Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 49 of 325
Found at i:18057991 original size:17 final size:18
Alignment explanation
Indices: 18057971--18058004 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
18057961 AATGAATTGT
18057971 TTTATTGAAT-AAATTAA
1 TTTATTGAATGAAATTAA
18057988 TTTATTGAATGAAATTA
1 TTTATTGAATGAAATTA
18058005 TTAATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (18 bp):
TTTATTGAATGAAATTAA
Found at i:18059635 original size:48 final size:48
Alignment explanation
Indices: 18059564--18059824 Score: 235
Period size: 48 Copynumber: 5.7 Consensus size: 48
18059554 ATGAGATCTC
* *
18059564 GTGTAAGACTATGTTTGGGACATGGCATCGGCGTTGATATGTGTTCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTTCCA
*
18059612 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTTCCA
* * * * * *
18059660 GTGTAAGACCATATCTGGGATATGGCATCGGCATCGGTATGTGATTTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTG-TTCCA
* * * *
18059709 -TGTAAGACCATATCTAGG--AT---AT-GGCGTTGATATGAGATTTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTG-TTCCA
* * * * *
18059751 -TGTAAGACTATGTCTGGGACATGGTAT---C---GATATGAGGTCCC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTTCCA
*
18059792 GTGTAAGACCATGTCTAGGACATGGCATCGGCG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCG
18059825 CCGACATCAG
Statistics
Matches: 178, Mismatches: 24, Indels: 24
0.79 0.11 0.11
Matches are distributed among these distances:
41 2 0.01
42 63 0.35
43 2 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 2 0.01
48 100 0.56
49 3 0.02
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTTCCA
Found at i:18059783 original size:42 final size:42
Alignment explanation
Indices: 18059689--18059821 Score: 149
Period size: 42 Copynumber: 3.2 Consensus size: 42
18059679 ATATGGCATC
* * * *
18059689 GGCATCGGTATGTGATTTCATGTAAGACCATATCTAGGATAT
1 GGCATCGATATGAGATTTCATGTAAGACCATGTCTAGGACAT
* * * *
18059731 GGCGTTGATATGAGATTTCATGTAAGACTATGTCTGGGACAT
1 GGCATCGATATGAGATTTCATGTAAGACCATGTCTAGGACAT
* * ** *
18059773 GGTATCGATATGAGGTCCCGTGTAAGACCATGTCTAGGACAT
1 GGCATCGATATGAGATTTCATGTAAGACCATGTCTAGGACAT
18059815 GGCATCG
1 GGCATCG
18059822 GCGCCGACAT
Statistics
Matches: 73, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (42 bp):
GGCATCGATATGAGATTTCATGTAAGACCATGTCTAGGACAT
Found at i:18060674 original size:42 final size:42
Alignment explanation
Indices: 18060627--18060775 Score: 181
Period size: 42 Copynumber: 3.5 Consensus size: 42
18060617 TTACTTCCTA
** *
18060627 TTCAGCTCTTTTAATATTCTGTTTAACCCTTATAGGTTTCCG
1 TTCAGCTCTTTTAAGCTTCTGTTTAACCCTTATGGGTTTCCG
* *
18060669 TTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGTTTCCA
1 TTCAGCTCTTTTAAGCTTCTGTTTAACCCTTATGGGTTTCCG
** * *
18060711 TTCAGCTCTTACAAGCTTCTGTTCAACCCTTATGGGTTTCTG
1 TTCAGCTCTTTTAAGCTTCTGTTTAACCCTTATGGGTTTCCG
* ** *
18060753 TTTAGCTCTCATGAGCTTCTGTT
1 TTCAGCTCTTTTAAGCTTCTGTT
18060776 AAGCTTTCGA
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.45
Consensus pattern (42 bp):
TTCAGCTCTTTTAAGCTTCTGTTTAACCCTTATGGGTTTCCG
Found at i:18060751 original size:21 final size:21
Alignment explanation
Indices: 18060643--18060754 Score: 71
Period size: 21 Copynumber: 5.3 Consensus size: 21
18060633 TCTTTTAATA
* *
18060643 TTCTGTTTAACCCTTATAGGT
1 TTCTGTTCAACCCTTATGGGT
* * * * * *
18060664 TTCCGTTCAGCTCTTTTGAGC
1 TTCTGTTCAACCCTTATGGGT
*
18060685 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTCAACCCTTATGGGT
** * * *** *
18060706 TTCCATTCAGCTCTTACAAGC
1 TTCTGTTCAACCCTTATGGGT
18060727 TTCTGTTCAACCCTTATGGGT
1 TTCTGTTCAACCCTTATGGGT
18060748 TTCTGTT
1 TTCTGTT
18060755 TAGCTCTCAT
Statistics
Matches: 59, Mismatches: 32, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.15, C:0.24, G:0.16, T:0.45
Consensus pattern (21 bp):
TTCTGTTCAACCCTTATGGGT
Found at i:18060772 original size:21 final size:19
Alignment explanation
Indices: 18060748--18060796 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
18060738 CCTTATGGGT
*
18060748 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTAAGCTCTC--GAGC
*
18060769 TTCTGTTAAGCTTTCGAGC
1 TTCTGTTAAGCTCTCGAGC
18060788 TTCTGTTAA
1 TTCTGTTAA
18060797 CGATATACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 13 0.50
21 13 0.50
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (19 bp):
TTCTGTTAAGCTCTCGAGC
Found at i:18064621 original size:13 final size:13
Alignment explanation
Indices: 18064603--18064628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18064593 TGGAAATGTA
18064603 TCCGGGCTAAAGT
1 TCCGGGCTAAAGT
18064616 TCCGGGCTAAAGT
1 TCCGGGCTAAAGT
18064629 CCCGCAGGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
TCCGGGCTAAAGT
Found at i:18064642 original size:52 final size:52
Alignment explanation
Indices: 18064564--18064667 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
18064554 TGGAAATGTA
*
18064564 TCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGT
1 TCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTAACCGGGCTAAAGT
18064616 TCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTAACCGGGCTAAAGT
1 TCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTAACCGGGCTAAAGT
18064668 CCCGCAGGCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.22
Consensus pattern (52 bp):
TCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTAACCGGGCTAAAGT
Found at i:18064671 original size:39 final size:39
Alignment explanation
Indices: 18064617--18064725 Score: 191
Period size: 39 Copynumber: 2.8 Consensus size: 39
18064607 GGCTAAAGTT
18064617 CCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTAA
1 CCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTAA
**
18064656 CCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTGT
1 CCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTAA
*
18064695 CCGGGCTAAAGACCCGCAGGCTTCGTGCTGG
1 CCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
18064726 TGCTGGTAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (39 bp):
CCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTAA
Found at i:18067531 original size:17 final size:19
Alignment explanation
Indices: 18067511--18067545 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
18067501 GGTTGAAGTC
18067511 GATAAAAT-T-TTAATTAT
1 GATAAAATATATTAATTAT
18067528 GATAAAATATATTAATTA
1 GATAAAATATATTAATTA
18067546 AAGGAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (19 bp):
GATAAAATATATTAATTAT
Found at i:18068661 original size:33 final size:33
Alignment explanation
Indices: 18068600--18068664 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
18068590 ACTTTATCCT
**
18068600 TCCATTTCTTTCTCAGGTCTAGACCTTTCTTCA
1 TCCATTTCTTTCTCACCTCTAGACCTTTCTTCA
* * *
18068633 TCCATTTCTTTCTCACCTTTGGAGCTTTCTTC
1 TCCATTTCTTTCTCACCTCTAGACCTTTCTTC
18068665 TTTTTTTCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.12, C:0.31, G:0.09, T:0.48
Consensus pattern (33 bp):
TCCATTTCTTTCTCACCTCTAGACCTTTCTTCA
Found at i:18081313 original size:6 final size:6
Alignment explanation
Indices: 18081274--18081310 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
18081264 GAATGAAAGC
*
18081274 GGCGTT GGCGTT GGCGTT GGCGTT GGCGTT GACGTT G
1 GGCGTT GGCGTT GGCGTT GGCGTT GGCGTT GGCGTT G
18081311 ACGATGGGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.03, C:0.16, G:0.49, T:0.32
Consensus pattern (6 bp):
GGCGTT
Found at i:18082283 original size:27 final size:27
Alignment explanation
Indices: 18082253--18082313 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
18082243 TAACTCATTC
18082253 ATACGAAAGTGCTTTGCCTTGAACAAA
1 ATACGAAAGTGCTTTGCCTTGAACAAA
18082280 ATACGAAAGTGCTTTGCCTTGAACAAA
1 ATACGAAAGTGCTTTGCCTTGAACAAA
18082307 A-ACGAAA
1 ATACGAAA
18082314 CAAACACTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (27 bp):
ATACGAAAGTGCTTTGCCTTGAACAAA
Found at i:18085219 original size:28 final size:28
Alignment explanation
Indices: 18085186--18085240 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
18085176 AAATATAAAC
18085186 TATTAAAATGATAAACTTGTATTTTTAA
1 TATTAAAATGATAAACTTGTATTTTTAA
18085214 TATTAAAATGATAAACTTGTATTTTTA
