Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 60 of 332
Found at i:17865185 original size:24 final size:23
Alignment explanation
Indices: 17865158--17865209 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
17865148 AGAATATACC
*
17865158 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
17865182 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
17865205 TAATA
1 TAATA
17865210 ACAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:17865718 original size:30 final size:30
Alignment explanation
Indices: 17865677--17865775 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
17865667 TAGGTACAAG
17865677 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
17865707 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
17865737 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
17865767 TGGTGGTGG
1 TGGTGGTGG
17865776 CAAAGGCTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.17, C:0.06, G:0.51, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:17870272 original size:10 final size:10
Alignment explanation
Indices: 17870258--17870297 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
17870248 TTTATTTTCG
17870258 TTTATCTTTA
1 TTTATCTTTA
*
17870268 ATTATCTTTA
1 TTTATCTTTA
17870278 TTTAT-TTGTA
1 TTTATCTT-TA
17870288 TTTATCTTTA
1 TTTATCTTTA
17870298 GAATTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:17881845 original size:13 final size:13
Alignment explanation
Indices: 17881827--17881858 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
17881817 TAATACATCT
17881827 CTTCCTTACTATA
1 CTTCCTTACTATA
17881840 CTTCCTTACTATA
1 CTTCCTTACTATA
17881853 CTTCCT
1 CTTCCT
17881859 ATTTTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (13 bp):
CTTCCTTACTATA
Found at i:17883019 original size:11 final size:11
Alignment explanation
Indices: 17883003--17883027 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17882993 ATAGGCTAAA
17883003 TACTAAAATTT
1 TACTAAAATTT
17883014 TACTAAAATTT
1 TACTAAAATTT
17883025 TAC
1 TAC
17883028 ACTACTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (11 bp):
TACTAAAATTT
Found at i:17884987 original size:29 final size:29
Alignment explanation
Indices: 17884955--17885013 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
17884945 CCTATACTCA
17884955 TTCCCATATCCTTGAATTGGGAATAATGT
1 TTCCCATATCCTTGAATTGGGAATAATGT
17884984 TTCCCATATCCTTGAATTGGGAATAATGT
1 TTCCCATATCCTTGAATTGGGAATAATGT
17885013 T
1 T
17885014 GGCTTAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (29 bp):
TTCCCATATCCTTGAATTGGGAATAATGT
Found at i:17885498 original size:30 final size:30
Alignment explanation
Indices: 17885464--17885526 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
17885454 ACTTATTTTA
17885464 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
17885494 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
17885524 TTG
1 TTG
17885527 CTTGTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:17885678 original size:12 final size:12
Alignment explanation
Indices: 17885648--17885680 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
17885638 TATATATTTT
17885648 AAAATT-ATATA
1 AAAATTAATATA
17885659 AAAA-TAATATA
1 AAAATTAATATA
17885670 AAAATTAATAT
1 AAAATTAATAT
17885681 GGGTCGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:17895202 original size:40 final size:40
Alignment explanation
Indices: 17895158--17895385 Score: 379
Period size: 40 Copynumber: 5.7 Consensus size: 40
17895148 GCTACTAGCT
*
17895158 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
17895198 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
17895238 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
17895278 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
17895318 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
17895357 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
17895386 CAATCCGAAT
Statistics
Matches: 179, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
38 1 0.01
39 34 0.19
40 143 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:17903268 original size:43 final size:45
Alignment explanation
Indices: 17903208--17903321 Score: 160
Period size: 45 Copynumber: 2.6 Consensus size: 45
17903198 ATGATGGGCT
*
17903208 TTAACCCCCTAAGCAGTAGGGTAACAAGCCG-A-ATTTACAAGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAAGATTTACAAACC
* * *
17903251 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAAGATTTACAAACC
* *
17903296 TTAACCCCCTAACCAGTAGGGAAACA
1 TTAACCCCCTAAGCAGTAGGGTAACA
17903322 GATCGAAGAC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 29 0.46
44 1 0.02
45 33 0.52
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.19
Consensus pattern (45 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAAGATTTACAAACC
Found at i:17903304 original size:45 final size:43
Alignment explanation
Indices: 17903208--17903374 Score: 158
Period size: 45 Copynumber: 3.8 Consensus size: 43
17903198 ATGATGGGCT
* *
17903208 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCCGAATTTACAAACC
* *
17903251 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCCG-A-ATTTACAAACC
* * ** * **
17903296 TTAACCCCCTAACCAGTAGGGAAACAGATCGAA--GACGAAGGGTC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCCGAATTTAC-AA--ACC
* *
17903340 TTAAACCCCTAAGCAGTAGGGTAACAGACCGAATT
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCCGAATT
17903375 GTAGATCTTA
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 30 0.29
44 33 0.32
45 35 0.34
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (43 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGGCCGAATTTACAAACC
Found at i:17903357 original size:44 final size:44
Alignment explanation
Indices: 17903293--17903452 Score: 139
Period size: 44 Copynumber: 3.7 Consensus size: 44
17903283 AGATTTACAA
* *
17903293 ATCTTAACCCCCTAACCAGTAGGGAAACAGATCGAAGACGAAGG
1 ATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGG
* * * ** *
17903337 GTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAA-TTGTA-G
1 ATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGG
* * * * *
17903379 ATCTT-ATCTCCCTAAGCATTAGTGGAGATA-ATCGAAGACGAAGA
1 ATCTTAAAC-CCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGG
* *
17903423 ACCTTAAACCCCTAAGCAGTAGGGCAACAG
1 ATCTTAAACCCCTAAGCAGTAGGGAAACAG
17903453 GTTAAATTCA
Statistics
Matches: 85, Mismatches: 25, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
41 2 0.02
42 22 0.26
43 12 0.14
44 47 0.55
45 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (44 bp):
ATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGG
Found at i:17903669 original size:68 final size:68
Alignment explanation
Indices: 17903555--17903686 Score: 246
Period size: 68 Copynumber: 1.9 Consensus size: 68
17903545 AAATCAAATA
*
17903555 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGA
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGA
17903620 ACC
66 ACC
*
17903623 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAATAGATCTCCTTGAAGTTTCAGCG
1 TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCG
17903687 GAAGAAGATC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (68 bp):
TCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGA
ACC
Found at i:17904123 original size:14 final size:14
Alignment explanation
Indices: 17904106--17904139 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17904096 AATATAAGAG
*
17904106 TCCAATAGCCCAAA
1 TCCAATAACCCAAA
17904120 TCCAATAACCCAAA
1 TCCAATAACCCAAA
*
17904134 CCCAAT
1 TCCAAT
17904140 TTATAAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.38, G:0.03, T:0.15
Consensus pattern (14 bp):
TCCAATAACCCAAA
Found at i:17927676 original size:41 final size:41
Alignment explanation
Indices: 17927610--17927759 Score: 185
Period size: 41 Copynumber: 3.7 Consensus size: 41
17927600 TTGGGGTTTA
*
17927610 AATCCGAGTTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
17927651 AATCTGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * * *
17927692 AAT-CGAACCTAGTTTCGAAGGGCCTTCGGGCTAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
17927732 AATCCGAGCTTGTTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
17927760 TGAGTTAGCG
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 30 0.34
41 59 0.66
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:17934886 original size:41 final size:41
Alignment explanation
Indices: 17934829--17934949 Score: 199
Period size: 41 Copynumber: 3.0 Consensus size: 41
17934819 TTTAAATCTG
17934829 AGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATTCA
1 AGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATTCA
* * *
17934870 AGCTTGGTCTCGAAGGGCTTTTGAACCAGTGTCATAATCCG
1 AGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATTCA
*
17934911 AGCTTGGTCTCGAAGGGCTTTTCAGCCAGTGT-ATAATTC
1 AGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATTC
17934950 CCTTGGTCTA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
40 6 0.08
41 68 0.92
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (41 bp):
AGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATTCA
Found at i:17935507 original size:6 final size:6
Alignment explanation
Indices: 17935498--17935525 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
17935488 AATTGAAATG
17935498 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
