Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004305.1 Hibiscus syriacus cultivar Beakdansim tig00009441_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: 115412
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:596 original size:29 final size:30
Alignment explanation
Indices: 564--623 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
554 CTTTTGGGGC
564 TAGGCGTGAATTGC-AAATAAAGCAAAAAG
1 TAGGCGTGAATTGCAAAATAAAGCAAAAAG
*
593 TAGGCGTGAATTGCAAAATAAAGTAAAAAG
1 TAGGCGTGAATTGCAAAATAAAGCAAAAAG
623 T
1 T
624 GGGGAGGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.20
Consensus pattern (30 bp):
TAGGCGTGAATTGCAAAATAAAGCAAAAAG
Found at i:1474 original size:21 final size:22
Alignment explanation
Indices: 1413--1477 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
1403 TAAAAATGCT
1413 CAAGATAATTCCTAAAATT-TA
1 CAAGATAATTCCTAAAATTGTA
*
1434 CAAAATATATTTCCTAAAATTGTA
1 CAAGATA-A-TTCCTAAAATTGTA
1458 -AAGATAATTCCCT-AAATTGT
1 CAAGATAATT-CCTAAAATTGT
1478 TTGAATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.39
22 5 0.13
23 16 0.42
24 2 0.05
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (22 bp):
CAAGATAATTCCTAAAATTGTA
Found at i:14197 original size:101 final size:102
Alignment explanation
Indices: 14051--14374 Score: 532
Period size: 101 Copynumber: 3.2 Consensus size: 102
14041 GTCGAGGGTC
* *
14051 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAAAATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATA-GTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
14116 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
65 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
14154 TATTTGGTCCTTCAGGACATATA-TATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
1 TATGTGGTCCTTCAGGACATATAGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
14218 TGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
14255 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATA-GTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
14320 TTGATCC-TAGTATATGTATAT-ATTCTTAAGG-ATGA
65 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
14355 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
14375 TATTATATGG
Statistics
Matches: 210, Mismatches: 8, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
100 22 0.10
101 108 0.51
102 12 0.06
103 68 0.32
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (102 bp):
TATGTGGTCCTTCAGGACATATAGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
TGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:14449 original size:23 final size:23
Alignment explanation
Indices: 14373--14450 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
14363 CCTTATGGAC
*
14373 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
14397 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
14420 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
14443 ATTATATG
1 ATTATATG
14451 AGTTGTGGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 42 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:19428 original size:103 final size:103
Alignment explanation
Indices: 19100--19420 Score: 579
Period size: 103 Copynumber: 3.1 Consensus size: 103
19090 GTCGAGGGTC
* *
19100 TATGTAGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
19165 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
19203 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGATCATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
19268 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
19306 TATGTGGTCCTTCGGGACATATATGTATTTTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
19371 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
19409 TATGTGGTCCTT
1 TATGTGGTCCTT
19421 ATGGACATTA
Statistics
Matches: 210, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 210 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:19503 original size:23 final size:23
Alignment explanation
Indices: 19427--19504 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
19417 CCTTATGGAC
*
19427 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
19451 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
19474 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
19497 ATTATATG
1 ATTATATG
19505 AGCTGTGGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 42 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:22124 original size:21 final size:21
Alignment explanation
Indices: 22075--22126 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
22065 TAACATGTAA
*
22075 ATGATCTAACTTGTTATTGAC
1 ATGATCTGACTTGTTATTGAC
*
22096 CTGATCTGACTTGTTATTGAC
1 ATGATCTGACTTGTTATTGAC
22117 ATGATCTGAC
1 ATGATCTGAC
22127 ATTTACCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (21 bp):
ATGATCTGACTTGTTATTGAC
Found at i:23650 original size:82 final size:82
Alignment explanation
Indices: 23545--23787 Score: 398
Period size: 82 Copynumber: 3.0 Consensus size: 82
23535 TCCAAAAATA
* *
23545 TATTAATTTAGGCTTTAAATTTTT-TATTTATTTTAATTTGATCCTACAAATTTTATAATTTAAT
1 TATTAATTTAGGCTTTAAATTTTTAT-TTTATTTCAATTTGATCCTACGAATTTTATAATTTAAT
*
23609 ATATACAACTATATAATG
65 ATATATAACTATATAATG
* *
23627 TATTAATGTAGGCTTTAAATTTTTATTTTATTTCAATTTGATCCTACGAATTTTATAACTTAATA
1 TATTAATTTAGGCTTTAAATTTTTATTTTATTTCAATTTGATCCTACGAATTTTATAATTTAATA
*
23692 TATATAACTACATAATG
66 TATATAACTATATAATG
*
23709 TATTAATTTAGGCTTTAAATTTTTATTTTATTTCAATTTGATCCTATGAATTTTATAATTTAATA
1 TATTAATTTAGGCTTTAAATTTTTATTTTATTTCAATTTGATCCTACGAATTTTATAATTTAATA
*
23774 TATATAACTTTATA
66 TATATAACTATATA
23788 TTTATATACT
Statistics
Matches: 149, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
82 148 0.99
83 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (82 bp):
TATTAATTTAGGCTTTAAATTTTTATTTTATTTCAATTTGATCCTACGAATTTTATAATTTAATA
TATATAACTATATAATG
Found at i:23779 original size:14 final size:14
Alignment explanation
Indices: 23762--23804 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
23752 CTATGAATTT
23762 TATAATTTAATATA
1 TATAATTTAATATA
*
23776 TATAACTTTATATTTA
1 TATAA-TTTA-ATATA
*
23792 TATACTTTAATAT
1 TATAATTTAATAT
23805 TTTATATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 8 0.33
15 8 0.33
16 8 0.33
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
TATAATTTAATATA
Found at i:23802 original size:30 final size:31
Alignment explanation
Indices: 23758--24330 Score: 126
Period size: 29 Copynumber: 18.8 Consensus size: 31
23748 GATCCTATGA
*
23758 ATTT-TATAATTTAATATATATA-ACTTTAT
1 ATTTATATACTTTAATATATATATACTTTAT
23787 ATTTATATACTTTAATATTTTATATTGTATAC-TTAT
1 ATTTATATACTTTAATA---TATA---TATACTTTAT
* *
23823 A-TTATATAATTTAATA-ATTTATA-TTATAT
1 ATTTATATACTTTAATATATATATACTT-TAT
* *
23852 ACTTATATACTTT-ATAT-TAAATA-TTTAT
1 ATTTATATACTTTAATATATATATACTTTAT
23880 ATTTATATACTTTAATACTTTATATGGTATACTTTAT
1 ATTTATATACTTTAATA---TATA---TATACTTTAT
*
23917 ATTTA-ATA-TTT-ATAT-TATATAGTTTAAT
1 ATTTATATACTTTAATATATATATACTTT-AT
* *
23945 ACTTTATAGTA-TATACT-T-TA-ATAC-TTAT
1 A-TTTATA-TACTTTAATATATATATACTTTAT
* *
23973 AACTTATATAC-AT-ATATATATATACTTTAT
1 -ATTTATATACTTTAATATATATATACTTTAT
* *
24003 AGTTTATATA---T-ATA-CT-TATAGTTTAT
1 A-TTTATATACTTTAATATATATATACTTTAT
* *
24029 AGTTTACATACTTATATATATTTATATAC-TTAT
1 A-TTTATATACTT-TA-ATATATATATACTTTAT
* * * *
24062 ACTT-TATAGTTTTATATATATATA-TGTAT
1 ATTTATATACTTTAATATATATATACTTTAT
* * * *
24091 ATATACTTATA-TTTATACTTTATATGTA-TATAT
1 ATTTA--TATACTTTA-A-TATATATATACTTTAT
* *
24124 ACTTATATACTTT-ATAT-TATATACTAAAACTAT
1 ATTTATATACTTTAATATATATATACT----TTAT
* * *
24157 ATATATATAATTTATAGTTTATATATAC-TTAT
1 ATTTATATACTTTA-A-TATATATATACTTTAT
* * * *
24189 ACTT-TATA-TGTATATATACTTTTATACTATAT
1 ATTTATATACTTTA-ATATA--TATATACTTTAT
*
24221 AGTTTATATACTTT--TATACTATATAGTTTAT
1 A-TTTATATACTTTAATATA-TATATACTTTAT
* *
24252 ATATATATA-TAT-ATATACT-TATACTTTAT
1 ATTTATATACTTTAATATA-TATATACTTTAT
* * *
24281 A-TTAT-TA-TAT-ATGTATATATAGTTTAT
1 ATTTATATACTTTAATATATATATACTTTAT
* *
24308 A-CTA-AAACTTT-ATATATATATAC
1 ATTTATATACTTTAATATATATATAC
24331 ACACACACAC
Statistics
Matches: 412, Mismatches: 65, Indels: 135
0.67 0.11 0.22
Matches are distributed among these distances:
26 20 0.05
27 35 0.08
28 56 0.14
29 65 0.16
30 59 0.14
31 42 0.10
32 28 0.07
33 42 0.10
34 11 0.03
35 20 0.05
36 15 0.04
37 19 0.05
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (31 bp):
ATTTATATACTTTAATATATATATACTTTAT
Found at i:23817 original size:7 final size:6
Alignment explanation
Indices: 23782--24283 Score: 105
Period size: 7 Copynumber: 76.3 Consensus size: 6
23772 TATATATAAC
*
23782 TTTATA TTTATATA CTTTAATA TTTTATA TTGTATA CTTATA TTATATAA
1 TTTATA -TT-TATA -TTT-ATA -TTTATA TT-TATA TTTATA TT-TAT-A
*
23832 TTTAATAA TTTATA TTATATA CTTATATA CTTTATA TTAAATA TTTATA
1 TTT-AT-A TTTATA TT-TATA -TT-TATA -TTTATA TT-TATA TTTATA
*
23881 TTTATATA CTTTAATA CTTTATA TGGTATA CTTTATA TTTAATA TTTATA
1 -TT-TATA -TTT-ATA -TTTATA T-TTATA -TTTATA TTT-ATA TTTATA
* * *
23931 TTATATA GTTTAATA CTTTATA GTATATA CTTTAATA CTTATAA CTTATA
1 TT-TATA -TTT-ATA -TTTATA -TTTATA -TTT-ATA TTTAT-A TTTATA
* * * * *
23981 --TACA TATATA TATATA CTTTATA GTTTATA TATATA CTTATA GTTTATA
1 TTTATA TTTATA TTTATA -TTTATA -TTTATA TTTATA TTTATA -TTTATA
*
24030 GTTTACATA CTTATA --TATA TTTATA TACTTATA CTTTATA GTTTTATA
1 -TTT--ATA TTTATA TTTATA TTTATA T--TTATA -TTTATA --TTTATA
* * * * * *
24078 TATATA TATGTA TATATA CTTATA TTTATA CTTTATA TGTATA --TATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA -TTTATA TTTATA TTTATA
* * * * *
24125 CTTATATA CTTTATA TTATATA CTAAAA CTATATA TATATAA TTTATA
1 -TT-TATA -TTTATA TT-TATA TTTATA -TTTATA TTTAT-A TTTATA
* * * *
24173 GTTTATA --TATA CTTATA CTTTATA TGTATA TATACT- TTTATA CTATATA
1 -TTTATA TTTATA TTTATA -TTTATA TTTATA TTTA-TA TTTATA -TTTATA
* * *
24222 GTTTATA --TACT- TTTATA CTATATA GTTTATA --TATA TATATA TATATA
1 -TTTATA TTTA-TA TTTATA -TTTATA -TTTATA TTTATA TTTATA TTTATA
*
24269 CTTATA CTTTATA TT
1 TTTATA -TTTATA TT
24284 ATTATATATG
Statistics
Matches: 387, Mismatches: 53, Indels: 111
