Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 75 of 126
Found at i:15146758 original size:45 final size:45
Alignment explanation
Indices: 15146709--15146848 Score: 126
Period size: 45 Copynumber: 3.1 Consensus size: 45
15146699 AATTTTTTTC
* * *
15146709 AAAACTCTCTAGTATTATCTTTAAAAACTTTTGGGTATCATCTTT
1 AAAACTCTCTAGTATAATCTTTAAAAACATCTGGGTATCATCTTT
* * *
15146754 AAAACTTTCAAGTATAAT-TTTGAAAACATCTGGGTATCATC-TT
1 AAAACTCTCTAGTATAATCTTTAAAAACATCTGGGTATCATCTTT
* * * * *
15146797 AAAAGC-CT-TCGGATATCATCTTTAAGAACCTCTAGGTATCATCTTT
1 AAAA-CTCTCT-AG-TATAATCTTTAAAAACATCTGGGTATCATCTTT
15146843 AAAACT
1 AAAACT
15146849 TTTAAGTATC
Statistics
Matches: 75, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
43 8 0.11
44 26 0.35
45 35 0.47
46 6 0.08
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (45 bp):
AAAACTCTCTAGTATAATCTTTAAAAACATCTGGGTATCATCTTT
Found at i:15146760 original size:22 final size:22
Alignment explanation
Indices: 15146720--15146851 Score: 97
Period size: 22 Copynumber: 5.9 Consensus size: 22
15146710 AAACTCTCTA
*
15146720 GTATTATCTTTAAAAACTTTTGG
1 GTATCATCTTT-AAAACTTTTGG
***
15146743 GTATCATCTTTAAAACTTTCAA
1 GTATCATCTTTAAAACTTTTGG
* * *
15146765 GTATAAT-TTTGAAAACATCTGG
1 GTATCATCTTT-AAAACTTTTGG
* *
15146787 GTATCATC-TTAAAAGCCTTCGG
1 GTATCATCTTTAAAA-CTTTTGG
* * * *
15146809 ATATCATCTTTAAGAACCTCTAG
1 GTATCATCTTTAA-AACTTTTGG
15146832 GTATCATCTTTAAAACTTTT
1 GTATCATCTTTAAAACTTTT
15146852 AAGTATCTTT
Statistics
Matches: 83, Mismatches: 21, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
21 7 0.08
22 44 0.53
23 30 0.36
24 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (22 bp):
GTATCATCTTTAAAACTTTTGG
Found at i:15146836 original size:23 final size:22
Alignment explanation
Indices: 15146709--15146881 Score: 95
Period size: 22 Copynumber: 7.7 Consensus size: 22
15146699 AATTTTTTTC
*
15146709 AAAACTCTCTA-GTATTATCTTT
1 AAAAC-CTCTAGGTATCATCTTT
* * *
15146731 AAAAACTTTTGGGTATCATCTTT
1 -AAAACCTCTAGGTATCATCTTT
* * *
15146754 AAAA-CTTTCAAGTATAAT-TTT
1 AAAACCTCT-AGGTATCATCTTT
* *
15146775 GAAAACATCTGGGTATCATC-TT
1 -AAAACCTCTAGGTATCATCTTT
*
15146797 AAAAGCCT-TCGGATATCATCTTT
1 AAAA-CCTCTAGG-TATCATCTTT
15146820 AAGAACCTCTAGGTATCATCTTT
1 AA-AACCTCTAGGTATCATCTTT
* * * * *
15146843 AAAACTTTTAAGTATCTTTTTT
1 AAAACCTCTAGGTATCATCTTT
15146865 CAAAAACCTCTAGGTAT
1 --AAAACCTCTAGGTAT
15146882 TATTGTTATA
Statistics
Matches: 114, Mismatches: 24, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
21 13 0.11
22 48 0.42
23 36 0.32
24 17 0.15
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (22 bp):
AAAACCTCTAGGTATCATCTTT
Found at i:15147868 original size:31 final size:31
Alignment explanation
Indices: 15147833--15147909 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
15147823 TGAAAATTTT
15147833 TAAAATTTTCAAAATAATTCTAAAAAA-ATTC
1 TAAAATTTTCAAAAT-ATTCTAAAAAACATTC
** *
15147864 TAAAATTTTTTGAAATATTCTAAAAAAGCATTT
1 TAAAA-TTTTCAAAATATTCTAAAAAA-CATTC
15147897 TAAAA-TTTCAAAA
1 TAAAATTTTCAAAA
15147910 AAATCCAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
31 22 0.58
32 8 0.21
33 8 0.21
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.38
Consensus pattern (31 bp):
TAAAATTTTCAAAATATTCTAAAAAACATTC
Found at i:15148221 original size:26 final size:26
Alignment explanation
Indices: 15148191--15148255 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
15148181 ATTTTGAAAG
* *
15148191 ATTTTGAAAAATTA-AATAATTTCAAA
1 ATTTTGAAAAATTATAA-AAATTAAAA
*
15148217 ATTTTGAAACATTATAAAAATTAAAA
1 ATTTTGAAAAATTATAAAAATTAAAA
15148243 ATTTCTGAAAAAT
1 ATTT-TGAAAAAT
15148256 AAACAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 24 0.73
27 9 0.27
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (26 bp):
ATTTTGAAAAATTATAAAAATTAAAA
Found at i:15148224 original size:36 final size:34
Alignment explanation
Indices: 15148179--15148247 Score: 102
Period size: 36 Copynumber: 2.0 Consensus size: 34
15148169 AAGAATATTG
* *
15148179 AAATTTTGAAAGATTTTGAAAAATTAAATAATTTCA
1 AAATTTTGAAACATTAT-AAAAATTAAA-AATTTCA
15148215 AAATTTTGAAACATTATAAAAATTAAAAATTTC
1 AAATTTTGAAACATTATAAAAATTAAAAATTTC
15148248 TGAAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 6 0.19
35 10 0.32
36 15 0.48
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (34 bp):
AAATTTTGAAACATTATAAAAATTAAAAATTTCA
Found at i:15148369 original size:18 final size:18
Alignment explanation
Indices: 15148339--15148376 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
15148329 TAAAAAAAAT
*
15148339 AAAAATTGTAAGA-TTCA
1 AAAAATTGAAAGATTTCA
15148356 AAAAATTGAAAAGATTTCA
1 AAAAATTG-AAAGATTTCA
15148375 AA
1 AA
15148377 TTCTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 4 0.22
19 6 0.33
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (18 bp):
AAAAATTGAAAGATTTCA
Found at i:15148582 original size:18 final size:17
Alignment explanation
Indices: 15148562--15148629 Score: 82
Period size: 18 Copynumber: 3.9 Consensus size: 17
15148552 TCTTTATTTT
15148562 TTTTATTTTTTAAAATA
1 TTTTATTTTTTAAAATA
* * *
15148579 TTTTAGTTTTGAAAATT
1 TTTTATTTTTTAAAATA
15148596 TTATTATTTTTTAAAATA
1 TT-TTATTTTTTAAAATA
*
15148614 TTTCATATTTTTAAAA
1 TTTTAT-TTTTTAAAA
15148630 AAATATTAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
17 19 0.45
18 23 0.55
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTATTTTTTAAAATA
Found at i:15149525 original size:2 final size:2
Alignment explanation
Indices: 15149520--15149548 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15149510 AACTTCAACC
15149520 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
15149549 ACTCACACAC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:15150815 original size:21 final size:21
Alignment explanation
Indices: 15150743--15150820 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
15150733 TTAAGTATCA
* * *
15150743 TTTTTTGAAAACTTTTGGGTA
1 TTTTTTCAAAACTTTTGGATT
* * *
15150764 TGTTTTCAAAATCTCTGGGTATCT
1 TTTTTTCAAAA-CTTTTGG-AT-T
*
15150788 ATTTTTCAAAACTTTTGGATT
1 TTTTTTCAAAACTTTTGGATT
15150809 TTTTTTCAAAAC
1 TTTTTTCAAAAC
15150821 CTCAAGGTGC
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
21 21 0.49
22 7 0.16
23 6 0.14
24 9 0.21
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.50
Consensus pattern (21 bp):
TTTTTTCAAAACTTTTGGATT
Found at i:15155032 original size:42 final size:42
Alignment explanation
Indices: 15154973--15155056 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
15154963 ATTTTACAAA
15154973 AGAATGTAAATATTTTGTGTTTGAATACAGTCAGGGTCCTTT
1 AGAATGTAAATATTTTGTGTTTGAATACAGTCAGGGTCCTTT
* *
15155015 AGAATGTAAATGTTTTGTGTTTGAATACAGTCAGTGTCCTTT
1 AGAATGTAAATATTTTGTGTTTGAATACAGTCAGGGTCCTTT
15155057 TTAACTTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (42 bp):
AGAATGTAAATATTTTGTGTTTGAATACAGTCAGGGTCCTTT
Found at i:15161120 original size:13 final size:13
Alignment explanation
Indices: 15161102--15161126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15161092 ATGTATATAA
15161102 TAATTAAAAATTT
1 TAATTAAAAATTT
15161115 TAATTAAAAATT
1 TAATTAAAAATT
15161127 AAAAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATTAAAAATTT
Found at i:15161241 original size:12 final size:12
Alignment explanation
Indices: 15161195--15161245 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 12
15161185 CTACCTCTGT
15161195 CCAGCCCCC-GA
1 CCAGCCCCCTGA
* * *
15161206 CCAACTCCCTGT
1 CCAGCCCCCTGA
15161218 CCA-CCCCCTGA
1 CCAGCCCCCTGA
*
15161229 CCAGCCCCTTGA
1 CCAGCCCCCTGA
15161241 CCAGC
1 CCAGC
15161246 TCTCTGTTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
11 16 0.50
12 16 0.50
ACGTcount: A:0.18, C:0.57, G:0.14, T:0.12
Consensus pattern (12 bp):
CCAGCCCCCTGA
Found at i:15164998 original size:2 final size:2
Alignment explanation
Indices: 15164991--15165022 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15164981 TTGTCACCCT
15164991 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15165023 GGTGTGATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15165573 original size:24 final size:25
Alignment explanation
Indices: 15165522--15165594 Score: 67
Period size: 27 Copynumber: 2.8 Consensus size: 25
15165512 ATTAAAACTG
* *
15165522 AAGAAACAAAATTAAGAAAAAAAC-AA
1 AAGAAA-AAAA-TAATAAAAAGACAAA
*
15165548 AAGAAAAAAATAATAAAAAGATAAA
1 AAGAAAAAAATAATAAAAAGACAAA
*
15165573 ATAGCAAAATAATAATAAAAAG
1 A-AG-AAAAAAATAATAAAAAG
15165595 GGAAAATAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 9 0.22
25 7 0.17
26 8 0.20
27 16 0.40
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.12
Consensus pattern (25 bp):
AAGAAAAAAATAATAAAAAGACAAA
Found at i:15165600 original size:27 final size:27
Alignment explanation
Indices: 15165551--15165602 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
15165541 AAAACAAAAG
*
15165551 AAAAAAATAATAAAAAGATAAAATAGC
1 AAAAAAATAATAAAAAGAGAAAATAGC
* *
15165578 AAAATAATAATAAAAAGGGAAAATA
1 AAAAAAATAATAAAAAGAGAAAATA
15165603 AGTAAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (27 bp):
