAACTGAAGCAATTA
1 TACTGGCACACAAAGTACATCATCAAATGAACTGAAGCAATTA
*
12654297 TACTGGCACCCAAAG
1 TACTGGCACACAAAG
12654312 ATAAACTGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 47 0.96
44 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (43 bp):
TACTGGCACACAAAGTACATCATCAAATGAACTGAAGCAATTA
Found at i:12654391 original size:42 final size:41
Alignment explanation
Indices: 12654339--12654520 Score: 143
Period size: 42 Copynumber: 4.4 Consensus size: 41
12654329 AGCTGGCATG
**
12654339 TAAGTGCATCATCGGTTGTAGCGAAGCAAATATATTGGCACA
1 TAAGTGCATCATCGGACGTA-CGAAGCAAATATATTGGCACA
* ** * * * *
12654381 TGAGTGCATCATCAAATCG-ACGAAGCAATTATACTAGTACA
1 TAAGTGCATCATCGGA-CGTACGAAGCAAATATATTGGCACA
* * *** **
12654422 TTAGTACATCATCGGATAAACTGAAGCAAATATACTT-GCATG
1 TAAGTGCATCATCGGACGTAC-GAAGCAAATATA-TTGGCACA
* *
12654464 TAAGTGCATCATCGAACGTACCGAAGCAAATATATTGTCACA
1 TAAGTGCATCATCGGACGTA-CGAAGCAAATATATTGGCACA
12654506 TAAGTGCATCATCGG
1 TAAGTGCATCATCGG
12654521 CTAAACCAAA
Statistics
Matches: 104, Mismatches: 30, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
41 33 0.32
42 68 0.65
43 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (41 bp):
TAAGTGCATCATCGGACGTACGAAGCAAATATATTGGCACA
Found at i:12656426 original size:11 final size:11
Alignment explanation
Indices: 12656412--12656468 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
12656402 ATTGAATTAA
*
12656412 TAAAATACTAT
1 TAAAATAATAT
12656423 TAAAATAAGTAT
1 TAAAATAA-TAT
*
12656435 TAAATTTAATAT
1 TAAA-ATAATAT
*
12656447 T-AAAT-TTAT
1 TAAAATAATAT
12656456 TAAAATAATAT
1 TAAAATAATAT
12656467 TA
1 TA
12656469 TTTTTGAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 4 0.11
10 5 0.14
11 14 0.38
12 11 0.30
13 3 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:12662636 original size:32 final size:34
Alignment explanation
Indices: 12662573--12662636 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
12662563 TCTAATAATT
* *
12662573 TCACTATTATAAAACTATTTTCCTTAAAAGAATG
1 TCACTATTATAAAACCATTCTCCTTAAAAGAATG
12662607 TCAC-ATTATAAAACCATTCT-CTTAAAAGAA
1 TCACTATTATAAAACCATTCTCCTTAAAAGAA
12662637 AATCGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.36
33 14 0.50
34 4 0.14
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (34 bp):
TCACTATTATAAAACCATTCTCCTTAAAAGAATG
Found at i:12663572 original size:23 final size:22
Alignment explanation
Indices: 12663530--12663607 Score: 138
Period size: 23 Copynumber: 3.5 Consensus size: 22
12663520 TTGATTTGTT
12663530 CTGGAAATTGTTTGATTGTCTG
1 CTGGAAATTGTTTGATTGTCTG
12663552 CTGGAAATTGTTATGATTGTCTG
1 CTGGAAATTGTT-TGATTGTCTG
12663575 CTGGAAATTGTTTTGATTGTCTG
1 CTGGAAATTG-TTTGATTGTCTG
12663598 CTGGAAATTG
1 CTGGAAATTG
12663608 AATTTGTTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
22 12 0.22
23 40 0.74
24 2 0.04
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.44
Consensus pattern (22 bp):
CTGGAAATTGTTTGATTGTCTG
Found at i:12664913 original size:95 final size:96
Alignment explanation
Indices: 12664794--12664975 Score: 321
Period size: 95 Copynumber: 1.9 Consensus size: 96
12664784 AAATAATTAC
12664794 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAACAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAACAA
12664859 GGACTTTAATATTTTATTAAAATAAGGACTA
66 GGACTTTAATATTTTATTAAAATAAGGACTA
* * * *
12664890 ATCAATAATTAAAAT-AGGACTTTAATATTTTATTAAAATAAGGACTAATTAATATTTAAAATAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAACAA
12664954 GGACTTTAATATTTTATTAAAA
66 GGACTTTAATATTTTATTAAAA
12664976 ATCAAGAAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
95 67 0.82
96 15 0.18
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (96 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTAATCAATAATTAAAACAA
GGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:12664927 original size:47 final size:48
Alignment explanation
Indices: 12664794--12664975 Score: 321
Period size: 48 Copynumber: 3.8 Consensus size: 48
12664784 AAATAATTAC
*
12664794 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
12664842 ATCAATAATTAAAACAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
12664890 ATCAATAATTAAAAT-AGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
* *
12664937 ATTAATATTTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
12664976 ATCAAGAAAT
Statistics
Matches: 128, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 45 0.35
48 83 0.65
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:12668311 original size:92 final size:91
