Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 34 of 311
Found at i:9698280 original size:14 final size:14
Alignment explanation
Indices: 9698261--9698298 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
9698251 TGAGTTGGTG
*
9698261 CATTTGCATTCATA
1 CATTTGCATACATA
*
9698275 CATTTGCATACATC
1 CATTTGCATACATA
9698289 CATTTGCATA
1 CATTTGCATA
9698299 AACCATCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (14 bp):
CATTTGCATACATA
Found at i:9701932 original size:19 final size:20
Alignment explanation
Indices: 9701908--9701945 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9701898 TATTATTATT
9701908 TTTAAAAAAATTAA-CTGTG
1 TTTAAAAAAATTAAGCTGTG
*
9701927 TTTAAAACAATTAAGCTGT
1 TTTAAAAAAATTAAGCTGT
9701946 ACACCTCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (20 bp):
TTTAAAAAAATTAAGCTGTG
Found at i:9702203 original size:14 final size:14
Alignment explanation
Indices: 9702184--9702235 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
9702174 TTGGAAAGAT
9702184 TTATAAAAATAAAA
1 TTATAAAAATAAAA
* *
9702198 TTAT-AATATATAGA
1 TTATAAAAATA-AAA
*
9702212 TTATATAAAATAATA
1 TTATA-AAAATAAAA
9702227 TTATAAAAA
1 TTATAAAAA
9702236 ATTCTGTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 5 0.16
14 14 0.45
15 7 0.23
16 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TTATAAAAATAAAA
Found at i:9713347 original size:8 final size:8
Alignment explanation
Indices: 9713334--9713373 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
9713324 TGCAATGCTA
9713334 ATGCATGT
1 ATGCATGT
9713342 ATGCATGT
1 ATGCATGT
9713350 ATGCATGT
1 ATGCATGT
*
9713358 ATGTATGT
1 ATGCATGT
*
9713366 ATGTATGT
1 ATGCATGT
9713374 GTACAAACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (8 bp):
ATGCATGT
Found at i:9713363 original size:4 final size:4
Alignment explanation
Indices: 9713338--9713373 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
9713328 ATGCTAATGC
* *
9713338 ATGT ATGC ATGT ATGC ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9713374 GTACAAACCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (4 bp):
ATGT
Found at i:9725168 original size:26 final size:26
Alignment explanation
Indices: 9725082--9725168 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
9725072 ATATACGCTG
* *
9725082 GCTCAAAGCTTGCTAAATAACCATCA
1 GCTCAAGGCTTGCTAAATAACCACCA
* * *
9725108 ACTCAAGG-TCTGCTAAATAATCACCG
1 GCTCAAGGCT-TGCTAAATAACCACCA
*
9725134 GCTCGAGGCTTGCTAAATAACCACCA
1 GCTCAAGGCTTGCTAAATAACCACCA
9725160 GCTCAAGGC
1 GCTCAAGGC
9725169 CTATTTTTCT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
25 1 0.02
26 47 0.96
27 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (26 bp):
GCTCAAGGCTTGCTAAATAACCACCA
Found at i:9731058 original size:18 final size:19
Alignment explanation
Indices: 9731030--9731065 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9731020 ATAACCACCA
9731030 TTGACAATTTTATCAAAAT
1 TTGACAATTTTATCAAAAT
*
9731049 TTGA-AATTTTATTAAAA
1 TTGACAATTTTATCAAAA
9731066 ATAAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (19 bp):
TTGACAATTTTATCAAAAT
Found at i:9731066 original size:19 final size:19
Alignment explanation
Indices: 9731030--9731067 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9731020 ATAACCACCA
*
9731030 TTGACAATTTTATCAAAAT
1 TTGACAATTTTATAAAAAT
9731049 TTGA-AATTTTATTAAAAAT
1 TTGACAATTTTA-TAAAAAT
9731068 AAAAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
TTGACAATTTTATAAAAAT
Found at i:9733686 original size:18 final size:20
Alignment explanation
Indices: 9733660--9733697 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
9733650 TCAGAGTGAT
*
9733660 TAAATTGAC-AAAA-AAAAA
1 TAAAATGACTAAAATAAAAA
9733678 TAAAATGACTAAAATAAAAA
1 TAAAATGACTAAAATAAAAA
9733698 CAATACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (20 bp):
TAAAATGACTAAAATAAAAA
Found at i:9733944 original size:21 final size:23
Alignment explanation
Indices: 9733920--9733970 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
9733910 AATATGCGAA
* *
9733920 TATTTTTAATTTTTTAA-T-TTT
1 TATTTTTAAGTGTTTAATTATTT
*
9733941 TATTTTCAAGTGTTTAATTATTT
1 TATTTTTAAGTGTTTAATTATTT
9733964 TATTTTT
1 TATTTTT
9733971 CGTATTTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 14 0.58
22 1 0.04
23 9 0.38
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (23 bp):
TATTTTTAAGTGTTTAATTATTT
Found at i:9750382 original size:27 final size:27
Alignment explanation
Indices: 9750317--9750388 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
9750307 TTCTAAAAAA
*
9750317 ACTATTTCTCTCAGTGTTCGCCATACGC
1 ACTATTTCT-TCAGAGTTCGCCATACGC
* * *
9750345 ACTTTTTCTTCAGAGTTCGCCATATGT
1 ACTATTTCTTCAGAGTTCGCCATACGC
* *
9750372 ACTATTCCTTCAAAGTT
1 ACTATTTCTTCAGAGTT
9750389 TGTCATATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 29 0.78
28 8 0.22
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.40
Consensus pattern (27 bp):
ACTATTTCTTCAGAGTTCGCCATACGC
Found at i:9750525 original size:27 final size:28
Alignment explanation
Indices: 9750487--9750548 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
9750477 TACGAAGGAG
* *
9750487 TTCC-TTTCCATAGATCGCCACAAAGGC
1 TTCCATTTCCATAGATCACCACAAAAGC
*
9750514 TTCCATTT-CATAGATTACCACAAAAGC
1 TTCCATTTCCATAGATCACCACAAAAGC
9750541 TTCCATTT
1 TTCCATTT
9750549 TTCTGGTGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 28 0.90
28 3 0.10
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (28 bp):
TTCCATTTCCATAGATCACCACAAAAGC
Found at i:9750713 original size:50 final size:51
Alignment explanation
Indices: 9750640--9750739 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 51
9750630 CCTTCAGTTC
*
9750640 TTTCCATATGATGCCATAACCCACCA-ATTATGATC-TTATACGATATGGTA
1 TTTCCATATGATGCCATAACCCACCAGA-TATGATCTTTACACGATATGGTA
* * * *
9750690 TTTCGATATGATGTCATAGCCCACCAGATATGGTCTTTACACGATATGGT
1 TTTCCATATGATGCCATAACCCACCAGATATGATCTTTACACGATATGGT
9750740 GCCATGAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 29 0.67
51 14 0.33
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (51 bp):
TTTCCATATGATGCCATAACCCACCAGATATGATCTTTACACGATATGGTA
Found at i:9756740 original size:19 final size:19
Alignment explanation
Indices: 9756716--9756759 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
9756706 TATTGCTTAA
9756716 ATTTTATTTTTATAATTTT-
1 ATTTTATTTTTAT-ATTTTG
*
9756735 ATTTTATTTTTGTATTTTG
1 ATTTTATTTTTATATTTTG
9756754 ATTTTA
1 ATTTTA
9756760 GATATTGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
ATTTTATTTTTATATTTTG
Found at i:9768250 original size:20 final size:20
Alignment explanation
Indices: 9768227--9768273 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
9768217 ATTTATTTAT
* *
9768227 TAAAATAATAATTTTATAAA
1 TAAAACAATAATCTTATAAA
9768247 TAAAACAATAATCTTAT--A
1 TAAAACAATAATCTTATAAA
9768265 TAAAACAAT
1 TAAAACAAT
9768274 TTAAGCGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 10 0.40
20 15 0.60
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAACAATAATCTTATAAA
Found at i:9770893 original size:18 final size:18
Alignment explanation
Indices: 9770870--9770906 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9770860 ACGACCGAAA
9770870 ACAAAGAGTCAAAAAGGT
1 ACAAAGAGTCAAAAAGGT
9770888 ACAAAGAGTCAAAAAGGT
1 ACAAAGAGTCAAAAAGGT
9770906 A
1 A
9770907 TTCTCACCAT
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:0.57, C:0.11, G:0.22, T:0.11
Consensus pattern (18 bp):
ACAAAGAGTCAAAAAGGT
Found at i:9770981 original size:21 final size:21
Alignment explanation
Indices: 9770931--9770981 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
9770921 TAAAGACAAC
*
9770931 AAAACAAAATTACAGAAAAAG
1 AAAACAAAATGACAGAAAAAG
*
9770952 AAAAGAAAATGAC-GAAGGAAAG
1 AAAACAAAATGACAGAA--AAAG
9770974 -AAACAAAA
1 AAAACAAAA
9770982 GAAATAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 3 0.12
21 18 0.72
22 4 0.16
ACGTcount: A:0.71, C:0.08, G:0.16, T:0.06
Consensus pattern (21 bp):
AAAACAAAATGACAGAAAAAG
Found at i:9773565 original size:19 final size:19
Alignment explanation
Indices: 9773541--9773598 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 19
9773531 ATTTTAATTT
9773541 AAATATATAAATTATATTA
1 AAATATATAAATTATATTA
9773560 AAATATA-ATAATTATAAATTA
1 AAATATATA-AATTAT--ATTA
9773581 AAATATATAAAATTATAT
1 AAATATAT-AAATTATAT
9773599 ATTTGAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.03
19 13 0.38
20 2 0.06
21 11 0.32
22 6 0.18
23 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATATATAAATTATATTA
Found at i:9774696 original size:9 final size:9
Alignment explanation
Indices: 9774682--9774763 Score: 51
