Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 117 of 126
Found at i:23181379 original size:17 final size:15
Alignment explanation
Indices: 23181345--23181393 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 15
23181335 TAACATACTC
*
23181345 TTTTTTTTTGTTTTT
1 TTTTTTTTTATTTTT
23181360 TTTGTTTTTTATTTTAT
1 TTT-TTTTTTATTTT-T
23181377 TTTTATTTTTATTTTT
1 TTTT-TTTTTATTTTT
23181393 T
1 T
23181394 GAAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.10
16 13 0.43
17 14 0.47
ACGTcount: A:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTATTTTT
Found at i:23181544 original size:43 final size:42
Alignment explanation
Indices: 23181391--23182043 Score: 712
Period size: 42 Copynumber: 15.5 Consensus size: 42
23181381 ATTTTTATTT
* * *
23181391 TTTGAAAAAATAAATAAAGCTCCTCTAAATAGAGGC-TCAATAAC
1 TTTGAAAAAATAAAT--TGCTCCTCTAAATAGAGGCAAC-AGAAC
* * * *
23181435 TTTG-AAAAATAAATTGCTCCTCCAAATAGAGACACCACAAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
* * *
23181476 TTTGAAAAAATAAATTACTCATCTAAATAGAAGCAACAGAAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
* * * *
23181518 TTTTGAAAAAATAAATTGTTCCTCTAAATAAAGACAACAAAAC
1 -TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
* *
23181561 TTTAAAAAAAATAAATTGCTCATCTAAATAGAGGCAACAGAAC
1 TTT-GAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
* * *
23181604 TTTGAAAAAA-AAA-TACTCATCTAAATAAAGGCAACA-AAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
* *
23181643 TTTTGAAAAAATAAATTGCTTCAT-TAAATAGAGGTAACAGAAC
1 -TTTGAAAAAATAAATTGC-TCCTCTAAATAGAGGCAACAGAAC
* * *
23181686 TTTGAAAAAAATAAATTGCTTCTC-ATATAGAGGCAACAAAAC
1 TTTG-AAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
* * * * *
23181728 TATGAAAAAAATAAATTGTTCTTGTAAATAGAGGCAACAAAAC
1 TTTG-AAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
* * *
23181771 TTTGAAATAAAAAAATTACTCCTCTAAATAGAGGTAACAGAAC
1 TTTGAAA-AAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
* * *
23181814 TTAG-AAAAGTAAATTGTTCCTCTAAATAGAGGCAACAGAAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
* * * *
23181855 TTTGAAAAAATAAATTACTCCTCTAAATAAAGGCAATAGTAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
* *
23181897 TTTGAAAAAATAAATTACTCCTCTAAATAAAGGCAACAGAAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
** *
23181939 TTTGAAAAAATAAACCGCTCCTCTAAATAGAGGCAACATAAC
1 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
* * *
23181981 TTTTAAAAAAATAAATTGCTCCTCTAAATAGAGGTAACAAAAC
1 -TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
23182024 TTTTG-AAAAATAAATTGCTC
1 -TTTGAAAAAATAAATTGCTC
23182044 TTGGACAATC
Statistics
Matches: 518, Mismatches: 76, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.01
40 31 0.06
41 63 0.12
42 223 0.43
43 194 0.37
44 4 0.01
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.26
Consensus pattern (42 bp):
TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAGAAC
Found at i:23182438 original size:21 final size:21
Alignment explanation
Indices: 23182406--23182467 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
23182396 GTTTCACATC
* *
23182406 TCAAATATTCTCATTCGAAAT
1 TCAAAGATTCTCATTTGAAAT
* *
23182427 TTAAAGATTCTCATTTAAAAT
1 TCAAAGATTCTCATTTGAAAT
23182448 TCAAAGATTCTCATTTGAAA
1 TCAAAGATTCTCATTTGAAA
23182468 ACTTAAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.39
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:23183430 original size:16 final size:19
Alignment explanation
Indices: 23183409--23183453 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
23183399 CTTTTTCATT
*
23183409 TTTTTTTATTTTTT-TTCA
1 TTTTTTCATTTTTTCTTCA
23183427 TTTTTTCATTTTTTCTTCA
1 TTTTTTCATTTTTTCTTCA
*
23183446 TTCTTTCA
1 TTTTTTCA
23183454 CCCATTATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTCATTTTTTCTTCA
Found at i:23183439 original size:19 final size:20
Alignment explanation
Indices: 23183400--23183453 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
23183390 CTTTTCTCTC
**
23183400 TTTTTCATTTTTTTTTATTT
1 TTTTTCATTTTTTCATATTT
23183420 TTTTTCATTTTTTCAT-TTT
1 TTTTTCATTTTTTCATATTT
* *
23183439 TTCTTCATTCTTTCA
1 TTTTTCATTTTTTCA
23183454 CCCATTATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTCATTTTTTCATATTT
Found at i:23183445 original size:11 final size:10
Alignment explanation
Indices: 23183400--23183447 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
23183390 CTTTTCTCTC
23183400 TTTTTCATTT
1 TTTTTCATTT
*
23183410 TTTTTTATTT
1 TTTTTCATTT
23183420 TTTTTCA--T
1 TTTTTCATTT
23183428 TTTTTCATTT
1 TTTTTCATTT
23183438 TTTCTTCATT
1 TTT-TTCATT
23183448 CTTTCACCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
8 8 0.24
10 19 0.58
11 6 0.18
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:23183808 original size:9 final size:9
Alignment explanation
Indices: 23183796--23183828 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
23183786 TTTTTTTTGC
23183796 TCTTTTTTT
1 TCTTTTTTT
23183805 TCTTTTTTT
1 TCTTTTTTT
23183814 TCTTTTCTTT
1 TCTTTT-TTT
23183824 T-TTTT
1 TCTTTT
23183829 ATGCTAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:23183819 original size:14 final size:13
Alignment explanation
Indices: 23183798--23183828 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
23183788 TTTTTTGCTC
23183798 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
23183811 TTTTCTTTTCTTTT
1 TTTT-TTTTCTTTT
23183825 TTTT
1 TTTT
23183829 ATGCTAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Found at i:23186424 original size:23 final size:23
Alignment explanation
Indices: 23186374--23186425 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
23186364 AATCATAAGC
* * *
23186374 ATGAAAATGATGCATATAATGAA
1 ATGATAATGATGCACAAAATGAA
23186397 ATGATAATGATGCACAAAATGAA
1 ATGATAATGATGCACAAAATGAA
23186420 ATGATA
1 ATGATA
23186426 TGTTGAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.06, G:0.17, T:0.25
Consensus pattern (23 bp):
ATGATAATGATGCACAAAATGAA
Found at i:23187576 original size:57 final size:54
Alignment explanation
Indices: 23187457--23187661 Score: 154
Period size: 57 Copynumber: 3.8 Consensus size: 54
23187447 AAATATATCT
* * * * * * *
23187457 AATTATTTCATCATTTGGGTCAAATTAGAAA-TATTTTATTTTTC-AGAATTTTTA
1 AATT-TTTCACCATTTGGGCCTATTTAGAAATTCTTTTTTTTTTCGA-AATTTCTA
***
23187511 AATTTTTCACCATTTGGGCCTATTTAGAAATTCTTTTTAATATTTTTTTAATTTCTA
1 AATTTTTCACCATTTGGGCCTATTTAGAAATTCTTTTT--T-TTTTCGAAATTTCTA
* * * * *
23187568 AATTTTTCACCATTTTGGTCAATTTA-AAA---ATATTTTTTTCGAAATTTCTA
1 AATTTTTCACCATTTGGGCCTATTTAGAAATTCTTTTTTTTTTCGAAATTTCTA
* *
23187618 AA-TTTTCTACCATTTGGGCTTATTTAGAAATTCTTTTTTATTTC
1 AATTTTTC-ACCATTTGGGCCTATTTAGAAATTCTTTTTTTTTTC
23187662 CTTTTTTTTT
Statistics
Matches: 117, Mismatches: 24, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
49 5 0.04
50 28 0.24
51 4 0.03
53 25 0.21
54 17 0.15
56 4 0.03
57 34 0.29
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (54 bp):
AATTTTTCACCATTTGGGCCTATTTAGAAATTCTTTTTTTTTTCGAAATTTCTA
Found at i:23187643 original size:107 final size:111
Alignment explanation
Indices: 23187457--23187655 Score: 284
Period size: 107 Copynumber: 1.8 Consensus size: 111
23187447 AAATATATCT
* * *
23187457 AATTATTTCATCATTTGGGTCAAATTAGAAATATTTTATTTTTCAGAATTTTTAAATTTTTCACC
1 AATTATTTCACCATTTGGGTCAAATTAGAAATATATTATTTTTCAGAATTTCTAAATTTTTCACC
23187522 ATTTGGGCCTATTTAGAAATTCTTTTTAATATTTTTTTAATTTCTA