Alignment explanation
Indices: 12668154--12668362 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
12668144 TTGATTTTAG
* * *
12668154 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
12668219 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
12668246 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
12668310 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
12668338 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
12668363 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:12668325 original size:24 final size:25
Alignment explanation
Indices: 12668290--12668337 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
12668280 TTATGAAATT
12668290 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
12668314 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
12668338 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:12668540 original size:15 final size:15
Alignment explanation
Indices: 12668505--12668556 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
12668495 TTAAGAATTT
*
12668505 TATTAAATTAT-ATA
1 TATTTAATTATAATA
12668519 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
12668533 TATTTAATAATAAT-
1 TATTTAATTATAATA
12668547 TATGTTAATT
1 TAT-TTAATT
12668557 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:12668626 original size:120 final size:122
Alignment explanation
Indices: 12668378--12668677 Score: 452
Period size: 120 Copynumber: 2.5 Consensus size: 122
12668368 AATTATTTTA
* * *
12668378 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTCATT
*
12668442 TATAGTATCATATATATTAGCATGTTAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATATTAGCATGTTAGTAAATTCATATAAGAATATTAATTATTAAG
12668500 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTAT-ATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TCA-T
*
12668563 TTACAGTATC--ATCTATTATG-AT-TTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATATTA-GCATGTT-AGTAAATTCATATAAGAATATTAATTATTAAG
12668620 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
12668678 ATGATTAAAT
Statistics
Matches: 166, Mismatches: 5, Indels: 14
0.90 0.03 0.08
Matches are distributed among these distances:
119 2 0.01
120 92 0.55
121 9 0.05
122 61 0.37
123 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (122 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTCATTT
ACAGTATCATATATATTAGCATGTTAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:12668655 original size:16 final size:16
Alignment explanation
Indices: 12668634--12668675 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12668624 TTATTAAATT
*
12668634 ATATATTTTAATTATA
1 ATATATTTTAATAATA
12668650 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
12668665 AT-TATGTTTAA
1 ATATAT-TTTAA
12668676 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:12668660 original size:15 final size:15
Alignment explanation
Indices: 12668625--12668666 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12668615 TTAAGAATTT
*
12668625 TATTAAATTAT-ATA
1 TATTTAATTATAATA
12668639 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
12668653 TATTTAATAATAAT
1 TATTTAATTATAAT
12668667 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:12668787 original size:157 final size:154
Alignment explanation
Indices: 12668609--12668922 Score: 529
Period size: 157 Copynumber: 2.0 Consensus size: 154
12668599 ATAAGAATAT
*
12668609 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
12668674 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAAT---AA
** *
12668739 TAATAATTTATTAAAACAAATTTCTGC
128 TAATAATTTACCAAAACAAATTTATGC
12668766 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
12668831 AAATATGATTAAAATATTTATTATTGATAATAATTATCTTATTAAAATTTAAATAACAATAATAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAATAA
*
12668896 TCATTTACCAAAACAAATTTATGC
131 TAATTTACCAAAACAAATTTATGC
12668920 TAA
1 TAA
12668923 GGGTATTCTA
Statistics
Matches: 149, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
154 28 0.19
157 121 0.81
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (154 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAATAA
TAATTTACCAAAACAAATTTATGC
Found at i:12668806 original size:18 final size:17
Alignment explanation
Indices: 12668778--12668812 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12668768 ATTATTAAGA
*
12668778 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
12668795 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
12668813 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:12669066 original size:16 final size:16