1 TATTAAAATGATAAACTTGTATTTTTA
18085241 CTATCATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (28 bp):
TATTAAAATGATAAACTTGTATTTTTAA
Found at i:18086082 original size:17 final size:17
Alignment explanation
Indices: 18086049--18086089 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
18086039 CCTTAAAAAA
*
18086049 TTAATATTTCTCTTTTT
1 TTAATATTTATCTTTTT
*
18086066 TTAATATTTA--TTATT
1 TTAATATTTATCTTTTT
18086081 TTAATATTT
1 TTAATATTT
18086090 TACTGTGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.59
17 9 0.41
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TTAATATTTATCTTTTT
Found at i:18086656 original size:18 final size:18
Alignment explanation
Indices: 18086635--18086669 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18086625 TCATTAATTT
* *
18086635 TAAATTTTATTATTAAAA
1 TAAATTGTACTATTAAAA
18086653 TAAATTGTACTATTAAA
1 TAAATTGTACTATTAAA
18086670 CATTTATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TAAATTGTACTATTAAAA
Found at i:18089336 original size:36 final size:36
Alignment explanation
Indices: 18089270--18089339 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
18089260 AAATAAAAAA
* *
18089270 ATAAAAAAATAAAAGTATATACAATTTTTTTAAATC
1 ATAAAAAAATAAAAATATATACAATGTTTTTAAATC
* *
18089306 ATAAAAAACTAAAAATATATTAGAA-GTTTTTAAA
1 ATAAAAAAATAAAAATATA-TACAATGTTTTTAAA
18089340 AACTACAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 25 0.86
37 4 0.14
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (36 bp):
ATAAAAAAATAAAAATATATACAATGTTTTTAAATC
Found at i:18093408 original size:18 final size:18
Alignment explanation
Indices: 18093371--18093409 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
18093361 TTAGAAATCA
*
18093371 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
18093389 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
18093407 AAA
1 AAA
18093410 AATAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:18095325 original size:46 final size:45
Alignment explanation
Indices: 18095275--18095450 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
18095265 TGGTTGAACA
18095275 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
18095321 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
18095368 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
18095414 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18095451 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:18095432 original size:93 final size:93
Alignment explanation
Indices: 18095273--18095443 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
18095263 GATGGTTGAA
* *
18095273 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
18095338 GAGTCCGAGTTCGAGAGATGTAACTAGG
66 GAGTCCGAGTTCGAGAGATGTAACTAGG
* *
18095366 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
18095431 GAGTCCGAGTTCG
66 GAGTCCGAGTTCG
18095444 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGAGAGATGTAACTAGG
Found at i:18097878 original size:57 final size:57
Alignment explanation
Indices: 18097790--18097908 Score: 238
Period size: 57 Copynumber: 2.1 Consensus size: 57
18097780 AAGTTCTAAT
18097790 ATGAAATGATCTGAACATTGAAATGAACTAGTATCAAATTATACTTGTAATAATGAG
1 ATGAAATGATCTGAACATTGAAATGAACTAGTATCAAATTATACTTGTAATAATGAG
18097847 ATGAAATGATCTGAACATTGAAATGAACTAGTATCAAATTATACTTGTAATAATGAG
1 ATGAAATGATCTGAACATTGAAATGAACTAGTATCAAATTATACTTGTAATAATGAG
18097904 ATGAA
1 ATGAA
18097909 TTATGCATGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (57 bp):
ATGAAATGATCTGAACATTGAAATGAACTAGTATCAAATTATACTTGTAATAATGAG
Found at i:18112438 original size:16 final size:13
Alignment explanation
Indices: 18112407--18112469 Score: 56
Period size: 13 Copynumber: 4.6 Consensus size: 13
18112397 AAATAGATAT
18112407 TTATTATTTATCA
1 TTATTATTTATCA
18112420 TTATTATTCTATCAAA
1 TTATTATT-TATC--A
*
18112436 TTATAATTTAT-A
1 TTATTATTTATCA
* *
18112448 TTATTAAATTATAA
1 TTATT-ATTTATCA
18112462 TTATTATT
1 TTATTATT
18112470 ATTAAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.12
13 15 0.37
14 10 0.24
15 3 0.07
16 8 0.20
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (13 bp):
TTATTATTTATCA
Found at i:18112469 original size:20 final size:20
Alignment explanation
Indices: 18112414--18112475 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
18112404 TATTTATTAT
* *
18112414 TTATCATTATTATTCTATCAAA
1 TTATAATTATTA-T-TATTAAA
18112436 TTATAATT-TATATTATTAAA
1 TTATAATTAT-TATTATTAAA
18112456 TTATAATTATTATTATTAAA
1 TTATAATTATTATTATTAAA
18112476 AATAAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 24 0.67
21 3 0.08
22 9 0.25
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATAATTATTATTATTAAA
Found at i:18112484 original size:20 final size:20
Alignment explanation
Indices: 18112437--18112480 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
18112427 TCTATCAAAT
*
18112437 TATAATT-TATATTATTAAAT
1 TATAATTAT-TATTATTAAAA
18112457 TATAATTATTATTATTAAAA
1 TATAATTATTATTATTAAAA
18112477 -ATAA
1 TATAA
18112481 ATTAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 17 0.77
21 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATAATTATTATTATTAAAA
Found at i:18112614 original size:18 final size:18
Alignment explanation
Indices: 18112581--18112622 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
18112571 TATTTAAGTA
*
18112581 AAAATATTTTTATTATATT
1 AAAATATTTATATTATA-T
18112600 AAAATA-TTATATTATAT
1 AAAATATTTATATTATAT
18112617 AAAATA
1 AAAATA
18112623 AATAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 9 0.41
19 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAATATTTATATTATAT
Found at i:18112784 original size:13 final size:13
Alignment explanation
Indices: 18112766--18112806 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
18112756 TTATTAATTT
*
18112766 AATAAAGTAAA-A
1 AATAAAATAAATA
18112778 GAATAAAATAAATA
1 -AATAAAATAAATA
18112792 AATAAAATAAATA
1 AATAAAATAAATA
18112805 AA
1 AA
18112807 ACAAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 25 0.96
14 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (13 bp):
AATAAAATAAATA
Found at i:18115511 original size:23 final size:23
Alignment explanation
Indices: 18115467--18115511 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
18115457 CAAAGGAATC
*
18115467 AGTAAAAAGCTGATATGAATATA
1 AGTAAAAAGCTGATAGGAATATA
* * *
18115490 AGTACAAAGTTGATAGGTATAT
1 AGTAAAAAGCTGATAGGAATAT
18115512 TCAACTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (23 bp):
AGTAAAAAGCTGATAGGAATATA
Found at i:18117022 original size:17 final size:18
Alignment explanation
Indices: 18116985--18117026 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
18116975 TATATATATT
* *
18116985 TAAAAATATCAATTACCA
1 TAAAAATATCAAGTACAA
18117003 TAAAAATATC-AGTACAA
1 TAAAAATATCAAGTACAA
18117020 TAAAAAT
1 TAAAAAT
18117027 TTTCTAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (18 bp):
TAAAAATATCAAGTACAA
Found at i:18118518 original size:29 final size:29
Alignment explanation
Indices: 18118481--18118544 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
18118471 ACATATTAGG
* *
18118481 TCAAATTAGTCCTTATATTATTAAATAAA
1 TCAAATTAGTCCTTATAATATTAAAAAAA
* ** *
18118510 TCAATTTAGTTTTTGTAATATTAAAAAAA
1 TCAAATTAGTCCTTATAATATTAAAAAAA
18118539 TCAAAT
1 TCAAAT
18118545 AAATTTAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (29 bp):
TCAAATTAGTCCTTATAATATTAAAAAAA
Found at i:18127937 original size:4 final size:4
Alignment explanation
Indices: 18127928--18127960 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
18127918 AGCAAACGTG
18127928 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
18127961 TAGAAAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:18128789 original size:47 final size:47
Alignment explanation
Indices: 18128725--18128835 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
18128715 GACATTGAGT
* *
18128725 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
18128772 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
18128819 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
18128836 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:18135203 original size:4 final size:4
