Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 23 of 210
Found at i:7694108 original size:34 final size:33
Alignment explanation
Indices: 7694078--7694186 Score: 157
Period size: 34 Copynumber: 3.2 Consensus size: 33
7694068 AATAAATCAT
7694078 GGTTTAGAGTTTTTTAAAAAATTAATTAAATTAG
1 GGTTTAGAG-TTTTTAAAAAATTAATTAAATTAG
* *
7694112 GTTTTA-AGGGTTTTAAATAAATTAATTAAATTAG
1 GGTTTAGA-GTTTTTAAA-AAATTAATTAAATTAG
7694146 GGTTTAGAGTTTTTAAGAAAATTAATTAAATTAG
1 GGTTTAGAGTTTTTAA-AAAATTAATTAAATTAG
7694180 GGTTTAG
1 GGTTTAG
7694187 TTTAAAAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
33 8 0.12
34 57 0.85
35 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.43
Consensus pattern (33 bp):
GGTTTAGAGTTTTTAAAAAATTAATTAAATTAG
Found at i:7694363 original size:31 final size:31
Alignment explanation
Indices: 7694325--7694386 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
7694315 TCCTAAAAAG
*
7694325 ATAATGTCAAAAACGCTTCAAGCAGGATGCA
1 ATAATGTCAAAAACGCTTCAACCAGGATGCA
*
7694356 ATAATGTCAAAAACGTTTCAACCAGGATGCA
1 ATAATGTCAAAAACGCTTCAACCAGGATGCA
7694387 TTGTCAGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (31 bp):
ATAATGTCAAAAACGCTTCAACCAGGATGCA
Found at i:7698929 original size:11 final size:11
Alignment explanation
Indices: 7698913--7698964 Score: 77
Period size: 11 Copynumber: 4.7 Consensus size: 11
7698903 TCCTCTCCCA
7698913 AATTTCCTCTC
1 AATTTCCTCTC
*
7698924 AATTTCCTCTA
1 AATTTCCTCTC
7698935 AATTTCCTCTC
1 AATTTCCTCTC
*
7698946 AATTTGCTCTC
1 AATTTCCTCTC
*
7698957 AAATTCCT
1 AATTTCCT
7698965 TCCAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (11 bp):
AATTTCCTCTC
Found at i:7698964 original size:22 final size:23
Alignment explanation
Indices: 7698911--7698961 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 23
7698901 AATCCTCTCC
7698911 CAAATTTCCTCTCAATTTCCTCT
1 CAAATTTCCTCTCAATTTCCTCT
*
7698934 -AAATTTCCTCTCAATTTGCTCT
1 CAAATTTCCTCTCAATTTCCTCT
7698956 CAAATT
1 CAAATT
7698962 CCTTCCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.43
Consensus pattern (23 bp):
CAAATTTCCTCTCAATTTCCTCT
Found at i:7699041 original size:51 final size:51
Alignment explanation
Indices: 7698942--7699041 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
7698932 CTAAATTTCC
*
7698942 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTAAAATTCATATTTAT
1 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTAAAATCCATATTTAT
* * *
7698993 TCTCAATTTGCTCTCAATTTCC-TCTTAAATTTCTCCT-AAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTTC-CAAATTTCT-CTAAAATCCATATTT
7699042 TTAAATCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 2 0.05
51 39 0.91
52 2 0.05
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTAAAATCCATATTTAT
Found at i:7700159 original size:7 final size:7
Alignment explanation
Indices: 7700147--7700172 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7700137 TAGTCGATTG
7700147 GTATTTA
1 GTATTTA
7700154 GTATTTA
1 GTATTTA
7700161 GTATTTA
1 GTATTTA
7700168 GTATT
1 GTATT
7700173 GTGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:7701369 original size:192 final size:191
Alignment explanation
Indices: 7701111--7701478 Score: 456
Period size: 192 Copynumber: 1.9 Consensus size: 191
7701101 GTAATCTATA
* * * **
7701111 ATGGGTTTAAGTCATGGTTTTCATTTGGAGCTTTGTGATTAAAACACTATTATTACTTGAATGGA
1 ATGGGTTCAAGTCATGGTTTTCATTTGGAACTTTGTGATTAAAACACAACAATTACTTGAATGGA
* * * * * * * * *
7701176 AATGCATTTGCATTTGT-GTATCCTGTAATG-TTTTTTAATTGAACTTTGGGGTTGGAATTGTTA
66 AATGCACTTGCATTT-TCATATCCTGCAAAGCTTCTTT-AGTAAACTTTGGAGTTGAAATTGTTA
* *
7701239 TTAGAAAGTAATTGATG-TTTTTATGTTGATGTTAATGAATACAATAGACTAAGTTGAATTTTTT
129 TTAGAAAGTAATTGATGATTTTT-T-ATGATGTTAATGAACACAATAGACTAAGTTGAATTTTTT
*
7701303 ATGGGTTCAAGTCATGGTTTTCATTT-GAACTTTGTGATTACAACACAACAATTTACTTGAATGG
1 ATGGGTTCAAGTCATGGTTTTCATTTGGAACTTTGTGATTAAAACACAACAA-TTACTTGAATGG
** *
7701367 AAATGCACTTGTGTTTTCATATCCTGCAAAGCTTCTTTAGTAAATTTTGGAGTTGAAATTGTTAT
65 AAATGCACTTGCATTTTCATATCCTGCAAAGCTTCTTTAGTAAACTTTGGAGTTGAAATTGTTAT
* * *
7701432 TAGGATGTAATTGATGATTTTTTATGATGTTAATGAACATAATAGAC
130 TAGAAAGTAATTGATGATTTTTTATGATGTTAATGAACACAATAGAC
7701479 CAAGCTTGGG
Statistics
Matches: 149, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
191 42 0.28
192 97 0.65
193 10 0.07
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (191 bp):
ATGGGTTCAAGTCATGGTTTTCATTTGGAACTTTGTGATTAAAACACAACAATTACTTGAATGGA
AATGCACTTGCATTTTCATATCCTGCAAAGCTTCTTTAGTAAACTTTGGAGTTGAAATTGTTATT
AGAAAGTAATTGATGATTTTTTATGATGTTAATGAACACAATAGACTAAGTTGAATTTTTT
Found at i:7702237 original size:12 final size:13
Alignment explanation
Indices: 7702215--7702244 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
7702205 CTTAACTTAA
7702215 AAACTCTAACCCT
1 AAACTCTAACCCT
7702228 AAAC-CTAACCCT
1 AAACTCTAACCCT
7702240 AAACT
1 AAACT
7702245 TAAAAACCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (13 bp):
AAACTCTAACCCT
Found at i:7702257 original size:21 final size:21
Alignment explanation
Indices: 7702231--7702286 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 21
7702221 TAACCCTAAA
7702231 CCTAACCCTAAACTTAAAAAC
1 CCTAACCCTAAACTTAAAAAC
7702252 CCTAACCCTTAAA-TTAAAAAC
1 CCTAACCC-TAAACTTAAAAAC
7702273 CCTAAACCCTAAAC
1 CCT-AACCCTAAAC
7702287 ATTCACATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 23 0.72
22 9 0.28
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (21 bp):
CCTAACCCTAAACTTAAAAAC
Found at i:7705723 original size:9 final size:9
Alignment explanation
Indices: 7705706--7705742 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
7705696 TTTTTTCTCC
7705706 AAAACCCTA
1 AAAACCCTA
*
7705715 AAAATCCTA
1 AAAACCCTA
7705724 AAAACCCT-
1 AAAACCCTA
7705732 -AAACCCTA
1 AAAACCCTA
7705740 AAA
1 AAA
7705743 TTCAAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 7 0.29
9 17 0.71
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAACCCTA
Found at i:7717503 original size:21 final size:21
Alignment explanation
Indices: 7717477--7717517 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7717467 TTTAGATAAA
* *
7717477 TATATATATAGATACTTTTTT
1 TATATACATAGATACATTTTT
*
7717498 TATATACATATATACATTTT
1 TATATACATAGATACATTTT
7717518 CATAATATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (21 bp):
TATATACATAGATACATTTTT
Found at i:7719921 original size:5 final size:5
Alignment explanation
Indices: 7719911--7719940 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
7719901 TATACTAACC
7719911 TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT
1 TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT
7719941 ATAATTGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TGTTT
Found at i:7722946 original size:17 final size:16
Alignment explanation
Indices: 7722926--7722980 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
7722916 TACTTCACTT
7722926 GAAAAAAGAAATGAAAA
1 GAAAAAAGAAA-GAAAA
7722943 GAAAAAAGAAAAGAAAA
1 GAAAAAAG-AAAGAAAA
* *
7722960 GAAGAACGAAA-AAAA
1 GAAAAAAGAAAGAAAA
7722975 GAAAAA
1 GAAAAA
7722981 GGAGAGCCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.26
16 3 0.09
17 19 0.56
18 3 0.09
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (16 bp):
GAAAAAAGAAAGAAAA
Found at i:7722953 original size:12 final size:12
Alignment explanation
Indices: 7722938--7722979 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
7722928 AAAAAGAAAT
7722938 GAAAAGAAAAAA
1 GAAAAGAAAAAA
7722950 GAAAAGAAAAGAA
1 GAAAAGAAAA-AA
*
7722963 G-AACGAAAAAAA
1 GAAAAG-AAAAAA
7722975 GAAAA
1 GAAAA
7722980 AGGAGAGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAAAA
Found at i:7724069 original size:24 final size:24
Alignment explanation
Indices: 7724024--7724081 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
7724014 ATGTCCCAAA
*
7724024 ATTACAGTAGACTTAACCTTGAAG
1 ATTACAGTGGACTTAACCTTGAAG
*
7724048 ATTACAGTGGA-TTGAACTTTGAAG
1 ATTACAGTGGACTT-AACCTTGAAG
7724072 ATTACAGTGG
1 ATTACAGTGG
7724082 GGGCAATCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 2 0.06
24 29 0.94
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (24 bp):
ATTACAGTGGACTTAACCTTGAAG
Found at i:7724708 original size:44 final size:44
Alignment explanation
Indices: 7724498--7724693 Score: 211
Period size: 44 Copynumber: 4.5 Consensus size: 44
7724488 AAGCACCAGC
* *
7724498 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGAT
* * * **
7724542 CGTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGC-GAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAG-AT
* * * **
7724586 CTTATCTTCCTAAG--GTAGTAGGAAGTAGATTTAAGCTACCA-AT
1 CTTATCTCCCTAAGCAGTAGT-GG-AGTAGATTGAAGATTGCAGAT
* *
7724629 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGAT
7724673 CTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTAAGCAGTAGT
7724694 AAAGCAGATC
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
42 5 0.04
43 30 0.25
44 81 0.67
45 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCAGAT
Found at i:7724719 original size:44 final size:44
Alignment explanation
Indices: 7724544--7724746 Score: 155
Period size: 44 Copynumber: 4.6 Consensus size: 44
7724534 TTACAGATCG
**
7724544 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCT
1 TATCTCCCTAAGCAGTAGTAAAGCAGATCGAAGACGGCGAATCT
* * ** ** * *
7724588 TATCTTCCTAAG--GTAGTAGGAAGTAGATTTAAG-CTACCAATCC
1 TATCTCCCTAAGCAGTAGTA--AAGCAGATCGAAGACGGCGAATCT
** * * * **
7724631 TATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGC-AGATCT
1 TATCTCCCTAAGCAGTAGTAAAGCAGATCGAAGACGGCGA-ATCT
7724675 TATCTCCCTAAGCAGTAGTAAAGCAGATCGAAGACGGCGAATCT
1 TATCTCCCTAAGCAGTAGTAAAGCAGATCGAAGACGGCGAATCT
* * *
7724719 TATCTTCCTGAGATAGTAG-AAAGCAGAT
1 TATCTCCCTAAG-CAGTAGTAAAGCAGAT
7724747 TTAAGCCACC
Statistics
Matches: 123, Mismatches: 28, Indels: 16
0.74 0.17 0.10
Matches are distributed among these distances:
42 5 0.04
43 28 0.23
44 79 0.64
45 11 0.09
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTAAAGCAGATCGAAGACGGCGAATCT
Found at i:7724803 original size:131 final size:131
Alignment explanation
Indices: 7724498--7724811 Score: 461
Period size: 131 Copynumber: 2.4 Consensus size: 131
7724488 AAGCACCAGC
*
7724498 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTACAGATCGTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
** * * * *
7724563 GGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGGTAGTAGGAAGTAGATTTAAGCTACCAA
66 AAAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGATAGTAGAAAGCAGATTTAAGCCACCAA
7724628 T
131 T
* *
7724629 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
*
7724694 AAAGCAGATCGAAGACGGCGAATCTTATCTTCCTGAGATAGTAGAAAGCAGATTTAAGCCACCAA
66 AAAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGATAGTAGAAAGCAGATTTAAGCCACCAA
7724759 T
131 T
** * * *
7724760 CTTATCTCCCTGAAGTTGTAGTGGAGT-GGATT-AAAATCACAGATATTATCTC
1 CTTATCTCCCT-AAGCAGTAGTGGAGTAGG-TTGAAGATTACAGATCTTATCTC
7724812 TCTGAAGTTT
Statistics
Matches: 164, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
131 149 0.91
132 15 0.09
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (131 bp):
CTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
AAAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGATAGTAGAAAGCAGATTTAAGCCACCAA
T
Found at i:7726622 original size:21 final size:21
Alignment explanation
Indices: 7726588--7726627 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7726578 TTTTAGATAA
* *
7726588 ATATATATAGATACTTTTTTT
1 ATATACATAGATACATTTTTT
*
7726609 ATATACATATATACATTTT
1 ATATACATAGATACATTTT
7726628 CATAATATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
ATATACATAGATACATTTTTT
Found at i:7745505 original size:13 final size:13
Alignment explanation
Indices: 7745489--7745526 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
7745479 ACCAAATTTT
7745489 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
7745502 TCAAAATCACTTC
1 TCAAAAGCACTTC
*
7745515 TCAAAAGTACTT
1 TCAAAAGCACTT
7745527 TTCCACAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.29
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:7745549 original size:13 final size:13
Alignment explanation
Indices: 7745486--7745549 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
7745476 TAAACCAAAT
*
7745486 TTTTCAAAAGCAC
1 TTTTCAAAAACAC
* *
7745499 TTCTCAAAATCAC
1 TTTTCAAAAACAC
* **
7745512 TTCTCAAAAGTAC
1 TTTTCAAAAACAC
* *
7745525 TTTTCCACAACAC
1 TTTTCAAAAACAC
7745538 TTTTCAAAAACA
1 TTTTCAAAAACA
7745550 ATTAAGAATT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.39, C:0.27, G:0.03, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:7751492 original size:22 final size:22
Alignment explanation
Indices: 7751450--7751492 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7751440 TCTCTTCATT
*
7751450 GGTATCACGATATCCTCTTCGA
1 GGTATCACGATATCCTATTCGA
*
7751472 GGTATCGCGATA-CCATATTCG
1 GGTATCACGATATCC-TATTCG
7751493 TCAAGAGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (22 bp):
GGTATCACGATATCCTATTCGA
Found at i:7751769 original size:18 final size:17
Alignment explanation
Indices: 7751738--7751787 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
7751728 CCTTAGTTTA
*
7751738 TGTT-TTATTTTTCTACT
1 TGTTCTTATTGTTCTA-T
7751755 T-TTACTTATTGTTCTTAT
1 TGTT-CTTATTGTTC-TAT
7751773 TGTTCTTATTGTTCT
1 TGTTCTTATTGTTCT
7751788 TAGTGTTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
16 2 0.07
17 2 0.07
18 20 0.71
19 4 0.14
ACGTcount: A:0.12, C:0.12, G:0.08, T:0.68
Consensus pattern (17 bp):
TGTTCTTATTGTTCTAT
Found at i:7751771 original size:9 final size:9
Alignment explanation
Indices: 7751759--7751794 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
7751749 TCTACTTTTA
7751759 CTTATTGTT
1 CTTATTGTT
7751768 CTTATTGTT
1 CTTATTGTT
7751777 CTTATTGTT
1 CTTATTGTT
*
7751786 CTTAGTGTT
1 CTTATTGTT
7751795 AGCTAAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.11, C:0.11, G:0.14, T:0.64
Consensus pattern (9 bp):
CTTATTGTT
Found at i:7757401 original size:2 final size:2
Alignment explanation
Indices: 7757394--7757427 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7757384 GCAAGCTGAA
*
7757394 AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7757428 TGCAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7760463 original size:3 final size:3
Alignment explanation
Indices: 7760455--7760483 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7760445 TGAGAGAGTT
7760455 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7760484 GGGATTTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7763579 original size:28 final size:28
Alignment explanation
Indices: 7763531--7763597 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
7763521 TGATAATCTA
*
7763531 TAATTAGTGT-CACCATAAGCTTGAACT
1 TAATTAGTGTATACCATAAGCTTGAACT
7763558 TAATTAGTGTATACCATAAGCTTGAACT
1 TAATTAGTGTATACCATAAGCTTGAACT
7763586 TAATTAGTGTAT
1 TAATTAGTGTAT
7763598 CTCCTATGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 10 0.26
28 28 0.74
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (28 bp):
TAATTAGTGTATACCATAAGCTTGAACT
Found at i:7777316 original size:3 final size:3
Alignment explanation
Indices: 7777308--7777353 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
7777298 AAATTAGTTA
7777308 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7777354 GGATAGATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7777689 original size:31 final size:31
Alignment explanation
Indices: 7777651--7777712 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
7777641 AGGCAAATTA
7777651 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
7777682 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
7777713 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:7783513 original size:3 final size:3
Alignment explanation
Indices: 7783505--7783559 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
7783495 AAATTAGTTA
7783505 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7783553 AAT AAT A
1 AAT AAT A
7783560 GGATAGATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7783894 original size:31 final size:31
Alignment explanation
Indices: 7783859--7783919 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
7783849 GGCAAATTAC
7783859 AAGAGTAATTGAATCCTAATAAAACTCTTTT
1 AAGAGTAATTGAATCCTAATAAAACTCTTTT
*
7783890 AAGAGTAATTGAATCCTAATAAAATTCTTT
1 AAGAGTAATTGAATCCTAATAAAACTCTTT
7783920 AAAATTATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTT
Found at i:7793690 original size:34 final size:34
Alignment explanation
Indices: 7793652--7793726 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
7793642 CTAAAAATAA
7793652 TTTAATTATGTAGTGATTCAATTTGGGTAATTCG
1 TTTAATTATGTAGTGATTCAATTTGGGTAATTCG
7793686 TTTAATTATGTAGTGATTCAATTTGGGTAATTCG
1 TTTAATTATGTAGTGATTCAATTTGGGTAATTCG
*
7793720 GTTAATT
1 TTTAATT
7793727 CGGGTAATTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.48
Consensus pattern (34 bp):
TTTAATTATGTAGTGATTCAATTTGGGTAATTCG
Found at i:7793725 original size:9 final size:9
Alignment explanation
Indices: 7793713--7793824 Score: 154
Period size: 9 Copynumber: 12.6 Consensus size: 9
7793703 TCAATTTGGG
7793713 TAATTCGGT
1 TAATTCGGT
*
7793722 TAATTCGGG
1 TAATTCGGT
7793731 TAATTCGGT
1 TAATTCGGT
*
7793740 TAATTCGGA
1 TAATTCGGT
7793749 TAATTC-GT
1 TAATTCGGT
* *
7793757 TTATTCGGG
1 TAATTCGGT
7793766 TAATTCGGT
1 TAATTCGGT
*
7793775 TAATTCGGG
1 TAATTCGGT
*
7793784 TAATTCGGG
1 TAATTCGGT
7793793 TAATTCGGT
1 TAATTCGGT
*
7793802 TAATTCGAT
1 TAATTCGGT
7793811 TAATTCGGT
1 TAATTCGGT
7793820 TAATT
1 TAATT
7793825 TAGTTAATTT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
8 6 0.07
9 84 0.93
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.42
Consensus pattern (9 bp):
TAATTCGGT
Found at i:7793743 original size:27 final size:27
Alignment explanation
Indices: 7793705--7793833 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
7793695 GTAGTGATTC
*
7793705 AATTTGGGTAATTCGGTTAATTCGGGT