17935526 TAAATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:17935535 original size:5 final size:5
Alignment explanation
Indices: 17935522--17935566 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
17935512 AAGAAAAAGA
*
17935522 AAAAT -AAAT AAAAT AAAAT AAAAT AAAAAT AAGAAT AAATT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAA
17935567 AAATAGGAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 4 0.11
5 21 0.60
6 10 0.29
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:17935540 original size:10 final size:10
Alignment explanation
Indices: 17935522--17935566 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
17935512 AAGAAAAAGA
17935522 AAAAT-AAAT
1 AAAATAAAAT
17935531 AAAATAAAAT
1 AAAATAAAAT
17935541 AAAATAAAAAT
1 AAAAT-AAAAT
*
17935552 AAGAATAAATT
1 AA-AATAAAAT
17935563 AAAA
1 AAAA
17935567 AAATAGGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
9 5 0.16
10 11 0.34
11 13 0.41
12 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:17935559 original size:31 final size:30
Alignment explanation
Indices: 17935510--17935571 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
17935500 AAGAAAAAGA
17935510 AAAAGAAAAAGAAAAATAAATAAAATAAAAT
1 AAAAGAAAAAGAAAAATAAATAAAA-AAAAT
* * * *
17935541 AAAATAAAAATAAGAATAAATTAAAAAAAT
1 AAAAGAAAAAGAAAAATAAATAAAAAAAAT
17935571 A
1 A
17935572 GGAGGATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (30 bp):
AAAAGAAAAAGAAAAATAAATAAAAAAAAT
Found at i:17940972 original size:13 final size:13
Alignment explanation
Indices: 17940950--17940982 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
17940940 AAGGATTTGT
17940950 TTAT-TAAACTAA
1 TTATCTAAACTAA
17940962 TTATCTAAACTAA
1 TTATCTAAACTAA
*
17940975 TTAACTAA
1 TTATCTAA
17940983 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:17945168 original size:20 final size:21
Alignment explanation
Indices: 17945125--17945169 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
17945115 TTATTTTCAT
17945125 TTTAA-TTTATGTTTTTAATG
1 TTTAATTTTATGTTTTTAATG
17945145 -TTAATTTTAT-TTGTTT-ATG
1 TTTAATTTTATGTT-TTTAATG
17945164 TTTAAT
1 TTTAAT
17945170 AAGGGGGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (21 bp):
TTTAATTTTATGTTTTTAATG
Found at i:17947638 original size:20 final size:21
Alignment explanation
Indices: 17947597--17947641 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
17947587 AACACATGTA
* *
17947597 TTCA-CAAAATTTGAGAATTT
1 TTCATCAAAATTTGACAAATT
17947617 TTCATCAAAATTT-ACAAATT
1 TTCATCAAAATTTGACAAATT
17947637 TTCAT
1 TTCAT
17947642 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (21 bp):
TTCATCAAAATTTGACAAATT
Found at i:17948745 original size:60 final size:59
Alignment explanation
Indices: 17948668--17948808 Score: 153
Period size: 60 Copynumber: 2.4 Consensus size: 59
17948658 TTTAGTGTTA
*
17948668 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-TAC-AGTAAC-AGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAG-CCCTATACAAGT--CGAGA-TAT
* * **
17948729 ACTGGGCCTAGCCCATATTAGTATCAATCTGGGCTGTAGCCCTATACAAGTCGAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAGTCGAGATAT
* *
17948788 ATTGGGCCTTGCCCATATCAA
1 ACTGGGCCTAGCCCATATCAA
17948809 CACAATTGGG
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
59 25 0.37
60 32 0.47
61 11 0.16
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAGTCGAGATAT
Found at i:17949449 original size:16 final size:15
Alignment explanation
Indices: 17949428--17949460 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
17949418 CACAAAATGC
17949428 TGGCTTTTCGGCATTT
1 TGGCTTTTCGGC-TTT
17949444 TGGCTTTTCGGCTTT
1 TGGCTTTTCGGCTTT
17949459 TG
1 TG
17949461 CCGATCTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.03, C:0.18, G:0.27, T:0.52
Consensus pattern (15 bp):
TGGCTTTTCGGCTTT
Found at i:17952003 original size:188 final size:188
Alignment explanation
Indices: 17951668--17952041 Score: 649
Period size: 188 Copynumber: 2.0 Consensus size: 188
17951658 ACTGTTACAC
* *
17951668 ACAGACATCTTTACAATTCAAATATCCTTTCTCCGACTAATTTTGTTATCATAAACCCCGTATTA
1 ACAGACATCTTCACAATTCAAATATCCTTTCCCCGACTAATTTTGTTATCATAAACCCCGTATTA
* *
17951733 TTCCACTCACTATCGAAAATCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGTGA
66 TTCCACTCACTATCGAAAACCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGCGA
*
17951798 TAATGAGATAGAGTTACCATAAATTTCGTATCAGGATTGTCATAATCTCCAAAAAGTA
131 TAATGAGATAAAGTTACCATAAATTTCGTATCAGGATTGTCATAATCTCCAAAAAGTA
* * *
17951856 ACAGTCATCTTCACAATTCAAATATTCTTTCCCCGACTAATTTTGTTATCATAAACCCCGTATTG
1 ACAGACATCTTCACAATTCAAATATCCTTTCCCCGACTAATTTTGTTATCATAAACCCCGTATTA
* *
17951921 TTCCAGTCACTATCGAAACCCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGCGA
66 TTCCACTCACTATCGAAAACCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGCGA
*
17951986 TAATGAGATAAAGTTACCATAAATTTCGTATCGGGATTGTCATAATCTCCAAAAAG
131 TAATGAGATAAAGTTACCATAAATTTCGTATCAGGATTGTCATAATCTCCAAAAAG
17952042 GGAGATGTTA
Statistics
Matches: 175, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 175 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (188 bp):
ACAGACATCTTCACAATTCAAATATCCTTTCCCCGACTAATTTTGTTATCATAAACCCCGTATTA
TTCCACTCACTATCGAAAACCAAGTGTATTCAGAAATAATACAGTCAGTGATGGTACAGGAGCGA
TAATGAGATAAAGTTACCATAAATTTCGTATCAGGATTGTCATAATCTCCAAAAAGTA
Found at i:17958147 original size:2 final size:2
Alignment explanation
Indices: 17958140--17958168 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17958130 CCTCAACATA
17958140 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
17958169 TATATAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:17959769 original size:5 final size:5
Alignment explanation
Indices: 17959759--17959838 Score: 73
Period size: 5 Copynumber: 17.0 Consensus size: 5
17959749 TTTTTTTATA
* *
17959759 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-ATAT TTACT -TAA-
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT
* *
17959807 ATAAT A-AGT A-AAT AT-AT ATAAT GTAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
17959839 TATATGAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
4 16 0.26
5 45 0.73
6 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:17964942 original size:105 final size:105
Alignment explanation
Indices: 17964760--17964970 Score: 404
Period size: 105 Copynumber: 2.0 Consensus size: 105
17964750 AGAGTATGAG
* *
17964760 AATGAAATTACTATGAGTAAACAGGCATGTACGTAAGCCTAAAATTGTAAATTCATGATTATTGT
1 AATGAAATTACTATAAGTAAACAGGCATATACGTAAGCCTAAAATTGTAAATTCATGATTATTGT
17964825 GGAAATAATTGTTTACTACCCATTGTGGTTGATAGTGTAC
66 GGAAATAATTGTTTACTACCCATTGTGGTTGATAGTGTAC
17964865 AATGAAATTACTATAAGTAAACAGGCATATACGTAAGCCTAAAATTGTAAATTCATGATTATTGT
1 AATGAAATTACTATAAGTAAACAGGCATATACGTAAGCCTAAAATTGTAAATTCATGATTATTGT
17964930 GGAAATAATTGTTTACTACCCATTGTGGTTGATAGTGTAC
66 GGAAATAATTGTTTACTACCCATTGTGGTTGATAGTGTAC
17964970 A
1 A
17964971 TACTTGTGAT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (105 bp):
AATGAAATTACTATAAGTAAACAGGCATATACGTAAGCCTAAAATTGTAAATTCATGATTATTGT
GGAAATAATTGTTTACTACCCATTGTGGTTGATAGTGTAC
Found at i:17966680 original size:68 final size:69
Alignment explanation
Indices: 17966541--17966721 Score: 249
Period size: 68 Copynumber: 2.6 Consensus size: 69
17966531 CATGTGAAGG
* * * *
17966541 ACACGGCCTCAGGACATGGGCACGTG-CTCTGGCCGTGTGAAGTCTACACTTGATTTTGGAATTT
1 ACACGGCCTAAGCACACGGGCATGTGACT-TGGCCGTGTGAA---TACACTTGATTTTGGAATTT
17966605 AAGTTGCC
62 AAGTTGCC
*
17966613 ACACGGCCTAAGCACACGGGCATGTGACTTGGCCGTGTGAA-ACACTTGATTTTGTAATTTAAGT
1 ACACGGCCTAAGCACACGGGCATGTGACTTGGCCGTGTGAATACACTTGATTTTGGAATTTAAGT
17966677 TGCC
66 TGCC
* *
17966681 ACACGGCCTAAGCACACGGCCATGTGACTTGGTCGTGTGAA
1 ACACGGCCTAAGCACACGGGCATGTGACTTGGCCGTGTGAA
17966722 CCTATTTAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
68 65 0.64
72 34 0.34
73 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (69 bp):
ACACGGCCTAAGCACACGGGCATGTGACTTGGCCGTGTGAATACACTTGATTTTGGAATTTAAGT
TGCC
Found at i:17967710 original size:15 final size:15
Alignment explanation
Indices: 17967690--17967718 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17967680 TTACTCATGT
17967690 TGACAATATTTTTAA
1 TGACAATATTTTTAA
17967705 TGACAATATTTTTA
1 TGACAATATTTTTA
17967719 CTTAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (15 bp):
TGACAATATTTTTAA
Found at i:17977314 original size:5 final size:5
Alignment explanation
Indices: 17977297--17977331 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
17977287 TCTTAGACCA
17977297 AATAT ATATAT AATAT AATAT AATAT AATAT AATA
1 AATAT A-ATAT AATAT AATAT AATAT AATAT AATA
17977332 AATTAGGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:17977451 original size:22 final size:21
Alignment explanation
Indices: 17977422--17977463 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
17977412 CCTTAAGCAT
17977422 TAAAAAAT-AATAAAATAAAAA
1 TAAAAAATAAAT-AAATAAAAA
17977443 TAAATAAATAAATAAATAAAA
1 TAAA-AAATAAATAAATAAAA
17977464 TGAAGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 12 0.63
23 3 0.16
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAAAAATAAATAAATAAAAA
Found at i:17981374 original size:19 final size:19
Alignment explanation
Indices: 17981350--17981391 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
17981340 ACAAATATAT
17981350 AAGGCAAGACTAGAGGTTA
1 AAGGCAAGACTAGAGGTTA