Alignment explanation
Indices: 18135194--18135229 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
18135184 AGCAAACGTG
18135194 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A-AA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
18135230 TAGAAAAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:18136055 original size:47 final size:47
Alignment explanation
Indices: 18135991--18136101 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
18135981 GACATTGAGT
* *
18135991 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
18136038 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
18136085 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
18136102 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:18145216 original size:32 final size:32
Alignment explanation
Indices: 18145156--18145218 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
18145146 AACACCTTTT
*
18145156 TTTTTTAATATATTATTTAATATTTAAATTTA
1 TTTTTTAATATATTATTTAATATCTAAATTTA
* *
18145188 TTTTTTAATCT-TTAATTTGATATCTAAATTT
1 TTTTTTAATATATT-ATTTAATATCTAAATTT
18145219 TTTCAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (32 bp):
TTTTTTAATATATTATTTAATATCTAAATTTA
Found at i:18145363 original size:33 final size:33
Alignment explanation
Indices: 18145324--18145389 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
18145314 TAAATACTTT
*
18145324 TACTTAAAAACATGTATTAAATAAATATTAATC
1 TACTTAAAAACATATATTAAATAAATATTAATC
*
18145357 TACTTAAATACATATATTAAATAAATATTAATC
1 TACTTAAAAACATATATTAAATAAATATTAATC
18145390 AACGTATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (33 bp):
TACTTAAAAACATATATTAAATAAATATTAATC
Found at i:18145406 original size:31 final size:33
Alignment explanation
Indices: 18145333--18145414 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
18145323 TTACTTAAAA
* *
18145333 ACAT-GTATTAAATAAATATTAATCTACTTAAAT
1 ACATAGTATTAAATAAATATTAATCAACGT-AAT
18145366 ACATA-TATTAAATAAATATTAATCAACGT-AT
1 ACATAGTATTAAATAAATATTAATCAACGTAAT
18145397 ACA-AGTATTAAATTAAAT
1 ACATAGTATTAAA-TAAAT
18145415 TTTGAAACCA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
30 1 0.02
31 12 0.27
32 5 0.11
33 26 0.59
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.37
Consensus pattern (33 bp):
ACATAGTATTAAATAAATATTAATCAACGTAAT
Found at i:18146305 original size:36 final size:38
Alignment explanation
Indices: 18146258--18146338 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
18146248 ATATTGTTGT
* *
18146258 TGGTATATTGTTGGTT-ATAT-TGGTATACACGGCTGC
1 TGGTATATTGTTGCTTAACATATGGTATACACGGCTGC
* *
18146294 TGGTATATTGTTGCTTAACATATGTTATACATGGCTGC
1 TGGTATATTGTTGCTTAACATATGGTATACACGGCTGC
18146332 TGGTATA
1 TGGTATA
18146339 CATGGCTAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 15 0.38
37 3 0.08
38 21 0.54
ACGTcount: A:0.22, C:0.11, G:0.25, T:0.42
Consensus pattern (38 bp):
TGGTATATTGTTGCTTAACATATGGTATACACGGCTGC
Found at i:18147089 original size:17 final size:17
Alignment explanation
Indices: 18147067--18147102 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18147057 GCTGATTTGG
18147067 TACACATTTTCAAAATT
1 TACACATTTTCAAAATT
18147084 TACACATTTTCAAAATT
1 TACACATTTTCAAAATT
18147101 TA
1 TA
18147103 ACAAAATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (17 bp):
TACACATTTTCAAAATT
Found at i:18147332 original size:17 final size:17
Alignment explanation
Indices: 18147310--18147345 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18147300 GCTGATTTGG
18147310 TACACATTTTCAAAATT
1 TACACATTTTCAAAATT
18147327 TACACATTTTCAAAATT
1 TACACATTTTCAAAATT
18147344 TA
1 TA
18147346 ACAAAATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (17 bp):
TACACATTTTCAAAATT
Found at i:18147360 original size:243 final size:244
Alignment explanation
Indices: 18146835--18147492 Score: 1300
Period size: 243 Copynumber: 2.7 Consensus size: 244
18146825 AATAGCGAGC
18146835 AAATTTACACATTTTCAAAATTTAACAAAATAAGTTTTGTTCACATCATTATCAATGGTCTGTCA
1 AAATTTACACATTTTCAAAATTTAACAAAATAAGTTTTGTTCACATCATTATCAATGGTCTGTCA
18146900 TGGATGCCTCCTATGGATGACCTTTGAGTAGGAGGCATCCATCTAACAATGGTTGGTCTTCTCTT
66 TGGATGCCTCCTATGGATGACCTTTGAGTAGGAGGCATCCATCTAACAATGGTTGGTCTTCTCTT
18146965 GAATGAGAGTTTTTCTCTTAGGGCGGCTTGTTGATAAGTTGGGGTACTAGGTAACTGAGTTGGGG
131 GAATGAGAGTTTTTCTCTTAGGGCGGCTTGTTGATAAGTTGGGGTACTAGGTAACTGAGTTGGGG
18147030 CAGCTTGTTGAGTTGGGGTAGTCTTTTGCTGATTTGGTACACATTTTCA
196 CAGCTTGTTGAGTTGGGGTAGTCTTTTGCTGATTTGGTACACATTTTCA
18147079 AAATTTACACATTTTCAAAATTTAACAAAATAAGTTTTGTTCACATCATTATCAATGGTCTGTCA
1 AAATTTACACATTTTCAAAATTTAACAAAATAAGTTTTGTTCACATCATTATCAATGGTCTGTCA
18147144 TGGATGCCTCCTATGGATGACCTTTGAGTAGGAGGCATCCATCTAACAATGGTTGGTCTTCTCTT
66 TGGATGCCTCCTATGGATGACCTTTGAGTAGGAGGCATCCATCTAACAATGGTTGGTCTTCTCTT
18147209 GAATGAGAG-TTTTCTCTTAGGGCGGCTTGTTGATAAGTTGGGGTACTAGGTAACTGAGTTGGGG
131 GAATGAGAGTTTTTCTCTTAGGGCGGCTTGTTGATAAGTTGGGGTACTAGGTAACTGAGTTGGGG
18147273 CAGCTTGTTGAGTTGGGGTAGTCTTTTGCTGATTTGGTACACATTTTCA
196 CAGCTTGTTGAGTTGGGGTAGTCTTTTGCTGATTTGGTACACATTTTCA
18147322 AAATTTACACATTTTCAAAATTTAACAAAATAAGTTTTGTTCACATCATTATCAATGGTCTGTCA
1 AAATTTACACATTTTCAAAATTTAACAAAATAAGTTTTGTTCACATCATTATCAATGGTCTGTCA
*
18147387 TGGATGCCTCATATGGATGACCTTTGAGTAGGAGGCATCCATCTAACAATGGTTGGTCTTCTCTT
66 TGGATGCCTCCTATGGATGACCTTTGAGTAGGAGGCATCCATCTAACAATGGTTGGTCTTCTCTT
18147452 GAATGAGAGTTTTTCTCTTAGGGCGGCTTGTTGATAAGTTG
131 GAATGAGAGTTTTTCTCTTAGGGCGGCTTGTTGATAAGTTG
18147493 ATAGATCAAT
Statistics
Matches: 412, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
243 242 0.59
244 170 0.41
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (244 bp):
AAATTTACACATTTTCAAAATTTAACAAAATAAGTTTTGTTCACATCATTATCAATGGTCTGTCA
TGGATGCCTCCTATGGATGACCTTTGAGTAGGAGGCATCCATCTAACAATGGTTGGTCTTCTCTT
GAATGAGAGTTTTTCTCTTAGGGCGGCTTGTTGATAAGTTGGGGTACTAGGTAACTGAGTTGGGG
CAGCTTGTTGAGTTGGGGTAGTCTTTTGCTGATTTGGTACACATTTTCA
Found at i:18147639 original size:188 final size:188
Alignment explanation
Indices: 18147322--18147678 Score: 705
Period size: 188 Copynumber: 1.9 Consensus size: 188
18147312 CACATTTTCA
18147322 AAATTTACACATTTTCAAAATTTAACAAAATAAGTTTTGTTCACATCATTATCAATGGTCTGTCA
1 AAATTTACACATTTTCAAAATTTAACAAAATAAGTTTTGTTCACATCATTATCAATGGTCTGTCA
18147387 TGGATGCCTCATATGGATGACCTTTGAGTAGGAGGCATCCATCTAACAATGGTTGGTCTTCTCTT
66 TGGATGCCTCATATGGATGACCTTTGAGTAGGAGGCATCCATCTAACAATGGTTGGTCTTCTCTT
18147452 GAATGAGAGTTTTTCTCTTAGGGCGGCTTGTTGATAAGTTGATAGATCAATAGCGAGC
131 GAATGAGAGTTTTTCTCTTAGGGCGGCTTGTTGATAAGTTGATAGATCAATAGCGAGC
18147510 AAATTTACACATTTTCAAAATTTAACAAAATAAGTTTTGTTCACATCATTATCAATGGTCTGTCA
1 AAATTTACACATTTTCAAAATTTAACAAAATAAGTTTTGTTCACATCATTATCAATGGTCTGTCA
*
18147575 TGGATGCCTCCTATGGATGACCTTTGAGTAGGAGGCATCCATCTAACAATGGTTGGTCTTCTCTT
66 TGGATGCCTCATATGGATGACCTTTGAGTAGGAGGCATCCATCTAACAATGGTTGGTCTTCTCTT
18147640 GAATGAGAGTTTTTCTCTTAGGGCGGCTTGTTGATAAGT
131 GAATGAGAGTTTTTCTCTTAGGGCGGCTTGTTGATAAGT
18147679 CACACACACA
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 168 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (188 bp):
AAATTTACACATTTTCAAAATTTAACAAAATAAGTTTTGTTCACATCATTATCAATGGTCTGTCA
TGGATGCCTCATATGGATGACCTTTGAGTAGGAGGCATCCATCTAACAATGGTTGGTCTTCTCTT
GAATGAGAGTTTTTCTCTTAGGGCGGCTTGTTGATAAGTTGATAGATCAATAGCGAGC
Found at i:18147686 original size:2 final size:2
Alignment explanation
Indices: 18147679--18147703 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18147669 GTTGATAAGT
18147679 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
18147704 CCTAAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:18147762 original size:26 final size:28
Alignment explanation
Indices: 18147707--18147765 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
18147697 CACACACCCT
* *
18147707 AAAAAACAGTCACTATATGCATATTATA
1 AAAAAACACTCACTACATGCATATTATA
*
18147735 AAAAAATACTCACTACATGCATATTA-A
1 AAAAAACACTCACTACATGCATATTATA
18147762 AAAA
1 AAAA
18147766 TAGTCAACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.25
Consensus pattern (28 bp):
AAAAAACACTCACTACATGCATATTATA
Found at i:18148732 original size:39 final size:39
Alignment explanation