1 AATTCGGGTAATTCGGTTAATTCGGGT
* * *
7793732 AATTCGGTTAATTCGGATAATTC-GTT
1 AATTCGGGTAATTCGGTTAATTCGGGT
*
7793758 TATTCGGGTAATTCGGTTAATTCGGGT
1 AATTCGGGTAATTCGGTTAATTCGGGT
**
7793785 AATTCGGGTAATTCGGTTAATTCGATT
1 AATTCGGGTAATTCGGTTAATTCGGGT
* **
7793812 AATTCGGTTAATTTAGTTAATT
1 AATTCGGGTAATTCGGTTAATT
7793834 TTTAACCAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 22 0.25
27 65 0.75
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (27 bp):
AATTCGGGTAATTCGGTTAATTCGGGT
Found at i:7793833 original size:18 final size:18
Alignment explanation
Indices: 7793705--7793824 Score: 170
Period size: 18 Copynumber: 6.7 Consensus size: 18
7793695 GTAGTGATTC
*
7793705 AATTTGGGTAATTCGGTT
1 AATTCGGGTAATTCGGTT
7793723 AATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGTT
*
7793741 AATTCGGATAATTC-GTT
1 AATTCGGGTAATTCGGTT
*
7793758 TATTCGGGTAATTCGGTT
1 AATTCGGGTAATTCGGTT
*
7793776 AATTCGGGTAATTCGGGT
1 AATTCGGGTAATTCGGTT
* *
7793794 AATTCGGTTAATTCGATT
1 AATTCGGGTAATTCGGTT
*
7793812 AATTCGGTTAATT
1 AATTCGGGTAATT
7793825 TAGTTAATTT
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
17 15 0.16
18 77 0.84
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.42
Consensus pattern (18 bp):
AATTCGGGTAATTCGGTT
Found at i:7794012 original size:12 final size:12
Alignment explanation
Indices: 7793995--7794019 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7793985 TATTATTTCG
7793995 GGTCGGTTAACC
1 GGTCGGTTAACC
7794007 GGTCGGTTAACC
1 GGTCGGTTAACC
7794019 G
1 G
7794020 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:7809572 original size:41 final size:40
Alignment explanation
Indices: 7809461--7809573 Score: 147
Period size: 41 Copynumber: 2.8 Consensus size: 40
7809451 TACCTTTCGG
*
7809461 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCA
1 GGCTTTAGCGGCGTTTTTCGAAAAGCGCCGCTAATGCTCA
* * *
7809501 GATCTTTAGCGGCG-TTTTCCAAGAAACGCCGCTAATGCTCGA
1 G-GCTTTAGCGGCGTTTTTCGAA-AAGCGCCGCTAATGCTC-A
*
7809543 GGCTTTAGCGGCGTTTTTTGAAAAGCGCCGC
1 GGCTTTAGCGGCGTTTTTCGAAAAGCGCCGC
7809574 AAAAACAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
40 7 0.11
41 46 0.75
42 8 0.13
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTCGAAAAGCGCCGCTAATGCTCA
Found at i:7809718 original size:26 final size:26
Alignment explanation
Indices: 7809670--7809720 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
7809660 AAAATGGATA
** * *
7809670 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
7809696 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
7809721 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:7810011 original size:14 final size:15
Alignment explanation
Indices: 7809983--7810015 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
7809973 AAGGTTTATA
7809983 GATTATGGAATTAGG
1 GATTATGGAATTAGG
7809998 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
7810012 GATT
1 GATT
7810016 CTGATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:7810092 original size:21 final size:20
Alignment explanation
Indices: 7810039--7810092 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
7810029 TGTGATTTAA
* *
7810039 GGTTTATGGGTTAGGGGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
*
7810060 GGGTTAGAGGTTAAGAGTTAG
1 GGTTTAG-GGTTAAGAGTTAG
7810081 GGATTTAGGGTT
1 GG-TTTAGGGTT
7810093 TATTGATTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.35
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:7810239 original size:89 final size:88
Alignment explanation
Indices: 7810116--7810365 Score: 317
Period size: 89 Copynumber: 2.8 Consensus size: 88
7810106 TCAAGTTAAG
* *
7810116 GTTTAGGGTTTAAATTAATTAGTGTGTTTT-AATTTATATATTAAATAATGTTTAGGGGTTAGGG
1 GTTTAGGATTTAGATTAATTAGTGT-TTTTAAATTTATATATTAAATAATGTTTAGGGGTTAGGG
* *
7810180 ATTTGGGGTCGGGTTAGGGTTTAG-
65 GTTTGGGGTCGGGGTAGGG-TTAGA
* *
7810204 GATTTAGGATTTAGATTAATTAGAGTTTTTAAATTTATATATTAAATAATGTTTGGGGGTTAGGG
1 G-TTTAGGATTTAGATTAATTAGTGTTTTTAAATTTATATATTAAATAATGTTTAGGGGTTAGGG
* * * *
7810269 GTTAGGGATTTGGGGTCGGGTTAGA
65 GTTTGGG-GTCGGGGTAGGGTTAGA
* * * *
7810294 GTTTGGGATTTAGATTAATTAGTGTTTTTAAATTTGTATATT-AATAAGGTTTAGGGGTTTGGGG
1 GTTTAGGATTTAGATTAATTAGTGTTTTTAAATTTATATATTAAATAATGTTTAGGGGTTAGGGG
7810358 TTTGGGGT
66 TTTGGGGT
7810366 TAATAGTTGG
Statistics
Matches: 140, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
87 1 0.01
88 29 0.21
89 101 0.72
90 9 0.06
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (88 bp):
GTTTAGGATTTAGATTAATTAGTGTTTTTAAATTTATATATTAAATAATGTTTAGGGGTTAGGGG
TTTGGGGTCGGGGTAGGGTTAGA
Found at i:7811189 original size:148 final size:148
Alignment explanation
Indices: 7811049--7811444 Score: 659
Period size: 148 Copynumber: 2.7 Consensus size: 148
7811039 AATAAAAGAT
* *
7811049 TTTTAGTATAGCAAAACAATGTCATTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTTTATGA
1 TTTTAGCATAGCAAAACAATGTCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTTTATGA
* *
7811114 AAAACGACGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGTCACAAATAATAATTTTAC
66 AAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAATAATAATTTTAC
7811179 TTTAAAAAAATAGCACCC
131 TTTAAAAAAATAGCACCC
* *
7811197 TTTTAGCATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTTTTTTGA
1 TTTTAGCATAGCAAAACAATGTCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTTTATGA
*
7811262 AAAACGCCGCAAAAGGAAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAATAATAATTTTAC
66 AAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAATAATAATTTTAC
7811327 TTTAAAAAAATAGCACCC
131 TTTAAAAAAATAGCACCC
* * * * * *
7811345 TTTTAGCATATCAAAACATTATCGTTTTATTCCAAATAAAATAATTTTTTGTGACGGTTTTTA-A
1 TTTTAGCATAGCAAAACAATGTCGTTTTATTCCAAATAAAATAATTTTTTGCGGC-GTTTTTATG
7811409 AAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTT
65 AAAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTT
7811445 CAACCTGTTT
Statistics
Matches: 231, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
148 225 0.97
149 6 0.03
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (148 bp):
TTTTAGCATAGCAAAACAATGTCGTTTTATTCCAAATAAAATAATTTTTTGCGGCGTTTTTATGA
AAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCCACAAATAATAATTTTAC
TTTAAAAAAATAGCACCC
Found at i:7812039 original size:19 final size:19
Alignment explanation
Indices: 7812015--7812061 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
7812005 ATGGAATCTG
7812015 TTATAAATTAGAATGCCTA
1 TTATAAATTAGAATGCCTA
*
7812034 TTATAAACTAGAATGCCTA
1 TTATAAATTAGAATGCCTA
7812053 TTATAAATT
1 TTATAAATT
7812062 TTGGTTTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (19 bp):
TTATAAATTAGAATGCCTA
Found at i:7812492 original size:8 final size:8
Alignment explanation
Indices: 7812479--7812503 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7812469 TATATCCCCT
7812479 TGGTTAAA
1 TGGTTAAA
7812487 TGGTTAAA
1 TGGTTAAA
7812495 TGGTTAAA
1 TGGTTAAA
7812503 T
1 T
7812504 TTTTTTTCCC
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:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (8 bp):
TGGTTAAA
Found at i:7814789 original size:43 final size:43
Alignment explanation
Indices: 7814739--7814923 Score: 253
Period size: 43 Copynumber: 4.3 Consensus size: 43
7814729 AGATTATATT
** * * *
7814739 TTTAGCGGCGTTTGTGAAAAAAACGTCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
* * * *
7814782 TATAGCGGCGTTTCTGGGAAAAGCGACGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
* *
7814825 TTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
**
7814868 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
7814911 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
7814924 TTGGCGGCGC
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 126 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
Found at i:7815638 original size:21 final size:21
Alignment explanation
Indices: 7815612--7815665 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
7815602 CAGCGGTGGT
* *
7815612 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTATAGC
*
7815633 GGTGAGATTGGATACTATAGC
1 GGTGAGATTAGATACTATAGC
**
7815654 AATGAGATTAGA
1 GGTGAGATTAGA
7815666 AACAATGGTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATACTATAGC
Found at i:7827909 original size:21 final size:20
Alignment explanation
Indices: 7827885--7827934 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
7827875 TATTTTAAAT
7827885 TTAATATTAAATAAA-AATAA
1 TTAATATTAAA-AAATAATAA
*
7827905 GTTAA-ATTTAAAAAATCATAA
1 -TTAATA-TTAAAAAATAATAA
7827926 TTAATATTA
1 TTAATATTA
7827935 CATTTACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAATATTAAAAAATAATAA
Found at i:7829923 original size:17 final size:17
Alignment explanation
Indices: 7829869--7829927 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
7829859 CAATAGTAAC
7829869 ATTATTTTTAATATTTT
1 ATTATTTTTAATATTTT
* **
7829886 ATTA--CTTAATA-TAA
1 ATTATTTTTAATATTTT
7829900 ATGTATTTTTAATATTTT
1 AT-TATTTTTAATATTTT
7829918 ATTATTTTTA
1 ATTATTTTTA
