Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, 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: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 51
Found at i:1862526 original size:12 final size:11
Alignment explanation
Indices: 1862490--1862528 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
1862480 TTTCAAAAAC
*
1862490 TATAATATATA
1 TATATTATATA
1862501 T-TATTATATA
1 TATATTATATA
1862511 TATATTATCATA
1 TATATTAT-ATA
1862523 TATATT
1 TATATT
1862529 GAATAAACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 9 0.36
11 7 0.28
12 9 0.36
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (11 bp):
TATATTATATA
Found at i:1866247 original size:23 final size:23
Alignment explanation
Indices: 1866217--1866269 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
1866207 CCATGAGCAT
1866217 ATTCACAATTTGTTTTGATGGTG
1 ATTCACAATTTGTTTTGATGGTG
1866240 ATTCACAATTTGTTTTGATGGTG
1 ATTCACAATTTGTTTTGATGGTG
1866263 ATTCACA
1 ATTCACA
1866270 CAAGTTGCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (23 bp):
ATTCACAATTTGTTTTGATGGTG
Found at i:1875223 original size:33 final size:33
Alignment explanation
Indices: 1875186--1875270 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 33
1875176 CATCCATTGT
* *
1875186 TGAAGAGGCATGACTTGAGATGACA-CCTTTTG
1 TGAAGAGGCATGACTTGAAATGACACCCTTTAG
**
1875218 ATGAAGAGGCATGACTAAAAATGACACCCTTTAG
1 -TGAAGAGGCATGACTTGAAATGACACCCTTTAG
* *
1875252 TGAAAAGGCGTGACTTGAA
1 TGAAGAGGCATGACTTGAA
1875271 GAGACATAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 37 0.86
34 6 0.14
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (33 bp):
TGAAGAGGCATGACTTGAAATGACACCCTTTAG
Found at i:1885971 original size:20 final size:20
Alignment explanation
Indices: 1885946--1885984 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1885936 AAAGCCTATA
1885946 TAGGATCATATAGATGCATT
1 TAGGATCATATAGATGCATT
*
1885966 TAGGATCATATAGTTGCAT
1 TAGGATCATATAGATGCAT
1885985 GTGGTGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (20 bp):
TAGGATCATATAGATGCATT
Found at i:1900271 original size:158 final size:151
Alignment explanation
Indices: 1900026--1900335 Score: 514
Period size: 158 Copynumber: 2.0 Consensus size: 151
1900016 GACATATCAT
1900026 CTTCGTAATTAACTTTAGTATTACATCTTTGTCTTATATCTATAATAGGCACAAGTCTTATTCAC
1 CTTCGTAATTAACTTTAGTATTACATCTTTGTCTTATATCTATAATAGGCACAAGTCTTATTCAC
1900091 ACTTGTATAGCCCATCTATTTTTTCTTGATATCTAGAGTAGACTATAATTAACGAGTAATTTGTG
66 ACTTGTATAGCCCATCTATTTTTTCTTGATATCTAGAGTAGACTATAATTAACGAGTAATTTGTG
1900156 -ATCAAATATCAACTTTTTCG
131 AATCAAATATCAACTTTTTCG
*
1900176 CTTCGTAATTAACTCTTTTGTATTACATCTTTGTCATTATATCTATAATAGGCACAAGTCTTAGA
1 CTTCGTAATTAA--CTTTAGTATTACATCTTTGTC-TTATATCTATAATAGGCACAAGTCTT---
1900241 ATAGTCACACTTGTATAGCCCATCTATTTTTTCTTGATATCTAGAGTAGACTATAATTAACGAGT
60 AT--TCACACTTGTATAGCCCATCTATTTTTTCTTGATATCTAGAGTAGACTATAATTAACGAGT
*
1900306 AATTTGTGATATCACATATCAACTTTTTCG
123 AATTTGTGA-ATCAAATATCAACTTTTTCG
1900336 AGCATGGCCA
Statistics
Matches: 148, Mismatches: 2, Indels: 10
0.93 0.01 0.06
Matches are distributed among these distances:
150 12 0.08
152 20 0.14
153 26 0.18
156 2 0.01
158 69 0.47
160 19 0.13
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (151 bp):
CTTCGTAATTAACTTTAGTATTACATCTTTGTCTTATATCTATAATAGGCACAAGTCTTATTCAC
ACTTGTATAGCCCATCTATTTTTTCTTGATATCTAGAGTAGACTATAATTAACGAGTAATTTGTG
AATCAAATATCAACTTTTTCG
Found at i:1901406 original size:34 final size:35
Alignment explanation
Indices: 1901359--1901433 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 35
1901349 ATAGCTAAAA
*
1901359 AAAATCGTCTTTATTCGAATTTTGCC-AAAATAGC
1 AAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1901393 AAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1901428 AAAATC
1 AAAATC
1901434 CCGAAAATCA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 25 0.64
35 14 0.36
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (35 bp):
AAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:1905678 original size:13 final size:13
Alignment explanation
Indices: 1905660--1905686 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1905650 CACGGTGCTC
1905660 CCGGAATCCTGCG
1 CCGGAATCCTGCG
1905673 CCGGAATCCTGCG
1 CCGGAATCCTGCG
1905686 C
1 C
1905687 GATTGTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.41, G:0.30, T:0.15
Consensus pattern (13 bp):
CCGGAATCCTGCG
Found at i:1906098 original size:35 final size:36
Alignment explanation
Indices: 1906057--1906131 Score: 134
Period size: 35 Copynumber: 2.1 Consensus size: 36
1906047 TTATAGCTAA
*
1906057 AAAAATCGTCTTTATTCGAATTTTGCC-AAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1906092 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1906128 AAAA
1 AAAA
1906132 TCCCGAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 26 0.68
36 12 0.32
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:1916581 original size:81 final size:81
Alignment explanation
Indices: 1916475--1916964 Score: 629
Period size: 81 Copynumber: 6.0 Consensus size: 81
1916465 CTTTTAGCCT
* * * * *
1916475 TTAATCTTTTAGTCGAAGGTGTTTAACCTTTCATATAACTGGCATAATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAA
* *
1916540 ATACATAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * *
1916556 TTAATCTTTTACTCAAAGGTATTTAACCTTTCAACTAACTTGCATGATTGACACTTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAA
*
1916621 ATGCACATCTAGGCCA
66 ATGCACAGCTAGGCCA
* * * * * * * *
1916637 TTAATATTTTACTCAAAAGTATTTAACCTTTCATCTAACTAGAATAACTAACACATTTCTACCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAA
* * *
1916702 ATACACATCTAGGCTA
66 ATGCACAGCTAGGCCA
* * * * * * *
1916718 TTAATTTTTTACTCAAAGCTATTTAACATTGCATCTAACTGACATAATTAACACTTTTATGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAA
* *
1916783 ATGCACTGCTAGGTCA
66 ATGCACAGCTAGGCCA
* *
1916799 TTAATCTTTTATTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTACCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAA
* *
1916864 ATGCACAACTAAGCCA
66 ATGCACAGCTAGGCCA
* * * *
1916880 CTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGAATAATTGACACATTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAA
1916945 ATGCACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
1916961 TTAA
1 TTAA
1916965 GTTTTATACT
Statistics
Matches: 347, Mismatches: 62, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 347 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAA
ATGCACAGCTAGGCCA
Found at i:1917295 original size:12 final size:12
Alignment explanation
Indices: 1917278--1917312 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
1917268 CTTTCTTATA
1917278 CATTTTTCTTTT
1 CATTTTTCTTTT
1917290 CATTTTTCTTTT
1 CATTTTTCTTTT
1917302 CATTTTTCTTT
1 CATTTTTCTTT
1917313 AGTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (12 bp):
CATTTTTCTTTT
Found at i:1917416 original size:26 final size:26
Alignment explanation
Indices: 1917361--1917425 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
1917351 TGCCTTAATG
* ***
1917361 CATCCTTTCATTCATTTCATTCTTGG
1 CATCCTTTCATGCATTTCATTCTCAA
1917387 CATCCTTTCATGCATTTCATT-TACAA
1 CATCCTTTCATGCATTTCATTCT-CAA
*
1917413 CATCATTTCATGC
1 CATCCTTTCATGC
1917426 CTTAATGCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 1 0.03
26 32 0.97
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.45
Consensus pattern (26 bp):
CATCCTTTCATGCATTTCATTCTCAA
Found at i:1917507 original size:20 final size:20
Alignment explanation
Indices: 1917458--1917556 Score: 90
Period size: 20 Copynumber: 4.7 Consensus size: 20
1917448 TTCACTTATG
* *
1917458 GCATCCTTTCATATCTTCAT
1 GCATCCTTTCATGTCTTAAT
**
1917478 GCATTATTTCATGTCTTAAT
1 GCATCCTTTCATGTCTTAAT
*
1917498 GCATCCTTTCATGCATTTCATTTAT
1 GCATCCTTTCATG----TC-TTAAT
*
1917523 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGTCTTAAT
1917544 GCATCCTTTCATG
1 GCATCCTTTCATG
1917557 GATATTTAGT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
20 40 0.62
21 4 0.06
22 1 0.02
24 2 0.03
25 4 0.06
26 13 0.20
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGTCTTAAT
Found at i:1917546 original size:66 final size:66
Alignment explanation
Indices: 1917346--1917556 Score: 237
Period size: 66 Copynumber: 3.1 Consensus size: 66
1917336 TATGGCACCC
*
1917346 TTTCATGCCTTAATGCATCCTTTCATTCATTTCATTCT-TGGCATCCTTTCATGCATTTCATTTA
1 TTTCATGCCTTAATGCATCCTTTCATACATTTCATT-TATGGCATCCTTTCATGC----C--TTA
*
1917410 CA-ACATCA
59 -ATGCATCA
* * ** * *
1917418 TTTCATGCCTTAATGCATCCTTTTATACATTTCACTTATGGCATCCTTTCATATCTTCATGCATT
1 TTTCATGCCTTAATGCATCCTTTCATACATTTCATTTATGGCATCCTTTCATGCCTTAATGCATC
1917483 A
66 A
* *
1917484 TTTCATGTCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATC
1 TTTCATGCCTTAATGCATCCTTTCATACATTTCATTTATGGCATCCTTTCATGCCTTAATGCATC
*
1917549 C
66 A
1917550 TTTCATG
1 TTTCATG
1917557 GATATTTAGT
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
65 1 0.01
66 70 0.58
68 1 0.01
71 1 0.01
72 47 0.39
ACGTcount: A:0.21, C:0.25, G:0.09, T:0.45
Consensus pattern (66 bp):
TTTCATGCCTTAATGCATCCTTTCATACATTTCATTTATGGCATCCTTTCATGCCTTAATGCATC
A
Found at i:1918024 original size:19 final size:21
Alignment explanation
Indices: 1917979--1918033 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
1917969 GTACCCCTAC
*
1917979 CATGGTATCGATACTACTATA
1 CATGGTATCGATACTACAATA
*
1918000 CTATGGTACCGATACT-CAAT-
1 C-ATGGTATCGATACTACAATA
1918020 CATGGTATCGATAC
1 CATGGTATCGATAC
1918034 CATTTCTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 12 0.40
20 1 0.03
21 4 0.13
22 13 0.43
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (21 bp):
CATGGTATCGATACTACAATA
Found at i:1931362 original size:41 final size:40
Alignment explanation
Indices: 1931297--1931472 Score: 181
Period size: 41 Copynumber: 4.3 Consensus size: 40
1931287 AGATAATGTA
*
1931297 TAGTGGCATTTTTTTGACAAACGCCGCTATAGACTCGTACTT
1 TAGTGGCA-TTTTAT-ACAAACGCCGCTATAGACTCGTACTT
*
1931339 TAGTGGCATCTGTATACAAACGCCGCTATAGACTCGTACTT
1 TAGTGGCAT-TTTATACAAACGCCGCTATAGACTCGTACTT
* **** * * *
1931380 TAGTGGCGTTTTTATACAAAAATTGCAATAGACTTGTATTT
1 TAGTGGC-ATTTTATACAAACGCCGCTATAGACTCGTACTT
* * * * *
1931421 TAGTGTCGTTTTAAACAAACGCCGCTAAAGACTCATACTT
1 TAGTGGCATTTTATACAAACGCCGCTATAGACTCGTACTT
1931461 TAGTGGCATTTT
1 TAGTGGCATTTT
1931473 TGTTTACAAC
Statistics
Matches: 107, Mismatches: 25, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
40 32 0.30
41 63 0.59
42 12 0.11
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (40 bp):
TAGTGGCATTTTATACAAACGCCGCTATAGACTCGTACTT
Found at i:1934703 original size:43 final size:42
Alignment explanation
Indices: 1934599--1934867 Score: 283
Period size: 43 Copynumber: 6.3 Consensus size: 42
1934589 AAGATAATTA
*
1934599 GCGGTGTTTGTATCCAAAAATGCCGCTATAGATATGACCTTTT
1 GCGGTGTTTGT-TCCAAAAATGCCGCTATAGATCTGACCTTTT
* * * * * * * *
1934642 ACAGCGTTTATTCAAAAAATGCCACTATAAATCTATACCTTTT
1 GCGGTGTTTGTTCCAAAAATGCCGCTATAGATCT-GACCTTTT
*
1934685 GCGGTGTTTGTTCCAAAAATGCTGCTATAGATCTGACCTTTT
1 GCGGTGTTTGTTCCAAAAATGCCGCTATAGATCTGACCTTTT
* * *
1934727 GCAGTGTTTGTAT-AAAAAATGTCGCTATAGATCTGACCTTTAAT
1 GCGGTGTTTGT-TCCAAAAATGCCGCTATAGATCTGACCTTT--T
** * *
1934771 G-GG-GTTTGTTCCAAAAACACCGTTATATATCTCGACCTTTT
1 GCGGTGTTTGTTCCAAAAATGCCGCTATAGATCT-GACCTTTT
*
1934812 GCGGCGTTTGTTCCAAAAATGCCGCTATAGATCTCGACCTTTT
1 GCGGTGTTTGTTCCAAAAATGCCGCTATAGATCT-GACCTTTT
*
1934855 GCTGTGTTTGTTC
1 GCGGTGTTTGTTC
1934868 TACAAACACC
Statistics
Matches: 183, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
41 3 0.02
42 84 0.46
43 94 0.51
44 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (42 bp):
GCGGTGTTTGTTCCAAAAATGCCGCTATAGATCTGACCTTTT
Found at i:1934712 original size:85 final size:84
Alignment explanation