Indices: 18148678--18148782 Score: 140
Period size: 39 Copynumber: 2.7 Consensus size: 39
18148668 AGTCATTTAG
* *
18148678 TAACTATCAAATATTCAGTGCAGTAGTTTAGTTATTCAA
1 TAACTATCAATTATTCAGTACAGTAGTTTAGTTATTCAA
* * *
18148717 TAACTATTAATTATTCTA-TACAGTAATTTAGTTATTCAG
1 TAACTATCAATTATTC-AGTACAGTAGTTTAGTTATTCAA
*
18148756 TATCTATCAATTATTCAGTACAGTAGT
1 TAACTATCAATTATTCAGTACAGTAGT
18148783 CATCGACTCG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 1 0.02
39 54 0.96
40 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (39 bp):
TAACTATCAATTATTCAGTACAGTAGTTTAGTTATTCAA
Found at i:18149846 original size:3 final size:3
Alignment explanation
Indices: 18149838--18149903 Score: 75
Period size: 3 Copynumber: 22.3 Consensus size: 3
18149828 ATTCTATTTC
18149838 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATTCA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA
* *
18149883 TTA ATA ACA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
18149904 GATATGCTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
2 5 0.09
3 45 0.83
4 2 0.04
5 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:18151742 original size:20 final size:20
Alignment explanation
Indices: 18151719--18151760 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
18151709 ATATTAGGTA
18151719 AGTATAATTCTTGTTACATG
1 AGTATAATTCTTGTTACATG
18151739 AGTATAATTCTTGTTACATG
1 AGTATAATTCTTGTTACATG
18151759 AG
1 AG
18151761 CTTACTAAGC
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:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (20 bp):
AGTATAATTCTTGTTACATG
Found at i:18153557 original size:37 final size:37
Alignment explanation
Indices: 18153500--18153651 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
18153490 TATGATCACT
*
18153500 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
18153535 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
18153572 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
18153617 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
18153652 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:18153635 original size:46 final size:46
Alignment explanation
Indices: 18153568--18153830 Score: 382
Period size: 46 Copynumber: 5.6 Consensus size: 46
18153558 TAAGTGTAGC
* * **
18153568 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
18153614 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
18153660 CACTTATCACTTTATCACTTGATCAGATAAGTATAGGCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
18153706 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
18153758 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
18153804 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
18153831 AGTACTCAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
46 155 0.78
48 1 0.01
50 1 0.01
52 41 0.21
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:18153764 original size:98 final size:94
Alignment explanation
Indices: 18153568--18153830 Score: 365
Period size: 98 Copynumber: 2.8 Consensus size: 94
18153558 TAAGTGTAGC
* * *
18153568 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTA-GCTAAAGCTATCACTTATCAC--TTTGTC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGGC-GAAGCTATCACTTATCACTTTTTGTC
*
18153630 TCTTGATCAGATAAGTATAGCCGAAGCTAT
65 ACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
18153660 CACTTATCACTTTATCACTTGATCAGATAAGTATAGGCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGGCGAAGCTATCACTTATCACTTT----TT
*
18153725 GTCACTTGATCAGATAAGTATAGCTGAAGCTAT
62 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
18153758 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--TTTATCA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGGCGAAGCTATCACTTATCACTTTTTGTCA
18153821 CTTGATCAGA
66 CTTGATCAGA
18153831 AGTACTCAAA
Statistics
Matches: 153, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
92 63 0.41
93 2 0.01
94 1 0.01
96 1 0.01
98 86 0.56
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (94 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGGCGAAGCTATCACTTATCACTTTTTGTCA
CTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:18156757 original size:15 final size:15
Alignment explanation
Indices: 18156725--18156774 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
18156715 CTATCCTATT
**
18156725 AGACACATCACTTTC
1 AGACACATCACTACC
**
18156740 AGATGCATCACTACC
1 AGACACATCACTACC
18156755 AGACACATCACTACC
1 AGACACATCACTACC
18156770 AGACA
1 AGACA
18156775 TGTCTTCTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.38, C:0.34, G:0.10, T:0.18
Consensus pattern (15 bp):
AGACACATCACTACC
Found at i:18157091 original size:89 final size:89
Alignment explanation
Indices: 18156989--18157155 Score: 307
Period size: 89 Copynumber: 1.9 Consensus size: 89
18156979 ACACAACCAT
* *
18156989 TTTTGTCATATACAATATAGCAGCTTGGATACAAACAATGGCAGATATACACAATAAACATTAGT
1 TTTTGCCACATACAATATAGCAGCTTGGATACAAACAATGGCAGATATACACAATAAACATTAGT
18157054 TTGATAATGGCATTCAAATTTTGA
66 TTGATAATGGCATTCAAATTTTGA
*
18157078 TTTTGCCACATACAATATAGTAGCTTGGATACAAACAATGGCAGATATACACAATAAACATTAGT
1 TTTTGCCACATACAATATAGCAGCTTGGATACAAACAATGGCAGATATACACAATAAACATTAGT
18157143 TTGATAATGGCAT
66 TTGATAATGGCAT
18157156 CCATACAATG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 75 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (89 bp):
TTTTGCCACATACAATATAGCAGCTTGGATACAAACAATGGCAGATATACACAATAAACATTAGT
TTGATAATGGCATTCAAATTTTGA
Found at i:18157181 original size:48 final size:48
Alignment explanation
Indices: 18157112--18157236 Score: 205
Period size: 48 Copynumber: 2.6 Consensus size: 48
18157102 TTGGATACAA
* * *
18157112 ACAATGGCAGATATACACAATAAACATTAGTTTGATAATGGCATCCAT
1 ACAATGGCAGATACAAACAATAAACATCAGTTTGATAATGGCATCCAT
18157160 ACAATGGCAGATACAAACAATAAACATCAGTTTGATAATGGCATCCAT
1 ACAATGGCAGATACAAACAATAAACATCAGTTTGATAATGGCATCCAT
* *
18157208 ACGATGGCAGATACAAACAGTAAACATCA
1 ACAATGGCAGATACAAACAATAAACATCA
18157237 TGCACATGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.22
Consensus pattern (48 bp):
ACAATGGCAGATACAAACAATAAACATCAGTTTGATAATGGCATCCAT
Found at i:18157315 original size:6 final size:6
Alignment explanation
Indices: 18157306--18157365 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
18157296 ATCCAAATTG
* * * * * * *
18157306 AAATCA AAATCA AAATCT AAAGCT AAATCG AGATCG AAATTA AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
18157354 AAATCA AAATCA
1 AAATCA AAATCA
18157366 GTTTAGTGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.58, C:0.15, G:0.07, T:0.20
Consensus pattern (6 bp):
AAATCA
Found at i:18157394 original size:6 final size:6
Alignment explanation
Indices: 18157385--18157504 Score: 84
Period size: 6 Copynumber: 19.7 Consensus size: 6
18157375 TTCAAAATTG
* *
18157385 AAATCA AAATCA AAAT-A GAAATCA AAATCA AAATCA GAATCG AAATCA
1 AAATCA AAATCA AAATCA -AAATCA AAATCA AAATCA AAATCA AAATCA
** * ** * * *
18157433 AAATCA AAATTG AAATCG AAAT-A ACCCTAA ATAACCCT AAATCA AAAT-A
1 AAATCA AAATCA AAATCA AAATCA A-AATCA A-AA-TCA AAATCA AAATCA
18157482 ACAATCA AAATCA AAATCA AAAT
1 A-AATCA AAATCA AAATCA AAAT
18157505 TGAAATCGAA
Statistics
Matches: 89, Mismatches: 18, Indels: 14
0.74 0.15 0.12
Matches are distributed among these distances:
5 4 0.04
6 77 0.87
7 7 0.08
8 1 0.01
ACGTcount: A:0.61, C:0.17, G:0.04, T:0.18
Consensus pattern (6 bp):
AAATCA
Found at i:18157399 original size:18 final size:18
Alignment explanation
Indices: 18157376--18157454 Score: 86
Period size: 18 Copynumber: 4.1 Consensus size: 18
18157366 GTTTAGTGTT
18157376 TCAAAATTGAAATCAAAA
1 TCAAAATTGAAATCAAAA
*
18157394 TCAAAATAGAAATCAAAA
1 TCAAAATTGAAATCAAAA
18157412 TCAAAATCAGAATCGAAATCAAAA
1 TCAAAAT-----T-GAAATCAAAA
*
18157436 TCAAAATTGAAATCGAAA
1 TCAAAATTGAAATCAAAA
18157454 T
1 T
18157455 AACCCTAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
18 34 0.65
19 1 0.02
24 17 0.33
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.20
Consensus pattern (18 bp):
TCAAAATTGAAATCAAAA
Found at i:18157412 original size:24 final size:24
Alignment explanation
Indices: 18157385--18157442 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