7829928 TTATATATAG
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
14 3 0.09
15 8 0.25
17 18 0.56
18 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTATTTTTAATATTTT
Found at i:7835639 original size:22 final size:21
Alignment explanation
Indices: 7835609--7835650 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
7835599 TTATATTTTT
*
7835609 TTATTAATTTATATATTATATA
1 TTATAAATTTATATA-TATATA
7835631 TTATAAATTTATATATATAT
1 TTATAAATTTATATATATAT
7835651 TTCAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATAAATTTATATATATATA
Found at i:7835708 original size:16 final size:17
Alignment explanation
Indices: 7835689--7835721 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7835679 TTTAATGGTA
*
7835689 CATAATTTTAT-ATTTT
1 CATAAATTTATAATTTT
7835705 CATAAATTTATAATTTT
1 CATAAATTTATAATTTT
7835722 ATATTGTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
CATAAATTTATAATTTT
Found at i:7838777 original size:20 final size:20
Alignment explanation
Indices: 7838745--7838783 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7838735 ACTCAATGGT
7838745 TATATTTAAATATT-TAAAA
1 TATATTTAAATATTCTAAAA
*
7838764 TATAGTTTATATATTCTAAA
1 TATA-TTTAAATATTCTAAA
7838784 TAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATTTAAATATTCTAAAA
Found at i:7840854 original size:10 final size:10
Alignment explanation
Indices: 7840841--7840873 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
7840831 AATGAATTTT
7840841 AATTTTTAAA
1 AATTTTTAAA
7840851 AA-TTTTAAA
1 AATTTTTAAA
*
7840860 AATTTTAAAA
1 AATTTTTAAA
7840870 AATT
1 AATT
7840874 AATTAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:7840869 original size:8 final size:9
Alignment explanation
Indices: 7840844--7840870 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
7840834 GAATTTTAAT
7840844 TTTTAAAAA
1 TTTTAAAAA
7840853 TTTTAAAAA
1 TTTTAAAAA
7840862 TTTTAAAAA
1 TTTTAAAAA
7840871 ATTAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:7861851 original size:40 final size:40
Alignment explanation
Indices: 7861806--7861892 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
7861796 GCTATGTTTA
7861806 GCACTTAATATGAAATTC-GAGATAGCTTCAGCTATTTATG
1 GCACTTAATATGAAATTCGGA-ATAGCTTCAGCTATTTATG
* * ** * *
7861846 GCACTTAGTGTGCGATTTGGAATAGCTTCGGCTATTTATG
1 GCACTTAATATGAAATTCGGAATAGCTTCAGCTATTTATG
*
7861886 ACACTTA
1 GCACTTA
7861893 GTGTGCGAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 37 0.95
41 2 0.05
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (40 bp):
GCACTTAATATGAAATTCGGAATAGCTTCAGCTATTTATG
Found at i:7861932 original size:41 final size:40
Alignment explanation
Indices: 7861824--7861962 Score: 163
Period size: 41 Copynumber: 3.4 Consensus size: 40
7861814 TATGAAATTC
**
7861824 GAGATAGCTTCAGCTATTTATGGCACTTAGTGTGCGATTT
1 GAGATAGCTTCAGCTATTTATGGCACTTAGTGTGCGAGAT
* *
7861864 G-GAATAGCTTCGGCTATTTATGACACTTAGTGTGCGAGACT
1 GAG-ATAGCTTCAGCTATTTATGGCACTTAGTGTGCGAGA-T
* * * *
7861905 GAGATAGCTTCGGCTATGTAAGGCACTTAGTGTGCTAGAT
1 GAGATAGCTTCAGCTATTTATGGCACTTAGTGTGCGAGAT
*
7861945 TATGATAGCTTCAGCTAT
1 GA-GATAGCTTCAGCTAT
7861963 ACGATGGCAA
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 35 0.41
41 48 0.56
42 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (40 bp):
GAGATAGCTTCAGCTATTTATGGCACTTAGTGTGCGAGAT
Found at i:7862276 original size:42 final size:42
Alignment explanation
Indices: 7862219--7862318 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
7862209 CTATATGAAC
*
7862219 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
* *
7862261 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGTATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
7862303 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
7862319 TACCGAGAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
Found at i:7866920 original size:11 final size:11
Alignment explanation
Indices: 7866904--7866933 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
7866894 GGGAAGGAAA
7866904 AAAATAAAAAT
1 AAAATAAAAAT
7866915 AAAATAAAAAT
1 AAAATAAAAAT
7866926 AAAATAAA
1 AAAATAAA
7866934 TTTATATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:7868474 original size:29 final size:29
Alignment explanation
Indices: 7868399--7868474 Score: 107
Period size: 31 Copynumber: 2.6 Consensus size: 29
7868389 AACTTGTTAC
* **
7868399 TTTATTTACATTATGACTTTTGGTGACTT
1 TTTATTTATATTATGACTTTTGGTGACGA
7868428 TTAATATTTATATTATGACTTTTGGTGACGA
1 TT--TATTTATATTATGACTTTTGGTGACGA
7868459 TTTATTTATATTATGA
1 TTTATTTATATTATGA
7868475 GTTTGTGCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 16 0.38
31 26 0.62
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (29 bp):
TTTATTTATATTATGACTTTTGGTGACGA
Found at i:7869433 original size:9 final size:9
Alignment explanation
Indices: 7869352--7869440 Score: 54
Period size: 9 Copynumber: 9.2 Consensus size: 9
7869342 AGTGGTTTCT
7869352 TAAATAATTA
1 TAAA-AATTA
*
7869362 TAAAAATATT
1 TAAAAAT-TA
7869372 TAAAAATTA
1 TAAAAATTA
**
7869381 TTATGAATTA
1 -TAAAAATTA
7869391 TAAGAAAATT-
1 T-A-AAAATTA
*
7869401 TAAATAACTTT
1 TAAA-AA-TTA
* *
7869412 TAAAAGTTT
1 TAAAAATTA
7869421 TAAAAATTA
1 TAAAAATTA
7869430 TAAAAATTA
1 TAAAAATTA
7869439 TA
1 TA
7869441 TATACACACG
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
8 2 0.03
9 29 0.46
10 24 0.38
11 8 0.13
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.39
Consensus pattern (9 bp):
TAAAAATTA
Found at i:7873787 original size:15 final size:16
Alignment explanation
Indices: 7873769--7873805 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
7873759 ATAATTAAAG
7873769 AATAAATATAAAT-AT
1 AATAAATATAAATGAT
7873784 AATAAA-ATAAATGAT
1 AATAAATATAAATGAT
7873799 AA-AAATA
1 AATAAATA
7873806 CAAAACAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
AATAAATATAAATGAT
Found at i:7873810 original size:20 final size:20
Alignment explanation
Indices: 7873769--7873810 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
7873759 ATAATTAAAG
* *
7873769 AATAAATATAAATATAATAA
1 AATAAATATAAAAATAACAA
7873789 AATAAATGATAAAAAT-ACAA
1 AATAAAT-ATAAAAATAACAA
7873809 AA
1 AA
7873811 CAAGAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AATAAATATAAAAATAACAA
Found at i:7894822 original size:17 final size:19
Alignment explanation
Indices: 7894788--7894824 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
7894778 TTATTTAAGT
7894788 ATAAATTATTATAAAATCA
1 ATAAATTATTATAAAATCA
7894807 ATAAATTA-TA-AAAATCA
1 ATAAATTATTATAAAATCA
7894824 A
1 A
7894825 CTGACCTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 2 0.11
19 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAATTATTATAAAATCA
Found at i:7912761 original size:16 final size:19
Alignment explanation
Indices: 7912726--7912762 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
7912716 CTTCATTAAG
7912726 TTTCTCTATTCAATTAATT
1 TTTCTCTATTCAATTAATT
7912745 TTTCTC-ATT-AA-TAATT
1 TTTCTCTATTCAATTAATT
7912761 TT
1 TT
7912763 CGTTATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 3 0.17
19 6 0.33
ACGTcount: A:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTCTCTATTCAATTAATT
Found at i:7912877 original size:18 final size:19
Alignment explanation
Indices: 7912839--7912925 Score: 78
Period size: 19 Copynumber: 4.8 Consensus size: 19
7912829 TTTATCATAC
7912839 AAATTATTAAAA-ATCACAA
1 AAATTATTAAAATAT-ACAA
7912858 AAATTATTAAAATATA-AA
1 AAATTATTAAAATATACAA
* * * *
7912876 AAATAATCAAAAAATATAA
1 AAATTATTAAAATATACAA
*
7912895 AAATTATT-AAATTTA-AA
1 AAATTATTAAAATATACAA
7912912 AAA-T-TTAAAATATA
1 AAATTATTAAAATATA
7912926 TATAAAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
15 2 0.04
16 7 0.12
17 5 0.09
18 20 0.35
19 21 0.37
20 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATTATTAAAATATACAA
Found at i:7912878 original size:9 final size:9
Alignment explanation
Indices: 7912866--7912934 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
7912856 AAAAATTATT
7912866 AAAATATAA
1 AAAATATAA
7912875 AAAATAATCAA
1 AAAAT-AT-AA
7912886 AAAATAT-A
1 AAAATATAA
*
7912894 AAAAT-TAT
1 AAAATATAA
* *
7912902 TAAATTTAA
1 AAAATATAA
*
7912911 AAAATTTAA
1 AAAATATAA
*
7912920 AATATATATA
1 AAAATATA-A
7912930 AAAAT
1 AAAAT
7912935 TGATATAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
7 1 0.02
8 10 0.21
9 21 0.44
10 9 0.19
11 7 0.15
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAATATAA
Found at i:7912929 original size:36 final size:37
Alignment explanation
Indices: 7912856--7912970 Score: 116
Period size: 36 Copynumber: 3.2 Consensus size: 37
7912846 TAAAAATCAC
* *
7912856 AAAAATTATTAAAATATAAAAAATAATCAAAA-A-ATAT
1 AAAAATTATT-AAATTTAAAAAAT-ATTAAAATATATAT
7912893 AAAAATTATTAAATTTAAAAAAT-TTAAAATATATAT
1 AAAAATTATTAAATTTAAAAAATATTAAAATATATAT
* *
7912929 AAAAATTGATATAAACTT-ACAAATATT-AAATAT-TAT
1 AAAAATT-AT-TAAATTTAAAAAATATTAAAATATATAT
7912965 AAAAAT
1 AAAAAT
7912971 ATAAAATAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
