Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 102 of 133
Found at i:19992883 original size:6 final size:6
Alignment explanation
Indices: 19992849--19992941 Score: 123
Period size: 6 Copynumber: 15.0 Consensus size: 6
19992839 TTTGTTGAGA
* *
19992849 CTGTTG CTGCTG CGGTTG CTGTTGATG CTGTTG CTGTTG CTGTTG CTGTTG
1 CTGTTG CTGTTG CTGTTG CTG-T--TG CTGTTG CTGTTG CTGTTG CTGTTG
* *
19992900 CTGTTG CTGTTG CTGTTG CTGTTG CTGCTG TTGTTG CTGTTG
1 CTGTTG CTGTTG CTGTTG CTGTTG CTGTTG CTGTTG CTGTTG
19992942 TTGCTGATCA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
6 69 0.91
7 1 0.01
8 1 0.01
9 5 0.07
ACGTcount: A:0.01, C:0.17, G:0.34, T:0.47
Consensus pattern (6 bp):
CTGTTG
Found at i:19995908 original size:19 final size:19
Alignment explanation
Indices: 19995884--19995952 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 19
19995874 TGTTCTTGTA
19995884 TATATTCGTGTTAATCATG
1 TATATTCGTGTTAATCATG
19995903 TATATTCGTGTTAAT--TG
1 TATATTCGTGTTAATCATG
19995920 TATCTATTCGTG-TATATCCATG
1 TA--TATTCGTGTTA-AT-CATG
19995942 T-TATTCGTGTT
1 TATATTCGTGTT
19995953 TATTCATATC
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.09
18 2 0.05
19 33 0.77
20 1 0.02
22 3 0.07
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.51
Consensus pattern (19 bp):
TATATTCGTGTTAATCATG
Found at i:19995928 original size:38 final size:38
Alignment explanation
Indices: 19995879--19995952 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 38
19995869 AGTTGTGTTC
19995879 TTGTATATATTCGTGT-TAAT-CATGTATATTCGTGTTAA
1 TTGTATATATTCGTGTAT-ATCCATGT-TATTCGTGTTAA
*
19995917 TTGTATCTATTCGTGTATATCCATGTTATTCGTGTT
1 TTGTATATATTCGTGTATATCCATGTTATTCGTGTT
19995953 TATTCATATC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
38 27 0.82
39 6 0.18
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.51
Consensus pattern (38 bp):
TTGTATATATTCGTGTATATCCATGTTATTCGTGTTAA
Found at i:19996914 original size:89 final size:91
Alignment explanation
Indices: 19996758--19996938 Score: 258
Period size: 89 Copynumber: 2.0 Consensus size: 91
19996748 GAAATAGCTG
* * *
19996758 TTACTCTTTTAAAAAGCATGTTTGAAAGTGACTACAACTCAATTATAGGTTTTTGCTGCTAA-AT
1 TTACCCTTTTAAAAAGCATGTTTAAAAGTGACTACAACTCAATTATAAGTTTTTGCTGCTAATAT
*
19996822 TTTTTTTTTTT-GTGATTGCAATTAA
66 TTTTTTTTTTTGGTGATTGCAACTAA
* ** * * *
19996847 TTACCCTTTTGAAAAGCATGTTTAAAAGTGACTGTAACTCAGTTATAAGTTTTTGTTGCTAATTT
1 TTACCCTTTTAAAAAGCATGTTTAAAAGTGACTACAACTCAATTATAAGTTTTTGCTGCTAATAT
19996912 TTTTTTTTTTTGGTGATTGCAACTAA
66 TTTTTTTTTTTGGTGATTGCAACTAA
19996938 T
1 T
19996939 GACATTTGGC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 54 0.68
90 12 0.15
91 14 0.17
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (91 bp):
TTACCCTTTTAAAAAGCATGTTTAAAAGTGACTACAACTCAATTATAAGTTTTTGCTGCTAATAT
TTTTTTTTTTTGGTGATTGCAACTAA
Found at i:19997545 original size:17 final size:17
Alignment explanation
Indices: 19997523--19997573 Score: 93
Period size: 17 Copynumber: 3.0 Consensus size: 17
19997513 GAATAAAACT
19997523 CCGGGTATCACACTTTC
1 CCGGGTATCACACTTTC
19997540 CCGGGTATCACACTTTC
1 CCGGGTATCACACTTTC
*
19997557 CCGGGGATCACACTTTC
1 CCGGGTATCACACTTTC
19997574 TCCTAGAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.18, C:0.35, G:0.20, T:0.27
Consensus pattern (17 bp):
CCGGGTATCACACTTTC
Found at i:20001303 original size:28 final size:27
Alignment explanation
Indices: 20001237--20001309 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
20001227 TAAACTATAG
*
20001237 TAAAA-TATTAATTTAATATTTAAATTT
1 TAAAATTATTAA-TTAATATTTAAATTA
*
20001264 TAAAATTTTTAATATAATATTTAAATTA
1 TAAAATTATTAAT-TAATATTTAAATTA
20001292 T-AAATCTATTAATTAATA
1 TAAAAT-TATTAATTAATA
20001310 GGATATTCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 15 0.38
28 25 0.62
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (27 bp):
TAAAATTATTAATTAATATTTAAATTA
Found at i:20002591 original size:19 final size:20
Alignment explanation
Indices: 20002555--20002592 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
20002545 TTTATCCTTC
* *
20002555 TTTTTATTTATTTCTTTTCT
1 TTTTTAATTATTTATTTTCT
20002575 TTTTTAATT-TTTATTTTC
1 TTTTTAATTATTTATTTTC
20002593 CATATTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTAATTATTTATTTTCT
Found at i:20002994 original size:13 final size:13
Alignment explanation
Indices: 20002972--20003003 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
20002962 TAAGAAAATA
*
20002972 TTTTTGTTTTTAT
1 TTTTTATTTTTAT
20002985 TTTTTATTTTTAT
1 TTTTTATTTTTAT
20002998 TTTTTA
1 TTTTTA
20003004 GAAAATAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:20003020 original size:34 final size:33
Alignment explanation
Indices: 20002977--20003043 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
20002967 AAATATTTTT
* * *
20002977 GTTTTTATTTTTTATTTTTATTTTTTAGAAAATA
1 GTTTTTATTTTTAATTTTT-GTTTTTAAAAAATA
20003011 GTTTTTATTTTTAATTTTTGTTTTTAAAAAATA
1 GTTTTTATTTTTAATTTTTGTTTTTAAAAAATA
20003044 TATTTGGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (33 bp):
GTTTTTATTTTTAATTTTTGTTTTTAAAAAATA
Found at i:20003689 original size:16 final size:17
Alignment explanation
Indices: 20003668--20003706 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
20003658 CATAAAATTT
20003668 GAAAAAA-GTTAACATG
1 GAAAAAATGTTAACATG
*
20003684 GAAAAAATGTTGACATG
1 GAAAAAATGTTAACATG
20003701 GTAAAA
1 G-AAAA
20003707 TTTTTTTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 9 0.45
18 4 0.20
ACGTcount: A:0.54, C:0.05, G:0.21, T:0.21
Consensus pattern (17 bp):
GAAAAAATGTTAACATG
Found at i:20006200 original size:21 final size:22
Alignment explanation
Indices: 20006171--20006211 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
20006161 CAAATATATA
20006171 TATCCAATAAATAT-TATATGT
1 TATCCAATAAATATATATATGT
* *
20006192 TATCGAATATATATATATAT
1 TATCCAATAAATATATATAT
20006212 ATATGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (22 bp):
TATCCAATAAATATATATATGT
Found at i:20014555 original size:17 final size:17
Alignment explanation
Indices: 20014533--20014566 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20014523 GTTGGTTCAA
20014533 TTTATGATTAGGAGGTT
1 TTTATGATTAGGAGGTT
20014550 TTTATGATTAGGAGGTT
1 TTTATGATTAGGAGGTT
20014567 ATTTTCAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (17 bp):
TTTATGATTAGGAGGTT
Found at i:20019317 original size:15 final size:15
Alignment explanation
Indices: 20019297--20019326 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20019287 TGATATCATG
*
20019297 AATAATATTATATTA
1 AATAATATCATATTA
20019312 AATAATATCATATTA
1 AATAATATCATATTA
20019327 TTTTATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAATATCATATTA
Found at i:20022516 original size:46 final size:42
Alignment explanation
Indices: 20022424--20022516 Score: 100
Period size: 46 Copynumber: 2.1 Consensus size: 42
20022414 TCTTGTTAAC
*
20022424 TTTTTCATTATTTATTATTTTATATAAAAATAATTTAATAAA
1 TTTTTCAATATTTATTATTTTATATAAAAATAATTTAATAAA
* *
20022466 -TTTTCTAATATTTATTAATTTTATAAATACTAAATGATTTAA-AAA
1 TTTTTC-AATATTTATT-ATTTTAT--ATA-AAAATAATTTAATAAA
20022511 TTTTTC
1 TTTTTC
20022517 CTATGTATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
41 5 0.12
42 9 0.21
43 7 0.17
45 6 0.14
46 15 0.36
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (42 bp):
TTTTTCAATATTTATTATTTTATATAAAAATAATTTAATAAA
Found at i:20025736 original size:3 final size:3
Alignment explanation
Indices: 20025728--20025758 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
20025718 AATCAAATTA
20025728 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
20025759 AGAAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:20030514 original size:18 final size:18
Alignment explanation
Indices: 20030491--20030525 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20030481 ACTTTGTAAC
20030491 AATAATAACAA-CAACAAT
1 AATAATAA-AATCAACAAT
20030509 AATAATAAAATCAACAA
1 AATAATAAAATCAACAA
20030526 CAACCTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (18 bp):
AATAATAAAATCAACAAT
Found at i:20032660 original size:35 final size:35
Alignment explanation
Indices: 20032620--20032700 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
20032610 CCTTGGGTGA
** *
20032620 TTATTGTTGTTGATGTTTTTCTTTTTTTTTTGTT-
1 TTATTGTTGTTGATGTTTTTAATTTTATTTTGTTG
* * *
20032654 TATATTGGTGATGTTGTTTTTAATTTTATTTTGTTG
1 T-TATTGTTGTTGATGTTTTTAATTTTATTTTGTTG
20032690 TTATTGTTGTT
1 TTATTGTTGTT
20032701 ATTGTTATAG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
34 1 0.03
35 35 0.95
36 1 0.03
ACGTcount: A:0.11, C:0.01, G:0.17, T:0.70
Consensus pattern (35 bp):
TTATTGTTGTTGATGTTTTTAATTTTATTTTGTTG
Found at i:20037796 original size:34 final size:34
Alignment explanation
Indices: 20037747--20037826 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
20037737 TAAGTTATCA
* *
20037747 ATTTTTGAAAATATATCATAAATTTTAAAAATTC
1 ATTTTCGAAAATATATCATAAATTTTAAAAATCC
*
20037781 -TTGTTCGAAAATATATCATAATTTTTAAAAATCC
1 ATT-TTCGAAAATATATCATAAATTTTAAAAATCC
20037815 ATTTTCGAAAAT
1 ATTTTCGAAAAT
20037827 TATGCTTCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 2 0.05
34 37 0.90
35 2 0.05
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (34 bp):
ATTTTCGAAAATATATCATAAATTTTAAAAATCC
Found at i:20041183 original size:32 final size:32
Alignment explanation
Indices: 20041115--20041190 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 32
20041105 TATAAAGAAA
20041115 AAATGGGCTTTATCATATTATAAGTAATAAAAC
1 AAATGGGCTTTATCATATTATAAG-AATAAAAC
* *
20041148 AAATGAGCTTTATCAGTTATTA-AA-AATAAAGC
1 AAATGGGCTTTATCA--TATTATAAGAATAAAAC
20041180 AAATGGGCTTT
1 AAATGGGCTTT
20041191 GCTTTATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
32 17 0.45
33 14 0.37
34 2 0.05
35 5 0.13
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.33
Consensus pattern (32 bp):
AAATGGGCTTTATCATATTATAAGAATAAAAC
Found at i:20041686 original size:27 final size:25
Alignment explanation
Indices: 20041627--20041686 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 25
20041617 TTTCTAGATC
20041627 TTTTTTTTATAAACATTTTAATTTT
1 TTTTTTTTATAAACATTTTAATTTT
* *
20041652 TAGATTTTTTATAATACATTTTAAGTTT
1 T--TTTTTTTATAA-ACATTTTAATTTT
20041680 TTTTTTT
1 TTTTTTT
20041687 ATTTAATCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 5 0.17
27 10 0.34
28 13 0.45
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (25 bp):
TTTTTTTTATAAACATTTTAATTTT
Found at i:20046363 original size:20 final size:21
Alignment explanation
Indices: 20046320--20046363 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20046310 AAAAAAAATT
*
20046320 ATACGTACATATAAAATAAGA
1 ATACGTACATATAAAATAACA
20046341 ATAC-TACATTATAAAAT-ACA
1 ATACGTACA-TATAAAATAACA
20046361 ATA
1 ATA