0.70 0.10 0.20
Matches are distributed among these distances:
4 21 0.05
5 3 0.01
6 125 0.32
7 157 0.41
8 77 0.20
9 4 0.01
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.53
Consensus pattern (6 bp):
TTTATA
Found at i:23820 original size:22 final size:22
Alignment explanation
Indices: 23784--24285 Score: 147
Period size: 22 Copynumber: 24.0 Consensus size: 22
23774 TATATAACTT
* *
23784 TATATTTATATACTTTAATATTT
1 TATACTTATATACTTT-ATATTA
*
23807 TATA-TTGTATAC-TTATATTA
1 TATACTTATATACTTTATATTA
* *
23827 TATAATT-TAATAATTTATATTA
1 TATACTTAT-ATACTTTATATTA
23849 TATACTTATATACTTTATATTA
1 TATACTTATATACTTTATATTA
* *
23871 AATA-TT-TATA-TTTATATACTT
1 TATACTTATATACTTTATAT--TA
*
23892 TAATACTT-TATA-TGGTATACTT-
1 T-ATACTTATATACT-TTATA-TTA
*
23914 TATATTTA-ATA-TTTATATTA
1 TATACTTATATACTTTATATTA
* *
23934 TATAGTT-TAATACTTTATAGTA
1 TATACTTAT-ATACTTTATATTA
23956 TATACTT-TAATAC-TTATAACTTA
1 TATACTTAT-ATACTTTAT-A-TTA
* *
23979 TATACATATATA-TATATACTTTA
1 TATACTTATATACTTTATA--TTA
24002 TAGTTTA-TATATATAC-TTATAGTT-
1 TA---TACT-TATATACTTTATA-TTA
* *
24026 TATAGTTTACATAC-TTATA-TA
1 TATA-CTTATATACTTTATATTA
24047 TAT--TTATATAC-TTATACTT-
1 TATACTTATATACTTTATA-TTA
* * *
24066 TATAGTTTTATA-TATATA-TA
1 TATACTTATATACTTTATATTA
*
24086 TGTA--TATATAC-TTATATT-
1 TATACTTATATACTTTATATTA
*
24104 TATACTT-TATA---TGTA-TA
1 TATACTTATATACTTTATATTA
24121 TATACTTATATACTTTATATTA
1 TATACTTATATACTTTATATTA
* *
24143 TATAC-TA-AAACTATATA-TA
1 TATACTTATATACTTTATATTA
* *
24162 TATAATT-TATA-GTT-TA-TA
1 TATACTTATATACTTTATATTA
24180 TATAC-T-TATACTTTATATGTATA
1 TATACTTATATACTTTATA--T-TA
* *
24203 TATACTTTTATACTATATAGTTTA
1 TATACTTATATACTTTATA--TTA
* *
24227 TATACTTTTATACTATATAGTT-
1 TATACTTATATACTTTATA-TTA
24249 TATA--TATATA---TATA-TA
1 TATACTTATATACTTTATATTA
24265 TATACTTAT--ACTTTATATTA
1 TATACTTATATACTTTATATTA
24285 T
1 T
24286 TATATATGTA
Statistics
Matches: 374, Mismatches: 44, Indels: 125
0.69 0.08 0.23
Matches are distributed among these distances:
15 1 0.00
16 6 0.02
17 19 0.05
18 41 0.11
19 31 0.08
20 49 0.13
21 46 0.12
22 84 0.22
23 42 0.11
24 29 0.08
25 14 0.04
26 12 0.03
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.53
Consensus pattern (22 bp):
TATACTTATATACTTTATATTA
Found at i:23828 original size:35 final size:34
Alignment explanation
Indices: 23774--24300 Score: 184
Period size: 37 Copynumber: 14.6 Consensus size: 34
23764 TAATTTAATA
*
23774 TATATAACTTTATATTTATATACTTTAATATTTTATAT
1 TATAT-AC-TTATA-TTATATA-TTTAATACTTTATAT
* *
23812 TGTATACTTATATTATATAATTTAATAATTTATAT
1 TATATACTTATATTATAT-ATTTAATACTTTATAT
* *
23847 TATATACTTATATACTTTATATTAAATA-TTTATATT
1 TATATACTTATAT--TATATATTTAATACTTTATA-T
*
23883 TATATACTTTAATACTT-TATATGGT-ATACTTTATAT
1 TATATAC-TT-ATA-TTATATAT-TTAATACTTTATAT
* *
23919 T-TAATATTTATATTATATAGTTTAATACTTTATAG
1 TAT-ATACTTATATTATATA-TTTAATACTTTATAT
* *
23954 TATATACTTTAATACTTATA-ACTTATATAC-ATATAT
1 TATATAC-TT-ATA-TTATATATTTA-ATACTTTATAT
* *
23990 ATATATACTTTATAGTTTATATATATACTTATAGTTTATAGTT
1 -TATATAC-TTATA--TTATATAT-T--TAATACTTTATA--T
*
24033 TACATAC-T-TA-TATATATTTATATAC-TTATACT
1 TATATACTTATATTATATATTTA-ATACTTTATA-T
*
24065 T-TATAGTTTTATATATATATATGTATATATAC-TTATAT
1 TATATA--CTTATAT-TATATAT-T-TA-ATACTTTATAT
24103 T-TATACTTTATATGTATATATACTTATATACTTTATAT
1 TATATAC-TTATAT-TATATAT--TTA-ATACTTTATAT
* * * * *
24141 TATATACTAAAACTATATATAT-ATAATTTATAGTTT
1 TATATACTTATATTATATATTTAATACTTTATA---T
*
24177 ATATATACTTATACTT-TATATGTATATATACTTTTATAC
1 -TATATACTTATA-TTATATAT-T-TA-ATAC-TTTATAT
* *
24216 TATATAGTT-TA-TATACT-TTT-ATACTATATAGTT
1 TATATACTTATATTATA-TATTTAATACTTTATA--T
*
24249 TATATA-TATATATATATATACTT-ATACTTTATAT
1 TATATACT-TATAT-TATATATTTAATACTTTATAT
24283 TAT-TA--TATATGTATATAT
1 TATATACTTATAT-TATATAT
24301 AGTTTATACT
Statistics
Matches: 384, Mismatches: 46, Indels: 125
0.69 0.08 0.23
Matches are distributed among these distances:
31 19 0.05
32 7 0.02
33 26 0.07
34 19 0.05
35 63 0.16
36 73 0.19
37 90 0.23
38 40 0.10
39 22 0.06
40 4 0.01
41 8 0.02
42 12 0.03
43 1 0.00
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (34 bp):
TATATACTTATATTATATATTTAATACTTTATAT
Found at i:23912 original size:50 final size:49
Alignment explanation
Indices: 23857--23952 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 49
23847 TATATACTTA
23857 TATACTTTATATTAAATATTTATATTTATATACTTTAATACTTTATATGG
1 TATACTTTATATTAAATATTTATA-TTATATACTTTAATACTTTATATGG
* *
23907 TATACTTTATATTTAATATTTATATTATATAGTTTAATACTTTATA
1 TATACTTTATATTAAATATTTATATTATATACTTTAATACTTTATA
23953 GTATATACTT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 21 0.48
50 23 0.52
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.55
Consensus pattern (49 bp):
TATACTTTATATTAAATATTTATATTATATACTTTAATACTTTATATGG
Found at i:23929 original size:85 final size:81
Alignment explanation
Indices: 23831--24069 Score: 234
Period size: 85 Copynumber: 2.9 Consensus size: 81
23821 ATATTATATA
*
23831 ATTTAATAATTTATATTATATACTTATATACTTTATATTAAATATTTATATTTATATACTTTAAT
1 ATTTAAT-ATTTATATTATATAGTT-TATACTTTATA-TAAATATTTATATTTATATAC-TTAAT
*
23896 ACTTTATATGGTATACTTTAT
62 ACTTTATAT-ATATACTTTAT
* *
23917 ATTTAATATTTATATTATATAGTTTAATACTTTATAGTATATACTTTAATACTTATA-ACTTATA
1 ATTTAATATTTATATTATATAGTTT-ATACTTTATA-TAAATA-TTT-ATATTTATATACTTA-A
*
23981 TACATATATATATATACTTTAT
61 TAC-TTTATATATATACTTTAT
* * * * ** *
24003 AGTTT-ATATATATACT-TATAGTTTATAGTTTACATACTTATATATATTTATATACTT-ATACT
1 A-TTTAATATTTATATTATATAGTTTATACTTTATATAAATATTTATATTTATATACTTAATACT
24065 TTATA
65 TTATA
24070 GTTTTATATA
Statistics
Matches: 131, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
79 5 0.04
80 4 0.03
81 8 0.06
82 6 0.05
83 4 0.03
84 9 0.07
85 42 0.32
86 36 0.27
87 17 0.13
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (81 bp):
ATTTAATATTTATATTATATAGTTTATACTTTATATAAATATTTATATTTATATACTTAATACTT
TATATATATACTTTAT
Found at i:23935 original size:107 final size:106
Alignment explanation
Indices: 23771--24027 Score: 276
Period size: 107 Copynumber: 2.4 Consensus size: 106
23761 TTATAATTTA
*
23771 ATATATATA-ACTTTATA-TTTATATACTTTAATATTTTATATTGT-ATACTTATATTATATAAT
1 ATATATATATACTTTATACTTTATATA---T-ATACTTTATATT-TAATACTTATATTATATAAT
* **
23833 TTAATAATTTATATTATATAC-TTATATACTT-TATA-TTAAATATTT
61 TTAATAATTTATAGTATATACTTTA-ATACTTATA-ACTTAAATACAT
* * * *
23878 ATATTTATATACTTTAATACTTTATATGGTATACTTTATATTTAATATTTATATTATATAGTTTA
1 ATATATATATACTTT-ATACTTTATAT-ATATACTTTATATTTAATACTTATATTATATAATTTA
* *
23943 ATACTTTATAGTATATACTTTAATACTTATAACTTATATACAT
64 ATAATTTATAGTATATACTTTAATACTTATAACTTAAATACAT
*
23986 ATATATATATACTTTATAGTTTATATATATAC-TTATAGTTTA
1 ATATATATATACTTTATACTTTATATATATACTTTATA-TTTA
24028 TAGTTTACAT
Statistics
Matches: 128, Mismatches: 13, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
105 5 0.04
106 10 0.08
107 71 0.55
108 32 0.25
109 3 0.02
110 7 0.05
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (106 bp):
ATATATATATACTTTATACTTTATATATATACTTTATATTTAATACTTATATTATATAATTTAAT
AATTTATAGTATATACTTTAATACTTATAACTTAAATACAT
Found at i:23947 original size:93 final size:91
Alignment explanation
Indices: 23783--24283 Score: 298
Period size: 93 Copynumber: 5.5 Consensus size: 91
23773 ATATATAACT
* *
23783 TTATATTTATATACTTTA-ATATTTTATATTGTATACTTATATTATATAATTTAATAATTTATA-
1 TTATATTTATATACTTTATATA-TATATA-TGTATACTTATATT-TAT-ATTT-ATACTTTATAG
*
23846 -TTATATACTTATATACTTTATATTAAATAT
61 TTTATATACTTATATACTTTATATTAAATAC
*
23876 TTATATTTATATACTTTA-ATACTTTATATGGTATACTTTATATTTAATATTTATA-TTATATAG
1 TTATATTTATATACTTTATATA-TATATAT-GTATAC-TTATATTT-ATATTTATACTT-TATAG
* * *
23939 TTTA-ATACTT-TATAGTATATACTTTAATAC
61 TTTATATACTTATATACTTTATA-TTAAATAC
* * * * * * *
23969 TTATAACTTATATAC-ATATATATATATACTTTATAGTTTATATATATACTTATAGTTTATAGTT
1 TTAT-ATTTATATACTTTATATATATATA-TGTATA-CTTATATTTATATTTATACTTTATAGTT
* *
24033 TACATACTTATATA---TAT-TTATATAC
63 TATATACTTATATACTTTATATTAAATAC
* *
24058 TTATACTTTATAGT--TTTATATATATATATGTATA--TATACTTATATTTATACTTTATATGTA
1 TTATA-TTTATA-TACTTTATATATATATATGTATACTTATATTTATATTTATACTTTATA-GTT
*
24119 TATATACTTATATACTTTATATTATATAC
63 TATATACTTATATACTTTATATTAAATAC
* * * * * * * * *
24148 TAAAACTATATATA-TATAATTTATAGTTTATATATACTTATACTTTATATGTATA---TATACT
1 TTATA-TTTATATACT-TTATATATA-TATATGTATACTTATA-TTTATATTTATACTTTATAGT
* * *
24209 TT-TATAC-TATATAGTTTATA-T-ACT-T
62 TTATATACTTATATACTTTATATTAAATAC
* * *
24234 TTATA-CTATATAGTTTATATATATATATATATATACTTATACTTTATATT
1 TTATATTTATATA-CTT-TATATATATATATGTATACTTATA-TTTATATT
24284 ATTATATATG
Statistics
Matches: 332, Mismatches: 45, Indels: 70
0.74 0.10 0.16
Matches are distributed among these distances:
84 6 0.02
85 43 0.13
86 25 0.08
87 1 0.00
88 7 0.02
89 43 0.13
90 24 0.07
91 14 0.04
92 46 0.14
93 80 0.24
94 33 0.10
95 10 0.03
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.53
Consensus pattern (91 bp):
TTATATTTATATACTTTATATATATATATGTATACTTATATTTATATTTATACTTTATAGTTTAT
ATACTTATATACTTTATATTAAATAC
Found at i:23960 original size:49 final size:49
Alignment explanation
Indices: 23855--24019 Score: 172
Period size: 49 Copynumber: 3.2 Consensus size: 49
23845 ATTATATACT
23855 TATATACTTTATATTAAATATTTATATTTATATACTTTAATACTTTATA
1 TATATACTTTATATTAAATATTTATATTTATATACTTTAATACTTTATA
* * *
23904 TGGTATACTTTATATTTAATATTTATA-TTATATAGTTTAATACTTTATA
1 T-ATATACTTTATATTAAATATTTATATTTATATACTTTAATACTTTATA
* *
23953 GTATATACTTTAATACTTATAACTTATATACATATATATATATACTTT-ATAGTTTATA
1 -TATATACTTT-ATA-TTA-AA--TAT-T---TATATTTATATACTTTAATACTTTATA
24011 TATATACTT
1 TATATACTT
24020 ATAGTTTATA
Statistics
Matches: 96, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
49 30 0.31
50 27 0.28
51 2 0.02
52 2 0.02
54 3 0.03
55 1 0.01
57 9 0.09
58 13 0.14
59 9 0.09
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (49 bp):
TATATACTTTATATTAAATATTTATATTTATATACTTTAATACTTTATA
Found at i:23989 original size:2 final size:2
Alignment explanation
Indices: 23977--24620 Score: 100
Period size: 2 Copynumber: 316.0 Consensus size: 2
23967 ACTTATAACT
* * *
23977 TA TA TA CA TA TA TA TA TA TA CTT TA TA GTT TA TA TA TA TA CT-