Indices: 1934599--1934867 Score: 310
Period size: 85 Copynumber: 3.2 Consensus size: 84
1934589 AAGATAATTA
* * *
1934599 GCGGTGTTTGTATCCAAAAATGCCGCTATAGATATGACCTTTTACAGCGTTTATTCAAAAAATGC
1 GCGGTGTTTGT-TCCAAAAATGCCGCTATAGATCTGACCTTTTGCAGCGTTTGTTCAAAAAATGC
* * *
1934664 CACTATAAATCTATACCTTTT
65 CGCTATAGATCT-GACCTTTT
* * *
1934685 GCGGTGTTTGTTCCAAAAATGCTGCTATAGATCTGACCTTTTGCAGTGTTTGTAT-AAAAAATGT
1 GCGGTGTTTGTTCCAAAAATGCCGCTATAGATCTGACCTTTTGCAGCGTTTGT-TCAAAAAATGC
1934749 CGCTATAGATCTGACCTTTAAT
65 CGCTATAGATCTGACCTTT--T
** * * * *
1934771 G-GG-GTTTGTTCCAAAAACACCGTTATATATCTCGACCTTTTGCGGCGTTTGTTCCAAAAATGC
1 GCGGTGTTTGTTCCAAAAATGCCGCTATAGATCT-GACCTTTTGCAGCGTTTGTTCAAAAAATGC
1934834 CGCTATAGATCTCGACCTTTT
65 CGCTATAGATCT-GACCTTTT
*
1934855 GCTGTGTTTGTTC
1 GCGGTGTTTGTTC
1934868 TACAAACACC
Statistics
Matches: 156, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
84 33 0.21
85 94 0.60
86 29 0.19
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (84 bp):
GCGGTGTTTGTTCCAAAAATGCCGCTATAGATCTGACCTTTTGCAGCGTTTGTTCAAAAAATGCC
GCTATAGATCTGACCTTTT
Found at i:1934900 original size:86 final size:84
Alignment explanation
Indices: 1934645--1934902 Score: 191
Period size: 85 Copynumber: 3.0 Consensus size: 84
1934635 ACCTTTTACA
* * * * * ** **
1934645 GCGTTTATTCAAAAAATGCCACTATAAATCTATACCTTT-TGCGGTGTTTGTTCCAAAAATGCTG
1 GCGTTTGTTCCAAAAATGCCGCTATAGATCT-GACCTTTATG-GG-GTTTGTTCCAAAAACACCA
* * *
1934709 CTATAGATCT-GACCTTTTGCA
63 CTATAGATCTCAACCTATTGCG
* * * **
1934730 GTGTTTGTAT-AAAAAATGTCGCTATAGATCTGACCTTTAATGGGGTTTGTTCCAAAAACACCGT
1 GCGTTTGT-TCCAAAAATGCCGCTATAGATCTGACCTTT-ATGGGGTTTGTTCCAAAAACACCAC
* * *
1934794 TATATATCTCGACCTTTTGCG
64 TATAGATCTCAACCTATTGCG
* * *
1934815 GCGTTTGTTCCAAAAATGCCGCTATAGATCTCGACCTTT-TGCTGTGTTTGTTCTACAAACACCA
1 GCGTTTGTTCCAAAAATGCCGCTATAGATCT-GACCTTTATG--GGGTTTGTTCCAAAAACACCA
* *
1934879 CTATAGATCTTAACGTATTGCG
63 CTATAGATCTCAACCTATTGCG
1934901 GC
1 GC
1934903 CTTTTTTGTT
Statistics
Matches: 140, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
84 33 0.24
85 62 0.44
86 45 0.32
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (84 bp):
GCGTTTGTTCCAAAAATGCCGCTATAGATCTGACCTTTATGGGGTTTGTTCCAAAAACACCACTA
TAGATCTCAACCTATTGCG
Found at i:1938625 original size:24 final size:24
Alignment explanation
Indices: 1938593--1938642 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
1938583 CCTTTGTTAA
1938593 CACTACATGTAAGCAAATTGGATG
1 CACTACATGTAAGCAAATTGGATG
1938617 CACTACATGTAAGCAAATTGGATG
1 CACTACATGTAAGCAAATTGGATG
1938641 CA
1 CA
1938643 AGAAGTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (24 bp):
CACTACATGTAAGCAAATTGGATG
Found at i:1943065 original size:57 final size:57
Alignment explanation
Indices: 1942977--1943086 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 57
1942967 CTCGGAATAG
1942977 CACTCCTTTGCATAGTGCCCATGCTTGCCGCAATT-ATAGCACT-AGACATTTGATTTT
1 CACTCCTTTGCATAGTGCCCATGCTTGCCGCAATTGA-AGCACTCA-ACATTTGATTTT
* *
1943034 CACTCTTTTGCATAGTGCCCATGCTTGCCGCAGTTGAAGCACTCAACATTTGA
1 CACTCCTTTGCATAGTGCCCATGCTTGCCGCAATTGAAGCACTCAACATTTGA
1943087 ATGATTTAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
57 47 0.96
58 2 0.04
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (57 bp):
CACTCCTTTGCATAGTGCCCATGCTTGCCGCAATTGAAGCACTCAACATTTGATTTT
Found at i:1951942 original size:15 final size:15
Alignment explanation
Indices: 1951903--1951943 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
1951893 TTTTAGAACA
*
1951903 GAGTCAACTCGTGTT
1 GAGTCAACTTGTGTT
*
1951918 CAGTCAACTTGTGTT
1 GAGTCAACTTGTGTT
1951933 GAGTCAACTTG
1 GAGTCAACTTG
1951944 AACCGGTCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (15 bp):
GAGTCAACTTGTGTT
Found at i:1951997 original size:16 final size:16
Alignment explanation
Indices: 1951978--1952015 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1951968 ACCCATATTG
*
1951978 TTGACTAGAGTTGTCT
1 TTGACTAGAGTTGACT
*
1951994 TTGACTAGGGTTGACT
1 TTGACTAGAGTTGACT
1952010 TTGACT
1 TTGACT
1952016 TTCACTAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.18, C:0.13, G:0.26, T:0.42
Consensus pattern (16 bp):
TTGACTAGAGTTGACT
Found at i:1952022 original size:22 final size:22
Alignment explanation
Indices: 1951992--1952033 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1951982 CTAGAGTTGT
* * *
1951992 CTTTGACTAGGGTTGACTTTGA
1 CTTTCACTAGAGTTAACTTTGA
1952014 CTTTCACTAGAGTTAACTTT
1 CTTTCACTAGAGTTAACTTT
1952034 TTTAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (22 bp):
CTTTCACTAGAGTTAACTTTGA
Found at i:1955709 original size:20 final size:21
Alignment explanation
Indices: 1955676--1955731 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
1955666 CCTAAAAAAC
*
1955676 AAAAACTAAAAATAAAAT-TGAT
1 AAAAA-TAATAATAAAATAT-AT
* *
1955698 AACAAT-ATAATATAATATAT
1 AAAAATAATAATAAAATATAT
1955718 AAAAATAATAATAA
1 AAAAATAATAATAA
1955732 TAATCAGCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
20 15 0.56
21 8 0.30
22 4 0.15
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAATAATAATAAAATATAT
Found at i:1955917 original size:38 final size:39
Alignment explanation
Indices: 1955863--1955993 Score: 114
Period size: 38 Copynumber: 3.4 Consensus size: 39
1955853 GTACTATATA
* *
1955863 TTTTCAAAAATCATTTTTTAAAAA-CTATATATTATTCG
1 TTTTCAAAAATTATTTTTTAAAAACCTATATATTATACG
* *
1955901 TTTTCAAAATTTA-TTTTCAAAAACCTAT-TA-TATACG
1 TTTTCAAAAATTATTTTTTAAAAACCTATATATTATACG
* *
1955937 ---TCAAATAATTTATACGTTTTAAAAAGCTATATATTATACG
1 TTTTCAAA-AA-TTAT--TTTTTAAAAACCTATATATTATACG
*
1955977 TTTTAAAAAATTATTTT
1 TTTTCAAAAATTATTTT
1955994 CAATAATACA
Statistics
Matches: 72, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
33 5 0.07
34 1 0.01
35 3 0.04
36 5 0.07
37 11 0.15
38 27 0.38
39 4 0.06
40 6 0.08
41 4 0.06
42 2 0.03
43 4 0.06
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (39 bp):
TTTTCAAAAATTATTTTTTAAAAACCTATATATTATACG
Found at i:1974169 original size:99 final size:101
Alignment explanation
Indices: 1974015--1974214 Score: 386
Period size: 99 Copynumber: 2.0 Consensus size: 101
1974005 GTTAATCTTT
1974015 GTTCATTATTTCTTCGATTTTGTGGAGTTATTGCTGCTGATTTGGTTGTGTTATGCCTATTTTCG
1 GTTCATTATTTCTTCGATTTTGTGGAGTTATTGCTGCTGATTTGGTTGTGTTATGCCTATTTTCG
1974080 TGTAGGTCCTTACGTTCCAGAATTAGTGATAAAACA
66 TGTAGGTCCTTACGTTCCAGAATTAGTGATAAAACA
1974116 GTTCATT-TTT-TTCGATTTTGTGGAGTTATTGCTGCTGATTTGGTTGTGTTATGCCTATTTTCG
1 GTTCATTATTTCTTCGATTTTGTGGAGTTATTGCTGCTGATTTGGTTGTGTTATGCCTATTTTCG
1974179 TGTAGGTCCTTACGTTCCAGAATTAGTGATAAAACA
66 TGTAGGTCCTTACGTTCCAGAATTAGTGATAAAACA
1974215 AGCGAATTTA
Statistics
Matches: 99, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
99 89 0.90
100 3 0.03
101 7 0.07
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.45
Consensus pattern (101 bp):
GTTCATTATTTCTTCGATTTTGTGGAGTTATTGCTGCTGATTTGGTTGTGTTATGCCTATTTTCG
TGTAGGTCCTTACGTTCCAGAATTAGTGATAAAACA
Found at i:1974276 original size:81 final size:81
Alignment explanation
Indices: 1974141--1974303 Score: 326
Period size: 81 Copynumber: 2.0 Consensus size: 81
1974131 TTTTGTGGAG
1974141 TTATTGCTGCTGATTTGGTTGTGTTATGCCTATTTTCGTGTAGGTCCTTACGTTCCAGAATTAGT
1 TTATTGCTGCTGATTTGGTTGTGTTATGCCTATTTTCGTGTAGGTCCTTACGTTCCAGAATTAGT
1974206 GATAAAACAAGCGAAT
66 GATAAAACAAGCGAAT
1974222 TTATTGCTGCTGATTTGGTTGTGTTATGCCTATTTTCGTGTAGGTCCTTACGTTCCAGAATTAGT
1 TTATTGCTGCTGATTTGGTTGTGTTATGCCTATTTTCGTGTAGGTCCTTACGTTCCAGAATTAGT
1974287 GATAAAACAAGCGAAT
66 GATAAAACAAGCGAAT
1974303 T
1 T
1974304 CTGCATTTTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (81 bp):
TTATTGCTGCTGATTTGGTTGTGTTATGCCTATTTTCGTGTAGGTCCTTACGTTCCAGAATTAGT
GATAAAACAAGCGAAT
Found at i:1978184 original size:16 final size:16
Alignment explanation
Indices: 1978158--1978190 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1978148 TATTTTTATC
1978158 TTTACTTTTTATTTCAT
1 TTTACTTTTTA-TTCAT
1978175 TTTA-TTTTTATTCAT
1 TTTACTTTTTATTCAT
1978190 T
1 T
1978191 CAAGCATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTACTTTTTATTCAT
Found at i:1983067 original size:138 final size:137
Alignment explanation
Indices: 1982817--1983098 Score: 411
Period size: 138 Copynumber: 2.1 Consensus size: 137
1982807 ACCTAAGTGC
* * * * *
1982817 CAAAATAGAAATTCACAAACTCATTATGAATTCCATGGATGCACATATAGTGTCGAAAGTACATA
1 CAAAATGGAAATTCACAAAATCATTATGAATACCATGGATGCACATATAGTGCCGAAAGTACACA
* * *
1982882 TAGTACTGATACGAAAATGCACCATTATGCATTAAACAAAATTGATCGATAACTTTTATACATAA
66 TAGTACTGATACAAAAATGCACCATTATGCATTAAACAAAATCGATCGATAACTTTTATACACAA
1982947 TTGTATGT
131 TT-TATGT
* * * *
1982955 CAAAATGGTAATTCAGAAAATCATTATGAATACCATGGTTGCACATCTAGTGCCGAAAGTACACA
1 CAAAATGGAAATTCACAAAATCATTATGAATACCATGGATGCACATATAGTGCCGAAAGTACACA
* * *
1983020 TAGTACTGATACAAAAATGCACCATTATGCATTATACAAAATCGATCGATAATTTTTATATACAA
66 TAGTACTGATACAAAAATGCACCATTATGCATTAAACAAAATCGATCGATAACTTTTATACACAA
1983085 TTTATGT
131 TTTATGT
*
1983092 CGAAATG
1 CAAAATG
1983099 ACTATGACTC
Statistics
Matches: 128, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
137 11 0.09
138 117 0.91
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (137 bp):
CAAAATGGAAATTCACAAAATCATTATGAATACCATGGATGCACATATAGTGCCGAAAGTACACA
TAGTACTGATACAAAAATGCACCATTATGCATTAAACAAAATCGATCGATAACTTTTATACACAA
TTTATGT
Found at i:1988324 original size:8 final size:8
Alignment explanation
Indices: 1988299--1988372 Score: 76
Period size: 8 Copynumber: 9.2 Consensus size: 8
1988289 TTCTTGTCAT
1988299 TATTTCTC
1 TATTTCTC
* *
1988307 TAATTATC
1 TATTTCTC
1988315 TATTTCTC
1 TATTTCTC
* *
1988323 TAATTATC
1 TATTTCTC
1988331 TATTTCTC
1 TATTTCTC
* *
1988339 TAATTATC
1 TATTTCTC
1988347 TATTTCTC
1 TATTTCTC
* *
1988355 TAATTATC
1 TATTTCTC
1988363 TATTTCTC
1 TATTTCTC
1988371 TA
1 TA
1988373 CCTTATCTAT
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
8 50 1.00
ACGTcount: A:0.24, C:0.19, G:0.00, T:0.57
Consensus pattern (8 bp):
TATTTCTC
Found at i:1988386 original size:16 final size:16
Alignment explanation
Indices: 1988299--1988383 Score: 152
Period size: 16 Copynumber: 5.2 Consensus size: 16
1988289 TTCTTGTCAT
1988299 TATTTCTCTAATTATC
1 TATTTCTCTAATTATC
1988315 TATTTCTCTAATTATC
1 TATTTCTCTAATTATC
1988331 TATTTCTCTAATTATC
1 TATTTCTCTAATTATC
1988347 TATTTCTCTAATTATC
1 TATTTCTCTAATTATC
*
1988363 TATTTCTCTACCTTATC
1 TATTTCTCTA-ATTATC
1988380 TATT
1 TATT
1988384 CTCACATTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
16 58 0.87
17 9 0.13
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTCTCTAATTATC
Found at i:1989212 original size:45 final size:45
Alignment explanation
Indices: 1989148--1989378 Score: 356
Period size: 45 Copynumber: 5.1 Consensus size: 45
1989138 ATATATCCAA
*
1989148 TATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACCATTTAATCCATAAGCTCGTAAGCT
*
1989193 TATTTTACCAACATACTTACCATTTAATCCATAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACCATTTAATCCATAAGCTCGTAAGCT
* *
1989238 TATTTTATCAACATACTTACCATTTAATCCATAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACCATTTAATCCATAAGCTCGTAAGCT
1989283 TATTTTACCAATATACTTACCATTTAAATCCATAAGCTCGTAAGCT
1 TATTTTACCAATATACTTACCATTT-AATCCATAAGCTCGTAAGCT
* * * * * *
1989329 TATTTTATCAATATACTTGCCA-TTATTACATAAGCTCATAAGTT
1 TATTTTACCAATATACTTACCATTTAATCCATAAGCTCGTAAGCT
1989373 TATTTT
1 TATTTT
1989379 CATGATTACC
Statistics
Matches: 174, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
44 22 0.13
45 112 0.64
46 40 0.23
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (45 bp):
TATTTTACCAATATACTTACCATTTAATCCATAAGCTCGTAAGCT
Found at i:1991552 original size:18 final size:18
Alignment explanation
Indices: 1991529--1991569 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1991519 AATTTTTGTA
1991529 AAATTCCAATTCAATCTG
