Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 37 of 144
Found at i:11081527 original size:20 final size:20
Alignment explanation
Indices: 11081468--11081537 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 20
11081458 AATATATATT
*
11081468 TATTATTAAAATATTAACAA
1 TATTATTAAAATATTAAAAA
* *
11081488 TGTTCAATAAAATATTAAAAA
1 TATT-ATTAAAATATTAAAAA
*
11081509 TATTACTTAAAAT-TTAAAAG
1 TATTA-TTAAAATATTAAAAA
11081529 TATTATTAA
1 TATTATTAA
11081538 TTTTAAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
19 4 0.10
20 15 0.36
21 23 0.55
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (20 bp):
TATTATTAAAATATTAAAAA
Found at i:11085641 original size:21 final size:21
Alignment explanation
Indices: 11085607--11085646 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11085597 TATTAAAGCT
*
11085607 AGTTACAATCAAACTAAACTA
1 AGTTACAATCAAACAAAACTA
11085628 AGTTAC-ATCAAAACAAAAC
1 AGTTACAATC-AAACAAAAC
11085647 AGCAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (21 bp):
AGTTACAATCAAACAAAACTA
Found at i:11090194 original size:21 final size:21
Alignment explanation
Indices: 11090160--11090199 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11090150 TATTAAAGCT
*
11090160 AGTTACAATCAAACTAAACTA
1 AGTTACAATCAAACAAAACTA
11090181 AGTTAC-ATCAAAACAAAAC
1 AGTTACAATC-AAACAAAAC
11090200 AGCAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (21 bp):
AGTTACAATCAAACAAAACTA
Found at i:11094728 original size:27 final size:27
Alignment explanation
Indices: 11094688--11094747 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
11094678 CAAACACATG
*
11094688 ATGAACCGTAAAGTGACAAGCTGCGAA
1 ATGAACCGTAAAGTGACAAACTGCGAA
*
11094715 ATGAACCGTGAAGTGACAAACTGCGAA
1 ATGAACCGTAAAGTGACAAACTGCGAA
11094742 ATGAAC
1 ATGAAC
11094748 TATGAAATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (27 bp):
ATGAACCGTAAAGTGACAAACTGCGAA
Found at i:11094753 original size:27 final size:27
Alignment explanation
Indices: 11094688--11094759 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
11094678 CAAACACATG
* * *
11094688 ATGAACCGTAAAGTGACAAGCTGCGAA
1 ATGAACCATGAAGTGACAAACTGCGAA
*
11094715 ATGAACCGTGAAGTGACAAACTGCGAA
1 ATGAACCATGAAGTGACAAACTGCGAA
* *
11094742 ATGAACTATGAAATGACA
1 ATGAACCATGAAGTGACA
11094760 CAGTCAAGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.17
Consensus pattern (27 bp):
ATGAACCATGAAGTGACAAACTGCGAA
Found at i:11098099 original size:15 final size:14
Alignment explanation
Indices: 11098079--11098117 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
11098069 ATTTAAAAAT
11098079 TATTAATATATTATA
1 TATTAATAT-TTATA
11098094 TATTAATATTTATA
1 TATTAATATTTATA
11098108 -ATTAA-ATTTA
1 TATTAATATTTA
11098118 AATTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 5 0.21
14 5 0.21
15 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTAATATTTATA
Found at i:11102295 original size:5 final size:5
Alignment explanation
Indices: 11102285--11102314 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
11102275 ATGCAAATTC
*
11102285 AATAA AATAA AATAA AATAA AGTAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA
11102315 CTAACTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:11110063 original size:18 final size:20
Alignment explanation
Indices: 11110025--11110063 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
11110015 CCCTCAATAA
*
11110025 ATACGATAAATTTTAAATTT
1 ATACGATAAATTCTAAATTT
11110045 ATAC-ATAAATTCT-AATTT
1 ATACGATAAATTCTAAATTT
11110063 A
1 A
11110064 ATATGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (20 bp):
ATACGATAAATTCTAAATTT
Found at i:11110118 original size:29 final size:29
Alignment explanation
Indices: 11110042--11110119 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
11110032 AAATTTTAAA
*
11110042 TTTATACATAAATTCTAATTTAATATGTAAT
1 TTTATACATAAATT-TAATTT-ATACGTAAT
* * *
11110073 TGTATATATGAATTTTAATTT-TACGTAAT
1 TTTATACAT-AAATTTAATTTATACGTAAT
11110102 TTTATACATAAAATTTAA
1 TTTATACAT-AAATTTAA
11110120 ATTTGACCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 21 0.55
31 13 0.34
32 4 0.11
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (29 bp):
TTTATACATAAATTTAATTTATACGTAAT
Found at i:11114425 original size:20 final size:21
Alignment explanation
Indices: 11114400--11114440 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11114390 ACCCTCTTAT
*
11114400 CCAATGCTATAACT-ATAAAG
1 CCAATGCTAAAACTCATAAAG
*
11114420 CCAATGTTAAAACTCATAAAG
1 CCAATGCTAAAACTCATAAAG
11114441 TTAATTGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (21 bp):
CCAATGCTAAAACTCATAAAG
Found at i:11126169 original size:13 final size:14
Alignment explanation
Indices: 11126146--11126179 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
11126136 TAAATTGGTG
11126146 AAATCTGGTAATAT
1 AAATCTGGTAATAT
11126160 AAAT-TGGTAATAT
1 AAATCTGGTAATAT
11126173 AAA-CTGG
1 AAATCTGG
11126180 CTTTATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (14 bp):
AAATCTGGTAATAT
Found at i:11130553 original size:12 final size:12
Alignment explanation
Indices: 11130536--11130562 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11130526 TTTGGCTCAA
11130536 ATTGAATTCATC
1 ATTGAATTCATC
11130548 ATTGAATTCATC
1 ATTGAATTCATC
11130560 ATT
1 ATT
11130563 TTTACACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (12 bp):
ATTGAATTCATC
Found at i:11134063 original size:8 final size:7
Alignment explanation
Indices: 11134030--11134062 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
11134020 ACACAAAGCC
11134030 TTTTCTTT
1 TTTTC-TT
11134038 TTTTCTT
1 TTTTCTT
11134045 TTTTCTT
1 TTTTCTT
11134052 TTTTCTT
1 TTTTCTT
11134059 TTTT
1 TTTT
11134063 TACATTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:11141143 original size:24 final size:25
Alignment explanation
Indices: 11141088--11141141 Score: 94
Period size: 24 Copynumber: 2.2 Consensus size: 25
11141078 AATTAAAGTA
11141088 GATAAAGTTTGTACTATTTTACTTT
1 GATAAAGTTTGTACTATTTTACTTT
11141113 GATAAAG-TTGTACTATTTTACTTT
1 GATAAAGTTTGTACTATTTTACTTT
11141137 G-TAAA
1 GATAAA
11141142 AGGAGATTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 4 0.14
24 18 0.62
25 7 0.24
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (25 bp):
GATAAAGTTTGTACTATTTTACTTT
Found at i:11145789 original size:7 final size:7
Alignment explanation
Indices: 11145777--11145803 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11145767 TCACCAATGT
11145777 TTTTAAA
1 TTTTAAA
11145784 TTTTAAA
1 TTTTAAA
11145791 TTTTAAA
1 TTTTAAA
11145798 TTTTAA
1 TTTTAA
11145804 TAGAAACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTTAAA
Found at i:11147702 original size:15 final size:16
Alignment explanation
Indices: 11147674--11147703 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11147664 TTTCTAAGTG
11147674 AACTACATTTTAATTA
1 AACTACATTTTAATTA
11147690 AACTACA-TTTAATT
1 AACTACATTTTAATT
11147704 GCAATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (16 bp):
AACTACATTTTAATTA
Found at i:11149246 original size:16 final size:17
Alignment explanation
Indices: 11149225--11149262 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
11149215 TTCTAATTAA
*
11149225 AAATAAATTTATTAT-T
1 AAATAAATTTATAATAT
11149241 AAATAAATTTATAATAT
1 AAATAAATTTATAATAT
11149258 AAATA
1 AAATA
11149263 TGGATCTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATAAATTTATAATAT
Found at i:11176002 original size:8 final size:8
Alignment explanation
Indices: 11175991--11176095 Score: 68
Period size: 8 Copynumber: 13.8 Consensus size: 8
11175981 ATACATAAGT
11175991 TTATAAAA
1 TTATAAAA
11175999 TTATAAAAA
1 TTAT-AAAA
*
11176008 TT-GAAAA
1 TTATAAAA
11176015 TATATAAACAA
1 T-TAT-AA-AA
11176026 TTA-AAACA
1 TTATAAA-A
*
11176034 TTTTAAAA
1 TTATAAAA
*
11176042 TTTTAAAA
1 TTATAAAA
11176050 -T-TAAAA
1 TTATAAAA
11176056 -TA-AAAA
1 TTATAAAA
11176062 -TA-AAAA
1 TTATAAAA
11176068 TT-T-AAA
1 TTATAAAA
11176074 TTATAAAA
1 TTATAAAA
11176082 TTATAAAA
1 TTATAAAA
11176090 TTATAA
1 TTATAA
11176096 GAATAATTGG
Statistics
Matches: 82, Mismatches: 3, Indels: 24
0.75 0.03 0.22
Matches are distributed among these distances:
6 21 0.26
7 9 0.11
8 36 0.44
9 9 0.11
10 4 0.05
11 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (8 bp):
TTATAAAA
Found at i:11176022 original size:17 final size:16
Alignment explanation
Indices: 11175994--11176031 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
11175984 CATAAGTTTA
11175994 TAAAATTATAAA-AAT
1 TAAAATTATAAACAAT
11176009 TGAAAATATATAAACAAT
1 T-AAAAT-TATAAACAAT
11176027 TAAAA
1 TAAAA
11176032 CATTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 5 0.25
17 10 0.50
18 4 0.20
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAAATTATAAACAAT
Found at i:11176737 original size:17 final size:17
Alignment explanation
Indices: 11176712--11176745 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11176702 TTGTGAAATT
11176712 TATTAAAAAATATTTTA
1 TATTAAAAAATATTTTA
* *
11176729 TATTTAAAAATCTTTTA
1 TATTAAAAAATATTTTA
11176746 GTCTTATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTAAAAAATATTTTA
Found at i:11201277 original size:21 final size:21
Alignment explanation
Indices: 11201252--11201291 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11201242 ATGTGAATTA
* *
11201252 TAAAATATATATAATATATTT
1 TAAAATATAAAGAATATATTT
11201273 TAAAATATAAAGAATATAT
1 TAAAATATAAAGAATATAT
11201292 AAATATGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAAATATAAAGAATATATTT
Found at i:11201695 original size:3 final size:3
Alignment explanation
Indices: 11201687--11201713 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11201677 AAAATAAAAC
11201687 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
11201714 GCTAAATAAT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11203723 original size:30 final size:31
Alignment explanation
Indices: 11203665--11203734 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
11203655 AATTATTAAA
* * *
11203665 GATAAAATTTTATTTTAATATTTTTAAAAAT
1 GATAAAAATTTAATTTAATATATTTAAAAAT
11203696 GATAAAAATTTAATTTAAT-TATTTAAAAAT
1 GATAAAAATTTAATTTAATATATTTAAAAAT
*
11203726 TATAAAAAT
1 GATAAAAAT
11203735 ATAGATTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 18 0.51
31 17 0.49
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (31 bp):
GATAAAAATTTAATTTAATATATTTAAAAAT
Found at i:11203754 original size:24 final size:25
Alignment explanation
Indices: 11203713--11203761 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
11203703 ATTTAATTTA
*
11203713 ATTATTTAAAAATTATAAAAATATAG
1 ATTATTT-AAAATAATAAAAATATAG
*
11203739 ATTATTT-AAATAATAAAATTATA
1 ATTATTTAAAATAATAAAAATATA
11203762 TTTTTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
26 7 0.33
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
ATTATTTAAAATAATAAAAATATAG
Found at i:11204956 original size:35 final size:34
Alignment explanation
Indices: 11204913--11205019 Score: 146
Period size: 32 Copynumber: 3.2 Consensus size: 34
11204903 TCACTTGTCT
*
11204913 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATTA
* *
11204947 TTCTGTTGCAGGGAATCTTTCCTGTTCA--CATCA
1 TT-TCTTGCAGGGAATCTTTCCTGTTCACGCATTA
* *
11204980 TTTCTTGCAGGGAATCTCTCCTGTTCACGTATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATTA
11205014 TTTCTT
1 TTTCTT
11205020 TTTGGACCTG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 23 0.37
33 6 0.10
34 11 0.17
35 23 0.37
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCACGCATTA
Found at i:11207847 original size:21 final size:22
Alignment explanation
Indices: 11207817--11207861 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
11207807 GAGCAAATTG
11207817 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
11207839 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
11207860 TT
1 TT
11207862 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:11215508 original size:163 final size:163
Alignment explanation
Indices: 11215238--11215565 Score: 620
Period size: 163 Copynumber: 2.0 Consensus size: 163
11215228 GGAAAGGTAG
*
11215238 TAAGAGTTGGATGAAGTCCTTATTTTGTTGAGCTTTCTTCTGATAAAGGTGAGAAATGTAAGCAG
1 TAAGAGTTGGATGAAGTCCTTATTTTGTTGAGCTTTCTTCTGATAAAGGTGAGAAATGTAAGAAG
11215303 GAAAGTGTGGAAACAAATGTGCATAGGGATAAATAAATTGTTGTTGCTAAAGAGTTTTTTGGTTG
66 GAAAGTGTGGAAACAAATGTGCATAGGGATAAATAAATTGTTGTTGCTAAAGAGTTTTTTGGTTG
11215368 AAAGGGTACAATGTATGTCTTTGAAAAGAAGCT
131 AAAGGGTACAATGTATGTCTTTGAAAAGAAGCT
*
11215401 TAAGAGTTGGATGAAGTCCTTATTTTGTTGAGCTTTCTTCTGATAAAGGTGAGAAATGTGAGAAG
1 TAAGAGTTGGATGAAGTCCTTATTTTGTTGAGCTTTCTTCTGATAAAGGTGAGAAATGTAAGAAG
**
11215466 GTGAGTGTGGAAACAAATGTGCATAGGGATAAATAAATTGTTGTTGCTAAAGAGTTTTTTGGTTG
66 GAAAGTGTGGAAACAAATGTGCATAGGGATAAATAAATTGTTGTTGCTAAAGAGTTTTTTGGTTG
11215531 AAAGGGTACAATGTATGTCTTTGAAAAGAAGCT
131 AAAGGGTACAATGTATGTCTTTGAAAAGAAGCT
11215564 TA
1 TA
11215566 GAGGATGAAG
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 161 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.34
Consensus pattern (163 bp):
TAAGAGTTGGATGAAGTCCTTATTTTGTTGAGCTTTCTTCTGATAAAGGTGAGAAATGTAAGAAG
GAAAGTGTGGAAACAAATGTGCATAGGGATAAATAAATTGTTGTTGCTAAAGAGTTTTTTGGTTG
AAAGGGTACAATGTATGTCTTTGAAAAGAAGCT
Found at i:11216607 original size:15 final size:15
Alignment explanation
Indices: 11216587--11216616 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11216577 CATATACTTG
11216587 AGTATTTACGGAGAA
1 AGTATTTACGGAGAA
11216602 AGTATTTACGGAGAA
1 AGTATTTACGGAGAA
11216617 CAAGAGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
AGTATTTACGGAGAA
Found at i:11220898 original size:43 final size:43
Alignment explanation
Indices: 11220836--11220956 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
11220826 GGATTCCGAT
*
11220836 ATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGACATCGAC
1 ATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGACATCGAC
* * * **
11220879 CTGTGTTTACGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGGT
1 ATGTGTTTACGTGTAAGACCAC-GTCTGGGAC-GTTGACATCGAC
* *
11220922 ATGTGATTACATGTAAGACCACGTCTGGGACGTTG
1 ATGTGTTTACGTGTAAGACCACGTCTGGGACGTTG
11220957 GCATTGTACG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 2 0.03
43 60 0.94
44 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (43 bp):
ATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGACATCGAC
Found at i:11229052 original size:23 final size:22
Alignment explanation
Indices: 11229008--11229068 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
11228998 GTATTATTTC
11229008 TAAAAAT-ATATTAAAAGCAAAT-
1 TAAAAATAATATT--AAGCAAATA
11229030 TCAAAAATAATATTAAGCTAAATA
1 T-AAAAATAATATTAAGC-AAATA
*
11229054 TTAAAATAATATTAA
1 TAAAAATAATATTAA
11229069 AAATAATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 5 0.15
23 23 0.68
24 6 0.18
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (22 bp):
TAAAAATAATATTAAGCAAATA
Found at i:11229071 original size:12 final size:12
Alignment explanation
Indices: 11229008--11229075 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
11228998 GTATTATTTC
11229008 TAAAAAT-ATAT
1 TAAAAATAATAT
**
11229019 TAAAAGCAA-AT
1 TAAAAATAATAT
11229030 TCAAAAATAATAT
1 T-AAAAATAATAT
**
11229043 T-AAGCTAAATAT
1 TAAAAAT-AATAT
11229055 T-AAAATAATAT
1 TAAAAATAATAT
11229066 TAAAAATAAT
1 TAAAAATAAT
11229076 GAATATAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
11 17 0.39
12 24 0.55
13 3 0.07
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (12 bp):
TAAAAATAATAT
Found at i:11230521 original size:25 final size:23
Alignment explanation
Indices: 11230488--11230535 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
11230478 GATTGTGGAC
11230488 ATTTTAAAATTTG-GCTTTATTTTT
1 ATTTTAAAA-TTGAG-TTTATTTTT
11230512 ATTTATAAAATTGAGTTTATTTTT
1 ATTT-TAAAATTGAGTTTATTTTT
11230536 GGTTTGCGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.60
Consensus pattern (23 bp):
ATTTTAAAATTGAGTTTATTTTT
Found at i:11240520 original size:24 final size:24
Alignment explanation
Indices: 11240478--11240529 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11240468 AATCAAAGTC
** *
11240478 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
11240502 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
11240526 AAAT
1 AAAT
11240530 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:11245245 original size:24 final size:24
Alignment explanation
Indices: 11245203--11245254 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11245193 AATCAAAGTC
** *
11245203 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
11245227 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
11245251 AAAT
1 AAAT
11245255 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:11252849 original size:24 final size:24
Alignment explanation
Indices: 11252817--11252892 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 24
11252807 CAAACGCTCT
11252817 AAATCTCAAGTTATATAACCATAC
1 AAATCTCAAGTTATATAACCATAC
* * *
11252841 AAATGTCAA-TT-TTTTA-CAT--
1 AAATCTCAAGTTATATAACCATAC
*
11252860 AAGTCTCAAGTTATATAACCATAC
1 AAATCTCAAGTTATATAACCATAC
*
11252884 AAATGTCAA
1 AAATCTCAA
11252893 TTTTTTTTGT
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
19 7 0.18
20 2 0.05
21 6 0.16
22 6 0.16
23 2 0.05
24 15 0.39
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (24 bp):
AAATCTCAAGTTATATAACCATAC
Found at i:11255170 original size:26 final size:24
Alignment explanation
Indices: 11255089--11255171 Score: 71
Period size: 26 Copynumber: 3.4 Consensus size: 24