Period size: 9 Copynumber: 8.2 Consensus size: 9
9774672 TGATTGGTCC
9774682 AAAAATATT
1 AAAAATATT
9774691 AAAAAT-TAT
1 AAAAATAT-T
9774700 AAAAATATT
1 AAAAATATT
*
9774709 ATTTACCAAATTTT
1 A---A--AAATATT
9774723 AAAAATTATTT
1 AAAAA-TA-TT
9774734 AAAAATA-T
1 AAAAATATT
9774742 AAAAATTATTT
1 AAAAA-TA-TT
9774753 AAAAATATT
1 AAAAATATT
9774762 AA
1 AA
9774764 GAAGTTGTAC
Statistics
Matches: 59, Mismatches: 2, Indels: 24
0.69 0.02 0.28
Matches are distributed among these distances:
8 7 0.12
9 24 0.41
10 6 0.10
11 14 0.24
12 1 0.02
14 7 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAAATATT
Found at i:9774737 original size:10 final size:10
Alignment explanation
Indices: 9774682--9774763 Score: 66
Period size: 11 Copynumber: 8.2 Consensus size: 10
9774672 TGATTGGTCC
9774682 AAAAA-TATT
1 AAAAATTATT
*
9774691 AAAAATTATA
1 AAAAATTATT
9774701 AAAATATTATTT
1 AAAA-ATTA-TT
*
9774713 ACCAAATT-TT
1 A-AAAATTATT
9774723 AAAAATTATTT
1 AAAAATTA-TT
9774734 AAAAA-TA-T
1 AAAAATTATT
9774742 AAAAATTATTT
1 AAAAATTA-TT
9774753 AAAAA-TATT
1 AAAAATTATT
9774762 AA
1 AA
9774764 GAAGTTGTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
8 6 0.10
9 16 0.27
10 14 0.23
11 17 0.28
12 5 0.08
13 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAAATTATT
Found at i:9774746 original size:19 final size:19
Alignment explanation
Indices: 9774689--9774760 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 19
9774679 TCCAAAAATA
9774689 TTAAAAATTATAAAAATATTAT
1 TTAAAAA-TAT-AAAA-ATTAT
* *
9774711 TTACCAAATTTTAAAAATTAT
1 TTA--AAAATATAAAAATTAT
9774732 TTAAAAATATAAAAATTAT
1 TTAAAAATATAAAAATTAT
9774751 TTAAAAATAT
1 TTAAAAATAT
9774761 TAAGAAGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
19 24 0.55
21 8 0.18
22 7 0.16
23 2 0.05
24 3 0.07
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAAATATAAAAATTAT
Found at i:9775116 original size:37 final size:38
Alignment explanation
Indices: 9775075--9775159 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 38
9775065 CATAATAATT
* *
9775075 TTTTAAAAAATTCTT-ATAATTTTTATAATTTTAAT-CA
1 TTTTAAAAAATT-TTAATAATTTTCAAAATTTTAATACA
* **
9775112 TTTTAAAAAATTTTAATGATTTTCAAAATTTTTTTACA
1 TTTTAAAAAATTTTAATAATTTTCAAAATTTTAATACA
9775150 TTTTAAAAAA
1 TTTTAAAAAA
9775160 GTTGCAAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 2 0.05
37 27 0.66
38 12 0.29
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (38 bp):
TTTTAAAAAATTTTAATAATTTTCAAAATTTTAATACA
Found at i:9775125 original size:19 final size:19
Alignment explanation
Indices: 9775075--9775159 Score: 68
Period size: 19 Copynumber: 4.5 Consensus size: 19
9775065 CATAATAATT
*
9775075 TTTTAAAAAATTCTT-ATAA
1 TTTTAAAAAATT-TTAATCA
* *
9775094 TTTT-TATAATTTTAATCA
1 TTTTAAAAAATTTTAATCA
*
9775112 TTTTAAAAAATTTTAATGA
1 TTTTAAAAAATTTTAATCA
* **
9775131 TTTT-CAAAATTTTTTTACA
1 TTTTAAAAAATTTTAAT-CA
9775150 TTTTAAAAAA
1 TTTTAAAAAA
9775160 GTTGCAAGTT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
17 2 0.04
18 21 0.41
19 24 0.47
20 4 0.08
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (19 bp):
TTTTAAAAAATTTTAATCA
Found at i:9775823 original size:20 final size:18
Alignment explanation
Indices: 9775793--9775890 Score: 83
Period size: 19 Copynumber: 5.1 Consensus size: 18
9775783 TATACACATT
9775793 AAAAA-ATATAAAAATAGA
1 AAAAATATATAAAAATA-A
*
9775811 AATAAATATATAAAAAAATTA
1 AA-AAATATAT--AAAAATAA
*
9775832 AAAAATATATAAAATCTAA
1 AAAAATATATAAAA-ATAA
*
9775851 AAAAACATATAAAAAATATA
1 AAAAATATAT-AAAAATA-A
9775871 AAATAAT-TATAAAAATAA
1 AAA-AATATATAAAAATAA
9775889 AA
1 AA
9775891 TTTAAAAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
18 9 0.14
19 23 0.35
20 23 0.35
21 5 0.08
22 6 0.09
ACGTcount: A:0.73, C:0.02, G:0.01, T:0.23
Consensus pattern (18 bp):
AAAAATATATAAAAATAA
Found at i:9775829 original size:30 final size:30
Alignment explanation
Indices: 9775793--9775898 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 30
9775783 TATACACATT
*
9775793 AAAAAATATAAAAATAGAAATAAATATATA
1 AAAAAATATAAAAATAAAAATAAATATATA
* * *
9775823 AAAAAAT-TAAAAA-ATATATAAA-ATCTAA
1 AAAAAATATAAAAATAAAAATAAATATAT-A
* *
9775851 AAAAACATATAAAAAATATAAAATAATTATAAA
1 AAAAA-ATAT-AAAAATA-AAAATAAATATATA
*
9775884 AATAAAATTTAAAAA
1 AA-AAAATATAAAAA
9775899 AAATATGATA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
27 3 0.05
28 13 0.22
29 8 0.14
30 8 0.14
31 5 0.08
32 6 0.10
33 11 0.19
34 5 0.08
ACGTcount: A:0.73, C:0.02, G:0.01, T:0.25
Consensus pattern (30 bp):
AAAAAATATAAAAATAAAAATAAATATATA
Found at i:9775836 original size:39 final size:38
Alignment explanation
Indices: 9775793--9775891 Score: 112
Period size: 39 Copynumber: 2.5 Consensus size: 38
9775783 TATACACATT
*
9775793 AAAAAATATAAAAATAGAAATAAATATATAAAAAA-ATTA
1 AAAAAATATAAAAATA-AAATAAACATATAAAAAATA-TA
*
9775832 AAAAATATATAAAATCTAAAA-AAACATATAAAAAATATA
1 AAAAA-ATATAAAA-ATAAAATAAACATATAAAAAATATA
*
9775871 AAATAATTATAAAAATAAAAT
1 AAA-AAATATAAAAATAAAAT
9775892 TTAAAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
38 5 0.10
39 30 0.59
40 14 0.27
41 2 0.04
ACGTcount: A:0.73, C:0.02, G:0.01, T:0.24
Consensus pattern (38 bp):
AAAAAATATAAAAATAAAATAAACATATAAAAAATATA
Found at i:9775866 original size:21 final size:20
Alignment explanation
Indices: 9775793--9775885 Score: 84
Period size: 21 Copynumber: 4.7 Consensus size: 20
9775783 TATACACATT
*
9775793 AAAAAATAT-AAAAATAGAA
1 AAAAAATATAAAAAATATAA
* *
9775812 ATAAATATATAAAAAA-AT-T
1 A-AAAAATATAAAAAATATAA
* *
9775831 AAAAAATATATAAAATCTAA
1 AAAAAATATAAAAAATATAA
9775851 AAAAACATATAAAAAATATAA
1 AAAAA-ATATAAAAAATATAA
* *
9775872 AATAATTATAAAAA
1 AAAAAATATAAAAA
9775886 TAAAATTTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
18 12 0.21
19 3 0.05
20 21 0.36
21 22 0.38
ACGTcount: A:0.73, C:0.02, G:0.01, T:0.24
Consensus pattern (20 bp):
AAAAAATATAAAAAATATAA
Found at i:9775890 original size:38 final size:38
Alignment explanation
Indices: 9775790--9775891 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 38
9775780 GTATATACAC
*
9775790 ATTAAAAAA-TATAAAAATAGAAATAAATATATAAAAAA
1 ATTAAAAAATTATAAAAATA-AAATAAACATATAAAAAA
*
9775828 ATTAAAAAATATATAAAATCTAAAA-AAACATAT-AAAAA
1 ATTAAAAAAT-TATAAAA-ATAAAATAAACATATAAAAAA
9775866 ATATAAAATAATTATAAAAATAAAAT
1 AT-TAAAA-AATTATAAAAATAAAAT
9775892 TTAAAAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
38 21 0.38
39 19 0.35
40 13 0.24
41 2 0.04
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (38 bp):
ATTAAAAAATTATAAAAATAAAATAAACATATAAAAAA
Found at i:9776226 original size:26 final size:26
Alignment explanation
Indices: 9776157--9776230 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
9776147 TTAAAATTTG
*
9776157 AAATTATATATTTTATA-ATTTTATA
1 AAATTATATATTTTATACATTTTTTA
* *
9776182 AAA-AATA-ATTTTTAAACATTTTTTA
1 AAATTATATA-TTTTATACATTTTTTA
*
9776207 AAATTATATATTATATACATTTTT
1 AAATTATATATTTTATACATTTTT
9776231 ACATTTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
23 1 0.03
24 9 0.23
25 13 0.33
26 15 0.38
27 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (26 bp):
AAATTATATATTTTATACATTTTTTA
Found at i:9778627 original size:17 final size:18
Alignment explanation
Indices: 9778597--9778630 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9778587 TCAATTAATT
9778597 AATTAAATTAATTTTCTC
1 AATTAAATTAATTTTCTC
*
9778615 AATTAGATT-ATTTTCT
1 AATTAAATTAATTTTCT
9778631 TAACTCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (18 bp):
AATTAAATTAATTTTCTC
Found at i:9780965 original size:29 final size:26
Alignment explanation
Indices: 9780932--9780997 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
9780922 TTGACTTCCT
9780932 TTTATTTTATGTAAATATTCTCTCTTAAA
1 TTTA-TTTATGTAAATATTCT-T-TTAAA
* *
9780961 TTTA-TTATATATATATTCTTTTAAA
1 TTTATTTATGTAAATATTCTTTTAAA
9780986 TTTATTTATGTA
1 TTTATTTATGTA
9780998 TAATTTGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 9 0.27
26 7 0.21
27 13 0.39
29 4 0.12
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTATTTATGTAAATATTCTTTTAAA
Found at i:9780989 original size:25 final size:26
Alignment explanation
Indices: 9780946--9780999 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
9780936 TTTTATGTAA
9780946 ATATTCTCTCTTAAATTTATTATATAT
1 ATATTCTCTCTTAAATTTATT-TATAT
*
9780973 ATATTCT-T-TTAAATTTATTTATGT
1 ATATTCTCTCTTAAATTTATTTATAT
9780997 ATA
1 ATA
9781000 ATTTGGTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.27
25 11 0.42
26 1 0.04
27 7 0.27
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (26 bp):
ATATTCTCTCTTAAATTTATTTATAT
Found at i:9781760 original size:125 final size:125