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA
* * * *
24019 TA TA GTT TA TA GTT TA CA TA CT- TA TA TA TA TT TA TA TA CT- TA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
* * *
24061 TA CTT TA TA GT- TT TA TA TA TA TA TA TG TA TA TA TA CT- TA TA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
24102 TT TA TA CTT TA TA TG TA TA TA TA CT- TA TA TA CTT TA TA T- TA
1 TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA
* * *
24143 TA TA CTA -A AA CTA TA TA TA TA TA -A TT TA TA GTT TA TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
24184 CT- TA TA CTT TA TA TG TA TA TA TA CT- TT TA TA CTA TA TA GTT TA
1 -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA
* *
24227 TA TA CT- TT TA TA CTA TA TA GTT TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * *
24269 CT- TA TA CTT TA TA T- TA T- TA TA TA TG TA TA TA TA GTT TA TA
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * * * *
24309 CTA -A AA CTT TA TA TA TA TA TA CA CA CA CA CA CT- TA TA TA TA
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* *
24350 TA TA TA CT- TA TA TT TA GTA CT- TA TA TA T- TT TA TA TA -A GTA
1 TA TA TA -TA TA TA TA TA -TA -TA TA TA TA TA TA TA TA TA TA -TA
* * * * * *
24390 TA TA CTT TA TA T- TA TA TGC T- TA CA TA CTT TA GTC TT TA TA -A
1 TA TA -TA TA TA TA TA TA T-A TA TA TA TA -TA TA -TA TA TA TA TA
*
24431 T- TA TA CTT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
24473 TA CT- TA TA CTT TT TA T- TA T- TA TA TA TG TA TA TA TA CTT TA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
24513 TA TA CT- TA CA TA CTT TA T- TC TT TA TA -A T- TA TA CTT TA TA
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
24552 TA TA TA -A TA TA CT- TA TA CTT TA TA T- TA T- TA TA TA TG TG TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* *
24592 TA TGA TT TT TA TA TA TA TA TA TA TA TA TA
1 TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
24621 CATTCTTTAA
Statistics
Matches: 470, Mismatches: 89, Indels: 166
0.65 0.12 0.23
Matches are distributed among these distances:
1 36 0.08
2 382 0.81
3 52 0.11
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24056 original size:8 final size:8
Alignment explanation
Indices: 23760--24620 Score: 135
Period size: 8 Copynumber: 110.0 Consensus size: 8
23750 TCCTATGAAT
23760 TTTATA-A
1 TTTATATA
23767 TTTA-ATA
1 TTTATATA
*
23774 TATATA-A
1 TTTATATA
*
23781 CTT-TATA
1 TTTATATA
23788 TTTATATA
1 TTTATATA
23796 CTTTA-ATA
1 -TTTATATA
23804 TTT-TATA
1 TTTATATA
23811 TTGTATACTTA
1 TT-TATA--TA
23822 TATTATATAA
1 T-TTATAT-A
23832 TTTA-ATA
1 TTTATATA
*
23839 ATT-TATA
1 TTTATATA
23846 -TTATATA
1 TTTATATA
*
23853 CTTATATA
1 TTTATATA
*
23861 CTT-TATA
1 TTTATATA
*
23868 -TTAAATA
1 TTTATATA
23875 -TT-TATA
1 TTTATATA
23881 TTTATATA
1 TTTATATA
23889 CTTTA-ATA
1 -TTTATATA
*
23897 CTT-TATA
1 TTTATATA
**
23904 -TGGTATA
1 TTTATATA
*
23911 CTT-TATA
1 TTTATATA
23918 TTTA-ATA
1 TTTATATA
23925 -TT-TATA
1 TTTATATA
23931 -TTATATA
1 TTTATATA
23938 GTTTA-ATA
1 -TTTATATA
*
23946 CTT-TATA
1 TTTATATA
*
23953 -GTATATA
1 TTTATATA
23960 CTTTA-ATA
1 -TTTATATA
*
23968 CTTATA-A
1 TTTATATA
*
23975 CTTATATA
1 TTTATATA
*
23983 --CATATA
1 TTTATATA
*
23989 TATATATA
1 TTTATATA
*
23997 CTTTATA-G
1 -TTTATATA
24005 TTTATATA
1 TTTATATA
*
24013 TATACTTATA
1 TTTA--TATA
*
24023 GTTTATA-G
1 -TTTATATA
*
24031 TTTACATA
1 TTTATATA
24039 CTTATATATA
1 -TT-TATATA
24049 TTTATATA
1 TTTATATA
* *
24057 CTTATA-C
1 TTTATATA
24064 TTTATAGT-
1 TTTATA-TA
24072 TTTATATA
1 TTTATATA
24080 --TATATA
1 TTTATATA
*
24086 TGTATATA
1 TTTATATA
*
24094 TACT-TATA
1 T-TTATATA
*
24102 TTTATA-C
1 TTTATATA
*
24109 TTTATATG
1 TTTATATA
*
24117 TATATATA
1 TTTATATA
*
24125 CTTATATA
1 TTTATATA
24133 CTTTATATTA
1 -TTTATA-TA
* *
24143 TATACTAAA
1 TTTA-TATA
**
24152 ACTATATA
1 TTTATATA
*
24160 TATATA-A
1 TTTATATA
24167 TTTATAGT-
1 TTTATA-TA
24175 TTATATATA
1 TT-TATATA
* *
24184 CTTATA-C
1 TTTATATA
*
24191 TTTATATG
1 TTTATATA
*
24199 TATATATA
1 TTTATATA
24207 CTTT-TATA
1 -TTTATATA
*
24215 -CTATATA
1 TTTATATA
24222 GTTTATATA
1 -TTTATATA
24231 CTTT-TATA
1 -TTTATATA
*
24239 -CTATATA
1 TTTATATA
24246 GTTTATATA
1 -TTTATATA
24255 --TATATA
1 TTTATATA
*
24261 TATATATA
1 TTTATATA
* *
24269 CTTATA-C
1 TTTATATA
24276 TTTATAT-
1 TTTATATA
24283 TATTATATA
1 T-TTATATA
24292 TGTATATATA
1 T-T-TATATA
24302 GTTTATACTAAAA
1 -TTTATA-T---A
24315 CTTTATATA
1 -TTTATATA
* *
24324 TATATACA
1 TTTATATA
*** * *
24332 CACACACA
1 TTTATATA
*
24340 CTTATATA
1 TTTATATA
*
24348 TATATATA
1 TTTATATA
*
24356 -CT-TATA
1 TTTATATA
*
24362 TTTA-GTA
1 TTTATATA
*
24369 CTTATATA
1 TTTATATA
24377 TTTTATATA
1 -TTTATATA
**
24386 AGTATATA
1 TTTATATA
*
24394 CTT-TATA
1 TTTATATA
*
24401 -TTATATG
1 TTTATATA
* *
24408 CTTACATA
1 TTTATATA
* *
24416 CTTTA-GTC
1 -TTTATATA
24424 TTTATA-A
1 TTTATATA
*
24431 -TTATA-C
1 TTTATATA
24437 TTTATATA
1 TTTATATA
24445 --TATATA
1 TTTATATA
*
24451 TATATATA
1 TTTATATA
*
24459 TATATATA
1 TTTATATA
*
24467 TATATATA
1 TTTATATA
* *
24475 CTTATACTT
1 TTTATA-TA
24484 TTTAT-TA
1 TTTATATA
24491 -TTATATA
1 TTTATATA
24498 TGTATATATA
1 T-T-TATATA
24508 CTTTATATA
1 -TTTATATA
* *
24517 CTTACATA
1 TTTATATA
*
24525 CTTTAT-TC
1 -TTTATATA
24533 TTTATA-A
1 TTTATATA
*
24540 -TTATA-C
1 TTTATATA
24546 TTTATATA
1 TTTATATA
*
24554 TATAATATA
1 T-TTATATA
* *
24563 CTTATA-C
1 TTTATATA
24570 TTTATAT-
1 TTTATATA
24577 TATTATATA
1 T-TTATATA
24586 TGTGTATATGA
1 T-T-TATAT-A
*
24597 TTTTTATA
1 TTTATATA
*
24605 TATATATA
1 TTTATATA
*
24613 TATATATA
1 TTTATATA
24621 CATTCTTTAA
Statistics
Matches: 632, Mismatches: 117, Indels: 209
0.66 0.12 0.22
Matches are distributed among these distances:
6 64 0.10
7 174 0.28
8 227 0.36
9 108 0.17
10 36 0.06
11 14 0.02
12 2 0.00
13 7 0.01
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (8 bp):
TTTATATA
Found at i:24458 original size:109 final size:107
Alignment explanation
Indices: 24342--24562 Score: 290
Period size: 109 Copynumber: 2.0 Consensus size: 107
24332 CACACACACT
* *
24342 TATATATATATATACTTATATTTAGTACTTATA-TATTTTA-TA-TA-AGTATATACTTTATA-T
1 TATATATATATATA--TATATATA-TACTTATACT-TTTTATTATTATA-TATATA-TATATACT
*
24402 TATATGCTTACATACTTTAGTCTTTATAATTATACTTTATATATATATA
60 TATATACTTACATACTTTAGTCTTTATAATTATACTTTATATATATA-A
*
24451 TATATATATATATATATATATATACTTATACTTTTTATTATTATATATGTATATATACTTTATAT
1 TATATATATATATATATATATATACTTATACTTTTTATTATTATATATATATATATAC-TTATAT
*
24516 ACTTACATACTTTATTCTTTATAATTATACTTTATATATATAA
65 ACTTACATACTTTAGTCTTTATAATTATACTTTATATATATAA
24559 TATA
1 TATA
24563 CTTATACTTT
Statistics
Matches: 101, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
106 13 0.13
107 15 0.15
108 12 0.12
109 61 0.60
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (107 bp):
TATATATATATATATATATATATACTTATACTTTTTATTATTATATATATATATATACTTATATA
CTTACATACTTTAGTCTTTATAATTATACTTTATATATATAA
Found at i:24604 original size:109 final size:108
Alignment explanation
Indices: 24342--24616 Score: 282
Period size: 109 Copynumber: 2.5 Consensus size: 108
24332 CACACACACT
* * *
24342 TATATATATATATACT-TATATTTAGTACTTATA-TAT-TTTA-TATA-AGTATATACTTTA-TA
1 TATATATATATATA-TATATATATA-TACTTATACTATGATTATTATATA-TATATA-TATACT-
*
24401 TTATATGCTTACATACTTTAGTCTTTATAATTATACTTTATATATATA
61 TTATATACTTACATACTTTAGTCTTTATAATTATACTTTATATATATA
* * *
24449 TATATATATATATATATATATATATACTTATACTTTTTATTATTATATATGTATATATACTTTAT
1 TATATATATATATATATATATATATACTTATAC-TATGATTATTATATATATATATATACTTTAT
*
24514 ATACTTACATACTTTATTCTTTATAATTATACTTTATATATATA
65 ATACTTACATACTTTAGTCTTTATAATTATACTTTATATATATA
* * *
24558 -ATATACT-TATACTTTATATTATTATATA-TGTGTA-TATGATTTTTATATATATATATATA
1 TATATA-TATATA-TATATA-TA-TATATACT-TATACTATGATTATTATATATATATATATA
24617 TATACATTCT
Statistics
Matches: 143, Mismatches: 13, Indels: 22
0.80 0.07 0.12
Matches are distributed among these distances:
106 9 0.06
107 21 0.15
108 11 0.08
109 79 0.55
110 13 0.09
111 10 0.07
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (108 bp):
TATATATATATATATATATATATATACTTATACTATGATTATTATATATATATATATACTTTATA
TACTTACATACTTTAGTCTTTATAATTATACTTTATATATATA
Found at i:25051 original size:16 final size:16
Alignment explanation
Indices: 25012--25043 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25002 TGGTAATATG
25012 AGTCAGGTAAATGTCA
1 AGTCAGGTAAATGTCA
25028 AGTCAGGTAAATGTCA
1 AGTCAGGTAAATGTCA
25044 GATCAGGTCA
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:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
AGTCAGGTAAATGTCA
Found at i:25548 original size:11 final size:11
Alignment explanation
Indices: 25527--25564 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25517 CTTAATTATT
25527 TAAAGAATTAAA
1 TAAA-AATTAAA
25539 TAAAAATTAAA
1 TAAAAATTAAA
*
25550 TAAAAAATAAA
1 TAAAAATTAAA
25561 -AAAA
1 TAAAA
25565 TTTAGGTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (11 bp):
TAAAAATTAAA
Found at i:27325 original size:23 final size:23
Alignment explanation
Indices: 27298--27353 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
27288 ACAATTATGA
27298 GAATTATCTTTTGCAA-TTTTAGG
1 GAATTATCTTTTGCAATTTTTA-G
*
27321 GAATTATCTTTTGTAATTTTTAG
1 GAATTATCTTTTGCAATTTTTAG
27344 GAATTATCTT
1 GAATTATCTT
27354 GAGCATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 26 0.84
24 5 0.16
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.52
Consensus pattern (23 bp):
GAATTATCTTTTGCAATTTTTAG
Found at i:27363 original size:23 final size:24
Alignment explanation
Indices: 27298--27364 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 24
27288 ACAATTATGA
**
27298 GAATTATCTTTTGCAA-TTTTAGG
1 GAATTATCTTGAGCAATTTTTAGG
** *
27321 GAATTATCTTTTGTAATTTTTA-G
1 GAATTATCTTGAGCAATTTTTAGG
27344 GAATTATCTTGAGC-ATTTTTA
1 GAATTATCTTGAGCAATTTTTA
27365 AGGTTTTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
22 7 0.18
23 27 0.69
24 5 0.13
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (24 bp):
GAATTATCTTGAGCAATTTTTAGG
Found at i:33705 original size:66 final size:66
Alignment explanation