11255079 AGCCATGTAC
* **
11255089 CGGGAAGTTCAAGCGAGCCAT-AT
1 CGGGAAGCTCAAAAGAGCCATAAT
11255112 CGGGAAGCTCAAAAGAGCCAATTAA-
1 CGGGAAGCTCAAAAGAGCC-A-TAAT
* *
11255137 CGGAAAGCTCACGAAGAGCCTATAAT
1 CGGGAAGCTCA-AAAGAGCC-ATAAT
11255163 CGGGAAGCT
1 CGGGAAGCT
11255172 TGTAAGAGCT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
23 16 0.33
24 1 0.02
25 14 0.29
26 17 0.35
ACGTcount: A:0.36, C:0.22, G:0.28, T:0.14
Consensus pattern (24 bp):
CGGGAAGCTCAAAAGAGCCATAAT
Found at i:11263632 original size:8 final size:8
Alignment explanation
Indices: 11263619--11263643 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11263609 GGCTACTATG
11263619 TTCATTAA
1 TTCATTAA
11263627 TTCATTAA
1 TTCATTAA
11263635 TTCATTAA
1 TTCATTAA
11263643 T
1 T
11263644 CAAGTCTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (8 bp):
TTCATTAA
Found at i:11263672 original size:26 final size:26
Alignment explanation
Indices: 11263642--11263696 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
11263632 TAATTCATTA
**
11263642 ATCAAGTCTTTC-ATCAAGTGTTTTTC
1 ATCAAGT-TTTCAATCAAGCCTTTTTC
11263668 ATCAAGTTTTCAATCAAGCCTTTTTC
1 ATCAAGTTTTCAATCAAGCCTTTTTC
11263694 ATC
1 ATC
11263697 TCTTTAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (26 bp):
ATCAAGTTTTCAATCAAGCCTTTTTC
Found at i:11271781 original size:107 final size:106
Alignment explanation
Indices: 11271572--11271785 Score: 329
Period size: 107 Copynumber: 2.0 Consensus size: 106
11271562 GAAAAAAAGG
*
11271572 TAAGAAGGAATTCAAGAAAACAGACGCAGCAAGAATCAGACCTTTGTACGAGGAATAAAACATTT
1 TAAGAAGGAATTCAAGAAAACAGACGCAGCAAGAATCAGACCTTAGTACGAGGAATAAAACATTT
*
11271637 CTAGGAATAGGCAATCCTTGAGAGGTTGCATATTCTTGAGC
66 CTAGGAACAGGCAATCCTTGAGAGGTTGCATATTCTTGAGC
** ** * *
11271678 TAAGAAGGAATTCAAGAAAATGGGTGCAGCAATAATCTGACCTTAGTACGAGGAATTAAAACATT
1 TAAGAAGGAATTCAAGAAAACAGACGCAGCAAGAATCAGACCTTAGTACGAGGAA-TAAAACATT
* *
11271743 TCTAGGTACAGGCAATCCTTGTGAGGTTGCATATTCTTGAGC
65 TCTAGGAACAGGCAATCCTTGAGAGGTTGCATATTCTTGAGC
11271785 T
1 T
11271786 GCTAGAAGCT
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
106 48 0.49
107 49 0.51
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (106 bp):
TAAGAAGGAATTCAAGAAAACAGACGCAGCAAGAATCAGACCTTAGTACGAGGAATAAAACATTT
CTAGGAACAGGCAATCCTTGAGAGGTTGCATATTCTTGAGC
Found at i:11280539 original size:23 final size:22
Alignment explanation
Indices: 11280467--11280554 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 22
11280457 TACTTGATCA
*
11280467 GAATACGACACATAA-GTGCCT
1 GAATACGACACACAAGGTGCCT
*
11280488 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
11280509 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
11280530 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
11280553 GA
1 GA
11280555 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 9 0.17
21 27 0.50
22 1 0.02
23 17 0.31
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:11280551 original size:44 final size:41
Alignment explanation
Indices: 11280472--11280553 Score: 101
Period size: 44 Copynumber: 1.9 Consensus size: 41
11280462 GATCAGAATA
* * *
11280472 CGACACATAAGTGCCTGAAACGACACACGAGGTGCCTGCTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
*
11280513 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTG
11280554 ATCAGTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.26
42 7 0.21
43 2 0.06
44 16 0.47
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
Found at i:11280771 original size:23 final size:24
Alignment explanation
Indices: 11280745--11280839 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
11280735 AAATGTCCAA
11280745 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
11280768 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
11280796 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
11280825 CCAAAACACACCAGA
1 CCAAAACACACCAGA
11280840 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:11280841 original size:29 final size:28
Alignment explanation
Indices: 11280759--11280842 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
11280749 AACACACCAG
* *
11280759 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
11280787 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
11280815 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
11280843 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:11284422 original size:14 final size:14
Alignment explanation
Indices: 11284403--11284445 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
11284393 TTAAAAAATG
11284403 TTATTAAATTATTA
1 TTATTAAATTATTA
*
11284417 TTATTAAATTAGTA
1 TTATTAAATTATTA
11284431 TTATTAAATTATTA
1 TTATTAAATTATTA
11284445 T
1 T
11284446 ATTTTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
TTATTAAATTATTA
Found at i:11284582 original size:3 final size:3
Alignment explanation
Indices: 11284576--11284601 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11284566 TATTAAAATA
11284576 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
11284602 ACTAGGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11285791 original size:23 final size:22
Alignment explanation
Indices: 11285764--11285848 Score: 95
Period size: 21 Copynumber: 4.0 Consensus size: 22
11285754 GGCTTTGCCG
* *
11285764 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGT-T
*
11285787 ATCAGGCACCTCGTGTGTCG-T
1 ATCAGGCACCTCATGTGTCGTT
*
11285808 ATCAGGCACCTCGTGTGTCGTT
1 ATCAGGCACCTCATGTGTCGTT
*
11285830 -TCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
11285849 ATACTGATCA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.18
21 28 0.50
22 1 0.02
23 17 0.30
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.34
Consensus pattern (22 bp):
ATCAGGCACCTCATGTGTCGTT
Found at i:11285810 original size:21 final size:21
Alignment explanation
Indices: 11285777--11285850 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
11285767 AGGCACTTTA
11285777 TGTGTCGTATATCAGGCACCTCG
1 TGTGTCG--TATCAGGCACCTCG
11285800 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* **
11285821 TGTGTCGTTTCAGGCA-CTTA
1 TGTGTCGTATCAGGCACCTCG
11285841 TGTGTCGTAT
1 TGTGTCGTAT
11285851 ACTGATCAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
20 11 0.23
21 29 0.62
23 7 0.15
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:11298298 original size:2 final size:2
Alignment explanation
Indices: 11298293--11298319 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11298283 ATATACACAC
11298293 GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT G
11298320 ATGAGCAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:11300155 original size:13 final size:13
Alignment explanation
Indices: 11300139--11300178 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
11300129 TTTAAGCCAA
11300139 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
11300152 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
11300165 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
11300178 A
1 A
11300179 ATGAAGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:11304137 original size:9 final size:8
Alignment explanation
Indices: 11304122--11304146 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11304112 ATTGATTTAA
11304122 ATTTTTTT
1 ATTTTTTT
11304130 ATTTTTTT
1 ATTTTTTT
11304138 ATTTTTTT
1 ATTTTTTT
11304146 A
1 A
11304147 AAATTAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:11312875 original size:34 final size:34
Alignment explanation
Indices: 11312827--11312898 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
11312817 GATGTTGATG
* *
11312827 GTGTTCAAGGCTCTTGCACACCTAAGCGCCAATA
1 GTGTCCAAGGCTCTTGCACAACTAAGCGCCAATA
* *
11312861 GTGTCCAAGGCTCTTGTACAACTAAGCGCCAATT
1 GTGTCCAAGGCTCTTGCACAACTAAGCGCCAATA
11312895 GTGT
1 GTGT
11312899 TGATAGTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (34 bp):
GTGTCCAAGGCTCTTGCACAACTAAGCGCCAATA
Found at i:11318882 original size:27 final size:27
Alignment explanation
Indices: 11318852--11318911 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
11318842 CTGAATTTGG
11318852 TTTATAAAAATA-TTAT-TTATTTTCATT
1 TTTATAAAAATAGTTATATT-TTTT-ATT
*
11318879 TTTA-AAAATTAGTTATATTTTTTATT
1 TTTATAAAAATAGTTATATTTTTTATT
11318905 TTT-TAAA
1 TTTATAAA
11318912 TTGAAAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
26 15 0.52
27 12 0.41
28 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTATAAAAATAGTTATATTTTTTATT
Found at i:11327587 original size:22 final size:22
Alignment explanation
Indices: 11327542--11327597 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
11327532 ATCAGGGTCA
*
11327542 TGTCTCGAGACATAAGCCCCTT
1 TGTCTCGAGACATAAGCCCATT
*
11327564 TGTCTCGAGACATACA-CTCATT
1 TGTCTCGAGACATA-AGCCCATT
*
11327586 TGTCTTGAGACA
1 TGTCTCGAGACA