Alignment explanation
Indices: 9781552--9781831 Score: 443
Period size: 125 Copynumber: 2.2 Consensus size: 125
9781542 AGTTTGCGAG
* *
9781552 ATCGTACCCAATCGTGCTAGGTTTCGATTTTTCATTCGACTAAAATACAAAATATCCTTTTGAAA
1 ATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACAAAATATCCTTTTGAAA
** * * *
9781617 TTTTGTCTATGTTCTCTTAAATTAAAGCGAGGCAATATTTCATATTTGGAAGTTCGATAA
66 TTTCATCCATGTTCTCTTAAATTAAAACGAGGCAATATTTCATATATGGAAGTTCGATAA
* * *
9781677 ATCGTGCCCAATGGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACGAAATATCCTTTTGGAA
1 ATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACAAAATATCCTTTTGAAA
* * *
9781742 TTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATATGGAAGTTCGATAA
66 TTTCATCCATGTTCTCTTAAATTAAAACGAGGCAATATTTCATATATGGAAGTTCGATAA
9781802 ATCGTGCCCAATCGTGCTGGGTTTCGATTT
1 ATCGTGCCCAATCGTGCTGGGTTTCGATTT
9781832 ACCGTTTGGC
Statistics
Matches: 141, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 141 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (125 bp):
ATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACAAAATATCCTTTTGAAA
TTTCATCCATGTTCTCTTAAATTAAAACGAGGCAATATTTCATATATGGAAGTTCGATAA
Found at i:9781855 original size:125 final size:125
Alignment explanation
Indices: 9781552--9781872 Score: 410
Period size: 125 Copynumber: 2.6 Consensus size: 125
9781542 AGTTTGCGAG
* * ** *
9781552 ATCGTACCCAATCGTGCTAGGTTTCGATTTTTCATTCGACTAAAATACAAAATATCCTTTTGAAA
1 ATCGTGCCCAATCGTGCTGGGTTTCGATTTACCATTCGACTAAAATACCAAATATCCTTTTGAAA
** * * *
9781617 TTTTGTCTATGTTCTCTTAAATTAAAGCGAGGCAATATTTCATATTTGGAAGTTCGATAA
66 TTTCATCCATGTTCTCTTAAATTAAAACGAGGCAATATTTCATATATGGAAGTTCGATAA
* ** * *
9781677 ATCGTGCCCAATGGTGCTGGGTTTCGATTTTTCATTCGACTAAAATACGAAATATCCTTTTGGAA
1 ATCGTGCCCAATCGTGCTGGGTTTCGATTTACCATTCGACTAAAATACCAAATATCCTTTTGAAA
* * *
9781742 TTTCATCCATGTTTTCTTAAATTAAAATGAGGCAATATTTCGTATATGGAAGTTCGATAA
66 TTTCATCCATGTTCTCTTAAATTAAAACGAGGCAATATTTCATATATGGAAGTTCGATAA
* * * **
9781802 ATCGTGCCCAATCGTGCTGGGTTTCGATTTACCGTTTGGC-CGAATAGCCAAATATCCTTTTTGA
1 ATCGTGCCCAATCGTGCTGGGTTTCGATTTACCATTCGACTAAAATA-CCAAATATCC-TTTTGA
9781866 AATTTCA
64 AATTTCA
9781873 AATGTATGAG
Statistics
Matches: 171, Mismatches: 23, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
124 4 0.02
125 155 0.91
126 12 0.07
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (125 bp):
ATCGTGCCCAATCGTGCTGGGTTTCGATTTACCATTCGACTAAAATACCAAATATCCTTTTGAAA
TTTCATCCATGTTCTCTTAAATTAAAACGAGGCAATATTTCATATATGGAAGTTCGATAA
Found at i:9783836 original size:18 final size:18
Alignment explanation
Indices: 9783810--9783845 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9783800 GTTAGAATGC
*
9783810 AAAAGTGATATCGATATA
1 AAAAATGATATCGATATA
9783828 AAAAATGATATCGATATA
1 AAAAATGATATCGATATA
9783846 TTTTGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.14, T:0.28
Consensus pattern (18 bp):
AAAAATGATATCGATATA
Found at i:9784736 original size:53 final size:53
Alignment explanation
Indices: 9784656--9784763 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
9784646 TCAATATATA
* *
9784656 AGGCCTATGTGTTAGTATCTTACCTAAGGTACCAGTACATAGAATATATGTAT
1 AGGCCTATGTGTCAGTACCTTACCTAAGGTACCAGTACATAGAATATATGTAT
* **
9784709 AGGCCTATGTGTCAGTACCTTATCTAAGGTATTAGTACATAGAATATATGTAT
1 AGGCCTATGTGTCAGTACCTTACCTAAGGTACCAGTACATAGAATATATGTAT
9784762 AG
1 AG
9784764 ACACATAGCC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (53 bp):
AGGCCTATGTGTCAGTACCTTACCTAAGGTACCAGTACATAGAATATATGTAT
Found at i:9785297 original size:73 final size:73
Alignment explanation
Indices: 9785177--9785362 Score: 246
Period size: 73 Copynumber: 2.5 Consensus size: 73
9785167 TCACTTGGGT
* * * *
9785177 CACATGACCAAGCCACACGCCCGTGTGCTAGGCCGTGTGAGCAATTTGGCTTGCATTATTTAAGT
1 CACATGGCCAAGCCACACGCCCGTGTGCTAGGCCGTGTGAGCAATTTGACTTACATTATTGAAGT
9785242 GCAAGGGA
66 GCAAGGGA
* * * * *
9785250 TACATGGCCAAGCCACATGCCCGTGTGTTAGGCCGTGTTAGCAATTTGACTTATATTATTGAAGT
1 CACATGGCCAAGCCACACGCCCGTGTGCTAGGCCGTGTGAGCAATTTGACTTACATTATTGAAGT
*
9785315 GCAGGGGA
66 GCAAGGGA
* * * *
9785323 CACACGGCCAAGTCACACGCTCGTGTGCTAGGCCATGTGA
1 CACATGGCCAAGCCACACGCCCGTGTGCTAGGCCGTGTGA
9785363 AAATACCTGA
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 95 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (73 bp):
CACATGGCCAAGCCACACGCCCGTGTGCTAGGCCGTGTGAGCAATTTGACTTACATTATTGAAGT
GCAAGGGA
Found at i:9786064 original size:25 final size:25
Alignment explanation
Indices: 9786036--9786094 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
9786026 GAACATAAAT
* *
9786036 GGGAAGCTCTTCCGAGCCTTATAAC
1 GGGAAGCTCATCCGAGCCATATAAC
* *
9786061 GGGAAGCTCATGCGAGCCATGTAAC
1 GGGAAGCTCATCCGAGCCATATAAC
*
9786086 GAGAAGCTC
1 GGGAAGCTC
9786095 CGGAGAGCCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.29, T:0.19
Consensus pattern (25 bp):
GGGAAGCTCATCCGAGCCATATAAC
Found at i:9786211 original size:26 final size:26
Alignment explanation
Indices: 9786180--9786252 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
9786170 GAGAGCCACA
*
9786180 ATCGGAAAGCTCACAAAGTGCCTTTT
1 ATCGGAAAGCTCACAAAGAGCCTTTT
* *
9786206 ATCGGAAAGCTCACAAAAAGCTTTTT
1 ATCGGAAAGCTCACAAAGAGCCTTTT
*
9786232 ATCGGGAAGCTC-CAAAGAGCC
1 ATCGGAAAGCTCACAAAGAGCC
9786253 ATAGATCGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
25 7 0.17
26 34 0.83
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (26 bp):
ATCGGAAAGCTCACAAAGAGCCTTTT
Found at i:9787533 original size:30 final size:30
Alignment explanation
Indices: 9787445--9787535 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 30
9787435 GAAAAGAGGA
* * ** *
9787445 ACCAGTAGCTCCTTTAATGCCGTTCCATAC
1 ACCAGCAGCACCTTTAATGTTGTTCCATGC
*
9787475 ACCAGCAGCACCTTTAATATTGTTCCATGC
1 ACCAGCAGCACCTTTAATGTTGTTCCATGC
*
9787505 ACCAGCAGCACCTTTAATGTTGTCCCATGC
1 ACCAGCAGCACCTTTAATGTTGTTCCATGC
9787535 A
1 A
9787536 TGCTTTCTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (30 bp):
ACCAGCAGCACCTTTAATGTTGTTCCATGC
Found at i:9787623 original size:38 final size:38
Alignment explanation
Indices: 9787529--9787639 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 38
9787519 TAATGTTGTC
*
9787529 CCATGCATGCTTTCTTTAATACCTGCACATTAAATTCAG
1 CCATGCATGCTTT-TTTAACACCTGCACATTAAATTCAG
* * * *
9787568 CCATACATGTTTTTTTTAACACTTGCACATT-AATTCGG
1 CCATGCATG-CTTTTTTAACACCTGCACATTAAATTCAG
* ** *
9787606 TCATGCATGCTTGTTTTAATGCCTACACATTAAA
1 CCATGCATGCTT-TTTTAACACCTGCACATTAAA
9787640 AATCAACAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
37 2 0.04
38 27 0.47
39 25 0.44
40 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.39
Consensus pattern (38 bp):
CCATGCATGCTTTTTTAACACCTGCACATTAAATTCAG
Found at i:9789922 original size:19 final size:20
Alignment explanation
Indices: 9789881--9789922 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
9789871 TTTCTTCGTA
*
9789881 CTCACTCTCTTTTTTCTCACT
1 CTCAATCTCTTTTTTCT-ACT
9789902 CTCAATCTCTTTTTTCT-CT
1 CTCAATCTCTTTTTTCTACT
9789921 CT
1 CT
9789923 TTTATTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
21 16 0.80
ACGTcount: A:0.10, C:0.36, G:0.00, T:0.55
Consensus pattern (20 bp):
CTCAATCTCTTTTTTCTACT
Found at i:9791982 original size:30 final size:30
Alignment explanation
Indices: 9791946--9792024 Score: 113
Period size: 30 Copynumber: 2.6 Consensus size: 30
9791936 GAAAAGAGGA
* *
9791946 ACCAGCAGCTCCTTTAATGTCGTTCCATGT
1 ACCAGCAGCTCCTTTAATGTCGTTCCAAGC
* * *
9791976 ACCAGCAACTCCTTTAATATTGTTCCAAGC
1 ACCAGCAGCTCCTTTAATGTCGTTCCAAGC
9792006 ACCAGCAGCTCCTTTAATG
1 ACCAGCAGCTCCTTTAATG
9792025 CTGTCCCATG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.30
Consensus pattern (30 bp):
ACCAGCAGCTCCTTTAATGTCGTTCCAAGC
Found at i:9792114 original size:36 final size:38
Alignment explanation
Indices: 9792031--9792138 Score: 148
Period size: 36 Copynumber: 2.8 Consensus size: 38
9792021 AATGCTGTCC
*
9792031 CATGCATGCTTTCTTTAATACCTGCACATTAAATTTGGT
1 CATGCATGC-TTCTTTAATACCTGCACATTAAATTCGGT
*
9792070 CATGCATGCTT-TTTAATACTTGCACATT-AATTCGGT
1 CATGCATGCTTCTTTAATACCTGCACATTAAATTCGGT
* *
9792106 CATGCATGCTTGCTTTAATGCCTACACATTAAA
1 CATGCATGCTT-CTTTAATACCTGCACATTAAA
9792139 AATCAACAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
36 18 0.30
37 16 0.26
38 16 0.26
39 11 0.18
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (38 bp):
CATGCATGCTTCTTTAATACCTGCACATTAAATTCGGT
Found at i:9798934 original size:17 final size:18
Alignment explanation
Indices: 9798901--9798936 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9798891 CATGTGTGTA
9798901 AATAATAAACATATATTT
1 AATAATAAACATATATTT
*
9798919 AATAATAAA-TTATATTT
1 AATAATAAACATATATTT