20046364 AAAAAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (21 bp):
ATACGTACATATAAAATAACA
Found at i:20047055 original size:326 final size:319
Alignment explanation
Indices: 20046474--20047082 Score: 784
Period size: 326 Copynumber: 1.9 Consensus size: 319
20046464 GGGGACAACA
* * *
20046474 AAGCAATGTAAAAGAAAATTATTTAGGGATAATTTTGGGAAGGTTTCTTTTTCAAAAGCTTATCC
1 AAGCAATGTAAAAGAAAATAATTTAGGGATAATTTTAGGAAAGTTTCTTTTTCAAAAGCTTATCC
*
20046539 CAGCTTCTCATTGCTGATTTCTTTTCTATTCTTTTTTACAACACCGCTTTCACTTTTGGTAATTT
66 CAGCTTCTCATTGCTGATTTCTTTTCTATTCTTTTTTACAACACCACTTTCACTTTTGGTAATTT
*
20046604 TTTTTCTTTTTCTAAGCATTTAATTGAAGAATTCTTTTAAGCTTTTTGGTTATTAACTTATTATC
131 TTTTTCTTTTTCTAAGCATTTAATCGAAGAATTCTTTTAAGCTTTTTGGTTATTAACTTATTATC
* * * * **
20046669 ATTCCATCTTGATCTCTCAAGTGTTTAAGCTTTTGTTCTTAAGAAAATCTATCATGAAAATGGTC
196 ATTCCATCTTAATCCCTCAAGTGTTTAAGCTTCTGTTATTAAGAAAATCTATCATGAAAATAATC
20046734 TTGATCGATGACCTCATTGAAAAGTAAAAGCTATCCCTAATATATGTTGAAAAGATAGCC
261 TTGATCGATGACCTCATT-AAAAGTAAAAGCTATCCCTAATATATGTTGAAAAGATAGCC
* *
20046794 AAGCAATGTAAAAAGAAAATAATTTAAGGG-TAA-TTTAGGAAAGTTTCTTTTTTAGAAGCTTAT
1 AAGCAATGT-AAAAGAAAATAATTT-AGGGATAATTTTAGGAAAGTTTCTTTTTCAAAAGCTTAT
** * ***
20046857 TTCAGCTTCTCATTGTTGATTTCTTTTCT-TT-TTTTTCTACAACGTTACTTTCA-TTATTAGTA
64 CCCAGCTTCTCATTGCTGATTTCTTTTCTATTCTTTTT-TACAACACCACTTTCACTT-TT-G--
** **
20046919 CTTGTTTTTTTTTTTTCTTTTTCTAAGCATTTAATCGAAGAATTCTTTTGGGCTTTTTGGTTATT
124 ---G-TAATTTTTTTTCTTTTTCTAAGCATTTAATCGAAGAATTCTTTTAAGCTTTTTGGTTATT
*
20046984 AACTTATTATCATTCTATCTTAATCCCTC-AGATGTTTAAGCTTCTGTTATTAA-AAGAATCTA-
185 AACTTATTATCATTCCATCTTAATCCCTCAAG-TGTTTAAGCTTCTGTTATTAAGAA-AATCTAT
* * *
20047046 CTGTGAAAATAATCTTGATCGATGGCTTCATTAAAAG
248 C-ATGAAAATAATCTTGATCGATGACCTCATTAAAAG
20047083 GTAACCTTTT
Statistics
Matches: 248, Mismatches: 27, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
318 7 0.03
319 16 0.06
320 62 0.25
321 17 0.07
322 4 0.02
325 11 0.04
326 131 0.53
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (319 bp):
AAGCAATGTAAAAGAAAATAATTTAGGGATAATTTTAGGAAAGTTTCTTTTTCAAAAGCTTATCC
CAGCTTCTCATTGCTGATTTCTTTTCTATTCTTTTTTACAACACCACTTTCACTTTTGGTAATTT
TTTTTCTTTTTCTAAGCATTTAATCGAAGAATTCTTTTAAGCTTTTTGGTTATTAACTTATTATC
ATTCCATCTTAATCCCTCAAGTGTTTAAGCTTCTGTTATTAAGAAAATCTATCATGAAAATAATC
TTGATCGATGACCTCATTAAAAGTAAAAGCTATCCCTAATATATGTTGAAAAGATAGCC
Found at i:20051479 original size:73 final size:73
Alignment explanation
Indices: 20051360--20051503 Score: 261
Period size: 73 Copynumber: 2.0 Consensus size: 73
20051350 ATCATAATTG
* *
20051360 AATTTACACATTCAATTATAGCTCCATGTGAATATATTCTTAAAGGAACAAAGCAACGGACTATT
1 AATTTACACATTCAATTATAGCTCCATGTGAATATATGCTTAAAGGAACAAAGCAACAGACTATT
20051425 TGTGAAGT
66 TGTGAAGT
*
20051433 AATTTACACATTCAATTATAGCTCCATGTGAATATATGCTTAAAGGAACACAGCAACAGACTATT
1 AATTTACACATTCAATTATAGCTCCATGTGAATATATGCTTAAAGGAACAAAGCAACAGACTATT
20051498 TGTGAA
66 TGTGAA
20051504 TTTTATAACA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.31
Consensus pattern (73 bp):
AATTTACACATTCAATTATAGCTCCATGTGAATATATGCTTAAAGGAACAAAGCAACAGACTATT
TGTGAAGT
Found at i:20057297 original size:4 final size:4
Alignment explanation
Indices: 20057290--20057320 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
20057280 AAAGAAACAT
20057290 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
20057321 TTATACCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:20059648 original size:117 final size:116
Alignment explanation
Indices: 20059522--20059754 Score: 353
Period size: 117 Copynumber: 2.0 Consensus size: 116
20059512 ATGATTCTTT
*
20059522 AAAATAAAAATTTCTAAAAGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTAATTGAAAATAA
1 AAAATAAAAATTTCTAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTAATTGAAAATAA
* *
20059587 AAATTT-ATAAAAATATTTTTTGAGAAA-AAGTTAAAAGTATCAATTTTCCTTG
66 AAATTTCA-AAAAATA-TTCTTGA-AAAGAAATTAAAAGTATCAATTTTCCTTG
* * **
20059639 AAAATAAAAATTTCTAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA
1 AAAATAAAAATTTCTAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTAATTGAAAATAA
*
20059704 AATTTTCAAAAAATATTCTTGAAAAGAAATTAAAAGTATCAATTTTCCTTG
66 AAATTTCAAAAAATATTCTTGAAAAGAAATTAAAAGTATCAATTTTCCTTG
20059755 TATAAAGCAT
Statistics
Matches: 106, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
115 3 0.03
116 30 0.28
117 72 0.68
118 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (116 bp):
AAAATAAAAATTTCTAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTAATTGAAAATAA
AAATTTCAAAAAATATTCTTGAAAAGAAATTAAAAGTATCAATTTTCCTTG
Found at i:20059693 original size:58 final size:58
Alignment explanation
Indices: 20059522--20059754 Score: 333
Period size: 58 Copynumber: 4.0 Consensus size: 58
20059512 ATGATTCTTT
* * **
20059522 AAAATAAAAATTTCTAAAAGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTAATTG
1 AAAATAAAAATTTCTAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTG
*
20059580 AAAATAAAAATTTATAAAAATATTTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTTCTAAAAATA-TTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTG
* * *
20059639 AAAATAAAAATTTCTAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTTCTAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTG
* * * *
20059697 AAAATAAAATTTTCAAAAAATATTCTTGA-AAAGAAATTAAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTTCTAAAAATATTTTTGAGAAA-AAGTTAAAAGTATCAATTTTCCTTG
20059755 TATAAAGCAT
Statistics
Matches: 157, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
57 2 0.01
58 101 0.64
59 54 0.34
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (58 bp):
AAAATAAAAATTTCTAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTG
Found at i:20061320 original size:18 final size:18
Alignment explanation
Indices: 20061297--20061340 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
20061287 CCCAACAGTT
**
20061297 CACATATCATATGGGGTA
1 CACATATCATATAAGGTA
*
20061315 CACATATCTTATAAGGTA
1 CACATATCATATAAGGTA
20061333 CACATATC
1 CACATATC
20061341 CTGGAATGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (18 bp):
CACATATCATATAAGGTA
Found at i:20063259 original size:14 final size:14
Alignment explanation
Indices: 20063242--20063290 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
20063232 GCCTAAAGAT
**
20063242 AAAAAAAAAGTCTA
1 AAAAAAAAAGAATA
* *
20063256 AAAAAATAAGAAGA
1 AAAAAAAAAGAATA
20063270 AAAAAAAAAGAATA
1 AAAAAAAAAGAATA
20063284 AAAAAAA
1 AAAAAAA
20063291 TGCCACACCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.82, C:0.02, G:0.08, T:0.08
Consensus pattern (14 bp):
AAAAAAAAAGAATA
Found at i:20064851 original size:21 final size:22
Alignment explanation
Indices: 20064810--20064862 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
20064800 TCTTTTGATA
* *
20064810 AGAATTTTTGAGTTCTCAAATG
1 AGAATCTTTGAATTCTCAAATG
*
20064832 CGAATCTTTGAATT-TCAAATG
1 AGAATCTTTGAATTCTCAAATG
20064853 AGAATCTTTG
1 AGAATCTTTG
20064863 GGATGTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (22 bp):
AGAATCTTTGAATTCTCAAATG
Found at i:20065253 original size:42 final size:42
Alignment explanation
Indices: 20065192--20065856 Score: 356
Period size: 42 Copynumber: 15.4 Consensus size: 42
20065182 CATGCTTGTC
* * *
20065192 GAGGAGCAATTTATTTTTCCAAAGTTCTATTGCCTCTATTTA
1 GAGGAGCATTTTATTTTTCCAAAGTTCTGTTGCCTCTGTTTA
** * * **
20065234 GAGGAGCATTTTACATTTCCAAAGTTATGGTGCCTCCATTTA
1 GAGGAGCATTTTATTTTTCCAAAGTTCTGTTGCCTCTGTTTA
* * * *
20065276 GAGGAGCTTGTTTATTTTTCAAAAGTAGT-TG-AGCTTCTGTTTA
1 GAGGAGCAT-TTTATTTTTCCAAAGT--TCTGTTGCCTCTGTTTA
* * *
20065319 GAGGAGCATTTTATTTTTTCAAAGTTGTGGTAAAAGTTGTGGTGCCTCTATTTA
1 GAGGAGCATTTTATTTTTCCAAA---GT--T-----CTGT--TGCCTCTGTTTA
** * * **
20065373 GAGGAGCATTTTACATTTCCAAAGTTATGGTGCCTCCATTTA
1 GAGGAGCATTTTATTTTTCCAAAGTTCTGTTGCCTCTGTTTA
* * * *
20065415 GAAGAGCTTGTTTATTTTTCAAAAG-TC-GTTGAGCCTTTGTTTA
1 GAGGAGCAT-TTTATTTTTCCAAAGTTCTGTT--GCCTCTGTTTA
* * *
20065458 GAGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTA
1 GAGGAGCATTTTATTTTTCCAAAGTTCTGTTGCCTCTGTTTA
* * *
20065500 GATGAGCTTGTTTA-TTTTCCAAAAG-TCAT-TGAGCCTCTGTTTA
1 GAGGAGCAT-TTTATTTTTCC-AAAGTTC-TGT-TGCCTCTGTTTA
* * * * *
20065543 GATGAGCATTTTACTTTTCCAAAGTTATGGTGCCTTTGTTTA
1 GAGGAGCATTTTATTTTTCCAAAGTTCTGTTGCCTCTGTTTA
*
20065585 GAGGAGCTTATTTA-TTTTCCAAAAG-TC-GTTTAGCCTCTGTTTA
1 GAGGAGCAT-TTTATTTTTCC-AAAGTTCTG-TT-GCCTCTGTTTA
* * * *
20065628 GATGAGCATTTTACTTTTCCAAAGTTGTGGTGCCTCTGTTTA
1 GAGGAGCATTTTATTTTTCCAAAGTTCTGTTGCCTCTGTTTA
* ** * * *
20065670 GAAGAGTTTGTTTATTTTTCAAAAG-TCAT-TAAGCCTCTATTTA
1 GAGGAGCAT-TTTATTTTTCCAAAGTTC-TGT-TGCCTCTGTTTA
* * * *
20065713 GAAGAACATTTTATTTTTTCCAAAGTTGTGGTGCCTCTGTTTA
1 GAGGAGCATTTTA-TTTTTCCAAAGTTCTGTTGCCTCTGTTTA
* * *
20065756 GATGAGCTTGTTTA-TTTTCCAACAG-TC-GTTGAACCTCTATTTA
1 GAGGAGCAT-TTTATTTTTCCAA-AGTTCTGTTG--CCTCTGTTTA
* * *
20065799 AAGGAGCATTTTACTTTTT-CAAAGTTGTGGTGCCTCTGTTTA
1 GAGGAGCATTTTA-TTTTTCCAAAGTTCTGTTGCCTCTGTTTA
* *
20065841 GAGAAGTATTTT-TTTT
1 GAGGAGCATTTTATTTT
20065857 CAAAGTCATT
Statistics
Matches: 478, Mismatches: 97, Indels: 98
0.71 0.14 0.15
Matches are distributed among these distances:
40 4 0.01
41 6 0.01
42 207 0.43
43 203 0.42
44 19 0.04
45 5 0.01
49 1 0.00
51 4 0.01
54 29 0.06
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.43
Consensus pattern (42 bp):
GAGGAGCATTTTATTTTTCCAAAGTTCTGTTGCCTCTGTTTA
Found at i:20065320 original size:43 final size:42
Alignment explanation
Indices: 20065192--20065898 Score: 358
Period size: 43 Copynumber: 16.4 Consensus size: 42
20065182 CATGCTTGTC
* * ** * *
20065192 GAGGAGCAATTTATTTTTCCAAAGTTCTAT-TGCCTCTATTTA
1 GAGGAGCATTTTATTTTTCAAAAGTAGT-TGAGCCTCTGTTTA
** * * * **
20065234 GAGGAGCATTTTACATTTCCAAAGTTA-TGGTGCCTCCATTTA
1 GAGGAGCATTTTATTTTTCAAAAG-TAGTTGAGCCTCTGTTTA
* *
20065276 GAGGAGCTTGTTTATTTTTCAAAAGTAGTTGAGCTTCTGTTTA
1 GAGGAGCAT-TTTATTTTTCAAAAGTAGTTGAGCCTCTGTTTA
* * *
20065319 GAGGAGCATTTTATTTTTTCAAAGTTGTGGTAAAAGTTGTGGTGCCTCTATTTA
1 GAGGAGCATTTTA-TTTTTCAAA-----AGT---AG-T-T-GAGCCTCTGTTTA
** * * * **
20065373 GAGGAGCATTTTACATTTCCAAAGTTA-TGGTGCCTCCATTTA
1 GAGGAGCATTTTATTTTTCAAAAG-TAGTTGAGCCTCTGTTTA
* * * *
20065415 GAAGAGCTTGTTTATTTTTCAAAAGTCGTTGAGCCTTTGTTTA
1 GAGGAGCAT-TTTATTTTTCAAAAGTAGTTGAGCCTCTGTTTA
* * *
20065458 GAGGAGCATTTTATTTTTTC-AAAGTTGTGGTGCCTCTGTTTA
1 GAGGAGCATTTTA-TTTTTCAAAAGTAGTTGAGCCTCTGTTTA
* * *
20065500 GATGAGCTTGTTTATTTTCCAAAAGTCA-TTGAGCCTCTGTTTA
1 GAGGAGCAT-TTTATTTTTCAAAAGT-AGTTGAGCCTCTGTTTA
* * * * * *
20065543 GATGAGCATTTTACTTTTCCAAAGTTA-TGGTGCCTTTGTTTA
1 GAGGAGCATTTTATTTTTCAAAAG-TAGTTGAGCCTCTGTTTA
* * * *
20065585 GAGGAGCTTATTTATTTTCCAAAAGTCGTTTAGCCTCTGTTTA
1 GAGGAGCAT-TTTATTTTTCAAAAGTAGTTGAGCCTCTGTTTA
* * * * * *
20065628 GATGAGCATTTTACTTTTCCAAAGTTGTGGTGCCTCTGTTTA
1 GAGGAGCATTTTATTTTTCAAAAGTAGTTGAGCCTCTGTTTA
* ** * *