11327598 AGACAACTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (22 bp):
TGTCTCGAGACATAAGCCCATT
Found at i:11334162 original size:29 final size:31
Alignment explanation
Indices: 11334120--11334188 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
11334110 TTCATAGATG
* * *
11334120 TTTGACCCTTATATGATC-A-TTTTGAAATA
1 TTTGGCCCTTATATGAGCAACTCTTGAAATA
11334149 TTTGGCCCTTATATGAGCAACTCTTGAAATA
1 TTTGGCCCTTATATGAGCAACTCTTGAAATA
*
11334180 TTAGGCCCT
1 TTTGGCCCT
11334189 AATTTAAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.47
30 1 0.03
31 17 0.50
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTGGCCCTTATATGAGCAACTCTTGAAATA
Found at i:11342517 original size:8 final size:8
Alignment explanation
Indices: 11342504--11342530 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
11342494 GTTAAAATAT
11342504 TTATTTTA
1 TTATTTTA
11342512 TTATTTTA
1 TTATTTTA
11342520 TTATTTTA
1 TTATTTTA
11342528 TTA
1 TTA
11342531 AGGTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:11347783 original size:41 final size:41
Alignment explanation
Indices: 11347709--11347788 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
11347699 TGATCGAATG
* * *
11347709 TAATTCAGACTTATTGTCTAGCAGACTTGATGCCGGTGATA
1 TAATTCAGACTCATTGTCTAGCAGACTTAATGCCAGTGATA
* *
11347750 TAATTCAGACTCATTGTCTAGCGGGCTTAATGCCAGTGA
1 TAATTCAGACTCATTGTCTAGCAGACTTAATGCCAGTGA
11347789 AATTATTCGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (41 bp):
TAATTCAGACTCATTGTCTAGCAGACTTAATGCCAGTGATA
Found at i:11347963 original size:21 final size:21
Alignment explanation
Indices: 11347914--11347963 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
11347904 ACGTGATATG
11347914 TAAATAA-TATATATATTTGA
1 TAAATAAGTATATATATTTGA
*
11347934 -AGATCAAGTATATATATTTGA
1 TAAAT-AAGTATATATATTTGA
11347955 TAAATAAGT
1 TAAATAAGT
11347964 TTGATGAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 3 0.12
20 2 0.08
21 17 0.68
22 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (21 bp):
TAAATAAGTATATATATTTGA
Found at i:11350289 original size:19 final size:19
Alignment explanation
Indices: 11350243--11350289 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
11350233 ACTCTCAATC
*
11350243 TCTTTTTGCTCTTTTTGAT
1 TCTTTTTTCTCTTTTTGAT
*
11350262 TCTCGTTTTCT-TTTTTGATT
1 TCT-TTTTTCTCTTTTTGA-T
11350282 TCTTTTTT
1 TCTTTTTT
11350290 TGTCTTCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.04, C:0.15, G:0.09, T:0.72
Consensus pattern (19 bp):
TCTTTTTTCTCTTTTTGAT
Found at i:11352644 original size:37 final size:37
Alignment explanation
Indices: 11352583--11352848 Score: 392
Period size: 37 Copynumber: 7.0 Consensus size: 37
11352573 TACGTATGAT
* *
11352583 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11352618 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11352655 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11352692 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11352729 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11352766 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T--AGC
*
11352809 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 ---CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11352849 TAAAGCTATC
Statistics
Matches: 215, Mismatches: 5, Indels: 17
0.91 0.02 0.07
Matches are distributed among these distances:
35 9 0.04
36 3 0.01
37 159 0.74
39 2 0.01
40 4 0.02
41 1 0.00
42 1 0.00
43 4 0.02
44 2 0.01
46 30 0.14
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:11352819 original size:46 final size:46
Alignment explanation
Indices: 11352766--11353178 Score: 520
Period size: 46 Copynumber: 8.6 Consensus size: 46
11352756 TAAGTGTAGC
* *
11352766 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
11352812 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * * *
11352858 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGTAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
11352904 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
11352956 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
11353002 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
11353054 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
11353100 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
11353152 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11353179 AGTACTCAAA
Statistics
Matches: 327, Mismatches: 22, Indels: 36
0.85 0.06 0.09
Matches are distributed among these distances:
46 198 0.61
48 2 0.01
49 2 0.01
50 2 0.01
52 123 0.38
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:11352966 original size:98 final size:98
Alignment explanation
Indices: 11352766--11353178 Score: 667
Period size: 98 Copynumber: 4.3 Consensus size: 98
11352756 TAAGTGTAGC
* * **
11352766 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T----TT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
11352825 GTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
* * *
11352858 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGTAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
11352923 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
11352956 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
11353021 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
11353054 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
11353119 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
11353152 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11353179 AGTACTCAAA
Statistics
Matches: 303, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
92 52 0.17
94 1 0.00
98 250 0.83
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
Found at i:11355581 original size:20 final size:20
Alignment explanation
Indices: 11355543--11355581 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11355533 TATGGATGAA
* * *
11355543 TTACTGTTGATATGTATAAG
1 TTACTATTGATACGGATAAG
11355563 TTACTATTGATACGGATAA
1 TTACTATTGATACGGATAA
11355582 ATTTCTATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (20 bp):
TTACTATTGATACGGATAAG
Found at i:11366276 original size:18 final size:18
Alignment explanation
Indices: 11366255--11366296 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
11366245 ATAATTTGGC
11366255 ATTTTTATATA-TTTTAT
1 ATTTTTATATATTTTTAT
*
11366272 AATTTTTTTATATTTTTAT
1 -ATTTTTATATATTTTTAT
11366291 ATTTTT
1 ATTTTT
11366297 TGAATTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTTATATATTTTTAT
Found at i:11366297 original size:18 final size:20
Alignment explanation
Indices: 11366256--11366297 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
11366246 TAATTTGGCA
11366256 TTTTTATATATTTTATAATT
1 TTTTTATATATTTTATAATT
11366276 TTTTTATAT-TTTTAT-ATT
1 TTTTTATATATTTTATAATT
11366294 TTTT
1 TTTT
11366298 GAATTTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTATATATTTTATAATT
Found at i:11370873 original size:22 final size:22
Alignment explanation
Indices: 11370848--11370914 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 22
11370838 TTTTATTTGT
11370848 TTTAATTATATAATTAATGA-TA
1 TTTAATTATATAATTAAT-ATTA
*
11370870 TTTAA--ATATAATTTATATTA
1 TTTAATTATATAATTAATATTA
11370890 TATTAATTTATGATAATTAA-ATTA
1 T-TTAA-TTAT-ATAATTAATATTA
11370914 T
1 T
11370915 AATGATATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 1 0.03
20 13 0.35
21 4 0.11
22 5 0.14
24 7 0.19
25 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (22 bp):
TTTAATTATATAATTAATATTA
Found at i:11370903 original size:35 final size:36
Alignment explanation
Indices: 11370848--11370933 Score: 110
Period size: 35 Copynumber: 2.5 Consensus size: 36
11370838 TTTTATTTGT
*
11370848 TTTA-ATTATA-TAATTAATGATATTTAAA-TATAA
1 TTTATATTATATTAATTAATGATAATTAAATTATAA
*
11370881 TTTATATTATATTAATTTATGATAATTAAATTATAA
1 TTTATATTATATTAATTAATGATAATTAAATTATAA
*
11370917 -TGATATTATATT-ATTAA
1 TTTATATTATATTAATTAA
11370934 ATAAATCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
33 4 0.09
34 10 0.22
35 27 0.59
36 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.51
Consensus pattern (36 bp):
TTTATATTATATTAATTAATGATAATTAAATTATAA
Found at i:11371623 original size:40 final size:38
Alignment explanation
Indices: 11371547--11371647 Score: 114
Period size: 40 Copynumber: 2.6 Consensus size: 38
11371537 GAAATTGAGA
* *
11371547 TTGA-TACTGAACTGAATTATGGAATACTGAATATTGTT
1 TTGAGTACTGAATTGAATTGT-GAATACTGAATATTGTT
11371585 TTGAGTACTGAATTGAATTGTGAAGTTACTGAATATTGTT
1 TTGAGTACTGAATTGAATTGTGAA--TACTGAATATTGTT
* * * *
11371625 ATGTGTACTGCATTGAACTGTGA
1 TTGAGTACTGAATTGAATTGTGA
11371648 GATTACTAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
38 7 0.13
39 14 0.26
40 33 0.61
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (38 bp):
