Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 56 of 125
Found at i:11146772 original size:14 final size:14
Alignment explanation
Indices: 11146753--11146784 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
11146743 AATTGTATTG
11146753 ATACCAATTTAAAT
1 ATACCAATTTAAAT
11146767 ATACCAATTTAAAT
1 ATACCAATTTAAAT
11146781 ATAC
1 ATAC
11146785 TCAAATCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (14 bp):
ATACCAATTTAAAT
Found at i:11147257 original size:18 final size:17
Alignment explanation
Indices: 11147224--11147257 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11147214 ATTTAATTTA
11147224 ATCTTATTTATAATATT
1 ATCTTATTTATAATATT
*
11147241 ATCTTATCTTATCATAT
1 ATCTTAT-TTATAATAT
11147258 CTTGTGTACC
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:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (17 bp):
ATCTTATTTATAATATT
Found at i:11148841 original size:11 final size:11
Alignment explanation
Indices: 11148825--11148849 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11148815 AATTAAATTA
11148825 TATCTTTTCTT
1 TATCTTTTCTT
11148836 TATCTTTTCTT
1 TATCTTTTCTT
11148847 TAT
1 TAT
11148850 TTATTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (11 bp):
TATCTTTTCTT
Found at i:11149175 original size:15 final size:15
Alignment explanation
Indices: 11149149--11149188 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
11149139 AGTCCAAAAA
*
11149149 TATTTTATTTATTAT
1 TATTTAATTTATTAT
11149164 T-TATTAATTTATTAT
1 TAT-TTAATTTATTAT
11149179 TATTTAATTT
1 TATTTAATTT
11149189 GTGAAAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTAATTTATTAT
Found at i:11150501 original size:2 final size:2
Alignment explanation
Indices: 11150494--11150528 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11150484 AGCAAATCTG
11150494 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
11150529 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11150571 original size:2 final size:2
Alignment explanation
Indices: 11150528--11150559 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11150518 TCTCTCTCTC
11150528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11150560 AGATTGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11151552 original size:37 final size:38
Alignment explanation
Indices: 11151511--11151591 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 38
11151501 CAGGTAAGTC
11151511 TACATATTTCAAATAT-AAAATTTCAGAGAAGCAATAA
1 TACATATTTCAAATATAAAAATTTCAGAGAAGCAATAA
*
11151548 TACATATTTCAAATATAAAAATTTCCGAGAAGCAATAA
1 TACATATTTCAAATATAAAAATTTCAGAGAAGCAATAA
11151586 T-CATAT
1 TACATAT
11151592 AAACCTAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
37 21 0.50
38 21 0.50
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.31
Consensus pattern (38 bp):
TACATATTTCAAATATAAAAATTTCAGAGAAGCAATAA
Found at i:11151735 original size:30 final size:32
Alignment explanation
Indices: 11151699--11151768 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
11151689 CGAAATTAAT
* * *
11151699 AAAATATTATTTTTTAAATATA-A-ATATTTA
1 AAAATATTATTATATAAATATATATATAATTA
*
11151729 AAAATATCATTATATAAATATATATATAATTA
1 AAAATATTATTATATAAATATATATATAATTA
11151761 AAAA-ATTA
1 AAAATATTA
11151769 AAAAATTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 19 0.58
31 4 0.12
32 10 0.30
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
AAAATATTATTATATAAATATATATATAATTA
Found at i:11151781 original size:12 final size:12
Alignment explanation
Indices: 11151764--11151788 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11151754 ATAATTAAAA
11151764 AATTAAAAAATT
1 AATTAAAAAATT
11151776 AATTAAAAAATT
1 AATTAAAAAATT
11151788 A
1 A
11151789 TTTTTATATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTAAAAAATT
Found at i:11166933 original size:15 final size:15
Alignment explanation
Indices: 11166898--11166987 Score: 53
Period size: 15 Copynumber: 5.9 Consensus size: 15
11166888 AGGTTATTTA
11166898 AATTTAATATTTAAATT
1 AATTTAA-ATTT-AATT
*
11166915 -ATTTGAATTTAATT
1 AATTTAAATTTAATT
* *
11166929 AATTTTTAAA--AAATC
1 AA--TTTAAATTTAATT
11166944 AATTTAAATTTAAATT
1 AATTTAAATTT-AATT
* *
11166960 -ATTTGAATTCTAATC
1 AATTTAAATT-TAATT
11166975 AATTTAAATTTAA
1 AATTTAAATTTAA
11166988 GTTGAGGAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 18
0.67 0.11 0.22
Matches are distributed among these distances:
13 6 0.11
14 4 0.07
15 24 0.43
16 17 0.30
17 5 0.09
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (15 bp):
AATTTAAATTTAATT
Found at i:11167163 original size:21 final size:21
Alignment explanation
Indices: 11167135--11167174 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11167125 AATCATATAA
11167135 ATTAACATTCAA-TTAAAATG
1 ATTAACATTCAATTTAAAATG
11167155 ATTAGACATTCAATTTAAAA
1 ATTA-ACATTCAATTTAAAA
11167175 ACAATTGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (21 bp):
ATTAACATTCAATTTAAAATG
Found at i:11168956 original size:14 final size:14
Alignment explanation
Indices: 11168939--11168968 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11168929 AGATTTTATT
*
11168939 TTAAATATTTTTAA
1 TTAAATAATTTTAA
11168953 TTAAATAATTTTAA
1 TTAAATAATTTTAA
11168967 TT
1 TT
11168969 TTTTAATTAA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAATAATTTTAA
Found at i:11169671 original size:17 final size:16
Alignment explanation
Indices: 11169646--11169678 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
11169636 CTTCACTTAG
11169646 TTTTTTTTTCTTTTGT
1 TTTTTTTTTCTTTTGT
11169662 TTTTTATTTTCTTTTGT
1 TTTTT-TTTTCTTTTGT
11169679 CCAAGGCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.03, C:0.06, G:0.06, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTCTTTTGT
Found at i:11169768 original size:5 final size:5
Alignment explanation
Indices: 11169748--11169784 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
11169738 ATTTAAGATC
*
11169748 AAATT AAATTT GAATT AAATT AAATT AAATT AAATT A
1 AAATT AAA-TT AAATT AAATT AAATT AAATT AAATT A
11169785 TACATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (5 bp):
AAATT
Found at i:11169780 original size:15 final size:16
Alignment explanation
Indices: 11169738--11169784 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
11169728 AGATTTGTAG
*
11169738 ATTTAAGATCAAATTAA
1 ATTTAA-ATTAAATTAA
*
11169755 ATTTGAATTAAATTAA
1 ATTTAAATTAAATTAA
11169771 A-TTAAATTAAATTA
1 ATTTAAATTAAATTA
11169785 TACATTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 12 0.44
16 10 0.37
17 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTTAAATTAAATTAA
Found at i:11169798 original size:26 final size:26
Alignment explanation
Indices: 11169748--11169800 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
11169738 ATTTAAGATC
*
11169748 AAATTAAATTTGAATTAAATTAAATT
1 AAATTAAATTTGAATTAAATAAAATT
11169774 AAATTAAATTAT-ACATT-AATAAAATT
1 AAATTAAATT-TGA-ATTAAATAAAATT
11169800 A
1 A
11169801 TCTCTAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
AAATTAAATTTGAATTAAATAAAATT
Found at i:11170774 original size:30 final size:29
Alignment explanation
Indices: 11170740--11170799 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
11170730 TAAAGGTTTA
11170740 ATTAAGTTAAAATAGAA-GATTAAAAACTTG
1 ATTAA-TTAAAATAGAATG-TTAAAAACTTG
** *
11170770 ATTAATTGTAATAGAATGTTAAAAATTTG
1 ATTAATTAAAATAGAATGTTAAAAACTTG
11170799 A
1 A
11170800 ATGATTATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.50, C:0.02, G:0.13, T:0.35
Consensus pattern (29 bp):
ATTAATTAAAATAGAATGTTAAAAACTTG
Found at i:11172067 original size:17 final size:17
Alignment explanation
Indices: 11172031--11172066 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
11172021 AATTTATGAA
*
11172031 TTTATTTTGCAAAGATT
1 TTTATTTTGAAAAGATT
11172048 TTTA-TTTGAAAAGATT
1 TTTATTTTGAAAAGATT
11172064 TTT
1 TTT
11172067 TTTATATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.56
Consensus pattern (17 bp):
TTTATTTTGAAAAGATT
Found at i:11172280 original size:26 final size:26
Alignment explanation
Indices: 11172243--11172297 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
11172233 ATAAAATTAT
11172243 ATATGAAAATAAAATAAAAACTTAAAA
1 ATATGAAAATAAAATAAAAAC-TAAAA
* *
11172270 ATAT-AAAATAAAATGAAATCTAAAA
1 ATATGAAAATAAAATAAAAACTAAAA
11172295 ATA
1 ATA
11172298 AACTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 8 0.31
26 14 0.54
27 4 0.15
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (26 bp):
ATATGAAAATAAAATAAAAACTAAAA
Found at i:11173191 original size:9 final size:9
Alignment explanation
Indices: 11173174--11173234 Score: 68
Period size: 9 Copynumber: 6.8 Consensus size: 9
11173164 TAAAAATAAA
11173174 AATAACAAC
1 AATAACAAC
*
11173183 AACAACAAC
1 AATAACAAC
*
11173192 AATAACAAT
1 AATAACAAC
* *
11173201 AATAATAAT
1 AATAACAAC
*
11173210 AATAACAAT
1 AATAACAAC
*
11173219 AACAACAAC
1 AATAACAAC
11173228 AATAACA
1 AATAACA
11173235 TACTATAAAC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.67, C:0.18, G:0.00, T:0.15
Consensus pattern (9 bp):
AATAACAAC
Found at i:11173221 original size:6 final size:6