1 AAATTCCAATTCAATCTG
*
1991547 AAATTCCAATTCGATCTG
1 AAATTCCAATTCAATCTG
1991565 AAATT
1 AAATT
1991570 ATCACTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (18 bp):
AAATTCCAATTCAATCTG
Found at i:1992795 original size:244 final size:245
Alignment explanation
Indices: 1992339--1992831 Score: 963
Period size: 244 Copynumber: 2.0 Consensus size: 245
1992329 AACTATAATT
1992339 GCTCTTCATTATCTAAATGCAACACTAGCTCTAATGTGCATTATTTGAATGCAGCACTGCTAGTA
1 GCTCTTCATTATCTAAATGCAACACTAGCTCTAATGTGCATTATTTGAATGCAGCACTGCTAGTA
1992404 TCTGGTCTCACATAGCCCTTAGATAAAAGTGAACTGATGGAACCCCAATGTCATATAACATCGGA
66 TCTGGTCTCACATAGCCCTTAGATAAAAGTGAACTGATGGAACCCCAATGTCATATAACATCGGA
1992469 AAAATTCCCACTAAGCTATTGAATGATCTCCTGGTCTTCAATAACAGTCAGGTAGAACATGGAGG
131 AAAATTCCCACTAAGCTATTGAATGATCTCCTGGTCTTCAATAACAGTCAGGTAGAACATGGAGG
1992534 GGGAGCCAATAACACAAAATATCGGTATAATTCTCACTCAACTAAAGTATG
196 GGGAGCCAATAACACAAAATATCGGTATAATTCTCA-TCAACTAAAGTATG
1992585 GCTC-TCATTATCTAAATGCAACACTAGCTCTAATGTGCATTATTTGAATGCAGCACTGCTAGTA
1 GCTCTTCATTATCTAAATGCAACACTAGCTCTAATGTGCATTATTTGAATGCAGCACTGCTAGTA
1992649 TCTGGTCTCACATAGCCCTTAGATAAAAGTGAACTGATGGAA-CCCAATGTCATATAACATCGGA
66 TCTGGTCTCACATAGCCCTTAGATAAAAGTGAACTGATGGAACCCCAATGTCATATAACATCGGA
1992713 AAAATTCCCACTAAGCTATTGAATGATCTCCTGGTCTTCAATAACAGTCAGGTAGAACATGGAGG
131 AAAATTCCCACTAAGCTATTGAATGATCTCCTGGTCTTCAATAACAGTCAGGTAGAACATGGAGG
1992778 GGGAGCCAATAACACAAAATATCGGTATAATTCTCATCAACTAAAGTATG
196 GGGAGCCAATAACACAAAATATCGGTATAATTCTCATCAACTAAAGTATG
1992828 GCTC
1 GCTC
1992832 GTCTAACTAA
Statistics
Matches: 247, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
243 18 0.07
244 123 0.50
245 102 0.41
246 4 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (245 bp):
GCTCTTCATTATCTAAATGCAACACTAGCTCTAATGTGCATTATTTGAATGCAGCACTGCTAGTA
TCTGGTCTCACATAGCCCTTAGATAAAAGTGAACTGATGGAACCCCAATGTCATATAACATCGGA
AAAATTCCCACTAAGCTATTGAATGATCTCCTGGTCTTCAATAACAGTCAGGTAGAACATGGAGG
GGGAGCCAATAACACAAAATATCGGTATAATTCTCATCAACTAAAGTATG
Found at i:1998490 original size:2 final size:2
Alignment explanation
Indices: 1998483--1998514 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1998473 ATTTGTTTTA
1998483 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1998515 TAATAATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2018930 original size:75 final size:75
Alignment explanation
Indices: 2018753--2018967 Score: 306
Period size: 75 Copynumber: 2.8 Consensus size: 75
2018743 TTTTATCTTT
* * *
2018753 GTATTTTAGTTTAAATAGGTTTAAGTATTTTAATTAAGTTTTATGATATTATTTTTTATTTTTTA
1 GTATTTTAATTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATATTA--TTTTATTTTTTA
2018818 TATTTGTTTTAG
64 TATTTGTTTTAG
* * * *
2018830 GTATTTTAATATAAATATGTTTTAGTATTTTAATTATGTTTTAGGATATTATTTTCATATTTTAT
1 GTATTTTAATTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTT-ATTTTTTAT
2018895 ATTT-TTTTAG
65 ATTTGTTTTAG
* * *
2018905 GTATTTTAATTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATTTTATTTTTTA
1 GTATTTTAATTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTTATTTTTTA
2018968 GGTATTTTAG
Statistics
Matches: 124, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
74 7 0.06
75 60 0.48
76 12 0.10
77 45 0.36
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (75 bp):
GTATTTTAATTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTTATTTTTTATA
TTTGTTTTAG
Found at i:2018942 original size:19 final size:19
Alignment explanation
Indices: 2018848--2018948 Score: 57
Period size: 19 Copynumber: 5.4 Consensus size: 19
2018838 ATATAAATAT
*
2018848 GTTTTAGTATTTTAATTAT
1 GTTTTAGTATTTTAATTAG
* * * *
2018867 GTTTTAGGATATTATTTTCAT
1 GTTTTAGTATTTTA-ATT-AG
* *
2018888 ATTTTA-TATTTT-TTTAG
1 GTTTTAGTATTTTAATTAG
* *
2018905 GTATTT--TAATTTAAATAG
1 GT-TTTAGTATTTTAATTAG
2018923 GTTTTAGTATTTTAATTAG
1 GTTTTAGTATTTTAATTAG
*
2018942 GATTTAG
1 GTTTTAG
2018949 AATATTATTT
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
17 10 0.16
18 11 0.18
19 28 0.45
20 6 0.10
21 7 0.11
ACGTcount: A:0.28, C:0.01, G:0.13, T:0.58
Consensus pattern (19 bp):
GTTTTAGTATTTTAATTAG
Found at i:2018954 original size:64 final size:64
Alignment explanation
Indices: 2018886--2019011 Score: 184
Period size: 64 Copynumber: 2.0 Consensus size: 64
2018876 TATTATTTTC
*
2018886 ATATT-TTATATTTTTTTAGGTATTTTAATTTAAATAGGTTTT-AGTATTTTAATTAGGATTTAG
1 ATATTATTATA-TTTTTTAGGTATTTTAATTTAAATA-ATTTTAAGTATTTTAATTAGGATTTAG
2018949 A
64 A
* * *
2018950 ATATTATTTTATTTTTTAGGTATTTTAGTTTAAATAATTTTAAGTGTTTTAATTAGGATTTA
1 ATATTATTATATTTTTTAGGTATTTTAATTTAAATAATTTTAAGTATTTTAATTAGGATTTA
2019012 AGATGTTTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
63 4 0.07
64 48 0.86
65 4 0.07
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (64 bp):
ATATTATTATATTTTTTAGGTATTTTAATTTAAATAATTTTAAGTATTTTAATTAGGATTTAGA
Found at i:2024308 original size:5 final size:5
Alignment explanation
Indices: 2024290--2024339 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
2024280 CCCATTTACG
* **
2024290 TTTTA TTTTCA TTTTA -TTTA TTTCA TTCCA -TTTA TTTTA TTTTA TTTTA
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
2024339 T
1 T
2024340 CATATCCTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 6 0.16
5 27 0.71
6 5 0.13
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:2024315 original size:14 final size:14
Alignment explanation
Indices: 2024291--2024336 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
2024281 CCATTTACGT
2024291 TTTATTTTCATTTTA
1 TTTA-TTTCATTTTA
**
2024306 TTTATTTCATTCCA
1 TTTATTTCATTTTA
*
2024320 TTTATTTTATTTTA
1 TTTATTTCATTTTA
2024334 TTT
1 TTT
2024337 TATCATATCC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 22 0.85
15 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTATTTCATTTTA
Found at i:2024335 original size:28 final size:27
Alignment explanation
Indices: 2024291--2024364 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
2024281 CCATTTACGT
*
2024291 TTTATTTTCATTTTATTTATTTCAT-TCC
1 TTTATTTT-ATTTTATTT-TATCATATCC
2024319 ATTTATTTTATTTTATTTTATCATATCC
1 -TTTATTTTATTTTATTTTATCATATCC
* *
2024347 TTAAATTTATTTTATTTT
1 TTTATTTTATTTTATTTT
2024365 TCTCTGAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
27 21 0.51
28 12 0.29
29 8 0.20
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTATTTTATTTTATTTTATCATATCC
Found at i:2026073 original size:32 final size:32
Alignment explanation
Indices: 2026030--2026091 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
2026020 TTTAAATAGG
2026030 TTTTAGTATTTTA-ATTAAGTTTTAGGATATTAT
1 TTTTAGTATTTTATATT-AGTTTTAGG-TATTAT
*
2026063 TTTTA-TATTTTATATTTGTTTTAGGTATT
1 TTTTAGTATTTTATATTAGTTTTAGGTATT
2026092 TTAATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (32 bp):
TTTTAGTATTTTATATTAGTTTTAGGTATTAT
Found at i:2026119 original size:24 final size:24
Alignment explanation
Indices: 2026011--2026121 Score: 84
Period size: 24 Copynumber: 4.5 Consensus size: 24
2026001 TTTTATCTTT
*
2026011 GTATTTTAGTTTAAATAGGTTTTA
1 GTATTTTAATTTAAATAGGTTTTA
* *
2026035 GTATTTTAA-TTAAGTTTTAGGATATTA
1 GTATTTTAATTTAA---ATAGG-TTTTA
* **
2026062 -T-TTTTATATTTTATATTTGTTTTA
1 GTATTTTA-A-TTTAAATAGGTTTTA
2026086 GGTATTTTAATTTAAATAGGTTTTA
1 -GTATTTTAATTTAAATAGGTTTTA
2026111 GTATTTTAATT
1 GTATTTTAATT
2026122 AGGATTTAGA
Statistics
Matches: 66, Mismatches: 11, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
23 4 0.06
24 23 0.35
25 19 0.29
26 8 0.12
27 9 0.14
28 3 0.05
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.59
Consensus pattern (24 bp):
GTATTTTAATTTAAATAGGTTTTA
Found at i:2026124 original size:19 final size:19
Alignment explanation
Indices: 2026020--2026158 Score: 63
Period size: 19 Copynumber: 7.2 Consensus size: 19
2026010 TGTATTTTAG
*
2026020 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
*
2026039 TTTAATTAAGTTTTAGGATAT
1 TTTAATTAGGTTTTA-G-TAT
* **
2026060 TATT-TTTATATTTTA-TAT
1 T-TTAATTAGGTTTTAGTAT
* *
2026078 TTGT-TTTAGGTATTT--TAA
1 TT-TAATTAGGT-TTTAGTAT
*
2026096 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
* *
2026115 TTTAATTAGGATTTAGAAT
1 TTTAATTAGGTTTTAGTAT
* **
2026134 ATTATATTATATTTTAGGTAT
1 TTTA-ATTAGGTTTTA-GTAT
2026155 TTTA
1 TTTA
2026159 GTTTAAATAA
Statistics
Matches: 90, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
17 5 0.06
18 19 0.21
19 37 0.41
20 9 0.10
21 18 0.20
22 2 0.02
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:2026157 original size:64 final size:63
Alignment explanation
Indices: 2026072--2026191 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 63
2026062 TTTTTATATT
* * *
2026072 TTATATTTGTTTTAGGTATTTTAATTTAAATAGGTTTT-AGTATTTTAATTAGGATTTAGAATA
1 TTATATTTATTTTAGGTATTTTAATTTAAATA-ATTTTAACTATTTTAATTAGGATTTAGAATA
* *
2026135 TTATATTATATTTTAGGTATTTTAGTTTAAATAATTTTAACTGTTTTAATTAGGATT
1 TTATATT-TATTTTAGGTATTTTAATTTAAATAATTTTAACTATTTTAATTAGGATT
2026192 GAAGATGTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 11 0.22
64 39 0.78
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (63 bp):
TTATATTTATTTTAGGTATTTTAATTTAAATAATTTTAACTATTTTAATTAGGATTTAGAATA
Found at i:2034200 original size:29 final size:30
Alignment explanation
Indices: 2034162--2034248 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 30
2034152 ATTTCGTAAA
* *
2034162 ATTTTTAAAA-GAGTGATATTTTAGTAATT
1 ATTTTCAAAATGAGTGCTATTTTAGTAATT
* *
2034191 ATTTTGAAAATGA-TGCTATTTTGGTAATT
1 ATTTTCAAAATGAGTGCTATTTTAGTAATT
* *
2034220 AATTTCAAAATG-GTGCTATTTTTGTAATT
1 ATTTTCAAAATGAGTGCTATTTTAGTAATT
2034249 TTAAAAAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 48 0.96
30 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.15, T:0.48
Consensus pattern (30 bp):
ATTTTCAAAATGAGTGCTATTTTAGTAATT
Found at i:2035667 original size:29 final size:29
Alignment explanation
Indices: 2035629--2035763 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
2035619 CTATAAAGTA
* * **
2035629 TTGTATTTTATTGTAATTTATAAAATATT
1 TTGTACTTTATTGTAAATTCCAAAATATT
*
2035658 TTTTACTTTATTGTAAATTCCAAAA-AGTT
1 TTGTACTTTATTGTAAATTCCAAAATA-TT
*
2035687 TTGTACTTTATTGTAAATTCCAAAATGTT
1 TTGTACTTTATTGTAAATTCCAAAATATT
*
2035716 TTGTATTTTATTGTAAATTCCAAAA-AGTT
1 TTGTACTTTATTGTAAATTCCAAAATA-TT
* *
2035745 ATGTCCTTTATTGTAAATT
1 TTGTACTTTATTGTAAATT
2035764 ATAACTACTT
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.01
29 90 0.99
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (29 bp):
TTGTACTTTATTGTAAATTCCAAAATATT
Found at i:2035685 original size:58 final size:57
Alignment explanation
Indices: 2035607--2035767 Score: 196
Period size: 58 Copynumber: 2.8 Consensus size: 57
2035597 AGAAATGTCA
* * * * * *
2035607 TTATTGTAATTTCTATAAAGTATTGTATTTTATTGTAATTTATAAAATATTTTTTACT
1 TTATTGTAAATTCCAAAAAGT-TTGTACTTTATTGTAAATTATAAAATATTTTGTACT
** * *
2035665 TTATTGTAAATTCCAAAAAGTTTTGTACTTTATTGTAAATTCCAAAATGTTTTGTATT
1 TTATTGTAAATTCCAAAAAG-TTTGTACTTTATTGTAAATTATAAAATATTTTGTACT
*
2035723 TTATTGTAAATTCCAAAAAGTTATGTCCTTTATTGTAAATTATAA
1 TTATTGTAAATTCCAAAAAGTT-TGTACTTTATTGTAAATTATAA
2035768 CTACTTTTTT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
57 2 0.02
58 85 0.97
59 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (57 bp):
TTATTGTAAATTCCAAAAAGTTTGTACTTTATTGTAAATTATAAAATATTTTGTACT
Found at i:2037504 original size:50 final size:49
Alignment explanation
Indices: 2037439--2037610 Score: 236
Period size: 50 Copynumber: 3.4 Consensus size: 49
2037429 TCTTACCAAA
* * * * * *
2037439 CCCTCCTAGTCGCAATGAAAATGTAAACTAGGCAATACGAGTCTAATCAA
1 CCCTTCTAATCGCAATGAAAA-GTAAACTCGGCAATACGACTCTAACCAG
* * *
2037489 CCCTTCTAATTGCAATGAAAAGGTAAACTCGACAATATGACTCTAACCAG
1 CCCTTCTAATCGCAATGAAAA-GTAAACTCGGCAATACGACTCTAACCAG
2037539 CCCTTCTAATCGCAATGAAAAGATAAACTCGGCAATACGACTCTAACCAG