TTGAGTACTGAATTGAATTGTGAATACTGAATATTGTT
Found at i:11371654 original size:40 final size:40
Alignment explanation
Indices: 11371571--11371647 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
11371561 AATTATGGAA
* *
11371571 TACTGAATATTGTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTGTTATGAGTACTGAATTGAACTGTGAAGT
* *
11371611 TACTGAATATTGTTATGTGTACTGCATTGAACTGTGA
1 TACTGAATATTGTTATGAGTACTGAATTGAACTGTGA
11371648 GATTACTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (40 bp):
TACTGAATATTGTTATGAGTACTGAATTGAACTGTGAAGT
Found at i:11378013 original size:16 final size:16
Alignment explanation
Indices: 11377991--11378059 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
11377981 TTTGGTTCGC
11377991 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
11378007 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11378023 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
11378040 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11378056 TGTA
1 TGTA
11378060 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11378037 original size:33 final size:32
Alignment explanation
Indices: 11377991--11378059 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
11377981 TTTGGTTCGC
11377991 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
11378023 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
11378056 TGTA
1 TGTA
11378060 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:11378316 original size:18 final size:17
Alignment explanation
Indices: 11378295--11378329 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11378285 TTATTATTAA
*
11378295 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11378313 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11378330 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11378491 original size:120 final size:120
Alignment explanation
Indices: 11378278--11378540 Score: 499
Period size: 120 Copynumber: 2.2 Consensus size: 120
11378268 ATCATATTTA
*
11378278 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAAAAAATTCTTAATAATTAA
*
11378343 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
11378398 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAAAAAATTCTTAATAATTAA
11378463 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
11378518 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
11378541 AACTTGAAAA
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 140 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:11381611 original size:33 final size:33
Alignment explanation
Indices: 11381572--11381681 Score: 136
Period size: 33 Copynumber: 3.3 Consensus size: 33
11381562 ATTATAAAGC
11381572 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
11381605 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
11381638 AATGT-T-ATTGTCCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
11381671 ATGTATAATTG
1 ATGTATAATTG
11381682 TTGGTTTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
32 9 0.14
33 49 0.74
34 8 0.12
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:11381688 original size:51 final size:51
Alignment explanation
Indices: 11381628--11381832 Score: 387
Period size: 51 Copynumber: 4.0 Consensus size: 51
11381618 CTAAAATTAC
11381628 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAA
11381679 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
11381730 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
11381781 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATG-ATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
11381831 TT
1 TT
11381833 TTTACGTATA
Statistics
Matches: 153, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
50 7 0.05
51 146 0.95
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:11382006 original size:86 final size:86
Alignment explanation
Indices: 11381899--11382079 Score: 355
Period size: 86 Copynumber: 2.1 Consensus size: 86
11381889 TTCTCTCCAC
11381899 ATAA-AATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
11381963 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
11381984 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
11382049 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
11382070 ATAATAATTA
1 ATAATAATTA
11382080 CAATTATATT
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 91 0.96
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (86 bp):
ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
TTAATATTAAAGATAAAAATT
Found at i:11398271 original size:28 final size:27
Alignment explanation
Indices: 11398237--11398292 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
11398227 TAAACTTATA
11398237 TATATATTTATTATATACTTTTTATAAATT
1 TATAT-TTTA-TATATACTTTTTA-AAATT
*
11398267 TATATTTTATATATATTTTTTAAAAT
1 TATATTTTATATATACTTTTTAAAAT
11398293 GATAGTAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 4 0.16
28 12 0.48
29 4 0.16
30 5 0.20
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
TATATTTTATATATACTTTTTAAAATT
Found at i:11409448 original size:48 final size:48
Alignment explanation
Indices: 11409377--11409520 Score: 252
Period size: 48 Copynumber: 3.0 Consensus size: 48
11409367 CAAAATTATT
*
11409377 TTGGACCTGGTCAAAATGCAAAAGATTTTGGTCAAAATTGGTGTGCTG
1 TTGGACCTGGTCAAAATGCAAAAGAATTTGGTCAAAATTGGTGTGCTG
*
11409425 TTGGACCTGGTCAAAATGCAAAAGAAGTTGGTCAAAATTGGTGTGCTG
1 TTGGACCTGGTCAAAATGCAAAAGAATTTGGTCAAAATTGGTGTGCTG
* *
11409473 TTGGACCTGGTCAAAATGCAGAAGAATTTGGTCAAAATTGGGGTGCTG
1 TTGGACCTGGTCAAAATGCAAAAGAATTTGGTCAAAATTGGTGTGCTG
11409521 AAGCAGGCTA
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 91 1.00
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.28
Consensus pattern (48 bp):
TTGGACCTGGTCAAAATGCAAAAGAATTTGGTCAAAATTGGTGTGCTG
Found at i:11411570 original size:41 final size:41
Alignment explanation
Indices: 11411489--11411688 Score: 274
Period size: 41 Copynumber: 4.9 Consensus size: 41
11411479 TTTCTACCTT
*
11411489 TCAGATCTTTAGCGGCGTTTTTAAAAAAAACGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTT-AAAAAAGCGCCGCTAATGC
* * * *
11411531 TCATATCTTTAGCGGCGTTTTTGAAAAAGCGTCACTAATGC
1 TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
* *
11411572 TCAGATCTTTAGCGGCGTTTTTAAAAAAGTGCCGCTAATAC
1 TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
* *
11411613 TCAGATCTTTAGCGGCGTTTTAAAAAAAGCACCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
* ** *
11411654 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
11411689 AAAAACATTT
Statistics
Matches: 137, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 116 0.85
42 21 0.15
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (41 bp):
TCAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
Found at i:11412093 original size:14 final size:15
Alignment explanation
Indices: 11412065--11412095 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
11412055 AAGGTTTATA
11412065 GATTATGGAATTAGG
1 GATTATGGAATTAGG
11412080 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
11412094 GA
1 GA
11412096 CTCTGATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:11412790 original size:17 final size:16
Alignment explanation
Indices: 11412757--11412790 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11412747 ATATTAGATT
*
11412757 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
11412773 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
11412790 T
1 T
11412791 TGATACAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:11413661 original size:13 final size:13
Alignment explanation
Indices: 11413643--11413667 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11413633 CTGACTCAAC
11413643 TGTGGCAAATGAT
1 TGTGGCAAATGAT
11413656 TGTGGCAAATGA
1 TGTGGCAAATGA
11413668 AAATGGTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (13 bp):
TGTGGCAAATGAT
Found at i:11414552 original size:24 final size:24
Alignment explanation
Indices: 11414510--11414569 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
11414500 AGAGACTACT
11414510 GTTATCTA-TTCTAAGTTGTTTAA
1 GTTATCTATTTCTAAGTTGTTTAA
* *
11414533 TTTATCTATTTCTAATTTGTTTAA
1 GTTATCTATTTCTAAGTTGTTTAA
11414557 GTTATCTATTTCT
1 GTTATCTATTTCT
11414570 GCCTTCAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 7 0.21
24 26 0.79
ACGTcount: A:0.23, C:0.10, G:0.08, T:0.58
Consensus pattern (24 bp):
GTTATCTATTTCTAAGTTGTTTAA
Found at i:11416739 original size:21 final size:21
Alignment explanation
Indices: 11416715--11416782 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
11416705 TTTAGTGTGA
11416715 TTTAATTATTGTAAGAATATT
1 TTTAATTATTGTAAGAATATT
* *
11416736 TTTAA-CATTGT--TAAT-TT
1 TTTAATTATTGTAAGAATATT
11416753 TATT-ATTATTGTAAGAATATT
1 T-TTAATTATTGTAAGAATATT