Indices: 33622--33749 Score: 195
Period size: 66 Copynumber: 1.9 Consensus size: 66
33612 TTTATGAAGA
* * *
33622 CTCTGACAGGTTCAGTCGCTACTGGTAATTCCTTATATAGGTT-CTGCACCGACTGGTAATTCCT
1 CTCTGACAGGTTCAGTCGCTACTGATAATTCCTTATATAGGTTAAT-CACCGACAGGTAATTCCT
33686 AT
65 AT
* *
33688 CTCTGGCAGGTTCAGTCGCTACTGATAATTCCTTTTATAGGTTAATCACCGACAGGTAATTC
1 CTCTGACAGGTTCAGTCGCTACTGATAATTCCTTATATAGGTTAATCACCGACAGGTAATTC
33750 TTTATGGACT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 55 0.98
67 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (66 bp):
CTCTGACAGGTTCAGTCGCTACTGATAATTCCTTATATAGGTTAATCACCGACAGGTAATTCCTA
T
Found at i:33807 original size:31 final size:31
Alignment explanation
Indices: 33772--33841 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
33762 AGGCAACCCT
* * *
33772 TGGGTAGGCTATGCGGCCCCGAGATCTTTCA
1 TGGGTAGGCCACGCGGCCCCGAGAACTTTCA
* * *
33803 TGGGTAGGCCCCGTGGCCCCGAGAACTTTCT
1 TGGGTAGGCCACGCGGCCCCGAGAACTTTCA
33834 TGGGTAGG
1 TGGGTAGG
33842 ATCTTAGGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.14, C:0.26, G:0.36, T:0.24
Consensus pattern (31 bp):
TGGGTAGGCCACGCGGCCCCGAGAACTTTCA
Found at i:34719 original size:22 final size:22
Alignment explanation
Indices: 34683--34762 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
34673 TTTTATAAGT
* *
34683 TATAT-ATTTAAATATAATTCA
1 TATATAATTTATATATAATACA
34704 TATATAATTTATATATAA-AC-
1 TATATAATTTATATATAATACA
*
34724 TATATAATTTATAT-TAATAAA
1 TATATAATTTATATATAATACA
*
34745 CTATATAGTTTATATATA
1 -TATATAATTTATATATA
34763 GTTCAATAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.06
20 15 0.30
21 6 0.12
22 24 0.48
23 2 0.04
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (22 bp):
TATATAATTTATATATAATACA
Found at i:34727 original size:20 final size:20
Alignment explanation
Indices: 34704--34878 Score: 98
Period size: 20 Copynumber: 8.8 Consensus size: 20
34694 ATATAATTCA
34704 TATATAATTTATATATAAAC
1 TATATAATTTATATATAAAC
34724 TATATAATTTATATTAATAAAC
1 TATATAATTTATA-T-ATAAAC
* **
34746 TATATAGTTTATATAT-AGT
1 TATATAATTTATATATAAAC
34765 TCA-ATAGA-TTATATATAAAC
1 T-ATATA-ATTTATATATAAAC
* * * **
34785 TCTATAGTTTATACATGGTA-
1 TATATAATTTATATAT-AAAC
* * **
34805 TATATAGTTTATACATAATG
1 TATATAATTTATATATAAAC
*
34825 TATATATAGTTTATATAT--AG
1 TATATA-A-TTTATATATAAAC
34845 TATATAA--TA-ATATAAAC
1 TATATAATTTATATATAAAC
*
34862 TATATAGTTTATATATA
1 TATATAATTTATATATA
34879 TATACTTATA
Statistics
Matches: 119, Mismatches: 20, Indels: 32
0.70 0.12 0.19
Matches are distributed among these distances:
15 4 0.03
16 2 0.02
17 7 0.06
19 16 0.13
20 61 0.51
21 3 0.03
22 26 0.22
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (20 bp):
TATATAATTTATATATAAAC
Found at i:34817 original size:11 final size:11
Alignment explanation
Indices: 34803--34878 Score: 64
Period size: 11 Copynumber: 6.7 Consensus size: 11
34793 TTATACATGG
34803 TATATATAGTT
1 TATATATAGTT
* * *
34814 TATACATAATG
1 TATATATAGTT
34825 TATATATAGTT
1 TATATATAGTT
*
34836 TATATATAGTA
1 TATATATAGTT
*
34847 TATAATAATA-TA
1 TAT-AT-ATAGTT
*
34859 AACTATATAGTT
1 TA-TATATAGTT
34871 TATATATA
1 TATATATA
34879 TATACTTATA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
11 38 0.75
12 9 0.18
13 4 0.08
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.46
Consensus pattern (11 bp):
TATATATAGTT
Found at i:34874 original size:24 final size:22
Alignment explanation
Indices: 34838--34910 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 22
34828 ATATAGTTTA
*
34838 TATATAGTATATAATAATATAAAC
1 TATATAGTTTAT-AT-ATATAAAC
*
34862 TATATAGTTTATATATATATAC
1 TATATAGTTTATATATATAAAC
* * *
34884 T-TATACTTTATGTATATATAC
1 TATATAGTTTATATATATAAAC
*
34905 TTTATA
1 TATATA
34911 TACTTAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.43
22 12 0.27
23 2 0.05
24 11 0.25
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.48
Consensus pattern (22 bp):
TATATAGTTTATATATATAAAC
Found at i:34905 original size:15 final size:15
Alignment explanation
Indices: 34875--35304 Score: 151
Period size: 15 Copynumber: 29.4 Consensus size: 15
34865 ATAGTTTATA
34875 TATATATACTTATACTT
1 TATATATA--TATACTT
*
34892 TATGTATATATACTT
1 TATATATATATACTT
*
34907 TATATACTTAAATACTT
1 TATATA--TATATACTT
34924 TATAT-TATATAC-T
1 TATATATATATACTT
*
34937 TATATACTTTAGT-CTT
1 TATATA-TATA-TACTT
34953 TATA-AT-TATACTT
1 TATATATATATACTT
* *
34966 TCTATACTTTATA-TT
1 TATATA-TATATACTT
34981 TA-ATACTTATATACTT
1 TATATA--TATATACTT
*
34997 TATAT-TAT-TA-TA
1 TATATATATATACTT
*
35009 TATGTATATATACTT
1 TATATATATATACTT
*
35024 TATATTTA-ATAC-T
1 TATATATATATACTT
* *
35037 TATGTAT-TTTA-TAT
1 TATATATATATACT-T
*
35051 TATATACTTATATAATT
1 TATATA--TATATACTT
*
35068 TATAT-TATATGC-T
1 TATATATATATACTT
*
35081 TATATACTTTAGT-CTT
1 TATATA-TATA-TACTT
35097 TATA-AT-TATACTT
1 TATATATATATACTT
35110 TATATATATATA---
1 TATATATATATACTT
*
35122 -ATATACT-TATATTT
1 TATATA-TATATACTT
*
35136 TATAT-TAT-TA-TA
1 TATATATATATACTT
*
35148 TATGTATATATA-TT
1 TATATATATATACTT
*
35162 T-TATACTA-AGACTT
1 TATATA-TATATACTT
35176 TATATATATATA-TAT
1 TATATATATATACT-T
* *
35191 ATATATAATTTATAGTT
1 -TATAT-ATATATACTT
35208 TATATATATATACTT
1 TATATATATATACTT
**
35223 T-TACT-T-TATTGTT
1 TATA-TATATATACTT
35236 TATATATATATA-TAT
1 TATATATATATACT-T
* * *
35251 ATACACATACTTATATTT
1 -TATATATA--TATACTT
35269 TATATGTATATATACTT
1 TATA--TATATATACTT
35286 TATAT-TATATAC-T
1 TATATATATATACTT
35299 TATATA
1 TATATA
35305 CTTTAGTCTT
Statistics
Matches: 316, Mismatches: 39, Indels: 119
0.67 0.08 0.25
Matches are distributed among these distances:
11 9 0.03
12 13 0.04
13 66 0.21
14 61 0.19
15 68 0.22
16 37 0.12
17 51 0.16
18 7 0.02
19 4 0.01
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.54
Consensus pattern (15 bp):
TATATATATATACTT
Found at i:34923 original size:8 final size:8
Alignment explanation
Indices: 34898--35307 Score: 124
Period size: 7 Copynumber: 55.1 Consensus size: 8
34888 ACTTTATGTA
34898 TATATACTT
1 TATATAC-T
34907 TATATACT
1 TATATACT
*
34915 TAAATACT
1 TATATACT
34923 T-TATA-T
1 TATATACT
34929 TATATACT
1 TATATACT
34937 TATATACT
1 TATATACT
34945 T-TAGT-CT
1 TATA-TACT
*
34952 T-TATA-A
1 TATATACT
34958 T-TATACTT
1 TATATAC-T
*
34966 TCTATACT
1 TATATACT
*
34974 T-TATATT
1 TATATACT
34981 TA-ATACT
1 TATATACT
34988 TATATACTT
1 TATATAC-T
34997 TATATTA-T
1 TATA-TACT
*
35005 TATATATGT
1 TATATA-CT
35014 ATATATACT
1 -TATATACT
*
35023 T-TATATT
1 TATATACT
35030 TA-ATACT
1 TATATACT
*
35037 TATGTA-T
1 TATATACT
*
35044 TTTATA-T
1 TATATACT
35051 TATATACT
1 TATATACT
*
35059 TATATAAT
1 TATATACT
35067 T-TATA-T
1 TATATACT
*
35073 TATATGCT
1 TATATACT
35081 TATATACT
1 TATATACT
35089 T-TAGT-CT
1 TATA-TACT
*
35096 T-TATA-A
1 TATATACT
35102 T-TATACT
1 TATATACT
35109 T-TATA--
1 TATATACT
35114 TATATA-T
1 TATATACT
*
35121 AATATACT
1 TATATACT
*
35129 TATAT-TT
1 TATATACT
35136 TATATTA-T
1 TATA-TACT
35144 TATATA-T
1 TATATACT
*
35151 GTATATATAT
1 -TATATA-CT
*
35161 TTTATAC-
1 TATATACT
*
35168 TA-AGACTT
1 TATATAC-T
35176 TATATA-T
1 TATATACT
35183 ATATATA-T
1 -TATATACT
*
35191 ATATATAAT
1 -TATATACT
*
35200 T-TATAGT
1 TATATACT
35207 T-TATA-T
1 TATATACT
35213 ATATATACT
1 -TATATACT
35222 T-T-TACT
1 TATATACT
**
35228 T-TATTGT
1 TATATACT
35235 T-TATA--
1 TATATACT
35240 TATATA-T
1 TATATACT
35247 ATATATAC-
1 -TATATACT
*
35255 -ACATACT
1 TATATACT
*
35262 TATAT-TT
1 TATATACT
*
35269 TATAT-GT
1 TATATACT
35276 ATATATACT
1 -TATATACT
35285 T-TATA-T
1 TATATACT
35291 TATATACT
1 TATATACT
35299 TATATACT
1 TATATACT
35307 T
1 T
35308 TAGTCTTTAT
Statistics
Matches: 317, Mismatches: 35, Indels: 99
0.70 0.08 0.22
Matches are distributed among these distances:
5 2 0.01
6 41 0.13
7 118 0.37
8 118 0.37
9 29 0.09
10 9 0.03
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.54
Consensus pattern (8 bp):
TATATACT
Found at i:35083 original size:144 final size:140
Alignment explanation
Indices: 34862--35306 Score: 450
Period size: 144 Copynumber: 3.2 Consensus size: 140
34852 TAATATAAAC
* * * * * * *
34862 TATATA-GTTTATATA-TATATACTTATACTTTATGTATATATACT-TTATATACTTAAATACTT
1 TATATATGTATATATACTTTATACTAAGACTTTATATATATATA-TATTATATACTTATATAATT
* * *
34924 TATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTCTATACTTTATATTTAATACTT
65 TATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATA-TATATA-AT-ATACTT
34989 ATATACTTTATATTAT
127 ATAT--TTTATATTAT
* * * *
35005 TATATATGTATATATACTTTATATTTAATAC-TTATGTAT-TTTATATTATATACTTATATAATT
1 TATATATGTATATATACTTTATA-CTAAGACTTTATATATATATATATTATATACTTATATAATT
*
35068 TATATTATATGCTTATATACTTTAGTCTTTATAATTATACTTTATATATATATAATATACTTATA
65 TATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATATATATAATATACTTATA
35133 TTTTATATTAT
130 TTTTATATTAT
* * *
35144 TATATATGTATATATATTTTATACTAAGACTTTATATATATATATATATATATAATT-TATAGTT
1 TATATATGTATATATACTTTATACTAAGACTTTATATATATATATAT-TATATACTTATATAATT
* * * *
35208 TATATATATATACTT-T-TACTTTATTGTTTAT-A-TATA---TATATATATA-CACATACTTAT
65 TATAT-TATATACTTATATACTTTAGTCTTTATAATTATACTTTATATATATATAATATACTTAT
35265 ATTTTATATGTAT
129 ATTTTATAT-TAT
* *
35278 ATATACTTTATATTATATACTTATATACT
1 -TATA-TATGTA-TATATACTT-TATACT
35307 TTAGTCTTTA
Statistics
Matches: 263, Mismatches: 26, Indels: 31
0.82 0.08 0.10
Matches are distributed among these distances:
133 18 0.07
134 13 0.05
135 4 0.02
136 4 0.02
137 12 0.05
138 12 0.05
139 52 0.20
140 18 0.07
141 26 0.10
142 1 0.00
143 12 0.05
144 73 0.28
145 13 0.05
146 5 0.02
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (140 bp):
TATATATGTATATATACTTTATACTAAGACTTTATATATATATATATTATATACTTATATAATTT
ATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATATATATAATATACTTATAT
TTTATATTAT
Found at i:35150 original size:122 final size:122
Alignment explanation
Indices: 34871--35309 Score: 289
Period size: 122 Copynumber: 3.5 Consensus size: 122
34861 CTATATAGTT
* *
34871 TATATATATATACTTATACTTTAT-GTA-TATATACTTTATATACTTAAATACTTTATATTATAT
1 TATATATATATACTTATATTTTATATTATTATATA-TTTATATACTTAAATACTTTATATTATAT
* * *
34934 ACTTATATACTTTAGTCTTTATAATTATACTTTCTATACTTTATATTTAATACTTATA