1 CCCTTCTAATCGCAATGAAAAG-TAAACTCGGCAATACGACTCTAACCAG
2037589 CCCTTCTAATCGCAATGAAAAG
1 CCCTTCTAATCGCAATGAAAAG
2037611 GCAAACCAGA
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
49 1 0.01
50 107 0.99
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.22
Consensus pattern (49 bp):
CCCTTCTAATCGCAATGAAAAGTAAACTCGGCAATACGACTCTAACCAG
Found at i:2040140 original size:44 final size:44
Alignment explanation
Indices: 2040087--2040178 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
2040077 TGTTGTGTTT
*
2040087 AAAA-ACACCACTGTATATTGATATTATTGCGACATTTGTTATA
1 AAAACACACCACTGTATATGGATATTATTGCGACATTTGTTATA
* **
2040130 GAAACACACCACTGTATATGGATATTATTTTGACATTTGTTATA
1 AAAACACACCACTGTATATGGATATTATTGCGACATTTGTTATA
2040174 AAAAC
1 AAAAC
2040179 GTTACTAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (44 bp):
AAAACACACCACTGTATATGGATATTATTGCGACATTTGTTATA
Found at i:2046012 original size:22 final size:21
Alignment explanation
Indices: 2045987--2046071 Score: 71
Period size: 22 Copynumber: 3.9 Consensus size: 21
2045977 TCTAGAACCC
2045987 CAGGGGGATATCGATTCCCCTA
1 CAGGGGGA-ATCGATTCCCCTA
*
2046009 CAGGGGGAATCGGTTCCCCTTCA
1 CAGGGGGAATCGATTCCCC-T-A
* * * *
2046032 AAGGGGGAATTGGTTCCCCTT
1 CAGGGGGAATCGATTCCCCTA
**
2046053 CAAGGGGGTGTCGATTCCC
1 C-AGGGGGAATCGATTCCC
2046072 TCTGCACTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
21 10 0.20
22 23 0.45
23 18 0.35
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.24
Consensus pattern (21 bp):
CAGGGGGAATCGATTCCCCTA
Found at i:2046036 original size:23 final size:23
Alignment explanation
Indices: 2045988--2046060 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
2045978 CTAGAACCCC
* *
2045988 AGGGGGATATCGATTCCCC-T-AC
1 AGGGGGA-ATCGGTTCCCCTTCAA
2046010 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCCTTCAA
*
2046033 AGGGGGAATTGGTTCCCCTTC-A
1 AGGGGGAATCGGTTCCCCTTCAA
2046055 AGGGGG
1 AGGGGG
2046061 TGTCGATTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
21 10 0.22
22 15 0.33
23 21 0.46
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.22
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCCTTCAA
Found at i:2049259 original size:15 final size:15
Alignment explanation
Indices: 2049239--2049269 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2049229 GAAGAGGTAT
2049239 TACCTATTGTACCTA
1 TACCTATTGTACCTA
2049254 TACCTATTGTACCTA
1 TACCTATTGTACCTA
2049269 T
1 T
2049270 TGTATGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (15 bp):
TACCTATTGTACCTA
Found at i:2051495 original size:2 final size:2
Alignment explanation
Indices: 2051488--2051531 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2051478 CACTTAAAGC
2051488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2051530 AT
1 AT
2051532 TAGTTTTACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2053351 original size:24 final size:24
Alignment explanation
Indices: 2053324--2053376 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2053314 CCCTTTTAAA
2053324 TATATTACTATTACTATTTATTAT
1 TATATTACTATTACTATTTATTAT
* * * *
2053348 TATATTATTTTTCCTTTTTATTAT
1 TATATTACTATTACTATTTATTAT
2053372 T-TATT
1 TATATT
2053377 TTATTTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (24 bp):
TATATTACTATTACTATTTATTAT
Found at i:2056548 original size:12 final size:12
Alignment explanation
Indices: 2056531--2056562 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2056521 AAAAAAGAAC
2056531 TTTTTGCTATAA
1 TTTTTGCTATAA
2056543 TTTTTGCTATAA
1 TTTTTGCTATAA
*
2056555 TTGTTGCT
1 TTTTTGCT
2056563 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.09, G:0.12, T:0.59
Consensus pattern (12 bp):
TTTTTGCTATAA
Found at i:2058210 original size:14 final size:14
Alignment explanation
Indices: 2058186--2058231 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
2058176 CCATTTTCGT
2058186 TTTATTTTCATTTTA
1 TTTA-TTTCATTTTA
**
2058201 TTTATTTCATTCCA
1 TTTATTTCATTTTA
*
2058215 TTTATTTTATTTTA
1 TTTATTTCATTTTA
2058229 TTT
1 TTT
2058232 TATCAGATGC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 22 0.85
15 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTATTTCATTTTA
Found at i:2058253 original size:5 final size:5
Alignment explanation
Indices: 2058185--2058234 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
2058175 CCCATTTTCG
* **
2058185 TTTTA TTTTCA TTTTA -TTTA TTTCA TTCCA -TTTA TTTTA TTTTA TTTTA
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
2058234 T
1 T
2058235 CAGATGCTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 6 0.16
5 27 0.71
6 5 0.13
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:2059970 original size:32 final size:32
Alignment explanation
Indices: 2059927--2059988 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
2059917 TTTAAATAGG
2059927 TTTTAGTATTTTA-ATTAAGTTTTAGGATATTAT
1 TTTTAGTATTTTATATT-AGTTTTAGG-TATTAT
*
2059960 TTTTA-TATTTTATATTTGTTTTAGGTATT
1 TTTTAGTATTTTATATTAGTTTTAGGTATT
2059989 TTAATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (32 bp):
TTTTAGTATTTTATATTAGTTTTAGGTATTAT
Found at i:2060051 original size:64 final size:63
Alignment explanation
Indices: 2059969--2060088 Score: 179
Period size: 64 Copynumber: 1.9 Consensus size: 63
2059959 TTTTTATATT
*
2059969 TTATATTTGTTTTAGGTATTTTAATTTAAATAGGTTTTAA-TATTTTAATTAGGATTTAGAATA
1 TTATATTTGTTTTAGGTATTTTAATTTAAATA-ATTTTAAGTATTTTAATTAGGATTTAGAATA
* * *
2060032 TTATATTATTTTTTAGGTATTTTAGTTTAAATAATTTTAAGTGTTTTAATTAGGATT
1 TTATATT-TGTTTTAGGTATTTTAATTTAAATAATTTTAAGTATTTTAATTAGGATT
2060089 GAAGATGTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
63 13 0.25
64 38 0.75
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (63 bp):
TTATATTTGTTTTAGGTATTTTAATTTAAATAATTTTAAGTATTTTAATTAGGATTTAGAATA
Found at i:2069294 original size:29 final size:29
Alignment explanation
Indices: 2069250--2069391 Score: 169
Period size: 29 Copynumber: 4.9 Consensus size: 29
2069240 TAATTTCTAT
* * * *
2069250 AAAGTATTGTATTTTATTGTAATTTATAA
1 AAAGTTTTGTACTTTATTGTAAATTACAA
* *
2069279 AATA-TTTTTTACTTTATTGTAAATTCCAA
1 AA-AGTTTTGTACTTTATTGTAAATTACAA
*
2069308 AAAGTTTTGTACTTTATTGTAAATTCCAA
1 AAAGTTTTGTACTTTATTGTAAATTACAA
* *
2069337 AAAGTTTTGTATTTTATTGTAAATTCCAA
1 AAAGTTTTGTACTTTATTGTAAATTACAA
* *
2069366 AAAGTTGTGTCCTTTATTGTAAATTA
1 AAAGTTTTGTACTTTATTGTAAATTA
2069392 TAACTACTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
28 1 0.01
29 97 0.98
30 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.49
Consensus pattern (29 bp):
AAAGTTTTGTACTTTATTGTAAATTACAA
Found at i:2069312 original size:58 final size:57
Alignment explanation
Indices: 2069234--2069394 Score: 189
Period size: 58 Copynumber: 2.8 Consensus size: 57
2069224 AGAAATGTCA
* * * * * *
2069234 TTATTGTAATTTCTATAAAGTATTGTATTTTATTGTAATTTATAAAATA-TTTTTTACT
1 TTATTGTAAATTCCAAAAAGT-TTGTACTTTATTGTAAATTATAAAA-AGTTTTGTACT
** *
2069292 TTATTGTAAATTCCAAAAAGTTTTGTACTTTATTGTAAATTCCAAAAAGTTTTGTATT
1 TTATTGTAAATTCCAAAAAG-TTTGTACTTTATTGTAAATTATAAAAAGTTTTGTACT
*
2069350 TTATTGTAAATTCCAAAAAGTTGTGTCCTTTATTGTAAATTATAA
1 TTATTGTAAATTCCAAAAAGTT-TGTACTTTATTGTAAATTATAA
2069395 CTACTTTTTT
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
57 3 0.03
58 84 0.95
59 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (57 bp):
TTATTGTAAATTCCAAAAAGTTTGTACTTTATTGTAAATTATAAAAAGTTTTGTACT
Found at i:2071156 original size:50 final size:50
Alignment explanation
Indices: 2071070--2071242 Score: 283
Period size: 50 Copynumber: 3.5 Consensus size: 50
2071060 CCTTACCAAA
* * * * *
2071070 CCCTCCTAGTCGCAATGAAAATGTAAACTTGGCAATACGACTCTAATCAG
1 CCCTTCTAATCGCAATGAAAAGGTAAACTCGGCAATACGACTCTAACCAG
* *
2071120 CCCTTCTAATCGCAATGAAAAGGTAAACTCGACAATATGACTCTAACCAG
1 CCCTTCTAATCGCAATGAAAAGGTAAACTCGGCAATACGACTCTAACCAG
2071170 CCCTTCTAATCGCAATGAAAAGGTAAACTCGGCAATACGACTCTAACCAG
1 CCCTTCTAATCGCAATGAAAAGGTAAACTCGGCAATACGACTCTAACCAG
2071220 CCCTTCTAATCGCAATGAAAAGG
1 CCCTTCTAATCGCAATGAAAAGG
2071243 CGAACCAGAC
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 114 1.00
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (50 bp):
CCCTTCTAATCGCAATGAAAAGGTAAACTCGGCAATACGACTCTAACCAG
Found at i:2074035 original size:39 final size:39
Alignment explanation
Indices: 2073974--2074050 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
2073964 ACCTGGCAGT
*
2073974 GCTGGAAGCTGCTGCAACTGATGCGTGGAGGGGCTGCTC
1 GCTGGAAGCTGCTGCAAATGATGCGTGGAGGGGCTGCTC
* *
2074013 GCTGGAAGCTGTTGGAAATGATGCGTGGAGGGGCTGCT
1 GCTGGAAGCTGCTGCAAATGATGCGTGGAGGGGCTGCT
2074051 GGATGGAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.17, C:0.18, G:0.43, T:0.22
Consensus pattern (39 bp):
GCTGGAAGCTGCTGCAAATGATGCGTGGAGGGGCTGCTC
Found at i:2074415 original size:112 final size:113
Alignment explanation
Indices: 2074280--2074485 Score: 335
Period size: 112 Copynumber: 1.8 Consensus size: 113
2074270 TCTTCTTCTA
* *
2074280 TGATGTAATTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC-TTTTTCATA
1 TGATGTAATTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
*
2074344 TGAGTTCTTCTCATTATGAACTTTCTCTGGCAACGCTGATCCATCAGG
66 TGAGTTCTTCTCATTATGAACTTCCTCTGGCAACGCTGATCCATCAGG
* * *
2074392 TGATG-AATTTGAGCAAAAGGTTGAACAAGTTTTTCTCATTATGAACTTCTTCTTCATTCTTCAG
1 TGATGTAA-TTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAG
2074456 ATGAGTTCTTCTCATTATGAACTTCCTCTG
65 ATGAGTTCTTCTCATTATGAACTTCCTCTG
2074486 AAAATATTGA
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
111 2 0.02
112 49 0.57
113 35 0.41
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (113 bp):
TGATGTAATTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
TGAGTTCTTCTCATTATGAACTTCCTCTGGCAACGCTGATCCATCAGG
Found at i:2074676 original size:123 final size:121
Alignment explanation
Indices: 2074548--2075122 Score: 491
Period size: 123 Copynumber: 4.6 Consensus size: 121
2074538 GAATCAATGC
*
2074548 AAGGTTGAACAAGTTCTTCTCATTATGAATTTTCTTTTCCTCTTCAGATAATTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAA-TTTCTTTTCCTCTTCAGATAAATTCTTCTCATTAT
2074613 GAACTTTCTCTGGAAAAGTTGGTGTTGATCTATCTCCTTTTGTGATAGAGTTATGCAA
65 GAACTTTCTCTGGAAAA-TTGGTGTTGATCTATCTCCTTTTGTGATAGAGTTATGCAA
* * * *
2074671 AAGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTT-TTCCTCTTCAGATAAATTCTTCTCATTAT
* * * ** *
2074736 GAACTTTCTCTGG-TAA----CGTTGATCCA--T-C--GGGTGATTA-ATTTGA-GCAA
65 GAACTTTCTCTGGAAAATTGGTGTTGATCTATCTCCTTTTGTGA-TAGAGTT-ATGCAA
* * *
2074783 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTT-TTCC-TCTTCAGATAAATTCTTCTCATTA
** * * * **
2074848 TGAACACT-TCTGGAAATATTGATCCTCAAATGAGGTTCT-TCTTTCATTCAATT-CCATAGGAG
64 TGAACTTTCTCTGGAAA-ATTGGT-GT----TGA---TCTATC--TCCTT---TTGTGATA-GAG
*
2074910 ATGAAT-CAA
114 -T-TATGCAA
*
2074919 TGCAAGGTTGAACAAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAGATAAGTTCTTCTCAT
1 ---AAGGTTGAACAAGTTCTTCTCATTATGAA-TTTCTTTTCCTCTTCAGATAAATTCTTCTCAT
* * *
2074984 TATGAACTTTCTCTAGAAAAGTTGGTGTTGATTTATCTCCTTCTGTGATAGAGTTATGCAA
62 TATGAACTTTCTCTGGAAAA-TTGGTGTTGATCTATCTCCTTTTGTGATAGAGTTATGCAA
* * *
2075045 AAGGTTGAACAAGCTCTTCTCATTATGAACTTT-TTCTTCTTCTTCAGATAAATCCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAA-TTTCTT-TTCCTCTTCAGATAAATTCTTCTCATTA
2075109 TGAACTTTCTCTGG
64 TGAACTTTCTCTGG
2075123 CAACGCTGAT
Statistics
Matches: 362, Mismatches: 47, Indels: 86
0.73 0.09 0.17
Matches are distributed among these distances:
112 53 0.15
113 32 0.09
114 2 0.01
115 1 0.00
117 8 0.02
119 1 0.00
122 9 0.02
123 140 0.39
125 2 0.01
126 6 0.02
127 4 0.01
128 3 0.01
129 1 0.00
130 4 0.01
131 2 0.01
132 2 0.01
133 2 0.01
134 4 0.01
135 1 0.00
136 5 0.01
138 31 0.09
139 44 0.12
140 5 0.01
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (121 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTTTCCTCTTCAGATAAATTCTTCTCATTATG