Alignment explanation
Indices: 11173157--11173234 Score: 84
Period size: 6 Copynumber: 13.0 Consensus size: 6
11173147 AAAAACAAAC
* * * * * *
11173157 ATAAAA ATAAAA ATAAAA ATAACA ACAACA ACAACA ATAACA ATAATA
1 ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA ATAACA
* *
11173205 ATAATA ATAACA ATAACA ACAACA ATAACA
1 ATAACA ATAACA ATAACA ATAACA ATAACA
11173235 TACTATAAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.15
Consensus pattern (6 bp):
ATAACA
Found at i:11173386 original size:22 final size:22
Alignment explanation
Indices: 11173361--11173403 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11173351 ATTGACTTCG
**
11173361 GATCATAATCTGATTGACCCTA
1 GATCATAATCCAATTGACCCTA
*
11173383 GATCATAGTCCAATTGACCCT
1 GATCATAATCCAATTGACCCT
11173404 GGACACATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (22 bp):
GATCATAATCCAATTGACCCTA
Found at i:11180442 original size:20 final size:20
Alignment explanation
Indices: 11180417--11180455 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
11180407 CTATGGAAGA
11180417 ACAAAATAAATGAAACCACC
1 ACAAAATAAATGAAACCACC
11180437 ACAAAATAAATGAAACCAC
1 ACAAAATAAATGAAACCAC
11180456 TAAGTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.23, G:0.05, T:0.10
Consensus pattern (20 bp):
ACAAAATAAATGAAACCACC
Found at i:11187291 original size:23 final size:23
Alignment explanation
Indices: 11187263--11187306 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
11187253 TAATGGAATA
11187263 TTTAGAGTATCTTAAAAATATTG
1 TTTAGAGTATCTTAAAAATATTG
11187286 TTTAGAGTATCTTAAAAATAT
1 TTTAGAGTATCTTAAAAATAT
11187307 ACTTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (23 bp):
TTTAGAGTATCTTAAAAATATTG
Found at i:11187822 original size:23 final size:23
Alignment explanation
Indices: 11187796--11187844 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
11187786 AAACATATGT
*
11187796 TATCATTAATAAATGTGATGAAA
1 TATCATTAATAAATATGATGAAA
*
11187819 TATCATTAATAAATATTATGAAA
1 TATCATTAATAAATATGATGAAA
11187842 TAT
1 TAT
11187845 TGACCTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (23 bp):
TATCATTAATAAATATGATGAAA
Found at i:11189794 original size:55 final size:55
Alignment explanation
Indices: 11189728--11189839 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
11189718 TCTCAATCAG
11189728 TAAGTATCATTGTCTAGTGACTAGCATAAAATCCATAATTCTTATGATAGTTCCA
1 TAAGTATCATTGTCTAGTGACTAGCATAAAATCCATAATTCTTATGATAGTTCCA
11189783 TAAGTATCATTGTCTAGTGACTAGCATAAAATCCATAATTCTTATGATAGTTCCA
1 TAAGTATCATTGTCTAGTGACTAGCATAAAATCCATAATTCTTATGATAGTTCCA
11189838 TA
1 TA
11189840 TTCTTAATAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (55 bp):
TAAGTATCATTGTCTAGTGACTAGCATAAAATCCATAATTCTTATGATAGTTCCA
Found at i:11189811 original size:26 final size:26
Alignment explanation
Indices: 11189728--11189811 Score: 68
Period size: 26 Copynumber: 3.1 Consensus size: 26
11189718 TCTCAATCAG
11189728 TAAGTATCATTGTCTAGTGACTAGCA
1 TAAGTATCATTGTCTAGTGACTAGCA
*
11189754 TAA-AATCCATAAT-TCTTA-TGA-TAGTTCCA
1 TAAGTAT-CAT--TGTC-TAGTGACTAG---CA
11189783 TAAGTATCATTGTCTAGTGACTAGCA
1 TAAGTATCATTGTCTAGTGACTAGCA
11189809 TAA
1 TAA
11189812 AATCCATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 22
0.65 0.03 0.32
Matches are distributed among these distances:
25 2 0.04
26 14 0.31
27 8 0.18
28 8 0.18
29 11 0.24
30 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (26 bp):
TAAGTATCATTGTCTAGTGACTAGCA
Found at i:11189856 original size:19 final size:20
Alignment explanation
Indices: 11189813--11189857 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
11189803 CTAGCATAAA
11189813 ATCCATAATTCTTATGATAGT
1 ATCCATAATTCTTA-GATAGT
11189834 -TCCAT-ATTCTTA-ATAGT
1 ATCCATAATTCTTAGATAGT
11189851 CATCCAT
1 -ATCCAT
11189858 GGAGATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.23
19 12 0.55
20 5 0.23
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (20 bp):
ATCCATAATTCTTAGATAGT
Found at i:11195201 original size:21 final size:21
Alignment explanation
Indices: 11195175--11195214 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11195165 AATTGAAGGG
*
11195175 GATTATTCAAGGTATTTTTGA
1 GATTATTCAAGGCATTTTTGA
*
11195196 GATTATTTAAGGCATTTTT
1 GATTATTCAAGGCATTTTT
11195215 TGCCAAAAAT
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:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (21 bp):
GATTATTCAAGGCATTTTTGA
Found at i:11195658 original size:60 final size:59
Alignment explanation
Indices: 11195538--11195668 Score: 154
Period size: 59 Copynumber: 2.2 Consensus size: 59
11195528 AAACGCCTTC
* * *
11195538 AATAATCCCTTTCAATTTTTTTGAGATTATTCAAGGCATTTTTAATAAAAAATGCCTTG
1 AATAATCCCTTTCAATTTTTTTGAGATTATTCAAGACATTTTTAACAAAAAATGCATTG
* ** * * **
11195597 AATAATTCCTTTTTATTTTTTTTAGATTATTCAAGACGTTTTTGGCCAAAAAATGCATTG
1 AATAATCCCTTTCAATTTTTTTGAGATTATTCAAGACATTTTT-AACAAAAAATGCATTG
*
11195657 AATAATCTCTTT
1 AATAATCCCTTT
11195669 AAAAAATTGA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
59 37 0.63
60 22 0.37
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (59 bp):
AATAATCCCTTTCAATTTTTTTGAGATTATTCAAGACATTTTTAACAAAAAATGCATTG
Found at i:11195691 original size:183 final size:179
Alignment explanation
Indices: 11195189--11195709 Score: 492
Period size: 183 Copynumber: 2.9 Consensus size: 179
11195179 ATTCAAGGTA
** * * * * *
11195189 TTTTTGAGATTATTTAAGGCATTTTTTGCCAAAAATACCTTCAATAA-TGCTCTCTAATTCTTTT
1 TTTTTGAGATTATTTAAGGCATTTTTAACAAAAAATGCCTTGAATAATTCCT-TTTAATT-TTTT
* * * * *
11195253 TGGGATTATTCAAGGTGTTTTTGGCTAGAAAACGCCTTGAATAATTTTTTATAAAAAAATTGAAT
64 T-TGATTATTCAAGGCGTTTTTGGCCAGAAAACGCCTTGAATAATCTCTT-TAAAAAAATTGAAT
* *
11195318 GGGATTATTTAAGGCGTTTCTAGCCAAAACACCTTCAATAATCCCTTTCAATT
127 GGGATTATTCAAGGCGTTTCTAGCAAAAACACCTTCAATAATCCCTTTCAATT
** * * * * * * * * *
11195371 TTTGGGGGGATTATTTAAAGCGTTTCTGACAAAAAATGCCTTGAGTAATCCCCTTTCATTTTTTT
1 TTT-TTGAGATTATTTAAGGCATTTTTAACAAAAAATGCCTTGAATAATTCCTTTTAATTTTTTT
* * * * * *
11195436 TGAATTATTTAAGGCGTTTTTTGTCAGAAAACACCTTGATTAATC-CTTTACAAAAAATTGAATA
65 TG-ATTATTCAAGGCGTTTTTGGCCAGAAAACGCCTTGAATAATCTCTTTA-AAAAAATTGAATG
* * * * *
11195500 AG-TTATTCAAGGCTTTTTTTTTGGTCAAAAACGCCTTCAATAATCCCTTTCAATT
128 GGATTATTCAAGGC---GTTTCTAG-CAAAAACACCTTCAATAATCCCTTTCAATT
* * *
11195555 TTTTTGAGATTATTCAAGGCATTTTTAATAAAAAATGCCTTGAATAATTCCTTTTTATTTTTTTT
1 TTTTTGAGATTATTTAAGGCATTTTTAACAAAAAATGCCTTGAATAATTCCTTTTAATTTTTTTT
* * * *
11195620 AGATTATTCAAGACGTTTTTGGCCAAAAAATGCATTGAATAATCTCTTT-AAAAAATTGAATGGG
66 -GATTATTCAAGGCGTTTTTGGCCAGAAAACGCCTTGAATAATCTCTTTAAAAAAATTGAATGGG
** *
11195684 ATTATTCAAGGTATTTTTAGCAAAAA
130 ATTATTCAAGGCGTTTCTAGCAAAAA
11195710 AAAGGTCTTG
Statistics
Matches: 266, Mismatches: 62, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
179 6 0.02
180 18 0.07
181 16 0.06
182 55 0.21
183 134 0.50
184 37 0.14
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (179 bp):
TTTTTGAGATTATTTAAGGCATTTTTAACAAAAAATGCCTTGAATAATTCCTTTTAATTTTTTTT
GATTATTCAAGGCGTTTTTGGCCAGAAAACGCCTTGAATAATCTCTTTAAAAAAATTGAATGGGA
TTATTCAAGGCGTTTCTAGCAAAAACACCTTCAATAATCCCTTTCAATT
Found at i:11195763 original size:123 final size:121
Alignment explanation
Indices: 11195562--11195784 Score: 308
Period size: 123 Copynumber: 1.8 Consensus size: 121
11195552 ATTTTTTTGA
* * **
11195562 GATTATTCAAGGCATTTTTAATAAAAAATGCCTTGAATAATTCCTTTTTATTTTTTTTAGATTAT
1 GATTATTCAAGGCATTTTTAAAAAAAAAGGCCTTGAATAATTCCTTTCCATTTTTTTTAGATTAT
*
11195627 TCAAGACGTTTTTG-GCCAAAAAATGCATTGAATAATCTCTTTAAAAAATTGAATGG
66 TCAAGACGTTTTTGTG-CAAAAAATGCATTCAATAATCTCTTTAAAAAATTGAATGG
* * *
11195683 GATTATTCAAGGTATTTTTAGCAAAAAAAAGGTCTTGAATAATTTCTTTCCATTTTTTTTAGAAT
1 GATTATTCAAGGCATTTTTA--AAAAAAAAGGCCTTGAATAATTCCTTTCCATTTTTTTTAG-AT
11195748 TATTCAA-AGCG-TTTTGTGCAAAAAATGCATTCAATAA
63 TATTCAAGA-CGTTTTTGTGCAAAAAATGCATTCAATAA
11195785 ACCCTTCCCA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
121 19 0.21
123 58 0.65
124 12 0.13
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.41
Consensus pattern (121 bp):
GATTATTCAAGGCATTTTTAAAAAAAAAGGCCTTGAATAATTCCTTTCCATTTTTTTTAGATTAT
TCAAGACGTTTTTGTGCAAAAAATGCATTCAATAATCTCTTTAAAAAATTGAATGG
Found at i:11202886 original size:20 final size:19
Alignment explanation
Indices: 11202848--11202887 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
11202838 TACAAAGCGT
**
11202848 ATGATGCAATATGAAATCA
1 ATGATGCAATAAAAAATCA
11202867 ATGATGCACATAAAAAATCA
1 ATGATGCA-ATAAAAAATCA
11202887 A
1 A
11202888 ACTATGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (19 bp):
ATGATGCAATAAAAAATCA
Found at i:11205681 original size:23 final size:24
Alignment explanation
Indices: 11205631--11205681 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
11205621 ATTTGAGAAT
* *
11205631 AGTGCAGTTTGGGATGAAGGGAAT
1 AGTGCAGTTTGAGATGAAGGGAAA
11205655 AGTGCAGTTTGAGA-GTAA-GGAAA
1 AGTGCAGTTTGAGATG-AAGGGAAA
11205678 AGTG
1 AGTG
11205682 GTGGGAGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.33, C:0.04, G:0.39, T:0.24
Consensus pattern (24 bp):
AGTGCAGTTTGAGATGAAGGGAAA