*
11416774 TTGAATTAT
1 TTTAATTAT
11416783 AATTCAGTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
17 4 0.11
18 10 0.28
20 9 0.25
21 13 0.36
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.54
Consensus pattern (21 bp):
TTTAATTATTGTAAGAATATT
Found at i:11417163 original size:43 final size:43
Alignment explanation
Indices: 11416960--11417143 Score: 289
Period size: 43 Copynumber: 4.3 Consensus size: 43
11416950 GAATTGTACA
11416960 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
11417003 TTCAGCGGCGTTTGTGGGACAAGCGCCGCTAAAGGTCATGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
11417046 TTTAGCGGCGTTTGTGGGAAAAGCGCCACTAAAAGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
11417089 TTTAACGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCA-GGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
11417131 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
11417144 AGTAATAAAA
Statistics
Matches: 126, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
42 16 0.13
43 110 0.87
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:11421811 original size:21 final size:21
Alignment explanation
Indices: 11421785--11421825 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11421775 AGACGAGCAA
* *
11421785 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11421806 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11421826 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11424755 original size:23 final size:24
Alignment explanation
Indices: 11424705--11424750 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
11424695 AAGTTAATAA
* *
11424705 CATT-TTTTTTTCTTTTTGCATAC
1 CATTGTTTTTTGCTTTTAGCATAC
11424728 CATTGTTTTTTGCTTTTAGCATA
1 CATTGTTTTTTGCTTTTAGCATA
11424751 TATTGGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (24 bp):
CATTGTTTTTTGCTTTTAGCATAC
Found at i:11427452 original size:28 final size:28
Alignment explanation
Indices: 11427416--11427472 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11427406 TCATCTTTCA
11427416 AGTAAGTTTTATTTTTGGTAGATTCGAC
1 AGTAAGTTTTATTTTTGGTAGATTCGAC
*
11427444 AGTAGGTTTTATTTTTGGTAGATTCGAC
1 AGTAAGTTTTATTTTTGGTAGATTCGAC
11427472 A
1 A
11427473 ATTGTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.46
Consensus pattern (28 bp):
AGTAAGTTTTATTTTTGGTAGATTCGAC
Found at i:11429584 original size:46 final size:46
Alignment explanation
Indices: 11429532--11429623 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
11429522 AAAGAGATAG
11429532 ATAATTGAGAGTAAAGAAGGGTGAAAAGGTGAGCAGACTATGAAAC
1 ATAATTGAGAGTAAAGAAGGGTGAAAAGGTGAGCAGACTATGAAAC
11429578 ATAATTGAGAGTAAAGAAGGGTGAAAAGGTGAGCAGACTATGAAAC
1 ATAATTGAGAGTAAAGAAGGGTGAAAAGGTGAGCAGACTATGAAAC
11429624 CAAGAAAGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.46, C:0.07, G:0.30, T:0.17
Consensus pattern (46 bp):
ATAATTGAGAGTAAAGAAGGGTGAAAAGGTGAGCAGACTATGAAAC
Found at i:11447674 original size:91 final size:92
Alignment explanation
Indices: 11447542--11447733 Score: 314
Period size: 91 Copynumber: 2.1 Consensus size: 92
11447532 TTGATTTTAG
* *
11447542 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
11447607 ATTTAATATTAATTATTTTAAATTGTA
66 ATGTAATAATAATTATTTTAAATTATA
*
11447634 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
11447698 ATGTAATAATAATTATTTTAAATTATA
66 ATGTAATAATAATTATTTTAAATTATA
*
11447725 CAAATTCAT
1 TAAATTCAT
11447734 NAAATTATAT
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 77 0.83
92 16 0.17
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
ATGTAATAATAATTATTTTAAATTATA
Found at i:11447694 original size:18 final size:18
Alignment explanation
Indices: 11447668--11447775 Score: 60
Period size: 18 Copynumber: 5.7 Consensus size: 18
11447658 ATCAAGAATT
*
11447668 TTATGAAATTATATATTA
1 TTATTAAATTATATATTA
11447686 TTATTAAATTATATGTAATAATAA
1 TTATTAAATTATA--T-AT--T-A
* *
11447710 TTATTTTAAATTATACA-AA
1 TTA--TTAAATTATATATTA
* *
11447729 TTCATNAAATTATATATCA
1 TT-ATTAAATTATATATTA
11447748 TTATTAAATTATAT-TTA
1 TTATTAAATTATATATTA
*
11447765 ATATT-AATTAT
1 TTATTAAATTAT
11447776 TTTAAATTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
16 6 0.08
17 6 0.08
18 33 0.46
19 6 0.08
20 2 0.03
21 2 0.03
23 2 0.03
24 4 0.06
26 10 0.14
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATTAAATTATATATTA
Found at i:11447718 original size:26 final size:28
Alignment explanation
Indices: 11447664--11447724 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
11447654 TATTATCAAG
* *
11447664 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
11447692 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
11447718 AATTATA
1 AATTATA
11447725 CAAATTCATN
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:11447724 original size:44 final size:43
Alignment explanation
Indices: 11447582--11447724 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
11447572 GAATTTTATG
* *
11447582 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
11447626 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
11447673 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
11447717 AAATTATA
1 AAATTATA
11447725 CAAATTCATN
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:11447739 original size:153 final size:148
Alignment explanation
Indices: 11447582--11447883 Score: 496
Period size: 153 Copynumber: 2.0 Consensus size: 148
11447572 GAATTTTATG
*
11447582 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTGTATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
*
11447647 GAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATAATT
66 -AAAAATTATTATCAAGAATTTTATGAAA-T-TATA-TATTATTAAATTATATGTAATAATAATT
11447712 ATTTTAAATTATACAAATTCAT
127 ATTTTAAATTATACAAATTCAT
11447734 NAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATA
1 -AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATA
** * *
11447799 AAAAAATTATTATCACTAATTTTATGAAATTATATATTATTAAATTATATTTAATATTAATTATT
65 AAAAAATTATTATCAAGAATTTTATGAAATTATATATTATTAAATTATATGTAATAATAATTATT
*
11447864 TTAAATTATATAAATTCAT
130 TTAAATTATACAAATTCAT
11447883 A
1 A
11447884 TAAAAAAATT
Statistics
Matches: 142, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
148 1 0.01
149 47 0.33
150 4 0.03
151 1 0.01
152 25 0.18
153 64 0.45
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.48
Consensus pattern (148 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
AAAAATTATTATCAAGAATTTTATGAAATTATATATTATTAAATTATATGTAATAATAATTATTT
TAAATTATACAAATTCAT
Found at i:11447745 original size:62 final size:61
Alignment explanation
Indices: 11447673--11447796 Score: 203
Period size: 62 Copynumber: 2.0 Consensus size: 61
11447663 GAATTTTATG
*
11447673 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTTAAATTATACAAATTCAT
1 AAATTATATATCATTATTAAATTATATGTAATAATAATTATTTTAAATTATACAAATTCAT
* * *
11447734 NAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCAT
1 -AAATTATATATCATTATTAAATTATATGTAATAATAATTATTTTAAATTATACAAATTCAT
11447796 A
1 A
11447797 TAAAAAAATT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
61 1 0.02
62 57 0.98
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.48
Consensus pattern (61 bp):
AAATTATATATCATTATTAAATTATATGTAATAATAATTATTTTAAATTATACAAATTCAT
Found at i:11447798 original size:10 final size:9
Alignment explanation
Indices: 11447673--11447974 Score: 55
Period size: 10 Copynumber: 34.3 Consensus size: 9
11447663 GAATTTTATG
11447673 AAATTATAT
1 AAATTATAT
*
11447682 ATTATTAT-T
1 A-AATTATAT
11447691 AAATTATAT
1 AAATTATAT
*
11447700 GTAA-TA-AT
1 -AAATTATAT
*
11447708 -AATTATTTT
1 AAATTA-TAT
*
11447717 AAATTATAC
1 AAATTATAT
*
11447726 AAATTCAT-N
1 AAATT-ATAT
11447735 AAATTATAT
1 AAATTATAT
*
11447744 ATCATTAT-T
1 A-AATTATAT
11447753 AAATTATAT
1 AAATTATAT
11447762 ---TTAATAT
1 AAATT-ATAT
* *
11447769 TAATTATTTT
1 AAATTA-TAT
11447779 AAATTATAT
1 AAATTATAT
11447788 AAATTCATAT
1 AAATT-ATAT
* *
11447798 AAA-AAAAT
1 AAATTATAT
*
11447806 -TATTATCACT
1 AAATTAT-A-T
*
11447816 -AATTTTAT
1 AAATTATAT
11447824 GAAATTATAT
1 -AAATTATAT
11447834 --ATTAT-T
1 AAATTATAT
11447840 AAATTATAT
1 AAATTATAT
11447849 ---TTAATAT
1 AAATT-ATAT
* *
11447856 TAATTATTTT
1 AAATTA-TAT
11447866 AAATTATAT
1 AAATTATAT
11447875 AAATTCATAT
1 AAATT-ATAT
* *
11447885 AAA-AAAAT
1 AAATTATAT
*
11447893 -TATTATCACT
1 AAATTAT-A-T
*
11447903 -AATTTTAT
1 AAATTATAT
11447911 GAAATTATAT
1 -AAATTATAT
11447921 --ATTAT-T
1 AAATTATAT
11447927 AAATTATAT
1 AAATTATAT
11447936 ---TTAATAT
1 AAATT-ATAT
* *
11447943 TAATTATTTT
1 AAATTA-TAT
11447953 AAATTATAT
1 AAATTATAT
11447962 AAATTCATAT
1 AAATT-ATAT
11447972 AAA
1 AAA
11447975 AAAATTATTA
Statistics
Matches: 213, Mismatches: 35, Indels: 89
0.63 0.10 0.26
Matches are distributed among these distances:
6 10 0.05
7 26 0.12
8 34 0.16
9 52 0.24
10 91 0.43
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.48
Consensus pattern (9 bp):
AAATTATAT
Found at i:11447854 original size:87 final size:87
Alignment explanation
Indices: 11447741--11448048 Score: 598
Period size: 87 Copynumber: 3.5 Consensus size: 87
11447731 CATNAAATTA
11447741 TATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAAAAAAT
1 TATAT-ATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAAAAAAT
11447806 TATTATCACTAATTTTATGAAAT
65 TATTATCACTAATTTTATGAAAT
11447829 TATATATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAAAAAATT
1 TATATATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAAAAAATT
11447894 ATTATCACTAATTTTATGAAAT
66 ATTATCACTAATTTTATGAAAT
11447916 TATATATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAAAAAATT
1 TATATATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAAAAAATT
11447981 ATTATCACTAATTTTATGAAAT
66 ATTATCACTAATTTTATGAAAT
*
11448003 TATATATTATTAAATTATATTTAATATTAATTATTTCAAATTATAT
1 TATATATTATTAAATTATATTTAATATTAATTATTTTAAATTATAT
11448049 TTTATGGTAT
Statistics
Matches: 219, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
87 214 0.98
88 5 0.02
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (87 bp):
TATATATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAAAAAATT
ATTATCACTAATTTTATGAAAT
Found at i:11448315 original size:17 final size:17
Alignment explanation
Indices: 11448293--11448325 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11448283 TTACACCTCT
11448293 ATTCCATTCAACCAAAC
1 ATTCCATTCAACCAAAC
11448310 ATTCCATTCAACCAAA
1 ATTCCATTCAACCAAA
11448326 AGAATACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.24
Consensus pattern (17 bp):
ATTCCATTCAACCAAAC
Found at i:11448398 original size:16 final size:16
Alignment explanation
Indices: 11448377--11448408 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11448367 AATTGATTTG
11448377 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
11448393 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
11448409 TCAATAGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (16 bp):
CTATTACGCCTCTATT
Found at i:11453559 original size:18 final size:17
Alignment explanation
Indices: 11453533--11453572 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11453523 ATTAAAAATA
* *
11453533 TTTATTAATTTTTGTAAT
1 TTTAATAATTTTTAT-AT
11453551 TTTAATAATTTTTATAT
1 TTTAATAATTTTTATAT
11453568 TTTAA
1 TTTAA
11453573 CAAAAACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTAATAATTTTTATAT
Found at i:11457708 original size:5 final size:5
Alignment explanation
Indices: 11457698--11457744 Score: 67
Period size: 5 Copynumber: 9.4 Consensus size: 5
11457688 ATCATTTCAG
* * *
11457698 ACCCA ACCCA ACCCA ACCCT ACCCT ACCCT ACCCT ACCCT ACCCT AC
1 ACCCT ACCCT ACCCT ACCCT ACCCT ACCCT ACCCT ACCCT ACCCT AC
11457745 AATCAAATCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.28, C:0.60, G:0.00, T:0.13
Consensus pattern (5 bp):
ACCCT
Found at i:11461323 original size:23 final size:23
Alignment explanation
Indices: 11461288--11461335 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
11461278 TTATAGTTTA
* * * *
11461288 TATATGTTTTATGATTTAGGGTT
1 TATATGCTCTATGATTCAAGGTT
11461311 TATATGCTCTATGATTCAAGGTT
1 TATATGCTCTATGATTCAAGGTT
11461334 TA
1 TA
11461336 AGGAATATGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (23 bp):
TATATGCTCTATGATTCAAGGTT
Found at i:11461627 original size:7 final size:7
Alignment explanation
Indices: 11461613--11461665 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
11461603 AGGTCAATTT
11461613 AGGGTTA
1 AGGGTTA
*
11461620 ATGGTTA
1 AGGGTTA
*
11461627 AGGGTTT
1 AGGGTTA
*
11461634 AGTGTTA
1 AGGGTTA
*
11461641 AGGGTTT
1 AGGGTTA
*
11461648 AGGGTTT
1 AGGGTTA
11461655 AGGGTTTA
1 AGGG-TTA
11461663 AGG
1 AGG
11461666 TCTAAGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.38
Consensus pattern (7 bp):
AGGGTTA
Found at i:11461702 original size:14 final size:14
Alignment explanation
Indices: 11461610--11461707 Score: 88
Period size: 14 Copynumber: 7.0 Consensus size: 14
11461600 TCTAGGTCAA
* *
11461610 TTTAGGGTTAATGG
1 TTTAGGGTTTAGGG
* *
11461624 TTAAGGGTTTAGTG
1 TTTAGGGTTTAGGG
*
11461638 TTAAGGGTTTAGGG
1 TTTAGGGTTTAGGG
*
11461652 TTTAGGGTTTAAGG
1 TTTAGGGTTTAGGG
* * ** *
11461666 TCTAAGGAATAGAG
1 TTTAGGGTTTAGGG
*
11461680 TTTACGGTTTAGGG
1 TTTAGGGTTTAGGG
11461694 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
11461708 GATAGGGGTT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 65 1.00
ACGTcount: A:0.22, C:0.02, G:0.37, T:0.39
Consensus pattern (14 bp):
TTTAGGGTTTAGGG
Found at i:11461703 original size:21 final size:21
Alignment explanation
Indices: 11461610--11461704 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
11461600 TCTAGGTCAA
*
11461610 TTTAGGG-TTAATGGTTAAGGG
1 TTTAGGGTTTAA-GGTTTAGGG
*
11461631 TTTAGTG-TTAAGGGTTTAGGG
1 TTTAGGGTTTAA-GGTTTAGGG
* *
11461652 TTTAGGGTTTAAGGTCTAAGG
1 TTTAGGGTTTAAGGTTTAGGG
** * *
11461673 AATAGAGTTTACGGTTTAGGG
1 TTTAGGGTTTAAGGTTTAGGG
11461694 TTTAGGGTTTA
1 TTTAGGGTTTA
11461705 GGGGATAGGG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
21 54 0.93
22 4 0.07
ACGTcount: A:0.23, C:0.02, G:0.35, T:0.40
Consensus pattern (21 bp):
TTTAGGGTTTAAGGTTTAGGG
Found at i:11462441 original size:33 final size:34
Alignment explanation
Indices: 11462389--11462453 Score: 107
Period size: 33 Copynumber: 1.9 Consensus size: 34
11462379 CAAACACCAG
11462389 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTAC-GAAAAGT
11462424 AAAAT-TTTTCCAG-AAATCATTTTACGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACGAAAA
11462454 ATATTTTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 5 0.17
33 12 0.40
34 8 0.27
35 5 0.17
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (34 bp):
AAAATATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:11465067 original size:18 final size:18
Alignment explanation
Indices: 11465044--11465088 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
11465034 AAACAATTTT
11465044 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
11465062 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
*
11465080 TAACTTATA
1 TAAATTATA
11465089 AATATTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTATATAACTTACA
Found at i:11465073 original size:9 final size:9
Alignment explanation
Indices: 11465048--11465088 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
11465038 AATTTTTAAA
11465048 TTATATAAC
1 TTATATAAC
* *
11465057 TTACATAAA
1 TTATATAAC
11465066 TTATATAAC
1 TTATATAAC
*
11465075 TTACATAAC
1 TTATATAAC
11465084 TTATA
1 TTATA
11465089 AATATTTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (9 bp):
TTATATAAC
Found at i:11465130 original size:17 final size:18
Alignment explanation
Indices: 11465110--11465143 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11465100 ACATTTTTAA
11465110 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
11465127 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
11465144 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:11465225 original size:9 final size:9
Alignment explanation
Indices: 11465206--11465270 Score: 85
Period size: 9 Copynumber: 7.2 Consensus size: 9
11465196 CTTATATATA
*
11465206 AACTTGCAT
1 AACTTACAT
*
11465215 AACTTATAT
1 AACTTACAT
*
11465224 AAATTACAT
1 AACTTACAT
11465233 AACTTACAT
1 AACTTACAT
* *
11465242 AAATTAAAT
1 AACTTACAT
11465251 AACTTACAT
1 AACTTACAT
11465260 AACTTACAT
1 AACTTACAT
11465269 AA
1 AA
11465271 ATTAAGGGTC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:11465236 original size:27 final size:27
Alignment explanation
Indices: 11465206--11465275 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
11465196 CTTATATATA
* * *
11465206 AACTTGCATAACTTATATAAATTACAT
1 AACTTACATAAATTAAATAAATTACAT
*
11465233 AACTTACATAAATTAAATAACTTACAT
1 AACTTACATAAATTAAATAAATTACAT
11465260 AACTTACATAAATTAA
1 AACTTACATAAATTAA
11465276 GGGTCTGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.50, C:0.14, G:0.01, T:0.34
Consensus pattern (27 bp):
AACTTACATAAATTAAATAAATTACAT
Found at i:11467963 original size:21 final size:21
Alignment explanation
Indices: 11467937--11467998 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
11467927 CAACTTAAAA
* * *
11467937 CAGAGGCGGCAGTGAGGGAAG
1 CAGAGGCTGCAGCGAGAGAAG
*
11467958 CAGAGGCTACAGCGAGAGAAG
1 CAGAGGCTGCAGCGAGAGAAG
11467979 CAGAGGCTGCAGCGAGAGAA
1 CAGAGGCTGCAGCGAGAGAA
11467999 ACAGCAAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.44, T:0.05
Consensus pattern (21 bp):
CAGAGGCTGCAGCGAGAGAAG
Found at i:11468483 original size:43 final size:43
Alignment explanation