20065670 GAAGAGTTTGTTTATTTTTCAAAAGTCA-TTAAGCCTCTATTTA
1 GAGGAGCAT-TTTATTTTTCAAAAGT-AGTTGAGCCTCTGTTTA
* * * * * *
20065713 GAAGAACATTTTATTTTTTCCAAAGTTGTGGTGCCTCTGTTTA
1 GAGGAGCATTTTA-TTTTTCAAAAGTAGTTGAGCCTCTGTTTA
* * * * * * *
20065756 GATGAGCTTGTTTATTTTCCAACAGTCGTTGAACCTCTATTTA
1 GAGGAGCAT-TTTATTTTTCAAAAGTAGTTGAGCCTCTGTTTA
* * * *
20065799 AAGGAGCATTTTACTTTTTC-AAAGTTGTGGTGCCTCTGTTTA
1 GAGGAGCATTTTA-TTTTTCAAAAGTAGTTGAGCCTCTGTTTA
* * * *
20065841 GAGAAGTA-TTT-TTTTTC-AAAGTCA-TTGAGCCTATATTTA
1 GAGGAGCATTTTATTTTTCAAAAGT-AGTTGAGCCTCTGTTTA
* *
20065880 AAGGAGCTTTGTTATTTTT
1 GAGGAGCATT-TTATTTTT
20065899 TTCAAAAAAA
Statistics
Matches: 502, Mismatches: 127, Indels: 72
0.72 0.18 0.10
Matches are distributed among these distances:
39 26 0.05
40 1 0.00
41 5 0.01
42 200 0.40
43 227 0.45
44 5 0.01
46 1 0.00
48 3 0.01
49 1 0.00
51 2 0.00
52 1 0.00
53 7 0.01
54 23 0.05
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (42 bp):
GAGGAGCATTTTATTTTTCAAAAGTAGTTGAGCCTCTGTTTA
Found at i:20065462 original size:139 final size:139
Alignment explanation
Indices: 20065222--20065488 Score: 500
Period size: 139 Copynumber: 1.9 Consensus size: 139
20065212 AAAGTTCTAT
*
20065222 TGCCTCTATTTAGAGGAGCATTTTACATTTCCAAAGTTATGGTGCCTCCATTTAGAGGAGCTTGT
1 TGCCTCTATTTAGAGGAGCATTTTACATTTCCAAAGTTATGGTGCCTCCATTTAGAAGAGCTTGT
20065287 TTATTTTTCAAAAGTAGTTGAGCTTCTGTTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGGTAA
66 TTATTTTTCAAAAGTAGTTGAGCTTCTGTTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGGTAA
20065352 AAGTTGTGG
131 AAGTTGTGG
20065361 TGCCTCTATTTAGAGGAGCATTTTACATTTCCAAAGTTATGGTGCCTCCATTTAGAAGAGCTTGT
1 TGCCTCTATTTAGAGGAGCATTTTACATTTCCAAAGTTATGGTGCCTCCATTTAGAAGAGCTTGT
*
20065426 TTATTTTTCAAAAGTCGTTGAGCCTT-TGTTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGGT
66 TTATTTTTCAAAAGTAGTTGAG-CTTCTGTTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGGT
20065489 GCCTCTGTTT
Statistics
Matches: 125, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
139 122 0.98
140 3 0.02
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (139 bp):
TGCCTCTATTTAGAGGAGCATTTTACATTTCCAAAGTTATGGTGCCTCCATTTAGAAGAGCTTGT
TTATTTTTCAAAAGTAGTTGAGCTTCTGTTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGGTAA
AAGTTGTGG
Found at i:20065493 original size:85 final size:85
Alignment explanation
Indices: 20065362--20065904 Score: 657
Period size: 85 Copynumber: 6.4 Consensus size: 85
20065352 AAGTTGTGGT
* * * **
20065362 GCCTCTATTTAGAGGAGCATTTTACATTTCCAAAGTTATGGTGCCTCCATTTAGAAGAGCTTGTT
1 GCCTCTATTTAGAGGAGCATTTTACTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGCTTGTT
* *
20065427 TATTTTTCAAAAGTCGTTGA
66 TATTTTCCAAAAGTCATTGA
* * * *
20065447 GCCTTTGTTTAGAGGAGCATTTTATTTTTTCAAAGTTGTGGTGCCTCTGTTTAGATGAGCTTGTT
1 GCCTCTATTTAGAGGAGCATTTTACTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGCTTGTT
20065512 TATTTTCCAAAAGTCATTGA
66 TATTTTCCAAAAGTCATTGA
* * * * * * *
20065532 GCCTCTGTTTAGATGAGCATTTTACTTTTCCAAAGTTATGGTGCCTTTGTTTAGAGGAGCTTATT
1 GCCTCTATTTAGAGGAGCATTTTACTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGCTTGTT
* *
20065597 TATTTTCCAAAAGTCGTTTA
66 TATTTTCCAAAAGTCATTGA
* * * *
20065617 GCCTCTGTTTAGATGAGCATTTTACTTTTCCAAAGTTGTGGTGCCTCTGTTTAGAAGAGTTTGTT
1 GCCTCTATTTAGAGGAGCATTTTACTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGCTTGTT
* *
20065682 TATTTTTCAAAAGTCATTAA
66 TATTTTCCAAAAGTCATTGA
* * * *
20065702 GCCTCTATTTAGAAGAACATTTTATTTTTTCCAAAGTTGTGGTGCCTCTGTTTAGATGAGCTTGT
1 GCCTCTATTTAGAGGAGCATTTTACTTTTT-CAAAGTTGTGGTGCCTCTGTTTAGAAGAGCTTGT
* *
20065767 TTATTTTCCAACAGTCGTTGA
65 TTATTTTCCAAAAGTCATTGA
* *
20065788 ACCTCTATTTAAAGGAGCATTTTACTTTTTCAAAGTTGTGGTGCCTCTGTTTAG-AGAAG-TAT-
1 GCCTCTATTTAGAGGAGCATTTTACTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAG-AGCT-TG
20065850 TTT-TTTT-C-AAAGTCATTGA
64 TTTATTTTCCAAAAGTCATTGA
* * * *
20065869 GCCTATATTTAAAGGAGCTTTGTTATTTTTTTCAAA
1 GCCTCTATTTAGAGGAGCATT-TTA-CTTTTTCAAA
20065905 AAAAAAATGT
Statistics
Matches: 401, Mismatches: 52, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
81 27 0.07
82 4 0.01
83 13 0.03
84 5 0.01
85 278 0.69
86 74 0.18
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (85 bp):
GCCTCTATTTAGAGGAGCATTTTACTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGCTTGTT
TATTTTCCAAAAGTCATTGA
Found at i:20065628 original size:128 final size:126
Alignment explanation
Indices: 20065351--20065843 Score: 431
Period size: 128 Copynumber: 3.9 Consensus size: 126
20065341 AGTTGTGGTA
* * * * ** * * **
20065351 AAAGTTGTGGTGCCTCTATTTAGAGGAGCAT-TTTACATTTCC-AAAGTTATGGTGCCTCCATTT
1 AAAGTTGTGGTGCCTCTGTTTAGATGAGCTTGTTTA-TTTTCCAAAAGTCGTTGAGCCTCTGTTT
* * * ** * * * * *
20065414 AGAAGAGCTTGTTTATTTTTCAAAAGTCGTTGAGCCTTTGTTTAGAGGAGCATTTTATTTTTTC
65 AGAAGAGCAT-TTTACTTTTCCAAAGTTATGGTGCCTCTGTTTAGAGGAGCTTTTTA-TTTTCC
*
20065478 AAAGTTGTGGTGCCTCTGTTTAGATGAGCTTGTTTATTTTCCAAAAGTCATTGAGCCTCTGTTTA
1 AAAGTTGTGGTGCCTCTGTTTAGATGAGCTTGTTTATTTTCCAAAAGTCGTTGAGCCTCTGTTTA
* *
20065543 GATGAGCATTTTACTTTTCCAAAGTTATGGTGCCTTTGTTTAGAGGAGCTTATTTATTTTCC
66 GAAGAGCATTTTACTTTTCCAAAGTTATGGTGCCTCTGTTTAGAGGAGCTT-TTTATTTTCC
* * * * * *
20065605 AAAAGTCGT-TTAGCCTCTGTTTAGATGAGCAT-TTTACTTTTCC-AAAGTTGTGGTGCCTCTGT
1 -AAAGTTGTGGT-GCCTCTGTTTAGATGAGCTTGTTTA-TTTTCCAAAAGTCGTTGAGCCTCTGT
** * * * *** * * * *
20065667 TTAGAAGAGTTTGTTTATTTTTCAAAAGTCATTAAGCCTCTATTTAGAAGAACATTTTATTTTTT
63 TTAGAAGAGCAT-TTTACTTTTCCAAAGTTATGGTGCCTCTGTTTAGAGGAGC-TTTT-TATTTT
20065732 CC
125 CC
* * *
20065734 AAAGTTGTGGTGCCTCTGTTTAGATGAGCTTGTTTATTTTCCAACAGTCGTTGAACCTCTATTTA
1 AAAGTTGTGGTGCCTCTGTTTAGATGAGCTTGTTTATTTTCCAAAAGTCGTTGAGCCTCTGTTTA
* *
20065799 -AAGGAGCATTTTACTTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
66 GAA-GAGCATTTTACTTTTCCAAAGTTATGGTGCCTCTGTTTAGAG
20065844 AAGTATTTTT
Statistics
Matches: 292, Mismatches: 61, Indels: 25
0.77 0.16 0.07
Matches are distributed among these distances:
127 102 0.35
128 156 0.53
129 34 0.12
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (126 bp):
AAAGTTGTGGTGCCTCTGTTTAGATGAGCTTGTTTATTTTCCAAAAGTCGTTGAGCCTCTGTTTA
GAAGAGCATTTTACTTTTCCAAAGTTATGGTGCCTCTGTTTAGAGGAGCTTTTTATTTTCC
Found at i:20071761 original size:28 final size:28
Alignment explanation
Indices: 20071730--20071790 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
20071720 AATAAAAATA
20071730 AAAAAT-AAAAATTTTATATTTTATATTG
1 AAAAATGAAAAATTTTATATTTTATA-TG
* ** *
20071758 AAAAATGCATGATTTTATTTTTTATATG
1 AAAAATGAAAAATTTTATATTTTATATG
20071786 AAAAA
1 AAAAA
20071791 GGTTCTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (28 bp):
AAAAATGAAAAATTTTATATTTTATATG
Found at i:20073074 original size:62 final size:62
Alignment explanation
Indices: 20073001--20073122 Score: 199
Period size: 62 Copynumber: 2.0 Consensus size: 62
20072991 TTTTTATTTG
* * *
20073001 CTAATAGTATTGTTATTTGTGATGACCAGTTTTATAGCAATTTCACCTTTTCAGATGGGTCT
1 CTAATAATATTGTTATTTATGATGACCAGTTCTATAGCAATTTCACCTTTTCAGATGGGTCT
* *
20073063 CTAATAATATTGTTTTTTATGATGACCAGTTCTATAGCAATTTCATCTTTTCAGATGGGT
1 CTAATAATATTGTTATTTATGATGACCAGTTCTATAGCAATTTCACCTTTTCAGATGGGT
20073123 GGTGTGTGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.44
Consensus pattern (62 bp):
CTAATAATATTGTTATTTATGATGACCAGTTCTATAGCAATTTCACCTTTTCAGATGGGTCT
Found at i:20079299 original size:91 final size:89
Alignment explanation
Indices: 20079181--20079349 Score: 241
Period size: 93 Copynumber: 1.9 Consensus size: 89
20079171 TTTTCCCCAT
* *
20079181 CTCTTTATTTTTTTATTTTTATTTTGGTCACTTTCGA-TTTTTTTTACTTTTTTCTTTTTTGGCG
1 CTCTTTATTTTTTTATTTTTATTTTGGTCACTTTCGATTTTTTTTTACTTTCTTCTTTTTTGGCA
20079245 CCATTCGAATATTACTTTTTTAAC
66 CCATTCGAATATTACTTTTTTAAC
* * *
20079269 CTCTTTATTTTTTTATGATTTTTATTTTGGTCATTTTGGATTTTTTTTTTGCTTTCTTCTTTTTT
1 CTCTTTA-TTTTTT-T-ATTTTTATTTTGGTCACTTTCGA-TTTTTTTTTACTTTCTTCTTTTTT
*
20079334 GGCATCATTCGAATAT
62 GGCACCATTCGAATAT
20079350 CTTAAGTGCA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
88 7 0.10
89 6 0.09
90 1 0.01
91 21 0.30
93 35 0.50
ACGTcount: A:0.14, C:0.13, G:0.09, T:0.63
Consensus pattern (89 bp):
CTCTTTATTTTTTTATTTTTATTTTGGTCACTTTCGATTTTTTTTTACTTTCTTCTTTTTTGGCA
CCATTCGAATATTACTTTTTTAAC
Found at i:20084362 original size:13 final size:13
Alignment explanation
Indices: 20084346--20084374 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20084336 AAAAATAAAA
20084346 AAATGGCATAATT
1 AAATGGCATAATT
20084359 AAATGGCATAATT
1 AAATGGCATAATT
20084372 AAA
1 AAA
20084375 ACAAGATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (13 bp):
AAATGGCATAATT
Found at i:20088409 original size:60 final size:60
Alignment explanation
Indices: 20088344--20088564 Score: 264
Period size: 60 Copynumber: 3.6 Consensus size: 60
20088334 TTACACAAGA
* *
20088344 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTCTTCAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTCTTAAAATTTTATTTTTAAGG
* * * * * *
20088404 AAAATTGGTACTTCCAACTTTTTCTCAAGAAATGTTTTTT-TGAAAATTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAA-AAATATTTTTTCTTAAAATTTTATTTTTAAGG
* * *
20088464 AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTCTTTAAATTTTTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTC-TTAAA-ATTTTATTTTTAAGG
* * * * *
20088526 GAAACTGATACTCTCAACTTTCCCTCAAAAGTATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
20088565 GAAAATATAT
Statistics
Matches: 134, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
59 10 0.07
60 65 0.49
61 14 0.10
62 45 0.34
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTCTTAAAATTTTATTTTTAAGG
Found at i:20088563 original size:120 final size:119
Alignment explanation
Indices: 20088339--20088578 Score: 326
Period size: 120 Copynumber: 2.0 Consensus size: 119
20088329 TGTTTTTACA
*
20088339 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTCTTCAAATTTTATTTTTAAGG
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTCTTCAAATTTTATTTCTAAGG
* * ** *
20088404 AAAATTGGTACTTCCAACTTTTTCTCAAGAAATGTTTTTTTGAAAATTTTATTTT
66 AAAACTGATACTTCCAACTTTCCCTCAAGAAATGTTTTTTTGAAAA-TATATTTT
* *
20088459 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTCTTTAAATTTTTTATTTCTAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTCTTCAAA--TTTTATTTCTAA
*
20088524 GGGAAACTGATAC-TCTCAACTTTCCCTC-A-AAA-GTATTTTTTGAAAATATATTTT
64 GGAAAACTGATACTTC-CAACTTTCCCTCAAGAAATGT-TTTTTTGAAAATATATTTT
20088578 C
1 C
20088579 CCTCAAAAAT
Statistics
Matches: 107, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
119 10 0.09
120 63 0.59
121 3 0.03
122 31 0.29
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.46
Consensus pattern (119 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTCTTCAAATTTTATTTCTAAGG
AAAACTGATACTTCCAACTTTCCCTCAAGAAATGTTTTTTTGAAAATATATTTT