65 ACTTATATAATTTAGTATTTATAATTATACTTTCTATACTTTATAATTAATACTTATA
* * ** *
34992 TACTTTATAT-TA-TTATATATGTATATATACTT-TATATTTA-ATACTTATGTATTTTATATTA
1 TA-TATATATATACTTATAT-TTTATAT-TA-TTATATATTTATATACTTAAATACTTTATATTA
**
35053 TATACTTATATAATTTA-TATTATATGCTTATA-TACTT-TAGT-CTTTATAATT-ATACTTTAT
62 TATACTTATATAATTTAGTATT-TATAATTATACT--TTCTA-TACTTTATAATTAATAC-TTAT
35113 A
122 A
* *
35114 TATATATAATATACTTATATTTTATATTATTATATATGTATATATATTTTATACTAAGACTTTAT
1 TATATAT-ATATACTTATATTTTATATTATTATATAT-T-TATATA--CT-TA--AATACTTTAT
* **
35179 ATATATATATATATATATAATTTA-TAGTTTATATATATATAC-TT-T-TACTTTATTGTTTATA
58 AT-TATATA-CT-TATATAATTTAGTA-TTTATA-AT-TATACTTTCTATACTTTA-TAATTA-A
35240 TA-TATATA
115 TACT-TATA
* * *
35248 TATATACACATACTTATATTTTATATGTATATATACTTTATATTATATACTTATATACTTTA
1 TATATATATATACTTATATTTTATAT-TAT-TATA---TAT-TTATATACTTAAATACTTTA
35310 GTCTTTATGA
Statistics
Matches: 248, Mismatches: 30, Indels: 69
0.71 0.09 0.20
Matches are distributed among these distances:
120 5 0.02
121 22 0.09
122 75 0.30
123 18 0.07
124 12 0.05
125 4 0.02
127 1 0.00
128 2 0.01
130 8 0.03
131 7 0.03
132 13 0.05
133 41 0.17
134 18 0.07
135 12 0.05
137 6 0.02
138 4 0.02
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (122 bp):
TATATATATATACTTATATTTTATATTATTATATATTTATATACTTAAATACTTTATATTATATA
CTTATATAATTTAGTATTTATAATTATACTTTCTATACTTTATAATTAATACTTATA
Found at i:35156 original size:40 final size:38
Alignment explanation
Indices: 35110--35197 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 38
35100 AATTATACTT
* * *
35110 TATATATATATAATATACTTATATTTTATATTATTATATA
1 TATATATATATAATATACTAAGACTTTATA-TA-TATATA
* **
35150 TGTATATATATTTTATACTAAGACTTTATATATATATA
1 TATATATATATAATATACTAAGACTTTATATATATATA
35188 TATATATATA
1 TATATATATA
35198 ATTTATAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 15 0.37
39 2 0.05
40 24 0.59
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (38 bp):
TATATATATATAATATACTAAGACTTTATATATATATA
Found at i:35203 original size:38 final size:40
Alignment explanation
Indices: 35110--35204 Score: 117
Period size: 38 Copynumber: 2.5 Consensus size: 40
35100 AATTATACTT
* * *
35110 TATATATATATAA--TATACTTATATTTTATATTATTATA
1 TATATATATATAATTTATACTAAGACTTTATATTATTATA
* *
35148 TATGTATATATATTTTATACTAAGACTTTATA-TA-TATA
1 TATATATATATAATTTATACTAAGACTTTATATTATTATA
35186 TATATATATATAATTTATA
1 TATATATATATAATTTATA
35205 GTTTATATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 32 0.67
39 2 0.04
40 14 0.29
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (40 bp):
TATATATATATAATTTATACTAAGACTTTATATTATTATA
Found at i:35214 original size:34 final size:34
Alignment explanation
Indices: 35110--35282 Score: 98
Period size: 32 Copynumber: 5.2 Consensus size: 34
35100 AATTATACTT
* *
35110 TATATATATATA-ATAT-ACTTATATTTTATAT-
1 TATATATATATATATATAATTTATAGTTTATATA
* * *
35141 TATTATATATGTATATATATTTTATACTAAGACTT-TATA
1 TA-TATATATATATATATA-ATT-TA-T-AG-TTTATATA
35180 TATATATATATATATATAATTTATAG-TT-TATA
1 TATATATATATATATATAATTTATAGTTTATATA
* * *
35212 TATATATA-CT-T-T-TACTTTATTGTTTATATA
1 TATATATATATATATATAATTTATAGTTTATATA
* * * * *
35242 TATATATATATACACAT-ACTTATATTTTATATG
1 TATATATATATATATATAATTTATAGTTTATATA
35275 TATATATA
1 TATATATA
35283 CTTTATATTA
Statistics
Matches: 109, Mismatches: 18, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
28 8 0.07
29 3 0.03
30 13 0.12
31 4 0.04
32 23 0.21
33 23 0.21
34 3 0.03
35 2 0.02
36 4 0.04
37 3 0.03
38 19 0.17
39 4 0.04
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (34 bp):
TATATATATATATATATAATTTATAGTTTATATA
Found at i:35228 original size:139 final size:133
Alignment explanation
Indices: 34983--35282 Score: 340
Period size: 139 Copynumber: 2.2 Consensus size: 133
34973 TTTATATTTA
* * * *
34983 ATACTTATATACTTTATATTATTATATATGTATATATACTTTATATTTAATACTTATGTATTTTA
1 ATACTTATAT--TTTATATTATTATATATGTATATATACTTTATATCTAAGACTTATATATTATA
* *
35048 TATTATATACTTATATAATTTATATTATATGCTTATATACTTTAGTCTTTATAATTATACTTTAT
64 TATTATATAATTATATAATTTATATTATATACTTATATACTTTAGTCTTTAT-A-TATA---TAT
*
35113 ATATATATAAT
124 ATATATA-AAC
*
35124 ATACTTATATTTTATATTATTATATATGTATATATATTTTATA-CTAAGACTTTATATATATATA
1 ATACTTATATTTTATATTATTATATATGTATATATACTTTATATCTAAGAC-TTATATAT-TATA
* * *
35188 TATATATATAATT-TATAGTTTATATATATATACTT-T-TACTTTATTGTTTATATATATATATA
64 TAT-TATATAATTATATAATTTATAT-TATATACTTATATACTTTAGTCTTTATATATATATATA
*
35250 TATACAC
127 TATAAAC
35257 ATACTTATATTTTATATGTA-TATATA
1 ATACTTATATTTTATAT-TATTATATA
35283 CTTTATATTA
Statistics
Matches: 142, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
133 24 0.17
134 12 0.08
137 4 0.03
138 6 0.04
139 52 0.37
140 18 0.13
141 26 0.18
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (133 bp):
ATACTTATATTTTATATTATTATATATGTATATATACTTTATATCTAAGACTTATATATTATATA
TTATATAATTATATAATTTATATTATATACTTATATACTTTAGTCTTTATATATATATATATATA
AAC
Found at i:35287 original size:17 final size:16
Alignment explanation
Indices: 35262--35296 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
35252 TACACATACT
*
35262 TATATTTTATATGTATA
1 TATACTTTATAT-TATA
35279 TATACTTTATATTATA
1 TATACTTTATATTATA
35295 TA
1 TA
35297 CTTATATACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (16 bp):
TATACTTTATATTATA
Found at i:35304 original size:2 final size:2
Alignment explanation
Indices: 35110--35296 Score: 67
Period size: 2 Copynumber: 96.0 Consensus size: 2
35100 AATTATACTT
*
35110 TA TA TA TA TA TA -A TA TA CT- TA TA T- TT TA TA T- TA T- TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
35148 TA TG TA TA TA TA T- TT TA TA CTA -A GA CTT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
* * * *
35190 TA TA TA TA -A TT TA TA GTT TA TA TA TA TA TA CT- TT TA CTT TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * * *
35231 T- TG TT TA TA TA TA TA TA TA TA TA CA CA TA CT- TA TA T- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* *
35271 TA TG TA TA TA TA CTT TA TA T- TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA
35297 CTTATATACT
Statistics
Matches: 141, Mismatches: 23, Indels: 42
0.68 0.11 0.20
Matches are distributed among these distances:
1 13 0.09
2 120 0.85
3 8 0.06
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:35324 original size:22 final size:22
Alignment explanation
Indices: 34906--35309 Score: 207
Period size: 22 Copynumber: 17.9 Consensus size: 22
34896 TATATATACT
*
34906 TTATATACTTAAATACTTTATA
1 TTATATACTTATATACTTTATA
34928 TTATATACTTATATACTTTAGTCTTTA
1 TTATATACTTATATACTTTA-----TA
* *
34955 TAATTATACTTTCTATACTTTATA
1 TTA-TATAC-TTATATACTTTATA
34979 TT-TAATACTTATATACTTTATATTA
1 TTAT-ATACTTATATAC-TT-TA-TA
*
35004 TTATATATGTATATATACTTTATA
1 TTATATA-CT-TATATACTTTATA
* *
35028 TT-TAATACTTATGTATTTTATA
1 TTAT-ATACTTATATACTTTATA
*
35050 TTATATACTTATATAATTTATA
1 TTATATACTTATATACTTTATA
* *
35072 TTATATGCTTATATACTTTAGTC
1 TTATATACTTATATACTTTA-TA
*
35095 TT-TATA-AT-TATACTTTATA
1 TTATATACTTATATACTTTATA
* *
35114 -TATATA-TAATATACTTATATT
1 TTATATACTTATATACTT-TATA
*
35135 TTATATTA-TTATATATGTATATATA
1 TTATA-TACTTATATA-CT-T-TATA
* *
35160 TTTTATAC-TA-AGACTTTATA
1 TTATATACTTATATACTTTATA
* *
35180 TATATATATATATATATAATTTATA
1 T-TATATA-CT-TATATACTTTATA
35205 GTT-TATA-TATATATACTTT-TA
1 -TTATATACT-TATATACTTTATA
** *
35226 CTT-TATTGTT-TATA-TATATA
1 -TTATATACTTATATACTTTATA
*
35246 TATATATAC--ACATAC-TTATA
1 T-TATATACTTATATACTTTATA
* *
35266 TTTTATATGTATATATACTTTATA
1 TTATATA-CT-TATATACTTTATA
35290 TTATATACTTATATACTTTA
1 TTATATACTTATATACTTTA
35310 GTCTTTATGA
Statistics
Matches: 297, Mismatches: 43, Indels: 84
0.70 0.10 0.20
Matches are distributed among these distances:
18 1 0.00
19 13 0.04
20 36 0.12
21 21 0.07
22 105 0.35
23 28 0.09
24 34 0.11
25 27 0.09
26 5 0.02
27 11 0.04
28 5 0.02
29 11 0.04
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.54
Consensus pattern (22 bp):
TTATATACTTATATACTTTATA
Found at i:35406 original size:20 final size:22
Alignment explanation
Indices: 35383--35437 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
35373 ATATAATTCA
*
35383 TATATAATTTATA-T-GTAAAC
1 TATATAATTTATATTAATAAAC
35403 TATATAATTTATATTAATAAAC
1 TATATAATTTATATTAATAAAC
*
35425 TATATAGTTTATA
1 TATATAATTTATA
35438 ATAGTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 13 0.42
21 1 0.03
22 17 0.55
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (22 bp):
TATATAATTTATATTAATAAAC
Found at i:35507 original size:2 final size:2
Alignment explanation
Indices: 35500--35896 Score: 107
Period size: 2 Copynumber: 198.5 Consensus size: 2
35490 TTTATACATA
* * *
35500 AT AT AT AT AT AGT TT AT AT AGT AT AT A- AT A- AT AT AA AT AT AA
1 AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* * *
35542 AGT AT AT A- AT TT AT AT AT AT AGT TT AT CT AT AT A- AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * * * *
35584 ACT TT AT AT AC ACT AT AT A- AT TT GT AT AT AGT TT AT AT -T A-
1 A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * * *
35624 AT AA ACT AT AT A- AT TT AT AC AT A- AT AT AT AT AGT TT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * * * *
35666 AT AT AT A- AT AT AA AT AT A- AC CT AT AT A- AT TT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
35705 AT TT TT AT AT A- AT AT AT ACT TT AT AT AA AC ACT AT AT AGT TT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT A-T AT
* * * * *
35747 AT AT AT AGT TT AT AT -T A- AT AA ACT AT AT AGT TT AT AC GT A-
1 AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT
* * * *
35787 AT AT AC ACT AT AT AT AT AT AT AT A- AT AT GT AT AT AC GT -T AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
35828 AT AT AA ACT AT AGT TT AT AC AT A- AT AT AT AT AGT -T CAT AT AT
1 AT AT AT A-T AT A-T AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT
*
35870 AGT AT AT AT AT AT AT AT GT AT AT -T AT A
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT A
35897 ATTGTTTTAA
Statistics
Matches: 281, Mismatches: 72, Indels: 84
0.64 0.16 0.19
Matches are distributed among these distances:
1 21 0.07
2 237 0.84
3 23 0.08