Found at i:11205756 original size:17 final size:17
Alignment explanation
Indices: 11205736--11205771 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11205726 TTTCCTTTTT
* *
11205736 TTTTTAGTTTTTTTTAA
1 TTTTTAATTTTTATTAA
11205753 TTTTTAATTTTTATTAA
1 TTTTTAATTTTTATTAA
11205770 TT
1 TT
11205772 AATCCTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTTAATTTTTATTAA
Found at i:11208724 original size:18 final size:18
Alignment explanation
Indices: 11208701--11208742 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11208691 ACCATAAAGC
11208701 TTCATTCTTCCTTT-TTTT
1 TTCATT-TTCCTTTATTTT
**
11208719 TTCATTTTTTTTTATTTT
1 TTCATTTTCCTTTATTTT
11208737 TTCATT
1 TTCATT
11208743 AATTGTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (18 bp):
TTCATTTTCCTTTATTTT
Found at i:11209091 original size:7 final size:7
Alignment explanation
Indices: 11209075--11209113 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
11209065 CATTCCATCA
11209075 TTTTATTT
1 TTTTA-TT
11209083 TTTTATT
1 TTTTATT
*
11209090 TTTCA-T
1 TTTTATT
11209096 TTTTATT
1 TTTTATT
11209103 TTTTATT
1 TTTTATT
11209110 TTTT
1 TTTT
11209114 TTCATTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 5 0.18
7 18 0.64
8 5 0.18
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:11209098 original size:13 final size:13
Alignment explanation
Indices: 11209082--11209112 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11209072 TCATTTTATT
11209082 TTTTTATTTTTCA
1 TTTTTATTTTTCA
*
11209095 TTTTTATTTTTTA
1 TTTTTATTTTTCA
11209108 TTTTT
1 TTTTT
11209113 TTTCATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTCA
Found at i:11209134 original size:23 final size:22
Alignment explanation
Indices: 11209081--11209135 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
11209071 ATCATTTTAT
* **
11209081 TTTTTTATTTTTCATTTTTATTT
1 TTTTTT-TTTTTCATTATTATAC
11209104 TTTATTTTTTTTCATTATTATCAC
1 TTT-TTTTTTTTCATTATTAT-AC
11209128 TTTTTTTT
1 TTTTTTTT
11209136 CACTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTTTTTTTCATTATTATAC
Found at i:11212433 original size:3 final size:3
Alignment explanation
Indices: 11212427--11212470 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
11212417 GAAAGAAGAA
11212427 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11212471 AAGGAAAATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11214212 original size:19 final size:20
Alignment explanation
Indices: 11214188--11214236 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
11214178 TACAATATAT
**
11214188 ATGATGCAATATGAAAT-AA
1 ATGATGCAATAAAAAATCAA
*
11214207 ATGATGGACATAAAAAATCAA
1 ATGATGCA-ATAAAAAATCAA
11214228 ATGATGCAA
1 ATGATGCAA
11214237 ACAATCAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.53, C:0.08, G:0.16, T:0.22
Consensus pattern (20 bp):
ATGATGCAATAAAAAATCAA
Found at i:11215426 original size:24 final size:22
Alignment explanation
Indices: 11215376--11215427 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
11215366 ATTTTGTTGT
11215376 TTTTTTATCGTGTTGCTGTTGGA
1 TTTTTTATCG-GTTGCTGTTGGA
11215399 -TTTTTATC-GTTGCTGATTGTGTA
1 TTTTTTATCGGTTGCTG-TTG-G-A
11215422 TTTTTT
1 TTTTTT
11215428 TTGTGGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 7 0.28
21 3 0.12
22 9 0.36
23 1 0.04
24 5 0.20
ACGTcount: A:0.10, C:0.08, G:0.21, T:0.62
Consensus pattern (22 bp):
TTTTTTATCGGTTGCTGTTGGA
Found at i:11216119 original size:8 final size:8
Alignment explanation
Indices: 11216106--11216138 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
11216096 AACCTTCCCA
11216106 ATTATTTT
1 ATTATTTT
11216114 ATTATTTT
1 ATTATTTT
11216122 ATTATTTT
1 ATTATTTT
11216130 ATTTATTTT
1 A-TTATTTT
11216139 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
ATTATTTT
Found at i:11220225 original size:17 final size:17
Alignment explanation
Indices: 11220203--11220243 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
11220193 AAATATAGCT
11220203 ATTAGGGCTTTTTAGGC
1 ATTAGGGCTTTTTAGGC
11220220 ATTAGGGCTTTTTAGGC
1 ATTAGGGCTTTTTAGGC
11220237 ATTAGGG
1 ATTAGGG
11220244 GATCGATCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.32, T:0.39
Consensus pattern (17 bp):
ATTAGGGCTTTTTAGGC
Found at i:11227510 original size:35 final size:35
Alignment explanation
Indices: 11227471--11227537 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
11227461 GAATATACTT
* *
11227471 TACCTCCAGATCTAATAAGATTGATTGAATAAGAG
1 TACCTCAAGATCTAATAAAATTGATTGAATAAGAG
11227506 TACCTCAAGATCTAATAAAATTGATTGAATAA
1 TACCTCAAGATCTAATAAAATTGATTGAATAA
11227538 AAGAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (35 bp):
TACCTCAAGATCTAATAAAATTGATTGAATAAGAG
Found at i:11232003 original size:66 final size:66
Alignment explanation
Indices: 11231913--11232042 Score: 161
Period size: 66 Copynumber: 2.0 Consensus size: 66
11231903 GGGTCACTCA
* * * * * * *
11231913 TTTTCGAGCTTAGCTCGGTTCAGGTCATTTTATTTTTTTGACCTACAATTTAATCTCTATCACTT
1 TTTTCGACCTTAGCTCAGTCCAGGTCATTTTATTTCTCTGACCTACAATTCAATCTCAATCACTT
11231978 T
66 T
* ** *
11231979 TTTTCGACCTTGGCTCAGTCCAGGTTGTTTTATTTCTCTGACCTACAGTTCAATCTCAATCACT
1 TTTTCGACCTTAGCTCAGTCCAGGTCATTTTATTTCTCTGACCTACAATTCAATCTCAATCACT
11232043 CATCCTCGAC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (66 bp):
TTTTCGACCTTAGCTCAGTCCAGGTCATTTTATTTCTCTGACCTACAATTCAATCTCAATCACTT
T
Found at i:11232426 original size:9 final size:9
Alignment explanation
Indices: 11232402--11232439 Score: 67
Period size: 9 Copynumber: 4.1 Consensus size: 9
11232392 CGAGCTTTTA
11232402 TATTTTAAT
1 TATTTTAAT
11232411 ATATTTTAAT
1 -TATTTTAAT
11232421 TATTTTAAT
1 TATTTTAAT
11232430 TATTTTAAT
1 TATTTTAAT
11232439 T
1 T
11232440 GATAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TATTTTAAT
Found at i:11233884 original size:17 final size:18
Alignment explanation
Indices: 11233851--11233908 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 18
11233841 CAATTACAGG
11233851 TATTTTTTTTTCCA-TTT
1 TATTTTTTTTTCCATTTT
*
11233868 TATTTTTGTTTT-TATTTT
1 TATTTTT-TTTTCCATTTT
* **
11233886 TA-TTTATTTTAGATTTT
1 TATTTTTTTTTCCATTTT
11233903 TATTTT
1 TATTTT
11233909 ATGAAATGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 4 0.12
17 18 0.53
18 12 0.35
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (18 bp):
TATTTTTTTTTCCATTTT
Found at i:11233891 original size:22 final size:23
Alignment explanation
Indices: 11233866--11233908 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11233856 TTTTTTCCAT
*
11233866 TTTATTTTTG-TTTTTATTTTTA
1 TTTATTTTAGATTTTTATTTTTA
11233888 TTTATTTTAGATTTTTATTTT
1 TTTATTTTAGATTTTTATTTT
11233909 ATGAAATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (23 bp):
TTTATTTTAGATTTTTATTTTTA
Found at i:11235506 original size:66 final size:66
Alignment explanation
Indices: 11235372--11235508 Score: 170
Period size: 66 Copynumber: 2.1 Consensus size: 66
11235362 ATATGAAAAT
* * * * *
11235372 TATTGCATATTTTGAATTGTGATGACGGTTGCTTATTTTGATTGTTGATTAACTATCTTTATCAT
1 TATTACATATTTTGAATTGTGATGACGGTTGCTTATTGTGATTATTGATGAACTATCTTAATCAT
11235437 A
66 A
* * *
11235438 TATTACATATTTTGCATTGTGATGATGGTTG-TGTATTGTGATTATTGATGAACTATGTTAAT-A
1 TATTACATATTTTGAATTGTGATGACGGTTGCT-TATTGTGATTATTGATGAACTATCTTAATCA
11235501 GTA
65 -TA
11235504 TATTA
1 TATTA
11235509 AGATGGCTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
65 2 0.03
66 59 0.97
ACGTcount: A:0.26, C:0.07, G:0.18, T:0.49
Consensus pattern (66 bp):
TATTACATATTTTGAATTGTGATGACGGTTGCTTATTGTGATTATTGATGAACTATCTTAATCAT
A
Found at i:11236431 original size:19 final size:19
Alignment explanation
Indices: 11236403--11236445 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
11236393 TAATTGAAAT
11236403 TTATAGGTTTCTTAAATAA
1 TTATAGGTTTCTTAAATAA
* * *
11236422 TTATATGTTTTTTGAATAA
1 TTATAGGTTTCTTAAATAA
11236441 TTATA
1 TTATA
11236446 AATGCTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.53
Consensus pattern (19 bp):
TTATAGGTTTCTTAAATAA
Found at i:11236505 original size:20 final size:20
Alignment explanation
Indices: 11236466--11236505 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11236456 TTTAAATAGT
*
11236466 TGATGAAATTATAATTTTAC
1 TGATGAAATTATAATATTAC
* *
11236486 TGATGAAATTTTTATATTAC
1 TGATGAAATTATAATATTAC
11236506 CAATGAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (20 bp):
TGATGAAATTATAATATTAC
Found at i:11236525 original size:21 final size:20
Alignment explanation
Indices: 11236488--11236531 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
11236478 AATTTTACTG
* *
11236488 ATGAAATTTTTATATTACCA
1 ATGAAAATTTGATATTACCA
*
11236508 ATGAAAATTTGATCATTATCA
1 ATGAAAATTTGAT-ATTACCA
11236529 ATG
1 ATG
11236532 TACTATAGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (20 bp):
ATGAAAATTTGATATTACCA
Found at i:11238895 original size:17 final size:17
Alignment explanation
Indices: 11238859--11238896 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11238849 GCTATGAGAG
*
11238859 AAAAATATTGATGTTTT
1 AAAAATATTGATGTTAT
11238876 AAAAATATGTGAT-TTAT
1 AAAAATAT-TGATGTTAT
11238893 AAAA
1 AAAA