Found at i:20088638 original size:91 final size:92
Alignment explanation
Indices: 20088482--20088655 Score: 221
Period size: 91 Copynumber: 1.9 Consensus size: 92
20088472 TACTTTCAAC
* * * *
20088482 TTTTCCTTAAAAATATTTTTTCTTTAAATTTTTTATTTCTAAGGGAAACTGATACTCTCAACTTT
1 TTTTCCTCAAAAATATTATTTCTTTAAAATTTTTATTTCTAAAGGAAACTGATACTCTCAACTTT
* *
20088547 CCCTCAAAAGTATTTTTTGAAAATATA
66 CACTCAAAAATATTTTTTGAAAATATA
*
20088574 TTTTCCCTCAAAAATA-TATTT-TTTAAAATTTTTATGTTC-AAAGGAAATTGATACAT-TCAAC
1 TTTT-CCTCAAAAATATTATTTCTTTAAAATTTTTAT-TTCTAAAGGAAACTGATAC-TCTCAAC
*
20088635 TTTCATTCAAAAATATTTTTT
63 TTTCACTCAAAAATATTTTTT
20088656 TTCAAATTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
91 49 0.69
92 12 0.17
93 10 0.14
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (92 bp):
TTTTCCTCAAAAATATTATTTCTTTAAAATTTTTATTTCTAAAGGAAACTGATACTCTCAACTTT
CACTCAAAAATATTTTTTGAAAATATA
Found at i:20090499 original size:15 final size:14
Alignment explanation
Indices: 20090472--20090507 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
20090462 TTGACACATC
*
20090472 TATTTTCTTTTTTT
1 TATTTTTTTTTTTT
20090486 TATTTTTTTATTTTT
1 TATTTTTTT-TTTTT
20090501 TATTTTT
1 TATTTTT
20090508 GGAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (14 bp):
TATTTTTTTTTTTT
Found at i:20090649 original size:85 final size:83
Alignment explanation
Indices: 20090555--20090823 Score: 376
Period size: 85 Copynumber: 3.2 Consensus size: 83
20090545 ATAACTTTTA
** * * *
20090555 AAAATAAAATGCTAATCTAAATAAAGGTAACCACAATTTTGAAAAATAAAATGCTCCTCTAAATA
1 AAAATAAAATGCTCCTCTAAATAGAGGCAACAACAATTTTGAAAAATAAAATGCTCCTCTAAATA
20090620 GAGGCAAGCACAACTTTGG
66 GAGGCAA-CACAACTTTGG
* *
20090639 AAAAATAAAATGCTCCTCTAAATAGAGGCAAGAACAACTTTGGAAAAATAAAATGCTCCTCTAAA
1 -AAAATAAAATGCTCCTCTAAATAGAGGCAACAACAA-TTTTGAAAAATAAAATGCTCCTCTAAA
*
20090704 TAGAGGCAACTACAATTTTGG
64 TAGAGGCAAC-ACAACTTTGG
* * * *
20090725 AAAATAAAATGCTCCTTTAAATAGAGGCAACTACAACTTTGAAAAAATAAAATGCTCTTCTAAAT
1 AAAATAAAATGCTCCTCTAAATAGAGGCAACAACAATTTTG-AAAAATAAAATGCTCCTCTAAAT
20090790 AGAGGCAACCACAACTTTGG
65 AGAGGCAA-CACAACTTTGG
20090810 AAAATAAAATGCTC
1 AAAATAAAATGCTC
20090824 ATTGACAATC
Statistics
Matches: 165, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
84 3 0.02
85 117 0.71
86 45 0.27
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.24
Consensus pattern (83 bp):
AAAATAAAATGCTCCTCTAAATAGAGGCAACAACAATTTTGAAAAATAAAATGCTCCTCTAAATA
GAGGCAACACAACTTTGG
Found at i:20090651 original size:43 final size:42
Alignment explanation
Indices: 20090554--20090823 Score: 375
Period size: 43 Copynumber: 6.4 Consensus size: 42
20090544 AATAACTTTT
** * * *
20090554 AAAAATAAAATGCTAATCTAAATAAAGGTAACCACAA-TTTTG
1 AAAAATAAAATGCTCCTCTAAATAGAGGCAA-CACAACTTTGG
20090596 AAAAATAAAATGCTCCTCTAAATAGAGGCAAGCACAACTTTGG
1 AAAAATAAAATGCTCCTCTAAATAGAGGCAA-CACAACTTTGG
*
20090639 AAAAATAAAATGCTCCTCTAAATAGAGGCAAGAACAACTTTGG
1 AAAAATAAAATGCTCCTCTAAATAGAGGCAA-CACAACTTTGG
*
20090682 AAAAATAAAATGCTCCTCTAAATAGAGGCAACTACAATTTTGG
1 AAAAATAAAATGCTCCTCTAAATAGAGGCAAC-ACAACTTTGG
* *
20090725 -AAAATAAAATGCTCCTTTAAATAGAGGCAACTACAACTTTGA
1 AAAAATAAAATGCTCCTCTAAATAGAGGCAAC-ACAACTTTGG
*
20090767 AAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAACTTTGG
1 AAAAATAAAATGCTCCTCTAAATAGAGGCAA-CACAACTTTGG
20090810 -AAAATAAAATGCTC
1 AAAAATAAAATGCTC
20090824 ATTGACAATC
Statistics
Matches: 209, Mismatches: 15, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
42 85 0.41
43 123 0.59
44 1 0.00
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (42 bp):
AAAAATAAAATGCTCCTCTAAATAGAGGCAACACAACTTTGG
Found at i:20090739 original size:128 final size:128
Alignment explanation
Indices: 20090511--20090825 Score: 422
Period size: 128 Copynumber: 2.5 Consensus size: 128
20090501 TATTTTTGGA
* * *** * * *
20090511 AAAAAATAACAAAGCTCCTTTAAATAGAGG-GTTAATAACTTT-TAAAAATAAAATGCTAATCTA
1 AAAAAATAA-AATGCTCCTCTAAATAGAGGCAACAACAACTTTGGAAAAATAAAATGCTCATCTA
*
20090574 AATAAAGGTAACCACAATTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAAGC-ACAACTTTG
65 AATAAAGGCAACCACAATTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAA-CTACAACTTTG
* * *
20090638 GAAAAATAAAATGCTCCTCTAAATAGAGGCAAGAACAACTTTGGAAAAATAAAATGCTCCTCTAA
1 AAAAAATAAAATGCTCCTCTAAATAGAGGCAACAACAACTTTGGAAAAATAAAATGCTCATCTAA
* * * *
20090703 ATAGAGGCAACTACAATTTTGGAAAATAAAATGCTCCTTTAAATAGAGGCAACTACAACTTTG
66 ATAAAGGCAACCACAATTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACTACAACTTTG
* *
20090766 AAAAAATAAAATGCTCTTCTAAATAGAGGCAACCACAACTTTGG-AAAATAAAATGCTCAT
1 AAAAAATAAAATGCTCCTCTAAATAGAGGCAACAACAACTTTGGAAAAATAAAATGCTCAT
20090826 TGACAATCAT
Statistics
Matches: 165, Mismatches: 20, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
126 18 0.11
127 32 0.19
128 115 0.70
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.25
Consensus pattern (128 bp):
AAAAAATAAAATGCTCCTCTAAATAGAGGCAACAACAACTTTGGAAAAATAAAATGCTCATCTAA
ATAAAGGCAACCACAATTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACTACAACTTTG
Found at i:20091145 original size:20 final size:20
Alignment explanation
Indices: 20091108--20091145 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20091098 CACATCTAAA
* *
20091108 AGTTCAAAGCTTCTCATTCG
1 AGTTCAAAGATTCACATTCG
20091128 AGTTCAAAGATTCACATT
1 AGTTCAAAGATTCACATT
20091146 TGAAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
AGTTCAAAGATTCACATTCG
Found at i:20091244 original size:22 final size:23
Alignment explanation
Indices: 20091215--20091265 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
20091205 TTGAGAACTG
*
20091215 AAAA-TTC-TTATCAAAAGATTC
1 AAAATTTCTTTATCAAAAGACTC
* *
20091236 ACAATTTCTTTTTCAAAAGACTC
1 AAAATTTCTTTATCAAAAGACTC
20091259 AAAATTT
1 AAAATTT
20091266 TAAATGTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 3 0.12
22 3 0.12
23 18 0.75
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (23 bp):
AAAATTTCTTTATCAAAAGACTC
Found at i:20092277 original size:15 final size:15
Alignment explanation
Indices: 20092246--20092295 Score: 66
Period size: 16 Copynumber: 3.3 Consensus size: 15
20092236 TCAATTTGAG
*
20092246 TTTTCCTTTTATCTCA
1 TTTTCATTTT-TCTCA
20092262 TTTTCATTTTTCTCA
1 TTTTCATTTTTCTCA
20092277 TTTTTCATTTTT-TCA
1 -TTTTCATTTTTCTCA
20092292 TTTT
1 TTTT
20092296 TTTATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 4 0.12
15 8 0.25
16 20 0.62
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCATTTTTCTCA
Found at i:20092288 original size:8 final size:8
Alignment explanation
Indices: 20092262--20092397 Score: 113
Period size: 8 Copynumber: 16.8 Consensus size: 8
20092252 TTTTATCTCA
20092262 TTTTCATT
1 TTTTCATT
20092270 TTTCTCA-T
1 TTT-TCATT
20092278 TTTTCATT
1 TTTTCATT
20092286 TTTTCATT
1 TTTTCATT
*
20092294 TTTTTATTT
1 TTTTCA-TT
*
20092303 TTTTTATT
1 TTTTCATT
20092311 TTTTCATTT
1 TTTTCA-TT
20092320 TTTTCATTT
1 TTTTCA-TT
20092329 TTTTCATT
1 TTTTCATT
*
20092337 CTTTCTCTTT
1 -TTT-TCATT
*
20092347 TTTTCTTT
1 TTTTCATT
20092355 TTTTC--T
1 TTTTCATT
20092361 TTTT--TT
1 TTTTCATT
20092367 TTTTCATTT
1 TTTTCA-TT
20092376 TTTTC-TT
1 TTTTCATT
20092383 TCTTTCATT
1 T-TTTCATT
*
20092392 CTTTCA
1 TTTTCA
20092398 CCCATTATTG
Statistics
Matches: 112, Mismatches: 4, Indels: 24
0.80 0.03 0.17
Matches are distributed among these distances:
6 10 0.09
7 6 0.05
8 49 0.44
9 43 0.38
10 4 0.04
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTCATT
Found at i:20092288 original size:17 final size:18
Alignment explanation
Indices: 20092262--20092396 Score: 106
Period size: 17 Copynumber: 7.7 Consensus size: 18
20092252 TTTTATCTCA
20092262 TTTTCA-TTTTTCTCA-T
1 TTTTCATTTTTTCTCATT
20092278 TTTTCA-TTTTT-TCATT
1 TTTTCATTTTTTCTCATT
* *
20092294 TTTTTATTTTTT-TTATT
1 TTTTCATTTTTTCTCATT
20092311 TTTTCATTTTTT-TCATTT
1 TTTTCATTTTTTCTCA-TT
* *
20092329 TTTTCATTCTTTCTCTTT
1 TTTTCATTTTTTCTCATT
* **
20092347 TTTTCTTTTTTTCTTTTTTT
1 TTTTCATTTTTTC--TCATT
20092367 TTTTCATTTTTT-TC-TT
1 TTTTCATTTTTTCTCATT
*
20092383 TCTTTCATTCTTTC
1 T-TTTCATTTTTTC
20092397 ACCCATTATT
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
15 3 0.03
16 20 0.20
17 33 0.33
18 26 0.26
19 2 0.02
20 15 0.15
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCATTTTTTCTCATT
Found at i:20092382 original size:43 final size:43
Alignment explanation
Indices: 20092277--20092387 Score: 120
Period size: 47 Copynumber: 2.5 Consensus size: 43
20092267 ATTTTTCTCA
20092277 TTTTTCA-TTTTTTCATTT-TTTTATTTTTTTTATTTTTTCATT
1 TTTTTCATTTTTTTC-TTTCTTTTATTTTTTTTATTTTTTCATT
* * *
20092319 TTTTTCATTTTTTTCATTCTTTCTCTTTTTTTCT-TTTTTTCTTTTTT
1 TTTTTCATTTTTTTCTTTCTTT-TATTTTTTT-TATTTTTTC---ATT
20092366 TTTTTCATTTTTTTCTTTCTTT
1 TTTTTCATTTTTTTCTTTCTTT
20092388 CATTCTTTCA
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
42 9 0.16
43 10 0.17
44 15 0.26
45 1 0.02
47 23 0.40
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (43 bp):
TTTTTCATTTTTTTCTTTCTTTTATTTTTTTTATTTTTTCATT
Found at i:20096590 original size:129 final size:121
Alignment explanation
Indices: 20096463--20096832 Score: 325
Period size: 122 Copynumber: 3.0 Consensus size: 121
20096453 ATGCTTTTAC
* * * *
20096463 ACAAGGAAAATTGATACTTTCAACTTTTCCT-TAAA-GCATTTTTT-ACATTTTTATTTTCAAGG
1 ACAAGGAAAATTGATACTTTCAACTTTTCCTAGAAATG-ATTTTTTGAAAATTTTATTTTCAAGA
20096525 AAAATTGATACTTTCAACACTTTCTATTTTTCCTTAAAAATATTTTTTCTTC-AA-ATTTTATTT
65 AAAATTGATACTTTC-A-A----C---TTTTCCTTAAAAATATTTTTTCTTCAAATATTTTA-TT
20096588 TT
120 TT
* * * *
20096590 A-AA-GAAAATTAATACTTCCAATTTTTCCTCAAGAAATGGTTTTTTGAAAATTTTATTTTCAAG
1 ACAAGGAAAATTGATACTTTCAACTTTTCCT--AGAAATGATTTTTTGAAAATTTTATTTTCAAG
20096653 AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTCTTCAAATATTTTATTTT
64 AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTCTTCAAATATTTTATTTT
* * *** *
20096711 -CAAGGAAAATTGATACTTTCAACTTTCCCTCAAAAAT-ATATATTTTTTTAATTTTAATGTTCA
1 ACAAGGAAAATTGATACTTTCAACTTTTCCT-AGAAATGAT-T-TTTTGAAAATTTT-ATTTTCA
* * *
20096774 A-AGAAAATTGATACATTCAAC-TTTCCTTCAAAAGTATTTTTT-TTCAAAT-TTTCATTTT
62 AGA-AAAATTGATACTTTCAACTTTTCCTT-AAAAATATTTTTTCTTCAAATATTTTATTTT
20096832 A
1 A
20096833 AAGAGATCAT
Statistics
Matches: 206, Mismatches: 22, Indels: 35
0.78 0.08 0.13
Matches are distributed among these distances:
120 26 0.13
121 22 0.11
122 53 0.26
123 37 0.18
125 23 0.11
126 2 0.01
127 2 0.01
128 10 0.05
129 31 0.15
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (121 bp):
ACAAGGAAAATTGATACTTTCAACTTTTCCTAGAAATGATTTTTTGAAAATTTTATTTTCAAGAA
AAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTCTTCAAATATTTTATTTT
Found at i:20096765 original size:122 final size:123
Alignment explanation
Indices: 20096543--20096836 Score: 338
Period size: 122 Copynumber: 2.4 Consensus size: 123
20096533 TACTTTCAAC
* * *