66 ATTTGGGCCTATTTAGAAATTCTTTTTAATATTTTTTTAATTTCTA
* *
23187568 AATT-TTTCACCATTTTGGTCAATTTA-AAA-ATATT-TTTTTC-GAAATTTCTAAA-TTTTCTA
1 AATTATTTCACCATTTGGGTCAAATTAGAAATATATTATTTTTCAG-AATTTCTAAATTTTTC-A
*
23187627 CCATTTGGGCTTATTTAGAAATTCTTTTT
64 CCATTTGGGCCTATTTAGAAATTCTTTTT
23187656 TATTTCCTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
106 6 0.08
107 44 0.55
108 4 0.05
109 3 0.04
110 19 0.24
111 4 0.05
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (111 bp):
AATTATTTCACCATTTGGGTCAAATTAGAAATATATTATTTTTCAGAATTTCTAAATTTTTCACC
ATTTGGGCCTATTTAGAAATTCTTTTTAATATTTTTTTAATTTCTA
Found at i:23187851 original size:12 final size:12
Alignment explanation
Indices: 23187834--23187859 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23187824 ATTCCAAAAC
23187834 TTTTATTTTTTA
1 TTTTATTTTTTA
23187846 TTTTATTTTTTA
1 TTTTATTTTTTA
23187858 TT
1 TT
23187860 AAAAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:23190784 original size:16 final size:18
Alignment explanation
Indices: 23190748--23190787 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
23190738 TATGAATTAA
*
23190748 AAAATTTTATATATTTTT
1 AAAATTTTATATATATTT
23190766 AAAATTTT-T-TATATTT
1 AAAATTTTATATATATTT
23190782 AAAATT
1 AAAATT
23190788 ATCAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
17 1 0.05
18 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AAAATTTTATATATATTT
Found at i:23191769 original size:23 final size:25
Alignment explanation
Indices: 23191712--23191773 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
23191702 ATTTTATATA
*
23191712 TTATCAATAAATCAAATAATAAAAAT
1 TTATAAATAAAT-AAATAATAAAAAT
* *
23191738 TTATTAATAAATAAAT-ATAAAATT
1 TTATAAATAAATAAATAATAAAAAT
23191762 TTA-AAATAAATA
1 TTATAAATAAATA
23191774 TGCATAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.24
24 10 0.30
25 4 0.12
26 11 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (25 bp):
TTATAAATAAATAAATAATAAAAAT
Found at i:23191801 original size:54 final size:54
Alignment explanation
Indices: 23191732--23191846 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
23191722 ATCAAATAAT
* *
23191732 AAAAATTTATTAATAAATAAATATAAA-ATTTTAAAATAAATATGCATAAATTAA
1 AAAAATTTATTAATAAATAAATATAAATA-CTTAAAATAAATATACATAAATTAA
* * * *
23191786 AATAATTTATTAATAATTAAATATCAATACTTAAAATAAATATACCTAAATTAA
1 AAAAATTTATTAATAAATAAATATAAATACTTAAAATAAATATACATAAATTAA
23191840 AAAAATT
1 AAAAATT
23191847 ATTTTATTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 52 0.98
55 1 0.02
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (54 bp):
AAAAATTTATTAATAAATAAATATAAATACTTAAAATAAATATACATAAATTAA
Found at i:23191869 original size:58 final size:54
Alignment explanation
Indices: 23191732--23191864 Score: 153
Period size: 54 Copynumber: 2.4 Consensus size: 54
23191722 ATCAAATAAT
* * *
23191732 AAAAATTTATTAATAA-ATAAATAT-AAAATTTTAAAATAAATATGCATAAATTAA
1 AAAAATTTATTAATAATA-AAATATCAATA-CTTAAAATAAATATACATAAATTAA
* * *
23191786 AATAATTTATTAATAATTAAATATCAATACTTAAAATAAATATACCTAAATTAA
1 AAAAATTTATTAATAATAAAATATCAATACTTAAAATAAATATACATAAATTAA
* *
23191840 AAAAATTATTTTATTAATAAAATAT
1 AAAAATT-TATTAATAATAAAATAT
23191865 TATCATTTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
54 49 0.74
55 17 0.26
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.38
Consensus pattern (54 bp):
AAAAATTTATTAATAATAAAATATCAATACTTAAAATAAATATACATAAATTAA
Found at i:23191911 original size:7 final size:7
Alignment explanation
Indices: 23191884--23191959 Score: 57
Period size: 7 Copynumber: 10.9 Consensus size: 7
23191874 ATTTTATAAT
23191884 ATATATA
1 ATATATA
*
23191891 ATTTATA
1 ATATATA
*
23191898 TACATATA
1 -ATATATA
23191906 ATATATA
1 ATATATA
* *
23191913 AAATCTA
1 ATATATA
*
23191920 A-ACTCT-
1 ATA-TATA
*
23191926 ATATACA
1 ATATATA
*
23191933 ATATACA
1 ATATATA
23191940 ATATATA
1 ATATATA
23191947 ATATATA
1 ATATATA
23191954 ATATAT
1 ATATAT
23191960 TCGTAACGCG
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
6 3 0.05
7 48 0.86
8 5 0.09
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (7 bp):
ATATATA
Found at i:23193293 original size:30 final size:30
Alignment explanation
Indices: 23193259--23193318 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
23193249 TTTTAAATAA
*
23193259 TTTTTATTTAAATA-TTAATTTAAATTATAT
1 TTTTTATTTAAATACATAATTT-AATTATAT
*
23193289 TTTTTGTTTAAATACATAATTTAATTATAT
1 TTTTTATTTAAATACATAATTTAATTATAT
23193319 CTAATTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (30 bp):
TTTTTATTTAAATACATAATTTAATTATAT
Found at i:23193342 original size:19 final size:19
Alignment explanation
Indices: 23193315--23193396 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
23193305 TAATTTAATT
*
23193315 ATATCTAATTATATTATTA
1 ATATATAATTATATTATTA
*
23193334 ATATATAATTATATTAATA
1 ATATATAATTATATTATTA
*
23193353 ATATCAT-ATTATGTTATTTAA
1 ATAT-ATAATTATATTA-TT-A
*
23193374 ATATTTAATTA-ATT-TTA
1 ATATATAATTATATTATTA
23193391 A-ATATA
1 ATATATA
23193397 TTAGTTGTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
16 4 0.08
17 2 0.04
18 2 0.04
19 29 0.56
20 6 0.12
21 9 0.17
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.51
Consensus pattern (19 bp):
ATATATAATTATATTATTA
Found at i:23193364 original size:38 final size:40
Alignment explanation
Indices: 23193309--23193384 Score: 95
Period size: 38 Copynumber: 1.9 Consensus size: 40
23193299 AATACATAAT
*
23193309 TTAATTATATCTAATTATATTA-TT-AATATATAATTATA
1 TTAATAATATCTAATTATATTATTTAAATATATAATTATA
* *
23193347 TTAATAATATC-ATATTATGTTATTTAAATATTTAATTA
1 TTAATAATATCTA-ATTATATTATTTAAATATATAATTA
23193385 ATTTTAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 1 0.03
38 18 0.56
39 2 0.06
40 11 0.34
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (40 bp):
TTAATAATATCTAATTATATTATTTAAATATATAATTATA
Found at i:23194306 original size:21 final size:21
Alignment explanation
Indices: 23194280--23194321 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23194270 CTAAATATTT
23194280 TTGAAAATAAACTTGAAGTGG
1 TTGAAAATAAACTTGAAGTGG
* *
23194301 TTGAAAATAAATTTGATGTGG
1 TTGAAAATAAACTTGAAGTGG
23194322 ATAGCCGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.33
Consensus pattern (21 bp):
TTGAAAATAAACTTGAAGTGG
Found at i:23194395 original size:18 final size:16
Alignment explanation
Indices: 23194360--23194410 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 16
23194350 ATTATTAAAT
23194360 AATAATAAAATCAAATAA
1 AATAA-AAAAT-AAATAA
23194378 ATATAAATAAATAAATAA
1 A-ATAAA-AAATAAATAA
23194396 AATAAAATAATAAAT
1 AATAAAA-AATAAAT
23194411 GAGAGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.40
18 9 0.30
19 8 0.27
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AATAAAAAATAAATAA
Found at i:23194405 original size:14 final size:13
Alignment explanation
Indices: 23194363--23194401 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
23194353 ATTAAATAAT
23194363 AATAAAATCAAATA
1 AATAAAAT-AAATA
23194377 AATATAAATAAATA
1 AATA-AAATAAATA
23194391 AATAAAATAAA
1 AATAAAATAAA
23194402 ATAATAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.29
14 13 0.54
15 4 0.17
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAAAATAAATA
Found at i:23194561 original size:16 final size:15
Alignment explanation
Indices: 23194521--23194562 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