34 5 0.07
35 1 0.01
36 32 0.46
37 23 0.33
38 8 0.12
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (37 bp):
AAAAATTATTAAATTTAAAAAATATTAAAATATATAT
Found at i:7912970 original size:18 final size:18
Alignment explanation
Indices: 7912890--7912978 Score: 55
Period size: 18 Copynumber: 4.9 Consensus size: 18
7912880 AATCAAAAAA
7912890 TATAAAAATTATTAAAT-T
1 TATAAAAA-TATTAAATAT
7912908 TA-AAAAAT-TTAAAATAT
1 TATAAAAATATT-AAATAT
*
7912925 ATATAAAAAT-TGATATAA-AC
1 -TATAAAAATAT--TA-AATAT
*
7912945 T-TACAAATATTAAATAT
1 TATAAAAATATTAAATAT
*
7912962 TATAAAAATATAAAATA
1 TATAAAAATATTAAATA
7912979 ATCTAATAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
15 2 0.04
16 7 0.12
17 10 0.18
18 23 0.41
19 9 0.16
20 2 0.04
21 3 0.05
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (18 bp):
TATAAAAATATTAAATAT
Found at i:7913055 original size:20 final size:20
Alignment explanation
Indices: 7913009--7913059 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
7912999 AATAAAATAT
*
7913009 GTTTAAAATTTTATAAAAAC
1 GTTTAAAATTCTATAAAAAC
*
7913029 GTATTAAAATTCTCTAAAAATC
1 GT-TTAAAATTCTATAAAAA-C
7913051 -TTTAAAATT
1 GTTTAAAATT
7913060 ATAAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 10 0.37
21 16 0.59
22 1 0.04
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (20 bp):
GTTTAAAATTCTATAAAAAC
Found at i:7913606 original size:9 final size:10
Alignment explanation
Indices: 7913592--7913766 Score: 73
Period size: 9 Copynumber: 18.8 Consensus size: 10
7913582 AATACATTTT
7913592 TATTTTA-AA
1 TATTTTATAA
7913601 TATTTTA-AA
1 TATTTTATAA
*
7913610 TAAATTTTATTA
1 T--ATTTTATAA
7913622 -ATTTT-T-A
1 TATTTTATAA
*
7913629 TATGTTATAA
1 TATTTTATAA
7913639 TA-TTTATAA
1 TATTTTATAA
7913648 TATTTT-T-A
1 TATTTTATAA
7913656 TATTTTATAA
1 TATTTTATAA
*
7913666 TATTTAAT-A
1 TATTTTATAA
*
7913675 -AGTTTAT-A
1 TATTTTATAA
*
7913683 TCAATTT-TAA
1 T-ATTTTATAA
7913693 TATTTT-TAA
1 TATTTTATAA
7913702 TA--TT-TAA
1 TATTTTATAA
*
7913709 TTTTTTAATAA
1 TATTTT-ATAA
* *
7913720 TGTTTTCTAA
1 TATTTTATAA
7913730 T-TTTTATAA
1 TATTTTATAA
*
7913739 CT-TTTATCTAA
1 -TATTT-TATAA
*
7913750 TTTTTTATAA
1 TATTTTATAA
7913760 T-TTTTAT
1 TATTTTAT
7913767 GATAAAAATA
Statistics
Matches: 133, Mismatches: 14, Indels: 38
0.72 0.08 0.21
Matches are distributed among these distances:
7 7 0.05
8 18 0.14
9 52 0.39
10 34 0.26
11 21 0.16
12 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (10 bp):
TATTTTATAA
Found at i:7913681 original size:36 final size:35
Alignment explanation
Indices: 7913641--7913709 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 35
7913631 TGTTATAATA
*
7913641 TTTATA-ATATTTTTATATTTTATAATATTTAATAAG
1 TTTATATA-ATTTTAATATTTT-TAATATTTAATAAG
7913677 TTTATATCAATTTTAATATTTTTAATATTTAAT
1 TTTATAT-AATTTTAATATTTTTAATATTTAAT
7913710 TTTTTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 17 0.57
37 12 0.40
38 1 0.03
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTATATAATTTTAATATTTTTAATATTTAATAAG
Found at i:7913707 original size:27 final size:27
Alignment explanation
Indices: 7913633--7913707 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
7913623 TTTTTATATG
* *
7913633 TTATAATATTTATAATATTTTTATATT
1 TTATAATATTTATAATATTTATATAAT
*
7913660 TTATAATATTTAATAA-GTTTATATCAAT
1 TTATAATATTT-ATAATATTTATAT-AAT
*
7913688 TT-TAATATTTTTAATATTTA
1 TTATAATATTTATAATATTTA
7913708 ATTTTTTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 29 0.73
28 8 0.20
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
TTATAATATTTATAATATTTATATAAT
Found at i:7913732 original size:21 final size:19
Alignment explanation
Indices: 7913706--7913764 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 19
7913696 TTTTAATATT
7913706 TAATTTTTTAATAATGTTTTC
1 TAATTTTTT-ATAAT-TTTTC
7913727 TAA-TTTTTATAACTTTTATC
1 TAATTTTTTATAA-TTTT-TC
7913747 TAATTTTTTATAATTTTT
1 TAATTTTTTATAATTTTT
7913765 ATGATAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
19 8 0.23
20 15 0.43
21 12 0.34
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TAATTTTTTATAATTTTTC
Found at i:7913765 original size:21 final size:21
Alignment explanation
Indices: 7913706--7913766 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
7913696 TTTTAATATT
*
7913706 TAATTTTTTAATAATGTTT-TC
1 TAATTTTTT-ATAATTTTTATC
*
7913727 TAA-TTTTTATAACTTTTATC
1 TAATTTTTTATAATTTTTATC
7913747 TAATTTTTTATAATTTTTAT
1 TAATTTTTTATAATTTTTAT
7913767 GATAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.20
20 10 0.29
21 18 0.51
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (21 bp):
TAATTTTTTATAATTTTTATC
Found at i:7913771 original size:12 final size:10
Alignment explanation
Indices: 7913706--7913764 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
7913696 TTTTAATATT
7913706 TAATTTTTTAA
1 TAATTTTTT-A
* *
7913717 TAATGTTTTC
1 TAATTTTTTA
7913727 TAA-TTTTTA
1 TAATTTTTTA
* *
7913736 TAACTTTTATC
1 TAA-TTTTTTA
7913747 TAATTTTTTA
1 TAATTTTTTA
7913757 TAATTTTT
1 TAATTTTT
7913765 ATGATAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
9 7 0.18
10 16 0.42
11 15 0.39
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:7924861 original size:17 final size:16
Alignment explanation
Indices: 7924835--7924873 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
7924825 TTTTGATTGA
*
7924835 TTATTTTTTGAATGTT
1 TTATTTTTTGAATATT
7924851 TTATATTTTTGAATATT
1 TTAT-TTTTTGAATATT
7924868 TTATTT
1 TTATTT
7924874 ATTTTTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (16 bp):
TTATTTTTTGAATATT
Found at i:7927410 original size:32 final size:32
Alignment explanation
Indices: 7927374--7927449 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
7927364 GTTCAAATTA
*
7927374 CTCTCCCCCTAACTCATTATAAGTTATTATTT
1 CTCTCCCCCTAACTCATTACAAGTTATTATTT
*
7927406 CTCTCCCCTTAACTCATTACAAGTTATTATTT
1 CTCTCCCCCTAACTCATTACAAGTTATTATTT
7927438 CTCTCCCCCTAA
1 CTCTCCCCCTAA
7927450 TGTCGAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.24, C:0.33, G:0.03, T:0.41
Consensus pattern (32 bp):
CTCTCCCCCTAACTCATTACAAGTTATTATTT
Found at i:7927898 original size:41 final size:41
Alignment explanation
Indices: 7927778--7927917 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 41
7927768 CACCGCTAAA
* * * *
7927778 TCAAAAACGTCGCTAAAGACCAGAGCATTAGTGGCGATTCT
1 TCAAAAACGCCGCTAAAGACTAGAGCATTAGCGGCGCTTCT
* * * * * *
7927819 TCAAAAACGCCGCTAATG-CTTGGGTCTTTCGCGACGCTTCT
1 TCAAAAACGCCGCTAAAGACTAGAG-CATTAGCGGCGCTTCT
* *
7927860 TCAAAAACACCGCTAAAGACTAGAGCAATAGCGGCGCTTCT
1 TCAAAAACGCCGCTAAAGACTAGAGCATTAGCGGCGCTTCT
*
7927901 TAAAAAACGCCGCTAAA
1 TCAAAAACGCCGCTAAA
7927918 TCCCAAAAAA
Statistics
Matches: 77, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
40 3 0.04
41 70 0.91
42 4 0.05
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (41 bp):
TCAAAAACGCCGCTAAAGACTAGAGCATTAGCGGCGCTTCT
Found at i:7928778 original size:5 final size:5
Alignment explanation
Indices: 7928768--7928859 Score: 184
Period size: 5 Copynumber: 18.4 Consensus size: 5
7928758 AATAAATAAG
7928768 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
7928818 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
7928860 AAATAGGTAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 87 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:7929714 original size:40 final size:40
Alignment explanation
Indices: 7929652--7929738 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
7929642 AATTATGGAA
* * *
7929652 TACTAAATATTGATTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTGATTTGAGTACTGAATTGAACTGTGAAAT
* *
7929692 TACTGAATATTG-TTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGATT-TGAGTACTGAATTGAACTGTGAAAT
*
7929732 TAGTGAA
1 TACTGAA
7929739 GTAATGAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (40 bp):
TACTGAATATTGATTTGAGTACTGAATTGAACTGTGAAAT
Found at i:7939049 original size:31 final size:31
Alignment explanation
Indices: 7939014--7939077 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
7939004 AATAAAAATA
7939014 ATATTAAT-TAAAAATTAACTAATATGATAAT
1 ATATTAATGT-AAAATTAACTAATATGATAAT
* * * *
7939045 ATATTCATGTGAAATTAATTAATATGATCAT
1 ATATTAATGTAAAATTAACTAATATGATAAT
7939076 AT
1 AT
7939078 CTTTTACAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (31 bp):
ATATTAATGTAAAATTAACTAATATGATAAT
Found at i:7944183 original size:20 final size:23
Alignment explanation
Indices: 7944155--7944205 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
7944145 GATTTTTACT
*
7944155 AAAATAATA-CAAAAGAA-ATA-
1 AAAAAAATACCAAAAGAATATAC
*
7944175 AAAAAAATACCAAAATAATATAC
1 AAAAAAATACCAAAAGAATATAC
7944198 AAAAAAAT
1 AAAAAAAT
7944206 TATTTATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.31
21 7 0.27
22 3 0.12
23 8 0.31
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAAAAATACCAAAAGAATATAC
Found at i:7944189 original size:11 final size:10
Alignment explanation
Indices: 7944155--7944205 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
7944145 GATTTTTACT