AAAAAAATAATAAAAAGAGAAAATAGC
Found at i:15165784 original size:18 final size:17
Alignment explanation
Indices: 15165761--15165805 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
15165751 GCAAAAGAAC
15165761 TCTTTTTTTCTTTACTTT
1 TCTTTTTTTCTTT-CTTT
* *
15165779 TCTTTTTCTCTTTTTTT
1 TCTTTTTTTCTTTCTTT
*
15165796 TCATTTTTTC
1 TCTTTTTTTC
15165806 ATTTTTTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (17 bp):
TCTTTTTTTCTTTCTTT
Found at i:15165821 original size:19 final size:18
Alignment explanation
Indices: 15165762--15165821 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
15165752 CAAAAGAACT
* *
15165762 CTTTTTTTCTTTACTTTT-
1 CTTTTTCTCTTT-TTTTTC
15165780 CTTTTTCTCTTTTTTTTC
1 CTTTTTCTCTTTTTTTTC
*
15165798 ATTTTT-TCATTTTTTTTGC
1 CTTTTTCTC-TTTTTTTT-C
15165817 CTTTT
1 CTTTT
15165822 CTTTAAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 6 0.17
18 24 0.69
19 5 0.14
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.77
Consensus pattern (18 bp):
CTTTTTCTCTTTTTTTTC
Found at i:15169356 original size:83 final size:83
Alignment explanation
Indices: 15169256--15169411 Score: 208
Period size: 83 Copynumber: 1.9 Consensus size: 83
15169246 TTTAAGTTAT
** *
15169256 AAAAAAAAAATTAAAGTTACGAGTGAAGTACTGAAGAA-AAGATGTGCTAGATAAAATTTAAGAA
1 AAAAAAAAAAAGAAAGTTACGAGTGAAATACTG-AGAAGAAGATGTGCTAGATAAAATTTAAGAA
15169320 -TCTTTGTTATAGAAAAAAA
65 TTC-TTGTTATAGAAAAAAA
* * * * *
15169339 AAAAAAAAAAAGAAAGTTATGAGTGAAATACTGGGAAGGAGATGTGCTGGATGAAATTTAAGAAT
1 AAAAAAAAAAAGAAAGTTACGAGTGAAATACTGAGAAGAAGATGTGCTAGATAAAATTTAAGAAT
15169404 TCTTGTTA
66 TCTTGTTA
15169412 AAAATAAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 3 0.05
83 58 0.92
84 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.26
Consensus pattern (83 bp):
AAAAAAAAAAAGAAAGTTACGAGTGAAATACTGAGAAGAAGATGTGCTAGATAAAATTTAAGAAT
TCTTGTTATAGAAAAAAA
Found at i:15172755 original size:12 final size:12
Alignment explanation
Indices: 15172720--15172774 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
15172710 TTATTTTTAC
*
15172720 ATATAAATATTT
1 ATATAAATAATT
* *
15172732 AAATATATAATT
1 ATATAAATAATT
15172744 ATATAAATAATT
1 ATATAAATAATT
* *
15172756 AATAAAAAAAATT
1 -ATATAAATAATT
15172769 ATATAA
1 ATATAA
15172775 TATCGGGTTG
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
12 24 0.71
13 10 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATAAATAATT
Found at i:15174506 original size:17 final size:16
Alignment explanation
Indices: 15174471--15174509 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15174461 ATTTTCCTCA
**
15174471 AAAATTTATTTTTTTG
1 AAAATTTATTTTTAGG
15174487 AAAATTTATTTTTAAGG
1 AAAATTTATTTTT-AGG
15174504 AAAATT
1 AAAATT
15174510 GATACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (16 bp):
AAAATTTATTTTTAGG
Found at i:15174677 original size:57 final size:60
Alignment explanation
Indices: 15174444--15174663 Score: 304
Period size: 57 Copynumber: 3.7 Consensus size: 60
15174434 AATTTCGAGA
* *
15174444 AAAATTGATATTTTCAAATTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGG
* * *
15174504 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTTTTGGAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TTTATTTTTTT-GAAAATTT-ATTTTTAAGG
* *
15174568 AAAATTGATACTTTCAACTTTTCCCCAAAAA--TA-TTTTTTGGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGG
*
15174625 AAAATTGATACTTTCAACTTTTCCTCAAAAACTT-TTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTT
15174664 AAAAAATTTT
Statistics
Matches: 142, Mismatches: 11, Indels: 15
0.85 0.07 0.09
Matches are distributed among these distances:
57 39 0.27
58 6 0.04
59 11 0.08
60 30 0.21
62 10 0.07
63 7 0.05
64 39 0.27
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAAATTTATTTTTAAGG
Found at i:15174720 original size:13 final size:13
Alignment explanation
Indices: 15174701--15174772 Score: 60
Period size: 13 Copynumber: 5.6 Consensus size: 13
15174691 AAAAAAAAGG
*
15174701 AAATAAAATAATA
1 AAATAAAATAAAA
* *
15174714 AAGTAAAAGAAAA
1 AAATAAAATAAAA
15174727 AAATAAAAT-AAA
1 AAATAAAATAAAA
*
15174739 ATA-AAAATAAAA
1 AAATAAAATAAAA
*
15174751 AAAGGTAAAA-CAAA
1 AAA--TAAAATAAAA
15174765 AAATAAAA
1 AAATAAAA
15174773 ATAACATAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
11 5 0.11
12 15 0.32
13 17 0.36
14 6 0.13
15 4 0.09
ACGTcount: A:0.79, C:0.01, G:0.06, T:0.14
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:15174728 original size:31 final size:29
Alignment explanation
Indices: 15174692--15174750 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
15174682 GATTTTTTTA
*
15174692 AAAAAAAGGAAATAAAATAATAAAGTAAAAG
1 AAAAAAAGAAAATAAAATAA-AAA-TAAAAG
*
15174723 AAAAAAATAAAATAAAATAAAAATAAAA
1 AAAAAAAGAAAATAAAATAAAAATAAAA
15174751 AAAGGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 3 0.12
31 18 0.69
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (29 bp):
AAAAAAAGAAAATAAAATAAAAATAAAAG
Found at i:15174731 original size:18 final size:18
Alignment explanation
Indices: 15174705--15174772 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
15174695 AAAAGGAAAT
* *
15174705 AAAATAATAAAGTAAAAG
1 AAAAAAATAAAATAAAAG
*
15174723 AAAAAAATAAAATAAAAT
1 AAAAAAATAAAATAAAAG
*
15174741 AAAAATAAAAAAAGGTAAAA-
1 AAAAA-AATAAAA--TAAAAG
*
15174761 CAAAAAATAAAA
1 AAAAAAATAAAA
15174773 ATAACATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
18 20 0.49
19 12 0.29
20 4 0.10
21 5 0.12
ACGTcount: A:0.79, C:0.01, G:0.06, T:0.13
Consensus pattern (18 bp):
AAAAAAATAAAATAAAAG
Found at i:15174746 original size:16 final size:16
Alignment explanation
Indices: 15174725--15174772 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
15174715 AGTAAAAGAA
15174725 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
*
15174741 AAAAATAAAA-AAAGGT
1 AAAAATAAAATAAA-AT
*
15174757 AAAACAAAAAATAAAA
1 AAAA-ATAAAATAAAA
15174773 ATAACATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 3 0.12
16 15 0.58
17 5 0.19
18 3 0.12
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.12
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:15174767 original size:39 final size:38
Alignment explanation
Indices: 15174701--15174789 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 38
15174691 AAAAAAAAGG
* *
15174701 AAAT-AAAAT-AATAAAGTAAAAGAAAAAA-ATAAAATA
1 AAATAAAAATAAAAAAAGTAAAACAAAAAATA-AAAATA
15174737 AAATAAAAATAAAAAAAGGTAAAACAAAAAATAAAAATA
1 AAATAAAAATAAAAAAA-GTAAAACAAAAAATAAAAATA
* *
15174776 ACATAAAGATAAAA
1 AAATAAAAATAAAA
15174790 GAACATCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
36 4 0.09
37 5 0.11
38 5 0.11
39 30 0.67
40 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.15
Consensus pattern (38 bp):
AAATAAAAATAAAAAAAGTAAAACAAAAAATAAAAATA
Found at i:15174833 original size:16 final size:17
Alignment explanation
Indices: 15174812--15174843 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15174802 ATCCTAATTT
15174812 AATAAATAAA-AAAAAC
1 AATAAATAAATAAAAAC
15174828 AATAAATAAATAAAAA
1 AATAAATAAATAAAAA
15174844 TTAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (17 bp):
AATAAATAAATAAAAAC
Found at i:15175759 original size:23 final size:22
Alignment explanation
Indices: 15175733--15175796 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 22
15175723 ACAGATAATT
*
15175733 AAAAATAAAATAAGATAAATCCA
1 AAAAATAAAATAAGATAAAT-AA
** *
15175756 AAAAATATTACAAGATAAA-AA
1 AAAAATAAAATAAGATAAATAA
15175777 AAAAATAATAATAA-ATAAAT
1 AAAAATAA-AATAAGATAAAT
15175797 TATAATATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
21 13 0.41
22 3 0.09
23 16 0.50
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (22 bp):
AAAAATAAAATAAGATAAATAA
Found at i:15175801 original size:11 final size:12
Alignment explanation
Indices: 15175781--15175817 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
15175771 TAAAAAAAAA
15175781 ATAATAATAAAT
1 ATAATAATAAAT
*
15175793 A-AATTAT-AAT
1 ATAATAATAAAT
15175803 ATAATAATAAAT
1 ATAATAATAAAT
15175815 ATA
1 ATA
15175818 TAACTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 4 0.19
11 10 0.48
12 7 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATAATAAAT
Found at i:15175808 original size:19 final size:21
Alignment explanation
Indices: 15175784--15175833 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
15175774 AAAAAAAATA
15175784 ATAATAAATAAAT-TATAA-T
1 ATAATAAATAAATATATAACT
15175803 ATAAT-AATAAATATATAACT
1 ATAATAAATAAATATATAACT
15175823 AT-ATAAATAAA
1 ATAATAAATAAA
15175834 ATACATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.25
19 12 0.43
20 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAATAAATAAATATATAACT
Found at i:15175825 original size:25 final size:25
Alignment explanation
Indices: 15175779--15175844 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
15175769 GATAAAAAAA
15175779 AAATAATAAT-AA-ATAAA-T-TAT
1 AAATAATAATAAATATAAACTATAT
15175800 AATATAATAATAAATATATAACTATAT
1 AA-ATAATAATAAATATA-AACTATAT
*
15175827 AAATAA-AATACATATAAA