AACTTTCTCTGGAAAATTGGTGTTGATCTATCTCCTTTTGTGATAGAGTTATGCAA
Found at i:2074870 original size:112 final size:112
Alignment explanation
Indices: 2074667--2074872 Score: 315
Period size: 112 Copynumber: 1.8 Consensus size: 112
2074657 ATAGAGTTAT
2074667 GCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTCA
1 GCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTCA
** * *
2074732 TTATGAACTTTCTCTGGTAACGTTGATCCATCGGGTGATTAATTTGA
66 TTATGAACACTCTCTGGAAACATTGATCCATCGGGTGATTAATTTGA
* * * *
2074779 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATAAATTCTTCTC
*
2074844 ATTATGAACACT-TCTGGAAATATTGATCC
65 ATTATGAACACTCTCTGGAAACATTGATCC
2074873 TCAAATGAGG
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
112 54 0.64
113 30 0.36
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (112 bp):
GCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTCA
TTATGAACACTCTCTGGAAACATTGATCCATCGGGTGATTAATTTGA
Found at i:2075006 original size:374 final size:374
Alignment explanation
Indices: 2074292--2075251 Score: 1659
Period size: 374 Copynumber: 2.6 Consensus size: 374
2074282 ATGTAATTGA
* ** * * * *
2074292 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTTTCATATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTCA
*
2074357 TTATGAACTTTCTCTGGCAACGCTGATCCATCAGGTGATGAATTTGAGCAAAAGGTTGAACAAGT
66 TTATGAACTTTCTCTGGCAACGCTGATCCATCGGGTGATGAATTTGAGCAAAAGGTTGAACAAGT
* * * * *
2074422 TTTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGA
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-ACTTCTGG
*
2074487 AAATATTGATCCTCAAATGAGGTTCTACTTTCATTCAATTTCATAGGAGATGAATCAATGCAAGG
195 AAATATTGATCCTCAAATGAGGTTCTACTTTCATTCAATTCCATAGGAGATGAATCAATGCAAGG
* *
2074552 TTGAACAAGTTCTTCTCATTATGAATTTTCTTTTCCTCTTCAGATAATTTCTTCTCATTATGAAC
260 TTGAACAAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAGATAAGTTCTTCTCATTATGAAC
* *
2074617 TTTCTCTGGAAAAGTTGGTGTTGATCTATCTCCTTTTGTGATAGAGTTAT
325 TTTCTCTAGAAAAGTTGGTGTTGATCTATCTCCTTCTGTGATAGAGTTAT
*
2074667 GCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTCA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTCA
* * *
2074732 TTATGAACTTTCTCTGGTAACGTTGATCCATCGGGTGATTAATTTGAGCAAAAGGTTGAACAAGT
66 TTATGAACTTTCTCTGGCAACGCTGATCCATCGGGTGATGAATTTGAGCAAAAGGTTGAACAAGT
2074797 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGA
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGA
*
2074862 AATATTGATCCTCAAATGAGGTTCTTCTTTCATTCAATTCCATAGGAGATGAATCAATGCAAGGT
196 AATATTGATCCTCAAATGAGGTTCTACTTTCATTCAATTCCATAGGAGATGAATCAATGCAAGGT
2074927 TGAACAAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAGATAAGTTCTTCTCATTATGAACT
261 TGAACAAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAGATAAGTTCTTCTCATTATGAACT
*
2074992 TTCTCTAGAAAAGTTGGTGTTGATTTATCTCCTTCTGTGATAGAGTTAT
326 TTCTCTAGAAAAGTTGGTGTTGATCTATCTCCTTCTGTGATAGAGTTAT
* *
2075041 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCTTCTTCAGATAAATCCTTCTCA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTCA
2075106 TTATGAACTTTCTCTGGCAACGCTGATCCATCGGGTGATGAATTTGAGCAAAAGGTTGAACAAGT
66 TTATGAACTTTCTCTGGCAACGCTGATCCATCGGGTGATGAATTTGAGCAAAAGGTTGAACAAGT
2075171 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGA
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGA
*
2075236 AATGTTGATCCATCAA
196 AATATTGATCC-TCAA
2075252 GTGATGGATT
Statistics
Matches: 553, Mismatches: 31, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
374 377 0.68
375 176 0.32
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.40
Consensus pattern (374 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAATTCTTCTCA
TTATGAACTTTCTCTGGCAACGCTGATCCATCGGGTGATGAATTTGAGCAAAAGGTTGAACAAGT
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGA
AATATTGATCCTCAAATGAGGTTCTACTTTCATTCAATTCCATAGGAGATGAATCAATGCAAGGT
TGAACAAGTTCTTCTCATTATGAACTTTCTTTTCCTCTTCAGATAAGTTCTTCTCATTATGAACT
TTCTCTAGAAAAGTTGGTGTTGATCTATCTCCTTCTGTGATAGAGTTAT
Found at i:2075369 original size:112 final size:112
Alignment explanation
Indices: 2075041--2075373 Score: 447
Period size: 112 Copynumber: 3.0 Consensus size: 112
2075031 ATAGAGTTAT
* * * * *
2075041 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTC-TTCTTCTTCAGATAAATCCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
* * * * ** *
2075105 ATTATGAACT-TTCTCTGGCAACGCTGATCCATCGGGTGATGAATTTGA
66 ATTATGAACTCTTC-C-GGAAATGTTGATCCATTGAATGATGGATTTGA
*
2075153 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
* * *
2075218 ATTATGAACACTTCTGGAAATGTTGATCCA-TCAAGTGATGGATTTGA
66 ATTATGAACTCTTCCGGAAATGTTGATCCATTGAA-TGATGGATTTGA
* * *
2075265 GCAAAAGGTTGAACAAGTTCTTCTCATTATAAACTTCCTCTTTCTTCTTCAAATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
2075330 ATTATGAACTCTTCCGGAAATGTTGATCCATTGAATGATGGATT
66 ATTATGAACTCTTCCGGAAATGTTGATCCATTGAATGATGGATT
2075374 CAAATCTTTG
Statistics
Matches: 194, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
112 159 0.82
113 32 0.16
114 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (112 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTTCCGGAAATGTTGATCCATTGAATGATGGATTTGA
Found at i:2076750 original size:76 final size:76
Alignment explanation
Indices: 2076538--2076965 Score: 619
Period size: 76 Copynumber: 5.7 Consensus size: 76
2076528 AACGTTCAAA
* * * *
2076538 ATACATCAACATTCATGATTCTGATTGAAATA-GGCTTTCAGCATGCCCCAACA-ATTGCTGATA
1 ATACATCAACATTCTTGATTCTGATTGAAA-AGGGTTTTCAGCATGCCCCAGCATTTTGCTGATA
** * **
2076601 CGAACGTTCAAA
65 TAAACATTCAGG
* * * * *
2076613 ATACATCAACATTCTTCATTCTGATT-AAAAGGGCTTTCATCATGCCCAATCATTTTGCTGATAT
1 ATACATCAACATTCTTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATAT
*
2076677 AAACACTCAGG
66 AAACATTCAGG
* * *
2076688 ATACATCAACATTCCTCATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATGT
1 ATACATCAACATTCTTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATAT
2076753 AAACATTCAGG
66 AAACATTCAGG
* *
2076764 ATACATCAATAGTCTTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATAT
1 ATACATCAACATTCTTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATAT
2076829 AAACATTCAGG
66 AAACATTCAGG
* *
2076840 ATACATCAACATTCCTGATTCTGATTGAAAAGGGTTTTCAGTATGCCCCAGCATTTTGCTGATAT
1 ATACATCAACATTCTTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATAT
2076905 AAACATTCAGG
66 AAACATTCAGG
*
2076916 ATACATCAATATTCTTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCA
1 ATACATCAACATTCTTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCA
2076966 AATTTGCTTC
Statistics
Matches: 319, Mismatches: 31, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
73 1 0.00
74 21 0.07
75 64 0.20
76 233 0.73
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (76 bp):
ATACATCAACATTCTTGATTCTGATTGAAAAGGGTTTTCAGCATGCCCCAGCATTTTGCTGATAT
AAACATTCAGG
Found at i:2080337 original size:8 final size:8
Alignment explanation
Indices: 2080324--2080368 Score: 74
Period size: 8 Copynumber: 5.8 Consensus size: 8
2080314 CGTGATTCAA
2080324 TTTTTTCC
1 TTTTTTCC
2080332 TTTTTTCC
1 TTTTTTCC
2080340 TTTTTTCC
1 TTTTTTCC
2080348 -TTTTTCC
1 TTTTTTCC
*
2080355 TTTTTCCC
1 TTTTTTCC
2080363 TTTTTT
1 TTTTTT
2080369 TTGAATGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 7 0.21
8 27 0.79
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTCC
Found at i:2080351 original size:15 final size:15
Alignment explanation
Indices: 2080324--2080367 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
2080314 CGTGATTCAA
2080324 TTTTTTCCTTTTTTCC
1 TTTTTTCC-TTTTTCC
2080340 TTTTTTCCTTTTTCC
1 TTTTTTCCTTTTTCC
*
2080355 TTTTTCCCTTTTT
1 TTTTTTCCTTTTT
2080368 TTTGAATGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 19 0.70
16 8 0.30
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTTCCTTTTTCC
Found at i:2083583 original size:14 final size:14
Alignment explanation
Indices: 2083549--2083602 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
2083539 CAAAAAAATA
* *
2083549 CAAATGCAAAGATG
1 CAAATGTAAATATG
2083563 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
2083578 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
2083592 TAAATGTAAAT
1 CAAATGTAAAT
2083603 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:2083923 original size:43 final size:43
Alignment explanation
Indices: 2083850--2083935 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
2083840 CCGTGCATCA
* * *
2083850 AACAAAACTTTACATATATGGGACATCTTTCAGTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* *
2083893 AACAAAACTTTACATATAGGGGATAACTTTCCCTCCTAACTTC
1 AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
2083936 TCTAAAGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.31
Consensus pattern (43 bp):
AACAAAACTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:2085355 original size:28 final size:26
Alignment explanation
Indices: 2085300--2085357 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
2085290 AAACATTAAT
*
2085300 AAAATAATATACATATAAATATTATG
1 AAAATAATATACATATAAAAATTATG
* *
2085326 AAAATAATAAGTATATATAAAAATTTTG
1 AAAATAAT-A-TACATATAAAAATTATG
2085354 AAAA
1 AAAA
2085358 GAAAGAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 8 0.30
27 1 0.04
28 18 0.67
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATAATATACATATAAAAATTATG
Found at i:2087692 original size:39 final size:39
Alignment explanation
Indices: 2087631--2087707 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
2087621 ACCTGGCAGT
*
2087631 GCTGAAAGCCGCTGCAACTGATGCGTGGAGGGGCTGCTC
1 GCTGAAAGCCGCTGCAAATGATGCGTGGAGGGGCTGCTC
* * *
2087670 GCTGGAAGCTGCTGGAAATGATGCGTGGAGGGGCTGCT
1 GCTGAAAGCCGCTGCAAATGATGCGTGGAGGGGCTGCT
2087708 GGATGGAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.18, C:0.21, G:0.42, T:0.19
Consensus pattern (39 bp):
GCTGAAAGCCGCTGCAAATGATGCGTGGAGGGGCTGCTC
Found at i:2092371 original size:16 final size:16
Alignment explanation
Indices: 2092350--2092381 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2092340 AGTAACCTTA
2092350 TAAACCCTCAAGAATT
1 TAAACCCTCAAGAATT
2092366 TAAACCCTCAAGAATT
1 TAAACCCTCAAGAATT
2092382 ATACCCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (16 bp):
TAAACCCTCAAGAATT
Found at i:2095579 original size:21 final size:21
Alignment explanation
Indices: 2095555--2095638 Score: 71
Period size: 21 Copynumber: 3.9 Consensus size: 21
2095545 ACTAGAACCC
*
2095555 CAGGGGGTATCGATTCCCCTA
1 CAGGGGGAATCGATTCCCCTA
2095576 CAGGGGGAATC-AGTTCCCCTTCA
1 CAGGGGGAATCGA-TTCCCC-T-A
* * * *
2095599 AAGGGGGAATCGGTTCACCTT
1 CAGGGGGAATCGATTCCCCTA
*
2095620 CAAGGGGGTATCGATTCCC
1 C-AGGGGGAATCGATTCCC
2095639 TCTGCACTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
20 1 0.02
21 16 0.33
22 16 0.33
23 16 0.33
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (21 bp):
CAGGGGGAATCGATTCCCCTA
Found at i:2095624 original size:22 final size:23
Alignment explanation
Indices: 2095577--2095632 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
2095567 ATTCCCCTAC
* *
2095577 AGGGGGAATCAGTTCCCCTTCAA
1 AGGGGGAATCGGTTCACCTTCAA
2095600 AGGGGGAATCGGTTCACCTTC-A
1 AGGGGGAATCGGTTCACCTTCAA
*
2095622 AGGGGGTATCG
1 AGGGGGAATCG
2095633 ATTCCCTCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.21
Consensus pattern (23 bp):
AGGGGGAATCGGTTCACCTTCAA
Found at i:2119774 original size:35 final size:35
Alignment explanation
Indices: 2119735--2119809 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
2119725 ATTTTAATTT
2119735 GAATGCCTTACTTTAAATATGTCCATTTTGATCTC
1 GAATGCCTTACTTTAAATATGTCCATTTTGATCTC
2119770 GAATGCCTTACTTTAAATATGTCCATTTTGATCTC
1 GAATGCCTTACTTTAAATATGTCCATTTTGATCTC
2119805 GAATG
1 GAATG