20096543 ACTTTCTATTTTTCCTTAAAAATATTTTTTCTTC-AA-ATTTTATTTTTAAAGAAAATTAATACT
1 ACTTTCAACTTTTCCTTAAAAATATTTTTTCTTCAAATATTTTATTTTCAAAGAAAATTAATACT
* * * *
20096606 TCCAATTTTTCCTCAAGAAATGGTTTTTTGAAAATTTT-ATTTTC-AAGAAAAATTGAT
66 TCCAACTTTCCCTCAAGAAATGATTTTTTGAAAATTTTAATGTTCAAAG-AAAATTGAT
* *
20096663 ACTTTCAACTTTTCCTTAAAAATATTTTTTCTTCAAATATTTTATTTTCAAGGAAAATTGATACT
1 ACTTTCAACTTTTCCTTAAAAATATTTTTTCTTCAAATATTTTATTTTCAAAGAAAATTAATACT
* ***
20096728 TTCAACTTTCCCTCAA-AAAT-ATATATTTTTTTAATTTTAATGTTCAAAGAAAATTGAT
66 TCCAACTTTCCCTCAAGAAATGAT-T-TTTTGAAAATTTTAATGTTCAAAGAAAATTGAT
* * *
20096786 ACATTCAAC-TTTCCTTCAAAAGTATTTTTT-TTCAAAT-TTTCATTTT-AAAGA
1 ACTTTCAACTTTTCCTT-AAAAATATTTTTTCTTCAAATATTTTATTTTCAAAGA
20096837 GATCATTGAA
Statistics
Matches: 150, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
120 37 0.25
121 15 0.10
122 61 0.41
123 34 0.23
124 3 0.02
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.47
Consensus pattern (123 bp):
ACTTTCAACTTTTCCTTAAAAATATTTTTTCTTCAAATATTTTATTTTCAAAGAAAATTAATACT
TCCAACTTTCCCTCAAGAAATGATTTTTTGAAAATTTTAATGTTCAAAGAAAATTGAT
Found at i:20096785 original size:61 final size:60
Alignment explanation
Indices: 20096560--20096836 Score: 287
Period size: 60 Copynumber: 4.6 Consensus size: 60
20096550 ATTTTTCCTT
* * * * *
20096560 AAAAATATTTTTTCTTCAAATTTTATTTTTAAAGAAAATTAATACTTCCAATTTTTCCTC
1 AAAAATATTTTTTCTTCAAATTTTATTTTCAAAGAAAATTGATACTTTCAACTTTCCCTC
** ** * *
20096620 AAGAAATGGTTTTT-TGAAAATTTTATTTTC-AAGAAAAATTGATACTTTCAACTTTTCCTT
1 AA-AAATATTTTTTCTTCAAATTTTATTTTCAAAG-AAAATTGATACTTTCAACTTTCCCTC
*
20096680 AAAAATATTTTTTCTTCAAATATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTCCCTC
1 AAAAATATTTTTTCTTC-AA-ATTTTATTTTCAAAGAAAATTGATACTTTCAACTTTCCCTC
* * * *
20096742 AAAAATATATATTTT-TT-TAATTTTAATGTTCAAAGAAAATTGATACATTCAACTTTCCTTC
1 AAAAATAT-T-TTTTCTTCAAATTTT-ATTTTCAAAGAAAATTGATACTTTCAACTTTCCCTC
*
20096803 AAAAGTATTTTTT-TTCAAATTTTCATTTT-AAAGA
1 AAAAATATTTTTTCTTCAAATTTT-ATTTTCAAAGA
20096837 GATCATTGAA
Statistics
Matches: 182, Mismatches: 25, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
59 23 0.13
60 56 0.31
61 51 0.28
62 43 0.24
63 5 0.03
64 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (60 bp):
AAAAATATTTTTTCTTCAAATTTTATTTTCAAAGAAAATTGATACTTTCAACTTTCCCTC
Found at i:20096845 original size:61 final size:60
Alignment explanation
Indices: 20096553--20096838 Score: 264
Period size: 61 Copynumber: 4.7 Consensus size: 60
20096543 ACTTTCTATT
* * * *
20096553 TTTCCTT-AAAAATATTTTTTCTTCAAATTTTATTTTTAAAGA-AAATTAATACTTCCAATT
1 TTTCCTTCAAAAATATTTTTT-TTCAAATTTTAATTTTAAAGAGAAATTGATACTTTCAA-C
** ** * *
20096613 TTTCC-TCAAGAAATGGTTTTTTGAAAATTTT-ATTTTCAAGAAAAATTGATACTTTCAAC
1 TTTCCTTCAA-AAATATTTTTTTTCAAATTTTAATTTTAAAGAGAAATTGATACTTTCAAC
* *
20096672 TTTTCCTT-AAAAATATTTTTTCTTCAAATATTTTATTTTCAAG-GAAAATTGATACTTTCAAC
1 -TTTCCTTCAAAAATATTTTTT-TTCAAAT-TTTAATTTTAAAGAG-AAATTGATACTTTCAAC
* * * *
20096734 TTTCCCTCAAAAATATATATTTTTT-TAATTTTAATGTTCAAAGA-AAATTGATACATTCAAC
1 TTTCCTTCAAAAATAT-T-TTTTTTCAAATTTTAAT-TTTAAAGAGAAATTGATACTTTCAAC
* *
20096795 TTTCCTTCAAAAGTATTTTTTTTCAAATTTTCATTTTAAAGAGA
1 TTTCCTTCAAAAATATTTTTTTTCAAATTTTAATTTTAAAGAGA
20096839 TCATTGAAAA
Statistics
Matches: 185, Mismatches: 25, Indels: 32
0.76 0.10 0.13
Matches are distributed among these distances:
59 31 0.17
60 51 0.28
61 54 0.29
62 42 0.23
63 3 0.02
64 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.47
Consensus pattern (60 bp):
TTTCCTTCAAAAATATTTTTTTTCAAATTTTAATTTTAAAGAGAAATTGATACTTTCAAC
Found at i:20098001 original size:10 final size:10
Alignment explanation
Indices: 20097986--20098021 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
20097976 CACCAAGAAG
*
20097986 CAAGAGGAAA
1 CAAGAGGAAT
20097996 CAAGAGGAAT
1 CAAGAGGAAT
*
20098006 CAAGATGAAT
1 CAAGAGGAAT
20098016 CAAGAG
1 CAAGAG
20098022 AGCAAGAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.53, C:0.11, G:0.28, T:0.08
Consensus pattern (10 bp):
CAAGAGGAAT
Found at i:20105819 original size:27 final size:29
Alignment explanation
Indices: 20105769--20105823 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
20105759 CTTGAATTTG
20105769 GTTCGATTATTATCGAATCGAGCTTGAGTA
1 GTTCGATTATTATCGAATCGAGC-TGAGTA
20105799 GTTCGA-T-TTATCG-ATCGAGCTGAGT
1 GTTCGATTATTATCGAATCGAGCTGAGT
20105824 TCGAGTATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 5 0.20
27 7 0.28
28 6 0.24
29 1 0.04
30 6 0.24
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (29 bp):
GTTCGATTATTATCGAATCGAGCTGAGTA
Found at i:20106534 original size:41 final size:40
Alignment explanation
Indices: 20106463--20106545 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 40
20106453 AATGAAATCA
* *
20106463 TAGTCTAATATACAAAAAGATTACGATTTTCGTAAAAGTG
1 TAGTCTAATATACAAAAAGACTACGATTTTCATAAAAGTG
* *
20106503 TAGTCCTAATATACAAAAAG-CTATGATTTTTCATAAAATTG
1 TAGT-CTAATATACAAAAAGACTACGA-TTTTCATAAAAGTG
20106544 TA
1 TA
20106546 ATAAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 8 0.22
41 29 0.78
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (40 bp):
TAGTCTAATATACAAAAAGACTACGATTTTCATAAAAGTG
Found at i:20108684 original size:103 final size:104
Alignment explanation
Indices: 20108491--20108699 Score: 352
Period size: 104 Copynumber: 2.0 Consensus size: 104
20108481 TTATAATTTA
20108491 TTAACAATCTCTTATATTTGAAATTAATAGAAATATAATAGAAAAAATCAAATCTTTTTAATTTG
1 TTAACAATCTCTTATATTTGAAATTAATAGAAATATAATAGAAAAAATCAAATCTTTTTAATTTG
20108556 ATCTTTTTTCAAAATTTAA-TATTTTTACCAAAATTGTT
66 ATCTTTTTTCAAAATTTAATTATTTTTACCAAAATTGTT
*
20108594 TTAACAATCTTTTATATTTGAAATTAATAGAAAAATATAATA-AAAAAATCAAATCTTTTTAATT
1 TTAACAATCTCTTATATTTGAAATTAATAG--AAATATAATAGAAAAAATCAAATCTTTTTAATT
*
20108658 TGAT-TTGTTTTCAAAATTTAATTTTTTTTACCAAAATTGTT
64 TGATCTT-TTTTCAAAATTTAATTATTTTTACCAAAATTGTT
20108699 T
1 T
20108700 ATCAGTGGAT
Statistics
Matches: 100, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
103 31 0.31
104 40 0.40
105 29 0.29
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.46
Consensus pattern (104 bp):
TTAACAATCTCTTATATTTGAAATTAATAGAAATATAATAGAAAAAATCAAATCTTTTTAATTTG
ATCTTTTTTCAAAATTTAATTATTTTTACCAAAATTGTT
Found at i:20111146 original size:17 final size:17
Alignment explanation
Indices: 20111124--20111156 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20111114 TCTCCTAGAA
20111124 TTCTTTTCTTA-CAAGTT
1 TTCTTTT-TTATCAAGTT
20111141 TTCTTTTTTATCAAGT
1 TTCTTTTTTATCAAGT
20111157 AATATTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.18, C:0.15, G:0.06, T:0.61
Consensus pattern (17 bp):
TTCTTTTTTATCAAGTT
Found at i:20112564 original size:129 final size:130
Alignment explanation
Indices: 20112326--20112583 Score: 387
Period size: 129 Copynumber: 2.0 Consensus size: 130
20112316 TTTTACTAAC
* * * **
20112326 TATATAAAATCAACCACATATAAAATTTATTAAAATACTCTTGCTTTTGTTTCATGGAAATTTGA
1 TATATAAAATCAACCACATATAAAATTTACTAAAATACTCTTGCTATTATTTCATAAAAATTTGA
*
20112391 CATGCGGCATTTTGTTTGAAAATTATTATAATATTGCTAATAAATTACATATTAAATTTTAACAT
66 CATGCGGCATTTTGTTTGAAAATTATTATAATATTCCTAATAAATTACATATTAAATTTTAACAT
*
20112456 TATATAAAATCAACCACATAT-AAATTTACTAGAATAC-CTTTGCTATTATTTCATAAAAATTTG
1 TATATAAAATCAACCACATATAAAATTTACTAAAATACTC-TTGCTATTATTTCATAAAAATTTG
* * *
20112519 ACATGTGTCATTTTGTTTGAAAATTATTATAATA-TCCATATTAAATTACATATTAAATTTTAAC
65 ACATGCGGCATTTTGTTTGAAAATTATTATAATATTCC-TAATAAATTACATATTAAATTTTAAC
20112583 A
129 A
20112584 CAATAAAAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
128 3 0.03
129 92 0.79
130 21 0.18
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (130 bp):
TATATAAAATCAACCACATATAAAATTTACTAAAATACTCTTGCTATTATTTCATAAAAATTTGA
CATGCGGCATTTTGTTTGAAAATTATTATAATATTCCTAATAAATTACATATTAAATTTTAACAT
Found at i:20112740 original size:117 final size:117
Alignment explanation
Indices: 20112500--20112740 Score: 265
Period size: 117 Copynumber: 2.1 Consensus size: 117
20112490 TACCTTTGCT
* *
20112500 ATTATTTCATAAAAATTTGACATGTGTCATTTTGTTTGAAAATTATTATAATATCCATATTAAAT
1 ATTACTTCATAAAAATTTGACATGTGTCATTTTGTTTGAAAATTATTACAATATCCATATTAAAT
* * * ** * ** *
20112565 TACATATTAAATTTTAACACAATAAAAAATTATTTGCATACTAAATTATTAA
66 TAAATATTAAAATTTAACACAATAAAAAATCAAATGAATACTAAAAAATAAA
* * *
20112617 ATTACTTCATAAAAATTTGACTTTTGGT-ATTTTGTTTGAAAATTATTACAATA-CCTTTATTAA
1 ATTACTTCATAAAAATTTGACATGT-GTCATTTTGTTTGAAAATTATTACAATATCC-ATATTAA
* * *
20112680 ATTAAATATTAAAATTTAACATAAT-ATAAATCAAAT-AATATTAAAAAACTAAA
64 ATTAAATATTAAAATTTAACACAATAAAAAATCAAATGAATACTAAAAAA-TAAA
20112733 ATATACTT
1 AT-TACTT
20112741 GTTCAAAATT
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
115 8 0.08
116 14 0.14
117 79 0.77
118 2 0.02
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (117 bp):
ATTACTTCATAAAAATTTGACATGTGTCATTTTGTTTGAAAATTATTACAATATCCATATTAAAT
TAAATATTAAAATTTAACACAATAAAAAATCAAATGAATACTAAAAAATAAA
Found at i:20114569 original size:34 final size:34
Alignment explanation
Indices: 20114471--20114578 Score: 107
Period size: 34 Copynumber: 3.1 Consensus size: 34
20114461 TTATGAGCCC
* *
20114471 TAGAATGCACTGTACTAACAAGATACATGT-ATA
1 TAGAATGCATTGTACTAACAAGATACATGTGAAA
**
20114504 TA-AACT-CATAAATACTTCAA-AAGAATACATGTGAAA
1 TAGAA-TGCAT-TGTAC-T-AACAAG-ATACATGTGAAA
20114540 TAGAATGCATTGTACTAACAAGATACATGTGAAA
1 TAGAATGCATTGTACTAACAAGATACATGTGAAA
20114574 TAGAA
1 TAGAA
20114579 ATGATACAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
32 4 0.07
33 6 0.10
34 23 0.38
35 14 0.23
36 8 0.13
37 5 0.08
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (34 bp):
TAGAATGCATTGTACTAACAAGATACATGTGAAA
Found at i:20116411 original size:17 final size:17
Alignment explanation
Indices: 20116375--20116407 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20116365 AAAAAATTGA
20116375 AAATCAAAATATAAAAT
1 AAATCAAAATATAAAAT
20116392 AAATCAAAA-ATAAAAT
1 AAATCAAAATATAAAAT
20116408 TAAAATGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATCAAAATATAAAAT
Found at i:20116413 original size:18 final size:18
Alignment explanation
Indices: 20116345--20116419 Score: 66
Period size: 18 Copynumber: 4.2 Consensus size: 18
20116335 CAATAAAAAT
* *
20116345 AAATAAATAATAAAATCAG
1 AAATAAA-ATTAAAATCAA
*
20116364 TAA-AAAATTGAAAATCAA
1 AAATAAAATT-AAAATCAA
20116382 AATATAAAA-T-AAATCAA
1 AA-ATAAAATTAAAATCAA
*
20116399 AAATAAAATTAAAATGAA
1 AAATAAAATTAAAATCAA
20116417 AAA
1 AAA
20116420 AAACCTACGA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
16 6 0.13
17 12 0.26
18 20 0.43
19 4 0.09
20 4 0.09
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (18 bp):
AAATAAAATTAAAATCAA
Found at i:20117231 original size:3 final size:3
Alignment explanation
Indices: 20117225--20117323 Score: 81
Period size: 3 Copynumber: 35.3 Consensus size: 3
20117215 GAATGATAGA
*