17981369 AAGGCAAGACTAGAGGTTA
1 AAGGCAAGACTAGAGGTTA
17981388 AAGG
1 AAGG
17981392 GTTTACTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.10, G:0.33, T:0.14
Consensus pattern (19 bp):
AAGGCAAGACTAGAGGTTA
Found at i:17985326 original size:13 final size:14
Alignment explanation
Indices: 17985302--17985330 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17985292 TAATGTTAAA
17985302 AAAATATATTATTT
1 AAAATATATTATTT
17985316 AAAAT-TATTATTT
1 AAAATATATTATTT
17985329 AA
1 AA
17985331 GTTCAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATATATTATTT
Found at i:17989223 original size:12 final size:12
Alignment explanation
Indices: 17989206--17989237 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
17989196 TGAGACACAA
17989206 GCCCGTGTCTCT
1 GCCCGTGTCTCT
17989218 GCCCGTGTCTCT
1 GCCCGTGTCTCT
17989230 GCCCGTGT
1 GCCCGTGT
17989238 GGACAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.41, G:0.28, T:0.31
Consensus pattern (12 bp):
GCCCGTGTCTCT
Found at i:17990143 original size:41 final size:40
Alignment explanation
Indices: 17990081--17990261 Score: 172
Period size: 41 Copynumber: 4.5 Consensus size: 40
17990071 AATACTCGAT
* * *
17990081 ATCTCGCACACTAAGTACCTTTCATAGCTGAAGCTATTATA
1 ATCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATT-CA
17990122 ATCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTAT-TCA
* * * *
17990163 GTCTCACACACTAAGTGCCATAT-ATAGCCGAAGCTATTCCG
1 ATCTCGCACACTAAGTGCC-TTTCATAGCCGAAGCTATT-CA
* * *
17990204 AT-TTGCACACTAAGTG-CTTTATATAGCCGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCTTT-CATAGCCGAAGCTAT-TCA
* *
17990244 AT-ACGCACACTAAATGCC
1 ATCTCGCACACTAAGTGCC
17990262 AAACATAATC
Statistics
Matches: 119, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 42 0.35
41 71 0.60
42 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (40 bp):
ATCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATTCA
Found at i:17994208 original size:26 final size:25
Alignment explanation
Indices: 17994179--17994278 Score: 110
Period size: 26 Copynumber: 3.9 Consensus size: 25
17994169 AATTTTCTTG
*
17994179 AAATTTTATCGGGGGTAAAATTGTTA
1 AAATTTTA-CGGGGGTAAAATTGTCA
* *
17994205 AAATTTTATCAGGGGTAAAATCGTCA
1 AAATTTTA-CGGGGGTAAAATTGTCA
* *
17994231 AAATTTTACGAAGGATAAAATTGTCA
1 AAATTTTACG-GGGGTAAAATTGTCA
* *
17994257 AAATTTTACTGGGGTAGAATTG
1 AAATTTTACGGGGGTAAAATTG
17994279 GGGTGAGAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
25 10 0.16
26 52 0.84
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (25 bp):
AAATTTTACGGGGGTAAAATTGTCA
Found at i:17995510 original size:29 final size:29
Alignment explanation
Indices: 17995468--17995526 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
17995458 GGAGTTCGAG
17995468 ATAGTTTTTTTCTCTTTGCTCGACGTTCT
1 ATAGTTTTTTTCTCTTTGCTCGACGTTCT
17995497 ATAGTTTTTTTCTCTTTGCTCGACGTTCT
1 ATAGTTTTTTTCTCTTTGCTCGACGTTCT
17995526 A
1 A
17995527 GTCACTCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.12, C:0.20, G:0.14, T:0.54
Consensus pattern (29 bp):
ATAGTTTTTTTCTCTTTGCTCGACGTTCT
Found at i:17997281 original size:30 final size:30
Alignment explanation
Indices: 17997245--17997305 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
17997235 AATAATTTAA
*
17997245 GAGTGGAATGATCTAGAAACTAAGGAAAAT
1 GAGTGGAATGATCTAGAAACTAAGAAAAAT
17997275 GAGTGGAATGATCTAGAAACTAAGAAAAAT
1 GAGTGGAATGATCTAGAAACTAAGAAAAAT
17997305 G
1 G
17997306 GATGAATTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.48, C:0.07, G:0.26, T:0.20
Consensus pattern (30 bp):
GAGTGGAATGATCTAGAAACTAAGAAAAAT
Found at i:17999731 original size:46 final size:46
Alignment explanation
Indices: 17999679--17999987 Score: 408
Period size: 46 Copynumber: 7.0 Consensus size: 46
17999669 AGTGTGCTCT
17999679 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
17999725 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
17999771 C-----TG---TGTGTAAGACCATGGTT-AAAGATACCATGG-AAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
17999807 CTGATATG-AATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
17999852 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
17999898 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
17999944 ATGACA-GAAAATGAGTAAGATCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
17999988 TCACGTCAAA
Statistics
Matches: 238, Mismatches: 14, Indels: 22
0.87 0.05 0.08
Matches are distributed among these distances:
36 4 0.02
37 13 0.05
38 17 0.07
41 4 0.02
43 17 0.07
44 13 0.05
45 12 0.05
46 158 0.66
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:18000289 original size:23 final size:25
Alignment explanation
Indices: 18000244--18000290 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18000234 AATAAATATA
*
18000244 CATAAAATATATGAAAATGATGAAG
1 CATAAAATATATGAAAATAATGAAG
*
18000269 CATAAAATAT-TG-ATATAATGAA
1 CATAAAATATATGAAAATAATGAA
18000291 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGAAAATAATGAAG
Found at i:18002861 original size:28 final size:28
Alignment explanation
Indices: 18002793--18002946 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
18002783 CATGAGATTG
* * * *
18002793 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
18002822 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
18002850 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
18002878 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
18002906 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
18002933 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
18002947 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.65
29 18 0.16
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:18010799 original size:40 final size:40
Alignment explanation
Indices: 18010715--18010898 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
18010705 TTGAATGCTG
* * * *
18010715 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
18010754 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
18010795 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
18010835 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
18010875 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
18010899 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:18010852 original size:80 final size:81
Alignment explanation
Indices: 18010715--18010895 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
18010705 TTGAATGCTG
* * *
18010715 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
18010779 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
18010795 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
18010856 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
18010875 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
18010896 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:18010919 original size:39 final size:38
Alignment explanation
Indices: 18010796--18010945 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
18010786 GTTATTAATT
* ** * *
18010796 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
18010836 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
18010875 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
18010915 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
18010946 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:18015449 original size:6 final size:6
Alignment explanation
Indices: 18015431--18015550 Score: 61
Period size: 6 Copynumber: 19.3 Consensus size: 6
18015421 AAGAAACATT
* * * *
18015431 ATCAGA A-CTAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
18015480 ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA ATCA-A TATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA -ATCA-G-A
*
18015531 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
18015551 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 14, Indels: 28
0.67 0.11 0.22
Matches are distributed among these distances:
5 8 0.09
6 61 0.71
7 12 0.14
8 4 0.05
9 1 0.01
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:18015487 original size:31 final size:31
Alignment explanation
Indices: 18015440--18015550 Score: 143
Period size: 31 Copynumber: 3.5 Consensus size: 31
18015430 TATCAGAACT
* * * *
18015440 AGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* *
18015471 AGAATCAAAATCAGAATCAGTATCAGGTAAT
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
18015502 AGAATCAAAATCAGAATCA-ATATCAGGTAAC
1 AGAATCAAAATCAGAATCAGA-ATCAGGTAAC
18015533 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
18015551 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
31 59 0.84
32 11 0.16
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:18015730 original size:27 final size:26
Alignment explanation
Indices: 18015687--18015788 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
18015677 GCTCAGTTAT
** *
18015687 CAGATATTGTGATAGAGTCACCAAATA
1 CAGATATTGTGGCAGAGCCACCAAA-A
*
18015714 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAAAA
*
18015740 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCA-AAA
* *
18015768 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
18015789 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.77
28 8 0.12
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAAAA
Found at i:18015975 original size:22 final size:22
Alignment explanation