9798936 A
1 A
9798937 CTTATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATAAACATATATTT
Found at i:9798969 original size:8 final size:8
Alignment explanation
Indices: 9798956--9798991 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
9798946 TAAGTAAATG
9798956 TTATTATA
1 TTATTATA
9798964 TTATTATA
1 TTATTATA
*
9798972 TTACTATA
1 TTATTATA
9798980 TTATTATA
1 TTATTATA
9798988 TTAT
1 TTAT
9798992 ATAAAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATTATA
Found at i:9799042 original size:16 final size:15
Alignment explanation
Indices: 9799012--9799051 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
9799002 AAGAACAAAT
*
9799012 AAAAGAAACAAAAGA
1 AAAAGAAAAAAAAGA
9799027 AAAAGAAAGAAAAAGA
1 AAAAGAAA-AAAAAGA
*
9799043 GAAAGAAAA
1 AAAAGAAAA
9799052 GAAGGAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAGA
Found at i:9809065 original size:12 final size:12
Alignment explanation
Indices: 9809048--9809072 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9809038 GTCGACTACT
9809048 GTTACTGTTACC
1 GTTACTGTTACC
9809060 GTTACTGTTACC
1 GTTACTGTTACC
9809072 G
1 G
9809073 ATTCGGTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:9809172 original size:53 final size:53
Alignment explanation
Indices: 9809111--9809231 Score: 215
Period size: 53 Copynumber: 2.3 Consensus size: 53
9809101 TACTGTTACC
**
9809111 GTTACTGTTACTGTTTTGGATTTGTTCCGATGAGGTACTCTGTGTACCATACT
1 GTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCATACT
9809164 GTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCATACT
1 GTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCATACT
*
9809217 GCTACTGTTACTGTT
1 GTTACTGTTACTGTT
9809232 ACTGTTCCGG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 65 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (53 bp):
GTTACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACCATACT
Found at i:9809174 original size:59 final size:58
Alignment explanation
Indices: 9809101--9809238 Score: 205
Period size: 53 Copynumber: 2.4 Consensus size: 58
9809091 CGGATATTGT
* *
9809101 TACTGTTACCGTTACTGTTACTGTTTTGGATTTGTTCCGATGAGGTACTCTGTGTACCA
1 TACTGTTACTGTTACTGTTACTG-TTCGGATTTGTTCCGATGAGGTACTCTGTGTACCA
9809160 TACTGTTACTGTTACTGTT-C----CGGATTTGTTCCGATGAGGTACTCTGTGTACCA
1 TACTGTTACTGTTACTGTTACTGTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCA
*
9809213 TACTGCTACTGTTACTGTTACTGTTC
1 TACTGTTACTGTTACTGTTACTGTTC
9809239 CGGCTTCGGC
Statistics
Matches: 71, Mismatches: 3, Indels: 11
0.84 0.04 0.13
Matches are distributed among these distances:
53 50 0.70
54 1 0.01
58 2 0.03
59 18 0.25
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (58 bp):
TACTGTTACTGTTACTGTTACTGTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCA
Found at i:9809461 original size:18 final size:18
Alignment explanation
Indices: 9809437--9809500 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
9809427 AATTGATTGA
9809437 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* *
9809455 TATTGAATAATTGATTAT
1 TACTGAATAACTGATTAT
* *
9809473 TACTGAATAACTAACTAT
1 TACTGAATAACTGATTAT
*
9809491 TACTAAATAA
1 TACTGAATAA
9809501 ATAATTGTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:9809500 original size:36 final size:36
Alignment explanation
Indices: 9809427--9809500 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
9809417 ATAACCGATC
* * * *
9809427 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGATACTGAATAACTAACTATTACTAAAT
9809463 AATTGATT-ATTACTGAATAACTAACTATTACTAAAT
1 AATTGATTGA-TACTGAATAACTAACTATTACTAAAT
9809499 AA
1 AA
9809501 ATAATTGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 1 0.03
36 32 0.97
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.39
Consensus pattern (36 bp):
AATTGATTGATACTGAATAACTAACTATTACTAAAT
Found at i:9815219 original size:15 final size:17
Alignment explanation
Indices: 9815198--9815237 Score: 66
Period size: 15 Copynumber: 2.5 Consensus size: 17
9815188 TAATCTTTTA
9815198 AAAATTATTAAAAT-AT
1 AAAATTATTAAAATAAT
9815214 -AAATTATTAAAATAAT
1 AAAATTATTAAAATAAT
9815230 AAAATTAT
1 AAAATTAT
9815238 ATTTTTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.59
16 2 0.09
17 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTATTAAAATAAT
Found at i:9815225 original size:24 final size:24
Alignment explanation
Indices: 9815198--9815265 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 24
9815188 TAATCTTTTA
9815198 AAAATTATTAAAATATAAATTATT
1 AAAATTATTAAAATATAAATTATT
* * *
9815222 AAAA-TAATAAAAT-TATATTTTT
1 AAAATTATTAAAATATAAATTATT
** *
9815244 ACTATTATAAAAATATATAATT
1 AAAATTATTAAAATATA-AATT
9815266 TAATTTCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
22 9 0.27
23 15 0.45
24 6 0.18
25 3 0.09
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAATTATTAAAATATAAATTATT
Found at i:9815819 original size:25 final size:23
Alignment explanation
Indices: 9815774--9815817 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9815764 AAAATATTTA
*
9815774 TAAAAAATTCAAAATTTATATTG
1 TAAAAAATTCAAAATATATATTG
*
9815797 TAAAAAATTCTAAATATATAT
1 TAAAAAATTCAAAATATATAT
9815818 ATATATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAAAAATTCAAAATATATATTG
Found at i:9817990 original size:13 final size:13
Alignment explanation
Indices: 9817972--9818000 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9817962 AAATTATTTA
9817972 AAAGTCCCTTTTC
1 AAAGTCCCTTTTC
9817985 AAAGTCCCTTTTC
1 AAAGTCCCTTTTC
9817998 AAA
1 AAA
9818001 AAAGGATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (13 bp):
AAAGTCCCTTTTC
Found at i:9820048 original size:46 final size:46
Alignment explanation
Indices: 9819995--9820088 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
9819985 AAAAAAAGTA
9819995 TGTACCACTAGAAGGGATCACTATGCAAAATAGAAGCAATAGGTAT
1 TGTACCACTAGAAGGGATCACTATGCAAAATAGAAGCAATAGGTAT
*
9820041 TGTACCACTAGAAGGGATCACTATGCAAAATAGGAGCAATAGGTAT
1 TGTACCACTAGAAGGGATCACTATGCAAAATAGAAGCAATAGGTAT
9820087 TG
1 TG
9820089 ATATTATCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
TGTACCACTAGAAGGGATCACTATGCAAAATAGAAGCAATAGGTAT
Found at i:9830996 original size:3 final size:3
Alignment explanation
Indices: 9830988--9831014 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9830978 TTGCACAACC
9830988 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
9831015 GCCTGAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:9833240 original size:19 final size:22
Alignment explanation
Indices: 9833200--9833241 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9833190 ATGTCCATTT
9833200 TAAATATGTTATTATCAAATAA
1 TAAATATGTTATTATCAAATAA
9833222 TAAATATG-TATT-T-AAATAA
1 TAAATATGTTATTATCAAATAA
9833241 T
1 T
9833242 GTTCAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (22 bp):
TAAATATGTTATTATCAAATAA
Found at i:9833360 original size:24 final size:24
Alignment explanation
Indices: 9833326--9833371 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9833316 TATATGAAAT
* *
9833326 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
9833350 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
9833372 ATTTAATCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:9833409 original size:33 final size:32
Alignment explanation
Indices: 9833314--9833411 Score: 83
Period size: 31 Copynumber: 2.9 Consensus size: 32
9833304 TTAATATTTT
*
9833314 AATATATGAAATATAAATTTTAAATATTTTTAAACA
1 AATATAT-AAAT-TATATTTTAAATA--TTTAAACA
* * * *
9833350 ATAAATATTAATTAT-TTATAAA-ATTTAATCA
1 A-ATATATAAATTATATTTTAAATATTTAAACA
9833381 GAATATATAAATTATATTTTAAATATTTAAA
1 -AATATATAAATTATATTTTAAATATTTAAA
9833412 TATAACCATT
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
31 18 0.37
32 7 0.14
33 7 0.14
34 6 0.12
35 2 0.04
36 4 0.08
37 5 0.10
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (32 bp):
AATATATAAATTATATTTTAAATATTTAAACA
Found at i:9834148 original size:19 final size:19
Alignment explanation
Indices: 9834124--9834161 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9834114 GCCACTACTA
9834124 CCTACCATAATCAAATTTG
1 CCTACCATAATCAAATTTG
* *
9834143 CCTACCGTAATCTAATTTG
1 CCTACCATAATCAAATTTG
9834162 TTATTAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (19 bp):
CCTACCATAATCAAATTTG
Found at i:9834335 original size:38 final size:36
Alignment explanation
Indices: 9834277--9834347 Score: 90
Period size: 38 Copynumber: 1.9 Consensus size: 36
9834267 GTATTTTGAA
9834277 ATTAAAAAATTATATATTAAATGTAAAAAATGTGATTT
1 ATTAAAAAATTATATATTAAA-G-AAAAAATGTGATTT
* *
9834315 ATTAATAAAATT-TATTTTAAAGATAAAATGTGA
1 ATTAA-AAAATTATATATTAAAGAAAAAATGTGA