20117225 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AG AAT AA- AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
20117270 -AT AAT -AT AAT -TT AAT -AT ATT AGACT AAT -AT ACT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT AAT
20117311 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
20117324 CTATGAAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
2 15 0.19
3 59 0.77
4 1 0.01
5 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:20117243 original size:15 final size:15
Alignment explanation
Indices: 20117225--20117323 Score: 81
Period size: 13 Copynumber: 7.1 Consensus size: 15
20117215 GAATGATAGA
20117225 AATAATAATAATAAT
1 AATAATAATAATAAT
*
20117240 AATAATAATAAT-AG
1 AATAATAATAATAAT
20117254 AATAA-AAT-ATAAT
1 AATAATAATAATAAT
20117267 AAT-ATAAT-ATAAT
1 AATAATAATAATAAT
* *
20117280 -TTAAT-ATATTAGACT
1 AATAATAATAATA-A-T
*
20117295 AAT-ATACT-ATAAT
1 AATAATAATAATAAT
20117308 AATAATAATAATAAT
1 AATAATAATAATAAT
20117323 A
1 A
20117324 CTATGAAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
12 6 0.09
13 23 0.35
14 12 0.18
15 23 0.35
16 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AATAATAATAATAAT
Found at i:20117248 original size:18 final size:17
Alignment explanation
Indices: 20117225--20117320 Score: 90
Period size: 18 Copynumber: 5.6 Consensus size: 17
20117215 GAATGATAGA
20117225 AATAATAATAATAATAAT
1 AATAATAAT-ATAATAAT
* *
20117243 AATAATAATAGAATAAA
1 AATAATAATATAATAAT
20117260 ATATAATAATATAAT-AT
1 A-ATAATAATATAATAAT
* *
20117277 AAT-TTAATATATTAGACT
1 AATAATAATATAATA-A-T
*
20117295 AAT-ATACTATAATAAT
1 AATAATAATATAATAAT
20117311 AATAATAATA
1 AATAATAATA
20117321 ATACTATGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
15 8 0.13
16 6 0.10
17 16 0.25
18 33 0.52
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
AATAATAATATAATAAT
Found at i:20117286 original size:10 final size:10
Alignment explanation
Indices: 20117229--20117320 Score: 53
Period size: 10 Copynumber: 8.6 Consensus size: 10
20117219 GATAGAAATA
20117229 ATAATAATAAT
1 ATAAT-ATAAT
20117240 AATAATAATAAT
1 -ATAAT-ATAAT
* *
20117252 AGAATAAAAT
1 ATAATATAAT
20117262 AT-A-ATAAT
1 ATAATATAAT
20117270 ATAATATAAT
1 ATAATATAAT
* *
20117280 TTAATATATTAG
1 ATAATATA--AT
*
20117292 ACTAATATACT
1 A-TAATATAAT
20117303 ATAATAATAAT
1 ATAAT-ATAAT
20117314 AATAATA
1 -ATAATA
20117321 ATACTATGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
8 6 0.10
9 2 0.03
10 21 0.33
11 10 0.16
12 17 0.27
13 7 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
ATAATATAAT
Found at i:20119079 original size:9 final size:9
Alignment explanation
Indices: 20119065--20119117 Score: 81
Period size: 9 Copynumber: 5.8 Consensus size: 9
20119055 CCCTATCAAT
20119065 TTTTTTTCA
1 TTTTTTTCA
20119074 TTTTTTTCA
1 TTTTTTTCA
20119083 TTTTTCTTCA
1 TTTTT-TTCA
20119093 -TTTTTTCA
1 TTTTTTTCA
20119101 TTTTTTTCA
1 TTTTTTTCA
20119110 TTATTTTT
1 TT-TTTTT
20119118 AAGAAAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
8 4 0.10
9 28 0.68
10 9 0.22
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:20123879 original size:46 final size:43
Alignment explanation
Indices: 20123796--20123886 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 43
20123786 CTTTTTTATT
* * * *
20123796 TTTTAAAAATTTATTTATGAAATTTCTTAATAGTTTGGT-GGA
1 TTTTAAAAATTTATCTATGAAAATTCTCAATAATTTGGTAGGA
20123838 TTTTATAAAATTTAAATCTATGAAAATTCTCCAATAATTTGGTAGGA
1 TTTTA-AAAATTT--ATCTATGAAAATTCT-CAATAATTTGGTAGGA
20123885 TT
1 TT
20123887 CATGAATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
42 5 0.12
43 7 0.17
45 13 0.32
46 10 0.25
47 5 0.12
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.46
Consensus pattern (43 bp):
TTTTAAAAATTTATCTATGAAAATTCTCAATAATTTGGTAGGA
Found at i:20124418 original size:19 final size:20
Alignment explanation
Indices: 20124378--20124418 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
20124368 CATCTTAAAA
*
20124378 CCTAGATTTTTCCAAATTTT
1 CCTAGATTCTTCCAAATTTT
*
20124398 CCTAGATTCTT-CAATTTTT
1 CCTAGATTCTTCCAAATTTT
20124417 CC
1 CC
20124419 AGAAATCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.22, C:0.24, G:0.05, T:0.49
Consensus pattern (20 bp):
CCTAGATTCTTCCAAATTTT
Found at i:20124880 original size:3 final size:3
Alignment explanation
Indices: 20124872--20124934 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
20124862 AAAGAATGGA
20124872 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20124919 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
20124935 TAGTATAATT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20138301 original size:25 final size:24
Alignment explanation
Indices: 20138265--20138311 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
20138255 TTTACATGCA
20138265 AATAAAATTTTATTTTATTTTTTT
1 AATAAAATTTTATTTTATTTTTTT
20138289 AATACAAATTTTATTTTATTTTT
1 AATA-AAATTTTATTTTATTTTT
20138312 ATACAACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
AATAAAATTTTATTTTATTTTTTT
Found at i:20139152 original size:22 final size:22
Alignment explanation
Indices: 20139127--20139263 Score: 68
Period size: 22 Copynumber: 6.1 Consensus size: 22
20139117 TTCTAATGAT
20139127 ATTTTGATAATATTTTAAATTG
1 ATTTTGATAATATTTTAAATTG
* * **
20139149 A-TTTGATATTAATTTAAA-AA
1 ATTTTGATAATATTTTAAATTG
* * *
20139169 ATATTAGATATTAATTTAGTAA-T-
1 AT-TTTGATAATATTTTA--AATTG
*
20139192 ATTTTGATAATATTTTAGATTG
1 ATTTTGATAATATTTTAAATTG
** *
20139214 ATTTCAATGATATTATTACAATAAT-
1 ATTTTGATAATATT-TTA-AAT--TG
*
20139239 ATTTTAATAATATTTTAAATTG
1 ATTTTGATAATATTTTAAATTG
20139261 ATT
1 ATT
20139264 AGATATTTAT
Statistics
Matches: 88, Mismatches: 16, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
20 2 0.02
21 17 0.19
22 41 0.47
23 8 0.09
24 7 0.08
25 12 0.14
26 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.50
Consensus pattern (22 bp):
ATTTTGATAATATTTTAAATTG
Found at i:20139247 original size:11 final size:11
Alignment explanation
Indices: 20139183--20139256 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
20139173 TAGATATTAA
*
20139183 TTTAGTAATAT
1 TTTAATAATAT
*
20139194 TTTGATAATAT
1 TTTAATAATAT
20139205 TTTAGAT--TGAT
1 TTTA-ATAAT-AT
* *
20139216 TTCAATGATAT
1 TTTAATAATAT
20139227 TATTACAATAATAT
1 T-TT--AATAATAT
20139241 TTTAATAATAT
1 TTTAATAATAT
20139252 TTTAA
1 TTTAA
20139257 ATTGATTAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
10 3 0.06
11 33 0.66
12 4 0.08
13 2 0.04
14 8 0.16
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:20139346 original size:15 final size:16
Alignment explanation
Indices: 20139326--20139363 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20139316 ATTTAATCAT
*
20139326 TATTTTTA-TTTATTA
1 TATTTTTATTTTATAA
20139341 TATTTTTTATTTTATAA
1 TA-TTTTTATTTTATAA
20139358 TATTTT
1 TATTTT
20139364 ACCTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 10 0.50
17 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTTATTTTATAA
Found at i:20139349 original size:16 final size:17
Alignment explanation
Indices: 20139328--20139363 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
20139318 TTAATCATTA
*
20139328 TTTTTA-TTTATTATAT
1 TTTTTATTTTATAATAT
20139344 TTTTTATTTTATAATAT
1 TTTTTATTTTATAATAT
20139361 TTT
1 TTT
20139364 ACCTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTATAATAT
Found at i:20143789 original size:32 final size:31
Alignment explanation
Indices: 20143753--20143842 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 31
20143743 ATATTCATGT
*
20143753 AATATTTTATATTGATTAATATTGATT-TAGAA
1 AATATTTTATATTGATTAATAAT-ATTCT-GAA
** *
20143785 AATATTAGATATTGATTTAATAATATTCTGAT
1 AATATTTTATATTGA-TTAATAATATTCTGAA
*
20143817 AATATTTTAAATTGATTTTAATAATA
1 AATATTTTATATTGA--TTAATAATA
20143843 CTATTCTAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
32 30 0.62
33 18 0.38
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (31 bp):
AATATTTTATATTGATTAATAATATTCTGAA
Found at i:20143817 original size:22 final size:22
Alignment explanation
Indices: 20143767--20143811 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
20143757 TTTTATATTG
20143767 ATTA-ATATTGATTTAGAAAAT
1 ATTAGATATTGATTTAGAAAAT
*
20143788 ATTAGATATTGATTTA-ATAAT
1 ATTAGATATTGATTTAGAAAAT
20143809 ATT
1 ATT
20143812 CTGATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (22 bp):
ATTAGATATTGATTTAGAAAAT
Found at i:20143822 original size:111 final size:112
Alignment explanation
Indices: 20143694--20143917 Score: 285
Period size: 111 Copynumber: 2.0 Consensus size: 112
20143684 GATATTCTGG
* * * *
20143694 TAATATTCTAATAATATTCTAGATTG-TTTTCAATAATATTATCCTAGTAATATTCATG-TAATA
1 TAATATTCTAATAATATTCTAAATTGATTTT-AATAATACTATCCTAATAATATTC-CGATAATA
* * * *
20143757 TTTTATATTGA-TTAATATTGATTTAGAA-AATATTAGATATTGATTTAA
64 TTTTAAATTGATTTAATATTAATTTA-AATAATACTAAATATTGATTTAA
* * *
20143805 TAATATTCTGATAATATTTTAAATTGATTTTAATAATACTATTCTAATAATATTCCGATAATATT
1 TAATATTCTAATAATATTCTAAATTGATTTTAATAATACTATCCTAATAATATTCCGATAATATT
*
20143870 TTAAATTGATTTGATATTAATTTAAATAATACTAAATATTGATTTAA
66 TTAAATTGATTTAATATTAATTTAAATAATACTAAATATTGATTTAA
20143917 T
1 T
20143918 TGATTATAAG
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
110 1 0.01
111 61 0.63
112 35 0.36
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (112 bp):
TAATATTCTAATAATATTCTAAATTGATTTTAATAATACTATCCTAATAATATTCCGATAATATT
TTAAATTGATTTAATATTAATTTAAATAATACTAAATATTGATTTAA
Found at i:20145395 original size:5 final size:6
Alignment explanation
Indices: 20145380--20145404 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20145370 TTTGATTCAA
20145380 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
20145405 GCTTTTAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:20146085 original size:23 final size:24
Alignment explanation
Indices: 20146047--20146095 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
20146037 AGATTTTTTA
20146047 TTAAATAATATAAATT-AT-TATT
1 TTAAATAATATAAATTAATATATT
20146069 TTAAATTAAT-TAGAATTAATATATT
1 TTAAA-TAATATA-AATTAATATATT
20146094 TT
1 TT
20146096 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.30
23 8 0.35
24 2 0.09
25 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTAAATAATATAAATTAATATATT
Found at i:20147179 original size:16 final size:16
Alignment explanation
Indices: 20147158--20147193 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
20147148 GAATATTTCA
20147158 ATTAGTCTTGACAATG
1 ATTAGTCTTGACAATG
20147174 ATTAGTCTTGACAATG
1 ATTAGTCTTGACAATG
20147190 ATTA
1 ATTA
20147194 ACTCAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (16 bp):
ATTAGTCTTGACAATG
Found at i:20148152 original size:2 final size:2
Alignment explanation
Indices: 20148145--20148171 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20148135 AATTAAAATC