18157375 TTCAAAATTG
18157385 AAATCAAAATCAAAATAGAAATCA
1 AAATCAAAATCAAAATAGAAATCA
* *
18157409 AAATCAAAATCAGAATCGAAATCA
1 AAATCAAAATCAAAATAGAAATCA
18157433 AAATCAAAAT
1 AAATCAAAAT
18157443 TGAAATCGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.64, C:0.14, G:0.05, T:0.17
Consensus pattern (24 bp):
AAATCAAAATCAAAATAGAAATCA
Found at i:18157449 original size:24 final size:24
Alignment explanation
Indices: 18157385--18157454 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
18157375 TTCAAAATTG
* *
18157385 AAATCAAAATCAAAATAGAAATCA
1 AAATCAAAATTAAAATCGAAATCA
* *
18157409 AAATCAAAATCAGAATCGAAATCA
1 AAATCAAAATTAAAATCGAAATCA
*
18157433 AAATCAAAATTGAAATCGAAAT
1 AAATCAAAATTAAAATCGAAAT
18157455 AACCCTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.61, C:0.13, G:0.07, T:0.19
Consensus pattern (24 bp):
AAATCAAAATTAAAATCGAAATCA
Found at i:18157493 original size:62 final size:62
Alignment explanation
Indices: 18157409--18157526 Score: 209
Period size: 62 Copynumber: 1.9 Consensus size: 62
18157399 ATAGAAATCA
* * *
18157409 AAATCAAAATCAGAATCGAAATCAAAATCAAAATTGAAATCGAAATAACCCTAAATAACCCT
1 AAATCAAAATAACAATCAAAATCAAAATCAAAATTGAAATCGAAATAACCCTAAATAACCCT
18157471 AAATCAAAATAACAATCAAAATCAAAATCAAAATTGAAATCGAAATAACCCTAAAT
1 AAATCAAAATAACAATCAAAATCAAAATCAAAATTGAAATCGAAATAACCCTAAAT
18157527 CAAAATAACA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.58, C:0.18, G:0.05, T:0.19
Consensus pattern (62 bp):
AAATCAAAATAACAATCAAAATCAAAATCAAAATTGAAATCGAAATAACCCTAAATAACCCT
Found at i:18164992 original size:29 final size:29
Alignment explanation
Indices: 18164912--18164998 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 29
18164902 TTGAGTTCAA
*
18164912 AAAGGTCTGGCTCTTATTTGAGCACTTCCC
1 AAAGGTTTGGCT-TTATTTGAGCACTTCCC
* * * *
18164942 AAATGTTTTGGCCATTACTTGAGCACTT-CG
1 AAA-GGTTTGG-CTTTATTTGAGCACTTCCC
18164972 AAAGGTTTGGCTTTCATTTGAGCACTT
1 AAAGGTTTGGCTTT-ATTTGAGCACTT
18164999 TTGCAAAGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
28 3 0.07
29 17 0.37
30 7 0.15
31 18 0.39
32 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (29 bp):
AAAGGTTTGGCTTTATTTGAGCACTTCCC
Found at i:18166112 original size:30 final size:31
Alignment explanation
Indices: 18166052--18166114 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
18166042 AAAAAGTGAC
*
18166052 ATCAAAAGTGAAAAAGTTATAGTTATTCAGA
1 ATCAAAAGTGAAAAAGTTATAGTAATTCAGA
18166083 ATCAAAAGTGAAAAAGTTA-AGTAATTCAGA
1 ATCAAAAGTGAAAAAGTTATAGTAATTCAGA
18166113 AT
1 AT
18166115 TATATCAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.51, C:0.06, G:0.16, T:0.27
Consensus pattern (31 bp):
ATCAAAAGTGAAAAAGTTATAGTAATTCAGA
Found at i:18168402 original size:3 final size:3
Alignment explanation
Indices: 18168394--18168425 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
18168384 ATATGTAGTA
*
18168394 AAG AAG AAG AAG AAG AAG AAG AAG AAG CAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
18168426 AAAAATGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:18169773 original size:11 final size:11
Alignment explanation
Indices: 18169751--18169783 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
18169741 TAAACCAAGA
18169751 TTTTTG-AATT
1 TTTTTGAAATT
18169761 TTTTT-AAATT
1 TTTTTGAAATT
18169771 TTTTTGAAATT
1 TTTTTGAAATT
18169782 TT
1 TT
18169784 AATTTAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (11 bp):
TTTTTGAAATT
Found at i:18177161 original size:17 final size:19
Alignment explanation
Indices: 18177118--18177164 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
18177108 GTTTTATCAA
18177118 ATAAATT-ATTAAAAATTC
1 ATAAATTAATTAAAAATTC
18177136 ATAAA--AATTAAAAATT-
1 ATAAATTAATTAAAAATTC
18177152 A-AAATTAATTAAA
1 ATAAATTAATTAAA
18177165 CTGATTCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.12
16 1 0.04
17 17 0.65
18 5 0.19
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAATTAATTAAAAATTC
Found at i:18178132 original size:32 final size:32
Alignment explanation
Indices: 18178094--18178154 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
18178084 TAATCATTAT
*
18178094 GAGTTATCAAATTAAAATAATTAATTTATCAC
1 GAGTTATCAAATTAAAATAATCAATTTATCAC
* *
18178126 GAGTTATTAAATTAAAGTAATCAATTTAT
1 GAGTTATCAAATTAAAATAATCAATTTAT
18178155 AAATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (32 bp):
GAGTTATCAAATTAAAATAATCAATTTATCAC
Found at i:18183695 original size:16 final size:16
Alignment explanation
Indices: 18183663--18183701 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
18183653 TCATAAATTT
18183663 AAAAT-AATATTATTA
1 AAAATAAATATTATTA
18183678 AAAATAAATA-TATGTA
1 AAAATAAATATTAT-TA
18183694 AAAATAAA
1 AAAATAAA
18183702 CACTATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AAAATAAATATTATTA
Found at i:18186944 original size:21 final size:21
Alignment explanation
Indices: 18186918--18186958 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18186908 ATCTGCTCAA
* *
18186918 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
18186939 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
18186959 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:18201245 original size:44 final size:43
Alignment explanation
Indices: 18201148--18201270 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 43
18201138 CTCGTACAAC
* * *
18201148 GCCAACGTCCTAGACGTGGTCTTACATGTAATCACATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGTAATCACAAATCGAT
* *
18201191 GTC-ACTGTCCCAGGCAG-GGTCTTACACGTAAATCACAAATCGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGT-AATCACAAATCGAT
* **
18201235 GCCAACGTCCCAAACGTGGTCTTACACAAAATCACA
1 GCCAACGTCCCAGACGTGGTCTTACACGTAATCACA
18201271 TATCAGAACC
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
42 2 0.03
43 28 0.43
44 33 0.51
45 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAATCACAAATCGAT
Found at i:18209481 original size:14 final size:15
Alignment explanation
Indices: 18209462--18209491 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18209452 TTTCCGAAGT
18209462 AAAAT-AAAAAATAA
1 AAAATAAAAAAATAA
18209476 AAAATAAAAAAATAA
1 AAAATAAAAAAATAA
18209491 A
1 A
18209492 GATTTGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAATAAAAAAATAA
Found at i:18209485 original size:8 final size:7
Alignment explanation
Indices: 18209462--18209491 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
18209452 TTTCCGAAGT
18209462 AAAATAA
1 AAAATAA
18209469 AAAATAA
1 AAAATAA
18209476 AAAATAAA
1 AAAAT-AA
18209484 AAAATAA
1 AAAATAA
18209491 A
1 A
18209492 GATTTGAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:18214079 original size:22 final size:24
Alignment explanation
Indices: 18214027--18214081 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
18214017 TATTTTAACG
18214027 TATT-TATATATTAATTTTTTTGA
1 TATTATATATATTAATTTTTTTGA
*
18214050 AACTTTATATATATT-ATTTTTTT-A
1 TA--TTATATATATTAATTTTTTTGA
18214074 TATTATAT
1 TATTATAT
18214082 TTTTTTACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
22 6 0.22
23 1 0.04
24 2 0.07
25 10 0.37
26 8 0.30
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TATTATATATATTAATTTTTTTGA
Found at i:18214082 original size:15 final size:17
Alignment explanation
Indices: 18214053--18214088 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
18214043 TTTTTGAAAC
18214053 TTTATATATATTATTTT
1 TTTATATATATTATTTT
18214070 TTTATAT-TA-TATTTT
1 TTTATATATATTATTTT
18214085 TTTA
1 TTTA
18214089 CGTTACTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 2 0.11
17 7 0.37
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATATATATTATTTT
Found at i:18214652 original size:15 final size:15
Alignment explanation
Indices: 18214605--18214665 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
18214595 AAATTGAAAA
*
18214605 AAAATTGTAAGTGTTG
1 AAAATT-TAAGTATTG
* * *
18214621 AAAA-ATAAATGTTG
1 AAAATTTAAGTATTG
18214635 AAAATTTAAGTATTG
1 AAAATTTAAGTATTG
*
18214650 AAAATTTAACTATTG
1 AAAATTTAAGTATTG
18214665 A
1 A
18214666 GTTTAAGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
14 12 0.32
15 22 0.58
16 4 0.11