*
7944155 AAAATAATAC
1 AAAAAAATAC
7944165 AAAAGAAATA-
1 AAAA-AAATAC
7944175 AAAAAAATACC
1 AAAAAAATA-C
7944186 AAAATAATATAC
1 AAAA-AA-ATAC
7944198 AAAAAAAT
1 AAAAAAAT
7944206 TATTTATCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
9 5 0.14
10 10 0.29
11 10 0.29
12 7 0.20
13 3 0.09
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.16
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:7944285 original size:27 final size:27
Alignment explanation
Indices: 7944255--7944313 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
7944245 GGTAATGGAA
*
7944255 AGGCGGCACCAAAGGTGTCTTTCCCAT
1 AGGCGGCACCAAAGGTGCCTTTCCCAT
* *
7944282 AGGCGGCACCGATGGTGCCTTTCCCAT
1 AGGCGGCACCAAAGGTGCCTTTCCCAT
7944309 AGGCG
1 AGGCG
7944314 ACATAGGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.20
Consensus pattern (27 bp):
AGGCGGCACCAAAGGTGCCTTTCCCAT
Found at i:7946223 original size:9 final size:10
Alignment explanation
Indices: 7946189--7946239 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 10
7946179 TGGTAAATAA
7946189 ATTTTTTTGT
1 ATTTTTTTGT
7946199 ATATTATTTTGGT
1 AT-TT-TTTT-GT
7946212 ATTTTTTT-T
1 ATTTTTTTGT
7946221 ATTTCTTTTGT
1 ATTT-TTTTGT
7946232 ATTATTTT
1 ATT-TTTT
7946240 AGTAAAAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
9 5 0.14
10 6 0.17
11 13 0.37
12 7 0.20
13 4 0.11
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.75
Consensus pattern (10 bp):
ATTTTTTTGT
Found at i:7946233 original size:20 final size:23
Alignment explanation
Indices: 7946189--7946239 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
7946179 TGGTAAATAA
7946189 ATTTTTTTGTATATTATTTTGGT
1 ATTTTTTTGTATATTATTTTGGT
*
7946212 ATTTTTTT-TAT-TTCTTTT-GT
1 ATTTTTTTGTATATTATTTTGGT
*
7946232 ATTATTTT
1 ATTTTTTT
7946240 AGTAAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.35
21 6 0.23
22 3 0.12
23 8 0.31
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.75
Consensus pattern (23 bp):
ATTTTTTTGTATATTATTTTGGT
Found at i:7948910 original size:20 final size:20
Alignment explanation
Indices: 7948868--7948908 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
7948858 CACAACACAA
7948868 TTCAATTTCATATTAAATAT
1 TTCAATTTCATATTAAATAT
* *
7948888 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTAAATAT
7948907 TT
1 TT
7948909 TCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTAAATAT
Found at i:7949454 original size:26 final size:25
Alignment explanation
Indices: 7949407--7949455 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
7949397 ATTCATTCTT
* *
7949407 TTATTATACTTACTTTATTATTATA
1 TTATTATACTTACTTAAATATTATA
*
7949432 TTATATATATTTACTTAAATATTA
1 TTAT-TATACTTACTTAAATATTA
7949456 AGTAAAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (25 bp):
TTATTATACTTACTTAAATATTATA
Found at i:7954318 original size:28 final size:28
Alignment explanation
Indices: 7954286--7954370 Score: 79
Period size: 26 Copynumber: 3.1 Consensus size: 28
7954276 TCTTAGATAT
7954286 TGCTTGGAGTTGATGTTTCTGATGTTTC
1 TGCTTGGAGTTGATGTTTCTGATGTTTC
* ** * * *
7954314 TGCTT-G-TTTTTTTTTTCTTA-GATAT-
1 TGCTTGGAGTTGATGTTTCTGATG-TTTC
7954339 TGCTTGGAGTTGATGTTTCTGATGTTTC
1 TGCTTGGAGTTGATGTTTCTGATGTTTC
7954367 TGCT
1 TGCT
7954371 GAACCGCTTG
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
25 6 0.15
26 12 0.30
27 12 0.30
28 10 0.25
ACGTcount: A:0.11, C:0.11, G:0.24, T:0.55
Consensus pattern (28 bp):
TGCTTGGAGTTGATGTTTCTGATGTTTC
Found at i:7954324 original size:53 final size:53
Alignment explanation
Indices: 7954265--7954370 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
7954255 AATGGAAGAA
7954265 TGTTTTTTTTTTCTTAGATATTGCTTGGAGTTGATGTTTCTGATGTTTCTGCT
1 TGTTTTTTTTTTCTTAGATATTGCTTGGAGTTGATGTTTCTGATGTTTCTGCT
7954318 TGTTTTTTTTTTCTTAGATATTGCTTGGAGTTGATGTTTCTGATGTTTCTGCT
1 TGTTTTTTTTTTCTTAGATATTGCTTGGAGTTGATGTTTCTGATGTTTCTGCT
7954371 GAACCGCTTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.11, C:0.09, G:0.21, T:0.58
Consensus pattern (53 bp):
TGTTTTTTTTTTCTTAGATATTGCTTGGAGTTGATGTTTCTGATGTTTCTGCT
Found at i:7954344 original size:25 final size:25
Alignment explanation
Indices: 7954265--7954344 Score: 63
Period size: 26 Copynumber: 3.1 Consensus size: 25
7954255 AATGGAAGAA
7954265 TGTTTTTTTTTTCTTAGATATTGCT
1 TGTTTTTTTTTTCTTAGATATTGCT
* ** * * *
7954290 TGGAGTTGATGTTTCTGATG-TTTCTGCT
1 T-G-TTTTTTTTTTCTTA-GATAT-TGCT
7954318 TGTTTTTTTTTTCTTAGATATTGCT
1 TGTTTTTTTTTTCTTAGATATTGCT
7954343 TG
1 TG
7954345 GAGTTGATGT
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
25 8 0.21
26 12 0.32
27 12 0.32
28 6 0.16
ACGTcount: A:0.11, C:0.09, G:0.19, T:0.61
Consensus pattern (25 bp):
TGTTTTTTTTTTCTTAGATATTGCT
Found at i:7961908 original size:53 final size:53
Alignment explanation
Indices: 7961793--7961908 Score: 187
Period size: 53 Copynumber: 2.2 Consensus size: 53
7961783 AACCCACAGC
7961793 TCGTGTGAGCATTGATGTAAAGGAAAGGTTACGATTATATGTAAAGACACACT
1 TCGTGTGAGCATTGATGTAAAGGAAAGGTTACGATTATATGTAAAGACACACT
** * * *
7961846 TAATTTGAGCATTGATGTAGAGGAAAGGTTACGATTATATGTAAAGGCACACT
1 TCGTGTGAGCATTGATGTAAAGGAAAGGTTACGATTATATGTAAAGACACACT
7961899 TCGTGTGAGC
1 TCGTGTGAGC
7961909 TTTCCCGAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (53 bp):
TCGTGTGAGCATTGATGTAAAGGAAAGGTTACGATTATATGTAAAGACACACT
Found at i:7963524 original size:73 final size:73
Alignment explanation
Indices: 7963428--7963580 Score: 288
Period size: 73 Copynumber: 2.1 Consensus size: 73
7963418 AACATCAATT
* *
7963428 AATGAAAACCATGTGTTCAAAAATAATCAAAGTGAAAGATGATATTATCAAAGGAATGATGTTGA
1 AATGGAAACCATGTGTTCAAAAATAATCAAAGTGAAAGATGAGATTATCAAAGGAATGATGTTGA
7963493 TGCCTAAA
66 TGCCTAAA
7963501 AATGGAAACCATGTGTTCAAAAATAATCAAAGTGAAAGATGAGATTATCAAAGGAATGATGTTGA
1 AATGGAAACCATGTGTTCAAAAATAATCAAAGTGAAAGATGAGATTATCAAAGGAATGATGTTGA
7963566 TGCCTAAA
66 TGCCTAAA
7963574 AATGGAA
1 AATGGAA
7963581 GTCTTCTCGA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.25
Consensus pattern (73 bp):
AATGGAAACCATGTGTTCAAAAATAATCAAAGTGAAAGATGAGATTATCAAAGGAATGATGTTGA
TGCCTAAA
Found at i:7983807 original size:39 final size:39
Alignment explanation
Indices: 7983756--7983836 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
7983746 TTCATCGAGA
7983756 GATAGTGCAAACTATACCCATCAATTCTTCTTCTGAATC
1 GATAGTGCAAACTATACCCATCAATTCTTCTTCTGAATC
7983795 GATAGTGCAAACTATACCCATCAATTCTTCTTCTGAATC
1 GATAGTGCAAACTATACCCATCAATTCTTCTTCTGAATC
7983834 GAT
1 GAT
7983837 TAACAAAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (39 bp):
GATAGTGCAAACTATACCCATCAATTCTTCTTCTGAATC
Found at i:7993784 original size:32 final size:33
Alignment explanation
Indices: 7993743--7993814 Score: 137
Period size: 32 Copynumber: 2.2 Consensus size: 33
7993733 CCTTTCATGG
7993743 CTTTTGGTTCCTTAGTAGGAATATTGATA-TTT
1 CTTTTGGTTCCTTAGTAGGAATATTGATATTTT
7993775 CTTTTGGTTCCTTAGTAGGAATATTGATATTTT
1 CTTTTGGTTCCTTAGTAGGAATATTGATATTTT
7993808 CTTTTGG
1 CTTTTGG
7993815 ATGTAACATT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
32 29 0.74
33 10 0.26
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.51
Consensus pattern (33 bp):
CTTTTGGTTCCTTAGTAGGAATATTGATATTTT
Found at i:8012588 original size:12 final size:12
Alignment explanation
Indices: 8012571--8012623 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
8012561 ATGAATAAAA
8012571 TAATAATTTTTT
1 TAATAATTTTTT
8012583 TAATAAAATATATTTT
1 TAAT--AAT-T-TTTT
8012599 T-AT-ATTTTTT
1 TAATAATTTTTT
8012609 TAATAATTTTTT
1 TAATAATTTTTT
8012621 TAA
1 TAA
8012624 AAAAATACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
10 5 0.14
11 3 0.09
12 16 0.46
14 3 0.09
15 3 0.09
16 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TAATAATTTTTT
Found at i:8012714 original size:27 final size:27
Alignment explanation
Indices: 8012684--8012750 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
8012674 CCTATCAGGT
8012684 AGGCGCCAATGAAGGTGCCTCACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
*
8012711 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
8012738 AGGCGCCAATGAA
1 AGGCGCCAATGAA
8012751 TATTGTAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.31, C:0.24, G:0.33, T:0.12
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCACAGAG
Found at i:8012786 original size:22 final size:19
Alignment explanation
Indices: 8012746--8013124 Score: 135
Period size: 19 Copynumber: 19.7 Consensus size: 19
8012736 AGAGGCGCCA
8012746 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
8012765 ATGAATATTGTAATTATTTTGT
1 ATGAATATTGT-A--ATTTTGT
*
8012787 AATTAA-ATT-TATATTTATAGTT
1 -ATGAATATTGTA-ATTT-T-G-T
* * *
8012809 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
8012826 ATGAATATTGTAATTTT-T
1 ATGAATATTGTAATTTTGT
*
8012844 -TG--TA-TG-AATATTG-
1 ATGAATATTGTAATTTTGT
*
8012857 -T-AATATTATAATTTTGT
1 ATGAATATTGTAATTTTGT
8012874 ATGAATATTGTAATTTTG-
1 ATGAATATTGTAATTTTGT
*
8012892 -T-AATTTTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
* *
8012909 ATGAATATTGTAATGTCGGGATAT