1 AAATAATAATAAATATAAA
15175845 TATTAACAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 2 0.05
22 8 0.21
23 2 0.05
24 5 0.13
25 11 0.29
26 5 0.13
27 5 0.13
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAATAATAAATATAAACTATAT
Found at i:15175826 original size:22 final size:22
Alignment explanation
Indices: 15175781--15175828 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
15175771 TAAAAAAAAA
*
15175781 ATAATAATAAATAAATTATAAT
1 ATAATAATAAATAAATAATAAT
*
15175803 ATAATAATAAATATATAACT-AT
1 ATAATAATAAATAAATAA-TAAT
15175825 ATAA
1 ATAA
15175829 ATAAAATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAATAATAAATAAATAATAAT
Found at i:15176123 original size:7 final size:7
Alignment explanation
Indices: 15176113--15176178 Score: 75
Period size: 7 Copynumber: 9.7 Consensus size: 7
15176103 AACATTTTCA
15176113 TTTTTTG
1 TTTTTTG
15176120 TTTTTTTG
1 -TTTTTTG
15176128 TTTTTTG
1 TTTTTTG
*
15176135 TGTTTT-
1 TTTTTTG
*
15176141 TTTTTTC
1 TTTTTTG
15176148 TTTTTT-
1 TTTTTTG
*
15176154 TGTTTT-
1 TTTTTTG
15176160 TTTTTTG
1 TTTTTTG
15176167 TTTTTTG
1 TTTTTTG
15176174 TTTTT
1 TTTTT
15176179 GACCAAAGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
6 15 0.29
7 30 0.58
8 7 0.13
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:15176124 original size:1 final size:1
Alignment explanation
Indices: 15176113--15176178 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
15176103 AACATTTTCA
* * * * * * * *
15176113 TTTTTTGTTTTTTTGTTTTTTGTGTTTTTTTTTTCTTTTTTTGTTTTTTTTTTGTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15176178 T
1 T
15176179 GACCAAAGCT
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (1 bp):
T
Found at i:15176124 original size:8 final size:8
Alignment explanation
Indices: 15176113--15176178 Score: 77
Period size: 8 Copynumber: 8.5 Consensus size: 8
15176103 AACATTTTCA
15176113 TTTTTTGT
1 TTTTTTGT
15176121 TTTTTTGT
1 TTTTTTGT
15176129 TTTTTGTGT
1 TTTTT-TGT
15176138 TTTTTT-T
1 TTTTTTGT
15176145 TTCTTTT-T
1 TT-TTTTGT
*
15176153 TTGTTT-T
1 TTTTTTGT
15176160 TTTTTTG-
1 TTTTTTGT
15176167 TTTTTTGT
1 TTTTTTGT
15176175 TTTT
1 TTTT
15176179 GACCAAAGCT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
7 19 0.37
8 25 0.48
9 8 0.15
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (8 bp):
TTTTTTGT
Found at i:15176144 original size:19 final size:19
Alignment explanation
Indices: 15176120--15176178 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
15176110 TCATTTTTTG
15176120 TTTTTTTGTTTTTTGTGTT
1 TTTTTTTGTTTTTTGTGTT
*
15176139 TTTTTTT-TCTTTTTTTGTTT
1 TTTTTTTGT-TTTTTGTG-TT
15176159 TTTTTTTGTTTTTTGT-TT
1 TTTTTTTGTTTTTTGTGTT
15176177 TT
1 TT
15176179 GACCAAAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 5 0.14
19 14 0.40
20 15 0.43
21 1 0.03
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (19 bp):
TTTTTTTGTTTTTTGTGTT
Found at i:15176154 original size:36 final size:37
Alignment explanation
Indices: 15176107--15176178 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 37
15176097 CAACTCAACA
15176107 TTTTCATTTTTTGTTTTTTTGTT-TTTTGTGTTTTTT
1 TTTTCATTTTTTGTTTTTTTGTTGTTTTGTGTTTTTT
* * *
15176143 TTTTCTTTTTTTGTTTTTTTTTTGTTTTTTGTTTTT
1 TTTTCATTTTTTGTTTTTTTGTTGTTTTGTGTTTTT
15176179 GACCAAAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 21 0.66
37 11 0.34
ACGTcount: A:0.01, C:0.03, G:0.10, T:0.86
Consensus pattern (37 bp):
TTTTCATTTTTTGTTTTTTTGTTGTTTTGTGTTTTTT
Found at i:15176358 original size:42 final size:42
Alignment explanation
Indices: 15176186--15176599 Score: 577
Period size: 42 Copynumber: 10.1 Consensus size: 42
15176176 TTTGACCAAA
* *
15176186 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAATA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-AGTAAATT
* *
15176229 GCTCCTCTAAACAGAGGCACCATGAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
15176270 GCTCATCTAAAC-GAGGCACCACGACTTTG-AAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
15176310 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
15176352 GTTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
15176394 GCTCCTCTAAACAGAGGTACCACGACTTTG-AAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* * *
15176435 GCGCCTCTAAACAGAGGCACCAAGACTTTGAAAATGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
15176477 GCTCCTCTAAATAGAGGCACCACGACTTTG-AAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
15176518 GCTCCTCTAAACAGA-G------G-CTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
15176552 GCTCATCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
15176594 ACTCCT
1 GCTCCT
15176600 TGACATTCAT
Statistics
Matches: 332, Mismatches: 25, Indels: 29
0.86 0.06 0.08
Matches are distributed among these distances:
33 5 0.02
34 26 0.08
35 1 0.00
40 36 0.11
41 102 0.31
42 139 0.42
43 23 0.07
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
Found at i:15176432 original size:83 final size:83
Alignment explanation
Indices: 15176186--15176599 Score: 580
Period size: 83 Copynumber: 5.1 Consensus size: 83
15176176 TTTGACCAAA
* *
15176186 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAATA-TAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-AGTAAATTGCTCCTCTAAACAGAGGCACC
* *
15176250 ATGACTTGGAAAAGTAAATT
64 ACGACTTTGAAAAGTAAATT
* *
15176270 GCTCATCTAAAC-GAGGCACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
15176333 GACTTTGAAAAAGTAAATT
66 GACTTTG-AAAAGTAAATT
* *
15176352 GTTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
15176417 GACTTTGAAAAGTAAATT
66 GACTTTGAAAAGTAAATT
* * * *
15176435 GCGCCTCTAAACAGAGGCACCAAGACTTTGAAAATGTAAATTGCTCCTCTAAATAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
15176500 GACTTTGAAAAGTAAATT
66 GACTTTGAAAAGTAAATT
* *
15176518 GCTCCTCTAAACAGA-G------G-CTTTGGAAAAGTAAATTGCTCATCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
15176575 GACTTTGAAAAAGTAAATT
66 GACTTTG-AAAAGTAAATT
*
15176594 ACTCCT
1 GCTCCT
15176600 TGACATTCAT
Statistics
Matches: 305, Mismatches: 20, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
75 43 0.14
76 17 0.06
80 1 0.00
81 36 0.12
82 22 0.07
83 134 0.44
84 52 0.17
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGAAAAGTAAATT
Found at i:15176544 original size:34 final size:33
Alignment explanation
Indices: 15176502--15176569 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 33
15176492 GGCACCACGA
*
15176502 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG
1 CTTTGAAAAGTAAATTGCTCATCTAAACAGAGG
15176535 CTTTGGAAAAGTAAATTGCTCATCTAAACAGAGG
1 CTTT-GAAAAGTAAATTGCTCATCTAAACAGAGG
15176569 C
1 C
15176570 ACCACGACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 4 0.12
34 29 0.88
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (33 bp):
CTTTGAAAAGTAAATTGCTCATCTAAACAGAGG
Found at i:15176583 original size:75 final size:76
Alignment explanation
Indices: 15176460--15176599 Score: 230
Period size: 75 Copynumber: 1.9 Consensus size: 76
15176450 GGCACCAAGA
* * *
15176460 CTTTGAAAATGTAAATTGCTCCTCTAAATAGAGGCACCACGACTTTG-AAAAGTAAATTGCTCCT
1 CTTTGAAAATGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTACTCCT
15176524 CTAAACAGAGG
66 CTAAACAGAGG
15176535 CTTTGGAAAA-GTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTACTCC
1 CTTT-GAAAATGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTACTCC
15176599 T
65 T
15176600 TGACATTCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
75 39 0.65
76 21 0.35
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (76 bp):
CTTTGAAAATGTAAATTGCTCATCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTACTCCT
CTAAACAGAGG
Found at i:15181042 original size:60 final size:59
Alignment explanation
Indices: 15180852--15181090 Score: 354
Period size: 62 Copynumber: 3.9 Consensus size: 59
15180842 TTGTGTAGGA
*
15180852 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTCTTTTGGAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTT-TTTTGGAAA-TTT-ATTTTTAAGG
* *
15180914 AAAATTGATACTTTCAACTTTTCCTCAAAGATTGATTTTTTT-GAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATT-TTTTTTTTGGAAATTTATTTTTAAGG
*
15180973 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTTGGAAATTTATTTTTAAGG
*
15181033 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTTTTGAAAATTTATTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA---TTTTTTTTTTGGAAATTTATTTTT
15181091 TTGGATTTTT
Statistics
Matches: 163, Mismatches: 8, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
59 46 0.28
60 51 0.31
61 4 0.02
62 58 0.36
63 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.49
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTGGAAATTTATTTTTAAGG
Found at i:15181074 original size:121 final size:122
Alignment explanation
Indices: 15180852--15181090 Score: 378
Period size: 121 Copynumber: 2.0 Consensus size: 122
15180842 TTGTGTAGGA
*
15180852 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTCTTTTGGAAATTTTGATTTTCAAGGAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTCTTTTGGAAATTTTGATTTTCAAGGAAA
*