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.36
Consensus pattern (15 bp):
AAAATTTAAGTATTG
Found at i:18215800 original size:34 final size:34
Alignment explanation
Indices: 18215757--18215824 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
18215747 AATAAAGATA
18215757 GTGTGAAAGAGTGGCAAGATAGATACCTTTCTTT
1 GTGTGAAAGAGTGGCAAGATAGATACCTTTCTTT
18215791 GTGTGAAAGAGTGGCAAGATAGATACCTTTCTTT
1 GTGTGAAAGAGTGGCAAGATAGATACCTTTCTTT
18215825 TCCCTTCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.32
Consensus pattern (34 bp):
GTGTGAAAGAGTGGCAAGATAGATACCTTTCTTT
Found at i:18216037 original size:6 final size:6
Alignment explanation
Indices: 18216026--18216050 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18216016 TGTTTGTATT
18216026 ATAATC ATAATC ATAATC ATAATC A
1 ATAATC ATAATC ATAATC ATAATC A
18216051 GAGTCGGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATAATC
Found at i:18226404 original size:14 final size:14
Alignment explanation
Indices: 18226362--18226404 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
18226352 AAAGATAAAA
*
18226362 AATTAAATTCCTAAA
1 AATTAAATT-CTAAT
* *
18226377 AATAAAATTATAAT
1 AATTAAATTCTAAT
18226391 AATTAAATTCTAAT
1 AATTAAATTCTAAT
18226405 TTTACGAAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTAAATTCTAAT
Found at i:18226896 original size:61 final size:62
Alignment explanation
Indices: 18226818--18226934 Score: 175
Period size: 61 Copynumber: 1.9 Consensus size: 62
18226808 ATTGAAGTAA
* *
18226818 TATAAAGTAGTATTTAAATATTAAGTTGAA-AAAAATAAAATTTAATAATTACAATATTTAAG
1 TATAAAGTAGTATTTAAATATTAA-TTAAATAAAAATAAAATTAAATAATTACAATATTTAAG
* *
18226880 TATAAA-TAGTATTTAAATATTAATTAAATAAAAATAAACTTAAATAATTATAATA
1 TATAAAGTAGTATTTAAATATTAATTAAATAAAAATAAAATTAAATAATTACAATA
18226935 AATAATACAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
60 4 0.08
61 40 0.80
62 6 0.12
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.38
Consensus pattern (62 bp):
TATAAAGTAGTATTTAAATATTAATTAAATAAAAATAAAATTAAATAATTACAATATTTAAG
Found at i:18227374 original size:21 final size:20
Alignment explanation
Indices: 18227334--18227371 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18227324 GTTTAATTTT
*
18227334 TTTTTTAAATTTAATCAATA
1 TTTTTTAAATATAATCAATA
18227354 TTTTTT-AATATATATCAA
1 TTTTTTAAATATA-ATCAA
18227372 ATAGAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTTTAAATATAATCAATA
Found at i:18229654 original size:12 final size:12
Alignment explanation
Indices: 18229639--18229664 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18229629 GGGGAAAAGG
18229639 GAGAAAGAAAAA
1 GAGAAAGAAAAA
18229651 GAGAAAGAAAAA
1 GAGAAAGAAAAA
18229663 GA
1 GA
18229665 AGTAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAGAAAGAAAAA
Found at i:18230451 original size:41 final size:39
Alignment explanation
Indices: 18230405--18230530 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 39
18230395 CGACTTCGAG
*
18230405 TCGATGAGACACTAGGTGTCAATCTATTACTTCGAATTAA
1 TCGATGAGACACTAGGTGTCAAT-TATTACTTTGAATTAA
** ** **
18230445 TTCGATGAGGTACT-GAGTACCAA-T-TTACTTTGGTTTAA
1 -TCGATGAGACACTAG-GTGTCAATTATTACTTTGAATTAA
18230483 TCGATGAGACACTAGGTGTCAAATTATTACTTTGAATT-A
1 TCGATGAGACACTAGGTGTC-AATTATTACTTTGAATTAA
18230522 TCTGATGAG
1 TC-GATGAG
18230531 GCATTGGGTG
Statistics
Matches: 66, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
37 14 0.21
38 14 0.21
39 5 0.08
40 17 0.26
41 16 0.24
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (39 bp):
TCGATGAGACACTAGGTGTCAATTATTACTTTGAATTAA
Found at i:18233212 original size:31 final size:29
Alignment explanation
Indices: 18233168--18233227 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 29
18233158 TTCGTGATAA
18233168 TTTTTTTTTTATTAATGGAATAAAAAAAC
1 TTTTTTTTTTATTAATGGAATAAAAAAAC
*
18233197 TTTTTTTTTCGTATTAATGGAGTAAAAAAAC
1 TTTTTTTTT--TATTAATGGAATAAAAAAAC
18233228 CTAAAATCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 9 0.32
31 19 0.68
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (29 bp):
TTTTTTTTTTATTAATGGAATAAAAAAAC
Found at i:18238227 original size:2 final size:2
Alignment explanation
Indices: 18238220--18238245 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18238210 TCCTTCACTC
18238220 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
18238246 CATACTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18249812 original size:23 final size:23
Alignment explanation
Indices: 18249781--18249826 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
18249771 TATATAATAA
*
18249781 ATATATATATTTTATTTTTAATT
1 ATATATATATTTTAATTTTAATT
*
18249804 ATATTTATATTTTAATTTTAATT
1 ATATATATATTTTAATTTTAATT
18249827 TTAATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
ATATATATATTTTAATTTTAATT
Found at i:18249835 original size:6 final size:6
Alignment explanation
Indices: 18249789--18249837 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
18249779 AAATATATAT
* *
18249789 ATTTTA TTTTTA ATTAT- A-TTTA TATTTTA ATTTTA ATTTTA ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA -ATTTTA ATTTTA ATTTTA ATTTTA
18249836 AT
1 AT
18249838 ATAATCAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 2 0.06
5 1 0.03
6 29 0.81
7 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:18256887 original size:13 final size:14
Alignment explanation
Indices: 18256861--18256890 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
18256851 TCATTTAGTA
18256861 AATTAAGCTTGATT
1 AATTAAGCTTGATT
18256875 AATTAAG-TTGATT
1 AATTAAGCTTGATT
18256888 AAT
1 AAT
18256891 CTTAGTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.40, C:0.03, G:0.13, T:0.43
Consensus pattern (14 bp):
AATTAAGCTTGATT
Found at i:18259849 original size:20 final size:20
Alignment explanation
Indices: 18259800--18259851 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
18259790 CGGACAAGGG
18259800 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
* * *
18259820 ACATGAGCGTGTCTCAAGCC
1 ACACGGGCGTGTCCCAAGCC
18259840 ACACGGGCGTGT
1 ACACGGGCGTGT
18259852 GGAATCCACA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:18261559 original size:56 final size:56
Alignment explanation
Indices: 18261497--18261632 Score: 218
Period size: 56 Copynumber: 2.4 Consensus size: 56
18261487 ACCATGGCAT
* * *
18261497 CGATATATATGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCACCGATATGTGATTC
*
18261553 CGATATATGTGTGCGAGTAAGAGCACGTTTAATACGTTGGCACCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCACCGATATGTGATTC
* *
18261609 TGATTTATGTGTGCGAGTAAGACC
1 CGATATATGTGTGCGAGTAAGACC
18261633 CTGTCTGGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCACCGATATGTGATTC
Found at i:18262844 original size:21 final size:21
Alignment explanation
Indices: 18262820--18262884 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
18262810 AAGTCTAGCT
* *
18262820 GAAGCATATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
18262841 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
18262859 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
18262880 GAAGC
1 GAAGC
18262885 CCAAAGGCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:18262861 original size:39 final size:39
Alignment explanation
Indices: 18262802--18262902 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
18262792 ATCATGATTT
* * * *
18262802 GAAGCCCGAAGTCTAGCTGAAGCATATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
18262841 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
18262880 GAAGCCCAAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
18262903 TCATCAGAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:18262917 original size:39 final size:39
Alignment explanation
Indices: 18262835--18262962 Score: 120
Period size: 39 Copynumber: 3.2 Consensus size: 39
18262825 ATATAAGTGC
* *
18262835 TAAACGGAAGCCCGAAGGCTAACTGAAGCACA-CA-AGT
1 TAAACGGAAGCCCAAAGGCTAACTGAAGCTCATCAGAGT
18262872 GCTAAACGGAAGCCCAAAGGCTAACTGAAGCTCATCAGAGT
1 --TAAACGGAAGCCCAAAGGCTAACTGAAGCTCATCAGAGT
* * * *
18262913 TAAACTGAAACCCCAAAAGGGTTAACTGAAACTCAT-ACGAGT
1 TAAAC-GGAAGCCC-AAA-GGCTAACTGAAGCTCATCA-GAGT
18262955 T-AACGGAA
1 TAAACGGAA