9834348 AATTGATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 10 0.33
37 1 0.03
38 13 0.43
39 6 0.20
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.39
Consensus pattern (36 bp):
ATTAAAAAATTATATATTAAAGAAAAAATGTGATTT
Found at i:9834638 original size:20 final size:18
Alignment explanation
Indices: 9834599--9834642 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
9834589 AGTTTTGGGA
*
9834599 TTTGGGGGAAGTAAGATT
1 TTTGGGGGAAGTAAAATT
*
9834617 TTTGAGGGGAAGTAAAAGT
1 TTTG-GGGGAAGTAAAATT
9834636 TTTGGGG
1 TTTGGGG
9834643 AAAAAGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.27, C:0.00, G:0.41, T:0.32
Consensus pattern (18 bp):
TTTGGGGGAAGTAAAATT
Found at i:9837346 original size:27 final size:27
Alignment explanation
Indices: 9837301--9837367 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
9837291 TGAAATAATT
9837301 TGGAAAT--AAATGTAGGTTTACAAAAA
1 TGGAAATGAAAAT-TAGGTTTACAAAAA
9837327 TGGAAATGAAAATTAGGTTTACAAAAA
1 TGGAAATGAAAATTAGGTTTACAAAAA
9837354 TGGAAATGAAAATT
1 TGGAAATGAAAATT
9837368 TGCAACCTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
26 7 0.18
27 28 0.72
28 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.19, T:0.27
Consensus pattern (27 bp):
TGGAAATGAAAATTAGGTTTACAAAAA
Found at i:9838695 original size:10 final size:10
Alignment explanation
Indices: 9838680--9838709 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9838670 CCTTTTCCCA
9838680 TTTCTTTCTT
1 TTTCTTTCTT
9838690 TTTCTTTCTT
1 TTTCTTTCTT
*
9838700 TTTTTTTCTT
1 TTTCTTTCTT
9838710 AGTTTGGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:9838699 original size:14 final size:14
Alignment explanation
Indices: 9838680--9838709 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9838670 CCTTTTCCCA
9838680 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
*
9838694 TTTCTTTTTTTTTC
1 TTTCTTTCTTTTTC
9838708 TT
1 TT
9838710 AGTTTGGAAG
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTTTCTTTTTC
Found at i:9848226 original size:21 final size:21
Alignment explanation
Indices: 9848200--9848246 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
9848190 CCGTGTGGAT
9848200 CACACGGCCTGGCCCACTTAC
1 CACACGGCCTGGCCCACTTAC
*
9848221 CACACGGCCTGGCCCAGTTAC
1 CACACGGCCTGGCCCACTTAC
9848242 CACAC
1 CACAC
9848247 ACCCGTGTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.47, G:0.19, T:0.13
Consensus pattern (21 bp):
CACACGGCCTGGCCCACTTAC
Found at i:9851846 original size:432 final size:432
Alignment explanation
Indices: 9851043--9851909 Score: 1707
Period size: 432 Copynumber: 2.0 Consensus size: 432
9851033 GAAGAATAGC
9851043 CATGAGATAGTAAATAGCAACGGAAACAAGCTTGTAGTCCAATCATAAGCATAACAGAACAGGTA
1 CATGAGATAGTAAATAGCAACGGAAACAAGCTTGTAGTCCAATCATAAGCATAACAGAACAGGTA
9851108 TAACGCATGTGAATAGACAGATTCAGATTACCATGCAAACAATCTAATTTACTCACCACTGCCTC
66 TAACGCATGTGAATAGACAGATTCAGATTACCATGCAAACAATCTAATTTACTCACCACTGCCTC
9851173 ATCAAATATTTGAAACAAAGATGGACATGTTTTAAGGCATTCAGTCGTCTCACATTGTTCCCACA
131 ATCAAATATTTGAAACAAAGATGGACATGTTTTAAGGCATTCAGTCGTCTCACATTGTTCCCACA
9851238 AACCATGAATAAATTGCAAGTAATAAATCAAATGGTAAACATAATCGTCACAAGTAGGTATTTGA
196 AACCATGAATAAATTGCAAGTAATAAATCAAATGGTAAACATAATCGTCACAAGTAGGTATTTGA
9851303 AAAGATTCACATGGTTCACAGAGTTGCATAATCATACCATGCATTAATCGACGGTCTATAGATTC
261 AAAGATTCACATGGTTCACAGAGTTGCATAATCATACCATGCATTAATCGACGGTCTATAGATTC
9851368 ACTCACACATGCATTATCAAAAACAAGAATCTTTTTATCAACCATCAAAACAGATAGATCATCAA
326 ACTCACACATGCATTATCAAAAACAAGAATCTTTTTATCAACCATCAAAACAGATAGATCATCAA
9851433 TAAATAAAATAGGACAGTCAAGCACGTTTCGATCTAAGTGTT
391 TAAATAAAATAGGACAGTCAAGCACGTTTCGATCTAAGTGTT
9851475 CATGAGATAGTAAATAGCAACGGAAACAAGCTTGTAGTCCAATCATAAGCATAACAGAACAGGTA
1 CATGAGATAGTAAATAGCAACGGAAACAAGCTTGTAGTCCAATCATAAGCATAACAGAACAGGTA
*
9851540 TAACGCATGTGAATGGACAGATTCAGATTACCATGCAAACAATCTAATTTACTCACCACTGCCTC
66 TAACGCATGTGAATAGACAGATTCAGATTACCATGCAAACAATCTAATTTACTCACCACTGCCTC
*
9851605 GTCAAATATTTGAAACAAAGATGGACATGTTTTAAGGCATTCAGTCGTCTCACATTGTTCCCACA
131 ATCAAATATTTGAAACAAAGATGGACATGTTTTAAGGCATTCAGTCGTCTCACATTGTTCCCACA
*
9851670 AACCATGAATAAATTGCGAGTAATAAATCAAATGGTAAACATAATCGTCACAAGTAGGTATTTGA
196 AACCATGAATAAATTGCAAGTAATAAATCAAATGGTAAACATAATCGTCACAAGTAGGTATTTGA
9851735 AAAGATTCACATGGTTCACAGAGTTGCATAATCATACCATGCATTAATCGACGGTCTATAGATTC
261 AAAGATTCACATGGTTCACAGAGTTGCATAATCATACCATGCATTAATCGACGGTCTATAGATTC
9851800 ACTCACACATGCATTATCAAAAACAAGAATCTTTTTATCAACCATCAAAACAGATAGATCATCAA
326 ACTCACACATGCATTATCAAAAACAAGAATCTTTTTATCAACCATCAAAACAGATAGATCATCAA
9851865 TAAATAAAATAGGACAGTCAAGCACGTTTCGATCTAAGTGTT
391 TAAATAAAATAGGACAGTCAAGCACGTTTCGATCTAAGTGTT
9851907 CAT
1 CAT
9851910 CAACACGATC
Statistics
Matches: 432, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
432 432 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (432 bp):
CATGAGATAGTAAATAGCAACGGAAACAAGCTTGTAGTCCAATCATAAGCATAACAGAACAGGTA
TAACGCATGTGAATAGACAGATTCAGATTACCATGCAAACAATCTAATTTACTCACCACTGCCTC
ATCAAATATTTGAAACAAAGATGGACATGTTTTAAGGCATTCAGTCGTCTCACATTGTTCCCACA
AACCATGAATAAATTGCAAGTAATAAATCAAATGGTAAACATAATCGTCACAAGTAGGTATTTGA
AAAGATTCACATGGTTCACAGAGTTGCATAATCATACCATGCATTAATCGACGGTCTATAGATTC
ACTCACACATGCATTATCAAAAACAAGAATCTTTTTATCAACCATCAAAACAGATAGATCATCAA
TAAATAAAATAGGACAGTCAAGCACGTTTCGATCTAAGTGTT
Found at i:9852632 original size:23 final size:22
Alignment explanation
Indices: 9852581--9852632 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
9852571 CCTCGTCTTT
*
9852581 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
9852603 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
9852626 TTCTTTT
1 TTCTTTT
9852633 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:9856986 original size:25 final size:23
Alignment explanation
Indices: 9856920--9856987 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 23
9856910 TCAGTAATAC
*
9856920 ATATGAATTAAGTGTTAAATGAG
1 ATATGAATTAAGTGTTTAATGAG
*
9856943 ATTTATGAATTAATTGTTTAATGAAGG
1 A--TATGAATTAAGTGTTTAATG-A-G
9856970 ATATGAATTAAGTGTTTA
1 ATATGAATTAAGTGTTTA
9856988 TGTTATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 1 0.03
25 34 0.89
26 1 0.03
27 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.41
Consensus pattern (23 bp):
ATATGAATTAAGTGTTTAATGAG
Found at i:9859198 original size:28 final size:29
Alignment explanation
Indices: 9859151--9859205 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
9859141 GGATATGGAA
9859151 GCCTTTGTGGCTATCCCTAAA-AATGAAT
1 GCCTTTGTGGCTATCCCTAAAGAATGAAT
9859179 GCCTTTGTGGC-A-CCATCTAAAGAATGA
1 GCCTTTGTGGCTATCC--CTAAAGAATGA
9859206 GCTTTGCGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 2 0.08
27 1 0.04
28 16 0.67
29 5 0.21
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (29 bp):
GCCTTTGTGGCTATCCCTAAAGAATGAAT
Found at i:9861609 original size:26 final size:26
Alignment explanation
Indices: 9861580--9861632 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
9861570 GTAAATTACC
9861580 AAACCTTTACTACAACCATTAACCAT
1 AAACCTTTACTACAACCATTAACCAT
9861606 AAACCTTTACTACAACCATTAACCAT
1 AAACCTTTACTACAACCATTAACCAT
9861632 A
1 A
9861633 CTTTTGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.26
Consensus pattern (26 bp):
AAACCTTTACTACAACCATTAACCAT
Found at i:9861791 original size:17 final size:17
Alignment explanation
Indices: 9861769--9861802 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9861759 GTTCCCTCAT
*
9861769 CTTTTAGAACATTTAAA
1 CTTTTAAAACATTTAAA
9861786 CTTTTAAAACATTTAAA
1 CTTTTAAAACATTTAAA
9861803 TATTACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (17 bp):
CTTTTAAAACATTTAAA
Found at i:9869529 original size:16 final size:16
Alignment explanation
Indices: 9869508--9869538 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9869498 CTATGCATAC
*
9869508 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
9869524 AAAATACAAAAGACA
1 AAAATACAAAAGACA
9869539 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:9874597 original size:26 final size:25
Alignment explanation
Indices: 9874568--9874617 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
9874558 AAGGAGTCAC
9874568 AATTTATTATAAAAATAATAT-TTTAA
1 AATTT-TT-TAAAAATAATATGTTTAA
*
9874594 AATTTTTTAGAAATAATATGTTTA
1 AATTTTTTAAAAATAATATGTTTA
9874618 TAATCGACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 6 0.27
26 5 0.23
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (25 bp):
AATTTTTTAAAAATAATATGTTTAA
Found at i:9875769 original size:6 final size:7
Alignment explanation
Indices: 9875754--9875783 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
9875744 AGGATTTGGT
9875754 AAAATAA
1 AAAATAA