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:35507 original size:20 final size:19
Alignment explanation
Indices: 35425--35672 Score: 75
Period size: 20 Copynumber: 13.3 Consensus size: 19
35415 ATTAATAAAC
* *
35425 TATATAGTTTATAATAGTT
1 TATATAGTTTATAATAATA
*
35444 TA-ATAGTTCATATATAA-A
1 TATATAGTTTATA-ATAATA
* * **
35462 CTCTATAGTTTTTACATCGTA
1 -TATATAGTTTATA-ATAATA
*
35483 GATATAGTTTATACATAATATA
1 TATATAGTTTATA-AT-A-ATA
*
35505 TATATAGTTTAT-ATAGTA
1 TATATAGTTTATAATAATA
*
35523 TATA-A--TAAT-ATAA-A
1 TATATAGTTTATAATAATA
* * *
35537 TATAAAGTATATAATTTATA
1 TATATAGTTTATAA-TAATA
35557 TATATAGTTTATCTATATAATA
1 TATATAGTTTA--TA-ATAATA
*
35579 TATATACTTTAT-ATACACTA
1 TATATAGTTTATAATA-A-TA
*
35599 TATA-A-TTTGT-AT-ATA
1 TATATAGTTTATAATAATA
* * *
35614 GTTTATA-TTAATAA-ACTA
1 -TATATAGTTTATAATAATA
35632 TATA-A-TTTATACATAATA
1 TATATAGTTTATA-ATAATA
35650 TATATAGTTTAT-AT-ATA
1 TATATAGTTTATAATAATA
35667 TATATA
1 TATATA
35673 ATATAAATAT
Statistics
Matches: 171, Mismatches: 33, Indels: 52
0.67 0.13 0.20
Matches are distributed among these distances:
14 5 0.03
15 9 0.05
16 10 0.06
17 20 0.12
18 37 0.22
19 12 0.07
20 47 0.27
21 1 0.01
22 29 0.17
23 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (19 bp):
TATATAGTTTATAATAATA
Found at i:35556 original size:9 final size:9
Alignment explanation
Indices: 35544--35701 Score: 54
Period size: 9 Copynumber: 16.7 Consensus size: 9
35534 AAATATAAAG
35544 TATATAATT
1 TATATAATT
*
35553 TATAT-ATA
1 TATATAATT
* *
35561 TAGT-TTATC
1 TA-TATAATT
*
35570 TATATAATA
1 TATATAATT
*
35579 TATATACTT
1 TATATAATT
*
35588 TATATACA-C
1 TATATA-ATT
35597 TATATAATTT
1 TATATAA-TT
*
35607 GTATATAGTT
1 -TATATAATT
*
35617 TATATTAATAAAC
1 TATA-TAAT---T
35630 TATATAATT
1 TATATAATT
*
35639 TATACATAATA
1 TAT--ATAATT
*
35650 TATATAGTT
1 TATATAATT
*
35659 TATAT-ATA
1 TATATAATT
35667 TATATAATAT
1 TATATAAT-T
* **
35677 AAATATAACC
1 -TATATAATT
35687 TATATAATT
1 TATATAATT
35696 TATATA
1 TATATA
35702 CATATTTTTA
Statistics
Matches: 108, Mismatches: 25, Indels: 32
0.65 0.15 0.19
Matches are distributed among these distances:
8 13 0.12
9 62 0.57
10 5 0.05
11 20 0.19
12 4 0.04
13 4 0.04
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (9 bp):
TATATAATT
Found at i:35592 original size:13 final size:12
Alignment explanation
Indices: 35501--35593 Score: 50
Period size: 13 Copynumber: 7.5 Consensus size: 12
35491 TTATACATAA
35501 TATATATATAGTT
1 TATATATATA-TT
35514 TATATAGTATA-T
1 TATATA-TATATT
* * *
35526 AATAATATAAATA
1 TAT-ATATATATT
*
35539 TAAAGTATATAATT
1 TATA-TATAT-ATT
35553 TATATATATAGTT
1 TATATATATA-TT
*
35566 TATCTATATA--
1 TATATATATATT
35576 -ATATATATACTT
1 TATATATATA-TT
35588 TATATA
1 TATATA
35594 CACTATATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
9 8 0.13
12 8 0.13
13 35 0.58
14 9 0.15
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (12 bp):
TATATATATATT
Found at i:35676 original size:11 final size:11
Alignment explanation
Indices: 35492--35896 Score: 95
Period size: 11 Copynumber: 37.2 Consensus size: 11
35482 AGATATAGTT
*
35492 TATACATAATA
1 TATATATAATA
*
35503 TATATATAGT-
1 TATATATAATA
*
35513 T-TATATAGTA
1 TATATATAATA
35523 TATA-ATAATA
1 TATATATAATA
*
35533 TAAATATAA-A
1 TATATATAATA
* *
35543 -GTATATAATT
1 TATATATAATA
35553 TATATAT-ATA
1 TATATATAATA
* *
35563 GTTTATCT-ATA
1 -TATATATAATA
35574 TA-ATAT-ATA
1 TATATATAATA
*
35583 TACTTTAT-ATA
1 TA-TATATAATA
* *
35594 CACTATATAATT
1 TA-TATATAATA
* * *
35606 TGTATATAGTT
1 TATATATAATA
35617 TATAT-TAATA
1 TATATATAATA
* *
35627 AACTATATAATT
1 TA-TATATAATA
*
35639 TATACATAATA
1 TATATATAATA
*
35650 TATATAGT-TTA
1 TATATA-TAATA
35661 TATATAT-ATA
1 TATATATAATA
35671 TA-ATATAAATA
1 TATATAT-AATA
35682 TAACCTATATAAT-
1 T-A--TATATAATA
35695 T-TATATACATA
1 TATATATA-ATA
* *
35706 TTTTTAT-ATA
1 TATATATAATA
*
35716 -ATATATACT-
1 TATATATAATA
35725 T-TATATAA-A
1 TATATATAATA
* * *
35734 CACTATATAGTT
1 TA-TATATAATA
* *
35746 TATATATAGTT
1 TATATATAATA
35757 TATAT-TAATA
1 TATATATAATA
* * *
35767 AACTATATAGTT
1 TA-TATATAATA
**
35779 TATACGTAATA
1 TATATATAATA
*
35790 TACACTATATATA
1 TATA-TATA-ATA
35803 TATATATAATA
1 TATATATAATA
* *
35814 TGTATATACGT-
1 TATATATA-ATA
35825 TATATATAAACTA
1 TATATAT-AA-TA
*
35838 TAGTTTATACATAA
1 TA-TATATA-AT-A
*
35852 TATATATAGT-
1 TATATATAATA
*
35862 TCATATATAGTA
1 T-ATATATAATA
35874 TATATAT-ATA
1 TATATATAATA
* *
35884 TATGTATATTA
1 TATATATAATA
35895 TA
1 TA
35897 ATTGTTTTAA
Statistics
Matches: 289, Mismatches: 64, Indels: 82
0.66 0.15 0.19
Matches are distributed among these distances:
9 42 0.15
10 42 0.15
11 145 0.50
12 29 0.10
13 16 0.06
14 11 0.04
15 4 0.01
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (11 bp):
TATATATAATA
Found at i:35720 original size:37 final size:37
Alignment explanation
Indices: 35505--35706 Score: 103
Period size: 37 Copynumber: 5.5 Consensus size: 37
35495 ACATAATATA
* * **
35505 TATATAGTTTATATAGTATATAATAATATAAATATAAAG
1 TATATAATTTATATA-CATAT-ATAATATAAATATAACC
* ** **
35544 TATATAATTTATAT--ATATAGT-TTATCTATATAATA
1 TATATAATTTATATACATATA-TAATATAAATATAACC
* * ** *
35579 TATATACTTTATATACACTATATAATTTGTATAT-A-G
1 TATATAATTTATATACA-TATATAATATAAATATAACC
* * * * * * **
35615 TTTAT-ATTAATAAAC-TATATAATTTATACATAATA
1 TATATAATTTATATACATATATAATATAAATATAACC
* *
35650 TATATAGTTTATATATATATATAATATAAATATAACC
1 TATATAATTTATATACATATATAATATAAATATAACC
35687 TATATAATTTATATACATAT
1 TATATAATTTATATACATAT
35707 TTTTATATAA
Statistics
Matches: 124, Mismatches: 30, Indels: 20
0.71 0.17 0.11
Matches are distributed among these distances:
33 14 0.11
34 1 0.01
35 34 0.27
36 15 0.12
37 36 0.29
38 11 0.09
39 13 0.10
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (37 bp):
TATATAATTTATATACATATATAATATAAATATAACC
Found at i:35833 original size:140 final size:141
Alignment explanation
Indices: 35484--35814 Score: 424
Period size: 140 Copynumber: 2.3 Consensus size: 141
35474 TACATCGTAG
* *
35484 ATATAGTTTATACATAATATATATATAGTTTATATAGTATATAATAATATAAATATAA-AGTATA
1 ATATAATTTATACAT-A-ATATACATA--TTATATA-TATAT-ATAATATAAATATAACA-TATA
* *
35548 TAATTTATATATATAGTTTATCTATATAATATATATACTTTATATACACTATATAATTTGTATAT
59 TAATTTATATACATAGTTTATCTATATAATATATATACTTTATATACACTATATAATTTATATAT
35613 AGTTTATATTAATAAACT
124 AGTTTATATTAATAAACT
* *
35631 ATATAATTTATACATAATATATATAGTTTATATATATATATAATATAAATATAACCTATATAATT
1 ATATAATTTATACATAATATACATA--TTATATATATATATAATATAAATATAACATATATAATT
*
35696 TATATACATA-TTT-T-TATAT-A-ATATATACTTTATATAAACACTATATAGTTTATATATAGT
64 TATATACATAGTTTATCTATATAATATATATACTTTATAT--ACACTATATAATTTATATATAGT
35756 TTATATTAATAAACT
127 TTATATTAATAAACT
* *
35771 ATATAGTTTATACGTAATATACACTA-TATATATATATATAATAT
1 ATATAATTTATACATAATATACA-TATTATATATATATATAATAT
35815 GTATATACGT
Statistics
Matches: 172, Mismatches: 8, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
138 33 0.19
139 1 0.01
140 61 0.35
141 3 0.02
142 3 0.02
143 33 0.19
144 5 0.03
145 18 0.10
146 1 0.01
147 14 0.08
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (141 bp):
ATATAATTTATACATAATATACATATTATATATATATATAATATAAATATAACATATATAATTTA
TATACATAGTTTATCTATATAATATATATACTTTATATACACTATATAATTTATATATAGTTTAT
ATTAATAAACT
Found at i:35892 original size:140 final size:137
Alignment explanation
Indices: 35484--35857 Score: 352
Period size: 140 Copynumber: 2.6 Consensus size: 137
35474 TACATCGTAG
* * **
35484 ATATAGTTTATACATAATATATATATAGTTTATATAGTATATAATAATATAAATATAAAGTATAT
1 ATATAATTTATACAT-A-ATATACATA--TTATATA-TATAT-ATAATATAAATATAACCTATAT
* * *
35549 AATTTATATATATAGTTTATCTATATAATATATATACTTTATAT--ACACTATATA-ATTTGTAT
60 AA-TTATAAACATA-TTTA--TACAT-A-ATATATACTTTATATAAACACTATATATA-TTGTAT
35611 ATAGTTTATATTAATAAACT
118 ATAGTTTATATTAATAAACT
*
35631 ATATAATTTATACATAATATATATAGTTTATATATATATATAATATAAATATAACCTATATAATT
1 ATATAATTTATACATAATATACATA--TTATATATATATATAATATAAATATAACCTATATAA-T
* * * *
35696 TATATACATATTTTTATATAATATATACTTTATATAAACACTATATAGT-TTATATATAGTTTAT
63 TATAAACATATTTATACATAATATATACTTTATATAAACACTATATA-TATTGTATATAGTTTAT
35760 ATTAATAAACT
127 ATTAATAAACT
* * ** *
35771 ATATAGTTTATACGTAATATACACTA-TATATATATATATAATATGTATAT-ACGT-TAT-A-TA
1 ATATAATTTATACATAATATACA-TATTATATATATATATAATATAAATATAACCTATATAATTA
35831 TAAACTATAGTTTATACATAATATATA
65 TAAAC-ATA-TTTATACATAATATATA
35858 TAGTTCATAT
Statistics
Matches: 205, Mismatches: 15, Indels: 26
0.83 0.06 0.11
Matches are distributed among these distances:
133 6 0.03
134 3 0.01
135 16 0.08
136 3 0.01
137 3 0.01
138 37 0.18
139 1 0.00
140 60 0.29
141 2 0.01
142 3 0.01
143 33 0.16
144 5 0.02
145 18 0.09
146 1 0.00
147 14 0.07
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (137 bp):
ATATAATTTATACATAATATACATATTATATATATATATAATATAAATATAACCTATATAATTAT
AAACATATTTATACATAATATATACTTTATATAAACACTATATATATTGTATATAGTTTATATTA
ATAAACT
Found at i:35897 original size:64 final size:65
Alignment explanation
Indices: 35737--35897 Score: 161
Period size: 64 Copynumber: 2.4 Consensus size: 65
35727 ATATAAACAC
* * * *
35737 TATATAGTTTATATATAGTTTATATTAATAAACTATATAGTTTATACGTAATATACACTATATAT
1 TATATAATATATATATA-TGTATATT-ATAAAC-ATATAGTTTATACATAATATACACTATATAT
35802 ATA
63 ATA
* * *
35805 TATATAATATGTATATACGT-TATATATAAAC-TATAGTTTATACATAATATATA-TAGT-TCAT
1 TATATAATATATATATATGTATAT-TATAAACATATAGTTTATACATAATATACACTA-TAT-AT
35866 ATA
63 ATA
35869 TAGTAT-ATATATATATATGTATATTATAA
1 TA-TATAATATATATATATGTATATTATAA
35898 TTGTTTTAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
63 3 0.04
64 45 0.57
65 6 0.08
66 9 0.11
67 2 0.03
68 14 0.18
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.45
Consensus pattern (65 bp):
TATATAATATATATATATGTATATTATAAACATATAGTTTATACATAATATACACTATATATATA
Found at i:36020 original size:12 final size:13
Alignment explanation
Indices: 36003--36035 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
35993 AGTTGTTTAA
36003 TTTATTTA-AATT
1 TTTATTTATAATT
36015 TTTATTTATAATT
1 TTTATTTATAATT
36028 TTGTATTT
1 TT-TATTT
36036 GTTCAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 6 0.32
14 5 0.26