18262963 ACTCGTAAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
39 35 0.46
40 11 0.14
41 10 0.13
42 20 0.26
ACGTcount: A:0.41, C:0.23, G:0.22, T:0.15
Consensus pattern (39 bp):
TAAACGGAAGCCCAAAGGCTAACTGAAGCTCATCAGAGT
Found at i:18262958 original size:20 final size:20
Alignment explanation
Indices: 18262893--18262966 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
18262883 GCCCAAAGGC
*
18262893 TAACTGAAGCTCAT-CAGAGT
1 TAACTGAAACTCATAC-GAGT
* * * *
18262913 TAAACTGAAACCCCAAAAGGGT
1 T-AACTGAAA-CTCATACGAGT
18262935 TAACTGAAACTCATACGAGT
1 TAACTGAAACTCATACGAGT
*
18262955 TAACGGAAACTC
1 TAACTGAAACTC
18262967 GTAAGAGCTA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
20 19 0.46
21 15 0.37
22 7 0.17
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
TAACTGAAACTCATACGAGT
Found at i:18264543 original size:18 final size:19
Alignment explanation
Indices: 18264509--18264544 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18264499 AATGCAATTT
18264509 ATATATGATGTAAGTGAAA
1 ATATATGATGTAAGTGAAA
*
18264528 ATATATG-TGTATGTGAA
1 ATATATGATGTAAGTGAA
18264545 TAGTACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (19 bp):
ATATATGATGTAAGTGAAA
Found at i:18266443 original size:21 final size:22
Alignment explanation
Indices: 18266417--18266467 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
18266407 GTATATATAT
18266417 AAAAAAAGGAATA-AAAGAAAG
1 AAAAAAAGGAATAGAAAGAAAG
* *
18266438 AAAAAAAAGAATAGAAAGGAAG
1 AAAAAAAGGAATAGAAAGAAAG
*
18266460 AAACAAAG
1 AAAAAAAG
18266468 CAAACGGAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (22 bp):
AAAAAAAGGAATAGAAAGAAAG
Found at i:18266445 original size:22 final size:22
Alignment explanation
Indices: 18266417--18266462 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
18266407 GTATATATAT
*
18266417 AAAAAAAGGAATA-AAAGAAAG
1 AAAAAAAAGAATAGAAAGAAAG
*
18266438 AAAAAAAAGAATAGAAAGGAAG
1 AAAAAAAAGAATAGAAAGAAAG
18266460 AAA
1 AAA
18266463 CAAAGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (22 bp):
AAAAAAAAGAATAGAAAGAAAG
Found at i:18268504 original size:46 final size:46
Alignment explanation
Indices: 18268452--18268666 Score: 324
Period size: 46 Copynumber: 4.7 Consensus size: 46
18268442 GCTCTTTGAA
* *
18268452 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
18268498 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
18268544 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
18268590 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
18268636 A-GAAAGTGAGTAAAACCATAGTTGAAAGATA
1 ATGAAA-TGTGTAAGACCATGGTTGAAAGATA
18268667 TTATGGCATC
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
45 4 0.03
46 153 0.97
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:18270584 original size:24 final size:24
Alignment explanation
Indices: 18270552--18270600 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
18270542 CATATCGACG
*
18270552 ATTCAAATCCGCACACATAGTGCC
1 ATTCAAATCCGCACACATAATGCC
18270576 ATTCAAATCCGCACACATAATGCC
1 ATTCAAATCCGCACACATAATGCC
18270600 A
1 A
18270601 AGGTCATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.33, G:0.10, T:0.20
Consensus pattern (24 bp):
ATTCAAATCCGCACACATAATGCC
Found at i:18276157 original size:24 final size:24
Alignment explanation
Indices: 18276129--18276175 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18276119 TTTAATGCTA
*
18276129 TGCTGTCAG-ATTTATGAATCAAAT
1 TGCTGTCAGCATTTA-AAATCAAAT
18276153 TGCTGTCAGCATTTAAAATCAAA
1 TGCTGTCAGCATTTAAAATCAAA
18276176 GTTCCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (24 bp):
TGCTGTCAGCATTTAAAATCAAAT
Found at i:18284078 original size:66 final size:66
Alignment explanation
Indices: 18283959--18284091 Score: 185
Period size: 66 Copynumber: 2.0 Consensus size: 66
18283949 TCCAAGCTCT
* * * * *
18283959 AGACCTGCTTCCATCGATCCTAATTATAGAGCGGATCCAAGCTCCAGATCTGCTTCCATTGATCC
1 AGACCCGCTTCCATCGATCCCAACTATAGAGCGGATCCAAGCTCCAGAGCTGCTCCCATTGATCC
18284024 C
66 C
* ** *
18284025 AGACCCGCTTCCATTGATCCCAACTATAGAGCGGATCCGGGCTCTAGAGCTGCTCCCATTGATCC
1 AGACCCGCTTCCATCGATCCCAACTATAGAGCGGATCCAAGCTCCAGAGCTGCTCCCATTGATCC
18284090 C
66 C
18284091 A
1 A
18284092 ATTATAGAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (66 bp):
AGACCCGCTTCCATCGATCCCAACTATAGAGCGGATCCAAGCTCCAGAGCTGCTCCCATTGATCC
C
Found at i:18284086 original size:45 final size:45
Alignment explanation
Indices: 18284035--18284236 Score: 289
Period size: 45 Copynumber: 4.5 Consensus size: 45
18284025 AGACCCGCTT
* * *
18284035 CCATTGATCCCAACTATAGAGCGGATCCGGGCTCTAGAGCTGCTC
1 CCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAGGTGCTC
* * *
18284080 CCATTGATCCCAATTATAGAGTGGATCCGAGCTCTAGAGTTGCTT
1 CCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAGGTGCTC
* * *
18284125 CCATTGATCCCAATTATAGAGCGGATCCAAGCGCTAGAGGTGCTT
1 CCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAGGTGCTC
*
18284170 CCATTGAGCCCAATTATAGAGCGGATCCGAG-TGCTAGAGGTGCTC
1 CCATTGATCCCAATTATAGAGCGGATCCGAGCT-CTAGAGGTGCTC
*
18284215 CGATTGATCCCAATTATAGAGC
1 CCATTGATCCCAATTATAGAGC
18284237 TGCTCCAGAG
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 141 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (45 bp):
CCATTGATCCCAATTATAGAGCGGATCCGAGCTCTAGAGGTGCTC
Found at i:18286534 original size:18 final size:18
Alignment explanation
Indices: 18286513--18286549 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
18286503 TATCTTATCC
18286513 TTTTCTTGAGTCTCTGAT
1 TTTTCTTGAGTCTCTGAT
18286531 TTTTCTTGAGTCTCTGAT
1 TTTTCTTGAGTCTCTGAT
18286549 T
1 T
18286550 ACCTTTCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (18 bp):
TTTTCTTGAGTCTCTGAT
Found at i:18298690 original size:21 final size:21
Alignment explanation
Indices: 18298666--18298758 Score: 89
Period size: 21 Copynumber: 4.4 Consensus size: 21
18298656 ACAGAAACAT
* * *
18298666 ATAAGGGTTGAACGGAAGCTC
1 ATAAGAGTTGAACGAAAACTC
*
18298687 ATAAGAGTTGAACGGAAACTC
1 ATAAGAGTTGAACGAAAACTC
* *
18298708 ATAAGGGTTAAAC-AAAAGCTC
1 ATAAGAGTTGAACGAAAA-CTC
* *
18298729 AAAAGAGCTGAACGAAAACTC
1 ATAAGAGTTGAACGAAAACTC
*
18298750 ATATGAGTT
1 ATAAGAGTT
18298759 AAACATAAGC
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
20 3 0.05
21 51 0.88
22 4 0.07
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (21 bp):
ATAAGAGTTGAACGAAAACTC
Found at i:18298705 original size:42 final size:42
Alignment explanation
Indices: 18298666--18298770 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
18298656 ACAGAAACAT
* ** * *
18298666 ATAAGGGTTGAACGGAAGCTCATAAGAGTTGAACGGAAACTC
1 ATAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACGGAAACTC
*
18298708 ATAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACGAAAACTC
1 ATAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACGGAAACTC
* * *
18298750 ATATGAGTTAAACATAAGCTC
1 ATAAGGGTTAAACAAAAGCTC
18298771 GTGAGAACTA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (42 bp):
ATAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACGGAAACTC
Found at i:18313110 original size:30 final size:29
Alignment explanation
Indices: 18313076--18313180 Score: 88
Period size: 30 Copynumber: 3.4 Consensus size: 29
18313066 AAAATTGGGT
18313076 TTAATTAAAATATTTAAAAAAATTATAAGA-
1 TTAATTAAAAT-TTTAAAAAAATTA-AAGAG
* *
18313106 TTAATGAGAATTTTTAAAAAAATTTAGAAGAG
1 TTAATTA-AAATTTTAAAAAAA-TTA-AAGAG
* *
18313138 TTCAATTAAAATTTTCAAAATAATTAAAGAA
1 TT-AATTAAAATTTT-AAAAAAATTAAAGAG
*
18313169 AT-ATTAAAATTT
1 TTAATTAAAATTT
18313181 ATCAAAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
29 10 0.16
30 16 0.26
31 15 0.24
32 11 0.18
33 10 0.16
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (29 bp):
TTAATTAAAATTTTAAAAAAATTAAAGAG
Found at i:18314042 original size:26 final size:25
Alignment explanation
Indices: 18313995--18314044 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
18313985 AAAATACTTT
*
18313995 AAAATTCTATATAAAAGATTTTTTA
1 AAAATTCTATATAAAACATTTTTTA
18314020 AAAATTACTATATAAAAC-TTTTTTA
1 AAAATT-CTATATAAAACATTTTTTA
18314045 CTTAGAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (25 bp):
AAAATTCTATATAAAACATTTTTTA