20148145 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
20148172 AATACAAAAG
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:20148809 original size:2 final size:2
Alignment explanation
Indices: 20148802--20148834 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
20148792 AAATTTTATG
20148802 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20148835 ACTTATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20149279 original size:2 final size:2
Alignment explanation
Indices: 20149266--20149321 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
20149256 TTAACCATAA
* * * *
20149266 AT AT AT AA AT AT AT AT CT AT AA AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20149308 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
20149322 TCCTTCTGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:20150418 original size:12 final size:12
Alignment explanation
Indices: 20150401--20150434 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
20150391 TGTGTTCATC
*
20150401 TCCAAACGTATA
1 TCCAAACATATA
20150413 TCCAAACATATA
1 TCCAAACATATA
20150425 TCCAAACATA
1 TCCAAACATA
20150435 CGTCCACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (12 bp):
TCCAAACATATA
Found at i:20153861 original size:22 final size:23
Alignment explanation
Indices: 20153836--20153883 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
20153826 TGATCATATA
* *
20153836 ATTTCTTATCATTATAA-ATGTT
1 ATTTATTATCAGTATAATATGTT
*
20153858 ATTTATTATTAGTATAATATGTT
1 ATTTATTATCAGTATAATATGTT
20153881 ATT
1 ATT
20153884 GTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.56
Consensus pattern (23 bp):
ATTTATTATCAGTATAATATGTT
Found at i:20161555 original size:16 final size:16
Alignment explanation
Indices: 20161534--20161569 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
20161524 AATTATCTTA
20161534 TATTATTATTGATTTG
1 TATTATTATTGATTTG
20161550 TATTATTATTGATTTG
1 TATTATTATTGATTTG
20161566 TATT
1 TATT
20161570 TAAAGGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (16 bp):
TATTATTATTGATTTG
Found at i:20161824 original size:15 final size:17
Alignment explanation
Indices: 20161804--20161844 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
20161794 TAAAATAAGA
20161804 TAATATTATT-TAAT-T
1 TAATATTATTATAATAT
20161819 TAATATTACTTATAATAT
1 TAATATTA-TTATAATAT
20161837 T-ATATTAT
1 TAATATTAT
20161845 CTTATCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 8 0.35
16 3 0.13
17 10 0.43
18 2 0.09
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATATTATTATAATAT
Found at i:20162873 original size:18 final size:18
Alignment explanation
Indices: 20162847--20162915 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 18
20162837 AGCATAATGT
*
20162847 TATTCATAAATAGTATTA
1 TATTAATAAATAGTATTA
*
20162865 TATTAATAAATAATATTATAATA
1 TATTAAT--A-AATAGTAT--TA
20162888 TATTAATAAATAGTATTA
1 TATTAATAAATAGTATTA
*
20162906 TATCAATAAA
1 TATTAATAAA
20162916 ACATATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 17 0.40
20 8 0.19
21 8 0.19
23 9 0.21
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
TATTAATAAATAGTATTA
Found at i:20162897 original size:41 final size:40
Alignment explanation
Indices: 20162847--20163057 Score: 147
Period size: 41 Copynumber: 5.3 Consensus size: 40
20162837 AGCATAATGT
*
20162847 TATTCATAAATAGTATTATATTAATAAATAATATTATAATA
1 TATTAATAAATA-TATTATATTAATAAATAATATTATAATA
* *
20162888 TATTAATAAATAGTATTATATCAATAAA-ACATATAATAATA
1 TATTAATAAATA-TATTATATTAATAAATA-ATATTATAATA
* *
20162929 TTATTAATTTAAT-TAATAAATATT-AT-AATAATA-TATGAATA
1 -TATTAA-TAAATAT-AT-TATATTAATAAATAATATTAT-AATA
* * * * *
20162970 -AATAATAAAT-TATTAATAAATAATAACTATTAATATAATA
1 TATTAATAAATATATT-AT-ATTAATAAATAATATTATAATA
*
20163010 TATTACT-AA-ATA-T-TATTAATAAATAATATTATAATA
1 TATTAATAAATATATTATATTAATAAATAATATTATAATA
*
20163046 TCTTAATAAATA
1 TATTAATAAATA
20163058 ATATAAAGAA
Statistics
Matches: 133, Mismatches: 21, Indels: 35
0.70 0.11 0.19
Matches are distributed among these distances:
36 23 0.17
37 7 0.05
38 8 0.06
39 7 0.05
40 16 0.12
41 53 0.40
42 11 0.08
43 8 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (40 bp):
TATTAATAAATATATTATATTAATAAATAATATTATAATA
Found at i:20162976 original size:30 final size:33
Alignment explanation
Indices: 20162919--20162994 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
20162909 CAATAAAACA
* *
20162919 TATAATAATATTATTAATTTAATTAATAAA-TAT
1 TATAATAATATTATGAA-TTAAATAATAAATTAT
20162952 TATAATAATA-TATGAA-TAAATAATAAATTAT
1 TATAATAATATTATGAATTAAATAATAAATTAT
20162983 TAATAAATAATA
1 T-AT-AATAATA
20162995 ACTATTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
30 10 0.26
31 4 0.11
32 7 0.18
33 17 0.45
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (33 bp):
TATAATAATATTATGAATTAAATAATAAATTAT
Found at i:20163009 original size:18 final size:17
Alignment explanation
Indices: 20162864--20163060 Score: 84
Period size: 18 Copynumber: 12.0 Consensus size: 17
20162854 AAATAGTATT
20162864 ATATTAATA-AATAATA
1 ATATTAATATAATAATA
* *
20162880 TTA-TAATATATTAATAA
1 ATATTAATATAATAAT-A
* *
20162897 ATAGTATTAT-ATCAATA
1 ATATTAATATAAT-AATA
20162914 A-A--ACATATAATAATA
1 ATATTA-ATATAATAATA
* *
20162929 TTATTAATTTAATTAATA
1 ATATTAATATAA-TAATA
*
20162947 A-A-TATTATAATAAT-
1 ATATTAATATAATAATA
*
20162961 ATATGAATA-AATAATAA
1 ATATTAATATAATAAT-A
20162978 ATTATTAATA-AATAATA
1 A-TATTAATATAATAATA
20162995 ACTATTAATATAAT-ATA
1 A-TATTAATATAATAATA
* * *
20163012 TTACTAAATATTATTAATA
1 ATA-TTAATA-TAATAATA
*
20163031 A-A-TAATATTATAAT-
1 ATATTAATATAATAATA
*
20163045 ATCTTAATA-AATAATA
1 ATATTAATATAATAATA
20163061 TAAAGAATAA
Statistics
Matches: 135, Mismatches: 24, Indels: 44
0.67 0.12 0.22
Matches are distributed among these distances:
14 3 0.02
15 33 0.24
16 31 0.23
17 31 0.23
18 34 0.25
19 3 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (17 bp):
ATATTAATATAATAATA
Found at i:20163028 original size:26 final size:26
Alignment explanation
Indices: 20162989--20163062 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
20162979 TTATTAATAA
*
20162989 ATAATA-ACTATTAATATAATATATT
1 ATAATATATTATTAATATAATATATT
20163014 ACTAA-ATATTATTAATA-AATAATATT
1 A-TAATATATTATTAATATAAT-ATATT
* *
20163040 ATAATATCTTAATAA-ATAATATA
1 ATAATATATTATTAATATAATATA
20163063 AAGAATAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
25 12 0.29
26 29 0.71
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
ATAATATATTATTAATATAATATATT
Found at i:20163120 original size:19 final size:18
Alignment explanation
Indices: 20163093--20163180 Score: 76
Period size: 19 Copynumber: 4.9 Consensus size: 18
20163083 TTTTAAGTAT
*
20163093 TTTTTATATTAACATAATA
1 TTTTAATATTAA-ATAATA
20163112 TTTTAATATTAAATAATA
1 TTTTAATATTAAATAATA
* * *
20163130 TTATTAA-AATATAATTATT
1 TT-TTAATATTA-AATAATA
20163149 TTTTAATATT-AAT-A-A
1 TTTTAATATTAAATAATA
*
20163164 TTTTAATAATAAATAAT
1 TTTTAATATTAAATAAT
20163181 TTCAATATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
15 9 0.16
16 4 0.07
17 4 0.07
18 15 0.27
19 24 0.43
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAATATTAAATAATA
Found at i:20163169 original size:9 final size:9
Alignment explanation
Indices: 20163152--20163221 Score: 60
Period size: 9 Copynumber: 8.2 Consensus size: 9
20163142 AATTATTTTT
*
20163152 TAATATTAA
1 TAATTTTAA
20163161 TAATTTTAA
1 TAATTTTAA
*
20163170 TAA--TAAA
1 TAATTTTAA
*
20163177 TAATTTCAA
1 TAATTTTAA
20163186 TATATTTTAA
1 TA-ATTTTAA
*
20163196 TAA--TAAA
1 TAATTTTAA
20163203 TAATTTTAA
1 TAATTTTAA
20163212 T-ATTTTAA
1 TAATTTTAA
20163220 TA
1 TA
20163222 GTTATATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
7 12 0.24
8 8 0.16
9 21 0.43
10 8 0.16
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (9 bp):
TAATTTTAA
Found at i:20163178 original size:16 final size:16
Alignment explanation
Indices: 20163149--20163213 Score: 63
Period size: 16 Copynumber: 4.5 Consensus size: 16
20163139 TATAATTATT
*
20163149 TTTTAAT-ATTAATAA
1 TTTTAATAATAAATAA
20163164 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
*
20163180 -TTT--CAAT--AT-A
1 TTTTAATAATAAATAA
20163190 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
20163206 TTTTAATA
1 TTTTAATA
20163214 TTTTAATAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
10 1 0.03
11 5 0.12
13 6 0.15
15 12 0.30
16 16 0.40
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTAATAATAAATAA
Found at i:20163192 original size:26 final size:25
Alignment explanation
Indices: 20163152--20163221 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 25
20163142 AATTATTTTT
20163152 TAATATTAATA-ATTTTAATAATAAA
1 TAAT-TTAATATATTTTAATAATAAA
20163177 TAATTTCAATATATTTTAATAATAAA
1 TAATTT-AATATATTTTAATAATAAA
*
20163203 TAATTTTA-ATATTTTAATA
1 TAATTTAATATATTTTAATA
20163222 GTTATATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
24 13 0.31
25 9 0.21
26 20 0.48
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
TAATTTAATATATTTTAATAATAAA
Found at i:20165934 original size:14 final size:14
Alignment explanation
Indices: 20165917--20165946 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
20165907 CACACGCGCG
20165917 CACACACACATACA
1 CACACACACATACA
20165931 CACACACACATACA
1 CACACACACATACA
20165945 CA
1 CA
20165947 AACAAGGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (14 bp):
CACACACACATACA
Found at i:20168761 original size:17 final size:17
Alignment explanation
Indices: 20168702--20168776 Score: 50
Period size: 17 Copynumber: 4.4 Consensus size: 17
20168692 TTTTTTCAGA
20168702 ATTAATT-TAAATTAA-
1 ATTAATTATAAATTAAT
**
20168717 AAAAATTCATAAATCTAGAT
1 ATTAATT-ATAAAT-TA-AT
20168737 ATGT-ATTAGTAAA-TAAT
1 AT-TAATTA-TAAATTAAT
*
20168754 ATTAATTATAAATTTAT
1 ATTAATTATAAATTAAT
20168771 ATTAAT
1 ATTAAT
20168777 ATTTTCTTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
15 5 0.11
16 5 0.11
17 22 0.48
18 4 0.09
19 2 0.04
20 8 0.17
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.43
Consensus pattern (17 bp):
ATTAATTATAAATTAAT
Found at i:20169677 original size:20 final size:20
Alignment explanation
Indices: 20169652--20169689 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20169642 TATCATTTAT
20169652 TTTTATTTGAAAGATTATAA
1 TTTTATTTGAAAGATTATAA
* *
20169672 TTTTATTTTAAAGTTTAT
1 TTTTATTTGAAAGATTAT
20169690 TTAAAAAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTTATTTGAAAGATTATAA
Found at i:20169756 original size:19 final size:19
Alignment explanation
Indices: 20169720--20169758 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20169710 AATATAAATA
20169720 TTTTAAAAATATTATTTAT
1 TTTTAAAAATATTATTTAT
*
20169739 TTTTATAAAAT-TTTTTTAT
1 TTTTA-AAAATATTATTTAT
20169758 T
1 T