9875761 AAAATAA
1 AAAATAA
9875768 AAAAT-A
1 AAAATAA
9875774 AAAATAA
1 AAAATAA
9875781 AAA
1 AAA
9875784 GGGATAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:9875776 original size:13 final size:14
Alignment explanation
Indices: 9875754--9875783 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
9875744 AGGATTTGGT
9875754 AAAATAAAAAATAA
1 AAAATAAAAAATAA
9875768 AAAAT-AAAAATAA
1 AAAATAAAAAATAA
9875781 AAA
1 AAA
9875784 GGGATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAATAAAAAATAA
Found at i:9876023 original size:17 final size:18
Alignment explanation
Indices: 9875986--9876026 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9875976 CCCTTATAAT
*
9875986 TATTATGAAAGGTTTTTA
1 TATTATGAAAGGTTATTA
*
9876004 TATTATGAATGG-TATTA
1 TATTATGAAAGGTTATTA
9876021 TATTAT
1 TATTAT
9876027 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (18 bp):
TATTATGAAAGGTTATTA
Found at i:9878194 original size:15 final size:15
Alignment explanation
Indices: 9878174--9878212 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
9878164 TGCTTTGGAG
9878174 GATATTCTTGTTCAT
1 GATATTCTTGTTCAT
*
9878189 GATATTC-TGTTGAT
1 GATATTCTTGTTCAT
*
9878203 TATATTCTTG
1 GATATTCTTG
9878213 AAACTTGCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.21, C:0.10, G:0.15, T:0.54
Consensus pattern (15 bp):
GATATTCTTGTTCAT
Found at i:9888890 original size:15 final size:15
Alignment explanation
Indices: 9888870--9888922 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
9888860 TTCTCTTATC
9888870 TTCTTTCCTTTTTCT
1 TTCTTTCCTTTTTCT
9888885 TTCTTTATCTCTTCTTTCT
1 TTC-TT-TC-CTT-TTTCT
**
9888904 TTCTTTCCTCATTCT
1 TTCTTTCCTTTTTCT
9888919 TTCT
1 TTCT
9888923 ATTTTTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 11 0.34
16 4 0.12
17 4 0.12
18 5 0.16
19 8 0.25
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (15 bp):
TTCTTTCCTTTTTCT
Found at i:9888902 original size:19 final size:19
Alignment explanation
Indices: 9888880--9888922 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
9888870 TTCTTTCCTT
*
9888880 TTTCTTTCTTTATCTC-TTC
1 TTTCTTTCTTT-CCTCATTC
9888899 TTTCTTTCTTTCCTCATTC
1 TTTCTTTCTTTCCTCATTC
9888918 TTTCT
1 TTTCT
9888923 ATTTTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTCTTTCTTTCCTCATTC
Found at i:9897450 original size:14 final size:14
Alignment explanation
Indices: 9897431--9897457 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9897421 ATAAAATTAA
9897431 ACCCACCCCACCCC
1 ACCCACCCCACCCC
9897445 ACCCACCCCACCC
1 ACCCACCCCACCC
9897458 GCATTCGTAT
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:0.22, C:0.78, G:0.00, T:0.00
Consensus pattern (14 bp):
ACCCACCCCACCCC
Found at i:9899211 original size:25 final size:25
Alignment explanation
Indices: 9899152--9899202 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
9899142 TATAATCAAG
9899152 TATGCATTTTAAAGTTGAATAGGAA
1 TATGCATTTTAAAGTTGAATAGGAA
9899177 TATGCATTTTAAAGTTGAATAGGAA
1 TATGCATTTTAAAGTTGAATAGGAA
9899202 T
1 T
9899203 GCACGTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (25 bp):
TATGCATTTTAAAGTTGAATAGGAA
Found at i:9901084 original size:4 final size:4
Alignment explanation
Indices: 9901075--9901125 Score: 59
Period size: 4 Copynumber: 12.8 Consensus size: 4
9901065 TAAGAACAGA
* * *
9901075 GTAT GTAT GTAT GCT-T GTAT GTAT GCAT GTAG GTAT GCAT GTAT GTAT
1 GTAT GTAT GTAT G-TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
9901123 GTA
1 GTA
9901126 CATGATTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 1 0.03
4 37 0.95
5 1 0.03
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.43
Consensus pattern (4 bp):
GTAT
Found at i:9901095 original size:12 final size:12
Alignment explanation
Indices: 9901077--9901123 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
9901067 AGAACAGAGT
9901077 ATGTATGTATGC
1 ATGTATGTATGC
*
9901089 TTGTATGTATGC
1 ATGTATGTATGC
*
9901101 ATGTAGGTATGC
1 ATGTATGTATGC
9901113 ATGTATGTATG
1 ATGTATGTATG
9901124 TACATGATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.23, C:0.06, G:0.28, T:0.43
Consensus pattern (12 bp):
ATGTATGTATGC
Found at i:9903657 original size:7 final size:7
Alignment explanation
Indices: 9903645--9903669 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9903635 CACAAACCCA
9903645 AAAAAAT
1 AAAAAAT
9903652 AAAAAAT
1 AAAAAAT
9903659 AAAAAAT
1 AAAAAAT
9903666 AAAA
1 AAAA
9903670 TCTAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:9903722 original size:7 final size:7
Alignment explanation
Indices: 9903710--9903741 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
9903700 GAAAAAAAAA
*
9903710 ATCAAGT
1 ATCAAGC
9903717 ATCAAGC
1 ATCAAGC
9903724 ATCAAGC
1 ATCAAGC
9903731 ATCAAGC
1 ATCAAGC
9903738 ATCA
1 ATCA
9903742 GGCCATCAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (7 bp):
ATCAAGC
Found at i:9905921 original size:67 final size:67
Alignment explanation
Indices: 9905813--9905947 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
9905803 TATTGGATCG
* *
9905813 TGCGTGAGAATAATTATATCATATCTACAACACTTAGAACTTATACCATATTGATCAAGGATTGA
1 TGCGTGAGAATAATTATATCATATCTACAACACTTAAAACTTATACCATATTGATCAAGCATTGA
9905878 AA
66 AA
9905880 TGCGTGAGAATAATTATATCATATCTACAACACTTAAAACTTATACCATATTGATCAAGCATTGA
1 TGCGTGAGAATAATTATATCATATCTACAACACTTAAAACTTATACCATATTGATCAAGCATTGA
9905945 AA
66 AA
9905947 T
1 T
9905948 TTGATAGCTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (67 bp):
TGCGTGAGAATAATTATATCATATCTACAACACTTAAAACTTATACCATATTGATCAAGCATTGA
AA
Found at i:9906411 original size:4 final size:4
Alignment explanation
Indices: 9906396--9906435 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
9906386 TATATAAAAA
*
9906396 ATAC ATAC --AC ATAC ATAC ATAC TTAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
9906436 GTATAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
4 30 0.94
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:9908170 original size:39 final size:36
Alignment explanation
Indices: 9908111--9908446 Score: 172
Period size: 34 Copynumber: 9.2 Consensus size: 36
9908101 TCAACTAGCT
* * *
9908111 TTAAAAATGACAGTCGTGATTGTAAATCAGCGAATTG
1 TTAAAAAT-AAAGTTGTGATTGTAAATCAACGAATTG
*
9908148 TTAGAAAATCGAAAGTTGTGATTGTAAATCAAC--ATATC
1 TTA-AAAAT--AAAGTTGTGATTGTAAATCAACGAAT-TG
* * ** ** * **
9908186 ATAAGAAT-AAGCCGTGATAATAAATCAAGGAGCT-
1 TTAAAAATAAAGTTGTGATTGTAAATCAACGAATTG
* * **
9908220 TTAAAAATGACA-TTCGTGATCGTAAATCAGTGAATTG
1 TTAAAAAT-AAAGTT-GTGATTGTAAATCAACGAATTG
* * *
9908257 TTAGAAAAGCGAAAGTTGTGGTTGTAAATAAACGAATTG
1 TTA-AAAA--TAAAGTTGTGATTGTAAATCAACGAATTG
* *
9908296 -TAAGAATAAA-TTGTGATCGTAAATCAACGAATTG
1 TTAAAAATAAAGTTGTGATTGTAAATCAACGAATTG
*
9908330 TTAGAAAATCAAAGGTTGTGATTGTAAATCAACGAATCG
1 TTA-AAAAT-AAA-GTTGTGATTGTAAATCAACGAATTG
* * * * **
9908369 -TAAGAATAAA-TCGTGATCGTAAATTAACGAGCT-
1 TTAAAAATAAAGTTGTGATTGTAAATCAACGAATTG
* *
9908402 TTAAAAATGATAA-TTGTGATAGTAAATCAACGAACTG
1 TTAAAAAT-A-AAGTTGTGATTGTAAATCAACGAATTG
9908439 TTAGAAAA
1 TTA-AAAA
9908447 CCGAAGGTCA
Statistics
Matches: 225, Mismatches: 51, Indels: 45
0.70 0.16 0.14
Matches are distributed among these distances:
34 66 0.29
35 7 0.03
36 44 0.20
37 25 0.11
38 20 0.09
39 61 0.27
40 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (36 bp):
TTAAAAATAAAGTTGTGATTGTAAATCAACGAATTG
Found at i:9908312 original size:109 final size:109
Alignment explanation
Indices: 9908098--9908325 Score: 305
Period size: 109 Copynumber: 2.1 Consensus size: 109
9908088 CTTGTCGAAG
* * *
9908098 AAATCAACTAGCTTTAAAAATGACAGTCGTGATTGTAAATCAGCGAATTGTTAGAAAATCGAAAG
1 AAATCAACGAGCTTTAAAAATGACAGTCGTGATCGTAAATCAGCGAATTGTTAGAAAAGCGAAAG
* *
9908163 TTGTGATTGTAAATCAACATATCATAAGAATAAGCCGTGATAAT
66 TTGTGATTGTAAATAAACATATCATAAGAATAAACCGTGATAAT
* * *
9908207 AAATCAAGGAGCTTTAAAAATGACATTCGTGATCGTAAATCAGTGAATTGTTAGAAAAGCGAAAG
1 AAATCAACGAGCTTTAAAAATGACAGTCGTGATCGTAAATCAGCGAATTGTTAGAAAAGCGAAAG
* ** ** **
9908272 TTGTGGTTGTAAATAAACGA-ATTGTAAGAATAAATTGTGATCGT
66 TTGTGATTGTAAATAAAC-ATATCATAAGAATAAACCGTGATAAT
9908316 AAATCAACGA
1 AAATCAACGA
9908326 ATTGTTAGAA
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
109 101 0.99
110 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (109 bp):
AAATCAACGAGCTTTAAAAATGACAGTCGTGATCGTAAATCAGCGAATTGTTAGAAAAGCGAAAG
TTGTGATTGTAAATAAACATATCATAAGAATAAACCGTGATAAT
Found at i:9908355 original size:73 final size:73
Alignment explanation
Indices: 9908233--9908398 Score: 244
Period size: 73 Copynumber: 2.3 Consensus size: 73
9908223 AAAATGACAT
** * *
9908233 TCGTGATCGTAAATCAGTGAATTGTTAGAAAAGCGAAAGTTGTGGTTGTAAATAAACGAATTGTA