Found at i:18322535 original size:6 final size:6
Alignment explanation
Indices: 18322524--18322548 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18322514 ATGCCCACTC
18322524 TGTCTT TGTCTT TGTCTT TGTCTT T
1 TGTCTT TGTCTT TGTCTT TGTCTT T
18322549 TCCCTCCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.16, T:0.68
Consensus pattern (6 bp):
TGTCTT
Found at i:18326425 original size:6 final size:6
Alignment explanation
Indices: 18326414--18326445 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
18326404 AGATAATTTA
18326414 ATATGT ATATGT ATATGT ATATGT ATATGT AT
1 ATATGT ATATGT ATATGT ATATGT ATATGT AT
18326446 GTAAATGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:18328753 original size:30 final size:29
Alignment explanation
Indices: 18328717--18328782 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
18328707 ATAGTTTATA
18328717 AAAATTAGATC-AAATTAAAATTTTATGTAT
1 AAAATTAGA-CAAAATTAAAA-TTTATGTAT
*
18328747 AAAATTATACAAAATTAAAATTTATGTAT
1 AAAATTAGACAAAATTAAAATTTATGTAT
*
18328776 ATAATTA
1 AAAATTA
18328783 CATATTAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (29 bp):
AAAATTAGACAAAATTAAAATTTATGTAT
Found at i:18344313 original size:21 final size:20
Alignment explanation
Indices: 18344289--18344339 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
18344279 ATTTATAACA
* *
18344289 TATTCAATTCTCATCTCTTAC
1 TATTCAAATCTCAT-ACTTAC
*
18344310 TATTTCAAATCTCATACTTGC
1 TA-TTCAAATCTCATACTTAC
18344331 TATTCAAAT
1 TATTCAAAT
18344340 AGTTTTTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 7 0.27
21 8 0.31
22 11 0.42
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.45
Consensus pattern (20 bp):
TATTCAAATCTCATACTTAC
Found at i:18344525 original size:40 final size:38
Alignment explanation
Indices: 18344468--18344629 Score: 139
Period size: 37 Copynumber: 4.2 Consensus size: 38
18344458 TACCCAGTAG
* * * *
18344468 CTCATCGGATAATTCGAAGTAATAATTTGACACTTAGTGT
1 CTCATCGGCTAAATCGAAGTAA-AA-TTGACACTCAGTGC
*
18344508 CTCATCGGCTAAATCGAAGT-AAATTGACACTCGGTGC
1 CTCATCGGCTAAATCGAAGTAAAATTGACACTCAGTGC
* * *
18344545 CTCATCGGCTAAACCGAAGT-AAATTGGCACCCAGTGC
1 CTCATCGGCTAAATCGAAGTAAAATTGACACTCAGTGC
* ** * * *
18344582 CTCATTGAATTAATCCGAAGTAATAGATTGACACCCAGTGT
1 CTCATCGGCTAAAT-CGAAGTAA-A-ATTGACACTCAGTGC
18344623 CTCATCG
1 CTCATCG
18344630 ACTCGAAGTC
Statistics
Matches: 101, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
37 53 0.52
38 8 0.08
39 2 0.02
40 19 0.19
41 19 0.19
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (38 bp):
CTCATCGGCTAAATCGAAGTAAAATTGACACTCAGTGC
Found at i:18345586 original size:5 final size:4
Alignment explanation
Indices: 18345571--18345635 Score: 51
Period size: 4 Copynumber: 15.0 Consensus size: 4
18345561 TTTTCTATTC
*
18345571 TTTA TTTA TTTCA TTTA CTTA TTTA TTTTA TTATA TTTA CTTTA -TTA
1 TTTA TTTA TTT-A TTTA TTTA TTTA -TTTA TT-TA TTTA -TTTA TTTA
*
18345618 TTATA TTATA TATA TTTA
1 TT-TA TT-TA TTTA TTTA
18345636 CTTAAATATT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.06
4 24 0.47
5 24 0.47
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:18345600 original size:22 final size:21
Alignment explanation
Indices: 18345571--18345639 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 21
18345561 TTTTCTATTC
18345571 TTTATTTATT-TCATTTACTTA
1 TTTATTTATTAT-ATTTACTTA
18345592 TTTATTTTATTATATTTACTTTA
1 TTTA-TTTATTATATTTAC-TTA
18345615 TTATTATATTATATATATTTACTTA
1 -T-TTAT-TTAT-TATATTTACTTA
18345640 AATATTAAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
21 4 0.10
22 12 0.29
23 4 0.10
24 2 0.05
25 10 0.24
26 9 0.22
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATTTATTATATTTACTTA
Found at i:18345609 original size:14 final size:14
Alignment explanation
Indices: 18345590--18345635 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
18345580 TTCATTTACT
18345590 TATTTATTTTATTA
1 TATTTATTTTATTA
*
18345604 TATTTACTTTATTA
1 TATTTATTTTATTA
* *
18345618 T-TATATTATA-TA
1 TATTTATTTTATTA
18345630 TATTTA
1 TATTTA
18345636 CTTAAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
12 3 0.12
13 9 0.35
14 14 0.54
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTATTTTATTA
Found at i:18345618 original size:26 final size:26
Alignment explanation
Indices: 18345571--18345638 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 26
18345561 TTTTCTATTC
18345571 TTTATT-TATTT-CATTTACTTATTTAT
1 TTTATTATATTTAC-TTTACTTA-TTAT
18345597 TTTATTATATTTACTTTA-TTATTAT
1 TTTATTATATTTACTTTACTTATTAT
*
18345622 ATTATATATATTTACTT
1 TTTAT-TATATTTACTT
18345639 AAATATTAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
25 8 0.21
26 20 0.53
27 9 0.24
28 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTATTATATTTACTTTACTTATTAT
Found at i:18345645 original size:26 final size:25
Alignment explanation
Indices: 18345593--18345646 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
18345583 ATTTACTTAT
* * *
18345593 TTATTTTATTATATTTACTTTATTA
1 TTATATTATTATATTTACTTAAATA
18345618 TTATATTATATATATTTACTTAAATA
1 TTATATTAT-TATATTTACTTAAATA
18345644 TTA
1 TTA
18345647 AGTAATACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATATTATTATATTTACTTAAATA
Found at i:18345658 original size:26 final size:26
Alignment explanation
Indices: 18345603--18345660 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
18345593 TTATTTTATT
* * * *
18345603 ATATTTACTTTATTATTATATTATAT
1 ATATTTACTTAAATATTATATAATAC
18345629 ATATTTACTTAAATATTA-AGTAATAC
1 ATATTTACTTAAATATTATA-TAATAC
18345655 ATATTT
1 ATATTT
18345661 TATTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATTTACTTAAATATTATATAATAC
Found at i:18353926 original size:15 final size:16
Alignment explanation
Indices: 18353899--18353928 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18353889 AGATATTCCA
18353899 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
18353915 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
18353929 GGCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:18355396 original size:10 final size:10
Alignment explanation
Indices: 18355381--18355405 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18355371 CGTGGCGTGT
18355381 AGAAGTCCTA
1 AGAAGTCCTA
18355391 AGAAGTCCTA
1 AGAAGTCCTA
18355401 AGAAG
1 AGAAG
18355406 ATAGAACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (10 bp):
AGAAGTCCTA
Found at i:18360897 original size:40 final size:39
Alignment explanation
Indices: 18360833--18360926 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 39
18360823 CTTTTCTTTC
* *
18360833 TTTCTTTCCTTCCTTCCTTCCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCCTGTTTCGTTTTGCTCTCTG
*
18360873 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTC-CTGTTTCGTTTTGCTCTCTG
18360913 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
18360927 TTCTTTGTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
39 10 0.20
40 30 0.61
41 9 0.18
ACGTcount: A:0.00, C:0.29, G:0.09, T:0.63
Consensus pattern (39 bp):
TTTCTTTCTTTCTCCCTTCCTGTTTCGTTTTGCTCTCTG
Found at i:18366497 original size:20 final size:20
Alignment explanation
Indices: 18366472--18366510 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18366462 AATATTTTTT
18366472 ATTTAA-AAAAATATTAATAA
1 ATTTAATAAAAA-ATTAATAA
18366492 ATTTAATAAAAAATTAATA
1 ATTTAATAAAAAATTAATA
18366511 GACAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTTAATAAAAAATTAATAA
Found at i:18368098 original size:3 final size:3
Alignment explanation
Indices: 18368090--18368119 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
18368080 TACTTCCATC
*
18368090 TAA TAA TAA TAA TAA GAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18368120 AAGGTTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:18381532 original size:22 final size:22
Alignment explanation
Indices: 18381492--18381533 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18381482 TTAAAGTGTA
18381492 AATATAAAAATTTTGAAGGGCC
1 AATATAAAAATTTTGAAGGGCC
*
18381514 AATAGTAAATATTTT-AAGGG
1 AATA-TAAAAATTTTGAAGGG
18381534 TGGAATGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (22 bp):
AATATAAAAATTTTGAAGGGCC
Done.