Alignment explanation
Indices: 12669045--12669080 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
12669035 GATTTGCTAT
12669045 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
12669061 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
12669077 TACA
1 TACA
12669081 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:12671399 original size:28 final size:28
Alignment explanation
Indices: 12671367--12671423 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
12671357 TTAATAATAA
12671367 AGTCTTAAGAATAATATGATTATTCTTG
1 AGTCTTAAGAATAATATGATTATTCTTG
12671395 AGTCTTAAGAATAATATGATTATTCTTG
1 AGTCTTAAGAATAATATGATTATTCTTG
12671423 A
1 A
12671424 AAGTCCTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (28 bp):
AGTCTTAAGAATAATATGATTATTCTTG
Found at i:12674011 original size:50 final size:50
Alignment explanation
Indices: 12673951--12674113 Score: 247
Period size: 50 Copynumber: 3.3 Consensus size: 50
12673941 AATATGTGAG
12673951 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
*
12674001 TCATGTAAGACC-TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
* * * * * **
12674050 CCCTGTAAGACTATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
12674100 CCATGTAAGACCAT
1 CCATGTAAGACCAT
12674114 ATTTGAGATA
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
49 46 0.46
50 55 0.54
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
Found at i:12674127 original size:50 final size:50
Alignment explanation
Indices: 12673951--12674134 Score: 244
Period size: 50 Copynumber: 3.7 Consensus size: 50
12673941 AATATGTGAG
*
12673951 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* *
12674001 TCATGTAAGACC-TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * * **
12674050 CCCTGTAAGACTATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * *
12674100 CCATGTAAGACCATATTTGAGATATGGCATTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
12674135 GTACAGAAAA
Statistics
Matches: 117, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 46 0.39
50 71 0.61
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
Found at i:12674176 original size:49 final size:49
Alignment explanation
Indices: 12673955--12674183 Score: 151
Period size: 49 Copynumber: 4.6 Consensus size: 49
12673945 TGTGAGCCAT
* * * * ** * *
12673955 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCTCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-CGATAAGAAAACTCCCAC
* * * * **
12674005 GTAAGACC-TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCC-C
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-CGATAAGAAAACTCCCAC
* * * * *
12674053 TGTAAGACTATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCAT
1 -GTAAGACCATGTCTGGGACATGGCATTGGCA-CGATAAGAAAACTCCCAC
* * * * *
12674104 GTAAGACCATATTTGAGATATGGCATTGGCA-G-TACAGAAAACATCCTAC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACGATA-AGAAAAC-TCCCAC
*
12674153 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
12674184 TGTTATTATC
Statistics
Matches: 150, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
47 2 0.01
48 6 0.04
49 75 0.50
50 67 0.45
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACGATAAGAAAACTCCCAC
Found at i:12674411 original size:20 final size:20
Alignment explanation
Indices: 12674386--12674428 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
12674376 TGAGTTATTT
*
12674386 AAGTAAGCA-AGTAAGTAAAG
1 AAGTAAG-AGAGTAAGAAAAG
12674406 AAGTAAGAGAGTAAGAAAAG
1 AAGTAAGAGAGTAAGAAAAG
12674426 AAG
1 AAG
12674429 AAGTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.58, C:0.02, G:0.28, T:0.12
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGAAAAG
Found at i:12678635 original size:17 final size:18
Alignment explanation
Indices: 12678603--12678637 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
12678593 CCATGATATT
12678603 CGCCTATGTCGGCCCACA
1 CGCCTATGTCGGCCCACA
*
12678621 CGCCTGTGT-GGCCCACA
1 CGCCTATGTCGGCCCACA
12678638 TGACCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.43, G:0.26, T:0.17
Consensus pattern (18 bp):
CGCCTATGTCGGCCCACA
Found at i:12683639 original size:17 final size:19
Alignment explanation
Indices: 12683611--12683647 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
12683601 AAAATTCGAA
12683611 TTTATTTCCCAAT-TTAAT
1 TTTATTTCCCAATATTAAT
12683629 TTTATTT-CCAATATTAAT
1 TTTATTTCCCAATATTAAT
12683647 T
1 T
12683648 AATTGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATTTCCCAATATTAAT
Done.