20169759 ATGAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTAAAAATATTATTTAT
Found at i:20171793 original size:16 final size:15
Alignment explanation
Indices: 20171766--20171801 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
20171756 ATAATTAAAA
20171766 AATAATTATAAAATT
1 AATAATTATAAAATT
20171781 AATAATATATAAAATT
1 AATAAT-TATAAAATT
20171797 AATAA
1 AATAA
20171802 AAAATGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATTATAAAATT
Found at i:20171811 original size:16 final size:16
Alignment explanation
Indices: 20171773--20171822 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
20171763 AAAAATAATT
* *
20171773 ATAAAATTAATAATAT
1 ATAAAATTAATAAAAA
20171789 ATAAAATTAATAAAAA
1 ATAAAATTAATAAAAA
*
20171805 ATGAAATGTTAATAAAAA
1 AT-AAA-ATTAATAAAAA
20171823 TGATTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 16 0.55
17 3 0.10
18 10 0.34
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (16 bp):
ATAAAATTAATAAAAA
Found at i:20171907 original size:28 final size:26
Alignment explanation
Indices: 20171852--20171916 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
20171842 GATCGAAAAT
* **
20171852 AATTAATAAAAAATGTATATATGTAA
1 AATTAATAAAAAATCTATATACATAA
20171878 AATTAATAAAAAATCTATATTCACATAA
1 AATTAATAAAAAATCTATA-T-ACATAA
*
20171906 AAAT-ATAAAAA
1 AATTAATAAAAA
20171917 TGATTTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 18 0.55
27 8 0.24
28 7 0.21
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (26 bp):
AATTAATAAAAAATCTATATACATAA
Found at i:20172044 original size:24 final size:22
Alignment explanation
Indices: 20172002--20172056 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
20171992 TTCTTTTTTA
20172002 TTTAATAAA-GATTAATTATTAT
1 TTTAATAAATGATTAATTA-TAT
*
20172024 ATATTAATAAATGA-TATTTATAT
1 -T-TTAATAAATGATTAATTATAT
20172047 TTTAATAAAT
1 TTTAATAAAT
20172057 TTAAATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 9 0.31
22 1 0.03
23 4 0.14
24 13 0.45
25 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTAATAAATGATTAATTATAT
Found at i:20174807 original size:14 final size:14
Alignment explanation
Indices: 20174788--20174838 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
20174778 GTAGTGTGAG
20174788 TTTTGATCCTTTGA
1 TTTTGATCCTTTGA
* *
20174802 TTTTGAATACGTGTGA
1 TTTTG-AT-CCTTTGA
20174818 GTTTTGATCCTTTGA
1 -TTTTGATCCTTTGA
20174833 TTTTGA
1 TTTTGA
20174839 ATACAAGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 11 0.37
15 7 0.23
16 7 0.23
17 5 0.17
ACGTcount: A:0.18, C:0.10, G:0.20, T:0.53
Consensus pattern (14 bp):
TTTTGATCCTTTGA
Found at i:20174816 original size:31 final size:31
Alignment explanation
Indices: 20174781--20174842 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
20174771 CTCTCTTGTA
20174781 GTGTGAGTTTTGATCCTTTGATTTTGAATAC
1 GTGTGAGTTTTGATCCTTTGATTTTGAATAC
20174812 GTGTGAGTTTTGATCCTTTGATTTTGAATAC
1 GTGTGAGTTTTGATCCTTTGATTTTGAATAC
20174843 AAGTTTTGAT
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:0.19, C:0.10, G:0.23, T:0.48
Consensus pattern (31 bp):
GTGTGAGTTTTGATCCTTTGATTTTGAATAC
Found at i:20176420 original size:3 final size:3
Alignment explanation
Indices: 20176412--20176481 Score: 108
Period size: 3 Copynumber: 24.0 Consensus size: 3
20176402 AATAATGTTT
* *
20176412 TAA TAA TAA AAA TAA AAA T-A TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20176458 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
20176482 AGGAACATAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 4 0.07
3 57 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:20180151 original size:22 final size:22
Alignment explanation
Indices: 20180101--20180142 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
20180091 TGATAGTGAG
*
20180101 ATAAGGAAATAAAAATAATGAA
1 ATAATGAAATAAAAATAATGAA
20180123 ATAATGAAATAAAAA-AATGA
1 ATAATGAAATAAAAATAATGA
20180143 CACATATGAG
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:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAATGAAATAAAAATAATGAA
Found at i:20182786 original size:17 final size:16
Alignment explanation
Indices: 20182742--20182786 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
20182732 AATATTTAAT
* *
20182742 ACTTTTTAATTTGAAC
1 ACTTTCTAATTTGAAA
20182758 ACTTTCTAATTTGAAA
1 ACTTTCTAATTTGAAA
20182774 ACTTTCATAATTT
1 ACTTTC-TAATTT
20182787 ATTAATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 20 0.77
17 6 0.23
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.49
Consensus pattern (16 bp):
ACTTTCTAATTTGAAA
Found at i:20183081 original size:22 final size:22
Alignment explanation
Indices: 20183023--20183085 Score: 55
Period size: 23 Copynumber: 3.0 Consensus size: 22
20183013 ACCAAAAATT
20183023 TAAATATTATT--TTATTAAAAA
1 TAAATATTATTAATT-TTAAAAA
*
20183044 T-AATATT-TTAATATTTTAATAA
1 TAAATATTATT-A-ATTTTAAAAA
20183066 TAAATATTATTAA-TTTAAAA
1 TAAATATTATTAATTTTAAAA
20183086 TTTTATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
19 2 0.06
20 6 0.18
21 7 0.21
22 8 0.24
23 9 0.26
24 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATATTATTAATTTTAAAAA
Found at i:20183313 original size:26 final size:25
Alignment explanation
Indices: 20183265--20183320 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
20183255 TTTATGAAAC
20183265 TTGATATGGTTATGGTAAAAAAAAA
1 TTGATATGGTTATGGTAAAAAAAAA
* *
20183290 TTGATATGGCTTAT-TTAAACAAAAA
1 TTGATATGG-TTATGGTAAAAAAAAA
20183315 TT-ATAT
1 TTGATAT
20183321 AGGTAATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.14
25 20 0.71
26 4 0.14
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.38
Consensus pattern (25 bp):
TTGATATGGTTATGGTAAAAAAAAA
Found at i:20186817 original size:87 final size:86
Alignment explanation
Indices: 20186669--20186958 Score: 262
Period size: 87 Copynumber: 3.4 Consensus size: 86
20186659 TTATAAACAA
* * * * * * * * *
20186669 AGGCTCAA-AACTTTAGAAAATTTAAAAGGTTCCTCTTATCAGAA-GCTCAATAATTTTGAAAAA
1 AGGCTCAACAACTTTAAAAAATTTAAAAAGCTCTTCTCATCA-AAGGCTTAACAACTTCGAAAAA
* * *
20186732 CTTAAAAGACTCCTCTCATCAT
65 TTTAAAAGACTCCTCTTATCAG
* * * *
20186754 AGGCTCGATAATTTTAAAAAAATTTAAAAAGCTCTTCTCATCAAAGGTTTAA-AACCTTCGAAAA
1 AGGCTCAACAACTTT-AAAAAATTTAAAAAGCTCTTCTCATCAAAGGCTTAACAA-CTTCGAAAA
* * * *
20186818 ATTTAAAATACTCATTTTATAAG
64 ATTTAAAAGACTCCTCTTATCAG
* * ** **
20186841 AGGCTCAACAACTTTAAAAGATTTTAAAAGCTCTTCTTGTCAAAGGCTTAACAACTTTTAAAAAT
1 AGGCTCAACAACTTTAAAAAATTTAAAAAGCTCTTCTCATCAAAGGCTTAACAACTTCGAAAAAT
* *
20186906 TATAAAAGGCTTCTCTTATCAG
66 T-TAAAAGACTCCTCTTATCAG
*
20186928 AGACTCAACAACTTTAAAAAATTTAAAAAGC
1 AGGCTCAACAACTTTAAAAAATTTAAAAAGC
20186959 ATATCTCATA
Statistics
Matches: 162, Mismatches: 37, Indels: 10
0.78 0.18 0.05
Matches are distributed among these distances:
85 7 0.04
86 50 0.31
87 105 0.65
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (86 bp):
AGGCTCAACAACTTTAAAAAATTTAAAAAGCTCTTCTCATCAAAGGCTTAACAACTTCGAAAAAT
TTAAAAGACTCCTCTTATCAG
Found at i:20186894 original size:43 final size:42
Alignment explanation
Indices: 20186666--20186955 Score: 150
Period size: 43 Copynumber: 6.7 Consensus size: 42
20186656 CTTTTATAAA
*
20186666 CAAAGGCTCAA-AACTTTAGAAAA-TTTAAAAGGTTCCTCTTAT
1 CAAAGGCTCAACAACTTTA-AAAATTTTAAAAGCTT-CTCTTAT
* * * * *
20186708 CAGAA-GCTCAATAATTTTGAAAAA-CTTAAAAGACTCCTCTCAT
1 CA-AAGGCTCAACAACTTT-AAAAATTTTAAAAG-CTTCTCTTAT
* * * * * *
20186751 CATAGGCTCGATAATTTTAAAAAAATTTAAAAAGC-TCTTCTCAT
1 CAAAGGCTCAACAACTTT--AAAAATTTTAAAAGCTTC-TCTTAT
* * * * *
20186795 CAAAGGTTTAA-AACCTTCGAAAAA-TTTAAAATAC-TCATTTTAT
1 CAAAGGCTCAACAA-CTT-TAAAAATTTTAAAA-GCTTC-TCTTAT
*
20186838 -AAGAGGCTCAACAACTTTAAAAGATTTTAAAAGC-TCTTCTTGT
1 CAA-AGGCTCAACAACTTTAAAA-ATTTTAAAAGCTTC-TCTTAT
* *
20186881 CAAAGGCTTAACAACTTTTAAAAATTATAAAAGGCTTCTCTTAT
1 CAAAGGCTCAACAAC-TTTAAAAATTTTAAAA-GCTTCTCTTAT
* * *
20186925 CAGAGACTCAACAACTTTAAAAAATTTAAAA
1 CAAAGGCTCAACAACTTTAAAAATTTTAAAA
20186956 AGCATATCTC
Statistics
Matches: 192, Mismatches: 37, Indels: 37
0.72 0.14 0.14
Matches are distributed among these distances:
42 21 0.11
43 103 0.54
44 60 0.31
45 8 0.04
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (42 bp):
CAAAGGCTCAACAACTTTAAAAATTTTAAAAGCTTCTCTTAT
Found at i:20187169 original size:44 final size:44
Alignment explanation
Indices: 20187029--20187234 Score: 149
Period size: 42 Copynumber: 4.8 Consensus size: 44
20187019 ACAACTTTTG
* * * *
20187029 AAATTTGAAAATGCTCCTCTAACTAGAGATATT-AAAACTTT-A
1 AAATTTAAAAAGGCTTCTCTAACTAGAGGTATTGAAAACTTTAA
* * * * * *** *
20187071 GAATTTGAAAAGGCTCCTCTAAGTAGAGGCA--CCCAACATT-A
1 AAATTTAAAAAGGCTTCTCTAACTAGAGGTATTGAAAACTTTAA
* ** *
20187112 AATTTTGGAAAGGCTTCTCTAACTAGAGGTATTGAAGA-TTTAA
1 AAATTTAAAAAGGCTTCTCTAACTAGAGGTATTGAAAACTTTAA
*
20187155 AAATTTAAAAAAGGCTTATCTAACT-GAGGTATT-AAAACTTTAA
1 AAATTT-AAAAAGGCTTCTCTAACTAGAGGTATTGAAAACTTTAA
* * * *
20187198 AAATTTGAAAAGGCTTCCCTAACTAGACGCATTGAAA
1 AAATTTAAAAAGGCTTCTCTAACTAGAGGTATTGAAA
20187235 CTGTTGAAAA
Statistics
Matches: 127, Mismatches: 29, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
41 31 0.24
42 46 0.36
43 32 0.25
44 18 0.14
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.30
Consensus pattern (44 bp):
AAATTTAAAAAGGCTTCTCTAACTAGAGGTATTGAAAACTTTAA
Found at i:20187198 original size:43 final size:43
Alignment explanation
Indices: 20187120--20187234 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
20187110 TAAATTTTGG
* *
20187120 AAAGGCTTCTCTAACTAGAGGTATTGAAGATTTAAAAATTTAAA
1 AAAGGCTTATCTAACTAGAGGTATTGAAAATTTAAAAATTT-AA
*
20187164 AAAGGCTTATCTAACT-GAGGTATT-AAAACTTTAAAAATTTGA
1 AAAGGCTTATCTAACTAGAGGTATTGAAAA-TTTAAAAATTTAA
** * *
20187206 AAAGGCTTCCCTAACTAGACGCATTGAAA
1 AAAGGCTTATCTAACTAGAGGTATTGAAA
20187235 CTGTTGAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
42 18 0.30
43 25 0.41
44 18 0.30
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.30
Consensus pattern (43 bp):
AAAGGCTTATCTAACTAGAGGTATTGAAAATTTAAAAATTTAA
Found at i:20187353 original size:44 final size:45
Alignment explanation
Indices: 20187233--20187390 Score: 180
Period size: 44 Copynumber: 3.6 Consensus size: 45
20187223 GACGCATTGA
* * * *
20187233 AACTGTTGAAAAA-TATGAAAGGCTTTTTTTATCAGAGGCTCAAC
1 AACTTTTGAAAAATTATAAAAGGCTTTTCTCATCAGAGGCTCAAC
**
20187277 AACTTTTTGAAAAATTATCAAAA-GCTCCTCTCATCAGAGGCTCAAC
1 AAC-TTTTGAAAAATTAT-AAAAGGCTTTTCTCATCAGAGGCTCAAC
* * *
20187323 AACTTAT-AAAAATTATAAAAGGCTTTTCTCATCAAAGGCTTAA-
1 AACTTTTGAAAAATTATAAAAGGCTTTTCTCATCAGAGGCTCAAC
*
20187366 AAATTTTGAAAAATTATAAAAGGCT
1 AACTTTTGAAAAATTATAAAAGGCT
20187391 CCTTAGCCAA
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
43 9 0.09
44 47 0.49
45 12 0.12
46 25 0.26
47 3 0.03
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (45 bp):
AACTTTTGAAAAATTATAAAAGGCTTTTCTCATCAGAGGCTCAAC
Done.