23194511 TTTTGAAATA
23194521 TTTATAAAAT-ATTT
1 TTTATAAAATAATTT
* *
23194535 TTAATATAATAATTTT
1 TTTATAAAATAA-TTT
23194551 TTTATAAAATAA
1 TTTATAAAATAA
23194563 AAAATTAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 8 0.36
15 1 0.05
16 13 0.59
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTATAAAATAATTT
Found at i:23204994 original size:20 final size:20
Alignment explanation
Indices: 23204969--23205009 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
23204959 CCTTTGAAGA
23204969 TAAGCTTGTATTGTTCTTGG
1 TAAGCTTGTATTGTTCTTGG
23204989 TAAGCTTGTATTGTTCTTGG
1 TAAGCTTGTATTGTTCTTGG
23205009 T
1 T
23205010 TTTCCTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.24, T:0.51
Consensus pattern (20 bp):
TAAGCTTGTATTGTTCTTGG
Found at i:23212734 original size:26 final size:26
Alignment explanation
Indices: 23212706--23212754 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
23212696 TAAAAAATAA
*
23212706 AAAATATAGGTTTGAAAA-TTTTATT
1 AAAATATAAGTTTGAAAACTTTTATT
23212731 AAAATATAAGTTTGAAAACTTTTA
1 AAAATATAAGTTTGAAAACTTTTA
23212755 ATTTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAATATAAGTTTGAAAACTTTTATT
Found at i:23215234 original size:29 final size:29
Alignment explanation
Indices: 23215172--23215234 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
23215162 GTATTTAAAA
* *
23215172 AATATGTTTATTTTTTATACTTAAAATCT
1 AATATATTTATTTTTTATACTTAAAATAT
* *
23215201 TATATATTTATTTTTTATTACTT-TAATAT
1 AATATATTTATTTTTTA-TACTTAAAATAT
23215230 AATAT
1 AATAT
23215235 TGTTATAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (29 bp):
AATATATTTATTTTTTATACTTAAAATAT
Found at i:23216526 original size:18 final size:18
Alignment explanation
Indices: 23216503--23216627 Score: 96
Period size: 18 Copynumber: 6.9 Consensus size: 18
23216493 ATGGTTATTA
23216503 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
*
23216521 TCCACCTCCTCAAATATATCC
1 TCCA---CCTCAAATGTATCC
*
23216542 TCCACCTCAAATGTATCAG
1 TCCACCTCAAATGTATC-C
* * *
23216561 T-TACCACAAATGTACCC
1 TCCACCTCAAATGTATCC
* *
23216578 TCCACCACAAATGTATCA
1 TCCACCTCAAATGTATCC
* *
23216596 T---CCTCAAATATATCT
1 TCCACCTCAAATGTATCC
*
23216611 TCTACCTCAAATGTATC
1 TCCACCTCAAATGTATC
23216628 AAGAACAAAG
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
15 12 0.14
17 1 0.01
18 54 0.64
19 1 0.01
21 17 0.20
ACGTcount: A:0.32, C:0.34, G:0.05, T:0.29
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:23216533 original size:21 final size:21
Alignment explanation
Indices: 23216507--23216549 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
23216497 TTATTATCCA
*
23216507 CCTCAAATGTATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
23216528 CCTCAAATATATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
23216549 C
1 C
23216550 AAATGTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.44, G:0.02, T:0.28
Consensus pattern (21 bp):
CCTCAAATATATCCTCCACCT
Found at i:23216571 original size:36 final size:33
Alignment explanation
Indices: 23216531--23216628 Score: 115
Period size: 33 Copynumber: 2.9 Consensus size: 33
23216521 TCCACCTCCT
23216531 CAAATATATCCTCCACCTCAAATGTATCAGTTACCA
1 CAAATATATCCTCCACCTCAAATGTATCA--T-CCA
* * * *
23216567 CAAATGTACCCTCCACCACAAATGTATCATCCT
1 CAAATATATCCTCCACCTCAAATGTATCATCCA
* *
23216600 CAAATATATCTTCTACCTCAAATGTATCA
1 CAAATATATCCTCCACCTCAAATGTATCA
23216629 AGAACAAAGG
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
33 26 0.49
34 1 0.02
36 26 0.49
ACGTcount: A:0.36, C:0.31, G:0.05, T:0.29
Consensus pattern (33 bp):
CAAATATATCCTCCACCTCAAATGTATCATCCA
Found at i:23218603 original size:2 final size:2
Alignment explanation
Indices: 23218596--23218620 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23218586 TATTCAAGAA
23218596 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23218621 CATCGAAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23220821 original size:22 final size:21
Alignment explanation
Indices: 23220784--23220831 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
23220774 CTAAAAAAAT
23220784 AAAATAACTTTAAAAT-TAAA
1 AAAATAACTTTAAAATATAAA
*
23220804 AAAATAACAGTTTTAAATATAAA
1 AAAATAAC--TTTAAAATATAAA
23220827 AAAAT
1 AAAAT
23220832 TTTAATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
22 7 0.29
23 9 0.38
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATAACTTTAAAATATAAA
Found at i:23221578 original size:34 final size:30
Alignment explanation
Indices: 23221540--23221626 Score: 84
Period size: 34 Copynumber: 2.6 Consensus size: 30
23221530 ATTTAAGTTT
23221540 ATATTATTATTTAAATTTAAATTTAGTTAAATAA
1 ATATTATTATTTAAATTTAAATTT-G-T-AA-AA
*
23221574 ATATTATCCATTTAAATATTTAAATTTGTAAAA
1 ATATTAT-TATTT-AA-ATTTAAATTTGTAAAA
23221607 ATATTTATTTATTTAAATTT
1 ATA-TTA-TTATTTAAATTT
23221627 TTTGTCAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
32 4 0.09
33 7 0.15
34 16 0.35
35 6 0.13
36 3 0.07
37 10 0.22
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATATTATTATTTAAATTTAAATTTGTAAAA
Found at i:23222289 original size:13 final size:13
Alignment explanation
Indices: 23222220--23222290 Score: 54
Period size: 13 Copynumber: 5.3 Consensus size: 13
23222210 TACAAAATAT
23222220 AAAAAATGTTT-AA
1 AAAAAAT-TTTAAA
*
23222233 AAATAATTTTAAA
1 AAAAAATTTTAAA
* *
23222246 AAAATAAATTAAAA
1 AAAA-AATTTTAAA
** *
23222260 AAAAAAAGTTACCA
1 AAAAAATTTTA-AA
23222274 AAAAAATTTTAAA
1 AAAAAATTTTAAA
23222287 AAAA
1 AAAA
23222291 TTGATTTATA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
12 3 0.07
13 21 0.47
14 21 0.47
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (13 bp):
AAAAAATTTTAAA
Found at i:23222736 original size:21 final size:22
Alignment explanation
Indices: 23222690--23222752 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 22
23222680 AAATTTAATT
23222690 ATTTAATTAATTGATTATATAATA
1 ATTTAA-TAATTGATTATAT-ATA
*
23222714 ATTTAATAATTAATTATAT-TA
1 ATTTAATAATTGATTATATATA
* *
23222735 ATATAATATTTGATTATA
1 ATTTAATAATTGATTATA
23222753 AAAATGACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.49
23 12 0.34
24 6 0.17
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (22 bp):
ATTTAATAATTGATTATATATA
Found at i:23223252 original size:13 final size:13
Alignment explanation
Indices: 23223230--23223274 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
23223220 AATAATTTTA
23223230 AATATAATATAAT
1 AATATAATATAAT
*
23223243 AATATTATATAA-
1 AATATAATATAAT
23223255 AA-ATAATATAAT
1 AATATAATATAAT
23223267 ATATATAA
1 A-ATATAA
23223275 ATTTAGTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 8 0.30
12 3 0.11
13 12 0.44
14 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATAATATAAT
Found at i:23223276 original size:18 final size:19
Alignment explanation
Indices: 23223231--23223276 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
23223221 ATAATTTTAA
*
23223231 ATATAATATAATAATATTAT
1 ATATAA-ATAATAATAATAT
*
23223251 ATAAAAATAAT-ATAATAT
1 ATATAAATAATAATAATAT
23223269 ATATAAAT
1 ATATAAAT
23223277 TTAGTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 13 0.57
19 5 0.22
20 5 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATAAATAATAATAATAT
Found at i:23223534 original size:19 final size:19
Alignment explanation
Indices: 23223507--23223556 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
23223497 ATTTAAATAA