1 ATGAATATTGTAAT-T----TTGT
8012933 ATTGTAATATTGTAATTTTTTGT
1 A-TG-AATATTGTAA--TTTTGT
* *
8012956 ATGAATATTATAATTATTTT
1 ATGAATATTGTAATT-TTGT
8012976 AT-AATTAAATTTGT-ATTTATAGTT
1 ATGAA-T--A-TTGTAATTT-T-G-T
* * *
8013000 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
*
8013017 ATGAATATTATAATTTTTTGT
1 ATGAATATTGTAA--TTTTGT
*
8013038 ATGAAAATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
*
8013057 ATGAATATTGTAA-TAT-T
1 ATGAATATTGTAATTTTGT
* *
8013074 AT-AATTTTGTATGAATATTG-
1 ATGAATATTG--T-AATTTTGT
8013094 -T-AATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
8013111 ATGAATATTGTAAT
1 ATGAATATTGTAAT
8013125 GTCGGGATAT
Statistics
Matches: 270, Mismatches: 38, Indels: 104
0.66 0.09 0.25
Matches are distributed among these distances:
13 6 0.02
14 4 0.01
15 3 0.01
16 32 0.12
17 17 0.06
18 14 0.05
19 90 0.33
20 22 0.08
21 32 0.12
22 19 0.07
23 10 0.04
24 6 0.02
25 3 0.01
26 10 0.04
27 1 0.00
28 1 0.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
ATGAATATTGTAATTTTGT
Found at i:8012863 original size:8 final size:8
Alignment explanation
Indices: 8012850--8012948 Score: 54
Period size: 8 Copynumber: 11.4 Consensus size: 8
8012840 TTTTTGTATG
8012850 AATATTGT
1 AATATTGT
*
8012858 AATATTAT
1 AATATTGT
*
8012866 AATTTTGTAT
1 AATATTG--T
8012876 GAATATTGT
1 -AATATTGT
*
8012885 AATTTTGT
1 AATATTGT
*
8012893 AATTTTGT
1 AATATTGT
*
8012901 AATTTTGTAT
1 AATATTG--T
8012911 GAATATTGT
1 -AATATTGT
* * *
8012920 AATGTCGGG
1 AATAT-TGT
8012929 ATATATTGT
1 A-ATATTGT
8012938 AATATTGT
1 AATATTGT
8012946 AAT
1 AAT
8012949 TTTTTGTATG
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
8 48 0.68
9 6 0.08
10 5 0.07
11 12 0.17
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.51
Consensus pattern (8 bp):
AATATTGT
Found at i:8012866 original size:61 final size:60
Alignment explanation
Indices: 8012758--8013051 Score: 199
Period size: 61 Copynumber: 4.7 Consensus size: 60
8012748 GAATATTGTA
*
8012758 ATTTTGTATGAATATTGTAATTATTTTGTAATTAAATT-T-ATATTTATAGTTTTGGATTAGT
1 ATTTTGTATGAATATTGTAATT-TTTTGT-ATGAAATTGTAATA-TTATAGTTTTGGATTAGT
* * * *
8012819 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAAT
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAA-ATTGTAATATTATAGTTTTGGATTAGT
* * * * * *
8012880 ATTGTAAT-TTTGTAATTTTGTAA--TTTTGTATGAATATTGTAATGTCGGGATA-TATTGTAAT
1 ATT-T--TGTATG-AATATTGTAATTTTTTGTATGAA-ATTGTAATAT---TATAGTTTTG-GAT
*
8012941 ATTGT
57 -TAGT
* * *
8012946 AATTTTTTGTATGAATATTATAATTATTTTATAATTAAATTTGT-AT-TTATAGTTTTGGATTAG
1 -A--TTTTGTATGAATATTGTAATT-TTTTGT-ATGAAA-TTGTAATATTATAGTTTTGGATTAG
8013009 T
60 T
*
8013010 ATTTTGTATGAATATTATAATTTTTTGTATGAAAATTGTAAT
1 ATTTTGTATGAATATTGTAATTTTTTGTATG-AAATTGTAAT
8013052 TTTGTATGAA
Statistics
Matches: 184, Mismatches: 25, Indels: 49
0.71 0.10 0.19
Matches are distributed among these distances:
59 10 0.05
60 19 0.10
61 61 0.33
62 25 0.14
63 4 0.02
64 17 0.09
65 10 0.05
66 14 0.08
67 4 0.02
68 2 0.01
69 10 0.05
70 8 0.04
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (60 bp):
ATTTTGTATGAATATTGTAATTTTTTGTATGAAATTGTAATATTATAGTTTTGGATTAGT
Found at i:8012879 original size:27 final size:27
Alignment explanation
Indices: 8012841--8013124 Score: 133
Period size: 27 Copynumber: 10.7 Consensus size: 27
8012831 TATTGTAATT
8012841 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTATAA
* *
8012868 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATTATAA
* *
8012895 TTTTG--T-AATTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTG--T-AATATTATAA
* * * *
8012922 TGTCG--GGATATATTGTAATATTGTAA
1 TTTTGTATGA-ATATTGTAATATTATAA
*
8012948 TTTTTTGTATGAATATTATAATTATTTTATAA
1 --TTTTGTATGAATATTGTAA-TA--TTATAA
** ***
8012980 TTAAATTTGTATTTATAGTT-TTGGATTAGT-A
1 -T---TTTGTATGAATA-TTGTAATATTA-TAA
*
8013011 TTTTGTATGAATA-T-T-ATA--AT-T
1 TTTTGTATGAATATTGTAATATTATAA
*
8013032 TTTTGTATGAAAATTG---TA--AT--
1 TTTTGTATGAATATTGTAATATTATAA
8013052 TTT-GTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTATAA
*
8013078 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATTATAA
8013105 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
8013125 GTCGGGATAT
Statistics
Matches: 204, Mismatches: 26, Indels: 54
0.72 0.09 0.19
Matches are distributed among these distances:
19 11 0.05
20 3 0.01
21 17 0.08
22 4 0.02
24 9 0.04
25 3 0.01
26 14 0.07
27 95 0.47
28 4 0.02
29 13 0.06
30 5 0.02
31 6 0.03
32 6 0.03
33 1 0.00
34 11 0.05
35 2 0.01
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (27 bp):
TTTTGTATGAATATTGTAATATTATAA
Found at i:8012893 original size:35 final size:35
Alignment explanation
Indices: 8012854--8012922 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
8012844 TGTATGAATA
8012854 TTGTAATATTATAATTTTGTATGAATATTGTAATT
1 TTGTAATATTATAATTTTGTATGAATATTGTAATT
* *
8012889 TTGTAATTTTGTAATTTTGTATGAATATTGTAAT
1 TTGTAATATTATAATTTTGTATGAATATTGTAAT
8012923 GTCGGGATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (35 bp):
TTGTAATATTATAATTTTGTATGAATATTGTAATT
Found at i:8012997 original size:191 final size:199
Alignment explanation
Indices: 8012749--8013190 Score: 683
Period size: 191 Copynumber: 2.3 Consensus size: 199
8012739 GGCGCCAATG
* *
8012749 AATATTGTAA--TTTTGTATGAATATTGTAATTATTTTGTAATTAAATTTATATTTATAGTTTTG
1 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTTATAATTAAATTTGTATTTATAGTTTTG
* * *
8012812 GATTAGTATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAA-TAT-TAT-AATTTTGT
66 GATTAGTATTTTGTATGAATATTATAATTTTTTGTATGAAAATTGTAATTATGTATGAATATTGT
* *
8012874 -ATGA-AT-A-TTG-T-AATTTTGTAATTTTGTAATTTTGTATGAATATTGTAATGTCGGGATAT
131 AAT-ATATAATTTGATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGGGATAT
8012933 ATTGT
195 ATTGT
*
8012938 AATATTGTAATTTTTTGTATGAATATTATAATTATTTTATAATTAAATTTGTATTTATAGTTTTG
1 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTTATAATTAAATTTGTATTTATAGTTTTG
*
8013003 GATTAGTATTTTGTATGAATATTATAATTTTTTGTATGAAAATTGTAATTTTGTATGAATATTGT
66 GATTAGTATTTTGTATGAATATTATAATTTTTTGTATGAAAATTGTAATTATGTATGAATATTGT
8013068 AATATTATAATTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGGGAT
131 AATA-TATAA-TTTG-ATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGGGAT
8013133 ATATTGT
193 ATATTGT
8013140 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTTATAATT-AATTTGT
1 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTTATAATTAAATTTGT
8013191 TAGTAATTTA
Statistics
Matches: 229, Mismatches: 10, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
189 10 0.04
191 96 0.42
192 2 0.01
193 3 0.01
194 8 0.03
195 2 0.01
196 2 0.01
197 1 0.00
199 3 0.01
201 8 0.03
202 94 0.41
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.53
Consensus pattern (199 bp):
AATATTGTAATTTTTTGTATGAATATTGTAATTATTTTATAATTAAATTTGTATTTATAGTTTTG
GATTAGTATTTTGTATGAATATTATAATTTTTTGTATGAAAATTGTAATTATGTATGAATATTGT
AATATATAATTTGATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGGGATATA
TTGT
Found at i:8013036 original size:21 final size:20
Alignment explanation
Indices: 8013011--8013172 Score: 90
Period size: 19 Copynumber: 8.1 Consensus size: 20
8013001 TGGATTAGTA
*
8013011 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAA-T
*
8013032 TTTTGTATGAAAATTGTAA-
1 TTTTGTATGAATATTGTAAT
8013051 TTTTGTATGAATATTGTAA-
1 TTTTGTATGAATATTGTAAT
* * *
8013070 -TAT-TAT-AATTTTGTATGAA
1 TTTTGTATGAATATTGTA--AT
*
8013089 TATTG--T-AATATTGTAA-
1 TTTTGTATGAATATTGTAAT
8013105 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
** *
8013125 GTCGGGATATATTGTAATATTGTAATT
1 -T---TTTGTA-TG-AATATTGTAA-T
8013152 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
8013172 T
1 T
8013173 ATTTTATAAT
Statistics
Matches: 110, Mismatches: 15, Indels: 33
0.70 0.09 0.21
Matches are distributed among these distances:
16 12 0.11
17 4 0.04
18 4 0.04
19 37 0.34
20 3 0.03
21 28 0.25
22 2 0.02
23 3 0.03
24 3 0.03
25 2 0.02
26 11 0.10
27 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (20 bp):
TTTTGTATGAATATTGTAAT
Found at i:8013071 original size:8 final size:8
Alignment explanation
Indices: 8013060--8013150 Score: 56
Period size: 8 Copynumber: 10.4 Consensus size: 8
8013050 ATTTTGTATG
8013060 AATATTGT
1 AATATTGT
*
8013068 AATATTAT
1 AATATTGT
*
8013076 AATTTTGTAT
1 AATATTG--T
8013086 GAATATTGT
1 -AATATTGT
8013095 AATATTGT
1 AATATTGT
*
8013103 AATTTTGTAT
1 AATATTG--T
8013113 GAATATTGT
1 -AATATTGT
* * *
8013122 AATGTCGGG
1 AATAT-TGT
8013131 ATATATTGT
1 A-ATATTGT
8013140 AATATTGT
1 AATATTGT
8013148 AAT
1 AAT
8013151 TTTTTGTATG
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
8 40 0.63
9 6 0.10
10 5 0.08
11 12 0.19
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.48
Consensus pattern (8 bp):
AATATTGT
Found at i:8016861 original size:29 final size:31
Alignment explanation
Indices: 8016828--8016902 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 31
8016818 TTTATCTCAG
*
8016828 GTTACATTTTAGTCACTTATG-T-TTGAAAT
1 GTTACATTTTAGTCACTTACGTTATTGAAAT