11238897 CATGTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
AAAAATATTGATGTTAT
Found at i:11243147 original size:26 final size:26
Alignment explanation
Indices: 11243118--11243178 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
11243108 AAAGACTTTT
*
11243118 ATAAGATAAATTTTAGGATATCCTAA
1 ATAAAATAAATTTTAGGATATCCTAA
11243144 ATAAAATAAATTTTAGGATATCCTAA
1 ATAAAATAAATTTTAGGATATCCTAA
11243170 ATAAAATAA
1 ATAAAATAA
11243179 TATGCAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (26 bp):
ATAAAATAAATTTTAGGATATCCTAA
Found at i:11243657 original size:22 final size:22
Alignment explanation
Indices: 11243638--11243697 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
11243628 AAGTTTTAGT
* *
11243638 AAGGCATCAGAATACCTTTAAA
1 AAGGTATCCGAATACCTTTAAA
11243660 AAGGTATCCGAATACCTTTAAA
1 AAGGTATCCGAATACCTTTAAA
11243682 AAGGTATCCGAATACC
1 AAGGTATCCGAATACC
11243698 ACCCTTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (22 bp):
AAGGTATCCGAATACCTTTAAA
Found at i:11244804 original size:3 final size:3
Alignment explanation
Indices: 11244798--11244838 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11244788 ATCATCATAT
11244798 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11244839 TTACTTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11245820 original size:10 final size:9
Alignment explanation
Indices: 11245785--11245819 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11245775 TAATTTTAAA
11245785 TCAA-TTTT
1 TCAATTTTT
11245793 T-AATTTTT
1 TCAATTTTT
11245801 TCAATTTTT
1 TCAATTTTT
11245810 TCAATTTTT
1 TCAATTTTT
11245819 T
1 T
11245820 TTATGTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 2 0.08
8 6 0.24
9 17 0.68
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.69
Consensus pattern (9 bp):
TCAATTTTT
Found at i:11246508 original size:9 final size:9
Alignment explanation
Indices: 11246494--11246521 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
11246484 AGGAGGTGGA
11246494 GGTGCTCCT
1 GGTGCTCCT
11246503 GGTGCTCCT
1 GGTGCTCCT
11246512 GGTGCTCCT
1 GGTGCTCCT
11246521 G
1 G
11246522 CTGGAGGCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (9 bp):
GGTGCTCCT
Found at i:11248253 original size:2 final size:2
Alignment explanation
Indices: 11248248--11248272 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11248238 CATTTTGTTT
11248248 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11248273 TTACAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11249820 original size:25 final size:26
Alignment explanation
Indices: 11249791--11249839 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
11249781 TCTCAATTTC
11249791 TACATGTTATATTCCCA-TTCAAATT
1 TACATGTTATATTCCCATTTCAAATT
* *
11249816 TACATGTTGTATTCTCATTTCAAA
1 TACATGTTATATTCCCATTTCAAA
11249840 ATTCAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (26 bp):
TACATGTTATATTCCCATTTCAAATT
Found at i:11249883 original size:16 final size:17
Alignment explanation
Indices: 11249848--11249888 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
11249838 AAATTCAATT
11249848 ATTTTAAAT--TTATGC
1 ATTTTAAATAGTTATGC
*
11249863 ATTTTGAATAGTTAT-C
1 ATTTTAAATAGTTATGC
11249879 ATTTTAAATA
1 ATTTTAAATA
11249889 TTTTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 8 0.36
16 10 0.45
17 4 0.18
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (17 bp):
ATTTTAAATAGTTATGC
Found at i:11254448 original size:31 final size:31
Alignment explanation
Indices: 11254358--11254493 Score: 136
Period size: 31 Copynumber: 4.5 Consensus size: 31
11254348 TACTTTTCGA
*
11254358 ATTTTAGGAATTTAGTCCTTATAATATTA-T
1 ATTTAAGGAATTTAGTCCTTATAATATTATT
* * *
11254388 A-TAAAGGAATTTAGTCCTTATAGTGTTATT
1 ATTTAAGGAATTTAGTCCTTATAATATTATT
*
11254418 ATTTAAGAAATTTAGCTCC-TATAATATTATT
1 ATTTAAGGAATTTAG-TCCTTATAATATTATT
* * *
11254449 TTTTAAGGAATTTAGT-TTGTATAGTATTATT
1 ATTTAAGGAATTTAGTCCT-TATAATATTATT
* *
11254480 CTTTAAAGAATTTA
1 ATTTAAGGAATTTA
11254494 ATCATTATGC
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
29 23 0.26
30 4 0.05
31 57 0.66
32 3 0.03
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.48
Consensus pattern (31 bp):
ATTTAAGGAATTTAGTCCTTATAATATTATT
Found at i:11254551 original size:29 final size:30
Alignment explanation
Indices: 11254518--11254589 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 30
11254508 TATTGAATTG
11254518 AAATTTTTAATAAATAATACTACAAGG-CT
1 AAATTTTTAATAAATAATACTACAAGGACT
* *
11254547 AAATTCTTT--TAAATAATACTAGAAGGATT
1 AAATT-TTTAATAAATAATACTACAAGGACT
11254576 AAATTTTTAA-AAAT
1 AAATTTTTAATAAAT
11254590 TGAAAAGCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
28 19 0.51
29 15 0.41
30 3 0.08
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (30 bp):
AAATTTTTAATAAATAATACTACAAGGACT
Found at i:11256534 original size:20 final size:19
Alignment explanation
Indices: 11256509--11256576 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
11256499 TTAATTAGAC
*
11256509 TTTGACTTTTGGGTTTAAAG
1 TTTGACTTTCGGGTTT-AAG
**
11256529 TTTGACTTTCAAGTTTAAG
1 TTTGACTTTCGGGTTTAAG
* *
11256548 ATTTGACTTTGGGGTTTAGG
1 -TTTGACTTTCGGGTTTAAG
11256568 TTTGACTTT
1 TTTGACTTT
11256577 AAAATTTAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 12 0.30
20 28 0.70
ACGTcount: A:0.19, C:0.07, G:0.24, T:0.50
Consensus pattern (19 bp):
TTTGACTTTCGGGTTTAAG
Found at i:11256571 original size:39 final size:40
Alignment explanation
Indices: 11256509--11256591 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 40
11256499 TTAATTAGAC
* * *
11256509 TTTGACTTTTGGGTTTAAAGTTTGACTTTCAAGTTTAAGA
1 TTTGACTTTGGGGTTTAAAGTTTGACTTTAAAATTTAAGA
* *
11256549 TTTGACTTTGGGGTTT-AGGTTTGACTTTAAAATTTAGGA
1 TTTGACTTTGGGGTTTAAAGTTTGACTTTAAAATTTAAGA
11256588 TTTG
1 TTTG
11256592 GGTTTAAGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
39 23 0.61
40 15 0.39
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (40 bp):
TTTGACTTTGGGGTTTAAAGTTTGACTTTAAAATTTAAGA
Found at i:11257929 original size:36 final size:36
Alignment explanation
Indices: 11257888--11257956 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
11257878 TAAAAATTGA
* *
11257888 AAGGGATTATTCAAGACTTTTTTTGTCACAAACATG
1 AAGGGATTATTCAAGACATTTTTTGCCACAAACATG
* *
11257924 AAGGGATTATTGAAGGCATTTTTTGCCACAAAC
1 AAGGGATTATTCAAGACATTTTTTGCCACAAAC
11257957 GCCTTGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (36 bp):
AAGGGATTATTCAAGACATTTTTTGCCACAAACATG
Found at i:11259453 original size:19 final size:19
Alignment explanation
Indices: 11259429--11259502 Score: 94
Period size: 19 Copynumber: 3.7 Consensus size: 19
11259419 TAATAAGGTT
*
11259429 TATATAATTGTTTAGATTA
1 TATATAATTGTTTATATTA
*
11259448 TATATAATTGTTTATATATTG
1 TATATAATTG-TT-TATATTA
*
11259469 TTTATATATTGTTTATATTA
1 TATATA-ATTGTTTATATTA
11259489 TATATAATTGTTTA
1 TATATAATTGTTTA
11259503 CATTGTAGCG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
19 18 0.38
20 13 0.28
21 12 0.26
22 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TATATAATTGTTTATATTA
Found at i:11259470 original size:11 final size:11
Alignment explanation
Indices: 11259448--11259486 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
11259438 GTTTAGATTA
11259448 TATATAATTGTT
1 TATAT-ATTGTT
11259460 TATATATTGTT
1 TATATATTGTT
11259471 TATATATTGTT
1 TATATATTGTT
11259482 TATAT
1 TATAT
11259487 TATATATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 22 0.81
12 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (11 bp):
TATATATTGTT
Found at i:11261397 original size:55 final size:55
Alignment explanation
Indices: 11261282--11261407 Score: 128
Period size: 55 Copynumber: 2.3 Consensus size: 55
11261272 TTAACTGTAG
* * * *
11261282 GTATAGGTGAAAAAAATTAAAACATATAAATCTATATTGATGAGCGCTAGCCATCG
1 GTATAAGT-AAAAAAATTAAAACATACAAATCTATATGGATGAGCGCTAGCCATCA
* * * ** *
11261338 GTATAAGTAAGAAAATTAAAGCATGCAAATCTATATGGATGAGCTTTAAG-CATTA
1 GTATAAGTAAAAAAATTAAAACATACAAATCTATATGGATGAGCGCT-AGCCATCA
*
11261393 GTATAGGTAAAAAAA
1 GTATAAGTAAAAAAA
11261408 ATTACAAGTC
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
55 48 0.84
56 9 0.16
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (55 bp):
GTATAAGTAAAAAAATTAAAACATACAAATCTATATGGATGAGCGCTAGCCATCA
Found at i:11264418 original size:19 final size:19
Alignment explanation
Indices: 11264370--11264419 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
11264360 CGCAAGAAAG
**
11264370 AAAAAAGCAAAAAAACATG
1 AAAAAAGCAAAAAAACAAA
11264389 AAAAAAGCAAAAAAA-AAA
1 AAAAAAGCAAAAAAACAAA
11264407 AAAAAAGCCAAAA
1 AAAAAAG-CAAAA
11264420 TGGCTTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.80, C:0.10, G:0.08, T:0.02
Consensus pattern (19 bp):
AAAAAAGCAAAAAAACAAA
Found at i:11266810 original size:20 final size:20
Alignment explanation
Indices: 11266787--11266833 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
11266777 CATTTCAATC
*
11266787 TTTTCTTTT-GTTTTTCTCTT
1 TTTTCTTTTCATTTTT-TCTT
11266807 TTTT-TTTTCCATTTTTTCTT
1 TTTTCTTTT-CATTTTTTCTT
11266827 TTTTCTT
1 TTTTCTT