Indices: 11468436--11468528 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
11468426 ATCATATAGT
*
11468436 GGCGTTTGTGAAAT-AAGCGCAGCGAAAGAACACTACTTTTAGG
1 GGCGTTTGT-AAATGAAGCGCAGCGAAAGAACACTACTTTTAGC
* * * *
11468479 GGCGTTTGTAGATGAAGCGCCGCTAAAGAACATTACTTTTAGC
1 GGCGTTTGTAAATGAAGCGCAGCGAAAGAACACTACTTTTAGC
11468522 GGCGTTT
1 GGCGTTT
11468529 TTTCCTAAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 3 0.07
43 41 0.93
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (43 bp):
GGCGTTTGTAAATGAAGCGCAGCGAAAGAACACTACTTTTAGC
Found at i:11468629 original size:43 final size:42
Alignment explanation
Indices: 11468493--11468677 Score: 219
Period size: 42 Copynumber: 4.3 Consensus size: 42
11468483 TTTGTAGATG
*
11468493 AAGCGCCGCTAAAGAACATTA-CTTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTTTCCT
* * * * *
11468535 AAACGCCGTTAAAGATCATGTTCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
* *
11468577 AAGCGCCGCTAAAGAACATGATCATAAGCGGCGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCCT
* * *
11468620 AAGCACCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTCTAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC-CT
*
11468664 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
11468678 TTAACGACGT
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 61 0.51
43 46 0.38
44 13 0.11
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
Found at i:11468633 original size:85 final size:84
Alignment explanation
Indices: 11468493--11468658 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 84
11468483 TTTGTAGATG
* * * * * * **
11468493 AAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTCCTAAACGCCGTTAAAGATCATGTTC
1 AAGCGCCGCTAAAGAACATGACTATAAGCGGCGTTTTTTCCTAAACACCGCTAAAGAACATGACC
11468558 TTTAGCGGCGTTTTTTCCC
66 TTTAGCGGCGTTTTTTCCC
*
11468577 AAGCGCCGCTAAAGAACATGA-TCATAAGCGGCGTTTTTTTCCTAAGCACCGCTAAAGAACATGA
1 AAGCGCCGCTAAAGAACATGACT-ATAAGCGGCG-TTTTTTCCTAAACACCGCTAAAGAACATGA
11468641 CCTTTAGCGGCGTTTTTT
64 CCTTTAGCGGCGTTTTTT
11468659 TCTATAAGCG
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
83 1 0.01
84 28 0.39
85 42 0.59
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATGACTATAAGCGGCGTTTTTTCCTAAACACCGCTAAAGAACATGACC
TTTAGCGGCGTTTTTTCCC
Found at i:11473694 original size:23 final size:24
Alignment explanation
Indices: 11473654--11473705 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
11473644 ATAGAAAAAG
*
11473654 ATATA-TATGCAACAATATATATT
1 ATATATTATGAAACAATATATATT
11473677 ATATATTATGAAAC-ATATATATT
1 ATATATTATGAAACAATATATATT
11473700 A-ATATT
1 ATATATT
11473706 GTGTTAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.19
23 15 0.56
24 7 0.26
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (24 bp):
ATATATTATGAAACAATATATATT
Found at i:11475895 original size:92 final size:92
Alignment explanation
Indices: 11475680--11476516 Score: 1640
Period size: 92 Copynumber: 9.1 Consensus size: 92
11475670 GTTTAAAAGC
*
11475680 ATTCATTTACGTATGTAAGCTATTTTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
11475745 TTACTA-TTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
11475771 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
11475836 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
11475863 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
11475928 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
11475955 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
11476020 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
11476047 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
11476112 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
*
11476139 ATTCATTTACATATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
11476204 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
*
11476231 ATTCATTTACATATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
11476296 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
11476323 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
11476388 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
11476415 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
1 ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
11476480 TTACTATTTTTTTAATATTATACATAT
66 TTACTATTTTTTTAATATTATACATAT
11476507 ATTCATTTAC
1 ATTCATTTAC
11476517 ATATCACATA
Statistics
Matches: 742, Mismatches: 3, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
91 70 0.09
92 672 0.91
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (92 bp):
ATTCATTTACGTATGTAAGCTATATTTAAATTTTATTAATAATAAATTTATAACTTAAATAAGTA
TTACTATTTTTTTAATATTATACATAT
Found at i:11476536 original size:9 final size:9
Alignment explanation
Indices: 11476522--11476888 Score: 116
Period size: 9 Copynumber: 42.7 Consensus size: 9
11476512 TTTACATATC
11476522 ACATAACTT
1 ACATAACTT
*
11476531 ACATAACCT
1 ACATAACTT
*
11476540 ACTTAA--T
1 ACATAACTT
*
11476547 ATATAACTT
1 ACATAACTT
*
11476556 GCATAACTT
1 ACATAACTT
* *
11476565 AAATAAGTT
1 ACATAACTT
*
11476574 ACGTAA-TAAT
1 ACATAACT--T
11476584 ACATAA--T
1 ACATAACTT
*
11476591 ACACAACTT
1 ACATAACTT
* *
11476600 ACAT-GCGT
1 ACATAACTT
*
11476608 AAATAA--T
1 ACATAACTT
* *
11476615 ACAGAGCTT
1 ACATAACTT
11476624 ACATAACTT
1 ACATAACTT
* *
11476633 ACATACCCT
1 ACATAACTT
*
11476642 ACATAAATT
1 ACATAACTT
* *
11476651 AAATAAGTT
1 ACATAACTT
11476660 ACATAA-TAAT
1 ACATAACT--T
* *
11476670 ACATACCCT
1 ACATAACTT
*
11476679 ACATAAATT
1 ACATAACTT
* *
11476688 AAATAAGTT
1 ACATAACTT
11476697 ACATAA-TAAT
1 ACATAACT--T
* *
11476707 ACATACCCT
1 ACATAACTT
11476716 ACATAACTT
1 ACATAACTT
*
11476725 ACATAA--G
1 ACATAACTT
11476732 ACATAACTT
1 ACATAACTT
*
11476741 TCATAA--T
1 ACATAACTT
*
11476748 ACACAACTT
1 ACATAACTT
**
11476757 ACGCAACTT
1 ACATAACTT
*
11476766 ACATAA--G
1 ACATAACTT
11476773 ACATAACTT
1 ACATAACTT
*
11476782 ACAT--GTGT
1 ACATAACT-T
*
11476790 AAATAA--T
1 ACATAACTT
**
11476797 ACATATTTT
1 ACATAACTT
11476806 ACATAACTT
1 ACATAACTT
*
11476815 ACATAA--G
1 ACATAACTT
11476822 ACATAACTT
1 ACATAACTT
*
11476831 ACATAAGTT
1 ACATAACTT
*
11476840 TCATAA--T
1 ACATAACTT
* *
11476847 ACACATCTT
1 ACATAACTT
**
11476856 ACGCAACTT
1 ACATAACTT
*
11476865 ACACAACTT
1 ACATAACTT
11476874 ACATAACTT
1 ACATAACTT
11476883 ACATAA
1 ACATAA
11476889 TGTATATCTT
Statistics
Matches: 258, Mismatches: 70, Indels: 60
0.66 0.18 0.15
Matches are distributed among these distances:
7 48 0.19
8 12 0.05
9 180 0.70
10 18 0.07
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.30
Consensus pattern (9 bp):
ACATAACTT
Found at i:11476676 original size:37 final size:37
Alignment explanation
Indices: 11476632--11476731 Score: 182
Period size: 37 Copynumber: 2.7 Consensus size: 37
11476622 TTACATAACT
11476632 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
11476669 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
* *
11476706 TACATACCCTACATAACTTACATAAG
1 TACATACCCTACATAAATTAAATAAG
11476732 ACATAACTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.29
Consensus pattern (37 bp):
TACATACCCTACATAAATTAAATAAGTTACATAATAA
Found at i:11476735 original size:16 final size:16
Alignment explanation
Indices: 11476716--11476837 Score: 82
Period size: 16 Copynumber: 8.0 Consensus size: 16
11476706 TACATACCCT
11476716 ACATAACTTACATAAG
1 ACATAACTTACATAAG
* *
11476732 ACATAACTTTCATAAT
1 ACATAACTTACATAAG
*
11476748 ACACAACTTAC----G
1 ACATAACTTACATAAG
11476760 -C--AACTTACATAAG
1 ACATAACTTACATAAG
**
11476773 ACATAACTTACATGTG
1 ACATAACTTACATAAG
* **
11476789 TAAATAA--TACATATTTT
1 -ACATAACTTACATA--AG
11476806 ACATAACTTACATAAG
1 ACATAACTTACATAAG
11476822 ACATAACTTACATAAG
1 ACATAACTTACATAAG
11476838 TTTCATAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
9 7 0.09
11 1 0.01
13 1 0.01
14 1 0.01
15 5 0.06
16 54 0.67
17 6 0.07
18 6 0.07
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (16 bp):
ACATAACTTACATAAG
Found at i:11476764 original size:25 final size:25
Alignment explanation
Indices: 11476736--11476867 Score: 70
Period size: 25 Copynumber: 5.3 Consensus size: 25
11476726 CATAAGACAT
* *
11476736 AACTTTCATAATACACAACTTACGC
1 AACTTACATAAGACACAACTTACGC
*
11476761 AACTTACATAAGACATAACTTA--C
1 AACTTACATAAGACACAACTTACGC
** * * * ** **
11476784 ATGTGTAAATAATACATATTTTACAT
1 AACT-TACATAAGACACAACTTACGC
* **
11476810 AACTTACATAAGACATAACTTACAT
1 AACTTACATAAGACACAACTTACGC
* * * *
11476835 AAGTTTCATAATACACATCTTACGC
1 AACTTACATAAGACACAACTTACGC
11476860 AACTTACA
1 AACTTACA
11476868 CAACTTACAT
Statistics
Matches: 79, Mismatches: 25, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
23 3 0.04
24 14 0.18
25 60 0.76
26 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.31
Consensus pattern (25 bp):
AACTTACATAAGACACAACTTACGC
Done.