1 TCGTGATCGTAAATCAACGAATTGTTAGAAAAGCGAAAGTTGTGATTGTAAATAAACGAATCGTA
9908298 AGAATAAA
66 AGAATAAA
* * *
9908306 TTGTGATCGTAAATCAACGAATTGTTAGAAAATC-AAAGGTTGTGATTGTAAATCAACGAATCGT
1 TCGTGATCGTAAATCAACGAATTGTTAGAAAAGCGAAA-GTTGTGATTGTAAATAAACGAATCGT
9908370 AAGAATAAA
65 AAGAATAAA
*
9908379 TCGTGATCGTAAATTAACGA
1 TCGTGATCGTAAATCAACGA
9908399 GCTTTAAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
72 3 0.04
73 80 0.96
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (73 bp):
TCGTGATCGTAAATCAACGAATTGTTAGAAAAGCGAAAGTTGTGATTGTAAATAAACGAATCGTA
AGAATAAA
Found at i:9908483 original size:182 final size:182
Alignment explanation
Indices: 9908124--9908504 Score: 446
Period size: 182 Copynumber: 2.1 Consensus size: 182
9908114 AAAATGACAG
*
9908124 TCGTGATTGTAAATCAGCGAATTGTTAGAAAATCGAAAGTTGTGATTGTAAATCAACATATCATA
1 TCGTGATTGTAAATCAACGAATTGTTAGAAAATCGAAAGTTGTGATTGTAAATCAACATATCATA
* * * * **
9908189 AGAATAAGCCGTGATAATAAATCAAGGAGCTTTAAAAATGACATTCGTGATCGTAAATCAGTGAA
66 AGAATAAACCGTGATAATAAATCAACGAGCTTTAAAAATGAAATTCGTGATAGTAAATCAACGAA
* * ** **** **
9908254 TTGTTAGAAAAGCGAAAGTTGTGGTTGTAAATAAACGAATTGTAAGAATAAA
131 CTGTTAGAAAACCGAAAGTCATGACCATAAATAAACGAACCGTAAGAATAAA
* * *
9908306 TTGTGATCGTAAATCAACGAATTGTTAGAAAATC-AAAGGTTGTGATTGTAAATCAACGA-ATCG
1 TCGTGATTGTAAATCAACGAATTGTTAGAAAATCGAAA-GTTGTGATTGTAAATCAAC-ATATCA
* ** *
9908369 TAAGAATAAATCGTGATCGTAAATTAACGAGCTTTAAAAATGATAATT-GTGATAGTAAATCAAC
64 TAAGAATAAACCGTGATAATAAATCAACGAGCTTTAAAAATGA-AATTCGTGATAGTAAATCAAC
* * * *
9908433 GAACTGTTAGAAAACCGAAGGTCATGACCATAAATCAGC-AGACCGTAAGAATAAG
128 GAACTGTTAGAAAACCGAAAGTCATGACCATAAATAAACGA-ACCGTAAGAATAAA
9908488 TCGTGATTGTAAATCAA
1 TCGTGATTGTAAATCAA
9908505 TGAGCTTTAA
Statistics
Matches: 165, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
181 4 0.02
182 157 0.95
183 4 0.02
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.28
Consensus pattern (182 bp):
TCGTGATTGTAAATCAACGAATTGTTAGAAAATCGAAAGTTGTGATTGTAAATCAACATATCATA
AGAATAAACCGTGATAATAAATCAACGAGCTTTAAAAATGAAATTCGTGATAGTAAATCAACGAA
CTGTTAGAAAACCGAAAGTCATGACCATAAATAAACGAACCGTAAGAATAAA
Found at i:9908706 original size:109 final size:109
Alignment explanation
Indices: 9908306--9908718 Score: 488
Period size: 109 Copynumber: 3.8 Consensus size: 109
9908296 TAAGAATAAA
* * * * * *
9908306 TTGTGATCGTAAATCAACGAATTGTTAGAAAATCAAAGGTTGTGATTGTAAATCAACGAATCGTA
1 TTGTGATCGTAAATCAACGAACTGTTAGAAAACCGAAGGTTGTGATCGTAAATCAGCGAACCGTA
** * * * *
9908371 AGAATAAATCGTGATCGTAAATTAACGAGCTTTAAAAATGATAA
66 AGAATAAGCCATGATCGTAAATCAACGAGCTTTAAAAATGACAG
* ** * *
9908415 TTGTGATAGTAAATCAACGAACTGTTAGAAAACCGAAGGTCATGACCATAAATCAGC-AGACCGT
1 TTGTGATCGTAAATCAACGAACTGTTAGAAAACCGAAGGTTGTGATCGTAAATCAGCGA-ACCGT
* * * *
9908479 AAGAATAAGTCGTGATTGTAAATCAATGAGCTTTAAAAATGACAG
65 AAGAATAAGCCATGATCGTAAATCAACGAGCTTTAAAAATGACAG
* * * * * *
9908524 TTGTGATCATAAATCAGCGAACTATTAGAAAACCGAA-GTTCGTGATTGTAAATTAGCGAACTGT
1 TTGTGATCGTAAATCAACGAACTGTTAGAAAACCGAAGGTT-GTGATCGTAAATCAGCGAACCGT
*
9908588 AAGAATAAGCCATGATTGTAAATCAACGAGCTTTAAAAATGACAG
65 AAGAATAAGCCATGATCGTAAATCAACGAGCTTTAAAAATGACAG
* * * * * *
9908633 TTGTGATCGTAAATTAATGAACTGTTAGAAAACTGAAGGTTGTGATCGTAAATTAGTGGACCGTA
1 TTGTGATCGTAAATCAACGAACTGTTAGAAAACCGAAGGTTGTGATCGTAAATCAGCGAACCGTA
9908698 AGAATAAGCCATGATCGTAAA
66 AGAATAAGCCATGATCGTAAA
9908719 AATGACAATT
Statistics
Matches: 258, Mismatches: 42, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
108 3 0.01
109 251 0.97
110 4 0.02
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.27
Consensus pattern (109 bp):
TTGTGATCGTAAATCAACGAACTGTTAGAAAACCGAAGGTTGTGATCGTAAATCAGCGAACCGTA
AGAATAAGCCATGATCGTAAATCAACGAGCTTTAAAAATGACAG
Found at i:9908864 original size:164 final size:164
Alignment explanation
Indices: 9908565--9908882 Score: 438
Period size: 164 Copynumber: 1.9 Consensus size: 164
9908555 ACCGAAGTTC
* * *
9908565 GTGATTGTAAATTAGCGAACTGTAAGAATAAGCCATGATTGTAAATCAACGAGCTTTAAAAATGA
1 GTGATCGTAAATCAGCGAACTGTAAGAATAAGCCATGATCGTAAATCAACGAGCTTTAAAAATGA
* * * * ** ** *
9908630 CAGTTGTGATCGTAAATTAATGAACTGTTAGAAAACTGAAGGTTGTGATCGTAAATTAGTGGACC
66 CAATCGTGATCGTAAATTAACGAACTATTAGAAAACCAAAGGTCATGATCGTAAATCAGTGGACC
9908695 GTAAGAATAAGCCATGATCGTAAAAATGACAATT
131 GTAAGAATAAGCCATGATCGTAAAAATGACAATT
* * * *
9908729 GTGATCGTAAATCAGTGGACTGTAAGAATAAGCCGTGGTCGTAAATCAACGAGCTTTAAAAATGA
1 GTGATCGTAAATCAGCGAACTGTAAGAATAAGCCATGATCGTAAATCAACGAGCTTTAAAAATGA
* * * *
9908794 CAATCGTGATCGTAAATTAGCGGACTATTAGAAAACCAAAGGTCATGATCGTAAATCATTGGATC
66 CAATCGTGATCGTAAATTAACGAACTATTAGAAAACCAAAGGTCATGATCGTAAATCAGTGGACC
* *
9908859 GTAAGAATAAGTCGTGATCGTAAA
131 GTAAGAATAAGCCATGATCGTAAA
9908883 TCAGCAAGCC
Statistics
Matches: 132, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
164 132 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (164 bp):
GTGATCGTAAATCAGCGAACTGTAAGAATAAGCCATGATCGTAAATCAACGAGCTTTAAAAATGA
CAATCGTGATCGTAAATTAACGAACTATTAGAAAACCAAAGGTCATGATCGTAAATCAGTGGACC
GTAAGAATAAGCCATGATCGTAAAAATGACAATT
Found at i:9915658 original size:16 final size:16
Alignment explanation
Indices: 9915624--9915676 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
9915614 ATGGCATCAG
9915624 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
9915640 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* * *
9915656 TCATACCACACTCAAT
1 TCATGCAATACTCAAT
9915672 TCATG
1 TCATG
9915677 AGTATATAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.72
17 3 0.10
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:9917443 original size:44 final size:44
Alignment explanation
Indices: 9917393--9917542 Score: 168
Period size: 42 Copynumber: 3.5 Consensus size: 44
9917383 TATGTGTTTT
* *
9917393 CGTGTAAGACCACT-TCTGGGACGTTGGCATAGATATTGTGATTA
1 CGTGTAAGACCACTGTCTGGGACATTGGCATCGATATT-TGATTA
* * *
9917437 CGTGTAAGACCA-TGTTTGGGATATTGGCATCG-TATTTGATTT
1 CGTGTAAGACCACTGTCTGGGACATTGGCATCGATATTTGATTA
* *
9917479 TGTGTAAGACC-CTGTCT-GGACAATGGCATCGATATTTGATTA
1 CGTGTAAGACCACTGTCTGGGACATTGGCATCGATATTTGATTA
* *
9917521 CATGTAAGACCAC-GTTTGGGAC
1 CGTGTAAGACCACTGTCTGGGAC
9917543 GTTGACATTG
Statistics
Matches: 88, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
41 12 0.14
42 40 0.45
43 10 0.11
44 26 0.30
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (44 bp):
CGTGTAAGACCACTGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:9919759 original size:21 final size:21
Alignment explanation
Indices: 9919722--9919763 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9919712 AACCCTAAAT
9919722 TTTCTATTTTCCTTTTCTTTC
1 TTTCTATTTTCCTTTTCTTTC
*
9919743 TTTCT-TTTTCTTCTTTCTTTC
1 TTTCTATTTTCCT-TTTCTTTC
9919764 CCCTTTCGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTCTATTTTCCTTTTCTTTC
Found at i:9919760 original size:13 final size:14
Alignment explanation
Indices: 9919729--9919762 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
9919719 AATTTTCTAT
*
9919729 TTTCCTTTTCTTTC
1 TTTCTTTTTCTTTC
9919743 TTTCTTTTTC-TTC
1 TTTCTTTTTCTTTC
9919756 TTTCTTT
1 TTTCTTT
9919763 CCCCTTTCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:9919976 original size:5 final size:5
Alignment explanation
Indices: 9919966--9919992 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
9919956 ATACTTTAAT
9919966 TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TA
9919993 ATATTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:9920836 original size:5 final size:5
Alignment explanation
Indices: 9920821--9920853 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
9920811 AATTGTTTTA
9920821 AAAAT -AAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
9920854 CCTAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:9924485 original size:51 final size:52
Alignment explanation
Indices: 9924430--9924527 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 52
9924420 TCAAATACAT
*
9924430 TTAAAACAAATATTAAAACAAGAAACAAA-TAAAAAATATATTAAAACATTC
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATAATAAAACATTC
* * * *
9924481 TTAAAACAATTCTTAAAACAATACACAAATTAAAAAATATAATAAAA
1 TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATAATAAAA
9924528 ATTAATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 25 0.61
52 16 0.39
ACGTcount: A:0.64, C:0.10, G:0.01, T:0.24
Consensus pattern (52 bp):
TTAAAACAAATATTAAAACAAGAAACAAATTAAAAAATATAATAAAACATTC
Found at i:9924492 original size:12 final size:12
Alignment explanation
Indices: 9924470--9924502 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
9924460 AAAAAATATA
9924470 TTAAAAC-ATTC
1 TTAAAACAATTC
9924481 TTAAAACAATTC
1 TTAAAACAATTC