Indices: 18015947--18016011 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
18015937 GCAAATACGT
18015947 TTGGCACACAGCCATAATCAGG
1 TTGGCACACAGCCATAATCAGG
*
18015969 TTGGCACACAGCCAT-ATGTAGG
1 TTGGCACACAGCCATAAT-CAGG
* *
18015991 TTGACACAAAGCCATAATCAG
1 TTGGCACACAGCCATAATCAG
18016012 AATGCTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGGCACACAGCCATAATCAGG
Found at i:18016493 original size:27 final size:27
Alignment explanation
Indices: 18016436--18016602 Score: 239
Period size: 27 Copynumber: 6.3 Consensus size: 27
18016426 AAAGTATCTT
* *
18016436 GGTAATTCCACCCTACA-GGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18016462 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18016489 GGTAATTCTACCCTACAGAGGTATTT-
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18016515 TGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18016542 GGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18016569 GGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
18016596 AGTAATT
1 GGTAATT
18016603 TCACAATTGA
Statistics
Matches: 128, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
26 38 0.30
27 90 0.70
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:18016502 original size:53 final size:52
Alignment explanation
Indices: 18016411--18016602 Score: 253
Period size: 53 Copynumber: 3.6 Consensus size: 52
18016401 GGGCAAAATG
* * * *
18016411 GTAATTTTACCCCACAA-AGTATCTT-GGTAATTCCACCCTACAGGGTATTTT
1 GTAATTCTACCCTACAAGGGTAT-TTCGGTAATTCTACCCTACAGGGTATTTT
*
18016462 AGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTT
1 -GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAG-GGTATTTT
*
18016516 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACATGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTATTT-T
* *
18016570 GTAATTCTACCCTACATGGGTATTTCAGTAATT
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATT
18016603 TCACAATTGA
Statistics
Matches: 126, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
52 16 0.13
53 70 0.56
54 40 0.32
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (52 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTATTTT
Found at i:18016564 original size:80 final size:79
Alignment explanation
Indices: 18016410--18016594 Score: 257
Period size: 80 Copynumber: 2.3 Consensus size: 79
18016400 GGGGCAAAAT
* * * *
18016410 GGTAATTTTACCCCACA-AAGTATCTTGGTAATTCCACCCTACAGGGTATTTTAGTAATTCTACC
1 GGTAATTCTACCCTACAGAGGTAT-TTGGTAATTCCACCCTACAGGGTATTTCAGTAATTCTACC
18016474 CTACAGGGGTATTTC
65 CTACAGGGGTATTTC
* * *
18016489 GGTAATTCTACCCTACAGAGGTATTTTGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
1 GGTAATTCTACCCTACAGAGGTATTTGGTAATTCCACCCTAC-AGGGTATTTCAGTAATTCTACC
*
18016554 CTACATGGGTATTTC
65 CTACAGGGGTATTTC
18016569 GGTAATTCTACCCTACATG-GGTATTT
1 GGTAATTCTACCCTACA-GAGGTATTT
18016595 CAGTAATTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
79 31 0.33
80 63 0.66
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (79 bp):
GGTAATTCTACCCTACAGAGGTATTTGGTAATTCCACCCTACAGGGTATTTCAGTAATTCTACCC
TACAGGGGTATTTC
Found at i:18016625 original size:80 final size:80
Alignment explanation
Indices: 18016463--18016628 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 80
18016453 GGGTATTTTA
* **
18016463 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTTGTAATTCTACCC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTAGTAATTCTACAA
***
18016528 TACAAGGGTATTTCG
66 TACAAGGGTAAAACG
*
18016543 GTAATTCTACCCTACATGGGTATTTCGGTAATTCTACCCTACATG-GGTATTTCAGTAATT-TCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACA-GAGGTATTT-AGTAATTCT-A
**
18016606 CAAT-TGAGGGTAAAACG
63 CAATACAAGGGTAAAACG
18016623 GTAATT
1 GTAATT
18016629 GTGTAAACTG
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
80 64 0.86
81 10 0.14
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (80 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTAGTAATTCTACAA
TACAAGGGTAAAACG
Found at i:18016643 original size:27 final size:27
Alignment explanation
Indices: 18016611--18016803 Score: 246
Period size: 27 Copynumber: 7.2 Consensus size: 27
18016601 TTTCACAATT
* *
18016611 GAGGGTAAAACGGTAATTGTGTAAA-C
1 GAGGGTAAAACGGTAATTCTATAAATC
* * *
18016637 TGAGGGTAAAATGGTAATTTTGTAAATC
1 -GAGGGTAAAACGGTAATTCTATAAATC
18016665 GAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
*
18016692 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* * *
18016719 GAAGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
18016746 GAGGGTGAAACGGTAATT-TATAAATT
1 GAGGGTAAAACGGTAATTCTATAAATC
* *
18016772 GAGGGTAAAATGGTAATTCTACAAATC
1 GAGGGTAAAACGGTAATTCTATAAATC
18016799 GAGGG
1 GAGGG
18016804 CATTTCAGTA
Statistics
Matches: 146, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 22 0.15
27 123 0.84
28 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACGGTAATTCTATAAATC
Found at i:18016726 original size:81 final size:80
Alignment explanation
Indices: 18016611--18016800 Score: 283
Period size: 81 Copynumber: 2.4 Consensus size: 80
18016601 TTTCACAATT
* * * * *
18016611 GAGGGTAAAACGGTAATTGTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAA
1 GAGGGTAAAATGGTAATTCTATAAATC-GAAGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAA
18016675 CGGTAATTCTATAAATC
65 CGGTAATT-TATAAATC
*
18016692 GAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAAC
1 GAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAC
*
18016757 GGTAATTTATAAATT
66 GGTAATTTATAAATC
*
18016772 GAGGGTAAAATGGTAATTCTACAAATCGA
1 GAGGGTAAAATGGTAATTCTATAAATCGA
18016801 GGGCATTTCA
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
80 35 0.35
81 64 0.64
82 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.28
Consensus pattern (80 bp):
GAGGGTAAAATGGTAATTCTATAAATCGAAGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAC
GGTAATTTATAAATC
Found at i:18016815 original size:80 final size:81
Alignment explanation
Indices: 18016650--18016823 Score: 260
Period size: 80 Copynumber: 2.2 Consensus size: 81
18016640 GGGTAAAATG
*
18016650 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
* *
18016715 AATCGAAGGTAAAACG
66 AATCGAAGGCAAAACA
* *
18016731 GTAATTTTGTAAATCGAGGGTGAAACGGTAATT-TATAAATTGAGGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
* ***
18016795 AATCGAGGGCATTTCA
66 AATCGAAGGCAAAACA
18016811 GTAATTTTGTAAA
1 GTAATTTTGTAAA
18016824 CCAATAGTAT
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 52 0.62
81 32 0.38
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
AATCGAAGGCAAAACA
Found at i:18016835 original size:27 final size:28
Alignment explanation
Indices: 18016805--18016879 Score: 68
Period size: 29 Copynumber: 2.7 Consensus size: 28
18016795 AATCGAGGGC
18016805 ATTTCAGTAATTTTGTAAA-CCAATA-GT
1 ATTTCAGTAATTTTGTAAAGCCAA-AGGT
*
18016832 ATTTCTA-TAATTTT-TAGAAAGTCAAAGGT
1 ATTTC-AGTAATTTTGT--AAAGCCAAAGGT
*
18016861 ATTTCTGTAATTTTGTAAA
1 ATTTCAGTAATTTTGTAAA
18016880 TCAGGGGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
26 1 0.03
27 12 0.31
28 8 0.21
29 17 0.44
30 1 0.03
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (28 bp):
ATTTCAGTAATTTTGTAAAGCCAAAGGT
Found at i:18016897 original size:27 final size:27
Alignment explanation
Indices: 18016858--18017061 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
18016848 GAAAGTCAAA
** *
18016858 GGTATTTCT-GTAATTTTGTAAATCAGG
1 GGTATTT-TGGTAATTTTACAAACCAGG
** *
18016885 GGTATTTTGGTAATTTTACAAATTAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
* * * *
18016912 GGTATTTCGATAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACCAGG
**
18016939 GGTATTTTAATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
18016966 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* * *
18016993 GGTATTTTGGTAATTTTATAAACAAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
18017020 GGTATTTTAGTAA-TTTACAAGCCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
18017046 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
18017062 CGTAAACTAA
Statistics
Matches: 148, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 22 0.15
27 126 0.85
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:18016969 original size:81 final size:80
Alignment explanation
Indices: 18016881--18017061 Score: 256
Period size: 81 Copynumber: 2.2 Consensus size: 80
18016871 TTTTGTAAAT
* *
18016881 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGATAATTTCACAAAC-CAGTGGTATT
1 CAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGATAATTTCACAAACAAAG-GGTATT
18016945 TTAATAATTTTACAAAC
65 TTAATAA-TTTACAAAC
* * * * *
18016962 CAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGATAATTTCACAAACAAAGGGTATTT
* *
18017027 TAGTAATTTACAAGC
66 TAATAATTTACAAAC
18017042 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
18017062 CGTAAACTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 28 0.31
81 60 0.67
82 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (80 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGATAATTTCACAAACAAAGGGTATTT
TAATAATTTACAAAC
Found at i:18019127 original size:66 final size:67
Alignment explanation
Indices: 18018997--18019130 Score: 234
Period size: 66 Copynumber: 2.0 Consensus size: 67
18018987 ATACACTGAT
*
18018997 ATAATGACTCATAGAGTCGTACATGTCCTATAAGTATAGCGTATAGCTAACACTCTCCAACACAC
1 ATAATGACTCATAGAGTCGTACATGTCCCATAAGTATAGCGTATAGCTAACACTCTCCAACACAC