2119810 ATAGAAATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (35 bp):
GAATGCCTTACTTTAAATATGTCCATTTTGATCTC
Found at i:2120430 original size:14 final size:15
Alignment explanation
Indices: 2120401--2120430 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2120391 ATTTTTTATC
2120401 TTTTAAAATCATTTT
1 TTTTAAAATCATTTT
*
2120416 TTTTAAAATTATTTT
1 TTTTAAAATCATTTT
2120431 AAAAGTTATT
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:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTAAAATCATTTT
Found at i:2128128 original size:258 final size:247
Alignment explanation
Indices: 2127768--2128421 Score: 844
Period size: 247 Copynumber: 2.6 Consensus size: 247
2127758 ATTATGTTGT
* ** *
2127768 TTTG-AAAATGAAAAAGTTATTTCCAAAGTTTCTCATATTAATTTTTTTCAGAAAATCAAATTTT
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCAT-TTAATGTTTTT-AGAAAATCAAATTTT
** *
2127832 TGAAAAGTAAGAAAGCCAATTCCAAAGTTTCTTATCCAGTAAATTATTTCCAAAATTATTAAGTC
64 TGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTATCCAGTAAATTATTTCCAAAATTATTAAGTC
* * *
2127897 CTTCGGGCTATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTATAAGTCTTT
129 CTTCGGGCCATCAGTAAGTCTTTCAAGCATAATGATTAAATCCTTCGGG-------T---TCTTT
* * * * *
2127962 CGAGTGAGATGATAAGTCCTTCGGTCCATCCGTAAGACCTTCAGGCAGGATGTTTCCACATTAT
184 AGAGCGAGATGATAAGTCCTTCGGGCCATCCGTAAGACCTTCAGGCAGGATGTTTCCACATGAA
*
2128026 TTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTTAGAAAATGAAATTTTT
1 TTT-GAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTTAGAAAATCAAATTTTT
* *
2128091 GAAAAGTAAGAAAATGATTTCCAAAGTTTCTTATCCAGTAAATTATTTCCAAAATT-TGTAAGTT
65 GAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTATCCAGTAAATTATTTCCAAAATTAT-TAAGTC
* *
2128155 ATTCGGGCCATCAATAAGTCTTTCAAGCATAATGATTAAATCCTTCGGGTTCTTTAGAGCGAGAT
129 CTTCGGGCCATCAGTAAGTCTTTCAAGCATAATGATTAAATCCTTCGGGTTCTTTAGAGCGAGAT
* * * *
2128220 GCTAAGTCCTTCGGGCTATCCGTAAGACCTTCAGGCATGATGTTTTCACATGAA
194 GATAAGTCCTTCGGGCCATCCGTAAGACCTTCAGGCAGGATGTTTCCACATGAA
* * * * * *
2128274 TTTGAAAAATGAGAGAGCGATTTCAAAAGTTTCTCATTTAATGTTTTCATAAAATTAAATTCTTG
1 TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTTAGAAAATCAAATTTTTG
* * * *
2128339 AAAAATAAGAAAGTGATTTCCAAAGTTTCTTACCCGGTAAATTATTTCCAAAATTAGTAAGTCCT
66 AAAAGTAAGAAAGTGATTTCCAAAGTTTCTTATCCAGTAAATTATTTCCAAAATTATTAAGTCCT
* *
2128404 TCAGGCCATTAGTAAGTC
131 TCGGGCCATCAGTAAGTC
2128422 CTTAAGGCCA
Statistics
Matches: 352, Mismatches: 40, Indels: 19
0.86 0.10 0.05
Matches are distributed among these distances:
247 128 0.36
248 63 0.18
251 1 0.00
257 1 0.00
258 119 0.34
259 11 0.03
260 29 0.08
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (247 bp):
TTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTTAGAAAATCAAATTTTTG
AAAAGTAAGAAAGTGATTTCCAAAGTTTCTTATCCAGTAAATTATTTCCAAAATTATTAAGTCCT
TCGGGCCATCAGTAAGTCTTTCAAGCATAATGATTAAATCCTTCGGGTTCTTTAGAGCGAGATGA
TAAGTCCTTCGGGCCATCCGTAAGACCTTCAGGCAGGATGTTTCCACATGAA
Found at i:2128414 original size:20 final size:20
Alignment explanation
Indices: 2128391--2128446 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
2128381 TATTTCCAAA
2128391 ATTAGTAAGTCCTTCAGGCC
1 ATTAGTAAGTCCTTCAGGCC
*
2128411 ATTAGTAAGTCCTTAAGGCC
1 ATTAGTAAGTCCTTCAGGCC
*
2128431 ATTAGTAAGTCTTTCA
1 ATTAGTAAGTCCTTCA
2128447 AGAATAATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (20 bp):
ATTAGTAAGTCCTTCAGGCC
Found at i:2128614 original size:3 final size:3
Alignment explanation
Indices: 2128606--2128646 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
2128596 TTTGTATGGG
*
2128606 TTA TTA TTA ATA TTA TTA TTA TTA TTA -TA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2128647 TTGTGGCCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 6 0.18
3 27 0.82
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2133132 original size:13 final size:13
Alignment explanation
Indices: 2133101--2133136 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 13
2133091 TATATTCGTT
2133101 TTTTGTTCATTTA
1 TTTTGTTCATTTA
2133114 ---TGTTCATTTA
1 TTTTGTTCATTTA
2133124 TTTTGTTCATTTA
1 TTTTGTTCATTTA
2133137 CGTTCGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
10 10 0.50
13 10 0.50
ACGTcount: A:0.17, C:0.08, G:0.08, T:0.67
Consensus pattern (13 bp):
TTTTGTTCATTTA
Found at i:2133181 original size:23 final size:23
Alignment explanation
Indices: 2133101--2133178 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
2133091 TATATTCGTT
*
2133101 TTTTGTTCATTTATGTTCATTTA
1 TTTTGTTCATTTACGTTCATTTA
* *
2133124 TTTTGTTCATTTACGTTCGTTCA
1 TTTTGTTCATTTACGTTCATTTA
* *
2133147 TTTTTGTTCGTTTACGTTTATTTA
1 -TTTTGTTCATTTACGTTCATTTA
*
2133171 TTATGTTC
1 TTTTGTTC
2133179 GTTAACATCC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 27 0.59
24 19 0.41
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.63
Consensus pattern (23 bp):
TTTTGTTCATTTACGTTCATTTA
Found at i:2133192 original size:47 final size:47
Alignment explanation
Indices: 2133100--2133192 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
2133090 TTATATTCGT
* * * * *
2133100 TTTTTGTTCATTTATGTTCATTTATTTTGTTCATTTACGTTCGTTCA
1 TTTTTGTTCATTTACGTTCATTTATTATGTTCATTAACATCCGTTCA
* * *
2133147 TTTTTGTTCGTTTACGTTTATTTATTATGTTCGTTAACATCCGTTC
1 TTTTTGTTCATTTACGTTCATTTATTATGTTCATTAACATCCGTTC
2133193 GTTTATGCTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.15, C:0.14, G:0.12, T:0.59
Consensus pattern (47 bp):
TTTTTGTTCATTTACGTTCATTTATTATGTTCATTAACATCCGTTCA
Found at i:2137538 original size:51 final size:51
Alignment explanation
Indices: 2137472--2137594 Score: 183
Period size: 51 Copynumber: 2.4 Consensus size: 51
2137462 AGTGTAGTAT
* * *
2137472 TTAATATATATTTACACCGGTGTAAGTAAATGAAATAAAGAAGTATAACGC
1 TTAATATATACTTACACCGGTGCAAGTAAATAAAATAAAGAAGTATAACGC
* * * *
2137523 TTAATACATACTTACACCGGTGCAAGTGAATAAAATAAAGAAGTATAGCGT
1 TTAATATATACTTACACCGGTGCAAGTAAATAAAATAAAGAAGTATAACGC
2137574 TTAATATATACTTACACCGGT
1 TTAATATATACTTACACCGGT
2137595 ATAAATTTAT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (51 bp):
TTAATATATACTTACACCGGTGCAAGTAAATAAAATAAAGAAGTATAACGC
Found at i:2137712 original size:18 final size:17
Alignment explanation
Indices: 2137680--2137728 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
2137670 TTTTTAAAGG
*
2137680 AATAAAAAATAATAAAT
1 AATAAAAAATTATAAAT
2137697 AATAAAAATATTATAAAT
1 AATAAAAA-ATTATAAAT
*
2137715 AATATAAAATTATA
1 AATAAAAAATTATA
2137729 TTAATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAAAAAATTATAAAT
Found at i:2138703 original size:26 final size:27
Alignment explanation
Indices: 2138641--2138704 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 27
2138631 TTTGGAAACA
*
2138641 TTTTGAAAACATATATAATATATGATT
1 TTTTGAAAACATATATAATATATGAGT
* *
2138668 TTTTAAAAAATATATATAATATAT-AGT
1 TTTT-GAAAACATATATAATATATGAGT
2138695 TTTTGAAAAC
1 TTTTGAAAAC
2138705 CTTTTAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.13
27 10 0.32
28 17 0.55
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (27 bp):
TTTTGAAAACATATATAATATATGAGT
Found at i:2138794 original size:72 final size:70
Alignment explanation
Indices: 2138674--2138899 Score: 260
Period size: 72 Copynumber: 3.1 Consensus size: 70
2138664 GATTTTTTAA
* * * *
2138674 AAAATATATATAATATATAGTTTTTGAAAACCTTTTAAAAACTTATATAATATATAGTTTTGAAA
1 AAAAT-TATATAATATATAG-TTTTGAAAA-TTTTTTAAAACATATATAATATATAGTTTTAAAA
2138739 TCATTTTG
63 TCATTTTG
*
2138747 AAAACTTATATAATATATAGTTTT-AAAATATTTTTGAAAACATATATAATATAT-GGTTTAAAA
1 AAAA-TTATATAATATATAGTTTTGAAAAT-TTTTT-AAAACATATATAATATATAGTTTTAAAA
*
2138810 ACATTTTG
63 TCATTTTG
* *
2138818 AAAATTATATAATTTATAGTTTTGAAAACTTTTTTAAAATGTATATATAATATATAGTTTTAAAA
1 AAAATTATATAATATATAGTTTTGAAAA-TTTTTTAAAA--CATATATAATATATAGTTTTAAAA
*
2138883 T-ATTTTT
63 TCATTTTG
*
2138890 AAAAATATAT
1 AAAATTATAT
2138900 TATTATTGTT
Statistics
Matches: 133, Mismatches: 12, Indels: 17
0.82 0.07 0.10
Matches are distributed among these distances:
70 22 0.17
71 35 0.26
72 49 0.37
73 26 0.20
74 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (70 bp):
AAAATTATATAATATATAGTTTTGAAAATTTTTTAAAACATATATAATATATAGTTTTAAAATCA
TTTTG
Found at i:2138899 original size:36 final size:36
Alignment explanation
Indices: 2138667--2138899 Score: 235
Period size: 36 Copynumber: 6.4 Consensus size: 36
2138657 AATATATGAT
*
2138667 TTTTTAAAAAATATATATAATATATAGTTTTTGAAAA-C
1 TTTTT-AAAAATATATATAATATATAG-TTTT-AAAATA
* *
2138705 CTTTTAAAAACT-TATATAATATATAGTTTTGAAATCA
1 TTTTTAAAAA-TATATATAATATATAGTTTTAAAAT-A
* *
2138742 TTTTGAAAACT-TATATAATATATAGTTTTAAAATA
1 TTTTTAAAAATATATATAATATATAGTTTTAAAATA
* * * * *
2138777 TTTTTGAAAACATATATAATATATGGTTTAAAAACA
1 TTTTTAAAAATATATATAATATATAGTTTTAAAATA
* *
2138813 -TTTTGAAAAT-TATATAATTTATAGTTTTGAAAACT-
1 TTTTTAAAAATATATATAATATATAGTTTT-AAAA-TA
*
2138848 TTTTTAAAATGTATATATAATATATAGTTTTAAAATA
1 TTTTTAAAA-ATATATATAATATATAGTTTTAAAATA
2138885 TTTTTAAAAATATAT
1 TTTTTAAAAATATAT
2138900 TATTATTGTT
Statistics
Matches: 162, Mismatches: 23, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
34 15 0.09
35 24 0.15
36 61 0.38
37 40 0.25
38 22 0.14
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (36 bp):
TTTTTAAAAATATATATAATATATAGTTTTAAAATA
Found at i:2138921 original size:10 final size:10
Alignment explanation
Indices: 2138902--2138966 Score: 53
Period size: 10 Copynumber: 6.2 Consensus size: 10
2138892 AAATATATTA
*
2138902 TTATTGTTAT
1 TTATTTTTAT
2138912 TTATTTTTAT
1 TTATTTTTAT
2138922 TTATCTTATTTTAT
1 TTA---T-TTTTAT
2138936 CTTA-TTTTA-
1 -TTATTTTTAT
*
2138945 TTAATTTTAT
1 TTATTTTTAT
2138955 TTATTTTTAT
1 TTATTTTTAT
2138965 TT
1 TT
2138967 TGGTCCAGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
8 3 0.07
9 5 0.11
10 28 0.61
13 1 0.02
14 6 0.13
15 3 0.07
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.74
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:2138930 original size:19 final size:19
Alignment explanation
Indices: 2138908--2138966 Score: 55
Period size: 24 Copynumber: 2.8 Consensus size: 19
2138898 ATTATTATTG
2138908 TTATTTATTTTTATTTATC
1 TTATTTATTTTTATTTATC
* *
2138927 TTATTTTATCTTATTTTATTAATT
1 TTA-TTTA---T-TTTTATTTATC
2138951 TTATTTATTTTTATTT
1 TTATTTATTTTTATTT
2138967 TGGTCCAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
19 10 0.31
20 5 0.16
23 5 0.16
24 12 0.38
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (19 bp):
TTATTTATTTTTATTTATC
Found at i:2138951 original size:9 final size:9
Alignment explanation
Indices: 2138911--2138966 Score: 58
Period size: 10 Copynumber: 5.8 Consensus size: 9
2138901 ATTATTGTTA
*
2138911 TTTATTTTT
1 TTTATTTAT
2138920 ATTTATCTTAT
1 -TTTAT-TTAT
2138931 TTTATCTTAT
1 TTTAT-TTAT
*
2138941 TTTATTAAT
1 TTTATTTAT
2138950 TTTATTTATT
1 TTTATTTA-T
2138960 TTTATTT
1 TTTATTT
2138967 TGGTCCAGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
9 10 0.24
10 28 0.68
11 3 0.07
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTATTTAT
Found at i:2140148 original size:29 final size:30
Alignment explanation
Indices: 2140108--2140191 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 30
2140098 TTTAACATTT
2140108 TTTTATTACTTT-CTTTTGATTTATTTAATA
1 TTTTATT-CTTTCCTTTTGATTTATTTAATA
** * **
2140138 TTTT-TTCCTTTGTTTTTTATTTATTTTTTA
1 TTTTATT-CTTTCCTTTTGATTTATTTAATA
2140168 TTTTATT-TTTCCTTTTGATTTATT
1 TTTTATTCTTTCCTTTTGATTTATT
2140192 ATTATTATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
29 20 0.45
30 22 0.50
31 2 0.05
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (30 bp):
TTTTATTCTTTCCTTTTGATTTATTTAATA
Found at i:2140165 original size:12 final size:12
Alignment explanation
Indices: 2140136--2140210 Score: 62
Period size: 12 Copynumber: 6.1 Consensus size: 12
2140126 ATTTATTTAA
**
2140136 TATTTTTTCCTT