23223507 ATTAATCATATCTAATCAT
1 ATTAATCATATCTAATCAT
* * *
23223526 ATTATTCATATATAATTAT
1 ATTAATCATATCTAATCAT
23223545 ATTAATCATATC
1 ATTAATCATATC
23223557 ATGTTATTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTAATCATATCTAATCAT
Found at i:23223536 original size:9 final size:9
Alignment explanation
Indices: 23223507--23223555 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
23223497 ATTTAAATAA
23223507 ATTAATCAT
1 ATTAATCAT
23223516 ATCTAATCAT
1 AT-TAATCAT
*
23223526 ATTATTCAT
1 ATTAATCAT
*
23223535 ATATAATTAT
1 AT-TAATCAT
23223545 ATTAATCAT
1 ATTAATCAT
23223554 AT
1 AT
23223556 CATGTTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 18 0.53
10 16 0.47
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTAATCAT
Found at i:23223689 original size:20 final size:20
Alignment explanation
Indices: 23223664--23223703 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23223654 CATTTAAATA
23223664 TTCATATAAAAATTATTCAT
1 TTCATATAAAAATTATTCAT
23223684 TTCATATAAAAATTATTCAT
1 TTCATATAAAAATTATTCAT
23223704 ACATTATGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (20 bp):
TTCATATAAAAATTATTCAT
Found at i:23224568 original size:21 final size:21
Alignment explanation
Indices: 23224542--23224583 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23224532 ATAAATATTT
23224542 TTGAAAATAAACTTGAAGTGG
1 TTGAAAATAAACTTGAAGTGG
* *
23224563 TTGAAAATAAATTTGATGTGG
1 TTGAAAATAAACTTGAAGTGG
23224584 ATAGTTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.33
Consensus pattern (21 bp):
TTGAAAATAAACTTGAAGTGG
Found at i:23224784 original size:19 final size:19
Alignment explanation
Indices: 23224760--23224807 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
23224750 TAAAATATTT
*
23224760 ATAAAAAATTTTTAATATA
1 ATAAAAAATTTTTAATAAA
** *
23224779 ATAAAATTTTTTTTATAAA
1 ATAAAAAATTTTTAATAAA
23224798 ATAAAAAATT
1 ATAAAAAATT
23224808 AATTAAAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAAAAATTTTTAATAAA
Found at i:23224795 original size:17 final size:16
Alignment explanation
Indices: 23224757--23224798 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
23224747 CATTAAAATA
23224757 TTTATAAAAAATTTTT
1 TTTATAAAAAATTTTT
**
23224773 AATATAATAAAATTTTT
1 TTTATAA-AAAATTTTT
23224790 TTTATAAAA
1 TTTATAAAA
23224799 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTATAAAAAATTTTT
Found at i:23230247 original size:18 final size:19
Alignment explanation
Indices: 23230224--23230259 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23230214 TTTAAGTTTA
23230224 ATATTAT-TATTTAAATAG
1 ATATTATCTATTTAAATAG
*
23230242 ATATTATCTGTTTAAATA
1 ATATTATCTATTTAAATA
23230260 TTTGAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (19 bp):
ATATTATCTATTTAAATAG
Found at i:23231740 original size:10 final size:9
Alignment explanation
Indices: 23231718--23231820 Score: 57
Period size: 10 Copynumber: 10.9 Consensus size: 9
23231708 TATTTAAATA
23231718 AATTAT-TT
1 AATTATATT
23231726 AATTATATCT
1 AATTATAT-T
23231736 AATTATATT
1 AATTATATT
23231745 -ATTCATATAT
1 AATT-ATAT-T
*
23231755 AATTATTTT
1 AATTATATT
* *
23231764 AATCATATC
1 AATTATATT
*
23231773 ATATCATATT
1 A-ATTATATT
* *
23231783 ATTTCAATATA
1 AATT--ATATT
*
23231794 AATTAATTTT
1 AATT-ATATT
*
23231804 AAATATATT
1 AATTATATT
23231813 AATTATAT
1 AATTATAT
23231821 CGTATAATAT
Statistics
Matches: 73, Mismatches: 14, Indels: 15
0.72 0.14 0.15
Matches are distributed among these distances:
8 9 0.12
9 26 0.36
10 28 0.38
11 10 0.14
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (9 bp):
AATTATATT
Found at i:23231757 original size:19 final size:19
Alignment explanation
Indices: 23231718--23231820 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 19
23231708 TATTTAAATA
*
23231718 AATTAT-TTAATT-ATATCT
1 AATTATATT-ATTCATATAT
23231736 AATTATATTATTCATATAT
1 AATTATATTATTCATATAT
* *
23231755 AATTATTTTAATCATATCAT
1 AATTATATTATTCATAT-AT
*
23231775 -ATCATATTATTTCA-ATAT
1 AATTATATTA-TTCATATAT
*
23231793 AAATTA-ATT-TTAAATATATT
1 -AATTATATTATT-CATATA-T
23231813 AATTATAT
1 AATTATAT
23231821 CGTATAATAT
Statistics
Matches: 67, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
17 2 0.03
18 12 0.18
19 42 0.63
20 11 0.16
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTATATTATTCATATAT
Found at i:23231772 original size:38 final size:38
Alignment explanation
Indices: 23231707--23231820 Score: 116
Period size: 38 Copynumber: 3.0 Consensus size: 38
23231697 AAATAATTTT
23231707 TTATTT-AA-ATAAATTA-TTTAATTATATCTAATTATA
1 TTATTTCAATATAAATTATTTTAA-TATATCTAATTATA
*
23231743 TTA-TTC-ATATATAATTATTTTAATCATATC-ATATCATA
1 TTATTTCAATATA-AATTATTTTAAT-ATATCTA-ATTATA
23231781 TTATTTCAATATAAATTAATTTTAAATATAT-TAATTATA
1 TTATTTCAATATAAATT-ATTTT-AATATATCTAATTATA
23231820 T
1 T
23231821 CGTATAATAT
Statistics
Matches: 65, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
35 3 0.05
36 6 0.09
37 7 0.11
38 18 0.28
39 13 0.20
40 15 0.23
41 3 0.05
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (38 bp):
TTATTTCAATATAAATTATTTTAATATATCTAATTATA
Found at i:23232317 original size:15 final size:16
Alignment explanation
Indices: 23232281--23232319 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
23232271 CATGGGAGAG
*
23232281 GAGGAAGAAGGAAGGA
1 GAGGAAGAAAGAAGGA
*
23232297 GGGGAAGAAAG-AGGA
1 GAGGAAGAAAGAAGGA
23232312 GAGGAAGA
1 GAGGAAGA
23232320 CGAACGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (16 bp):
GAGGAAGAAAGAAGGA
Found at i:23239315 original size:24 final size:24
Alignment explanation
Indices: 23239287--23239332 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
23239277 TTTTATCAAG
*
23239287 TCGAAAAGCATCTCTTTGCTTATC
1 TCGAAAAACATCTCTTTGCTTATC
23239311 TCGAAAAACATCTCTTTGCTTA
1 TCGAAAAACATCTCTTTGCTTA
23239333 CATGAAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (24 bp):
TCGAAAAACATCTCTTTGCTTATC
Found at i:23243935 original size:22 final size:21
Alignment explanation
Indices: 23243900--23243942 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
23243890 AATGAAAAGA
23243900 TAAATAAAATGATAACTTGAT
1 TAAATAAAATGATAACTTGAT
* *
23243921 TAAATATATATGATATCTTGAT
1 TAAATA-AAATGATAACTTGAT
23243943 AATTAAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (21 bp):
TAAATAAAATGATAACTTGAT
Found at i:23244196 original size:22 final size:21
Alignment explanation
Indices: 23244161--23244203 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
23244151 AATGAAAAGA
23244161 TAAATAAAATGATAACTTGAT
1 TAAATAAAATGATAACTTGAT
* *
23244182 TAAATATATATGATATCTTGAT
1 TAAATA-AAATGATAACTTGAT
23244204 AATTAAATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (21 bp):
TAAATAAAATGATAACTTGAT
Found at i:23246116 original size:153 final size:153
Alignment explanation
Indices: 23245824--23246100 Score: 419
Period size: 153 Copynumber: 1.8 Consensus size: 153
23245814 TTCATTCAAA
* * *
23245824 TTGTCTTAGATTTGAATATTTTTAGGTTTGGATAATTTTGGATTCAAAATTTTTTAAATTTGGAT
1 TTGTCTTAGATTCGAATAATTTTAGGTTTGGATAATTTTGAATTCAAAATTTTTTAAATTTGGAT
* * * * * *
23245889 AATCTTGAATATGAATTATTTCGTATTCTAATTATTTTAGATTTGGTTCAATTCAAGTTAAGCGA
66 AATCTTAAATACGAATTATTTCATATTCTAATTATTTCAAATTAGGTTCAATTCAAGTTAAGCGA
23245954 GCCTAGATGGATCCCAATACTTT
131 GCCTAGATGGATCCCAATACTTT
* * * *
23245977 TTGTCTTAGATTCGAATAATTTTGGGTTTGGATAATTTTGAATTTAGATTTTTTTAAATTTGGAT