11266834 CTTTCTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 12 0.52
21 7 0.30
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTCTTTTCATTTTTTCTT
Found at i:11266838 original size:14 final size:14
Alignment explanation
Indices: 11266797--11266861 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
11266787 TTTTCTTTTG
*
11266797 TTTTTC-TCTTTTT
1 TTTTTCTTCTTTCT
*
11266810 TTTTTCCATTTTTTCT
1 TTTTT-C-TTCTTTCT
11266826 TTTTTCTTCTTTCT
1 TTTTTCTTCTTTCT
* *
11266840 TTCATT-TTCTTTCC
1 TT-TTTCTTCTTTCT
11266854 TTTTTCTT
1 TTTTTCTT
11266862 ATATTCTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
13 7 0.17
14 21 0.51
15 3 0.07
16 10 0.24
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTCTTCTTTCT
Found at i:11266848 original size:33 final size:35
Alignment explanation
Indices: 11266773--11266848 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 35
11266763 TATTTTTTTC
*
11266773 CTTTCA-TTTCAATCTTTTCTTTTGTTTTTCTCTT
1 CTTTCATTTTCAATCTTTTCTTTTGTTCTTCTCTT
* * *
11266807 -TTT-TTTTTCCATTTTTTCTTTT-TTCTTCT-TT
1 CTTTCATTTTCAATCTTTTCTTTTGTTCTTCTCTT
11266838 CTTTCATTTTC
1 CTTTCATTTTC
11266849 TTTCCTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
31 2 0.06
32 9 0.26
33 23 0.68
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.72
Consensus pattern (35 bp):
CTTTCATTTTCAATCTTTTCTTTTGTTCTTCTCTT
Found at i:11266858 original size:36 final size:37
Alignment explanation
Indices: 11266807--11266883 Score: 88
Period size: 35 Copynumber: 2.1 Consensus size: 37
11266797 TTTTTCTCTT
* * *
11266807 TTTTTTTTCCATTTTTTCTT-TTTTCTTCTTTCTTTCA-
1 TTTTCTTTCCA-TTTTTCTTATATTCTTATTT-TTTCAC
11266844 TTTTCTTTCC-TTTTTCTTATATTCTTATTTTTTCAC
1 TTTTCTTTCCATTTTTCTTATATTCTTATTTTTTCAC
11266880 TTTT
1 TTTT
11266884 TTTTTTGAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 13 0.37
36 13 0.37
37 9 0.26
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (37 bp):
TTTTCTTTCCATTTTTCTTATATTCTTATTTTTTCAC
Found at i:11266877 original size:25 final size:26
Alignment explanation
Indices: 11266798--11266884 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 26
11266788 TTTCTTTTGT
* * *
11266798 TTTTCTCTTTTTTTTTTCCATTTTTTCT
1 TTTT-TCTTATTTCTTT-CATTTTTTCC
*
11266826 TTTTTCTTCTTTCTTTCATTTTCTTTCC
1 TTTTTCTTATTTCTTTCA-TTT-TTTCC
11266854 TTTTTCTTATATTC-TT-ATTTTTTCAC
1 TTTTTCTTAT-TTCTTTCATTTTTTC-C
11266880 TTTTT
1 TTTTT
11266885 TTTTTGAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
25 4 0.08
26 11 0.22
27 14 0.27
28 19 0.37
29 3 0.06
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTTCTTATTTCTTTCATTTTTTCC
Found at i:11267102 original size:15 final size:16
Alignment explanation
Indices: 11267072--11267105 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11267062 ACAATCAAAA
*
11267072 TTTGTCTTTATTTATT
1 TTTGCCTTTATTTATT
11267088 TTTGCCTTT-TTTATT
1 TTTGCCTTTATTTATT
11267103 TTT
1 TTT
11267106 ATTTTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (16 bp):
TTTGCCTTTATTTATT
Found at i:11268584 original size:198 final size:200
Alignment explanation
Indices: 11268238--11268640 Score: 605
Period size: 198 Copynumber: 2.0 Consensus size: 200
11268228 TCATTGGCAT
* *
11268238 AGGAGTGAGATATTGGTTTTTTATCAATAAATGAAGAGATCAGTAACATGCATTAGCAATTTTTC
1 AGGAGTGAGATATTGGTTTTTTATCAACAAAGGAAGAGATCAGTAACATGCATTAGCAATTTTTC
*
11268303 ATGATTGTTTTATGGTATTTTTTTTATTTCCCATTGGTTTATTGGTATCTTTAAATGCTGATCCA
66 ATGAGTGTTTTAT-GTATTTTTTTTATTTCCCATTGGTTTATTGGTATCTTTAAATGCTGATCCA
* * ** * **
11268368 AAAGTAGGGACAATGTTTCCAATAGTCACTTGAGAAAA-ATTTTTTCTTGAGGGACAAGTTAGTA
130 AAAGCAGGAACAATGTTTCCAATAGTCACTTGAGAAAAGAAATTTGCTTGAAAGACAAGTTAGTA
11268432 AAGGTA
195 AAGGTA
* * *
11268438 AGGAGTGAGATATTGGTTTTTTATCAGCAAAGGAAGTGATCAGTAACGTGCATTAGCAATTTTTC
1 AGGAGTGAGATATTGGTTTTTTATCAACAAAGGAAGAGATCAGTAACATGCATTAGCAATTTTTC
* *
11268503 ATGAGTGTTTT-T-TTTTTTTTTTAATTTCCCTTTGGTTTATTGGTATCTTTAAATGCTGATCCA
66 ATGAGTGTTTTATGTATTTTTTTT-ATTTCCCATTGGTTTATTGGTATCTTTAAATGCTGATCCA
* * *
11268566 AAAGCAGGAACGATGTTTCCAATAGTCACTTGAGAAAAGAAATTTGCTTGAAAGCCAAGTTGGTA
130 AAAGCAGGAACAATGTTTCCAATAGTCACTTGAGAAAAGAAATTTGCTTGAAAGACAAGTTAGTA
11268631 AAGGTA
195 AAGGTA
11268637 AGGA
1 AGGA
11268641 TTTTGAGAGA
Statistics
Matches: 183, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
197 9 0.05
198 74 0.40
199 30 0.16
200 70 0.38
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (200 bp):
AGGAGTGAGATATTGGTTTTTTATCAACAAAGGAAGAGATCAGTAACATGCATTAGCAATTTTTC
ATGAGTGTTTTATGTATTTTTTTTATTTCCCATTGGTTTATTGGTATCTTTAAATGCTGATCCAA
AAGCAGGAACAATGTTTCCAATAGTCACTTGAGAAAAGAAATTTGCTTGAAAGACAAGTTAGTAA
AGGTA
Found at i:11272283 original size:19 final size:18
Alignment explanation
Indices: 11272253--11272348 Score: 71
Period size: 19 Copynumber: 5.6 Consensus size: 18
11272243 TAAGGTCTAA
11272253 GGTTTGGGTTTGATTTAG
1 GGTTTGGGTTTGATTTAG
* *
11272271 GGTTTGAGGTTTGGTTTGG
1 GGTTTG-GGTTTGATTTAG
11272290 GGTTTAGGGTTT-AGTTT-G
1 GGTTT-GGGTTTGA-TTTAG
*
11272308 GGGTTGGGTTT-A---A-
1 GGTTTGGGTTTGATTTAG
* *
11272321 GGTTTGGATTTGATTTAA
1 GGTTTGGGTTTGATTTAG
11272339 GGTTTGGGTT
1 GGTTTGGGTT
11272349 CAATTTAAGG
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
13 9 0.15
14 1 0.02
17 8 0.13
18 20 0.32
19 23 0.37
20 1 0.02
ACGTcount: A:0.11, C:0.00, G:0.41, T:0.48
Consensus pattern (18 bp):
GGTTTGGGTTTGATTTAG
Found at i:11272354 original size:18 final size:18
Alignment explanation
Indices: 11272316--11272361 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
11272306 TGGGGTTGGG
**
11272316 TTTAAGGTTTGGATTTGA
1 TTTAAGGTTTGGATTCAA
*
11272334 TTTAAGGTTTGGGTTCAA
1 TTTAAGGTTTGGATTCAA
11272352 TTTAAGGTTT
1 TTTAAGGTTT
11272362 AGTTTAGGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.22, C:0.02, G:0.26, T:0.50
Consensus pattern (18 bp):
TTTAAGGTTTGGATTCAA
Found at i:11272380 original size:30 final size:30
Alignment explanation
Indices: 11272334--11272396 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11272324 TTGGATTTGA
*
11272334 TTTAAGGTTTGGGTTCAATTTAAGGTTTAG
1 TTTAAGGTTTGAGTTCAATTTAAGGTTTAG
* *
11272364 TTTAGGGTTTGAGTTCAATTTAGGGTTTAG
1 TTTAAGGTTTGAGTTCAATTTAAGGTTTAG
11272394 TTT
1 TTT
11272397 GGCTTAGGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.03, G:0.27, T:0.49
Consensus pattern (30 bp):
TTTAAGGTTTGAGTTCAATTTAAGGTTTAG
Found at i:11272460 original size:19 final size:19
Alignment explanation
Indices: 11272404--11272465 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
11272394 TTTGGCTTAG
* **
11272404 GGTTTAGGGTTTGGGAATT
1 GGTTTGGGGTTTGGGGTTT
* ***
11272423 GTTTTGGGGTTTAAAGTTT
1 GGTTTGGGGTTTGGGGTTT
11272442 GGTTTGGGGTTTGGGGTTT
1 GGTTTGGGGTTTGGGGTTT
11272461 GGTTT
1 GGTTT
11272466 AGGTTTTAAG
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.10, C:0.00, G:0.42, T:0.48
Consensus pattern (19 bp):
GGTTTGGGGTTTGGGGTTT
Found at i:11272596 original size:33 final size:30
Alignment explanation
Indices: 11272553--11272612 Score: 84
Period size: 33 Copynumber: 1.9 Consensus size: 30
11272543 TCTTTTAGGA
*
11272553 TTTAAGGTTTGGTTTAAGGTTTAGTGTATGGGG
1 TTTAAAGTTTGGTTT--GGTTTAGT-TATGGGG
11272586 TTTAAAGTTTGGTTTGGTTTAGTTATG
1 TTTAAAGTTTGGTTTGGTTTAGTTATG
11272613 ATTGTTGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
33 14 0.54
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (30 bp):
TTTAAAGTTTGGTTTGGTTTAGTTATGGGG
Found at i:11274261 original size:145 final size:144
Alignment explanation
Indices: 11274044--11274443 Score: 446
Period size: 145 Copynumber: 2.8 Consensus size: 144
11274034 ATGAAAAATC
* * * ** ***
11274044 AACATCGAGAAGGTCAAATTATGAGAATATCCTTAAAGGTTATTTTGATAATTTTAACCCTTCCG
1 AACATCGAGAAAGTCAAATTACGAAAATATCCTTAAAGGGCATTTTGATAATTTTAACCCTTTAA
* * * * ****
11274109 AGCTGTGATCAAGGTTTTCAATG-ATTCAAAAATCATGAAATAATATCAAATTGTGATCTAGAGA
66 AGGTGTGATCAAGGTTTTTAATGCATT-AAAATTTATGAAATAATATCAAAGCACGATCTAGAGA
*
11274173 TTTTCGCAAAAAAATT
130 TTTTCGC-AAAAAACT
* * * * *
11274189 GACATCGAGAAAGTTAATTTACGAAAATA-CCTTTAAAGGGCATTTTGGTAATTTTTACCCTTTA
1 AACATCGAGAAAGTCAAATTACGAAAATATCC-TTAAAGGGCATTTTGATAATTTTAACCCTTTA
* * *
11274253 AAGGTGTGATCAAGGTTTTTGATGCATTAAAATTTATGAAATAACATCAAAGCACGATCTAGAGC
65 AAGGTGTGATCAAGGTTTTTAATGCATTAAAATTTATGAAATAATATCAAAGCACGATCTAGAGA
11274318 TTTTCGCAAAAAACT
130 TTTTCGCAAAAAACT
** * * * * *
11274333 AAC-TTTAGAAAGATCAAATTACGAAAAAATCCATAAAAGGCATTTTGATAATTTCAACCCTTTT
1 AACATCGAGAAAG-TCAAATTACGAAAATATCCTTAAAGGGCATTTTGATAATTTTAACCCTTTA
*
11274397 AAGGTGTGATCAGGGTTTTTAATGCATTAAAATTTATGAAATAATAT
65 AAGGTGTGATCAAGGTTTTTAATGCATTAAAATTTATGAAATAATAT
11274444 TAAAACTTGT
Statistics
Matches: 211, Mismatches: 40, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
143 7 0.03
144 94 0.45
145 107 0.51
146 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (144 bp):
AACATCGAGAAAGTCAAATTACGAAAATATCCTTAAAGGGCATTTTGATAATTTTAACCCTTTAA
AGGTGTGATCAAGGTTTTTAATGCATTAAAATTTATGAAATAATATCAAAGCACGATCTAGAGAT
TTTCGCAAAAAACT
Found at i:11274458 original size:144 final size:145
Alignment explanation
Indices: 11274044--11274459 Score: 398