1 TATTTTTTATTT
*
2140148 TGTTTTTTA-TT
1 TATTTTTTATTT
2140159 TATTTTTTATTT
1 TATTTTTTATTT
**
2140171 TATTTTTCCTTT
1 TATTTTTTATTT
*
2140183 TGATTTATTATTAT
1 T-ATTTTTTATT-T
2140197 TATTATTTTATTT
1 TATT-TTTTATTT
2140210 T
1 T
2140211 TACTTTTATG
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
11 10 0.20
12 20 0.40
13 12 0.24
14 8 0.16
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:2140182 original size:34 final size:33
Alignment explanation
Indices: 2140139--2140216 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
2140129 TATTTAATAT
* *
2140139 TTTTTCCTTTG-TTTTTTATTTATTTTTTATTTTA
1 TTTTTCCTTTGATTTATTA-TTA-TTATTATTTTA
2140173 TTTTTCCTTTTGATTTATTATTATTATTATTTTA
1 TTTTTCC-TTTGATTTATTATTATTATTATTTTA
*
2140207 TTTTTACTTT
1 TTTTTCCTTT
2140217 TATGTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.08
34 23 0.59
35 7 0.18
36 6 0.15
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (33 bp):
TTTTTCCTTTGATTTATTATTATTATTATTTTA
Found at i:2140217 original size:12 final size:11
Alignment explanation
Indices: 2140151--2140224 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 11
2140141 TTTCCTTTGT
2140151 TTTTTA-TTTA
1 TTTTTATTTTA
2140161 TTTTTTATTTTA
1 -TTTTTATTTTA
*
2140173 TTTTTCCTTTTGA
1 TTTTT-ATTTT-A
2140186 --TTTATTATTA
1 TTTTTATT-TTA
*
2140196 TTATTATTTTA
1 TTTTTATTTTA
2140207 TTTTTACTTTTA
1 TTTTTA-TTTTA
2140219 TGTTTT
1 T-TTTT
2140225 TTTCTTTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
10 3 0.06
11 24 0.47
12 19 0.37
13 5 0.10
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:2140217 original size:34 final size:33
Alignment explanation
Indices: 2140153--2140217 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
2140143 TCCTTTGTTT
*
2140153 TTTATTTATTTTTTATTTTATTTTTCCTTTTGA
1 TTTATTTATTTTTTATTTTATTTTTACTTTTGA
2140186 TTTA-TTATTATTATTATTTTATTTTTACTTTT
1 TTTATTTATT-TT-TTATTTTATTTTTACTTTT
2140218 ATGTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 5 0.17
33 6 0.21
34 18 0.62
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (33 bp):
TTTATTTATTTTTTATTTTATTTTTACTTTTGA
Found at i:2140253 original size:46 final size:43
Alignment explanation
Indices: 2140152--2140264 Score: 104
Period size: 46 Copynumber: 2.5 Consensus size: 43
2140142 TTCCTTTGTT
* *
2140152 TTTTATTTATTTTTTATTTTATTTTTCCTTTTGATTTATTATTA
1 TTTTATTTA-TTTTTATTTTATTTTTCCTTTTGATTCATTAATA
**
2140196 TTATTATTTTATTTTTACTTTTATGTTTTTTTCTTTGATTCATTTAATA
1 TT-TTA-TTTATTTTTA-TTTTAT-TTTTCCT-TTTGATTCA-TTAATA
2140245 -TTTATTTATTATTT-TTTTAT
1 TTTTATTTATT-TTTATTTTAT
2140265 CTAACATTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
44 2 0.03
45 15 0.26
46 16 0.28
47 11 0.19
48 9 0.16
49 5 0.09
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.73
Consensus pattern (43 bp):
TTTTATTTATTTTTATTTTATTTTTCCTTTTGATTCATTAATA
Found at i:2152035 original size:83 final size:83
Alignment explanation
Indices: 2151891--2152631 Score: 874
Period size: 83 Copynumber: 8.8 Consensus size: 83
2151881 TAAATGAACT
*
2151891 ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAACCTTCGAGTTCGATTACATTC
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAACCTTCGAGTTCGATTACATTC
2151956 AGCTCAAGGGCATATCAA
66 AGCTCAAGGGCATATCAA
* * * *
2151974 ATTTACAGCAAAGCTCAAGGCGAGAAGGGCTATCTCCCAATAAGCCTTCGAGTTCGATTACATTC
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAACCTTCGAGTTCGATTACATTC
2152039 AGCTCAAGGGCATATCAA
66 AGCTCAAGGGCATATCAA
* * * * * **
2152057 ATTTACAACATAGCTCAAGGCAAGAAGGGCTATTTTCCAGCAAATGTTCGAGTTCGATTACATTC
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAACCTTCGAGTTCGATTACATTC
2152122 AGCTCAAGGGCATATCAA
66 AGCTCAAGGGCATATCAA
* * * * *
2152140 ATTTACAGCATAGCTCAAGACGAGATGGGCTATATGCCAACAAACCTTCGATTTCGATTAAATTC
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAACCTTCGAGTTCGATTACATTC
* *
2152205 AACTCAAGGGCCTATCAA
66 AGCTCAAGGGCATATCAA
* * *
2152223 ATGTACAACATAGCTCAAGGCGAGAAGGGTTATCTGCCAACAAACCTTCGAGTTCGATTACATTC
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAACCTTCGAGTTCGATTACATTC
* **
2152288 AGCCCAAGGGTTTATCAA
66 AGCTCAAGGGCATATCAA
* * * * * *
2152306 ATTTATAGTATTGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAAC-AA-ACCTTCGAGTTCGATTACAT
*
2152371 TCAACTC-AGAGGCATATCAA
64 TCAGCTCAAG-GGCATATCAA
* * * * *
2152391 ATTTATAGCATAGCTCAAGGTGAGAAGGGTTATCTGTCAATAAAGACCTTCGAGTTCGATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAA-CAA-ACCTTCGAGTTCGATTACAT
* * *
2152456 TAAGCTAAAGGACATATCAA
64 TCAGCTCAAGGGCATATCAA
* * * * * *
2152476 ATTTATAGCATAACTCAAGGCGAGAAGGGTTATTTGTCAACAAATACCTTCGAGTTCGATTCCAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAAC-AA-ACCTTCGAGTTCGATTACAT
*
2152541 TCAGCTCAAGGGCA-AGTTAA
64 TCAGCTCAAGGGCATA-TCAA
* * ** * ** * *
2152561 ATTTACAGCATAGCTTAAGTCGAGAAAAGCTATTTGTTAACAAAAACTGTCGAGTTCGATTCCAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAAC-AAACCT-TCGAGTTCGATTACAT
2152626 TCAGCT
64 TCAGCT
2152632 TGATGACACA
Statistics
Matches: 571, Mismatches: 79, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
83 327 0.57
84 8 0.01
85 234 0.41
86 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (83 bp):
ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGCCAACAAACCTTCGAGTTCGATTACATTC
AGCTCAAGGGCATATCAA
Found at i:2153419 original size:36 final size:37
Alignment explanation
Indices: 2153379--2153752 Score: 225
Period size: 37 Copynumber: 10.2 Consensus size: 37
2153369 TTTATTATAT
* *
2153379 ATATATATATTATATAGTTT-ACAAATGATTTTTG-AA
1 ATATATATAATATATAGTTTGA-AAACGATTTTTGAAA
2153415 ATATATATAATATATAGTTTTGAAAACGATTTTTGAAA
1 ATATATATAATATATAG-TTTGAAAACGATTTTTGAAA
*
2153453 ATGTATATATACTATATAGTTTTTTGAAAAC-A-TTTTG-AA
1 A--TATATATAATATATAG---TTTGAAAACGATTTTTGAAA
* * * * *
2153492 ACACATATAATATATGGTTTATAAAAAAC-A-TTTTGAAG
1 ATATATATAATATATAG-TT-T-GAAAACGATTTTTGAAA
* * *
2153530 ATATATATAATATATTGTTTTTGAAAAC--CTTTTAAAA
1 ATATATATAATATATAG--TTTGAAAACGATTTTTGAAA
* *
2153567 ACT-TATATAATATCTAGTTTTGAAATC-A-TTTTG-AA
1 A-TATATATAATATATAG-TTTGAAAACGATTTTTGAAA
* * *
2153602 ATCTTATATAATATATAGTTTTAAAAC-ATTTTTTAAA
1 AT-ATATATAATATATAGTTTGAAAACGATTTTTGAAA
* * *
2153639 ACATATATAATATATGGTTTAAAAAC-A-TTTTGAAA
1 ATATATATAATATATAGTTTGAAAACGATTTTTGAAA
* *
2153674 AT-TGTATAATATATAGTTTTGAAAAC-A-TTTT-AAT
1 ATATATATAATATATAG-TTTGAAAACGATTTTTGAAA
* *
2153708 ATATATATATATAATATAGTTTTAAAA-TATTTTT-AAA
1 ATATATATA-AT-ATATAGTTTGAAAACGATTTTTGAAA
2153745 ATATATAT
1 ATATATAT
2153753 TATTTATTTA
Statistics
Matches: 278, Mismatches: 36, Indels: 47
0.77 0.10 0.13
Matches are distributed among these distances:
34 17 0.06
35 40 0.14
36 79 0.28
37 84 0.30
38 21 0.08
39 6 0.02
40 20 0.07
41 1 0.00
42 10 0.04
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (37 bp):
ATATATATAATATATAGTTTGAAAACGATTTTTGAAA
Found at i:2153623 original size:73 final size:70
Alignment explanation
Indices: 2153418--2153734 Score: 300
Period size: 71 Copynumber: 4.3 Consensus size: 70
2153408 TTTTGAAATA
* *
2153418 TATATAATATATAGTTTTGAAAACGATTTTTGAAAATGTATATATACTATATAGTTTTTTGAAAA
1 TATATAATATATAGTTTTAAAAAC-A-TTTTG-AAAT-T-TATATAATATATAG--TTTTGAAAA
*
2153483 CATTTTGAAACAC
59 CATTTT-AAAAAC
* * * *
2153496 -ATATAATATATGGTTTATAAAAAACATTTTGAAGATATATATAATATATTGTTTTTGAAAACCT
1 TATATAATATATAGTTT-T-AAAAACATTTTGAA-ATTTATATAATATATAG-TTTTGAAAACAT
2153560 TTTAAAAAC
62 TTTAAAAAC
* * *
2153569 TTATATAATATCTAGTTTTGAAATCATTTTGAAATCTTATATAATATATAGTTTT-AAAACATTT
1 -TATATAATATATAGTTTTAAAAACATTTTGAAAT-TTATATAATATATAGTTTTGAAAACA-TT
*
2153633 TTTAAAAC
63 TTAAAAAC
* * *
2153641 ATATATAATATAT-GGTTTAAAAACATTTTGAAAATTGTATAATATATAGTTTTGAAAACATTTT
1 -TATATAATATATAGTTTTAAAAACATTTTGAAATTTATATAATATATAGTTTTGAAAACATTTT
*
2153705 AATATA-
65 AA-AAAC
2153711 TATATATATAATATAGTTTTAAAA
1 TATATA-AT-ATATAGTTTTAAAA
2153735 TATTTTTAAA
Statistics
Matches: 202, Mismatches: 25, Indels: 30
0.79 0.10 0.12
Matches are distributed among these distances:
69 6 0.03
70 25 0.12
71 34 0.17
72 34 0.17
73 30 0.15
74 16 0.08
75 26 0.13
76 2 0.01
77 22 0.11
78 2 0.01
79 5 0.02
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (70 bp):
TATATAATATATAGTTTTAAAAACATTTTGAAATTTATATAATATATAGTTTTGAAAACATTTTA
AAAAC
Found at i:2153730 original size:37 final size:36
Alignment explanation
Indices: 2153377--2153752 Score: 276
Period size: 36 Copynumber: 10.3 Consensus size: 36
2153367 ATTTTATTAT
** **
2153377 ATATATATATATTATATAGTTTACAAATGATTTTTGAA
1 ATATATATATA-TATATAGTTTTGAAAACA-TTTTGAA
2153415 ATATATATA-ATATATAGTTTTGAAAACGATTTTTGAAA
1 ATATATATATATATATAGTTTTGAAAAC-A-TTTTG-AA
*
2153453 ATGTATATATACTATATAGTTTTTTGAAAACATTTTGAA
1 ATATATATATA-TATATAG--TTTTGAAAACATTTTGAA
* * * *
2153492 ACACATATA-ATATATGGTTTATAAAAAACATTTTGAA
1 ATATATATATATATATAGTTT-T-GAAAACATTTTGAA
* *
2153529 GATATATATA-ATATATTGTTTTTGAAAACCTTTT-AA
1 -ATATATATATATATATAG-TTTTGAAAACATTTTGAA
* * *
2153565 AAACT-TATATAATATCTAGTTTTGAAATCATTTTGAA
1 ATA-TATATAT-ATATATAGTTTTGAAAACATTTTGAA
* *
2153602 ATCT-TATATAATATATAGTTTT-AAAACATTTTTTAA
1 ATATATATAT-ATATATAGTTTTGAAAACA-TTTTGAA
* * *
2153638 A-ACATATATA-ATATATGGTTTAAAAACATTTTGAA
1 ATATATATATATATATA-GTTTTGAAAACATTTTGAA
*
2153673 A-AT-TGTATAATATATAGTTTTGAAAACATTTT-AA
1 ATATATATAT-ATATATAGTTTTGAAAACATTTTGAA
* *
2153707 TATATATATATATAATATAGTTTT-AAAATATTTTTAA
1 -ATATATATATAT-ATATAGTTTTGAAAACATTTTGAA
2153744 A-ATATATAT
1 ATATATATAT
2153753 TATTTATTTA
Statistics
Matches: 278, Mismatches: 35, Indels: 53
0.76 0.10 0.14
Matches are distributed among these distances:
34 11 0.04
35 51 0.18
36 85 0.31
37 61 0.22
38 35 0.13
39 12 0.04
40 12 0.04
41 1 0.00
42 10 0.04
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (36 bp):
ATATATATATATATATAGTTTTGAAAACATTTTGAA
Found at i:2153736 original size:13 final size:12
Alignment explanation
Indices: 2153700--2153750 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
2153690 TTTTGAAAAC
*
2153700 ATTTTAATATAT
1 ATTTTAAAATAT
* *
2153712 ATATATATAATAT
1 AT-TTTAAAATAT
2153725 AGTTTTAAAATAT
1 A-TTTTAAAATAT
2153738 -TTTTAAAATAT
1 ATTTTAAAATAT
2153749 AT
1 AT
2153751 ATTATTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
11 11 0.35
12 3 0.10
13 16 0.52
14 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (12 bp):
ATTTTAAAATAT
Found at i:2153759 original size:4 final size:4
Alignment explanation
Indices: 2153752--2153792 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
2153742 AAAATATATA
*
2153752 TTAT TTAT TTAT TTAT TTAT TTA- -TAT TTAT CTTTT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TT
2153793 CCTTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 2 0.06
4 27 0.84
5 3 0.09
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:2153780 original size:18 final size:19
Alignment explanation
Indices: 2153757--2153792 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2153747 ATATATTATT
2153757 TATTTAT-TTATTTATTTA
1 TATTTATCTTATTTATTTA
*
2153775 TATTTATCTTTTTTATTT
1 TATTTATCTTATTTATTT
2153793 CCTTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (19 bp):
TATTTATCTTATTTATTTA
Found at i:2154840 original size:9 final size:8
Alignment explanation
Indices: 2154821--2155205 Score: 61
Period size: 8 Copynumber: 44.5 Consensus size: 8
2154811 ATCCTCTAAG
2154821 TTTTTATT
1 TTTTTATT
2154829 TTTTTATAT
1 TTTTTAT-T
2154838 TTTTTA--
1 TTTTTATT
***
2154844 AAATTATT
1 TTTTTATT
2154852 TTTTCT-TT
1 TTTT-TATT
2154860 TTTCTTATT
1 TTT-TTATT
2154869 TTTTCT-TT
1 TTTT-TATT
2154877 TTTCTTATT
1 TTT-TTATT
*
2154886 TTTGTATT
1 TTTTTATT
* *
2154894 TTATTACT
1 TTTTTATT
** *
2154902 TTTAAAAT
1 TTTTTATT
***
2154910 TTAACATT
1 TTTTTATT
2154918 TTTTTATT
1 TTTTTATT
*
2154926 ATTTGTT-TC
1 -TTT-TTATT
*
2154935 TTTTGATT
1 TTTTTATT
2154943 TATTTAATATT