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (13 bp):
TTTATTTATAATT
Found at i:37422 original size:17 final size:17
Alignment explanation
Indices: 37400--37432 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37390 AACCAATATA
37400 ATTCATAGTTTATAACC
1 ATTCATAGTTTATAACC
*
37417 ATTCATTGTTTATAAC
1 ATTCATAGTTTATAAC
37433 ATTTTACTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (17 bp):
ATTCATAGTTTATAACC
Found at i:37597 original size:17 final size:17
Alignment explanation
Indices: 37541--37635 Score: 68
Period size: 17 Copynumber: 5.6 Consensus size: 17
37531 TATATCATTC
* *
37541 CTTTTACTGTATTGTTC
1 CTTTTACTGTATTATTT
*
37558 CTTTTTCTGTATTAATTT
1 CTTTTACTGTATT-ATTT
37576 C-TTTACTGTATCT-TTT
1 CTTTTACTGTAT-TATTT
* **
37592 CTTTTATTACATTATTT
1 CTTTTACTGTATTATTT
* * * *
37609 CTCTTATTGTACTATAT
1 CTTTTACTGTATTATTT
37626 CTTTTACTGT
1 CTTTTACTGT
37636 TATGTATATG
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
16 5 0.08
17 51 0.85
18 4 0.07
ACGTcount: A:0.17, C:0.16, G:0.06, T:0.61
Consensus pattern (17 bp):
CTTTTACTGTATTATTT
Found at i:37845 original size:65 final size:65
Alignment explanation
Indices: 37770--37953 Score: 264
Period size: 65 Copynumber: 2.8 Consensus size: 65
37760 TGCACTATTT
* *
37770 AATTATCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGAGT-ACTTTGTACTGTATA
1 AATTATCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGA-TATGTACTGTATA
37834 C
65 C
* * * *
37835 AATTATCACTCCACTTCATGCACCACAAAGGTACATGGGTCATATAAGTGATATGTACTGTATTC
1 AATTATCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGATATGTACTGTATAC
* *
37900 AATTATCACTCCA-CTCCATGCACCACAAAGGTACATAAATCATATGAGTGATAT
1 AATTATCACTCCACCT-CATGCACCACAAAGGTACATGAGTCATATGAGTGATAT
37954 ATATATATGT
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
64 1 0.01
65 104 0.98
66 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (65 bp):
AATTATCACTCCACCTCATGCACCACAAAGGTACATGAGTCATATGAGTGATATGTACTGTATAC
Found at i:38460 original size:21 final size:21
Alignment explanation
Indices: 38398--38460 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
38388 ACCAACTTTC
38398 CTAAAACTTACGAATTTATCT
1 CTAAAACTTACGAATTTATCT
* *
38419 CT--ATCTTATAC-AACTT-T-T
1 CTAAAAC-T-TACGAATTTATCT
38437 CTAAAACTTACGAATTTATCT
1 CTAAAACTTACGAATTTATCT
38458 CTA
1 CTA
38461 TCTTATACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
18 6 0.19
19 8 0.26
20 8 0.26
21 9 0.29
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (21 bp):
CTAAAACTTACGAATTTATCT
Found at i:38475 original size:39 final size:39
Alignment explanation
Indices: 38390--38476 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
38380 GTTTCACCAC
*
38390 CAACTTTCCTAAAACTTACGAATTTATCTCTATCTTATA
1 CAACTTTTCTAAAACTTACGAATTTATCTCTATCTTATA
38429 CAACTTTTCTAAAACTTACGAATTTATCTCTATCTTATA
1 CAACTTTTCTAAAACTTACGAATTTATCTCTATCTTATA
38468 CAACTTTTC
1 CAACTTTTC
38477 ACGTTAAACC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (39 bp):
CAACTTTTCTAAAACTTACGAATTTATCTCTATCTTATA
Found at i:40840 original size:14 final size:14
Alignment explanation
Indices: 40823--40852 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
40813 ATTAAATTTA
40823 TATTTATATTCGTT
1 TATTTATATTCGTT
*
40837 TATTTATATTCTTT
1 TATTTATATTCGTT
40851 TA
1 TA
40853 AGAATTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (14 bp):
TATTTATATTCGTT
Found at i:41307 original size:29 final size:29
Alignment explanation
Indices: 41273--41358 Score: 136
Period size: 29 Copynumber: 3.0 Consensus size: 29
41263 AAATCAATAG
*
41273 TTACGACTTTTCATCAAAATTAAAAAAAA
1 TTACGACTTTTCATCAAAATCAAAAAAAA
*
41302 TTACGACTTTTCATCAAAATCAGAAAAAA
1 TTACGACTTTTCATCAAAATCAAAAAAAA
* *
41331 TTATGACTTTTCATCAAAATCATAAAAA
1 TTACGACTTTTCATCAAAATCAAAAAAA
41359 GTGAAGTACT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (29 bp):
TTACGACTTTTCATCAAAATCAAAAAAAA
Found at i:44615 original size:19 final size:18
Alignment explanation
Indices: 44591--44643 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
44581 TAATCCGAAC
*
44591 CGAACCGAATCGAAAAACT
1 CGAACCGAATC-AAAAAAT
* *
44610 CGAACCG-TTAAAAAAAT
1 CGAACCGAATCAAAAAAT
44627 CGAACCGAATCAAAAAA
1 CGAACCGAATCAAAAAA
44644 ACCAGTTTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 13 0.46
18 8 0.29
19 7 0.25
ACGTcount: A:0.53, C:0.23, G:0.13, T:0.11
Consensus pattern (18 bp):
CGAACCGAATCAAAAAAT
Found at i:44644 original size:19 final size:19
Alignment explanation
Indices: 44591--44644 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
44581 TAATCCGAAC
* *
44591 CGAACCGAATCGAAAAACT
1 CGAACCGAATCAAAAAAAT
*
44610 CGAACCG--TTAAAAAAAT
1 CGAACCGAATCAAAAAAAT
44627 CGAACCGAATCAAAAAAA
1 CGAACCGAATCAAAAAAA
44645 CCAGTTTCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 14 0.48
19 15 0.52
ACGTcount: A:0.54, C:0.22, G:0.13, T:0.11
Consensus pattern (19 bp):
CGAACCGAATCAAAAAAAT
Found at i:46125 original size:20 final size:18
Alignment explanation
Indices: 46087--46133 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
46077 TTTCAGACGA
*
46087 ATATACATATTAACATACAC
1 ATATACAAATTAACAT--AC
46107 ATATACAAATATAAC-TAC
1 ATATACAAAT-TAACATAC
46125 ATATACAAA
1 ATATACAAA
46134 GCCAATGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 11 0.44
20 10 0.40
21 4 0.16
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (18 bp):
ATATACAAATTAACATAC
Found at i:50414 original size:167 final size:167
Alignment explanation
Indices: 50138--50471 Score: 650
Period size: 167 Copynumber: 2.0 Consensus size: 167
50128 ATATATAAAG
50138 GATCATAATAAAATAAAACAAAATTGGGTGGCCGAATTAAAAGAAAATCAGAAACAGAGACTGAA
1 GATCATAATAAAATAAAACAAAATTGGGTGGCCGAATTAAAAGAAAATCAGAAACAGAGACTGAA
50203 TCTTAAAGAAAATTGAGTTCAGAATTGAAATCAGGGACCAAATCGAGCCCTTAAACAAAACGAGA
66 TCTTAAAGAAAATTGAGTTCAGAATTGAAATCAGGGACCAAATCGAGCCCTTAAACAAAACGAGA
50268 GGACCAAACGTGTAGTTTCTCCTTTTGTTAAGAAAAA
131 GGACCAAACGTGTAGTTTCTCCTTTTGTTAAGAAAAA
*
50305 GATCATAATAAAATAAAACAAACTTGGGTGGCCGAATTAAAAGAAAATCAGAAACAGAGACTGAA
1 GATCATAATAAAATAAAACAAAATTGGGTGGCCGAATTAAAAGAAAATCAGAAACAGAGACTGAA
*
50370 TCTTAAAGAAAATTGAGTTCAGAATTGAAATCAGGGACCAAATCGAGCCCTTAAACGAAACGAGA
66 TCTTAAAGAAAATTGAGTTCAGAATTGAAATCAGGGACCAAATCGAGCCCTTAAACAAAACGAGA
50435 GGACCAAACGTGTAGTTTCTCCTTTTGTTAAGAAAAA
131 GGACCAAACGTGTAGTTTCTCCTTTTGTTAAGAAAAA
50472 CACGCGGATT
Statistics
Matches: 165, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
167 165 1.00
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.22
Consensus pattern (167 bp):
GATCATAATAAAATAAAACAAAATTGGGTGGCCGAATTAAAAGAAAATCAGAAACAGAGACTGAA
TCTTAAAGAAAATTGAGTTCAGAATTGAAATCAGGGACCAAATCGAGCCCTTAAACAAAACGAGA
GGACCAAACGTGTAGTTTCTCCTTTTGTTAAGAAAAA
Found at i:51958 original size:105 final size:105
Alignment explanation
Indices: 51776--52580 Score: 1459
Period size: 105 Copynumber: 7.7 Consensus size: 105
51766 ATATGACTCA
* *
51776 TTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
* *
51841 CTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCC
*
51881 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
*
51946 CTCTGAATTTGAGAAATGTTTGTTGACAACCGGCGGTCCC
66 CTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCC
51986 TTCGTCGTGAAGTTGAACTTGCGTTG-CATGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
52050 GCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCC
65 GCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCC
*
52091 TTCGTCGTGAAGTTGAACTTGCGTTGCCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
*
52156 CTTTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCC
* *
52196 TTCGTCGTGAAGTTGAACTTGCATTGCCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
*
52261 CTCTGAATTTGAGAAATATTTGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCC
*
52301 TTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
52366 CTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCC
* *
52406 TTCATCGTGAAGCTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
52471 CTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCC
66 CTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCC
*
52511 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGA
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
52576 CTCTG
66 CTCTG
52581 GGTAAAACCT
Statistics
Matches: 676, Mismatches: 22, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
104 1 0.00
105 674 1.00
106 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
CTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCC
Found at i:64129 original size:15 final size:16
Alignment explanation
Indices: 64104--64141 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
64094 ACGAAAAAGA
* *
64104 AATATAAATAATATAT
1 AATATACATAAAATAT
64120 -ATATACATAAAATAT
1 AATATACATAAAATAT
64135 AATATAC
1 AATATAC
64142 TATAGCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
AATATACATAAAATAT
Found at i:64418 original size:164 final size:167
Alignment explanation
Indices: 64220--64550 Score: 623
Period size: 164 Copynumber: 2.0 Consensus size: 167
64210 ATATATAAAG
*
64220 GATCATAATAAAATAAAACAAACTTGGGTGGCCGAATTAAAAGAAAATCAGAAACAGAGCCTGAA
1 GATCATAATAAAATAAAACAAACTTGGGTGGCCGAATTAAAAGAAAATCAGAAACAGAGACTGAA
64285 TCTTAAAGAAAATTGAGTTCAGAATTGAAATCAGGGACCAAATCGAGCCCTTAAACAAAACGAGA
66 TCTTAAAGAAAATTGAGTTCAGAATTGAAATCAGGGACCAAATCGAGCCCTTAAACAAAACGAGA
64350 GGACCAAACGTGTAGTTTCTCCTTTTGTTAAGAAAAA
131 GGACCAAACGTGTAGTTTCTCCTTTTGTTAAGAAAAA
64387 GATCATAAT-AAAT-AAA-AAACTTGGGTGGCCGAATTAAAAGAAAATCAGAAACAGAGACTGAA
1 GATCATAATAAAATAAAACAAACTTGGGTGGCCGAATTAAAAGAAAATCAGAAACAGAGACTGAA
*
64449 TCTTAAAGAAAATTGAGTTCAGAATTGAAATCAGGGACCAAATCGAGCCCTTAAACGAAACGAGA
66 TCTTAAAGAAAATTGAGTTCAGAATTGAAATCAGGGACCAAATCGAGCCCTTAAACAAAACGAGA
64514 GGACCAAACGTGTAGTTTCTCCTTTTGTTAAGAAAAA
131 GGACCAAACGTGTAGTTTCTCCTTTTGTTAAGAAAAA
64551 CACGCGGATT
Statistics
Matches: 162, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
164 146 0.90
165 3 0.02
166 4 0.02
167 9 0.06
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (167 bp):