Period size: 144 Copynumber: 2.9 Consensus size: 145
11274034 ATGAAAAATC
* * * * * *
11274044 AACATCGAGAAGGTCAAATTATGAGAATATCCT-T-AAAGGTTATTTTGATAATTTTAACCCTTC
1 AACATCGAGAAAGTCAAATTACGA-AAAAACCTATAAAAGG-CATTTTGATAATTTTAACCCTTT
** * * * * *
11274107 CGAGCTGTGATCAAGGTTTTCAATG-ATTCAAAAATCATGAAATAATA-TCAAA-TTGTGATCTA
64 AAAGGTGTGATCAAGGTTTTTAATGCATT-AAAATTTATGAAATAATATTAAAACTTGT--TCTA
*
11274169 GAGATTTTCGCAAAAAAATT
126 GAGATTTTCGCAAAAAAACT
* * * * * * * *
11274189 GACATCGAGAAAGTTAATTTACGAAAATACCTTTAAAGGGCATTTTGGTAATTTTTACCCTTTAA
1 AACATCGAGAAAGTCAAATTACGAAAAAACCTATAAAAGGCATTTTGATAATTTTAACCCTTTAA
* * * * ** * *
11274254 AGGTGTGATCAAGGTTTTTGATGCATTAAAATTTATGAAATAACATCAAAGCACGATCTAGAGCT
66 AGGTGTGATCAAGGTTTTTAATGCATTAAAATTTATGAAATAATATTAAAACTTGTTCTAGAGAT
11274319 TTTCGC-AAAAAACT
131 TTTCGCAAAAAAACT
** *
11274333 AAC-TTTAGAAAGATCAAATTACGAAAAAATCC-ATAAAAGGCATTTTGATAATTTCAACCCTTT
1 AACATCGAGAAAG-TCAAATTACGAAAAAA-CCTATAAAAGGCATTTTGATAATTTTAACCCTTT
* *
11274396 TAAGGTGTGATCAGGGTTTTTAATGCATTAAAATTTATGAAATAATATTAAAACTTGTTCTAGA
64 AAAGGTGTGATCAAGGTTTTTAATGCATTAAAATTTATGAAATAATATTAAAACTTGTTCTAGA
11274460 ACTTATCACT
Statistics
Matches: 215, Mismatches: 49, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
143 7 0.03
144 108 0.50
145 90 0.42
146 9 0.04
147 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (145 bp):
AACATCGAGAAAGTCAAATTACGAAAAAACCTATAAAAGGCATTTTGATAATTTTAACCCTTTAA
AGGTGTGATCAAGGTTTTTAATGCATTAAAATTTATGAAATAATATTAAAACTTGTTCTAGAGAT
TTTCGCAAAAAAACT
Found at i:11274530 original size:144 final size:143
Alignment explanation
Indices: 11274222--11274504 Score: 354
Period size: 144 Copynumber: 2.0 Consensus size: 143
11274212 AAAATACCTT
* ** *
11274222 TAAAGGGCATTTTGGTAATTTTTACCCTTTAAAGGTGTGATCAAGGTTTTTGATGCATTAAAATT
1 TAAAAGGCATTTTGGTAATTTCAACCCTTTAAAGGTGTGATCAAGGTTTTTAATGCATTAAAATT
* * * * * *
11274287 TATGAAATAACATCAAAGCACGATCTAGAGCTTTTCGCAAAAAACTAACTTTAGAAAGATCAAAT
66 TATGAAATAACATCAAAACACGATCTAGAACTTATCACAAAAAACGAACTTAAGAAAGATCAAAT
11274352 TACGAAAAAATCCA
131 TAC-AAAAAATCCA
* * *
11274366 TAAAAGGCATTTTGATAATTTCAACCCTTTTAAGGTGTGATCAGGGTTTTTAATGCATTAAAATT
1 TAAAAGGCATTTTGGTAATTTCAACCCTTTAAAGGTGTGATCAAGGTTTTTAATGCATTAAAATT
* * ** * * *
11274431 TATGAAATAATATTAAAACTTGTTCTAGAACTTATCACTAAAAATCGACCTTAAG-AAGATCAAA
66 TATGAAATAACATCAAAACACGATCTAGAACTTATCAC-AAAAAACGAACTTAAGAAAGATCAAA
11274495 TTA-AAAAAAT
130 TTACAAAAAAT
11274505 ACTTCTATAT
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
142 7 0.06
144 99 0.84
145 12 0.10
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.33
Consensus pattern (143 bp):
TAAAAGGCATTTTGGTAATTTCAACCCTTTAAAGGTGTGATCAAGGTTTTTAATGCATTAAAATT
TATGAAATAACATCAAAACACGATCTAGAACTTATCACAAAAAACGAACTTAAGAAAGATCAAAT
TACAAAAAATCCA
Found at i:11276452 original size:20 final size:20
Alignment explanation
Indices: 11276427--11276478 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
11276417 TTTAGGTTTA
11276427 ACTTTCGGGTTTAGAAATTG
1 ACTTTCGGGTTTAGAAATTG
* * * *
11276447 ACTTTCAGATTTAGGACTTG
1 ACTTTCGGGTTTAGAAATTG
*
11276467 ACTTTGGGGTTT
1 ACTTTCGGGTTT
11276479 GGAGTTTGAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (20 bp):
ACTTTCGGGTTTAGAAATTG
Found at i:11276537 original size:19 final size:20
Alignment explanation
Indices: 11276482--11276583 Score: 93
Period size: 20 Copynumber: 5.2 Consensus size: 20
11276472 GGGGTTTGGA
*
11276482 GTTTGACTTTAATG-TTTAAG
1 GTTTGACTTT-ATGATTTAGG
* * *
11276502 GTTTAACTTT-GGGTTTAGG
1 GTTTGACTTTATGATTTAGG
* * *
11276521 GTTTGAATTT-TGTTTTAAG
1 GTTTGACTTTATGATTTAGG
* *
11276540 GTTTGACTTTAAGACTTAGG
1 GTTTGACTTTATGATTTAGG
11276560 GTTTGACTTTATGATTTAGG
1 GTTTGACTTTATGATTTAGG
11276580 GTTT
1 GTTT
11276584 AATGAGAAAA
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
18 1 0.02
19 28 0.43
20 36 0.55
ACGTcount: A:0.21, C:0.05, G:0.25, T:0.50
Consensus pattern (20 bp):
GTTTGACTTTATGATTTAGG
Found at i:11277424 original size:56 final size:56
Alignment explanation
Indices: 11277346--11277457 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
11277336 AAAGAAAAAA
* *
11277346 CAACATAAAATAGAAGTAATTGTAGC-CAGAAAACTAGACAAAAACA-TAAAAGAAAT
1 CAACATAAAATAAAAGTAATTGT-GCTAAGAAAACTAGACAAAAA-AGTAAAAGAAAT
*
11277402 CAACATGAAATAAAAGTAATTGTGCTAAGAAAACTAGACAAAAAAGTAAAAGAAAT
1 CAACATAAAATAAAAGTAATTGTGCTAAGAAAACTAGACAAAAAAGTAAAAGAAAT
11277458 ATTTTTCAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
55 3 0.06
56 48 0.94
ACGTcount: A:0.59, C:0.11, G:0.13, T:0.17
Consensus pattern (56 bp):
CAACATAAAATAAAAGTAATTGTGCTAAGAAAACTAGACAAAAAAGTAAAAGAAAT
Found at i:11280332 original size:34 final size:34
Alignment explanation
Indices: 11280252--11280334 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
11280242 TTTTACTACG
11280252 GTGACACATGAATAACACGTGACATTCATAATAT
1 GTGACACATGAATAACACGTGACATTCATAATAT
* * * * *
11280286 ATAACACATGAATAATATGTGACAATT-TTAATAT
1 GTGACACATGAATAACACGTGAC-ATTCATAATAT
*
11280320 GTGACACGTGAATAA
1 GTGACACATGAATAA
11280335 ATTGTTATCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 37 0.93
35 3 0.08
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.29
Consensus pattern (34 bp):
GTGACACATGAATAACACGTGACATTCATAATAT
Found at i:11281727 original size:24 final size:23
Alignment explanation
Indices: 11281700--11281757 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
11281690 AATTAAGATT
* *
11281700 TAAATAATAATTTTATTAA-TACAA
1 TAAATAATAATTATA-AAATTA-AA
11281724 TAAATATATAATTATAAAATTAAA
1 TAAATA-ATAATTATAAAATTAAA
11281748 TAAATAATAA
1 TAAATAATAA
11281758 AATATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 10 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATAATAATTATAAAATTAAA
Found at i:11291874 original size:238 final size:237
Alignment explanation
Indices: 11290865--11292184 Score: 1297
Period size: 238 Copynumber: 5.6 Consensus size: 237
11290855 AATACCTTTC
* * * * * * *
11290865 ATATTCCACTACT--AATTTTAAGATGGTTATTGAAGGCATTTATTCTAGAAAAATGCCCTAACT
1 ATATTTCACTACTAAAATTTTAAGACGGTTAGTGAAGGCGTTTATTCCA-AAAAATGCCTTCACT
* *
11290928 AATTCGTTATAATTTTTAAAGGAATTTATTGAAGGTATTTTTTGCATTATATGCCTTCAATAATT
65 AATTCGTTATAATTTTTGAAGAAATTTATTGAAGGTATTTTTTGCATTATATGCCTTCAATAATT
* * * ** * *
11290993 TTTGTAGATAATTATTGAAGGCATTTCTTGAG-AAAAATGCCTTTAATAATTTTCTTTTAAAAAT
130 TTTGTAGATAATTATTGAAAGCGTTTCTTAAGAAAAAACACCTTCAATAATTTCCTTTTAAAAAT
* * * *
11291057 TGTTTGAGATTATTAAAGGT-GTCTCTACTAGAAAACA-CCTTCA
195 TATTTGAGATTATTAAAGGTATTTTCTAAT-GAAAA-AGCCTTCA
* * * * * *
11291100 ATATTACACTACTAAAATTGTAAGATGGTTAGTAAATGCGTTTATTCTAAAACAATGCCTTCACT
1 ATATTTCACTACTAAAATTTTAAGACGGTTAGTGAAGGCGTTTATTCCAAAA-AATGCCTTCACT
* * * * * *
11291165 AATTTGTTCTAATTTTTGAA-AGAATTTATTAAAGGTATTTTTTAC-TGAATATGCCTCCAATAA
65 AATTCGTTATAATTTTTGAAGA-AATTTATTGAAGGTATTTTTTGCAT-TATATGCCTTCAATAA
* * * ** **
11291228 TTTTTGTATAGAATTATTG-AAGACGTTT-TTCAA-AATAAATGCCTTCAATAATTTTTTTTTAA
128 TTTTTGTAGATAATTATTGAAAG-CGTTTCTT-AAGAAAAAACACCTTCAATAATTTCCTTTT-A
* * *
11291290 AAAAATATTTG-GAATTATTAAAGGTATTTTCTAATAGAAAATGCTTTCA
190 AAAATTATTTGAG-ATTATTAAAGGTATTTTCTAAT-GAAAAAGCCTTCA
* * * *
11291339 ATATTTCACTACTAAAATTATAAAACGGTTAGTGAAGGCGTTTATTCCAGAAAAATGTCTTTACT
1 ATATTTCACTACTAAAATTTTAAGACGGTTAGTGAAGGCGTTTATTCCA-AAAAATGCCTTCACT
* * * * * *
11291404 AATTTGTTTTAATTTTTGAAAAAATTTATTGAAGGCATTTTTTGC-TGAATACT-TCTTCAATAA
65 AATTCGTTATAATTTTTGAAGAAATTTATTGAAGGTATTTTTTGCAT-TATA-TGCCTTCAATAA
* * * * * * * *****
11291467 -TTTTGTACAAAATTATCGAAGGCATTT-TTAAGAACAAACACCATCAATAATTT-AAAAAAAAA
128 TTTTTGTAGATAATTATTGAAAGCGTTTCTTAAGAAAAAACACCTTCAATAATTTCCTTTTAAAA
* * *
11291529 ATTATTTGGGTTTATTAAAGGCATTTTCTAATAGAAAATA-CCTTCA
193 ATTATTTGAGATTATTAAAGGTATTTTCTAAT-GAAAA-AGCCTTCA
* * *
11291575 ATATTTCACTACTAAAATTTTAAGACAGTTATTGAAGGCTTTTATTCCCAAAAAATGCCTTCACT
1 ATATTTCACTACTAAAATTTTAAGACGGTTAGTGAAGGCGTTTATT-CCAAAAAATGCCTTCACT
* * * * *
11291640 AATTCGTTCTAATTTTTGAAGAAATTTATTAAAGGTGTTTTTTGCATTACATGACCGT-AATAAT
65 AATTCGTTATAATTTTTGAAGAAATTTATTGAAGGTATTTTTTGCATTATATG-CCTTCAATAAT
* * *
11291704 TTTTGTAGATAATTATTGAAAGTGTTTCTTGAGAAAAAAAACCTTCAATAATTTCCTTTTAAAAA
129 TTTTGTAGATAATTATTGAAAGCGTTTCTTAAGAAAAAACACCTTCAATAATTTCCTTTTAAAAA
* *
11291769 TTATTTGAGATTATTAAA-GTATTTTCCAGTGAAAAACGCCTTCA
194 TTATTTGAGATTATTAAAGGTATTTTCTAATGAAAAA-GCCTTCA
* * * * * * *
11291813 ATATTCCACTACTAACATTTTAAGACGGTTATTGAATGTGTTTATTTCATAAAAGTGCCTTCACT
1 ATATTTCACTACTAAAATTTTAAGACGGTTAGTGAAGGCGTTTATTCCA-AAAAATGCCTTCACT
* **
11291878 AATTGGTTATAATTTTTGAA-AGAATTTATTGAAGGCGTTTTTTGCATTATATGCCTTCAATAAT
65 AATTCGTTATAATTTTTGAAGA-AATTTATTGAAGGTATTTTTTGCATTATATGCCTTCAATAAT
* *
11291942 AATCTTTGTAGATAATTATT-AAAGGCATTTCTTAAGAAAAAACACCTTCAATAATTTCTTTTTA
129 --T-TTTGTAGATAATTATTGAAA-GCGTTTCTTAAGAAAAAACACCTTCAATAATTTCCTTTTA
* *
11292006 AAAATT-TTTGAG-TTCATTAAAGGCATCTTCTAGCA-GAAAAAGCCTTCA
190 AAAATTATTTGAGATT-ATTAAAGGTATTTTCTA--ATGAAAAAGCCTTCA
11292054 ATATTTCACTACT-AAATTTGTAAGACGGTTAGTGAAGGCGTTTATTCCAAAAAATGCCTTCACT
1 ATATTTCACTACTAAAATTT-TAAGACGGTTAGTGAAGGCGTTTATTCCAAAAAATGCCTTCACT
* * * * *