1 TTGTCTTAGATTCGAATAATTTTAGGTTTGGATAATTTTGAATTCAAAATTTTTTAAATTTGGAT
* *
23246042 AGTCTTAAATACGAGTTATTTCATATTCTAATTATTTCAAATTAGGTTCAATTCAAGTT
66 AATCTTAAATACGAATTATTTCATATTCTAATTATTTCAAATTAGGTTCAATTCAAGTT
23246101 GAACGGGTCT
Statistics
Matches: 109, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
153 109 1.00
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (153 bp):
TTGTCTTAGATTCGAATAATTTTAGGTTTGGATAATTTTGAATTCAAAATTTTTTAAATTTGGAT
AATCTTAAATACGAATTATTTCATATTCTAATTATTTCAAATTAGGTTCAATTCAAGTTAAGCGA
GCCTAGATGGATCCCAATACTTT
Found at i:23246818 original size:2 final size:2
Alignment explanation
Indices: 23246811--23246837 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23246801 TTTTTCTTAC
23246811 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
23246838 AATTGGTTTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23248538 original size:21 final size:20
Alignment explanation
Indices: 23248512--23248550 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23248502 AAAGGTCATA
*
23248512 TAATTATAGTTTGGGTTTTTT
1 TAATTATAATTT-GGTTTTTT
23248533 TAATTATAATTTGGTTTT
1 TAATTATAATTTGGTTTT
23248551 AACGGGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (20 bp):
TAATTATAATTTGGTTTTTT
Found at i:23249835 original size:2 final size:2
Alignment explanation
Indices: 23249828--23249853 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23249818 TACTGTTTAG
23249828 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
23249854 AAAGTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23249872 original size:31 final size:31
Alignment explanation
Indices: 23249833--23249895 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 31
23249823 TTTAGTATAT
23249833 ATATATATATATATATATATAAAAGTTTATATTCG
1 ATATAT-TAT-TA-ATATAT-AAAGTTTATATTCG
*
23249868 ATATATTATTAATATATAAATTTTATAT
1 ATATATTATTAATATATAAAGTTTATAT
23249896 ATTATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 10 0.37
32 6 0.22
33 2 0.07
34 3 0.11
35 6 0.22
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATATTATTAATATATAAAGTTTATATTCG
Found at i:23249956 original size:24 final size:25
Alignment explanation
Indices: 23249868--23249965 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 25
23249858 TTTATATTCG
* * *
23249868 ATATATTATTAATATATAAATTTTA
1 ATATTTTATTAATAAATAAATATTA
23249893 TATATTATTAATTAATCAAATAAATAATAATA
1 -ATATT-TT-ATTAAT-AAATAAAT-AT--TA
*
23249925 ATAATTTATTAATAAATAAATATTA
1 ATATTTTATTAATAAATAAATATTA
*
23249950 AT-TTTTA-AAATAAATA
1 ATATTTTATTAATAAATA
23249966 TATACAAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
23 8 0.13
24 4 0.07
25 4 0.07
26 4 0.07
27 4 0.07
28 14 0.23
29 13 0.22
30 3 0.05
31 4 0.07
32 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATTTTATTAATAAATAAATATTA
Found at i:23249962 original size:40 final size:39
Alignment explanation
Indices: 23249932--23250015 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 39
23249922 ATAATAATTT
23249932 ATTAATAAATAAATATTAATTTTTAAAATAAATATATACAA
1 ATTAA-AAATAAATATTAATTTTTAAAAT-AATATATACAA
* * *
23249973 ATTAAAATTACATATTAATTTTTAAAATAATTATATATAA
1 ATTAAAAATAAATATTAATTTTTAAAATAA-TATATACAA
23250013 ATT
1 ATT
23250016 TTTAAATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
39 2 0.05
40 32 0.82
41 5 0.13
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (39 bp):
ATTAAAAATAAATATTAATTTTTAAAATAATATATACAA
Found at i:23249965 original size:23 final size:23
Alignment explanation
Indices: 23249910--23250021 Score: 69
Period size: 23 Copynumber: 5.1 Consensus size: 23
23249900 TTAATTAATC
*
23249910 AAATAAATAATAATAATAATTTATT-
1 AAATAAAT-A-AATATTAATTT-TTA
23249935 -AATAAATAAATATTAATTTTTA
1 AAATAAATAAATATTAATTTTTA
* * *
23249957 AAATAAATATATA-CAA--ATTA
1 AAATAAATAAATATTAATTTTTA
*
23249977 AAAT---TACATATTAATTTTTA
1 AAATAAATAAATATTAATTTTTA
* * *
23249997 AAATAATTATATATAAATTTTTA
1 AAATAAATAAATATTAATTTTTA
23250020 AA
1 AA
23250022 TATATATTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
17 5 0.07
18 2 0.03
20 14 0.20
21 2 0.03
22 12 0.17
23 28 0.40
24 7 0.10
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATAAATAAATATTAATTTTTA
Found at i:23249997 original size:20 final size:20
Alignment explanation
Indices: 23249921--23250000 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 20
23249911 AATAAATAAT
* *
23249921 AATAATAATTTATTAATAAATA
1 AATATTAATTT-TTAA-AATTA
23249943 AATATTAATTTTTAAAA-TA
1 AATATTAATTTTTAAAATTA
**
23249962 AATATATACA-AATTAAAATTA
1 AATAT-TA-ATTTTTAAAATTA
*
23249983 CATATTAATTTTTAAAAT
1 AATATTAATTTTTAAAAT
23250001 AATTATATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
19 8 0.17
20 19 0.40
21 11 0.23
22 10 0.21
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATATTAATTTTTAAAATTA
Found at i:23250060 original size:29 final size:30
Alignment explanation
Indices: 23250028--23250087 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 30
23250018 TAAATATATA
23250028 TTTATTAATTAAATATAT-ATT-TCT-TTTAT
1 TTTATTAA-TAAAT-TATCATTATCTATTTAT
23250057 TTTATTAATAAATTATCATTATCTATTTAT
1 TTTATTAATAAATTATCATTATCTATTTAT
23250087 T
1 T
23250088 GATAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 3 0.11
28 8 0.29
29 11 0.39
30 6 0.21
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTATTAATAAATTATCATTATCTATTTAT
Found at i:23251785 original size:19 final size:16
Alignment explanation
Indices: 23251746--23251805 Score: 84
Period size: 16 Copynumber: 3.6 Consensus size: 16
23251736 ATTTTTTAAA
*
23251746 TATTTATATTTAAATT
1 TATTTAAATTTAAATT
23251762 TATTTAAATTTAATATCAT
1 TATTTAAATTTAA-AT--T
23251781 TATTTAAATTTAAATT
1 TATTTAAATTTAAATT
23251797 TATTTAAAT
1 TATTTAAAT
23251806 AAATATTATC
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
16 22 0.55
17 2 0.05
18 2 0.05
19 14 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTTAAATTTAAATT
Found at i:23251821 original size:35 final size:35
Alignment explanation
Indices: 23251747--23251821 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
23251737 TTTTTTAAAT
* * *
23251747 ATTTATATTTAAATTTATTTAAATTTAATATCATT
1 ATTTAAATTTAAATTTATTTAAATTAAATATCATC
*
23251782 ATTTAAATTTAAATTTATTTAAA-TAAATATTATCC
1 ATTTAAATTTAAATTTATTTAAATTAAATATCAT-C
23251817 ATTTA
1 ATTTA
23251822 TAAAATATCG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 8 0.23
35 27 0.77
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (35 bp):
ATTTAAATTTAAATTTATTTAAATTAAATATCATC
Found at i:23252968 original size:383 final size:385
Alignment explanation
Indices: 23252245--23253078 Score: 1467
Period size: 383 Copynumber: 2.2 Consensus size: 385
23252235 TGGAATCGAC
* * *
23252245 ATCACACCAACTTGGGAATCAAATTGACGTTTTGGGGATTAACAGGAAGGCTAATGGGAAATTTT
1 ATCACTCCAAC-T-GGAATCAAATTGACATTTTGGGGATTAACAGGAAGGCTAATGGGAAAATTT
* *
23252310 GAGACATATCTCTTAATATATATTTTTTAAAAAATTAAAAAATTAATTTAAAAAAATTAAACATA
64 GAGACATATCTCTTAATATATA-TTTTTAAAAAATTAAAAAACTAATTTAAAAAAATAAAACATA
* * *
23252375 TGCGTGTTCATCATTTTATCTTTTATCACTGTCAATGTATCGAATAATATCTTTTATTTTAGTTG
128 TGCATGTTCATCATTTTATCTTTTATCACTATCAATGTATCAAATAATATCTTTTATTTTAGTTG
23252440 AGTCAAAGTCCATGAGTTTTGTTTTTGTCGAACGGTCAAAGCTAGAAGCTACAGCAGTTGCAGCC
193 AGTCAAAGTCCATGAGTTTTGTTTTTGTCGAACGGTCAAAGCTAGAAGCTACAGCAGTTGCAGCC
23252505 ATTTTTGACCAGCACACCACTTTCTGATAATTGTCAATGAATACAGAAATTAAGCTATGGCATTT
258 ATTTTTGACCAGCACACCACTTTCTGATAATTGTCAATGAATACAGAAATTAAGCTATGGCATTT