1 T-TTT--TATT
2154954 GTTTTTA-T
1 -TTTTTATT
*
2154962 TTTTTACT
1 TTTTTATT
2154970 TTTTTATT
1 TTTTTATT
*
2154978 TTATTTCATG
1 TT-TTT-ATT
*
2154988 TTTTTCTT
1 TTTTTATT
*
2154996 TGATTTATT
1 T-TTTTATT
2155005 TTGATTTA-T
1 TT--TTTATT
2155014 TTTTTATCT
1 TTTTTAT-T
2155023 TATTTT-TT
1 T-TTTTATT
* *
2155031 CTTTGATT
1 TTTTTATT
2155039 TATTATTATT
1 T-TT-TTATT
*
2155049 ATTATTATT
1 -TTTTTATT
* **
2155058 ATTTTACA
1 TTTTTATT
*
2155066 TTTTTCTT
1 TTTTTATT
*
2155074 TGATTTATTT
1 T-TTTTA-TT
2155084 ATTTTTATT
1 -TTTTTATT
*
2155093 TTTTTCTT
1 TTTTTATT
*
2155101 TTATTTTTGT
1 TT-TTTAT-T
*
2155111 GTTTTTGTT
1 -TTTTTATT
2155120 TTTTTATT
1 TTTTTATT
2155128 TTATTT-TT
1 TT-TTTATT
2155136 TCCTTTTGATT
1 T--TTTT-ATT
2155147 TATTATTA-T
1 T-TT-TTATT
2155156 TTTTTATGT
1 TTTTTAT-T
*
2155165 TTGTTTCTT
1 TT-TTTATT
* *
2155174 TGATTCATT
1 T-TTTTATT
2155183 TAATATTTATT
1 T--T-TTTATT
2155194 TTTTTATT
1 TTTTTATT
2155202 TTTT
1 TTTT
2155206 ATATAACATT
Statistics
Matches: 271, Mismatches: 59, Indels: 94
0.64 0.14 0.22
Matches are distributed among these distances:
6 3 0.01
7 17 0.06
8 107 0.39
9 84 0.31
10 38 0.14
11 21 0.08
12 1 0.00
ACGTcount: A:0.17, C:0.05, G:0.04, T:0.74
Consensus pattern (8 bp):
TTTTTATT
Found at i:2154869 original size:17 final size:17
Alignment explanation
Indices: 2154847--2154888 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
2154837 TTTTTTAAAA
2154847 TTATTTTTTCTTTTTTC
1 TTATTTTTTCTTTTTTC
2154864 TTATTTTTTCTTTTTTC
1 TTATTTTTTCTTTTTTC
2154881 TTATTTTT
1 TTATTTTT
2154889 GTATTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (17 bp):
TTATTTTTTCTTTTTTC
Found at i:2155048 original size:44 final size:37
Alignment explanation
Indices: 2154998--2155097 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 37
2154988 TTTTTCTTTG
2154998 ATTTATTTTGATTTATTTTTTATCTTATTTTTTCTTTGATTT
1 ATTTATTTT-ATTTATTTTTTA-C--A-TTTTTCTTTGATTT
2155040 A-TTATTATTATTATTATTATTTTACATTTTTCTTTGATTT
1 ATTTATT-TTA-T-TTATT-TTTTACATTTTTCTTTGATTT
2155080 ATTTATTTTTATTT-TTTT
1 ATTTA-TTTTATTTATTTT
2155098 CTTTTATTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
37 2 0.04
38 2 0.04
39 2 0.04
40 16 0.31
41 13 0.25
42 6 0.12
43 6 0.12
44 5 0.10
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (37 bp):
ATTTATTTTATTTATTTTTTACATTTTTCTTTGATTT
Found at i:2155051 original size:105 final size:108
Alignment explanation
Indices: 2154942--2155161 Score: 240
Period size: 105 Copynumber: 2.1 Consensus size: 108
2154932 TTCTTTTGAT
* *
2154942 TTATTTAATATTGTTTTTA-TTTTTTACTTT-TTTATTT-TATTTCATGTTTTTCTTTGATTTAT
1 TTATTTAATATT-ATTTTACATTTTT-CTTTATTTATTTAT-TTTCATGTTTTTCTTTGATTT-T
*
2155004 TTTG-ATTT-ATTTTTTATCTTATTTTTT-C-TTTGATTTATTATTA
62 TGTGTATTTGATTTTTTATCTTATTTTTTCCTTTTGATTTATTATTA
* * * *
2155047 TTA-TTATTATTATTTTACATTTTTCTTTGATTTATTTATTTTTATTTTTTTCTTTTATTTTTGT
1 TTATTTAATATTATTTTACATTTTTCTTT-ATTTATTTATTTTCATGTTTTTCTTTGATTTTTGT
* * *
2155111 GTTTTTGTTTTTTTATTTTATTTTTTCCTTTTGATTTATTATTA
65 GTATTTGATTTTTTATCTTATTTTTTCCTTTTGATTTATTATTA
*
2155155 TTTTTTA
1 TTATTTA
2155162 TGTTTGTTTC
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
103 9 0.09
104 16 0.17
105 31 0.33
106 18 0.19
107 1 0.01
108 17 0.18
109 3 0.03
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (108 bp):
TTATTTAATATTATTTTACATTTTTCTTTATTTATTTATTTTCATGTTTTTCTTTGATTTTTGTG
TATTTGATTTTTTATCTTATTTTTTCCTTTTGATTTATTATTA
Found at i:2155097 original size:27 final size:26
Alignment explanation
Indices: 2154950--2155133 Score: 96
Period size: 27 Copynumber: 7.0 Consensus size: 26
2154940 ATTTATTTAA
* *
2154950 TATTGTTTTTATTTTTTAC-TTT-TT
1 TATTTTTTTTATTTTTTTCTTTTATT
* * *
2154974 TATTTTATTTCATGTTTTTCTTTGATT
1 TATTTT-TTTTATTTTTTTCTTTTATT
*
2155001 TATTTTGATTTATTTTTTATC--TTATT
1 TATTTT-TTTTATTTTTT-TCTTTTATT
* * *
2155027 T-TTTCTTTGATTTATTATTATTATTA-T
1 TATTTTTTTTATTT-TT-TTCTT-TTATT
* ** *
2155054 TA-TTATTTTACATTTTTCTTTGATT
1 TATTTTTTTTATTTTTTTCTTTTATT
2155079 TATTTATTTTTATTTTTTTCTTTTATT
1 TATTT-TTTTTATTTTTTTCTTTTATT
* *
2155106 T-TTGTGTTTTTGTTTTTTTATTTTATT
1 TATT-T-TTTTTATTTTTTTCTTTTATT
2155133 T
1 T
2155134 TTTCCTTTTG
Statistics
Matches: 119, Mismatches: 27, Indels: 25
0.70 0.16 0.15
Matches are distributed among these distances:
24 13 0.11
25 23 0.19
26 14 0.12
27 64 0.54
28 5 0.04
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (26 bp):
TATTTTTTTTATTTTTTTCTTTTATT
Found at i:2155132 original size:78 final size:74
Alignment explanation
Indices: 2154952--2155134 Score: 172
Period size: 78 Copynumber: 2.3 Consensus size: 74
2154942 TTATTTAATA
* **
2154952 TTGTTTTTATTTTTTACTTTTTTATTTTATTTCATGTTTTTCTTTGATTTATTTTGATTTATTTT
1 TTGTTTTT-TTTTTT--TATTTTATTTTATTTCACATTTTTCTTTGATTTATTTTGATTTATTTT
2155017 TTATCTTATTTT
63 TTATCTTATTTT
* * * * *
2155029 TTCTTTGATTTATTATTATTATTATTATTATTTTACATTTTTCTTTGATTTATTTAT-TTTTATT
1 TTGTTT--TTTTTTTTTATT-TTATT-TTATTTCACATTTTTCTTTGATTTATTT-TGATTTATT
2155093 TTTT-TCTTTTATTTT
61 TTTTATC--TTATTTT
2155108 TGTGTTTTTGTTTTTTTATTTTATTTT
1 T-TGTTTTT-TTTTTTTATTTTATTTT
2155135 TTCCTTTTGA
Statistics
Matches: 86, Mismatches: 11, Indels: 18
0.75 0.10 0.16
Matches are distributed among these distances:
76 3 0.03
77 14 0.16
78 46 0.53
79 19 0.22
80 4 0.05
ACGTcount: A:0.15, C:0.04, G:0.05, T:0.75
Consensus pattern (74 bp):
TTGTTTTTTTTTTTTATTTTATTTTATTTCACATTTTTCTTTGATTTATTTTGATTTATTTTTTA
TCTTATTTT
Found at i:2155142 original size:27 final size:27
Alignment explanation
Indices: 2155085--2155158 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
2155075 GATTTATTTA
* *
2155085 TTTTTATTTTTTTCTTTTATTTTTGTG
1 TTTTTATTTTTTTATTTTATTTTTGTC
*
2155112 TTTTTGTTTTTTTATTTTATTTTT-TCC
1 TTTTTATTTTTTTATTTTATTTTTGT-C
*
2155139 TTTTGATTTATTATTATTTT
1 TTTTTATTT-TT-TTATTTT
2155159 TTATGTTTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 1 0.03
27 29 0.74
28 2 0.05
29 7 0.18
ACGTcount: A:0.11, C:0.04, G:0.05, T:0.80
Consensus pattern (27 bp):
TTTTTATTTTTTTATTTTATTTTTGTC
Found at i:2155144 original size:68 final size:68
Alignment explanation
Indices: 2155003--2155178 Score: 171
Period size: 68 Copynumber: 2.5 Consensus size: 68
2154993 CTTTGATTTA
*
2155003 TTTTGATTTATTTTTTATCTTA-TTTTTTCTTTGATTTATTATTATTATTATTATTATTTTACAT
1 TTTTGATTTATTTATT-T-TTATTTTTTTCTTTGATTTATTATTATTATTATTATTATTTTACAT
2155067 TTTTC
64 TTTTC
* * * * * * *
2155072 -TTTGATTTATTTATTTTTATTTTTTTCTTTTATTTTTGTGTTTTTGTT-TTTTTATTTTA-TTT
1 TTTTGATTTATTTATTTTTATTTTTTTCTTTGATTTAT-TATTATTATTATTATTATTTTACATT
2155134 TTTCC
65 TTT-C
2155139 TTTTGATTTATTATTATTTTTTATGTTTGTTTCTTTGATT
1 TTTTGATTTA-T-TTA-TTTTTAT-TTT-TTTCTTTGATT
2155179 CATTTAATAT
Statistics
Matches: 89, Mismatches: 9, Indels: 14
0.79 0.08 0.12
Matches are distributed among these distances:
66 8 0.09
67 27 0.30
68 30 0.34
69 1 0.01
70 3 0.03
71 7 0.08
72 3 0.03
73 10 0.11
ACGTcount: A:0.15, C:0.05, G:0.06, T:0.74
Consensus pattern (68 bp):
TTTTGATTTATTTATTTTTATTTTTTTCTTTGATTTATTATTATTATTATTATTATTTTACATTT
TTC
Found at i:2157302 original size:131 final size:131
Alignment explanation
Indices: 2157148--2157411 Score: 501
Period size: 131 Copynumber: 2.0 Consensus size: 131
2157138 ATTAATTTTT
2157148 AATTTTTATCTCTTAACTATATTTTACAAGATTTTTAATATATTTTTAATGTTTGTTAATGAAAA
1 AATTTTTATCTCTTAACTATATTTTACAAGATTTTTAATATATTTTTAATGTTTGTTAATGAAAA
*
2157213 AAATAATTCTATTTGTTACTTATAATTTAATAGTTATATATAATATTAGGAATTATTTATTTCAT
66 AAATAATTCCATTTGTTACTTATAATTTAATAGTTATATATAATATTAGGAATTATTTATTTCAT
2157278 C
131 C
2157279 AATTTTTATCTCTTAACTATATTTTACAAGATTTTTAATATATTTTTAATGTTTGTTAATGAAAA
1 AATTTTTATCTCTTAACTATATTTTACAAGATTTTTAATATATTTTTAATGTTTGTTAATGAAAA
* *
2157344 AAATAATTCCATTTGTTACTTATAGTTTAATAGTTATATATAATATTTGGAATTATTTATTTCAT
66 AAATAATTCCATTTGTTACTTATAATTTAATAGTTATATATAATATTAGGAATTATTTATTTCAT
2157409 C
131 C
2157410 AA
1 AA
2157412 CTACAATTTA
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 130 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.51
Consensus pattern (131 bp):
AATTTTTATCTCTTAACTATATTTTACAAGATTTTTAATATATTTTTAATGTTTGTTAATGAAAA
AAATAATTCCATTTGTTACTTATAATTTAATAGTTATATATAATATTAGGAATTATTTATTTCAT
C
Found at i:2164265 original size:81 final size:81
Alignment explanation
Indices: 2164088--2164574 Score: 549
Period size: 81 Copynumber: 6.2 Consensus size: 81
2164078 CTTTTAGCAT
* * * * * *
2164088 TTAATCTTTTAGTCAAAGGTGTTTAATCTTTCATATAACTGGCATAATTGACA-TTTTTTTCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAA
2164152 ATGCA-AAGCTAGGCCA
66 ATGCACAA-CTAGGCCA
* *
2164168 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTGCATGATTGACACTTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAA
2164233 ATGCACAACTAGGCCA
66 ATGCACAACTAGGCCA
* * * **
2164249 TTAATCTTTTAATCAAAGGTATTTACCCTTTCATCTAACTGGCATAATTGGCACATTTT-TTTCA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-TTTTCTGCCA
* *
2164313 AAT--AAAATGCTAGACCA
65 AATGCACAA--CTAGGCCA
* *
2164330 TTAATCTTTTACTCAAAGGTATTTGAA-ATTTCATCTAACTGGCATAATTGACAC-TGT-T--C-
1 TTAATCTTTTACTCAAAGGTATTT-AACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCA
*
2164389 --T-C-C--CTAGGCTA
65 AATGCACAACTAGGCCA
** * * *
2164400 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTACATAAATGACACCTTTCTACCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAA
* *
2164465 ATGCATAGCTAGGCCA
66 ATGCACAACTAGGCCA
* * *
2164481 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACAGGCATAATTGCCACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAA
*
2164546 ATGCACAGCTAGGCCA
66 ATGCACAACTAGGCCA
2164562 TTAATCTTTTACT
1 TTAATCTTTTACT
2164575 TTAGAACATA
Statistics
Matches: 349, Mismatches: 39, Indels: 37
0.82 0.09 0.09
Matches are distributed among these distances:
69 2 0.01
70 53 0.15
71 2 0.01
72 1 0.00
74 2 0.01
77 2 0.01
78 1 0.00
79 6 0.02
80 47 0.13
81 226 0.65
82 7 0.02
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAA
ATGCACAACTAGGCCA
Found at i:2164515 original size:151 final size:151
Alignment explanation
Indices: 2164241--2164530 Score: 404
Period size: 151 Copynumber: 1.9 Consensus size: 151
2164231 AAATGCACAA
* * * *
2164241 CTAGGCCATTAATCTTTTAATCAAAGGTATTTACCCTTTCATCTAACTGGCATAATTGGCACATT
1 CTAGGCCATTAATCTTTTAATCAAAGGTATTTAACCTTTCATCTAACTGACATAAATGACACATT
* ** *
2164306 TTTTTCAAATAAAATGCTAGACCATTAATCTTTTACTCAAAGGTATTTGAAATTTCATCTAACTG
66 TCTACCAAATAAAATGCTAGACCATTAATCTTTTACTCAAAGGTATTTGAAATTTCATCTAACAG
2164371 GCATAATTGACACTGTTCTCC
131 GCATAATTGACACTGTTCTCC
* * * *
2164392 CTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTTACATAAATGACACCTT
1 CTAGGCCATTAATCTTTTAATCAAAGGTATTTAACCTTTCATCTAACTGACATAAATGACACATT
** * *
2164457 TCTACCAAAT-GCATAGCTAGGCCATTAATCTTTTACTCAAAGGTATTT-AACCTTTCATCTAAC
66 TCTACCAAATAAAAT-GCTAGACCATTAATCTTTTACTCAAAGGTATTTGAA-ATTTCATCTAAC
2164520 AGGCATAATTG
129 AGGCATAATTG
2164531 CCACCTTTCT
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
150 4 0.03
151 117 0.97
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (151 bp):
CTAGGCCATTAATCTTTTAATCAAAGGTATTTAACCTTTCATCTAACTGACATAAATGACACATT
TCTACCAAATAAAATGCTAGACCATTAATCTTTTACTCAAAGGTATTTGAAATTTCATCTAACAG
GCATAATTGACACTGTTCTCC
Found at i:2164968 original size:46 final size:46
Alignment explanation
Indices: 2164916--2165032 Score: 180
Period size: 46 Copynumber: 2.5 Consensus size: 46
2164906 TTATTTGTTA
* * *
2164916 ATTTCATTTATGACACCCTTTCATGCCTTAGCGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAACGCATCCTTTCATGC
* * *
2164962 ATTTCATTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAACGCATCCTTTCATGC
2165008 ATTTCATTTATGGCATCCTTTCATG
1 ATTTCATTTATGGCATCCTTTCATG
2165033 TATTTCATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.44
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAACGCATCCTTTCATGC
Done.