18019062 CA
66 CA
* *
18019064 ATAATGACTCATAGAGTCGTACATGTCCCA-AAGTGTAGCGTATAGCTAACACTCTTCAACACAC
1 ATAATGACTCATAGAGTCGTACATGTCCCATAAGTATAGCGTATAGCTAACACTCTCCAACACAC
18019128 CA
66 CA
18019130 A
1 A
18019131 ACACATATAT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
66 35 0.55
67 29 0.45
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (67 bp):
ATAATGACTCATAGAGTCGTACATGTCCCATAAGTATAGCGTATAGCTAACACTCTCCAACACAC
CA
Found at i:18021648 original size:18 final size:20
Alignment explanation
Indices: 18021625--18021664 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
18021615 AGCATCGATC
18021625 TCAAAAA-CAT-AAAAATCA
1 TCAAAAACCATAAAAAATCA
18021643 TCAAAAACGCATAAAAAATCA
1 TCAAAAAC-CATAAAAAATCA
18021664 T
1 T
18021665 ACCTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
20 3 0.16
21 9 0.47
ACGTcount: A:0.62, C:0.17, G:0.03, T:0.17
Consensus pattern (20 bp):
TCAAAAACCATAAAAAATCA
Found at i:18022378 original size:8 final size:8
Alignment explanation
Indices: 18022365--18022389 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18022355 TATGTTTATC
18022365 ATTTCACA
1 ATTTCACA
18022373 ATTTCACA
1 ATTTCACA
18022381 ATTTCACA
1 ATTTCACA
18022389 A
1 A
18022390 GCATACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTTCACA
Found at i:18024634 original size:46 final size:47
Alignment explanation
Indices: 18024505--18024657 Score: 144
Period size: 46 Copynumber: 3.4 Consensus size: 47
18024495 TCGATGCCAT
* * *
18024505 TCCCAGACATGGTCTTACACT-G-ACACATCTC-GTAGCCGATGCATG
1 TCCCAGACATGGTCTTACACTAGCACTCATCTCAAT-GCCGAAGCATG
* *
18024550 TCCC-GACAT-GTCTTACACTAGCTTA-T-ATCTTAAGGCCGAAGCATG
1 TCCCAGACATGGTCTTACACTAGC--ACTCATCTCAATGCCGAAGCATG
* *
18024595 TCCCAGTCAT-GTCTTACACTAGCACTCATCTCAATGCCG-ATCTATG
1 TCCCAGACATGGTCTTACACTAGCACTCATCTCAATGCCGAAGC-ATG
18024641 TCCCAGACATGGTCTTA
1 TCCCAGACATGGTCTTA
18024658 TGTTGGCTCT
Statistics
Matches: 88, Mismatches: 10, Indels: 18
0.76 0.09 0.16
Matches are distributed among these distances:
43 10 0.11
44 7 0.08
45 25 0.28
46 39 0.44
47 7 0.08
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
TCCCAGACATGGTCTTACACTAGCACTCATCTCAATGCCGAAGCATG
Found at i:18025921 original size:27 final size:26
Alignment explanation
Indices: 18025859--18025944 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 26
18025849 AGCATGGCTG
* * *
18025859 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAATAGATAATGTGGCAGAGCCA
* *
18025885 CCAAATATAGATAATCATGGCAGAGCCA
1 CCAGA-ATAGATAAT-GTGGCAGAGCCA
18025913 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAATAGATA-ATGTGGCAGAGCCA
18025940 CCAGA
1 CCAGA
18025945 TCAGATATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.08
27 31 0.62
28 15 0.30
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (26 bp):
CCAGAATAGATAATGTGGCAGAGCCA
Found at i:18025960 original size:27 final size:27
Alignment explanation
Indices: 18025903--18025970 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
18025893 AGATAATCAT
*
18025903 GGCAGAGCCACCAGAATAGATATATGT
1 GGCAGAGCCACCAGAATAGATATATGC
*
18025930 GGCAGAGCCACCAG-ATCAGATATTTGC
1 GGCAGAGCCACCAGAAT-AGATATATGC
18025957 GGCATG-GCCACCAG
1 GGCA-GAGCCACCAG
18025971 GATGCTTCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 2 0.05
27 34 0.92
28 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.28, T:0.16
Consensus pattern (27 bp):
GGCAGAGCCACCAGAATAGATATATGC
Found at i:18027603 original size:26 final size:26
Alignment explanation
Indices: 18027574--18027626 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
18027564 AATGCCCACA
18027574 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
*
18027600 ATGGAACATTTACCTAAGCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
18027626 A
1 A
18027627 ATTTTTATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:18030923 original size:34 final size:34
Alignment explanation
Indices: 18030873--18030989 Score: 135
Period size: 34 Copynumber: 3.4 Consensus size: 34
18030863 GGCTCGCATG
* * **
18030873 ACATATAGGCTTGCATAAACCTAGGGTTTGCATA
1 ACATATAGGCTCGCATAAACTTAGGGTTCACATA
* * * *
18030907 ATATGTAGGCTCGCATAGACTTATGGTTCACATA
1 ACATATAGGCTCGCATAAACTTAGGGTTCACATA
* *
18030941 ACATATAGGCTCGCATAATCTTAGGGTTCACATG
1 ACATATAGGCTCGCATAAACTTAGGGTTCACATA
*
18030975 GCATATAGGCTCGCA
1 ACATATAGGCTCGCA
18030990 CAGGTAGGGC
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (34 bp):
ACATATAGGCTCGCATAAACTTAGGGTTCACATA
Found at i:18030957 original size:17 final size:17
Alignment explanation
Indices: 18030862--18030958 Score: 63
Period size: 17 Copynumber: 5.7 Consensus size: 17
18030852 ATCCTACCCA
*
18030862 AGGCTCGCATGACATAT
1 AGGCTCGCATAACATAT
* *
18030879 AGGCTTGCATAAACCTA-
1 AGGCTCGCAT-AACATAT
* * * * *
18030896 GGGTTTGCATAATATGT
1 AGGCTCGCATAACATAT
*
18030913 AGGCTCGCATAGACTTAT
1 AGGCTCGCATA-ACATAT
* *
18030931 -GGTTCACATAACATAT
1 AGGCTCGCATAACATAT
18030947 AGGCTCGCATAA
1 AGGCTCGCATAA
18030959 TCTTAGGGTT
Statistics
Matches: 57, Mismatches: 19, Indels: 8
0.68 0.23 0.10
Matches are distributed among these distances:
16 8 0.14
17 42 0.74
18 7 0.12
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (17 bp):
AGGCTCGCATAACATAT
Found at i:18031398 original size:16 final size:16
Alignment explanation
Indices: 18031376--18031420 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
18031366 GGGTCACAGT
*
18031376 AGGGGGTTTGCATGTA
1 AGGGGGTTTGCATATA
*
18031392 TGGGGG-TTGCATATA
1 AGGGGGTTTGCATATA
*
18031407 AGGGGGTTCGCATA
1 AGGGGGTTTGCATA
18031421 CAGGGGTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.20, C:0.09, G:0.42, T:0.29
Consensus pattern (16 bp):
AGGGGGTTTGCATATA
Found at i:18032403 original size:41 final size:39
Alignment explanation
Indices: 18032334--18032428 Score: 100
Period size: 41 Copynumber: 2.4 Consensus size: 39
18032324 CCAGTTTGGA
* * * * *
18032334 ACCCAATGTCTCATCGAATAATTGAAGTAATAATTTGAC
1 ACCCAGTGCCTCATCAAATAATTGAAGTAACAAATTGAC
* *
18032373 ACTCAGTGCCTCATCAAATTAATTGGAAGTAGCAAATTGAC
1 ACCCAGTGCCTCATCAAA-TAATT-GAAGTAACAAATTGAC
*
18032414 ACCCAGTGTCTCATC
1 ACCCAGTGCCTCATC
18032429 GACTCAAAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 14 0.31
40 5 0.11
41 26 0.58
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (39 bp):
ACCCAGTGCCTCATCAAATAATTGAAGTAACAAATTGAC
Found at i:18033342 original size:28 final size:33
Alignment explanation
Indices: 18033271--18033336 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
18033261 CCTTTTTCTT
* *
18033271 TTCTTTC-CTTTCTATTTCTTTCTTTTTCGTTTG
1 TTCTTTCTATTTCTATTTCTTTC-TTTTCATTTG
18033304 TTCTTTCTATTTCTATTTCTTTC-TTT-ATTTG
1 TTCTTTCTATTTCTATTTCTTTCTTTTCATTTG
18033335 TT
1 TT
18033337 TTTATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 6 0.20
32 3 0.10
33 7 0.23
34 14 0.47
ACGTcount: A:0.06, C:0.18, G:0.05, T:0.71
Consensus pattern (33 bp):
TTCTTTCTATTTCTATTTCTTTCTTTTCATTTG
Found at i:18035811 original size:3 final size:3
Alignment explanation
Indices: 18035803--18035909 Score: 180
Period size: 3 Copynumber: 35.7 Consensus size: 3
18035793 TTTATTTCCT
18035803 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
18035851 TTC TTC TTC TTC TTC TTC TTC TCC TTC TTC TCC TTC TTC TTC -TC ATTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
18035899 TTC TTC TTC TT
1 TTC TTC TTC TT
18035910 TAGATCACTC
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.02
3 94 0.96
4 2 0.02
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:18038659 original size:22 final size:22
Alignment explanation
Indices: 18038634--18038677 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18038624 AAGGGTAGAC
18038634 GATTTTGGAGA-GAAGATTAAGG
1 GATTTTGGAGAGGAA-ATTAAGG
*
18038656 GATTTTGGTGAGGAAATTAAGG
1 GATTTTGGAGAGGAAATTAAGG
18038678 AGTGAGGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.30
Consensus pattern (22 bp):
GATTTTGGAGAGGAAATTAAGG
Found at i:18038988 original size:22 final size:22
Alignment explanation
Indices: 18038962--18039005 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18038952 AGGGGTGGAT
18038962 GATTTTGGGGA-GAAGATTAAGG
1 GATTTTGGGGAGGAA-ATTAAGG
*
18038984 GATTTTGGTGAGGAAATTAAGG
1 GATTTTGGGGAGGAAATTAAGG
18039006 AGTGAGGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.30
Consensus pattern (22 bp):
GATTTTGGGGAGGAAATTAAGG
Found at i:18048513 original size:18 final size:19
Alignment explanation
Indices: 18048490--18048526 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
18048480 GCGACAAGTG
18048490 ACGTTTTGGAAA-TTAATA
1 ACGTTTTGGAAATTTAATA
18048508 ACGTTTTGGAAATTTAATA
1 ACGTTTTGGAAATTTAATA
18048527 TCATTCTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (19 bp):
ACGTTTTGGAAATTTAATA
Found at i:18051940 original size:85 final size:85
Alignment explanation
Indices: 18051771--18052026 Score: 485
Period size: 85 Copynumber: 3.0 Consensus size: 85
18051761 TTTTGACTGG
18051771 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTAAAAAAAATTAAAAATGTAAAAGAATATTT
1 CCAAAAATCATTAAAATTATTTAAAATTGTATTTT-AAAAAAATTAAAAATGTAAAAGAATATTT
18051836 AAAAAACATTAAAAAATTATT
65 AAAAAACATTAAAAAATTATT
*
18051857 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTTAAAAAATTAAAAATGTAAAAGAATATTTA
1 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTAAAAAAATTAAAAATGTAAAAGAATATTTA
*
18051922 AAAAACATTAAAATATTATT
66 AAAAACATTAAAAAATTATT