23252570 ATTTATAAATAGATAAAGTTACCTTTAAGAAAACTGTGAAATGCTATAACATTC-AAGATGAT
323 ATTTATAAATAGATAAAGTTACCTTTAAGAAAACTGTGAAATGCTATAACATTCAAAGATGAT
**
23252632 ATCACTCCAACTGGAATCAAATTGACATTTTGGGGATTAACATCAAGGCTAATGGGAAAATTTGA
1 ATCACTCCAACTGGAATCAAATTGACATTTTGGGGATTAACAGGAAGGCTAATGGGAAAATTTGA
*
23252697 GACATATCTCTTAATATATA-TTTT-AAAAATTAAAAAACTAATTTAAAAAAAATAAAATATATG
66 GACATATCTCTTAATATATATTTTTAAAAAATTAAAAAACTAATTT-AAAAAAATAAAACATATG
*
23252760 CATGTTCATCATTTTATCTTTTATCATTATCAATGTATCAAATAATATCTTTTATTTTAGTTGAG
130 CATGTTCATCATTTTATCTTTTATCACTATCAATGTATCAAATAATATCTTTTATTTTAGTTGAG
23252825 TCAAAGTCCATGAGTTTTGTTTTTGTCGAACGGTCAAAGCTAGAAGCTACAGCAGTTGCAGCCAT
195 TCAAAGTCCATGAGTTTTGTTTTTGTCGAACGGTCAAAGCTAGAAGCTACAGCAGTTGCAGCCAT
23252890 TTTTGACCAGCACACCACTTTCTGATAATTGTCAATGAATACAGAAATTAAGCTATGGCATTTAT
260 TTTTGACCAGCACACCACTTTCTGATAATTGTCAATGAATACAGAAATTAAGCTATGGCATTTAT
*
23252955 TTATAAATAGATAAAGTTACGTTTAAGAAAACTGTGAAATGCTATAACATTCAAAGATGAT
325 TTATAAATAGATAAAGTTACCTTTAAGAAAACTGTGAAATGCTATAACATTCAAAGATGAT
* **
23253016 ATCACTCCAGCTGTTATCAAATTGACATTTTGGGGATTAACAGGAAGGCTAATGGGAAAATTT
1 ATCACTCCAACTGGAATCAAATTGACATTTTGGGGATTAACAGGAAGGCTAATGGGAAAATTT
23253079 TATTTACTGT
Statistics
Matches: 427, Mismatches: 18, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
382 19 0.04
383 262 0.61
384 66 0.15
385 69 0.16
386 1 0.00
387 10 0.02
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (385 bp):
ATCACTCCAACTGGAATCAAATTGACATTTTGGGGATTAACAGGAAGGCTAATGGGAAAATTTGA
GACATATCTCTTAATATATATTTTTAAAAAATTAAAAAACTAATTTAAAAAAATAAAACATATGC
ATGTTCATCATTTTATCTTTTATCACTATCAATGTATCAAATAATATCTTTTATTTTAGTTGAGT
CAAAGTCCATGAGTTTTGTTTTTGTCGAACGGTCAAAGCTAGAAGCTACAGCAGTTGCAGCCATT
TTTGACCAGCACACCACTTTCTGATAATTGTCAATGAATACAGAAATTAAGCTATGGCATTTATT
TATAAATAGATAAAGTTACCTTTAAGAAAACTGTGAAATGCTATAACATTCAAAGATGAT
Found at i:23253302 original size:18 final size:16
Alignment explanation
Indices: 23253270--23253323 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
23253260 TCTATTTAAA
*
23253270 TAAATATT-TTTTATT
1 TAAATATTAATTTATT
23253285 TAAATATCTGAATTTATT
1 TAAATAT-T-AATTTATT
* *
23253303 AAAATATTCATTTATT
1 TAAATATTAATTTATT
23253319 TAAAT
1 TAAAT
23253324 TTTAGTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 7 0.22
16 12 0.38
17 1 0.03
18 12 0.38
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (16 bp):
TAAATATTAATTTATT
Found at i:23258874 original size:126 final size:127
Alignment explanation
Indices: 23258741--23259035 Score: 511
Period size: 126 Copynumber: 2.3 Consensus size: 127
23258731 GTTGATCATT
* *
23258741 TAATTATTTGATATATTTATATTTGATTAAATATAATATCTAGTAATTGATGTATTTTATGTGTA
1 TAATTATTTGATATATTTATATTTGATTAAATATAATATCTAGTAACTGATATATTTTATGTGTA
* *
23258806 AATATATAAATCAAATATAATT-AAAAAACTAAATTGATTACAAAATAGTGGATTCTCTAAA
66 AATATACAAAACAAATATAATTAAAAAAACTAAATTGATTACAAAATAGTGGATTCTCTAAA
* *
23258867 TAATTATTTGATATATTTATATTTGATTAAATATAGTATCCAGTAACTGATATATTTTATGTGTA
1 TAATTATTTGATATATTTATATTTGATTAAATATAATATCTAGTAACTGATATATTTTATGTGTA
*
23258932 AATATACAAAACAAATATAATTAAAAAAACTAAATTGATTACAAAATAGTGGATTCTCTAAT
66 AATATACAAAACAAATATAATTAAAAAAACTAAATTGATTACAAAATAGTGGATTCTCTAAA
*
23258994 TAATTATTTGATATACTTATATTTGATTAAATATAATATCTA
1 TAATTATTTGATATATTTATATTTGATTAAATATAATATCTA
23259036 TTTGAGTAAT
Statistics
Matches: 158, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
126 81 0.51
127 77 0.49
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (127 bp):
TAATTATTTGATATATTTATATTTGATTAAATATAATATCTAGTAACTGATATATTTTATGTGTA
AATATACAAAACAAATATAATTAAAAAAACTAAATTGATTACAAAATAGTGGATTCTCTAAA
Found at i:23259607 original size:32 final size:32
Alignment explanation
Indices: 23259571--23259633 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
23259561 TTATATTTCA
*
23259571 TTTTATTTCATTTGGTAAAATAATAATGCACG
1 TTTTATTTCATTTGATAAAATAATAATGCACG
*
23259603 TTTTATTTCATTTGATAAAATATTAATGCAC
1 TTTTATTTCATTTGATAAAATAATAATGCAC
23259634 AAAGATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (32 bp):
TTTTATTTCATTTGATAAAATAATAATGCACG
Found at i:23259645 original size:31 final size:32
Alignment explanation
Indices: 23259575--23259650 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
23259565 ATTTCATTTT
* ****
23259575 ATTTCATTTGGTAAAATAATAATGCACGTTTT
1 ATTTCATTTGATAAAATAATAATGCACGAAAG
*
23259607 ATTTCATTTGATAAAATATTAATGCAC-AAAG
1 ATTTCATTTGATAAAATAATAATGCACGAAAG
23259638 ATTTCATTTGATA
1 ATTTCATTTGATA
23259651 TCATTTGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
31 13 0.34
32 25 0.66
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (32 bp):
ATTTCATTTGATAAAATAATAATGCACGAAAG
Found at i:23259736 original size:33 final size:35
Alignment explanation
Indices: 23259694--23259761 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
23259684 ATATTAATCT
*
23259694 CATTGATTTA-ATTACAATTTAATTT-TTTTATTGC
1 CATTGATTTATAATA-AATTTAATTTATTTTATTGC
23259728 CATT-ATTTATAATAAATTTAATTTATTTTATTGC
1 CATTGATTTATAATAAATTTAATTTATTTTATTGC
23259762 TTTAAATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 15 0.48
34 16 0.52
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.56
Consensus pattern (35 bp):
CATTGATTTATAATAAATTTAATTTATTTTATTGC
Found at i:23261406 original size:135 final size:136
Alignment explanation
Indices: 23261243--23261511 Score: 425
Period size: 137 Copynumber: 2.0 Consensus size: 136
23261233 AAGCATAAAA
* *
23261243 AATTTAATAAAAATGATTATATAAGTTATGAG-T-TCATAAATTTCATATCTTATATTATTATTT
1 AATTTAATAAAAATAATTATATAAGTTATGAGTTGTCATAAATTTCATAGCTTATATTATTATTT
* *
23261306 AAAAAAATTATATTTATATAAGATTTATTGATATATAAGTATATTTTCGTGCATCACACGAGTTT
66 AAAAAAATTATATTTATATAAAATTTATTGATATATAAATATATTTTCGTGCATCACACGAGTTT
23261371 AAAACT
131 AAAACT
*
23261377 AATTTAAATAAAAATAATTATATAAGTTATGAGTTGTTATAAATTTCATAGCTTATATTATTATT
1 AATTT-AATAAAAATAATTATATAAGTTATGAGTTGTCATAAATTTCATAGCTTATATTATTATT
* * * * *
23261442 TTAAAAAATTATATTTATATAAAATTTATTGATATATAAATATATTTTCGTGTATTATACGGGTT
65 TAAAAAAATTATATTTATATAAAATTTATTGATATATAAATATATTTTCGTGCATCACACGAGTT
23261507 TAAAA
130 TAAAA
23261512 TTAGTTGATT
Statistics
Matches: 122, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
134 5 0.04
135 26 0.21
136 1 0.01
137 90 0.74
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (136 bp):
AATTTAATAAAAATAATTATATAAGTTATGAGTTGTCATAAATTTCATAGCTTATATTATTATTT
AAAAAAATTATATTTATATAAAATTTATTGATATATAAATATATTTTCGTGCATCACACGAGTTT
AAAACT
Found at i:23261471 original size:15 final size:15
Alignment explanation
Indices: 23261437--23261488 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
23261427 GCTTATATTA
*
23261437 TTATTT-TAAAAAAT
1 TTATTTATATAAAAT
23261451 TATATTTATATAAAAT
1 T-TATTTATATAAAAT
*
23261467 TTATTGATATATAAAT
1 TTATTTATATA-AAAT
*
23261483 ATATTT
1 TTATTT
23261489 TCGTGTATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 1 0.03
15 14 0.45
16 16 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TTATTTATATAAAAT
Found at i:23261545 original size:21 final size:21
Alignment explanation
Indices: 23261519--23261572 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
23261509 AAATTAGTTG
23261519 ATTATAATAATATAATAATTA
1 ATTATAATAATATAATAATTA
* * *
23261540 ATTAT-ATAAATTTAATATTTT
1 ATTATAAT-AATATAATAATTA
*
23261561 ATTATAAAAATA
1 ATTATAATAATA
23261573 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 2 0.08