15180917 ATTGATACTTTCAACTTTTCCTCAAAGATTGATTTTTTTG-AAATTTATTTTTAAGG
66 ATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTTTTAAGG
*
15180973 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTT-TTTTGGAAA-TTT-ATTTTTAAGGAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTCTTTTGGAAATTTTGATTTTCAAGGAA
**
15181035 AATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTTTTGAAAATTTATTTTT
65 AATTGATACTTTCAACTTTTCCTCAAAAA--TTGATTTTTTTGAAAATTTATTTTT
15181091 TTGGATTTTT
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
119 39 0.36
120 3 0.03
121 50 0.46
122 17 0.16
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.49
Consensus pattern (122 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTCTTTTGGAAATTTTGATTTTCAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTTTTAAGG
Found at i:15181155 original size:23 final size:22
Alignment explanation
Indices: 15181108--15181170 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
15181098 TTTTTTAAAA
*
15181108 AAAAGGAAATAAAAT-AATAAAGT
1 AAAA-GAAA-AAAATAAAAAAAGT
15181131 AAAAGAAAAAAATAAAAAAAGGT
1 AAAAGAAAAAAATAAAAAAA-GT
**
15181154 AAAA-CCAAAAATAAAAA
1 AAAAGAAAAAAATAAAAA
15181171 TAACATAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 5 0.14
22 20 0.57
23 10 0.29
ACGTcount: A:0.76, C:0.03, G:0.10, T:0.11
Consensus pattern (22 bp):
AAAAGAAAAAAATAAAAAAAGT
Found at i:15181592 original size:11 final size:11
Alignment explanation
Indices: 15181576--15181609 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
15181566 GTTTTCACCA
15181576 GAAGTTGGTCG
1 GAAGTTGGTCG
* *
15181587 GAAGTTCGCCG
1 GAAGTTGGTCG
15181598 GAAGTTGGTCG
1 GAAGTTGGTCG
15181609 G
1 G
15181610 TTTCTGTGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.18, C:0.15, G:0.44, T:0.24
Consensus pattern (11 bp):
GAAGTTGGTCG
Found at i:15182078 original size:30 final size:30
Alignment explanation
Indices: 15182042--15182099 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
15182032 AAAAAAAAAA
* *
15182042 GAAAAAAATAATAATAA-TAATCAGATAAAC
1 GAAAAAAATAAAAAAAATTAA-CAGATAAAC
15182072 GAAAAAAATAAAAAAAATTAACAGATAA
1 GAAAAAAATAAAAAAAATTAACAGATAA
15182100 TTAAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (30 bp):
GAAAAAAATAAAAAAAATTAACAGATAAAC
Found at i:15182152 original size:3 final size:3
Alignment explanation
Indices: 15182139--15182185 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
15182129 ATATTACAAG
* *
15182139 ATA AAA ATA ATA ATA ATA ATA ATAA ATAA ATT ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA ATA ATA ATA
15182185 A
1 A
15182186 ATATATAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 29 0.76
4 7 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15182182 original size:22 final size:23
Alignment explanation
Indices: 15182143--15182219 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 23
15182133 TACAAGATAA
15182143 AAATAATAATAATAATAATAAAT
1 AAATAATAATAATAATAATAAAT
*
15182166 AAATTATAAT-ATAATAATAAAT
1 AAATAATAATAATAATAATAAAT
*
15182188 ATATAACTATATAAATAA-AATACATAT
1 AAATAA-TA-AT-AATAATAATA-A-AT
15182215 AAATA
1 AAATA
15182220 TTAACAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 16 0.36
23 11 0.25
24 2 0.05
25 4 0.09
26 5 0.11
27 6 0.14
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATAATAATAATAATAATAAAT
Found at i:15182198 original size:25 final size:26
Alignment explanation
Indices: 15182145--15182215 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 26
15182135 CAAGATAAAA
* *
15182145 ATAATAATAATAAT-AATAAATAAATT
1 ATAAT-ATAATAATAAATATATAAACT
15182171 ATAATATAATAATAAATATAT-AACT
1 ATAATATAATAATAAATATATAAACT
* *
15182196 ATATAAATAA-AATACATATA
1 ATA-ATATAATAATAAATATA
15182216 AATATTAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 23 0.59
26 16 0.41
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (26 bp):
ATAATATAATAATAAATATATAAACT
Found at i:15182304 original size:16 final size:17
Alignment explanation
Indices: 15182271--15182323 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 17
15182261 ACATAGTAAT
15182271 AATAAATGAATAAT--AA
1 AATAAAT-AATAATACAA
*
15182287 AATACATAA-AATACAA
1 AATAAATAATAATACAA
15182303 AA-AAATAATAATACAA
1 AATAAATAATAATACAA
15182319 AATAA
1 AATAA
15182324 GAACCGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 3 0.10
15 7 0.23
16 19 0.61
17 2 0.06
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.21
Consensus pattern (17 bp):
AATAAATAATAATACAA
Found at i:15186195 original size:2 final size:2
Alignment explanation
Indices: 15186188--15186221 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
15186178 TAAATCTTCA
15186188 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15186222 AAAATTCCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15187850 original size:13 final size:13
Alignment explanation
Indices: 15187834--15187870 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
15187824 TAAGTAAATA
15187834 AAAATTAAAATTG
1 AAAATTAAAATTG
*
15187847 AAAATCAAAATTG
1 AAAATTAAAATTG
15187860 ATAAATTAAAA
1 A-AAATTAAAA
15187871 AATCTCATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (13 bp):
AAAATTAAAATTG
Found at i:15188069 original size:22 final size:22
Alignment explanation
Indices: 15188038--15188083 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
15188028 TTTACAGATA
*
15188038 TTATTGATCT-TCATATTGAATT
1 TTATTAATCTATCA-ATTGAATT
*
15188060 TTATTAATCTATCAATTTAATT
1 TTATTAATCTATCAATTGAATT
15188082 TT
1 TT
15188084 TTTTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (22 bp):
TTATTAATCTATCAATTGAATT
Found at i:15188573 original size:1 final size:1
Alignment explanation
Indices: 15188567--15188595 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
15188557 GAAATGGTAG
15188567 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15188596 CCCATGAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15194889 original size:22 final size:24
Alignment explanation
Indices: 15194864--15194908 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
15194854 CTTAAAATCT
*
15194864 TAAATAAAAG-TTA-ATAAAAATG
1 TAAACAAAAGTTTATATAAAAATG
*
15194886 TAAACAAATGTTTATATAAAAAT
1 TAAACAAAAGTTTATATAAAAAT
15194909 TTTAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (24 bp):
TAAACAAAAGTTTATATAAAAATG
Found at i:15195258 original size:17 final size:17
Alignment explanation
Indices: 15195233--15195267 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15195223 ACCTTTCTCG
*
15195233 TTACAAGAATTGTTGGT
1 TTACAAGAATCGTTGGT
*
15195250 TTACTAGAATCGTTGGT
1 TTACAAGAATCGTTGGT
15195267 T
1 T
15195268 ATTCTAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.43
Consensus pattern (17 bp):
TTACAAGAATCGTTGGT
Found at i:15196085 original size:2 final size:2
Alignment explanation
Indices: 15196078--15196104 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15196068 GCAAAGGTGC
15196078 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15196105 GGAGAGATCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15196309 original size:2 final size:2
Alignment explanation
Indices: 15196302--15196331 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15196292 ATTCTTTCTC
15196302 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15196332 GCTGTTAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15215660 original size:48 final size:49
Alignment explanation
Indices: 15215602--15215768 Score: 169
Period size: 50 Copynumber: 3.4 Consensus size: 49
15215592 CAAAAAAAGG
* * * *
15215602 TGAAAATTTTAAAATTATTGA-CCTCTACTTAGAAGAGCCTTTTCAAAA
1 TGAAATTTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTTCAAAA
* * * **
15215650 TGAAATTTTTAAAGTTGTTGAGCTTTTACTTAGATGAGCTTTTTCAATG
1 TGAAATTTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTTCAAAA
* * *
15215699 TAAAATTTTTTAAAGTTGTTAAGCCTCTACTTAGATA-AGCTTTTTTCAAGA
1 TGAAA-TTTTTAAAGTTGTTGAGCCTCTACTTAGA-AGAGC-TTTTTCAAAA
15215750 TGAAATTGTTT-AAGTTGTT
1 TGAAATT-TTTAAAGTTGTT
15215769 AAATCTTTGC
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
48 18 0.19
49 25 0.26
50 39 0.40
51 15 0.15
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.43
Consensus pattern (49 bp):
TGAAATTTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTTCAAAA
Found at i:15215782 original size:50 final size:49
Alignment explanation
Indices: 15215622--15215801 Score: 161
Period size: 50 Copynumber: 3.6 Consensus size: 49
15215612 AAAATTATTG
* * * *
15215622 ACCTCTACTTAGA-AGAGCCTTTTCAAAATGAAATTTTTAAAGTTGTTGA
1 ACCTTTACTTAGATA-AGCTTTTTCAAGATGAAATTTTTAAAGTTGTTAA
* * * *
15215671 GCTTTTACTTAGATGAGCTTTTTCAATG-TAAAATTTTTTAAAGTTGTTAA
1 ACCTTTACTTAGATAAGCTTTTTCAA-GATGAAA-TTTTTAAAGTTGTTAA
* *
15215721 GCCTCTACTTAGATAAGCTTTTTTCAAGATGAAATTGTTT-AAGTTGTTAA
1 ACCTTTACTTAGATAAGC-TTTTTCAAGATGAAATT-TTTAAAGTTGTTAA
* * *
15215771 ATCTTTGCTTAGAGAAG-TTTTTCTAAGATGA
1 ACCTTTACTTAGATAAGCTTTTTC-AAGATGA
15215802 TTTAAAGTTG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
48 6 0.06
49 31 0.29
50 55 0.51
51 15 0.14