18051942 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTAAAAAAATTAAAAATGTAAAAGAATATTTA
1 CCAAAAATCATTAAAATTATTTAAAATTGTATTTTAAAAAAATTAAAAATGTAAAAGAATATTTA
18052007 AAAAACATTAAAAAATTATT
66 AAAAACATTAAAAAATTATT
18052027 AAAAATGATA
Statistics
Matches: 166, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
85 131 0.79
86 35 0.21
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.35
Consensus pattern (85 bp):
CCAAAAATCATTAAAATTATTTAAAATTGTATTTTAAAAAAATTAAAAATGTAAAAGAATATTTA
AAAAACATTAAAAAATTATT
Found at i:18052047 original size:19 final size:19
Alignment explanation
Indices: 18051891--18052063 Score: 84
Period size: 20 Copynumber: 8.5 Consensus size: 19
18051881 AATTGTATTT
18051891 TTAAAAAA-TTAAAAATG-
1 TTAAAAAATTTAAAAATGA
* **
18051908 TAAAAGAATATTTAAAAAACA
1 TTAAA-AA-ATTTAAAAATGA
* *
18051929 TTAAAATATTATTCCAAAAATCA
1 TTAAAA-A--ATT-TAAAAATGA
* *
18051952 TTAAAATTATTTAAAATTGTA
1 TTAAAA-AATTTAAAAATG-A
*
18051973 TTTTAAAAAAATTAAAAATG-
1 --TTAAAAAATTTAAAAATGA
* **
18051993 TAAAAGAATATTTAAAAAACA
1 TTAAA-AA-ATTTAAAAATGA
18052014 TTAAAAAATTATTAAAAATGA
1 TTAAAAAA-T-TTAAAAATGA
18052035 -TAATAAAATTTAAAAATGA
1 TTAA-AAAATTTAAAAATGA
18052054 TTAAAAAATT
1 TTAAAAAATT
18052064 ATGAAAATTA
Statistics
Matches: 119, Mismatches: 20, Indels: 32
0.70 0.12 0.19
Matches are distributed among these distances:
17 4 0.03
18 6 0.05
19 20 0.17
20 31 0.26
21 25 0.21
22 13 0.11
23 20 0.17
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (19 bp):
TTAAAAAATTTAAAAATGA
Found at i:18052062 original size:40 final size:41
Alignment explanation
Indices: 18051804--18052070 Score: 183
Period size: 42 Copynumber: 6.4 Consensus size: 41
18051794 AAATTGTATT
*
18051804 TTAAAAAA-AATTAAAAATGTAAAAGAATATTTAAAAAACA
1 TTAAAAAATTATTAAAAATGTAAAAGAATATTTAAAAAACA
* * * * **
18051844 TTAAAAAATTATTCCAAAAATCATTAAA-ATTATTTAAAATTGTATT
1 TTAAAAAATTATT--AAAAAT-GTAAAAGAATATTTAAAA---AACA
*
18051890 TTTAAAAA--ATTAAAAATGTAAAAGAATATTTAAAAAACA
1 TTAAAAAATTATTAAAAATGTAAAAGAATATTTAAAAAACA
* * * * * **
18051929 TTAAAATATTATTCCAAAAATCATTAAA-ATTATTTAAAATTGTATT
1 TTAAAAAATTATT--AAAAAT-GTAAAAGAATATTTAAAA---AACA
18051975 TTAAAAAA--ATTAAAAATGTAAAAGAATATTTAAAAAACA
1 TTAAAAAATTATTAAAAATGTAAAAGAATATTTAAAAAACA
* **
18052014 TTAAAAAATTATTAAAAATGATAATA-AA-ATTTAAAAATGA
1 TTAAAAAATTATTAAAAATG-TAAAAGAATATTTAAAAAACA
*
18052054 TTAAAAAATTATGAAAA
1 TTAAAAAATTATTAAAA
18052071 TTATAAGTTA
Statistics
Matches: 174, Mismatches: 33, Indels: 40
0.70 0.13 0.16
Matches are distributed among these distances:
39 16 0.09
40 34 0.20
41 26 0.15
42 36 0.21
43 32 0.18
44 14 0.08
46 16 0.09
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (41 bp):
TTAAAAAATTATTAAAAATGTAAAAGAATATTTAAAAAACA
Found at i:18059979 original size:42 final size:42
Alignment explanation
Indices: 18059920--18060029 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 42
18059910 TCGAGTCTTT
* ** **
18059920 GTGTAAGACCATATCTGGGATATGGAATCGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGAATCAATACAAGATCCC
*
18059962 GTGTAAGACCATATCT-GGACTATTGGCATCAATACAAGATCCC
1 GTGTAAGACCATATCTGGGA-TA-TGGAATCAATACAAGATCCC
*
18060005 ATGTAAGACCATATCTGGGATATGG
1 GTGTAAGACCATATCTGGGATATGG
18060030 TATTGGTGTG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 3 0.05
42 21 0.36
43 31 0.53
44 3 0.05
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGAATCAATACAAGATCCC
Found at i:18065606 original size:47 final size:48
Alignment explanation
Indices: 18065533--18065798 Score: 200
Period size: 47 Copynumber: 5.7 Consensus size: 48
18065523 GTAAGGTGTA
* * *
18065533 GATGCCATGTCCCAGACACGGCCTTACACTAGCTCAT-ATCTCATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATGCC
*
18065580 GATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTCAT-GCC
* * * * * *
18065628 GATG-CATGTCCCAGACAT-GTCTTACACTGGTTTA-CGTTTCAAGACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATG-CC
* * * * *
18065674 AATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTTGATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATC-TCATGCC
* * *
18065720 GATGCCATGTCCCAGACATGGTCTTACACT-GACTC-TCATAAT-GTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCAT-CTCAT-GCC
*
18065768 AATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
18065799 CCACAATAAC
Statistics
Matches: 181, Mismatches: 24, Indels: 29
0.77 0.10 0.12
Matches are distributed among these distances:
45 1 0.01
46 66 0.36
47 86 0.48
48 28 0.15
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATGCC
Found at i:18072069 original size:43 final size:43
Alignment explanation
Indices: 18072007--18072167 Score: 162
Period size: 43 Copynumber: 3.8 Consensus size: 43
18071997 GTACAACGCC
* * *
18072007 ATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
* * * * * *
18072050 CTATCCCAGACAAGGTCTTACACGAAATTATATAACGATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
* * * * *
18072093 ATGTCCTAGACATGGTCTTACACATAATCACAAAT-AATGCCA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
* * *
18072135 ATGTCCTAGACATGGTCTTACATGTAATCACAT
1 ATATCCCAGACATGGTCTTACACGTAATCACAT
18072168 CTCGGTAACC
Statistics
Matches: 95, Mismatches: 23, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 36 0.38
43 59 0.62
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
Found at i:18072143 original size:42 final size:42
Alignment explanation
Indices: 18072087--18072166 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
18072077 TTATATAACG
18072087 ATGCCAATGTCCTAGACATGGTCTTACACATAATCACAAATA
1 ATGCCAATGTCCTAGACATGGTCTTACACATAATCACAAATA
**
18072129 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCTAGACATGGTCTTACACATAATCACA
18072167 TCTCGGTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCTAGACATGGTCTTACACATAATCACAAATA
Found at i:18076935 original size:23 final size:21
Alignment explanation
Indices: 18076905--18076951 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 21
18076895 AGCCCACATC
18076905 AAAAAATAAAAATAAAAATTTCA
1 AAAAAATAAAAA-AAAAATTT-A
*
18076928 AAAAAATAAAAAAAATATTTA
1 AAAAAATAAAAAAAAAATTTA
18076949 AAA
1 AAA
18076952 TTATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.17
22 7 0.30
23 12 0.52
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAAATAAAAAAAAAATTTA
Found at i:18077088 original size:19 final size:17
Alignment explanation
Indices: 18077047--18077133 Score: 68
Period size: 18 Copynumber: 4.6 Consensus size: 17
18077037 TCTATTCTAG
18077047 AATTATAAAAAT-ATAAGA
1 AATTATAAAAATAAT-A-A
18077065 AATTATAAAAATAATTAA
1 AATTATAAAAATAA-TAA
*
18077083 ACATTATAAAAATTATTAGA
1 A-ATTATAAAAA-TAATA-A
18077103 AATTAATTAAAAATAATAA
1 AATT-A-TAAAAATAATAA
*
18077122 ATTTTATAAAAA
1 A-ATTATAAAAA
18077134 ATATTATATT
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
18 20 0.34
19 20 0.34
20 12 0.21
21 6 0.10
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (17 bp):
AATTATAAAAATAATAA
Found at i:18077131 original size:18 final size:18
Alignment explanation
Indices: 18077047--18077133 Score: 77
Period size: 19 Copynumber: 4.6 Consensus size: 18
18077037 TCTATTCTAG
18077047 AATTATAAAAAT-ATAAGA
1 AATTATAAAAATAATAA-A
18077065 AATTATAAAAATAATTAAA
1 AATTATAAAAATAA-TAAA
* * *
18077084 CATTATAAAAATTATTAGA
1 AATTATAAAAA-TAATAAA
18077103 AATTAATTAAAAATAATAAA
1 AATT-A-TAAAAATAATAAA
**
18077123 TTTTATAAAAA
1 AATTATAAAAA
18077134 ATATTATATT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
18 18 0.32
19 19 0.34
20 13 0.23
21 6 0.11
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (18 bp):
AATTATAAAAATAATAAA
Found at i:18077135 original size:19 final size:18
Alignment explanation
Indices: 18077049--18077147 Score: 58
Period size: 19 Copynumber: 5.3 Consensus size: 18
18077039 TATTCTAGAA
*
18077049 TTATAAAAATATAAGAAA-
1 TTATAAAAA-ATAATAAAT
*
18077067 TTAT-AAAAATAATTAAACA
1 TTATAAAAAATAA-TAAA-T
* *
18077086 TTATAAAAATTATTAGAAAT
1 TTATAAAAA--ATAATAAAT
* *
18077106 TAATTAAAAATAATAAATT
1 TTATAAAAAATAATAAA-T
* *
18077125 TTATAAAAAATATTATAT
1 TTATAAAAAATAATAAAT
18077143 TTATA
1 TTATA
18077148 TTTTAACTCA
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
16 4 0.06
17 7 0.11
18 16 0.26
19 18 0.29
20 11 0.18
21 3 0.05
22 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (18 bp):
TTATAAAAAATAATAAAT
Found at i:18077344 original size:11 final size:11
Alignment explanation
Indices: 18077328--18077363 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
18077318 TATTAATAAA
*
18077328 TTTTAATGATT
1 TTTTAATTATT
18077339 TTTTAATTATT
1 TTTTAATTATT
18077350 TTTATAATTATT
1 TTT-TAATTATT
18077362 TT
1 TT
18077364 ATGTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
TTTTAATTATT
Found at i:18077357 original size:12 final size:12
Alignment explanation
Indices: 18077331--18077379 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 12
18077321 TAATAAATTT
*
18077331 TAATGATTTTT-
1 TAATTATTTTTA
18077342 TAATTATTTTTA
1 TAATTATTTTTA
18077354 TAATTA-TTTTA
1 TAATTATTTTTA
*
18077365 T-GTT-TTTTTA
1 TAATTATTTTTA
18077375 TAATT
1 TAATT
18077380 CTAGAATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 8 0.25
11 18 0.56
12 6 0.19
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (12 bp):
TAATTATTTTTA
Found at i:18077358 original size:29 final size:31
Alignment explanation
Indices: 18077295--18077358 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 31