GATCATAATAAAATAAAACAAACTTGGGTGGCCGAATTAAAAGAAAATCAGAAACAGAGACTGAA
TCTTAAAGAAAATTGAGTTCAGAATTGAAATCAGGGACCAAATCGAGCCCTTAAACAAAACGAGA
GGACCAAACGTGTAGTTTCTCCTTTTGTTAAGAAAAA
Found at i:66414 original size:23 final size:22
Alignment explanation
Indices: 66383--66441 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
66373 CAGCTCATAT
*
66383 AAATACACCGAAGTG-CTACGTA
1 AAATGCACCGAAGTGTC-ACGTA
* *
66405 AAATTGCACCTAAGTGTCGCGTA
1 AAA-TGCACCGAAGTGTCACGTA
*
66428 GAATGCACCGAAGT
1 AAATGCACCGAAGT
66442 ACCATATAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 13 0.43
23 16 0.53
24 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (22 bp):
AAATGCACCGAAGTGTCACGTA
Found at i:66938 original size:42 final size:42
Alignment explanation
Indices: 66855--66940 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
66845 TCAAATTTAT
* * * *
66855 CATTTATTCACATAAATCAATTACTCATAGCATTTCCTATAA
1 CATTTATTCACATAAAACAATTACGCATAGCACTTCATATAA
**
66897 CATTTATTCACATAAAAC-ATATACGCATAGTGCTTCATATAA
1 CATTTATTCACATAAAACAAT-TACGCATAGCACTTCATATAA
66939 CA
1 CA
66941 ATCTTCAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (42 bp):
CATTTATTCACATAAAACAATTACGCATAGCACTTCATATAA
Found at i:71593 original size:24 final size:23
Alignment explanation
Indices: 71566--71616 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
71556 CAACTCCTAT
*
71566 AAATTGCACCGAAGTGCCAGGTAG
1 AAATTGCACCGAAGTGCCA-CTAG
*
71590 AAATTGCACTGAAGTGCCACTAG
1 AAATTGCACCGAAGTGCCACTAG
71613 AAAT
1 AAAT
71617 ATCCCTAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (23 bp):
AAATTGCACCGAAGTGCCACTAG
Found at i:71680 original size:23 final size:23
Alignment explanation
Indices: 71618--71683 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
71608 ACTAGAAATA
* * * *
71618 TCCCTAAGGACTACATAGTATTG
1 TCCCGAAGGACCACGTAGAATTG
71641 TCCCGAAGGACCACGTAGAATTG
1 TCCCGAAGGACCACGTAGAATTG
* **
71664 TCTCGAAGGACGTCGTAGAA
1 TCCCGAAGGACCACGTAGAA
71684 CCCTCAACTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (23 bp):
TCCCGAAGGACCACGTAGAATTG
Found at i:72446 original size:15 final size:15
Alignment explanation
Indices: 72426--72459 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
72416 GATACTTATA
*
72426 CCTTAGTATTGATAC
1 CCTTAGTATCGATAC
*
72441 CCTTAGTATCGATGC
1 CCTTAGTATCGATAC
72456 CCTT
1 CCTT
72460 CCTTTGGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (15 bp):
CCTTAGTATCGATAC
Found at i:73554 original size:18 final size:19
Alignment explanation
Indices: 73531--73568 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
73521 CTCTTGAAAA
73531 TCTCTTCTG-TTTTT-TCCC
1 TCTCTT-TGATTTTTCTCCC
73549 TCTCTTTGATTTTTCTCCC
1 TCTCTTTGATTTTTCTCCC
73568 T
1 T
73569 TCCGTGCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 11 0.61
19 5 0.28
ACGTcount: A:0.03, C:0.32, G:0.05, T:0.61
Consensus pattern (19 bp):
TCTCTTTGATTTTTCTCCC
Found at i:77628 original size:14 final size:14
Alignment explanation
Indices: 77609--77635 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77599 TATATGCAAA
77609 AACTATCACTTTTC
1 AACTATCACTTTTC
77623 AACTATCACTTTT
1 AACTATCACTTTT
77636 GTTAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (14 bp):
AACTATCACTTTTC
Found at i:79842 original size:2 final size:2
Alignment explanation
Indices: 79825--79859 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
79815 ATACACAGAC
* *
79825 AT AT AC AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
79860 CACACACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:85220 original size:55 final size:55
Alignment explanation
Indices: 85085--85875 Score: 1133
Period size: 55 Copynumber: 14.3 Consensus size: 55
85075 AACTCTATAG
* * * * * * *
85085 TTTGCACACATAGTTCCAATACGGTAATTCACAAACTTATTAT-AATTTACGTAG-
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTT-CTTAGT
* ** * * * * * *
85139 GTTGCACACCCACTACCAATATGGAAATTTATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
* *
85194 TTTGCACACAAAGTTCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
* ** *
85249 TTTACACACAAAGTGCCCATACAAAAATTCATAAACTTATTATGAATTTCTT-GTT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAG-T
85304 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
85359 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
*
85414 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCGTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
*
85469 TTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAATTTCTTAGCT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAG-T
* * * *
85525 TTTTCACACAAAGTGCCCATATGGAGATTCAT-AACTTATTATGAATTTCTTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
*
85579 TTTGCACATAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGCT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAG-T
* * *
85635 TTTGTACACAAAGTTCCCATACGAAAATTCATAAACTCATTATGAATTTCTTAGCT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAG-T
*
85691 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
* *
85746 TTTCCACACAAAGTGCCCATACGAAAATTCATAAA-TCATTATGAATTTCTTAGCT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAG-T
* *
85801 TTTGCACACAAAGTGCCCATATGGAAATTCATAAACTCATTTTGAATTTCTTAGCT
1 TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAG-T
85857 TTTGCACACATATAGTGCC
1 TTTGCACACA-A-AGTGCC
85876 ATTCGGTAAT
Statistics
Matches: 672, Mismatches: 54, Indels: 18
0.90 0.07 0.02
Matches are distributed among these distances:
54 85 0.13
55 418 0.62
56 162 0.24
57 1 0.00
58 6 0.01
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (55 bp):
TTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAATTTCTTAGT
Found at i:90125 original size:83 final size:82
Alignment explanation
Indices: 90004--90175 Score: 267
Period size: 83 Copynumber: 2.1 Consensus size: 82
89994 ACTTTTTCAC
* *
90004 GAAGGTTTCATGCTTTGCTGAAAAATCCATTCCACTACTCTACT-GTGGAGTTCAGACTTGCTTT
1 GAAGTTTTCATACTTTGCTGAAAAATCCATTCCACTACTCT-CTCGTGGAGTTCAGACTTGCTTT
90068 GCTGT-ACTACTCTTCTGT
65 GCT-TCACTACTCTTCTGT
*
90086 GAAGTTTTCATACTTTGCTGAAAAAATCCATTCCACTACTCTTTCGTGGAGTTCAGACTTGCTTT
1 GAAGTTTTCATACTTTGCTG-AAAAATCCATTCCACTACTCTCTCGTGGAGTTCAGACTTGCTTT
*
90151 GCTTCGCTACTCTTCTGT
65 GCTTCACTACTCTTCTGT
90169 GAAGTTT
1 GAAGTTT
90176 GAAAATAATT
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
82 20 0.24
83 63 0.76
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (82 bp):
GAAGTTTTCATACTTTGCTGAAAAATCCATTCCACTACTCTCTCGTGGAGTTCAGACTTGCTTTG
CTTCACTACTCTTCTGT
Found at i:91024 original size:22 final size:22
Alignment explanation
Indices: 90998--91042 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
90988 TAATGTCTCC
90998 ACATCTAATCAGATCTCTAGCA
1 ACATCTAATCAGATCTCTAGCA
91020 ACATCTAATCAGATCTCTAGCA
1 ACATCTAATCAGATCTCTAGCA
91042 A
1 A
91043 GGTTTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.27, G:0.09, T:0.27
Consensus pattern (22 bp):
ACATCTAATCAGATCTCTAGCA
Found at i:93080 original size:20 final size:21
Alignment explanation
Indices: 93055--93095 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
93045 CCAGAATGGG
*
93055 GGGAATCG-TACTCCTTCATA
1 GGGAATCGATACCCCTTCATA
93075 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
93096 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:98617 original size:20 final size:20
Alignment explanation
Indices: 98592--98633 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
98582 TTTATCTCTC
98592 TTGCTTGCTATTGTTGTTGT
1 TTGCTTGCTATTGTTGTTGT
98612 TTGCTTGCTATTGTTGTTGT
1 TTGCTTGCTATTGTTGTTGT
98632 TT
1 TT
98634 ATATAGCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.05, C:0.10, G:0.24, T:0.62
Consensus pattern (20 bp):
TTGCTTGCTATTGTTGTTGT
Found at i:99157 original size:15 final size:16
Alignment explanation
Indices: 99137--99174 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
99127 GCCTTCGGGC
99137 TATATAATATAATTA-
1 TATATAATATAATTAT
99152 TATATAATATAATTAT
1 TATATAATATAATTAT
99168 TATATAA
1 TATATAA
99175 AAACATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATAATATAATTAT
Found at i:112252 original size:12 final size:13
Alignment explanation
Indices: 112233--112271 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
112223 AATAAGCATC
112233 ATGATATATATAT
1 ATGATATATATAT
112246 A-GATATATATAT
1 ATGATATATATAT
*
112258 ATG-TATGTATAT
1 ATGATATATATAT
112270 AT
1 AT
112272 ACACACACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 22 0.92
13 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (13 bp):
ATGATATATATAT
Found at i:113900 original size:19 final size:19
Alignment explanation
Indices: 113864--113908 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
113854 CAAAATGGTC
* *
113864 CAATTTCACATTCTAACAT
1 CAATTTCACAATCAAACAT
*
113883 CAATTTCATAATCAAACAT
1 CAATTTCACAATCAAACAT
*
113902 TAATTTC
1 CAATTTC
113909 CAGCATAGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.22, G:0.00, T:0.38
Consensus pattern (19 bp):
CAATTTCACAATCAAACAT
Found at i:115390 original size:25 final size:24
Alignment explanation
Indices: 115353--115411 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
115343 TTTGCGATTT
*
115353 CTTATTATTTTTTTATTTTTTTTGC
1 CTTATTATTTTTTT-TTATTTTTGC
115378 CTTATT-TTATTTTTTTATTTTT--
1 CTTATTATT-TTTTTTTATTTTTGC
*
115400 CTTTTTATTTTT
1 CTTATTATTTTT
115412 C
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 8 0.27
23 2 0.07
24 9 0.30
25 11 0.37
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.80
Consensus pattern (24 bp):
CTTATTATTTTTTTTTATTTTTGC
Found at i:115411 original size:13 final size:12
Alignment explanation
Indices: 115360--115411 Score: 59
Period size: 12 Copynumber: 4.1 Consensus size: 12
115350 TTTCTTATTA
115360 TTTTTTTATTTT
1 TTTTTTTATTTT
*
115372 TTTTGCCTTATTTT
1 TTTT--TTTATTTT
115386 ATTTTTTTATTTT
1 -TTTTTTTATTTT
*
115399 TCTTTTTATTTT
1 TTTTTTTATTTT
115411 T
1 T
115412 C
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 16 0.47
13 7 0.21
14 7 0.21
15 4 0.12
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.83
Consensus pattern (12 bp):
TTTTTTTATTTT
Done.