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (49 bp):
ACCTTTACTTAGATAAGCTTTTTCAAGATGAAATTTTTAAAGTTGTTAA
Found at i:15217454 original size:21 final size:21
Alignment explanation
Indices: 15217410--15217454 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15217400 AATTATTAGT
***
15217410 AAAATTAATAAAAATAATTTA
1 AAAATTAATAAAAATAAGGAA
*
15217431 AAAATTAGTAAAAATAAGGAA
1 AAAATTAATAAAAATAAGGAA
15217452 AAA
1 AAA
15217455 TAAAATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (21 bp):
AAAATTAATAAAAATAAGGAA
Found at i:15218942 original size:2 final size:2
Alignment explanation
Indices: 15218937--15218961 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15218927 AATTTTTTAT
15218937 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 T
15218962 TGGATATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15219734 original size:37 final size:37
Alignment explanation
Indices: 15219654--15219726 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
15219644 ATGATTGTGC
* * *
15219654 AATAATATTAAGTAAATATATTTTAAATTTTATATAT
1 AATAATATTAAATAAAGATATTTTAAATTTCATATAT
*
15219691 AATAATATTAAATAAAGATATTTTATATCTTCATAT
1 AATAATATTAAATAAAGATATTTTAAAT-TTCATAT
15219727 TTTTAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (37 bp):
AATAATATTAAATAAAGATATTTTAAATTTCATATAT
Found at i:15220066 original size:22 final size:22
Alignment explanation
Indices: 15220041--15220140 Score: 64
Period size: 22 Copynumber: 4.5 Consensus size: 22
15220031 AAAAATTACG
*
15220041 TTTTTATATTAAAAATATTATT
1 TTTTTATATTAAAAATATGATT
*
15220063 TTTTT-TAATAAAGACA-ATGATT
1 TTTTTATATTAAA-A-ATATGATT
* *
15220085 TTTTTATCTTAAAAATACCG-TT
1 TTTTTATATTAAAAATA-TGATT
* *
15220107 TTTGTTAAATTTTAAAAA-ATAATT
1 TTT-TT--ATATTAAAAATATGATT
15220131 TTTTTATATT
1 TTTTTATATT
15220141 TTTAATAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 19
0.68 0.10 0.22
Matches are distributed among these distances:
21 11 0.18
22 23 0.38
23 11 0.18
24 6 0.10
25 9 0.15
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (22 bp):
TTTTTATATTAAAAATATGATT
Found at i:15220149 original size:27 final size:25
Alignment explanation
Indices: 15220121--15220170 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
15220111 TTAAATTTTA
*
15220121 AAAAATAATTTTTTTATATTTTTAAT
1 AAAAATAATGTTTTT-TATTTTTAAT
*
15220147 AAAAATTATGTTTTTTATTTTTAA
1 AAAAATAATGTTTTTTATTTTTAA
15220171 AATGATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
AAAAATAATGTTTTTTATTTTTAAT
Found at i:15220150 original size:25 final size:24
Alignment explanation
Indices: 15220116--15220172 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 24
15220106 TTTTGTTAAA
*
15220116 TTTT-AAAAAATAATTTTTTTATAT
1 TTTTAAAAAAATAATGTTTTT-TAT
*
15220140 TTTTAATAAAAATTATGTTTTTTAT
1 TTTTAA-AAAAATAATGTTTTTTAT
15220165 TTTTAAAA
1 TTTTAAAA
15220173 TGATGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 6 0.21
25 10 0.34
26 13 0.45
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTTAAAAAAATAATGTTTTTTAT
Found at i:15223604 original size:2 final size:2
Alignment explanation
Indices: 15223599--15223631 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15223589 ATATATATAT
15223599 AC AC 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 AC AC A
15223632 TATACTTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15228171 original size:151 final size:151
Alignment explanation
Indices: 15227892--15228192 Score: 394
Period size: 151 Copynumber: 2.0 Consensus size: 151
15227882 CCTCACAAGG
* * * *
15227892 TAGAAGTGGTGTGAACCTTTATATACCTCAGTGACATTCCTTTTATGTTCGATGTGAGATTCAAG
1 TAGAAGTGGTGTGAACCTTTATATACCCCAGCGACACTCCTTTTATGTTCAATGTGAGATTCAAG
* * *
15227957 ACTACTCCTTAGGTCCGTGACATTCTCTCCCACCCAAACTCGTGACGCCTTCGTCACGAAGGCTG
66 ACTACTCCTTAGGTCCGTGACATTCTCTCACACCCAAACTCGTGACGCCCTCATCACGAAGGCTG
*
15228022 GCCACCCTGCCTACCTCCCTC
131 ACCACCCTGCCTACCTCCCTC
* * *
15228043 TAGAGGTGGTGTGAACCCTTT-TATACCCCAGCGACCCT-CTTATTATGTTCAATGTGGGATTCA
1 TAGAAGTGGTGTGAA-CCTTTATATACCCCAGCGACACTCCTT-TTATGTTCAATGTGAGATTCA
* * * *
15228106 GGACT-CTTCCTTAGGTCTGTGACATTCTC-CTACACCCAATCTCGTGACGCCCTCATCACGGAG
64 AGACTAC-TCCTTAGGTCCGTGACATTCTCTC-ACACCCAAACTCGTGACGCCCTCATCACGAAG
*
15228169 GCTGACCACCTTGCCTACCTCCCT
127 GCTGACCACCCTGCCTACCTCCCT
15228193 TGAGGTACTT
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
150 5 0.04
151 120 0.92
152 5 0.04
ACGTcount: A:0.20, C:0.32, G:0.19, T:0.29
Consensus pattern (151 bp):
TAGAAGTGGTGTGAACCTTTATATACCCCAGCGACACTCCTTTTATGTTCAATGTGAGATTCAAG
ACTACTCCTTAGGTCCGTGACATTCTCTCACACCCAAACTCGTGACGCCCTCATCACGAAGGCTG
ACCACCCTGCCTACCTCCCTC
Found at i:15228738 original size:372 final size:371
Alignment explanation
Indices: 15228044--15228738 Score: 882
Period size: 372 Copynumber: 1.9 Consensus size: 371
15228034 ACCTCCCTCT
* * * * *
15228044 AGAGGTGGTGTGAACCCTTTTATACCCCAGCGACCCTCTTATTATGTTCAATGTGGGATTCAGGA
1 AGAGGTGATGCGAACCCTTATATACCCCAACGACCCTCCTATTATGTTCAATGTGGGATTCAGGA
* * * *
15228109 CTCTTCCTTAGGTCTGTGACATTCTCCTACACCCAATCTCGTGACGCCCTCATCACGGAGGCTGA
66 CTCTTCCTTAGGTCTATGACATTCTCCTACACCCAACCTCGTAACACCCTCATCACGGAGGCTGA
* ** * * *
15228174 CCACCTTGCCTACCTCCCTTGAGGTACTTGGCGTGGATCGAACAGTATAGAACTGGCTTTGATAT
131 CCACCTTGCCTACCTCCCTTGAGGCACTTAACATGGATCGAACAGTATAGAACTGGCTCTGATAC
* *
15228239 CACTTATCACGGGTCGAGACTTAAGCTCCAAACTTGCGTGACTTCGAGACCCGGGCATCCACTCA
196 CACTTATCACGGGTCGAGACTTAAGCTCCAAACATGCG-GACTTCGAGACCCGAGCATCCACTCA
* * * * *
15228304 TTCGACGTTTCAGATCAGCTTAATCGCCACGGTTCATACCTTTGTGAGGTATTATCCGCTCTGGC
260 TCCGACGTTTCAAATCACCTTAATCGACACGGTTCATACCTTTGTGAGCTATTATCCGCTCTGGC
15228369 TCCTTCCGGCCTCACGGTTTTATCCTACAAAAAGTGCCTCACAAGGC
325 TCCTTCCGGCCTCACGGTTTTATCCTACAAAAAGTGCCTCACAAGGC
* *
15228416 AGAGGTGATGCGAACCCTTATATACCCCAATGACCTTCCTATTATGTTCAATGTGGGATTCAGGA
1 AGAGGTGATGCGAACCCTTATATACCCCAACGACCCTCCTATTATGTTCAATGTGGGATTCAGGA
* * * * * * *
15228481 CTCTTCCTTAGGT-TCATGATATTCTCTCT-CACCTAACCTCGTAATACTCTCGTCATGGAGTCT
66 CTCTTCCTTAGGTCT-ATGACATTCTC-CTACACCCAACCTCGTAACACCCTCATCACGGAGGCT
* * * * *
15228544 GGCTACCTTGCCTACCTCTCTTGAGGCACTTAACATGGATCGAAC-GATATAGGATTGGCTCTGA
129 GACCACCTTGCCTACCTCCCTTGAGGCACTTAACATGGATCGAACAG-TATAGAACTGGCTCTGA
* * *
15228608 TACCACTTGTCACGGGAT-GAGACTTAAGCTCTAAACCCATGC-GAC-TCTGGGACCCGAGCATC
193 TACCACTTATCACGGG-TCGAGACTTAAGCTCCAAA--CATGCGGACTTC-GAGACCCGAGCATC
* * *
15228670 CACTCATCCGACGTTTCAAATCAACCTTCAT-GACACGGTTTATACCTTTGTGAGCTATTATTCG
254 CACTCATCCGACGTTTCAAATC-ACCTTAATCGACACGGTTCATACCTTTGTGAGCTATTATCCG
15228734 CTCTG
318 CTCTG
15228739 ACCCCCTTGG
Statistics
Matches: 273, Mismatches: 42, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
371 4 0.01
372 256 0.94
373 9 0.03
374 4 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (371 bp):
AGAGGTGATGCGAACCCTTATATACCCCAACGACCCTCCTATTATGTTCAATGTGGGATTCAGGA
CTCTTCCTTAGGTCTATGACATTCTCCTACACCCAACCTCGTAACACCCTCATCACGGAGGCTGA
CCACCTTGCCTACCTCCCTTGAGGCACTTAACATGGATCGAACAGTATAGAACTGGCTCTGATAC
CACTTATCACGGGTCGAGACTTAAGCTCCAAACATGCGGACTTCGAGACCCGAGCATCCACTCAT
CCGACGTTTCAAATCACCTTAATCGACACGGTTCATACCTTTGTGAGCTATTATCCGCTCTGGCT
CCTTCCGGCCTCACGGTTTTATCCTACAAAAAGTGCCTCACAAGGC
Found at i:15231737 original size:25 final size:25
Alignment explanation
Indices: 15231708--15231760 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
15231698 AACCAACTTG
15231708 GGAGCACAAGGTGGTTCACCAAGCT
1 GGAGCACAAGGTGGTTCACCAAGCT
*
15231733 GGAGCACAAGGTTGTTCACCAAGCT
1 GGAGCACAAGGTGGTTCACCAAGCT
15231758 GGA
1 GGA
15231761 TTTGAGGTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.23, G:0.32, T:0.17
Consensus pattern (25 bp):
GGAGCACAAGGTGGTTCACCAAGCT
Found at i:15233500 original size:368 final size:369
Alignment explanation
Indices: 15232655--15233848 Score: 1227
Period size: 368 Copynumber: 3.2 Consensus size: 369
15232645 GGAGTCGTGT
* * *
15232655 AGGTTCAGAGCTTAAGTCTTGACCCGTGACAAGTGGTATCAGAGCCAATCCTATACCATTCGATC
1 AGGTTCAGAGCTTAAGTCTCGACCCGTGACAAGTGGTATTAGAGCCAATCCTATACCGTTCGATC
* * * * * * *
15232720 CACGCCAAGCACTTCAAGGAAGGTAGATAGGGTGGTCAGCCTCCGTGATGAGGGCGTCACGAGGT
66 CACGCCAAGCACCTCGAGGAAGGTAAACAGGGTGGTCAACCTCCGTAATGAGGACGTCACGAGGT
* * * ** *
15232785 TGGAT-AGAGAAGAATGTCATAGACCTAAGAAAGAGTGTTGAATCTCACATTGAACATAATATGA
131 TGGGTGCGAG-AGAATGTCACAGACCTAAGAAAGAGTCATGAATCTCACATTGAACATAATAGGA
* * *
15232849 GGGTCACT-GGATATAAAAGGGTTTACACCATCTCTCTCTTGTGAGATACCTTTTGTAGGAT-AA
195 GGGTCACTGGGGTATAAAAGGGTTCACACCATCTCTCTCTTGTGAGGTACCTTTTGTAGGATAAA
* * * * *
15232912 ATTATGAAGCCAAGGGG-CTAGAATGGATAATACCTCACAAGGGTATGAACCGTGACAGGT-AGA
260 ATTATGAGGCCAAGGGGTC-AGAACGGATAATACCTCACAAGGGTATAAATCATGAC-GGTCAGA
*** * * * * **
15232975 CTGATCTGAA-AC-ACTGGATGAGTGGATACCTGGGTCTCGAAG-TCGTAT
323 CTGATCT-AAGACGACAAAAGGA-TGAATGCCCGGGTCTCG-AGCT-GTGC
* ** * * *
15233023 AGGTTCAGAGCTTAAGTTTTAACCCGTGACAAGTGGTATTAGAGCCAACCCTATACCGTTTGATT
1 AGGTTCAGAGCTTAAGTCTCGACCCGTGACAAGTGGTATTAGAGCCAATCCTATACCGTTCGATC
* * * * ** *
15233088 CACGTCAAACACGTCGAGGGAA-G-AAGGCAGGGTGACCAACCTCCGTAATGA-GAAGTCACGAG