18077285 GGTTTTAAAT
18077295 TAATTTCTAATAATTTTTATAAATATTAATA
1 TAATTTCTAATAATTTTTATAAATATTAATA
* * **
18077326 -AATTT-TAATGATTTTT-TAATTATTTTTA
1 TAATTTCTAATAATTTTTATAAATATTAATA
18077354 TAATT
1 TAATT
18077359 ATTTTATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 9 0.32
29 14 0.50
30 5 0.18
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (31 bp):
TAATTTCTAATAATTTTTATAAATATTAATA
Found at i:18077363 original size:21 final size:22
Alignment explanation
Indices: 18077287--18077364 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 22
18077277 AATTTTATGG
18077287 TTTTA-AATTAATTTCTAAT-AAT
1 TTTTATAATT-ATTT-TAATAAAT
*
18077309 TTTTATAA--ATATTAATAAAT
1 TTTTATAATTATTTTAATAAAT
* * *
18077329 TTTAATGATT-TTTTAAT-TAT
1 TTTTATAATTATTTTAATAAAT
18077349 TTTTATAATTATTTTA
1 TTTTATAATTATTTTA
18077365 TGTTTTTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
19 4 0.09
20 22 0.50
21 11 0.25
22 5 0.11
23 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (22 bp):
TTTTATAATTATTTTAATAAAT
Found at i:18077462 original size:6 final size:7
Alignment explanation
Indices: 18077444--18077468 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18077434 TTTTTAAAAT
18077444 ATTTTTA
1 ATTTTTA
18077451 ATTTTTA
1 ATTTTTA
18077458 ATTTTTA
1 ATTTTTA
18077465 ATTT
1 ATTT
18077469 ATGTTGATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTA
Found at i:18078827 original size:30 final size:30
Alignment explanation
Indices: 18078793--18078855 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
18078783 CTTTATTTTA
*
18078793 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
*
18078823 TTGTTAATTTTTTTATTATTTTAAAAGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
18078853 TTG
1 TTG
18078856 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAAGCAT
Found at i:18079606 original size:41 final size:41
Alignment explanation
Indices: 18079526--18079786 Score: 373
Period size: 41 Copynumber: 6.4 Consensus size: 41
18079516 CGTTTTACTA
** * *
18079526 AAAACGCCGCTAAAA-ATTGAGCAATAGTGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* * *
18079566 AAAGCGCCGCTAAAAGATAGAG-ATTTAGCAGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCA-TTAGCGGCGCTTTTGGT
* *
18079607 AAAACGCCGCTAAAAGACAGAGCTTTAGCGGCGCTTTTAGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
*
18079648 AAAACGCCGCTAAAAGACAGAGCAGTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
* * * *
18079689 AAAACGTCGCGAAAAGACAGAGCAGTAGCGGCGCTTTTGAT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
18079730 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
18079771 AAAACGCCGCTAAAAG
1 AAAACGCCGCTAAAAG
18079787 TCATATAACT
Statistics
Matches: 198, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
40 15 0.08
41 183 0.92
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGACAGAGCATTAGCGGCGCTTTTGGT
Found at i:18080427 original size:24 final size:24
Alignment explanation
Indices: 18080400--18080448 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
18080390 CATATATTTA
*
18080400 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
18080424 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
18080448 T
1 T
18080449 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:18080761 original size:15 final size:14
Alignment explanation
Indices: 18080734--18080772 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
18080724 ATTTTAAGGT
*
18080734 TTATGGATTATGGA
1 TTATGGTTTATGGA
18080748 TTATGGGTTTATGGA
1 TTAT-GGTTTATGGA
18080763 TTATGGTTTA
1 TTATGGTTTA
18080773 CAATTTATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTATGGTTTATGGA
Found at i:18080786 original size:7 final size:7
Alignment explanation
Indices: 18080726--18080885 Score: 54
Period size: 7 Copynumber: 22.6 Consensus size: 7
18080716 GAGTTACTAT
*
18080726 TTTAAGG
1 TTTATGG
18080733 TTTATGG
1 TTTATGG
*
18080740 ATTATGG
1 TTTATGG
*
18080747 ATTATGGG
1 TTTAT-GG
18080755 TTTATGG
1 TTTATGG
*
18080762 ATTATGG
1 TTTATGG
***
18080769 TTTACAA
1 TTTATGG
18080776 TTTATGG
1 TTTATGG
*
18080783 TTTAAGG
1 TTTATGG
* **
18080790 GTTGGGG
1 TTTATGG
*
18080797 TTTAAGG
1 TTTATGG
18080804 TTTA-GG
1 TTTATGG
*
18080810 TGTTAGGG
1 T-TTATGG
* *
18080818 GTTAGGG
1 TTTATGG
*
18080825 GTTATGG
1 TTTATGG
* *
18080832 GTTAAGG
1 TTTATGG
*
18080839 GTTATGG
1 TTTATGG
*
18080846 GTTATGG
1 TTTATGG
*
18080853 ATTTAAGG
1 -TTTATGG
*
18080861 GTTAT-G
1 TTTATGG
*
18080867 TTGTATGA
1 TT-TATGG
*
18080875 TTTAGGG
1 TTTATGG
18080882 TTTA
1 TTTA
18080886 GGGGATAAAA
Statistics
Matches: 117, Mismatches: 30, Indels: 12
0.74 0.19 0.08
Matches are distributed among these distances:
6 5 0.04
7 97 0.83
8 15 0.13
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (7 bp):
TTTATGG
Found at i:18080840 original size:21 final size:22
Alignment explanation
Indices: 18080811--18080864 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
18080801 AGGTTTAGGT
*
18080811 GTTAGGGGTTAGGGGTTATGG-
1 GTTAAGGGTTAGGGGTTATGGA
*
18080832 GTTAAGGGTTATGGGTTATGGA
1 GTTAAGGGTTAGGGGTTATGGA
*
18080854 TTTAAGGGTTA
1 GTTAAGGGTTA
18080865 TGTTGTATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (22 bp):
GTTAAGGGTTAGGGGTTATGGA
Found at i:18080873 original size:22 final size:21
Alignment explanation
Indices: 18080816--18080883 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
18080806 TAGGTGTTAG
* **
18080816 GGGTTAGGGGTTATGGGTTAA
1 GGGTTATGGGTTATGATTTAA
18080837 GGGTTATGGGTTATGGATTTAA
1 GGGTTATGGGTTAT-GATTTAA
*
18080859 GGGTTAT-GTTGTATGATTT-A
1 GGGTTATGGGT-TATGATTTAA
18080879 GGGTT
1 GGGTT
18080884 TAGGGGATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 6 0.15
21 20 0.49
22 15 0.37
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.41
Consensus pattern (21 bp):
GGGTTATGGGTTATGATTTAA
Found at i:18081239 original size:22 final size:23
Alignment explanation
Indices: 18081213--18081277 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
18081203 AAATTTTTAA
*
18081213 AAAAATTTATTTAAAATT-AATAT
1 AAAAA-TTATTAAAAATTCAATAT
18081236 AAAAGA-TA-TAAAAATTCAATAT
1 AAAA-ATTATTAAAAATTCAATAT
* *
18081258 AAAAATTATAAAAAAGTCAA
1 AAAAATTATTAAAAATTCAA
18081278 AAATTAGCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
21 8 0.23
22 13 0.37
23 13 0.37
24 1 0.03
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (23 bp):
AAAAATTATTAAAAATTCAATAT
Found at i:18081351 original size:38 final size:40
Alignment explanation
Indices: 18081282--18081391 Score: 179
Period size: 38 Copynumber: 2.8 Consensus size: 40
18081272 AGTCAAAAAT
18081282 TAGCGGCGTTTATGATAAAAAACGCCGCAAAAGACAAGCAA
1 TAGCGGCGTTTATGAT-AAAAACGCCGCAAAAGACAAGCAA
* *
18081323 TAGCGGCGTTTAT-AT-AAAACGCCGCAAAAGGCAATCAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
18081361 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
1 TAGCGGCGTTTATGATAAAAACGCCGCAAAA
18081392 AGTAATTTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
38 34 0.52
39 2 0.03
40 16 0.25
41 13 0.20
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (40 bp):
TAGCGGCGTTTATGATAAAAACGCCGCAAAAGACAAGCAA
Found at i:18081571 original size:20 final size:18
Alignment explanation
Indices: 18081556--18081591 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18081546 TATTTCTCTC
*
18081556 CCCCGATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
*
18081574 TCCCAATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
18081592 TCTCAGCCTT
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:0.08, C:0.42, G:0.03, T:0.47
Consensus pattern (18 bp):
CCCCAATTCCCTTTTCTT
Found at i:18085654 original size:241 final size:241
Alignment explanation
Indices: 18085231--18085905 Score: 1314
Period size: 241 Copynumber: 2.8 Consensus size: 241
18085221 ATGAATTAAT
18085231 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
18085296 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
18085361 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
18085426 AAAAAGACTTGAAAAAAGTTTTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
18085472 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
18085537 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
18085602 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
18085667 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
*
18085713 TTTATTACCATGTAGCTTTCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
18085778 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGAGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
18085843 CTGTAAGATATAATGGATCTTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
18085906 AATTTACATA
Statistics
Matches: 430, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 430 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:18085918 original size:9 final size:9
Alignment explanation
Indices: 18085904--18085943 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
18085894 ATCTTAAAAA
18085904 ATAATTTAC
1 ATAATTTAC
*
18085913 ATAATTCAC
1 ATAATTTAC
*
18085922 ATAACTTAC
1 ATAATTTAC
18085931 ATAATTTAC
1 ATAATTTAC
18085940 ATAA
1 ATAA
18085944 CTCACATAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (9 bp):
ATAATTTAC
Found at i:18085930 original size:18 final size:18
Alignment explanation
Indices: 18085904--18085952 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