21 23 0.88
22 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTATAATAATATAATAATTA
Found at i:23262025 original size:18 final size:18
Alignment explanation
Indices: 23262002--23262039 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23261992 CACCATTCAA
*
23262002 ATCCAAATCTATTTAAAT
1 ATCCAAATCTATTAAAAT
*
23262020 ATCCAACTCTATTAAAAT
1 ATCCAAATCTATTAAAAT
23262038 AT
1 AT
23262040 TCATTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (18 bp):
ATCCAAATCTATTAAAAT
Found at i:23262765 original size:21 final size:23
Alignment explanation
Indices: 23262703--23262757 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
23262693 TAGTTAAGTT
* * *
23262703 ATAATTTATTAATTGATTATATA
1 ATAATATAATAATTAATTATATA
23262726 ATAATATAATAATTAATTATAT-
1 ATAATATAATAATTAATTATATA
23262748 A-AATATAATA
1 ATAATATAATA
23262758 TTTTATTACG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 9 0.31
22 1 0.03
23 19 0.66
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
ATAATATAATAATTAATTATATA
Found at i:23263251 original size:29 final size:30
Alignment explanation
Indices: 23263195--23263259 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
23263185 AAATAAATTA
*
23263195 TAAATATTTAATTTTTAATAATTTTTTGTT
1 TAAATATTTAATTTATAATAATTTTTTGTT
*
23263225 TAAATA-TTAATTTAT-ATGATTTGTTTGTT
1 TAAATATTTAATTTATAATAATTT-TTTGTT
23263254 TAAATA
1 TAAATA
23263260 AATAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 6 0.19
29 20 0.62
30 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (30 bp):
TAAATATTTAATTTATAATAATTTTTTGTT
Found at i:23263429 original size:17 final size:18
Alignment explanation
Indices: 23263401--23263435 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
23263391 TTATATTTGT
*
23263401 ATTTAAATTATTCGTATC
1 ATTTAAATTATTCATATC
23263419 ATTTAAA-TATTCATATC
1 ATTTAAATTATTCATATC
23263436 GTATTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTTAAATTATTCATATC
Found at i:23264322 original size:2 final size:2
Alignment explanation
Indices: 23264315--23264347 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23264305 TTACTTTCTT
23264315 TA TA TA TA 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 TA TA TA TA T
23264348 TTAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23264726 original size:38 final size:39
Alignment explanation
Indices: 23264643--23264723 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
23264633 AATTTTAATA
*
23264643 TAAATTTTAAAATTAATTTTTTCAAATTATTGAAGGGTT
1 TAAATTTTAAAATTAATTTATTCAAATTATTGAAGGGTT
23264682 TAAATTTT-AAATTAAATATTATT-AAATTATTAGAA-GGTT
1 TAAATTTTAAAATT-AAT-TTATTCAAATTATT-GAAGGGTT
23264721 TAA
1 TAA
23264724 TTTATTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
38 5 0.13
39 26 0.68
40 7 0.18
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.47
Consensus pattern (39 bp):
TAAATTTTAAAATTAATTTATTCAAATTATTGAAGGGTT
Found at i:23264942 original size:17 final size:16
Alignment explanation
Indices: 23264922--23264955 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
23264912 TTAATAATTT
23264922 TTTTAAATTAAATAAAA
1 TTTTAAATTAAA-AAAA
*
23264939 TTTTGAATTAAAAAAA
1 TTTTAAATTAAAAAAA
23264955 T
1 T
23264956 CTTACCAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TTTTAAATTAAAAAAA
Found at i:23265550 original size:24 final size:26
Alignment explanation
Indices: 23265505--23265561 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 26
23265495 CTATCCAAAA
23265505 ATTTTATTTTTTAAAATATTAAATAT
1 ATTTTATTTTTTAAAATATTAAATAT
* *
23265531 CTTTTATTTTTT-CAAT-TTAAATAT
1 ATTTTATTTTTTAAAATATTAAATAT
23265555 ATTTTAT
1 ATTTTAT
23265562 AAGATACGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 14 0.50
25 3 0.11
26 11 0.39
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTATTTTTTAAAATATTAAATAT
Found at i:23265683 original size:25 final size:26
Alignment explanation
Indices: 23265632--23265685 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
23265622 ATTTAAAGCT
*
23265632 TTTATATTTTCAAATAGATTAATAAA
1 TTTATATTTTAAAATAGATTAATAAA
*
23265658 TTTATTTTTTAAAAT-GATCTAA-AAA
1 TTTATATTTTAAAATAGAT-TAATAAA
23265683 TTT
1 TTT
23265686 TTACATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (26 bp):
TTTATATTTTAAAATAGATTAATAAA
Found at i:23265726 original size:31 final size:31
Alignment explanation
Indices: 23265664--23265772 Score: 119
Period size: 31 Copynumber: 3.5 Consensus size: 31
23265654 TAAATTTATT
* *
23265664 TTTTAAAATGATCTAAAAATTTTTACATAATA
1 TTTTAAAATGATAT-AAAATTTTTACTTAATA
* * *
23265696 TTTTAACATGATATAAAGTTTTTATTTAATA
1 TTTTAAAATGATATAAAATTTTTACTTAATA
* ** *
23265727 TCTTAAGTTGATATAAAATTTTGTACTTAATT
1 TTTTAAAATGATATAAAATTTT-TACTTAATA
23265759 TTTTAAAATGATAT
1 TTTTAAAATGATAT
23265773 GTAATTTTAA
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
31 32 0.52
32 30 0.48
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (31 bp):
TTTTAAAATGATATAAAATTTTTACTTAATA
Found at i:23265965 original size:21 final size:20
Alignment explanation
Indices: 23265939--23265978 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
23265929 AAAAATCAAT
23265939 TTTTCTTTAATTATTTTTATC
1 TTTTCTTTAATT-TTTTTATC
*
23265960 TTTTCTTTTATTTTTTTAT
1 TTTTCTTTAATTTTTTTAT
23265979 AAAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTAATTTTTTTATC
Found at i:23266311 original size:31 final size:28
Alignment explanation
Indices: 23266276--23266334 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 28
23266266 GAAATATATA
23266276 AAATTTTGAGATAGTTTCATATTTGATTCCT
1 AAATTTTGAGA-A-TTTCAT-TTTGATTCCT
*
23266307 AAATTTTGAGAATTTTATTTTGATTCCT
1 AAATTTTGAGAATTTCATTTTGATTCCT
23266335 CATCTATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.37
29 5 0.19
30 1 0.04
31 11 0.41
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (28 bp):
AAATTTTGAGAATTTCATTTTGATTCCT
Found at i:23267536 original size:17 final size:15
Alignment explanation
Indices: 23267511--23267650 Score: 94
Period size: 15 Copynumber: 9.3 Consensus size: 15
23267501 GTATTAATAA
* *
23267511 AAATAATATGTTAAT
1 AAATATTATATTAAT
23267526 AAATATTATATTAAT
1 AAATATTATATTAAT
*
23267541 AAATATTATAAATAAT
1 AAATATTAT-ATTAAT
*
23267557 ATATTATATTTATATGATAT
1 A-A--ATA-TTATATTA-AT
*
23267577 AAATAATATATTAAT
1 AAATATTATATTAAT
*
23267592 AGATATTAT-TT-AT
1 AAATATTATATTAAT
*
23267605 TAATATTATATT-AT
1 AAATATTATATTAAT
*
23267619 TAATA-TATA-TAAT
1 AAATATTATATTAAT
**
23267632 ATCT-TTATATTAAT
1 AAATATTATATTAAT
23267646 AAATA
1 AAATA
23267651 ATATTGTATT
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
12 1 0.01
13 20 0.20
14 17 0.17
15 31 0.32
16 12 0.12
17 4 0.04
19 6 0.06
20 7 0.07
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (15 bp):
AAATATTATATTAAT
Found at i:23267545 original size:27 final size:25
Alignment explanation
Indices: 23267515--23267650 Score: 96
Period size: 27 Copynumber: 5.2 Consensus size: 25
23267505 TAATAAAAAT
23267515 AATATGTTAATAAATATTATATTAATA
1 AATAT-TT-ATAAATATTATATTAATA
* *
23267542 AATA-TTATAAATAATATATTATATT
1 AATATTTATAAATATTATATTA-ATA
* * *
23267567 TATATGATATAAATAATATATTAATA
1 AATAT-TTATAAATATTATATTAATA
* *
23267593 GATATTATTTATTAATATTATATT-ATT
1 -A-A-TATTTATAAATATTATATTAATA
* *
23267620 AATATATATAATATCTTTATATTAATA
1 AATATTTATAA-AT-ATTATATTAATA
23267647 AATA
1 AATA
23267651 ATATTGTATT