66 CACGCCAAGCACCTCGA-GGAAGGTAA-ACAGGGTGGTCAACCTCCGTAATGAGGACGTCACGAG
* *
15233150 GTTGGGTGCGAGAGAATGTCACAGACCTGAGAAAGAGTCATGAATCTCACATTAAACATAATAGG
129 GTTGGGTGCGAGAGAATGTCACAGACCTAAGAAAGAGTCATGAATCTCACATTGAACATAATAGG
*
15233215 AGGGTCACTGGGGTATAAAAGGGTTCACACCA-CATCTGC-CTTGTGAGGCACCTTTTGTA-GAT
194 AGGGTCACTGGGGTATAAAAGGGTTCACACCATC-TCT-CTCTTGTGAGGTACCTTTTGTAGGAT
* *
15233277 AAAATTATGAGGCCAAGAGGGTCAAAACGGATAATACCTCACAATGGTATAAATCATGACGGTCA
257 AAAATTATGAGGCCAAG-GGGTCAGAACGGATAATACCTCACAAGGGTATAAATCATGACGGTCA
* *
15233342 GACTGATCTAAGACGTCAAAAGGATGAATGCCCAGGTCTCAGAGCTGTGC
321 GACTGATCTAAGACGACAAAAGGATGAATGCCCGGGTCTC-GAGCTGTGC
** ** * * *
15233392 AGGTTTGGAGCTTAAGTCTCGACCATTGATAAGTGGTATTAGAGCC-ATCTTATACCGTTCAATC
1 AGGTTCAGAGCTTAAGTCTCGACCCGTGACAAGTGGTATTAGAGCCAATCCTATACCGTTCGATC
* * *
15233456 CAAGCCAAGCACCTCGAGGAAGGTAAACAAGGTGGTCAACCTCCGTGACA-AAGGACGTCACGAG
66 CACGCCAAGCACCTCGAGGAAGGTAAACAGGGTGGTCAACCTCCGT-A-ATGAGGACGTCACGAG
* * * * *
15233520 GTTGGGTGCGAGAGAATATCACAGACCTAAGGAGGAGTCATGAATCTCACATCGAACATAATAGA
129 GTTGGGTGCGAGAGAATGTCACAGACCTAAGAAAGAGTCATGAATCTCACATTGAACATAATAGG
* *
15233585 AGTGTCACTGGGGTATAAAAGGGTTCACACTATCTCTCTCTTGTGAGGTACCTTTTGTAGGATAA
194 AGGGTCACTGGGGTATAAAAGGGTTCACACCATCTCTCTCTTGTGAGGTACCTTTTGTAGGATAA
* * * * * * * *
15233650 AATCATGAGGCCAGGGGAGTCAGAGCGAACAATACCTCATAAGGGTATAAATCATGACGGTCGGG
259 AATTATGAGGCCAAGGG-GTCAGAACGGATAATACCTCACAAGGGTATAAATCATGACGGTCAGA
* * * * * * *
15233715 TTGATCTGAGATGCCAGAAAGG-TGAATGCTCGGGTCTCGATACCGTGC
323 CTGATCTAAGACGACA-AAAGGATGAATGCCCGGGTCTCGA-GCTGTGC
* * * * * * * *
15233763 AGGTTCAAAGCTTAAGTCTCGACCCATGACAAGTAGTATCAGAGTCAA-CTCTAAATCGTTTGAT
1 AGGTTCAGAGCTTAAGTCTCGACCCGTGACAAGTGGTATTAGAGCCAATC-CTATACCGTTCGAT
* * *
15233827 CCACGTCAAGCACATTGAGGAA
65 CCACGCCAAGCACCTCGAGGAA
15233849 AGTTGAGTGG
Statistics
Matches: 680, Mismatches: 119, Indels: 50
0.80 0.14 0.06
Matches are distributed among these distances:
367 80 0.12
368 198 0.29
369 110 0.16
370 132 0.19
371 127 0.19
372 33 0.05
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (369 bp):
AGGTTCAGAGCTTAAGTCTCGACCCGTGACAAGTGGTATTAGAGCCAATCCTATACCGTTCGATC
CACGCCAAGCACCTCGAGGAAGGTAAACAGGGTGGTCAACCTCCGTAATGAGGACGTCACGAGGT
TGGGTGCGAGAGAATGTCACAGACCTAAGAAAGAGTCATGAATCTCACATTGAACATAATAGGAG
GGTCACTGGGGTATAAAAGGGTTCACACCATCTCTCTCTTGTGAGGTACCTTTTGTAGGATAAAA
TTATGAGGCCAAGGGGTCAGAACGGATAATACCTCACAAGGGTATAAATCATGACGGTCAGACTG
ATCTAAGACGACAAAAGGATGAATGCCCGGGTCTCGAGCTGTGC
Found at i:15236178 original size:76 final size:72
Alignment explanation
Indices: 15236053--15236201 Score: 262
Period size: 76 Copynumber: 2.0 Consensus size: 72
15236043 GGCCGTAGCT
15236053 AGGGGGGCTGATAGGGGCATGACCCAAAAAGATTTTGTTTACGTCATTGTTGTGGTGGAATATTT
1 AGGGGGGCTGATAGGGGCATGACCCAAAAAGATTTTGTTTACGTCATTG-T-T-GTGGAATATTT
15236118 CATCCCATCA
63 CATCCCATCA
15236128 AGGGGGGCTGATAGGGGCCATGACCCAAAAAGATTTTGTTTACGTCATTGTTGTGGAATATTTCA
1 AGGGGGGCTGATAGGGG-CATGACCCAAAAAGATTTTGTTTACGTCATTGTTGTGGAATATTTCA
15236193 TCCCATCA
65 TCCCATCA
15236201 A
1 A
15236202 AAATAATATT
Statistics
Matches: 73, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
73 22 0.30
74 1 0.01
75 18 0.25
76 32 0.44
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (72 bp):
AGGGGGGCTGATAGGGGCATGACCCAAAAAGATTTTGTTTACGTCATTGTTGTGGAATATTTCAT
CCCATCA
Found at i:15237359 original size:20 final size:19
Alignment explanation
Indices: 15237334--15237377 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
15237324 CCATATCAAA
*
15237334 TTATATATTTTTATTAATTT
1 TTATATATTTTT-TAAATTT
15237354 TTATATATTTTTTAAATTT
1 TTATATATTTTTTAAATTT
15237373 TTATA
1 TTATA
15237378 AAATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATATTTTTTAAATTT
Found at i:15237381 original size:11 final size:10
Alignment explanation
Indices: 15237334--15237379 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
15237324 CCATATCAAA
*
15237334 TTATATATTT
1 TTATAAATTT
*
15237344 TTATTAATTT
1 TTATAAATTT
*
15237354 TTATATATTT
1 TTATAAATTT
15237364 TT-TAAATTT
1 TTATAAATTT
15237373 TTATAAA
1 TTATAAA
15237380 ATAAAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATAAATTT
Found at i:15243828 original size:23 final size:23
Alignment explanation
Indices: 15243798--15243844 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
15243788 CTTTCCATCT
15243798 TTCAGGTTTTAATTCATTACAAA
1 TTCAGGTTTTAATTCATTACAAA
* *
15243821 TTCAGGTTTTTATTTATTACAAA
1 TTCAGGTTTTAATTCATTACAAA
15243844 T
1 T
15243845 GCTTTCTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (23 bp):
TTCAGGTTTTAATTCATTACAAA
Found at i:15244407 original size:17 final size:17
Alignment explanation
Indices: 15244385--15244418 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15244375 TATTCCTGCA
* *
15244385 TCAATTGGGGTTTGATT
1 TCAATTGAGATTTGATT
15244402 TCAATTGAGATTTGATT
1 TCAATTGAGATTTGATT
15244419 ACAAAAGAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.47
Consensus pattern (17 bp):
TCAATTGAGATTTGATT
Found at i:15248349 original size:27 final size:26
Alignment explanation
Indices: 15248292--15248350 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
15248282 GGCTGACACT
** *
15248292 TGAGAGGGGGCTGAGAGGCGTGAAGG
1 TGAGAGGGGAATGAGAGGCGTGAAGC
*
15248318 T-AGAGGGGAATGTGAGGCGTGAAAGC
1 TGAGAGGGGAATGAGAGGCGTG-AAGC
15248344 TGAGAGG
1 TGAGAGG
15248351 ACAGAAACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 17 0.63
26 5 0.19
27 5 0.19
ACGTcount: A:0.27, C:0.07, G:0.53, T:0.14
Consensus pattern (26 bp):
TGAGAGGGGAATGAGAGGCGTGAAGC
Found at i:15253221 original size:29 final size:31
Alignment explanation
Indices: 15253158--15253221 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 31
15253148 CTTTGTTTCC
* * *
15253158 TTTTTTTCTTAATTTTTTTAGATTTTTCAAA
1 TTTTTTTCTTAATTTTTTTAGATATCTAAAA
15253189 TTTTTTT-TT-ATTTTTTTA-ATATCTAAAA
1 TTTTTTTCTTAATTTTTTTAGATATCTAAAA
15253217 TTTTT
1 TTTTT
15253222 ACCTTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 12 0.40
29 9 0.30
30 2 0.07
31 7 0.23
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (31 bp):
TTTTTTTCTTAATTTTTTTAGATATCTAAAA
Found at i:15253228 original size:24 final size:23
Alignment explanation
Indices: 15253201--15253264 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
15253191 TTTTTTTATT
15253201 TTTTTAATATCTAAAAT-TTTTACC
1 TTTTTAATAT-TAAAATATTTTA-C
* *
15253225 TTTTTATATTTTAAAGTTATTTTAC
1 TTTTTA-ATATTAAA-ATATTTTAC
15253250 TTTTTAATATTAAAA
1 TTTTTAATATTAAAA
15253265 ATTATGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
24 17 0.52
25 11 0.33
26 5 0.15
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTTAATATTAAAATATTTTAC
Found at i:15253269 original size:25 final size:25
Alignment explanation
Indices: 15253201--15253269 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
15253191 TTTTTTTATT
15253201 TTTTTAATATCTAAAA-T-TTTTACC
1 TTTTTAATAT-TAAAATTATTTTACC
* *
15253225 TTTTTATATTTTAAAGTTATTTTA-C
1 TTTTTA-ATATTAAAATTATTTTACC
15253250 TTTTTAATATTAAAAATTAT
1 TTTTTAATATT-AAAATTAT
15253270 GAAATTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
24 14 0.38
25 18 0.49
26 5 0.14
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (25 bp):
TTTTTAATATTAAAATTATTTTACC
Found at i:15255199 original size:9 final size:9
Alignment explanation
Indices: 15255185--15255218 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
15255175 AATAATTATA
15255185 TAAAAATTT
1 TAAAAATTT
15255194 TAAAAATTT
1 TAAAAATTT
*
15255203 TAAAAAATT
1 TAAAAATTT
15255212 TAAAAAT
1 TAAAAAT
15255219 ATATTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TAAAAATTT
Found at i:15255723 original size:20 final size:21
Alignment explanation
Indices: 15255686--15255735 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
15255676 CCCGAAATTA
15255686 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
15255707 ATAAAATATTA-TTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
15255727 AT-AAATATT
1 ATAAAATATT
15255736 TAAAAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 7 0.24
20 11 0.38
21 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:15255737 original size:14 final size:14
Alignment explanation
Indices: 15255720--15255771 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
15255710 AAATATTATT
15255720 TTTAAATATAAATA
1 TTTAAATATAAATA
*
15255734 TTTAAAAATATAATTA
1 TTT--AAATATAAATA
* *
15255750 TATAAATATATATA
1 TTTAAATATAAATA
*
15255764 ATTAAATA
1 TTTAAATA
15255772 ATTAATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 18 0.60
16 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:15255742 original size:16 final size:16
Alignment explanation
Indices: 15255723--15255761 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15255713 TATTATTTTT
*
15255723 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
15255739 AAATATAATTATATAA
1 AAATATAAATATATAA
*
15255755 ATATATA
1 AAATATA
15255762 TAATTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:15255758 original size:30 final size:30
Alignment explanation