18085894 ATCTTAAAAA
*
18085904 ATAATTTACATAATTCAC
1 ATAACTTACATAATTCAC
*
18085922 ATAACTTACATAATTTAC
1 ATAACTTACATAATTCAC
*
18085940 ATAACTCACATAA
1 ATAACTTACATAA
18085953 CGTACATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAACTTACATAATTCAC
Found at i:18085942 original size:27 final size:27
Alignment explanation
Indices: 18085904--18085961 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
18085894 ATCTTAAAAA
* *
18085904 ATAATTTACATAATTCACATAACTTAC
1 ATAATTTACATAACTCACATAACGTAC
18085931 ATAATTTACATAACTCACATAACGTAC
1 ATAATTTACATAACTCACATAACGTAC
18085958 ATAA
1 ATAA
18085962 CAACTTACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (27 bp):
ATAATTTACATAACTCACATAACGTAC
Found at i:18085950 original size:9 final size:9
Alignment explanation
Indices: 18085911--18085962 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
18085901 AAAATAATTT
*
18085911 ACATAATTC
1 ACATAACTC
*
18085920 ACATAACTT
1 ACATAACTC
* *
18085929 ACATAATTT
1 ACATAACTC
18085938 ACATAACTC
1 ACATAACTC
18085947 ACATAACGT-
1 ACATAAC-TC
18085956 ACATAAC
1 ACATAAC
18085963 AACTTACGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 36 0.97
10 1 0.03
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (9 bp):
ACATAACTC
Found at i:18085958 original size:18 final size:18
Alignment explanation
Indices: 18085920--18085962 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
18085910 TACATAATTC
* **
18085920 ACATAACTTACATAATTT
1 ACATAACTCACATAACGT
18085938 ACATAACTCACATAACGT
1 ACATAACTCACATAACGT
18085956 ACATAAC
1 ACATAAC
18085963 AACTTACGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (18 bp):
ACATAACTCACATAACGT
Found at i:18091141 original size:46 final size:46
Alignment explanation
Indices: 18091072--18091166 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
18091062 ACTTAATAAT
*
18091072 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTTTTTA
1 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
* *
18091118 ATTTGATTTATTCTAAATCTTTATAATCTTTAATTATAATTGTTTA
1 ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
18091164 ATT
1 ATT
18091167 CAATTCATCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (46 bp):
ATTTGATTTATTCTAAATATTTATAATCTTTAATGATAATTGTTTA
Found at i:18095811 original size:2 final size:2
Alignment explanation
Indices: 18095806--18095831 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18095796 GTGTGTGTGT
18095806 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
18095832 TATGCATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18096899 original size:22 final size:21
Alignment explanation
Indices: 18096874--18096915 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18096864 AAATTTAATA
* *
18096874 TTGAAAGTGCAAAAAGAAAAAG
1 TTGAAAATG-AAAAAAAAAAAG
18096896 TTGAAAATGAAAAAAAAAAA
1 TTGAAAATGAAAAAAAAAAA
18096916 CGTAAAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.67, C:0.02, G:0.17, T:0.14
Consensus pattern (21 bp):
TTGAAAATGAAAAAAAAAAAG
Found at i:18098100 original size:25 final size:25
Alignment explanation
Indices: 18098056--18098110 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
18098046 CTTCCGTGTT
*
18098056 TATTTTTTAAATTTACT-AAATAATA
1 TATTTTATAAATTTACTAAAAT-ATA
**
18098081 TATTTTATAAATTTTTTAAAATATA
1 TATTTTATAAATTTACTAAAATATA
18098106 TATTT
1 TATTT
18098111 GTTAATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTTTATAAATTTACTAAAATATA
Found at i:18100598 original size:29 final size:28
Alignment explanation
Indices: 18100548--18100611 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 28
18100538 TTATTATTGT
*
18100548 AAATTTTTAAAAAATGTCATTTATTTTTTA
1 AAATTTTTAAAAAATG-CATTT-TTTTTGA
*
18100578 AATATTTTTTAAAAATG-ATTTTTTTTGA
1 AA-ATTTTTAAAAAATGCATTTTTTTTGA
18100606 AAATTT
1 AAATTT
18100612 AGTCTAAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 4 0.13
28 8 0.26
29 4 0.13
30 2 0.06
31 13 0.42
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (28 bp):
AAATTTTTAAAAAATGCATTTTTTTTGA
Found at i:18101595 original size:16 final size:16
Alignment explanation
Indices: 18101554--18101595 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
18101544 AAATCTATCT
* **
18101554 AATTTATTTAAATTTA
1 AATTTATTTGAATCCA
18101570 AATTTATTTGAATCCA
1 AATTTATTTGAATCCA
18101586 AATTTATTTG
1 AATTTATTTG
18101596 GACATATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (16 bp):
AATTTATTTGAATCCA
Found at i:18108352 original size:30 final size:31
Alignment explanation
Indices: 18108309--18108373 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 31
18108299 TATTAGTATT
18108309 ACTAATACATAAAATAATATT-ATA-ATATATA
1 ACTAATACAT-AAA-AATATTAATACATATATA
*
18108340 ACTATTAC-TAAAAATATTAATACATATATA
1 ACTAATACATAAAAATATTAATACATATATA
18108370 ACTA
1 ACTA
18108374 CAATTATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 6 0.19
29 6 0.19
30 12 0.39
31 7 0.23
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.35
Consensus pattern (31 bp):
ACTAATACATAAAAATATTAATACATATATA
Found at i:18115588 original size:7 final size:7
Alignment explanation
Indices: 18115578--18115617 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
18115568 GAAAAAAGAA
18115578 AAAATTG
1 AAAATTG
18115585 AAAATTG
1 AAAATTG
18115592 AAAATTG
1 AAAATTG
18115599 AAAATTG
1 AAAATTG
*
18115606 AAAAATG
1 AAAATTG
18115613 AAAAT
1 AAAAT
18115618 AAAATTGTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (7 bp):
AAAATTG
Found at i:18115602 original size:21 final size:19
Alignment explanation
Indices: 18115578--18115624 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
18115568 GAAAAAAGAA
*
18115578 AAAATTGAAAATTGAAAATT
1 AAAATTGAAAAATGAAAA-T
18115598 GAAAATTGAAAAATGAAAAT
1 -AAAATTGAAAAATGAAAAT
18115618 AAAATTG
1 AAAATTG
18115625 TTCTCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.28
20 1 0.04
21 17 0.68
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (19 bp):
AAAATTGAAAAATGAAAAT
Found at i:18120306 original size:46 final size:46
Alignment explanation
Indices: 18120169--18120431 Score: 239
Period size: 46 Copynumber: 5.7 Consensus size: 46
18120159 ATTCGTGTAT
* * ** *
18120169 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATTGGCTACATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGACTTGA-GATGA
* * *
18120215 GAGCTAGTGTAAGACCAAGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGAC-TTGAGATGA
* *
18120263 GGGCTAGTGTAAGA-CATGTCTGGGACATGCATCGACCTTGAGACGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGA-CTTGAGATG-A
* * *
18120310 -AGCCAGTGTAAGA-CAAGTCTGGGACATGCATTGACTATGAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGACT-TGAGATGA
* * * *
18120355 TA-ATCAATGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAA
1 GAGCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGACTTGAGATGA
* * *
18120402 GAGCCAGTGTAAGACCGTGTCTAGGACATG
1 GAGCTAGTGTAAGACCATGTCTGGGACATG
18120432 GCATTGGCAC
Statistics
Matches: 180, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
45 3 0.02
46 74 0.41
47 70 0.39
48 31 0.17
49 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGACTTGAGATGA
Found at i:18120423 original size:140 final size:140
Alignment explanation
Indices: 18120174--18120431 Score: 333
Period size: 140 Copynumber: 1.8 Consensus size: 140
18120164 TGTATGAGCT
* * * * *
18120174 AGTGTAAGACATGTCTGGGACATGCATTGGCTACATTATGAGAGCTAGTGTAAGACCAAGTCTGG
1 AGTGTAAGACAAGTCTGGGACATGCATTGACTACATGATGAAAGCTAATGTAAGACCAAGTCTGG
* * * * *
18120239 GACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTGA
66 GACATGGCATCGACATTGAGACAAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACCTTGA
18120304 GACGTAAGCC
131 GACGTAAGCC
* * *
18120314 AGTGTAAGACAAGTCTGGGACATGCATTGACTATGA-GATGATAATC-AATGTAAGACCATGTCT
1 AGTGTAAGACAAGTCTGGGACATGCATTGACTA-CATGATGA-AAGCTAATGTAAGACCAAGTCT
* *
18120377 GGGACATGGCATCGAC-TTGAGATAAGAGCCAGTGTAAGACCGTGTCTAGGACATG
64 GGGACATGGCATCGACATTGAGACAAGAGCCAGTGTAAGA-CATGTCTAGGACATG
18120432 GCATTGGCAC
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
139 19 0.19
140 78 0.78
141 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACAAGTCTGGGACATGCATTGACTACATGATGAAAGCTAATGTAAGACCAAGTCTGG
GACATGGCATCGACATTGAGACAAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACCTTGA
GACGTAAGCC
Found at i:18120432 original size:47 final size:47
Alignment explanation
Indices: 18120169--18120435 Score: 242
Period size: 47 Copynumber: 5.7 Consensus size: 47
18120159 ATTCGTGTAT
* * * ** *
18120169 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTACATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-GATGA
* * * *
18120215 GAGCTAGTGTAAGACCAAGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGATGA
* * *
18120263 GGGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTTGAGACGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGAGATG-A
* *
18120310 -AGCCAGTGTAAGA-CAAGTCTGGGACAT-GCATTGACTATGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGATGA
* ** * *
18120355 TAATCAATGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGA
* *
18120402 GAGCCAGTGTAAGACCGTGTCTAGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
18120436 TGGCACCTTA
Statistics
Matches: 186, Mismatches: 26, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
45 3 0.02
46 74 0.40
47 76 0.41
48 31 0.17
49 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGA
Done.