9924493 TTAAAACAAT
1 TTAAAACAAT
9924503 ACACAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (12 bp):
TTAAAACAATTC
Found at i:9924571 original size:29 final size:27
Alignment explanation
Indices: 9924513--9924578 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
9924503 ACACAAATTA
* * *
9924513 AAAAATATAATAAAAATTAATTATATT
1 AAAAATAAAATTAAAATTAAATATATT
*
9924540 AAAATTAAAATTAAAATATAAATATGATT
1 AAAAATAAAATTAAAAT-TAAATAT-ATT
9924569 AAAAATAAAA
1 AAAAATAAAA
9924579 AATATATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 14 0.44
28 6 0.19
29 12 0.38
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAAATAAAATTAAAATTAAATATATT
Found at i:9924577 original size:23 final size:23
Alignment explanation
Indices: 9924543--9924587 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9924533 TTATATTAAA
* *
9924543 ATTAAAATTAAAATATAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
9924566 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
9924588 TTATTATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:9925094 original size:31 final size:31
Alignment explanation
Indices: 9925053--9925140 Score: 126
Period size: 31 Copynumber: 2.8 Consensus size: 31
9925043 AACACAAGGG
9925053 GTCACGCCTAGGGAAGAGGCGGCATCC-CCTA
1 GTCACGCCTAGGGAAGAGGCGGCA-CCTCCTA
* *
9925084 GTCACACCTAGGGAAGAGGCGGCACCTCCTG
1 GTCACGCCTAGGGAAGAGGCGGCACCTCCTA
9925115 GTCACGCCTAGGGCAA-AGGCGGCACC
1 GTCACGCCTAGGG-AAGAGGCGGCACC
9925141 ACTGGTGACG
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
30 2 0.04
31 48 0.92
32 2 0.04
ACGTcount: A:0.23, C:0.33, G:0.33, T:0.11
Consensus pattern (31 bp):
GTCACGCCTAGGGAAGAGGCGGCACCTCCTA
Found at i:9927416 original size:14 final size:14
Alignment explanation
Indices: 9927382--9927416 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
9927372 TGACTTTTTT
*
9927382 TTCTAAAGATACTA
1 TTCTAACGATACTA
9927396 TTCTAACGATACTA
1 TTCTAACGATACTA
9927410 TTCTAAC
1 TTCTAAC
9927417 ATGTAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:9928621 original size:8 final size:8
Alignment explanation
Indices: 9928608--9928639 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
9928598 AGATTAATTG
9928608 CAACATTA
1 CAACATTA
9928616 CAACATTA
1 CAACATTA
9928624 CAACATTA
1 CAACATTA
*
9928632 TAACATTA
1 CAACATTA
9928640 AAACTTGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (8 bp):
CAACATTA
Found at i:9928779 original size:62 final size:62
Alignment explanation
Indices: 9928626--9928916 Score: 487
Period size: 62 Copynumber: 4.7 Consensus size: 62
9928616 CAACATTACA
* *
9928626 ACATTATAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTT-TTAATATAAATT-AAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTT-ATATAAATTAAAT
* * *
9928687 ACATTACAATATTAAAAATTAGAACAAACTTTCTAATATAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
*
9928749 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATAGAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
* *
9928811 ACATTACGACATTAAAAATTGGAACAAACTTTGTAATAGAAATTTTGTTATATAAATTAAAT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
9928873 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATT
1 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATT
9928917 AGGTACATTG
Statistics
Matches: 216, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
61 50 0.23
62 166 0.77
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (62 bp):
ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATTTTGTTATATAAATTAAAT
Found at i:9931035 original size:46 final size:45
Alignment explanation
Indices: 9930892--9931035 Score: 112
Period size: 46 Copynumber: 3.1 Consensus size: 45
9930882 CCCACCCATA
* * *
9930892 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCA--AATATC-C
* * * * * *** *
9930940 A-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGCTCG--GATGCCCAAATATCC
9930985 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATTCC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATA-TCC
9931031 AGTGA
1 AGTGA
9931036 CATGTCACTT
Statistics
Matches: 74, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
44 6 0.08
45 2 0.03
46 31 0.42
47 30 0.41
48 1 0.01
49 4 0.05
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATCC
Found at i:9935782 original size:30 final size:30
Alignment explanation
Indices: 9935748--9935805 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
9935738 CACGGACTGG
*
9935748 CACATGGGCGTGTGGCCAACCTGTGTGGCT
1 CACATGGGCGTGTGGCCAACCCGTGTGGCT
*
9935778 CACATGGGCGTGTGGCCATCCCGTGTGG
1 CACATGGGCGTGTGGCCAACCCGTGTGG
9935806 AAATGCCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.22
Consensus pattern (30 bp):
CACATGGGCGTGTGGCCAACCCGTGTGGCT
Found at i:9945196 original size:62 final size:62
Alignment explanation
Indices: 9945107--9945224 Score: 218
Period size: 62 Copynumber: 1.9 Consensus size: 62
9945097 AGAATCCCAG
* *
9945107 GAAACATAGAATCACTAAACCTGGCTTTGATACCACTCTTTGTCAAGCCTCATTAATCCTAA
1 GAAACATAGAATCACAAAACCTGGCTTTGATACCACTCTTTGTCAAGCCTAATTAATCCTAA
9945169 GAAACATAGAATCACAAAACCTGGCTTTGATACCACTCTTTGTCAAGCCTAATTAA
1 GAAACATAGAATCACAAAACCTGGCTTTGATACCACTCTTTGTCAAGCCTAATTAA
9945225 ACGAGGTGAC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.28
Consensus pattern (62 bp):
GAAACATAGAATCACAAAACCTGGCTTTGATACCACTCTTTGTCAAGCCTAATTAATCCTAA
Found at i:9949025 original size:12 final size:12
Alignment explanation
Indices: 9949008--9949037 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9948998 CAGTGCACAT
9949008 GTGGCAGCCCAA
1 GTGGCAGCCCAA
9949020 GTGGCAGCCCAA
1 GTGGCAGCCCAA
*
9949032 ATGGCA
1 GTGGCA
9949038 TCCGATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.30, G:0.33, T:0.10
Consensus pattern (12 bp):
GTGGCAGCCCAA
Found at i:9954716 original size:5 final size:5
Alignment explanation
Indices: 9954706--9954737 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
9954696 TTGTGTGTTC
9954706 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
9954738 TTCACACTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:9954720 original size:9 final size:9
Alignment explanation
Indices: 9954706--9954736 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
9954696 TTGTGTGTTC
9954706 TTTATTTTA
1 TTTATTTTA
9954715 TTTATTTTA
1 TTTATTTTA
9954724 TTTTATTTTA
1 -TTTATTTTA
9954734 TTT
1 TTT
9954737 TTTCACACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:9955597 original size:68 final size:71
Alignment explanation
Indices: 9955509--9955644 Score: 190
Period size: 72 Copynumber: 1.9 Consensus size: 71
9955499 TAATAGATTT
*
9955509 AATATTAAATTTAATTTAATACTTATC-T-T-A-ATAGGATTTTATTAATTTAATATTAAAGTGA
1 AATATTAAATTTAATTTAATACTTATCTTGTAAGATA-GATTTTATTAATTTAATATTAAAATGA
9955570 TTATCTG
65 TTATCTG
* * *
9955577 AATATTGAATTTAATTTAATATTTATCTTGTAGAGATATATTTTATTAATTTAATATTAAAATGA
1 AATATTAAATTTAATTTAATACTTATCTTGTA-AGATAGATTTTATTAATTTAATATTAAAATGA
9955642 TTA
65 TTA
9955645 AGTTTAATTA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
68 25 0.42
69 1 0.02
70 1 0.02
72 29 0.49
73 3 0.05
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (71 bp):
AATATTAAATTTAATTTAATACTTATCTTGTAAGATAGATTTTATTAATTTAATATTAAAATGAT
TATCTG
Found at i:9956109 original size:18 final size:18
Alignment explanation
Indices: 9956083--9956120 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9956073 AATTTACCCA
*
9956083 TATTTTTAAAGTTAAT-TT
1 TATTGTTAAA-TTAATATT
9956101 TATTGTTAAATTAATATT
1 TATTGTTAAATTAATATT
9956119 TA
1 TA
9956121 GTTTTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TATTGTTAAATTAATATT
Found at i:9956700 original size:17 final size:17
Alignment explanation
Indices: 9956664--9956708 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
9956654 ACGAAAAATC
9956664 TTCTTTCTTCTTACTCTT
1 TTCTTTCTT-TTACTCTT
**
9956682 TTCTTTCTTTTGTTCTT
1 TTCTTTCTTTTACTCTT
*
9956699 TTTTTTCTTT
1 TTCTTTCTTT
9956709 CAATTTTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (17 bp):
TTCTTTCTTTTACTCTT
Found at i:9961421 original size:25 final size:24
Alignment explanation
Indices: 9961393--9961472 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 24
9961383 ACCCTAGCGC
9961393 GCTCTCTGATTATTAGCATGTTAGT
1 GCTCTCTGATTATTAGCAT-TTAGT
* *
9961418 GCTCT-TCGATTATTAGCACATTAAT
1 GCTCTCT-GATTATTAGCA-TTTAGT
*
9961443 GCTCTCT-A-TA-TAACACTTTAGT
1 GCTCTCTGATTATTAGCA-TTTAGT
9961465 GCTCTCTG
1 GCTCTCTG
9961473 TTTAATAGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
22 16 0.35
23 2 0.04
24 2 0.04
25 25 0.54
26 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (24 bp):
GCTCTCTGATTATTAGCATTTAGT
Done.