Indices: 15255709--15255779 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
15255699 TTTTAAATAT
* * *
15255709 AAAATATTATT-TTTAAATATAAATATTTA
1 AAAATATAATTATATAAATATAAATAATTA
*
15255738 AAAATATAATTATATAAATATATATAATTA
1 AAAATATAATTATATAAATATAAATAATTA
15255768 AATAAT-TAATTA
1 AA-AATATAATTA
15255780 AAAATAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 10 0.28
30 23 0.64
31 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATAATTATATAAATATAAATAATTA
Found at i:15256141 original size:25 final size:24
Alignment explanation
Indices: 15256093--15256150 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
15256083 AAATAATAAT
*
15256093 AAAATTTATTATAATTGTGATTAA
1 AAAATTTATTATAATTATGATTAA
* *
15256117 AAAAATTATTGTAATTATGATTTAA
1 AAAATTTATTATAATTATGA-TTAA
15256142 AAAATTTAT
1 AAAATTTAT
15256151 ATTAAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (24 bp):
AAAATTTATTATAATTATGATTAA
Found at i:15260206 original size:13 final size:13
Alignment explanation
Indices: 15260165--15260234 Score: 65
Period size: 13 Copynumber: 5.6 Consensus size: 13
15260155 AATATGAAAT
* *
15260165 TTTTATTCATTTA
1 TTTTATTAATATA
* *
15260178 ATTTAATAAT-TA
1 TTTTATTAATATA
*
15260190 TTTTATTATTATA
1 TTTTATTAATATA
15260203 -TTT-TTAATATA
1 TTTTATTAATATA
*
15260214 ATTTATTAATATA
1 TTTTATTAATATA
15260227 TTTTATTA
1 TTTTATTA
15260235 GACATAATTA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
11 7 0.15
12 15 0.33
13 24 0.52
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTATTAATATA
Found at i:15260573 original size:19 final size:21
Alignment explanation
Indices: 15260539--15260588 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
15260529 AACATATCAT
* *
15260539 TTATAATAATTGTGA-TAAAA
1 TTATATTAATTATGATTAAAA
15260559 TTA-ATTAATTATGATTTAAAA
1 TTATATTAATTATGA-TTAAAA
15260580 TTATATTAA
1 TTATATTAA
15260589 AATCATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 9 0.36
20 3 0.12
21 8 0.32
22 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (21 bp):
TTATATTAATTATGATTAAAA
Found at i:15263421 original size:23 final size:23
Alignment explanation
Indices: 15263394--15263444 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
15263384 ATATGTTTTA
*
15263394 AAATTTAAATAAAAATTATACAT
1 AAATTTAAATAAAAAATATACAT
*
15263417 AAATTT-AATAAAAAATATATAT
1 AAATTTAAATAAAAAATATACAT
15263439 -AATTTA
1 AAATTTA
15263445 TATTTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 14 0.56
23 6 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATTTAAATAAAAAATATACAT
Found at i:15263832 original size:10 final size:10
Alignment explanation
Indices: 15263811--15263856 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
15263801 TATAAAATAT
15263811 AATTTT-TTA
1 AATTTTATTA
15263820 AATTTTATTA
1 AATTTTATTA
15263830 AA-TTTATTTA
1 AATTTTA-TTA
* *
15263840 TATTTTTTTA
1 AATTTTATTA
15263850 AATTTTA
1 AATTTTA
15263857 AATCGTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
9 10 0.33
10 17 0.57
11 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
AATTTTATTA
Found at i:15263844 original size:20 final size:19
Alignment explanation
Indices: 15263811--15263855 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
15263801 TATAAAATAT
15263811 AATTTTTTAAATTTTATTA
1 AATTTTTTAAATTTTATTA
* *
15263830 AATTTATTTATATTTTTTTA
1 AATTT-TTTAAATTTTATTA
15263850 AATTTT
1 AATTTT
15263856 AAATCGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTTTAAATTTTATTA
Found at i:15264082 original size:30 final size:28
Alignment explanation
Indices: 15264043--15264128 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 28
15264033 CTTGTCTCCT
*
15264043 TTTTGTTTTTAAATTTTTAGATGTTTCAAAA
1 TTTT-TTTTTAAATTTTTA-ATATTT-AAAA
**
15264074 TTTTTTTTTATTTTTTTAATATTTAAAA
1 TTTTTTTTTAAATTTTTAATATTTAAAA
* * *
15264102 --TTATTTT-ACTTTTTAATATTAAAAA
1 TTTTTTTTTAAATTTTTAATATTTAAAA
15264127 TT
1 TT
15264129 ATGAAAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
25 15 0.33
26 6 0.13
28 4 0.09
29 5 0.11
30 12 0.26
31 4 0.09
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.63
Consensus pattern (28 bp):
TTTTTTTTTAAATTTTTAATATTTAAAA
Found at i:15265540 original size:14 final size:14
Alignment explanation
Indices: 15265493--15265542 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
15265483 TTTAATTGTG
15265493 TAAAAATAAATAT-
1 TAAAAATAAATATA
*
15265506 TAAAAATTTAAT-TGAA
1 TAAAAA-TAAATAT--A
15265522 TAAAAATAAATATA
1 TAAAAATAAATATA
15265536 TAAAAAT
1 TAAAAAT
15265543 TCAATTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 7 0.23
14 12 0.40
15 4 0.13
16 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
TAAAAATAAATATA
Found at i:15265542 original size:30 final size:29
Alignment explanation
Indices: 15265474--15265548 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
15265464 AATTTTCAGC
* **
15265474 TATTAAGAATTTAATTGTGTAAAAATAAA
1 TATTAAAAATTTAATTGAATAAAAATAAA
15265503 TATTAAAAATTTAATTGAATAAAAATAAA
1 TATTAAAAATTTAATTGAATAAAAATAAA
*
15265532 TATATAAAAATTCAATT
1 TAT-TAAAAATTTAATT
15265549 AATTGTAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 29 0.71
30 12 0.29
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.37
Consensus pattern (29 bp):
TATTAAAAATTTAATTGAATAAAAATAAA
Found at i:15266738 original size:68 final size:68
Alignment explanation
Indices: 15266629--15266763 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 68
15266619 TAAATTTTGG
* * *
15266629 TCCTACTCTTACCTAAATGGCACTCGAACCAAATCATTTGTCATG-CTATTATTCTCTTGTTTTG
1 TCCTACTCTTACCTAAATGGCACCCGAACCAAATCATTTGTC-GGACTATTATTCTCATGTTTTG
15266693 TTCA
65 TTCA
* *
15266697 TCCTATTCTTACCTAAATGGCACCCGAACCGAATCATTTGTCGGACTATTATTCTCATGTTTTGT
1 TCCTACTCTTACCTAAATGGCACCCGAACCAAATCATTTGTCGGACTATTATTCTCATGTTTTGT
15266762 TC
66 TC
15266764 CTTCCACGTA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 1 0.02
68 60 0.98
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (68 bp):
TCCTACTCTTACCTAAATGGCACCCGAACCAAATCATTTGTCGGACTATTATTCTCATGTTTTGT
TCA
Found at i:15266803 original size:1 final size:1
Alignment explanation
Indices: 15266797--15266822 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
15266787 TCAATTTCTC
15266797 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
15266823 CAATCTTCGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15267167 original size:13 final size:13
Alignment explanation
Indices: 15267149--15267175 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15267139 GATATTATTT
15267149 ATTTTATTTCATA
1 ATTTTATTTCATA
15267162 ATTTTATTTCATA
1 ATTTTATTTCATA
15267175 A
1 A
15267176 AAATACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTATTTCATA
Found at i:15272104 original size:2 final size:2
Alignment explanation
Indices: 15272097--15272143 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
15272087 TTCAACCCGG
*
15272097 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15272139 TA TA T
1 TA TA T
15272144 TTAAAAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:15275143 original size:188 final size:189
Alignment explanation
Indices: 15274743--15275145 Score: 555
Period size: 188 Copynumber: 2.1 Consensus size: 189
15274733 GAGGTAGGAA
* * * * *
15274743 AAGAAAAGCAGAAGCAGAAAAGGGGA-TCAGTGTGGTAAGATAGAGGGCGATGTTCCTGTGGATT
1 AAGAAAAGCAGAAGCAGAAAAGGGGACTCAGTGCGGTAAAACAGAGGACGATGTTCCTGTCGATT
* * * * *
15274807 TGAAGGAAGATGAGTTCGTACATGTGGGAACCGAAAGTTTGGTGGAAATTTTTGAGACAGGTGAC
66 TGAAGGAAAATGAGTTCGGAAATGTGGGAACCGAAAGTTTGGGGGAAATTTTTGAGACAGATGAC
* * *
15274872 GATGGTGCTAGCCCAAAAGAGCCACCCATCAGCCATGGTTGCCCTTTCATGAAACTGTC
131 GATGGTGCTAGCCCAAAAGAGCCACCCATCAGCCATGATCGCCCCTTCATGAAACTGTC
*
15274931 AAGAAAAGCAGAAGCAGAAAAGGGGACT-AGTGCGGTAAAACAGATGACGATGTTCCTGTCGATT
1 AAGAAAAGCAGAAGCAGAAAAGGGGACTCAGTGCGGTAAAACAGAGGACGATGTTCCTGTCGATT
* * *
15274995 TGACGGAAAATGAGTTCGGAAATGATTAGGGAATCGAAAGTTTGGGGGAAATTTTTGAGATAGAT
66 TGAAGGAAAATGAGTTCGGAAATG--T-GGGAACCGAAAGTTTGGGGGAAATTTTTGAGACAGAT
* * * *
15275060 GATGAT-G-GCTGGCCCAAAAGAGCCACCCATCCGCCATGATCGCCCCTTCATGGAACTGTC
128 GACGATGGTGCTAGCCCAAAAGAGCCACCCATCAGCCATGATCGCCCCTTCATGAAACTGTC
15275120 AAGAAAAGCAGAAGCAG-AAAGGGGAC
1 AAGAAAAGCAGAAGCAGAAAAGGGGAC
15275146 GGTAAAATAG
Statistics
Matches: 190, Mismatches: 21, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
188 85 0.45
189 65 0.34
190 2 0.01
191 38 0.20
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.20
Consensus pattern (189 bp):
AAGAAAAGCAGAAGCAGAAAAGGGGACTCAGTGCGGTAAAACAGAGGACGATGTTCCTGTCGATT
TGAAGGAAAATGAGTTCGGAAATGTGGGAACCGAAAGTTTGGGGGAAATTTTTGAGACAGATGAC
GATGGTGCTAGCCCAAAAGAGCCACCCATCAGCCATGATCGCCCCTTCATGAAACTGTC
Found at i:15275906 original size:45 final size:45
Alignment explanation
Indices: 15275833--15275921 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
15275823 TTGCATTTTG
* *
15275833 AAACGTAGACGTCATTTTTTACCAAAATTAGCCGACTCTCATGTT
1 AAACATAGACGCCATTTTTTACCAAAATTAGCCGACTCTCATGTT
* * *
15275878 AAACATAGACGCCTTTTTTTACCCAAATTAGCCTACTCTCATGT
1 AAACATAGACGCCATTTTTTACCAAAATTAGCCGACTCTCATGT