11292118 CATTCGTTGTAATTTTTGAAG-AATTTATTGAAGGTATTTTTTGAAAATATACGCCTTCAATAAT
65 AATTCGTTATAATTTTTGAAGAAATTTATTGAAGGTATTTTTTG-CATTATATGCCTTCAATAAT
11292182 TTT
129 TTT
11292185 CTTTTAAAAA
Statistics
Matches: 903, Mismatches: 140, Indels: 82
0.80 0.12 0.07
Matches are distributed among these distances:
235 13 0.01
236 151 0.17
237 180 0.20
238 204 0.23
239 167 0.18
240 74 0.08
241 108 0.12
242 6 0.01
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (237 bp):
ATATTTCACTACTAAAATTTTAAGACGGTTAGTGAAGGCGTTTATTCCAAAAAATGCCTTCACTA
ATTCGTTATAATTTTTGAAGAAATTTATTGAAGGTATTTTTTGCATTATATGCCTTCAATAATTT
TTGTAGATAATTATTGAAAGCGTTTCTTAAGAAAAAACACCTTCAATAATTTCCTTTTAAAAATT
ATTTGAGATTATTAAAGGTATTTTCTAATGAAAAAGCCTTCA
Found at i:11292239 original size:186 final size:186
Alignment explanation
Indices: 11291986--11292408 Score: 554
Period size: 186 Copynumber: 2.3 Consensus size: 186
11291976 AGAAAAAACA
* *
11291986 CCTTCAATAA-TTTCTTTTTAAAAATTTTTGAG-TTCATTAAAGGCATCTTCTAGCAGAAAAAGC
1 CCTTCAATAATTTTC-TTTTAAAAATTTTTGGGATT-ATTAAAGGCATCTTCCAGCAGAAAAAGC
* *
11292049 CTTCAATATTTCACTACTAA-ATTTGTAAGACGGTTAGTGAAGGCGTTTATTCC-AAAAAATGCC
64 CTTCAATATTTCACTACTAATATTT-TAAGACGGTTAGTGAAGGCGTTTATTCCAAAAAAAGGCA
* * *
11292112 TTCACTCATTCGTTGTAATTTTT-GAAGAATTTATTGAAGGTATTTTTTG-AAAATATACG
128 TTCACTAATTCGTTCTAATTTTTAAAAGAATTTATTGAAGGTATTTTTTGCAAAATAT--G
* *
11292171 CCTTCAATAATTTTCTTTTAAAAATTGTTTGGGATTATTAAAGGTATCTTCCAG-TGAAAAACGC
1 CCTTCAATAATTTTCTTTTAAAAATT-TTTGGGATTATTAAAGGCATCTTCCAGCAGAAAAA-GC
*
11292235 CTTCAATATTTTACTACTAATATTTTAAGACGGTTAGTGAAGGCGTTTATTCCAAAAAAAAGGCA
64 CTTCAATATTTCACTACTAATATTTTAAGACGGTTAGTGAAGGCGTTTATTCC-AAAAAAAGGCA
* * * * **
11292300 TTTACTAATTTGTTCTAGTTTTTAAAAGAATTTATTGAAGGTGTTTTTTGCTGAATATG
128 TTCACTAATTCGTTCTAATTTTTAAAAGAATTTATTGAAGGTATTTTTTGCAAAATATG
* *
11292359 CCTTCAATAATTTTATTTGAAAAATTTTTTGGGATTATTAAAGGCATCTT
1 CCTTCAATAATTTTCTTTTAAAAA-TTTTTGGGATTATTAAAGGCATCTT
11292409 TTCATATAAA
Statistics
Matches: 209, Mismatches: 19, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
185 27 0.13
186 74 0.35
187 6 0.03
188 71 0.34
189 26 0.12
190 5 0.02
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (186 bp):
CCTTCAATAATTTTCTTTTAAAAATTTTTGGGATTATTAAAGGCATCTTCCAGCAGAAAAAGCCT
TCAATATTTCACTACTAATATTTTAAGACGGTTAGTGAAGGCGTTTATTCCAAAAAAAGGCATTC
ACTAATTCGTTCTAATTTTTAAAAGAATTTATTGAAGGTATTTTTTGCAAAATATG
Found at i:11293251 original size:28 final size:28
Alignment explanation
Indices: 11293159--11293303 Score: 142
Period size: 28 Copynumber: 5.4 Consensus size: 28
11293149 TTAAATATTA
*
11293159 TGGTTTGCTTAATGGTATTGTGTGATAT
1 TGGTTTGCTAAATGGTATTGTGTGATAT
*
11293187 TGTTTTGCTAAATGGTATTGTGTGATAT
1 TGGTTTGCTAAATGGTATTGTGTGATAT
* * *
11293215 TGTTTTGCTAAATGGTATTATATGATAT
1 TGGTTTGCTAAATGGTATTGTGTGATAT
* * * *
11293243 TGGTATGCTGAATCGTA-TG-GAGA-A-
1 TGGTTTGCTAAATGGTATTGTGTGATAT
* *
11293267 TGGTTTGCTAAATGGTGTT-TCTGA-A-
1 TGGTTTGCTAAATGGTATTGTGTGATAT
11293292 TGGTTTGCTAAA
1 TGGTTTGCTAAA
11293304 GGGTGTTTTT
Statistics
Matches: 98, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
24 13 0.13
25 17 0.17
26 2 0.02
27 1 0.01
28 65 0.66
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (28 bp):
TGGTTTGCTAAATGGTATTGTGTGATAT
Found at i:11293280 original size:12 final size:12
Alignment explanation
Indices: 11293265--11293303 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11293255 TCGTATGGAG
11293265 AATGGTTTGCTA
1 AATGGTTTGCTA
* *
11293277 AATGGTGTTTCTG
1 AATGGT-TTGCTA
11293290 AATGGTTTGCTA
1 AATGGTTTGCTA
11293302 AA
1 AA
11293304 GGGTGTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (12 bp):
AATGGTTTGCTA
Found at i:11293294 original size:25 final size:25
Alignment explanation
Indices: 11293264--11293311 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
11293254 ATCGTATGGA
*
11293264 GAATGGTTTGCTAAATGGTGTTTCT
1 GAATGGTTTGCTAAAGGGTGTTTCT
11293289 GAATGGTTTGCTAAAGGGTGTTT
1 GAATGGTTTGCTAAAGGGTGTTT
11293312 TTGGACACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.21, C:0.06, G:0.31, T:0.42
Consensus pattern (25 bp):
GAATGGTTTGCTAAAGGGTGTTTCT
Found at i:11296548 original size:35 final size:35
Alignment explanation
Indices: 11296497--11296563 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
11296487 TATATAAACC
*
11296497 AAATGTTTTCTGGGCATAAATCTACAACTGACTTT
1 AAATGTTTTCTAGGCATAAATCTACAACTGACTTT
*
11296532 AAATGTTTTTTAGGCATAAATCTACAACTGAC
1 AAATGTTTTCTAGGCATAAATCTACAACTGAC
11296564 ACCACATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (35 bp):
AAATGTTTTCTAGGCATAAATCTACAACTGACTTT
Found at i:11297019 original size:126 final size:124
Alignment explanation
Indices: 11296816--11297109 Score: 286
Period size: 126 Copynumber: 2.3 Consensus size: 124
11296806 TAACAAAATG
** * * *
11296816 TTATTAAAGGCATTTTTAACCCAAACTGCCTTCAATAATCCCACTTAAAAATTTATTGTGTGAAA
1 TTATT-AAGGCATTTTTAACAAAAACTACCTTCAATAATCCCAATTAAAAATTTATTATGTGAAA
** * * *
11296881 TATTAAAAGCATTTTGGGCCAAAAACACCTTTAAGAATCCGTTCTA-AGTTTTTTGTATAGT
65 TATTAAAAGCATTTTCAGCCAAAAACACCTTCAAGAATCCGTTCCATA-TTTTTT-TATAGA
* * * * *
11296942 TTATTGAAGGCATTTTTGACAAAAATTACCTTTAATAATCCTAATTAAAAATTTATTAAT-TGGA
1 TTATT-AAGGCATTTTTAACAAAAACTACCTTCAATAATCCCAATTAAAAATTTATT-ATGTGAA
* * * * * *
11297006 TTATTGAAGGCATTTTCAGTCAAAAATACCTTCAAGAATCCGTTCCATATTTTTTTATGGA
64 ATATTAAAAGCATTTTCAGCCAAAAACACCTTCAAGAATCCGTTCCATATTTTTTTATAGA
* * * *
11297067 TTATTAAGGGCATTTTTAGCAAGAAAATGCCTTGAATAATCCC
1 TTATTAA-GGCATTTTTAACAA-AAACTACCTTCAATAATCCC
11297110 TAACAAAATG
Statistics
Matches: 136, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
124 2 0.01
125 21 0.15
126 111 0.82
127 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (124 bp):
TTATTAAGGCATTTTTAACAAAAACTACCTTCAATAATCCCAATTAAAAATTTATTATGTGAAAT
ATTAAAAGCATTTTCAGCCAAAAACACCTTCAAGAATCCGTTCCATATTTTTTTATAGA
Found at i:11297285 original size:178 final size:178
Alignment explanation
Indices: 11296942--11297285 Score: 432
Period size: 178 Copynumber: 1.9 Consensus size: 178
11296932 TTTGTATAGT
* * *
11296942 TTATTGAAGGCATTTTTGACAAAAATTACCTTTAATAATCCTAATTAAAAATTTATTAATTGGAT
1 TTATTGAAGGCATTTTTGACAAAAACTACCTTCAATAATCCTAACTAAAAATTTATTAATTGGAT
* * * * *
11297007 TATTGAAGGCATTTTCAGTCAAAAATACCTTCAAGAATCCGTTCCATATTTTTTTATGGATTATT
66 TATTAAAGGCATTTTAAGTCAAAAACACCTTCAAGAATCCATTCCATATTTTTTTATAGATTATT
* *
11297072 AAGGGCATTTTTAGCAAGAAAATGCCTTGAATAATCCCTAACAAAATG
131 AAGGGCATTTTTAGCAAGAAAATACCTTCAATAATCCCTAACAAAATG
* * * *
11297120 TTATTGAAGGCATTTTTGACCAAAACTGCCTTCAATAATCTTACCTAAAAATTTATT-ATGTAGG
1 TTATTGAAGGCATTTTTGACAAAAACTACCTTCAATAATCCTAACTAAAAATTTATTAAT-T-GG
*
11297184 A-TATTAAAGGCATTTTAAGTCAAAAACGCCTTCAAGAATCCATTCCA-ACTTTTTTGTATAGAT
64 ATTATTAAAGGCATTTTAAGTCAAAAACACCTTCAAGAATCCATTCCATA-TTTTTT-TATAGAT
*
11297247 TGTTGAA-GGCATTTTT-GACAA-AAACA-ACCTTCAATAATC
127 TATT-AAGGGCATTTTTAG-CAAGAAA-ATACCTTCAATAATC
11297286 TCAACTAAAA
Statistics
Matches: 143, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
177 3 0.02
178 113 0.79
179 25 0.17
180 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (178 bp):
TTATTGAAGGCATTTTTGACAAAAACTACCTTCAATAATCCTAACTAAAAATTTATTAATTGGAT
TATTAAAGGCATTTTAAGTCAAAAACACCTTCAAGAATCCATTCCATATTTTTTTATAGATTATT
AAGGGCATTTTTAGCAAGAAAATACCTTCAATAATCCCTAACAAAATG
Found at i:11300990 original size:20 final size:20
Alignment explanation
Indices: 11300931--11300996 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
11300921 TTTTTGTTTT
*
11300931 TTATATA-AAATTTAT-TAG
1 TTATATATATATTTATATAG
*
11300949 TTATAT-TATATATA-ACTAAG
1 TTATATATATATTTATA-T-AG
11300969 TTATATATATATTTATATAG
1 TTATATATATATTTATATAG
*
11300989 TTGTATAT
1 TTATATAT
11300997 TCATGTATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
18 11 0.29
19 1 0.03
20 17 0.45
21 8 0.21
22 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (20 bp):
TTATATATATATTTATATAG
Found at i:11301274 original size:21 final size:22
Alignment explanation
Indices: 11301224--11301274 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
11301214 TTAATTTTTA
11301224 AAAAATATTTTTTGAAAAATGTT
1 AAAAAT-TTTTTTGAAAAATGTT
* *
11301247 -TACATTTTTTTGAAAAA-GTT
1 AAAAATTTTTTTGAAAAATGTT
11301267 AAAAATTT
1 AAAAATTT
11301275 CTATTATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
20 3 0.13
21 17 0.74
22 3 0.13
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (22 bp):
AAAAATTTTTTTGAAAAATGTT
Found at i:11301371 original size:20 final size:18
Alignment explanation
Indices: 11301346--11301382 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
11301336 GTTTCTTTTC
11301346 AAATATTAATATAATTATTA
1 AAATATTAA-A-AATTATTA
11301366 AAATATTAAAAATTATT
1 AAATATTAAAAATTATT
11301383 TATTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATTAAAAATTATTA
Found at i:11301392 original size:25 final size:25
Alignment explanation
Indices: 11301359--11301426 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 25
11301349 TATTAATATA
11301359 ATTATTAAAATATTAAAAATTATTT
1 ATTATTAAAATATTAAAAATTATTT
* *
11301384 ATTTTTAAAGTATATT-GAAATTATTT
1 ATTATTAAA--ATATTAAAAATTATTT
11301410 ATTATTAAAATTATTAA