* * *
8016857 GTTACGTTTTAGTCACTTACGTTATTGTATT
1 GTTACATTTTAGTCACTTACGTTATTGAAAT
*
8016888 GTAACATTTTAGTCA
1 GTTACATTTTAGTCA
8016903 TTGAGCGTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 19 0.50
30 1 0.03
31 18 0.47
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTACGTTATTGAAAT
Found at i:8016901 original size:31 final size:29
Alignment explanation
Indices: 8016831--8016902 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
8016821 ATCTCAGGTT
* *
8016831 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTACGTTTGAAATGTA
* * *
8016860 ACGTTTTAGTCACTTACGTTATTGTATTGTA
1 ACATTTTAGTCACTTACG-T-TTGAAATGTA
8016891 ACATTTTAGTCA
1 ACATTTTAGTCA
8016903 TTGAGCGTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 16 0.46
30 1 0.03
31 18 0.51
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTACGTTTGAAATGTA
Found at i:8027020 original size:43 final size:43
Alignment explanation
Indices: 8026958--8027253 Score: 364
Period size: 43 Copynumber: 6.9 Consensus size: 43
8026948 CTTTAGAACT
8026958 AAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACC
1 AAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACC
* * *
8027001 AAGACTTTTAGAGGTGCTTTTCCCACAAACGCCGCTAAAGACC
1 AAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACC
* * *
8027044 AAGACCTTTAACGGCGCTTTACCCACAAACGCCGCTAAAGACA
1 AAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACC
* * *
8027087 AAGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTATAGATC
1 AAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACC
** *
8027130 GTGACCTTTAGCGGCGCTTATT-CCACAAACGCCGCTAAAGATC
1 AAGACCTTTAGCGGCGCTT-TTCCCACAAACGCCGCTAAAGACC
* ** * *
8027173 ATGACCTTTAGCGGCGCTTTTGTCACAAACGCCACTAAAGAAC
1 AAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACC
* ** *
8027216 AAG-CCTTTAACGGCG-TTTCTTGCAAAAACGCCGCTAAA
1 AAGACCTTTAGCGGCGCTTT-TCCCACAAACGCCGCTAAA
8027254 AATATAACCT
Statistics
Matches: 223, Mismatches: 27, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
41 3 0.01
42 28 0.13
43 191 0.86
44 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (43 bp):
AAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACC
Found at i:8027438 original size:35 final size:35
Alignment explanation
Indices: 8027403--8027470 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
8027393 CTATGAAAAT
8027403 TTTAACTTTA-AAAGTAAATATAA-AAATTAATAAA
1 TTTAACTTTAGAAAGTAAA-ATAATAAATTAATAAA
* **
8027437 TTTAATTTTAGAATTTAAAATAATAAATTAATAA
1 TTTAACTTTAGAAAGTAAAATAATAAATTAATAA
8027471 CACAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (35 bp):
TTTAACTTTAGAAAGTAAAATAATAAATTAATAAA
Found at i:8028001 original size:23 final size:23
Alignment explanation
Indices: 8027951--8028002 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
8027941 GTTAGGTGTC
* *
8027951 AGTATAAAGACATGTCAGATATG
1 AGTATGAAGACATGTCAGAGATG
* * *
8027974 GGTATGAAGGCATGTCTGAGATG
1 AGTATGAAGACATGTCAGAGATG
8027997 AGTATG
1 AGTATG
8028003 TTCAAAGTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27
Consensus pattern (23 bp):
AGTATGAAGACATGTCAGAGATG
Found at i:8031420 original size:21 final size:21
Alignment explanation
Indices: 8031394--8031439 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8031384 TCTTGGATGT
8031394 GGGAAA-TTAGGGATTTTAGGG
1 GGGAAAGTTAGGGA-TTTAGGG
* *
8031415 GGGAAAGTTGGGGATTTCGGG
1 GGGAAAGTTAGGGATTTAGGG
8031436 GGGA
1 GGGA
8031440 GGGGAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.24, C:0.02, G:0.50, T:0.24
Consensus pattern (21 bp):
GGGAAAGTTAGGGATTTAGGG
Found at i:8032635 original size:33 final size:33
Alignment explanation
Indices: 8032590--8032661 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
8032580 AATCTAAATA
* * * *
8032590 CTAAACCCTAACCTGACCCTGAATCCCTAATCC
1 CTAAACCCTAACCCGACCCCGAACCCCTAACCC
* *
8032623 CTAAACCTTAACCCGGCCCCGAACCCCTAACCC
1 CTAAACCCTAACCCGACCCCGAACCCCTAACCC
8032656 CTAAAC
1 CTAAAC
8032662 ATTATTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.46, G:0.07, T:0.17
Consensus pattern (33 bp):
CTAAACCCTAACCCGACCCCGAACCCCTAACCC
Found at i:8033476 original size:41 final size:40
Alignment explanation
Indices: 8033427--8033542 Score: 189
Period size: 41 Copynumber: 2.9 Consensus size: 40
8033417 GAAACATTAC
*
8033427 TTAG-GGCGCTTTTTCAAAAACGCCGCTAAAGGCCGGAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCC-GAGCA
8033467 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCTCGAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGC-CGAGCA
*
8033508 TTAGCGGCGCTTTCACAAAAACGCCGCTAAAGGCC
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCC
8033543 CCAAAAACTT
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
40 5 0.07
41 66 0.92
42 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (40 bp):
TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCCGAGCA
Found at i:8033703 original size:40 final size:40
Alignment explanation
Indices: 8033591--8033713 Score: 126
Period size: 40 Copynumber: 3.1 Consensus size: 40
8033581 TTTGCGATGC
* *
8033591 TTTTCAAAAAACGCTGCTAATGCTT-ATTTTTAGC-AGCGT
1 TTTTCAAAAAGCGCCGCTAATGCTTGATTTTTAGCGA-CGT
* * **
8033630 TTTTCAAAATGCGCCGCTAATGCTCGACCTTTAGCGACGT
1 TTTTCAAAAAGCGCCGCTAATGCTTGATTTTTAGCGACGT
* * *
8033670 TTTT-ATAAAAGCGCCGCTAAAGCTTGATTTTTAGTGGCGT
1 TTTTCA-AAAAGCGCCGCTAATGCTTGATTTTTAGCGACGT
8033710 TTTT
1 TTTT
8033714 TGTCCAAACG
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
39 22 0.32
40 45 0.66
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (40 bp):
TTTTCAAAAAGCGCCGCTAATGCTTGATTTTTAGCGACGT
Found at i:8033736 original size:12 final size:12
Alignment explanation
Indices: 8033719--8033744 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8033709 TTTTTTGTCC
8033719 AAACGCCGCTAA
1 AAACGCCGCTAA
8033731 AAACGCCGCTAA
1 AAACGCCGCTAA
8033743 AA
1 AA
8033745 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:8033980 original size:3 final size:3
Alignment explanation
Indices: 8033948--8034005 Score: 75
Period size: 3 Copynumber: 19.3 Consensus size: 3
8033938 TTCCTACAAA
*
8033948 AAT AA- AAT AA- AAT AAGT AAA AAT AAAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT
8033993 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
8034006 GGAAAATTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
2 4 0.08
3 39 0.80
4 6 0.12
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:8046991 original size:23 final size:23
Alignment explanation
Indices: 8046959--8047014 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
8046949 CATGTGTATA
* *
8046959 TTTTGATTTTA-GAAATTAATTT
1 TTTTGGTTTTATGAAATTAATTG
* *
8046981 TATTTGGTTTTATTAAATTTATTG
1 T-TTTGGTTTTATGAAATTAATTG
8047005 TTTTGGTTTT
1 TTTTGGTTTT
8047015 GTTTAAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 1 0.04
23 18 0.64
24 9 0.32
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.64
Consensus pattern (23 bp):
TTTTGGTTTTATGAAATTAATTG
Found at i:8047442 original size:55 final size:55
Alignment explanation
Indices: 8047349--8047457 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
8047339 AGGTGAATAC
* *
8047349 ATGAATTAATTGGGTTAAACCCCCAATTCTTGGTAGCTATGTACATTAAGCATCG
1 ATGAATTAATTGGGTTAAACCCCCAATTCTTGGCAGCTATGCACATTAAGCATCG
* *
8047404 ATGAATTAATTGGGTTAAACCCCTAATTTTTGGCAGCTATGCACATTAAGCATC
1 ATGAATTAATTGGGTTAAACCCCCAATTCTTGGCAGCTATGCACATTAAGCATC
8047458 AATGGAATGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (55 bp):
ATGAATTAATTGGGTTAAACCCCCAATTCTTGGCAGCTATGCACATTAAGCATCG
Found at i:8063046 original size:44 final size:44
Alignment explanation
Indices: 8062991--8063131 Score: 194
Period size: 44 Copynumber: 3.2 Consensus size: 44
8062981 AGTTGTTAAA
*
8062991 TGGTAAGAAATGAACATGCATTATAATTGTTTGATTGATTGTTT
1 TGGTAAGAAATGAACATGCATTATAATTGTTTGGTTGATTGTTT
* *
8063035 TGGTAATAAATGAACATGCATTATAAATGTTTGGTTGATTG-TT
1 TGGTAAGAAATGAACATGCATTATAATTGTTTGGTTGATTGTTT
** * *
8063078 TGGTAAGAAATGGTCATGTAATATAATTGTCTTGGTTGATTGTTT
1 TGGTAAGAAATGAACATGCATTATAATTGT-TTGGTTGATTGTTT
*
8063123 AGGTAAGAA
1 TGGTAAGAA
8063132 TTTCAAAGGT
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
43 26 0.31
44 49 0.58
45 10 0.12
ACGTcount: A:0.32, C:0.04, G:0.23, T:0.41
Consensus pattern (44 bp):
TGGTAAGAAATGAACATGCATTATAATTGTTTGGTTGATTGTTT
Found at i:8063352 original size:2 final size:2
Alignment explanation
Indices: 8063345--8063371 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8063335 TGAGATTAGG
8063345 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8063372 GCGATTTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8064660 original size:18 final size:19
Alignment explanation
Indices: 8064629--8064668 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
8064619 TGATTTCATG
*
8064629 ATATCTTTATTAAGTAATA
1 ATATCTTTAATAAGTAATA
8064648 ATAT-TTTAATAAGTAATA
1 ATATCTTTAATAAGTAATA
8064666 ATA
1 ATA
8064669 ATATATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (19 bp):
ATATCTTTAATAAGTAATA
Done.