15275922 ATCTCCTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (45 bp):
AAACATAGACGCCATTTTTTACCAAAATTAGCCGACTCTCATGTT
Found at i:15276163 original size:17 final size:18
Alignment explanation
Indices: 15276136--15276172 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
15276126 ACACATAAAA
15276136 TACATATAATAATTAAGT
1 TACATATAATAATTAAGT
*
15276154 TACA-ATAATAATTAGGT
1 TACATATAATAATTAAGT
15276171 TA
1 TA
15276173 AACTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (18 bp):
TACATATAATAATTAAGT
Found at i:15277168 original size:40 final size:41
Alignment explanation
Indices: 15277087--15277184 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 41
15277077 GTGATAAGAT
*
15277087 AAAAAGTTATACCTCTATCATAACATGTTTATATAAGAAAA
1 AAAAAGTTATACCTCTATCATAACATGTTCATATAAGAAAA
* *
15277128 AAAAATGTTATACCTCTGTCATAACATGTTCATATAAAAAAAA
1 AAAAA-GTTATACCTCTATCATAACATGTTCATAT-AAGAAAA
15277171 AAAAAGTTATACCT
1 AAAAAGTTATACCT
15277185 AAGAATAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
41 5 0.10
42 36 0.69
43 11 0.21
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (41 bp):
AAAAAGTTATACCTCTATCATAACATGTTCATATAAGAAAA
Found at i:15279332 original size:21 final size:21
Alignment explanation
Indices: 15279292--15279336 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
15279282 TTTTTTTTTT
15279292 TTTAAATTTGATAACATTAAAA
1 TTTAAATTT-ATAACATTAAAA
15279314 TTTAAATTT-TAATCATTAAAA
1 TTTAAATTTATAA-CATTAAAA
15279335 TT
1 TT
15279337 AAAAATTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.14
21 10 0.45
22 9 0.41
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTAAATTTATAACATTAAAA
Found at i:15280777 original size:13 final size:12
Alignment explanation
Indices: 15280759--15280805 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
15280749 ATTTAATAAT
15280759 TATTTTATTATTA
1 TATTTTATTA-TA
*
15280772 TATTTT-TTAAA
1 TATTTTATTATA
*
15280783 TAATTTATTAGTA
1 TATTTTATTA-TA
15280796 TATTTTATTA
1 TATTTTATTA
15280806 CACATAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 6 0.21
12 6 0.21
13 16 0.57
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (12 bp):
TATTTTATTATA
Found at i:15280789 original size:24 final size:27
Alignment explanation
Indices: 15280762--15280818 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 27
15280752 TAATAATTAT
*
15280762 TTTATTATTATATTTT-TTA-A-ATAA
1 TTTATTAGTATATTTTATTACACATAA
15280786 TTTATTAGTATATTTTATTACACATAA
1 TTTATTAGTATATTTTATTACACATAA
15280813 -TTATTA
1 TTTATTA
15280819 AATATTCAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 15 0.52
25 3 0.10
26 7 0.24
27 4 0.14
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTATTAGTATATTTTATTACACATAA
Found at i:15287343 original size:3 final size:3
Alignment explanation
Indices: 15287335--15287368 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15287325 AGCTGTATTC
15287335 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15287369 CAGTACTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15301937 original size:67 final size:67
Alignment explanation
Indices: 15301866--15301994 Score: 231
Period size: 67 Copynumber: 1.9 Consensus size: 67
15301856 ATAGTGATTG
15301866 AAAATATCCATTCATTTTTTATATGAGATATAATAAATAAAATTGGTGCTTTATTAAAATTTTAT
1 AAAATATCCATTCATTTTTTATATGAGATATAATAAATAAAATTGGTGCTTTATTAAAATTTTAT
15301931 TC
66 TC
* * *
15301933 AAAATATCCCTTCATTTTTTATATGAGGTATAATAAATAAAATTGGTGCTTTTTTAAAATTT
1 AAAATATCCATTCATTTTTTATATGAGATATAATAAATAAAATTGGTGCTTTATTAAAATTT
15301995 ATTTATCTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.45
Consensus pattern (67 bp):
AAAATATCCATTCATTTTTTATATGAGATATAATAAATAAAATTGGTGCTTTATTAAAATTTTAT
TC
Found at i:15309211 original size:22 final size:22
Alignment explanation
Indices: 15309186--15309227 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15309176 AATCAACTCT
15309186 TATTAGCAATGTGCAATGAACC
1 TATTAGCAATGTGCAATGAACC
*
15309208 TATTAGCGATGTGCAATGAA
1 TATTAGCAATGTGCAATGAA
15309228 AGTTTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (22 bp):
TATTAGCAATGTGCAATGAACC
Found at i:15310432 original size:3 final size:3
Alignment explanation
Indices: 15310424--15310451 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15310414 TAAATACTTA
15310424 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15310452 GATTTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15319036 original size:27 final size:27
Alignment explanation
Indices: 15319006--15319059 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
15318996 ACTGGAATTT
15319006 GCAATTGATTCTTAAAAAGAAAAAAGA
1 GCAATTGATTCTTAAAAAGAAAAAAGA
15319033 GCAATTGATTCTTAAAAAGAAAAAAGA
1 GCAATTGATTCTTAAAAAGAAAAAAGA
15319060 ATCCAGGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (27 bp):
GCAATTGATTCTTAAAAAGAAAAAAGA
Found at i:15323884 original size:23 final size:24
Alignment explanation
Indices: 15323839--15323893 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
15323829 TAATATATTT
*
15323839 TAAATTTTTAATAAAAATTAAAATA
1 TAAA-TTTTAATAAAAATAAAAATA
15323864 TAAATTTTAA-AAAAATAAAAATA
1 TAAATTTTAATAAAAATAAAAATA
*
15323887 TATATTT
1 TAAATTT
15323894 ATGTTAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 18 0.64
24 6 0.21
25 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAATTTTAATAAAAATAAAAATA
Found at i:15325103 original size:18 final size:18
Alignment explanation
Indices: 15325063--15325103 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
15325053 TATTTTTTAA
15325063 TATTTAATTTTTATTTTG
1 TATTTAATTTTTATTTTG
* *
15325081 AATTTAATTTTTATTTTT
1 TATTTAATTTTTATTTTG
15325099 TATTT
1 TATTT
15325104 TCTAATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TATTTAATTTTTATTTTG
Found at i:15340465 original size:31 final size:32
Alignment explanation
Indices: 15340395--15340465 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
15340385 AAAAATTTTA
* *
15340395 TACATTTTTTATTAAAAAATTTATAAGTTAAT
1 TACATATTTTATTAAAAAATTTATAAGTTAAG
* *
15340427 TAGATATTTTATT-AAAAATTT-TAATTTAAG
1 TACATATTTTATTAAAAAATTTATAAGTTAAG
15340457 TATCATATT
1 TA-CATATT
15340466 CAATATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 9 0.27
31 13 0.39
32 11 0.33
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (32 bp):
TACATATTTTATTAAAAAATTTATAAGTTAAG
Found at i:15340646 original size:27 final size:29
Alignment explanation
Indices: 15340616--15340669 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
15340606 ACATTAATTT
15340616 TATA-AAAAAAT-AAATTTTAATATTAAA
1 TATACAAAAAATAAAATTTTAATATTAAA
* * *
15340643 TATACTAAAATTAAAATTTTTATATTA
1 TATACAAAAAATAAAATTTTAATATTA
15340670 TGTGAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 4 0.18
28 5 0.23
29 13 0.59
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
TATACAAAAAATAAAATTTTAATATTAAA
Found at i:15341347 original size:2 final size:2
Alignment explanation
Indices: 15341342--15341373 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15341332 TATCATTTCA
15341342 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15341374 GAGAGAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15346599 original size:32 final size:32
Alignment explanation
Indices: 15346563--15346628 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
15346553 TGGGCACAGT
*
15346563 AAGTG-ATTATTATTTTTCCGAATAGTGGGCCA
1 AAGTGCATTATTATTTTTCCAAATAGT-GGCCA
*
15346595 AAGTGCATTATTATTTTTTCAAATAGTGGCCA
1 AAGTGCATTATTATTTTTCCAAATAGTGGCCA
15346627 AA
1 AA
15346629 ACCTTCCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 12 0.39
33 19 0.61
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (32 bp):
AAGTGCATTATTATTTTTCCAAATAGTGGCCA
Found at i:15347133 original size:18 final size:19
Alignment explanation
Indices: 15347095--15347132 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
15347085 ATTATTATTT
15347095 AATTTTAATAAAATTATAA
1 AATTTTAATAAAATTATAA
15347114 AATTTT-ATAAAA-TATAA
1 AATTTTAATAAAATTATAA
15347131 AA
1 AA
15347133 ACATATGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTTTAATAAAATTATAA
Found at i:15347884 original size:7 final size:6
Alignment explanation
Indices: 15347868--15347910 Score: 52
Period size: 7 Copynumber: 6.8 Consensus size: 6
15347858 AAATTAAAAC
15347868 AAAATA AAAAGTA AAAATTA AAAATA GAAAAT- AAAATA AAAAT
1 AAAATA AAAA-TA AAAA-TA AAAATA -AAAATA AAAATA AAAAT
15347911 TAATCATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 5 0.15
6 11 0.33
7 17 0.52
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:15349536 original size:19 final size:19
Alignment explanation
Indices: 15349493--15349539 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
15349483 TAAAATTTCT
*
15349493 ACATAAGTAAAAAAAAGTAA
1 ACATAAATAAAAAAAAG-AA
15349513 A-ATAAATAAAAAATAA-AA
1 ACATAAATAAAAAA-AAGAA
15349531 ACATAAATA
1 ACATAAATA
15349540 TAATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 18 0.75
20 3 0.12
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (19 bp):
ACATAAATAAAAAAAAGAA
Done.