1 ATTATTAAAA-TATTAA
11301427 TATTCAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
24 1 0.03
25 12 0.34
26 17 0.49
27 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (25 bp):
ATTATTAAAATATTAAAAATTATTT
Found at i:11301706 original size:17 final size:18
Alignment explanation
Indices: 11301664--11301708 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
11301654 TATTTATTAT
*
11301664 TAAAATAATAT-AAATAC
1 TAAAATTATATAAAATAC
*
11301681 TATAA-TATATAAAATA-
1 TAAAATTATATAAAATAC
11301697 TAAAATTATATA
1 TAAAATTATATA
11301709 CATTTCAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAATTATATAAAATAC
Found at i:11302002 original size:19 final size:17
Alignment explanation
Indices: 11301969--11302006 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
11301959 TTTAATTAAA
11301969 ATTAAATAAAATATTTT
1 ATTAAATAAAATATTTT
11301986 ATTAATATAATAATATTTT
1 ATTAA-ATAA-AATATTTT
11302005 AT
1 AT
11302007 ATCAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAAATAAAATATTTT
Found at i:11302190 original size:164 final size:163
Alignment explanation
Indices: 11301906--11302204 Score: 401
Period size: 164 Copynumber: 1.8 Consensus size: 163
11301896 ATAAAAAAAT
* *
11301906 TAAAATATTTAAAATTAAAAGATCAAAAGACTTTTATGCTAATATTTTAAATTTTTAATTAAAAT
1 TAAAATATTTAAAATTAAAAGATCAAAAGACTTTTATACTAATATTTTAAATTTTTAAATAAAAT
* *
11301971 TAAATAAAATATTTTATTAATATAATAATATTTTATATCAAATCAAATAAAATTTGAATTTAAAA
66 TAAATAAAATATTTTATTAATATAATAATATTTTATAGCAAATCAAATAAAATTTGAACTTAAAA
*
11302036 TATTATATTAGAAGTTTTATTTGATTAGAATTA
131 AATTATATTAGAAGTTTTATTTGATTAGAATTA
* * * * *
11302069 TAAAATATTTAATATTAAAATATTAAAA-A-TTTTAATATTAAT-TTTTTAATTTGTTAAATAAA
1 TAAAATATTTAAAATTAAAAGATCAAAAGACTTTT-ATACTAATATTTTAAATTT-TTAAATAAA
* *
11302131 ATTAAATAAAAATATTATTTATT-ATGTAATAATATTTTA-AGCTAAATCAAATTAAATTTGAAC
64 ATTAAAT-AAAATA-T-TTTATTAATATAATAATATTTTATAGC-AAATCAAATAAAATTTGAAC
11302194 TTAAAAAATTA
125 TTAAAAAATTA
11302205 CATATAAGGT
Statistics
Matches: 118, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
161 13 0.11
162 22 0.19
163 33 0.28
164 44 0.37
165 6 0.05
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (163 bp):
TAAAATATTTAAAATTAAAAGATCAAAAGACTTTTATACTAATATTTTAAATTTTTAAATAAAAT
TAAATAAAATATTTTATTAATATAATAATATTTTATAGCAAATCAAATAAAATTTGAACTTAAAA
AATTATATTAGAAGTTTTATTTGATTAGAATTA
Found at i:11302368 original size:22 final size:22
Alignment explanation
Indices: 11302325--11302373 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
11302315 AATTTTTCTC
* * *
11302325 ATTTTCTATTGATTACTAAATT
1 ATTTTTTATTGATCAATAAATT
*
11302347 ATTTTTTATTGATCAATCAATT
1 ATTTTTTATTGATCAATAAATT
11302369 -TTTTT
1 ATTTTT
11302374 CTACATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (22 bp):
ATTTTTTATTGATCAATAAATT
Found at i:11311426 original size:27 final size:29
Alignment explanation
Indices: 11311369--11311429 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
11311359 AATTGTAGGA
11311369 AAATATTTAATATGATATTTGAACTTCAT
1 AAATATTTAATATGATATTTGAACTTCAT
* * *
11311398 AAATTTTTAATGTGGTATTTGAA-TT-AT
1 AAATATTTAATATGATATTTGAACTTCAT
11311425 AAATA
1 AAATA
11311430 AATTATTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.21
28 2 0.07
29 20 0.71
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (29 bp):
AAATATTTAATATGATATTTGAACTTCAT
Found at i:11314353 original size:11 final size:11
Alignment explanation
Indices: 11314337--11314361 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11314327 CTGTTGAAGG
11314337 AACAAAGATAA
1 AACAAAGATAA
11314348 AACAAAGATAA
1 AACAAAGATAA
11314359 AAC
1 AAC
11314362 GTGTTTTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.12, G:0.08, T:0.08
Consensus pattern (11 bp):
AACAAAGATAA
Found at i:11316739 original size:23 final size:22
Alignment explanation
Indices: 11316705--11316756 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
11316695 ATATTAAATT
*
11316705 TAAAAAATAAGAATACCA-AAA
1 TAAAAAATAAGAATAACAGAAA
*
11316726 TAAAAAAGTAAAGAATAATAGAAA
1 TAAAAAA-T-AAGAATAACAGAAA
11316750 TAAAAAA
1 TAAAAAA
11316757 CTAGTTGGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 7 0.27
22 1 0.04
23 8 0.31
24 10 0.38
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.15
Consensus pattern (22 bp):
TAAAAAATAAGAATAACAGAAA
Found at i:11317357 original size:18 final size:17
Alignment explanation
Indices: 11317331--11317370 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11317321 AATTAAATAT
*
11317331 AAAATATTAAAAAGAGTA
1 AAAAAATTAAAAAGAG-A
*
11317349 AAAAAATTAAATAGAGA
1 AAAAAATTAAAAAGAGA
11317366 AAAAA
1 AAAAA
11317371 GTGGGTCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (17 bp):
AAAAAATTAAAAAGAGA
Found at i:11317596 original size:18 final size:18
Alignment explanation
Indices: 11317556--11317596 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
11317546 TATAATGGAA
* *
11317556 AAAAATTAAAATGAAAGC
1 AAAAATGAAAATGAAAAC
*
11317574 GAAAATGAAAATGAAAAC
1 AAAAATGAAAATGAAAAC
11317592 AAAAA
1 AAAAA
11317597 AAAAAAAGGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.71, C:0.05, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAAATGAAAATGAAAAC
Found at i:11317665 original size:21 final size:19
Alignment explanation
Indices: 11317617--11317665 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
11317607 AAAATTGGGG
**
11317617 AAAATAATGGGTTTCATAA
1 AAAATAATGGGCCTCATAA
11317636 AAAAGTAATGGGCCTCACTTAA
1 AAAA-TAATGGGCCTCA--TAA
11317658 AAAATAAT
1 AAAATAAT
11317666 TTATGATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 4 0.16
20 10 0.40
21 4 0.16
22 7 0.28
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (19 bp):
AAAATAATGGGCCTCATAA
Found at i:11321429 original size:17 final size:17
Alignment explanation
Indices: 11321386--11321429 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
11321376 ATGCAACATT
*
11321386 TATACATAAGATATAAAA
1 TATACA-AAAATATAAAA
* *
11321404 TGTAAAAAAATATAAAA
1 TATACAAAAATATAAAA
11321421 TATACAAAA
1 TATACAAAA
11321430 TAAAATGATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (17 bp):
TATACAAAAATATAAAA
Found at i:11321434 original size:14 final size:15
Alignment explanation
Indices: 11321398--11321445 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
11321388 TACATAAGAT
*
11321398 ATAAAATGTAAAAAAA
1 ATAAAATG-ATAAAAA
*
11321414 TATAAAAT-ATACAAA
1 -ATAAAATGATAAAAA
11321429 ATAAAATGATAAAAA
1 ATAAAATGATAAAAA
11321444 AT
1 AT
11321446 CTTATCAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 7 0.26
15 13 0.48
17 7 0.26
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (15 bp):
ATAAAATGATAAAAA
Found at i:11321822 original size:20 final size:19
Alignment explanation
Indices: 11321787--11321826 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
11321777 AAAGATAACG
11321787 AAAATGAAAATAAAAATAAA
1 AAAATGAAAATAAAAA-AAA
*
11321807 AAAATGAAATTTAAAAAAAA
1 AAAATGAAA-ATAAAAAAAA
11321827 TGGGTCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (19 bp):
AAAATGAAAATAAAAAAAA
Found at i:11322870 original size:9 final size:9
Alignment explanation
Indices: 11322856--11322917 Score: 56
Period size: 9 Copynumber: 6.7 Consensus size: 9
11322846 AAATTTAATT
11322856 TTAATTGAA
1 TTAATTGAA
11322865 TTAATT-AA
1 TTAATTGAA
*
11322873 TTGAATTGAT
1 TT-AATTGAA
*
11322883 TTAATTCAA
1 TTAATTGAA
11322892 TTAATTGATCAA
1 TTAATTG---AA
11322904 TT-ATTGAA
1 TTAATTGAA
11322912 TTAATT
1 TTAATT
11322918 TTAATTGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
8 8 0.19
9 24 0.56
10 3 0.07
11 4 0.09
12 4 0.09
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.48
Consensus pattern (9 bp):
TTAATTGAA
Found at i:11322881 original size:18 final size:18
Alignment explanation
Indices: 11322858--11322925 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
11322848 ATTTAATTTT
11322858 AATTGAATTAATTAATTG
1 AATTGAATTAATTAATTG
*
11322876 AATTGATTTAATTCAATT-
1 AATTGAATTAATT-AATTG
*
11322894 AATTG-ATCAATT-ATTG
1 AATTGAATTAATTAATTG
11322910 AATT-AATT--TTAATTG
1 AATTGAATTAATTAATTG
11322925 A
1 A
11322926 TTATTGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
14 2 0.05
15 8 0.19
16 6 0.14
17 5 0.12
18 17 0.40
19 4 0.10
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (18 bp):
AATTGAATTAATTAATTG
Found at i:11323294 original size:15 final size:15
Alignment explanation
Indices: 11323274--11323304 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11323264 AAAATAAAAT
*
11323274 AATTTAATTAATTTA
1 AATTTAAATAATTTA
11323289 AATTTAAATAATTTA
1 AATTTAAATAATTTA
11323304 A
1 A
11323305 TTCAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTTAAATAATTTA
Found at i:11328308 original size:14 final size:15
Alignment explanation
Indices: 11328291--11328319 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11328281 AAGATTTTAG
11328291 GGTTT-GGGTTTTGA
1 GGTTTGGGGTTTTGA
11328305 GGTTTGGGGTTTTGA
1 GGTTTGGGGTTTTGA
11328320 TTTAAGAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.07, C:0.00, G:0.45, T:0.48
Consensus pattern (15 bp):
GGTTTGGGGTTTTGA
Done.