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
24 21 0.24
25 10 0.12
26 10 0.12
27 28 0.33
28 14 0.16
29 3 0.03
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (25 bp):
AATATTTATAAATATTATATTAATA
Found at i:23267559 original size:24 final size:24
Alignment explanation
Indices: 23267524--23267600 Score: 91
Period size: 24 Copynumber: 3.1 Consensus size: 24
23267514 TAATATGTTA
*
23267524 ATAAATATTATATTAATAAATATT
1 ATAAATAATATATTAATAAATATT
**
23267548 ATAAATAATATATTATATTTATATGAT
1 ATAAATAATATATTA-ATAAATAT--T
*
23267575 ATAAATAATATATTAATAGATATT
1 ATAAATAATATATTAATAAATATT
23267599 AT
1 AT
23267601 TTATTAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 17 0.38
25 6 0.13
26 6 0.13
27 16 0.36
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
ATAAATAATATATTAATAAATATT
Found at i:23267571 original size:6 final size:7
Alignment explanation
Indices: 23267528--23267752 Score: 62
Period size: 7 Copynumber: 32.0 Consensus size: 7
23267518 ATGTTAATAA
23267528 ATATTAT
1 ATATTAT
* *
23267535 ATTAATAA
1 A-TATTAT
23267543 ATATTAT
1 ATATTAT
* *
23267550 AAATAAT
1 ATATTAT
23267557 ATATTAT
1 ATATTAT
23267564 AT-TTAT
1 ATATTAT
23267570 ATGA-TAT
1 AT-ATTAT
* *
23267577 AAATAAT
1 ATATTAT
23267584 ATATTAAT
1 ATATT-AT
23267592 AGATATTAT
1 --ATATTAT
*
23267601 TTATTA-
1 ATATTAT
23267607 ATATTAT
1 ATATTAT
23267614 ATTATTA-
1 A-TATTAT
23267621 ATATATAT
1 ATAT-TAT
*
23267629 AATATCTTT
1 -ATAT-TAT
23267638 ATATTA-
1 ATATTAT
*
23267644 ATA-AAT
1 ATATTAT
*
23267650 AATATTGT
1 -ATATTAT
23267658 ATTATTA-
1 A-TATTAT
*
23267665 ATATAAT
1 ATATTAT
23267672 ATATTAT
1 ATATTAT
*
23267679 TTATTA-
1 ATATTAT
*
23267685 ACA-TA-
1 ATATTAT
23267690 ATATTAT
1 ATATTAT
*
23267697 TTATTA-
1 ATATTAT
*
23267703 ATATAAT
1 ATATTAT
23267710 ATTATTTAT
1 A-TA-TTAT
* *
23267719 ATAATAA
1 ATATTAT
*
23267726 ATATAAT
1 ATATTAT
23267733 CATATT-T
1 -ATATTAT
*
23267740 AT-TAAT
1 ATATTAT
23267746 ATATTAT
1 ATATTAT
23267753 TTGTCATAAC
Statistics
Matches: 154, Mismatches: 39, Indels: 50
0.63 0.16 0.21
Matches are distributed among these distances:
5 6 0.04
6 34 0.22
7 68 0.44
8 29 0.19
9 12 0.08
10 5 0.03
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (7 bp):
ATATTAT
Found at i:23267579 original size:51 final size:52
Alignment explanation
Indices: 23267524--23267729 Score: 152
Period size: 52 Copynumber: 4.2 Consensus size: 52
23267514 TAATATGTTA
*
23267524 ATAAATATTATATTAATAAATATTA-TAAATAATA-TAT-TATATTTATATGAT
1 ATAAATATTATATTAATAAATATTATTAAATAATATTATAT-TATTAATAT-AT
* * * *
23267575 ATAAATAATATATTAATAGATATTATTTATTAATATTATATTATTAATATAT
1 ATAAATATTATATTAATAAATATTATTAAATAATATTATATTATTAATATAT
* * *
23267627 AT--A-A-TATCTT--T--ATATTAATAAATAATATTGTATTATTAATATA-
1 ATAAATATTATATTAATAAATATTATTAAATAATATTATATTATTAATATAT
* * * * * *
23267670 ATATATTATT-TATTAACATAATATTATTTATTAATATAATATTATTTATATA-
1 ATA-AATATTATATTAATA-AATATTATTAAATAATATTATATTATTAATATAT
23267722 ATAAATAT
1 ATAAATAT
23267730 AATCATATTT
Statistics
Matches: 122, Mismatches: 20, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
43 2 0.02
44 28 0.23
46 1 0.01
47 4 0.03
48 6 0.05
49 1 0.01
50 1 0.01
51 27 0.22
52 40 0.33
53 11 0.09
54 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (52 bp):
ATAAATATTATATTAATAAATATTATTAAATAATATTATATTATTAATATAT
Found at i:23267585 original size:39 final size:39
Alignment explanation
Indices: 23267511--23267646 Score: 122
Period size: 39 Copynumber: 3.5 Consensus size: 39
23267501 GTATTAATAA
* *
23267511 AAATAATATGTTA-ATAAATATTATATTAATAAATATTAT
1 AAATAATATATTATATTAATATTATATTAAT-AATATTAT
* * *
23267550 AAATAATATATTATATTTATATGATATAAATAATA-TAT
1 AAATAATATATTATATTAATATTATATTAATAATATTAT
* *
23267588 TAATAGATATTATT-TATTAATATTATATTATTAATA-TAT
1 AAATA-ATA-TATTATATTAATATTATATTAATAATATTAT
*
23267627 --ATAATATCTTTATATTAATA
1 AAATAATAT-ATTATATTAATA
23267647 AATAATATTG
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
35 1 0.01
36 5 0.06
37 11 0.14
38 7 0.09
39 40 0.49
40 17 0.21
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (39 bp):
AAATAATATATTATATTAATATTATATTAATAATATTAT
Found at i:23267591 original size:66 final size:68
Alignment explanation
Indices: 23267511--23267654 Score: 186
Period size: 69 Copynumber: 2.1 Consensus size: 68
23267501 GTATTAATAA
* *
23267511 AAATAATATGTTAATAAATATTA-TATTAATA-AATATTATAAATA-ATATATTATATTTATATG
1 AAATAATATATTAATAAATATTATTATTAATATAATATTATAAATATATATAATATATTTATATG
23267573 ATAT
66 A-AT
* * * *
23267577 AAATAATATATTAATAGATATTATTTATTAATATTATATTATTAATATATATAATATCTTTATAT
1 AAATAATATATTAATAAATATTA-TTATTAATATAATATTATAAATATATATAATATATTTATAT
*
23267642 TAAT
65 GAAT
23267646 AAATAATAT
1 AAATAATAT
23267655 TGTATTATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
66 21 0.31
68 8 0.12
69 22 0.33
70 16 0.24
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (68 bp):
AAATAATATATTAATAAATATTATTATTAATATAATATTATAAATATATATAATATATTTATATG
AAT
Found at i:23267617 original size:18 final size:18
Alignment explanation
Indices: 23267521--23267753 Score: 153
Period size: 18 Copynumber: 12.7 Consensus size: 18
23267511 AAATAATATG
23267521 TTAATA-AATATTA--TA
1 TTAATATAATATTATTTA
*
23267536 TTAATA-AATATTA-TAA
1 TTAATATAATATTATTTA
* *
23267552 ATAATATATTA-TATTTA
1 TTAATATAATATTATTTA
* * *
23267569 TATGATATAA-ATAATATA
1 T-TAATATAATATTATTTA
*
23267587 TTAATA-GATATTATTTA
1 TTAATATAATATTATTTA
*
23267604 TTAATATTATATTA-TTA
1 TTAATATAATATTATTTA
*
23267621 ATATATATAATATCT-TTATA
1 TTA-ATATAATAT-TATT-TA
*
23267641 TTAATAAATAATATTGTATTA
1 TTAAT--ATAATATTAT-TTA
23267662 TTAATATAATATATTATTTA
1 TTAATAT-A-ATATTATTTA
*
23267682 TTAACATAATATTATTTA
1 TTAATATAATATTATTTA
23267700 TTAATATAATATTATTTA
1 TTAATATAATATTATTTA
*
23267718 TATAATAAATATAATCATATTTA
1 T-TAATATA-AT-AT--TATTTA
*
23267741 TTAATATATTATT
1 TTAATATAATATT
23267754 TGTCATAACG
Statistics
Matches: 173, Mismatches: 23, Indels: 41
0.73 0.10 0.17
Matches are distributed among these distances:
15 13 0.08
16 9 0.05
17 27 0.16
18 54 0.31
19 13 0.08
20 19 0.11
21 24 0.14
22 7 0.04
23 7 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (18 bp):
TTAATATAATATTATTTA
Found at i:23267626 original size:55 final size:51
Alignment explanation
Indices: 23267524--23267633 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 51
23267514 TAATATGTTA
* *
23267524 ATAAATATTATATTAATAAATATTATAAATAATATATTATATTTATATGAT
1 ATAAATAATATATTAATAAATATTATAAATAATATATTATATATATATGAT
* ** * *
23267575 ATAAATAATATATTAATAGATATTATTTATTA-ATATTATAT-TAT-TAAT
1 ATAAATAATATATTAATAAATATTATAAATAATATATTATATATATATGAT
*
23267623 ATATATAATAT
1 ATAAATAATAT
23267634 CTTTATATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 13 0.25
49 3 0.06
50 9 0.17
51 27 0.52
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (51 bp):
ATAAATAATATATTAATAAATATTATAAATAATATATTATATATATATGAT
Found at i:23267631 original size:23 final size:22
Alignment explanation
Indices: 23267605--23267743 Score: 125
Period size: 21 Copynumber: 6.6 Consensus size: 22
23267595 TATTATTTAT
23267605 TAATATTATATTATTAATATATA
1 TAATATTATATTATTAATATA-A
*
23267628 TAATATCTTTA-TATTAATA-AA
1 TAATAT-TATATTATTAATATAA
*
23267649 TAATATTGTATTATTAATATAA
1 TAATATTATATTATTAATATAA
*
23267671 T-ATATTAT-TTATT-A-A-CA
1 TAATATTATATTATTAATATAA
23267688 TAATATTAT-TTATTAATATAA
1 TAATATTATATTATTAATATAA
* * *
23267709 TATTATTTATATAATAAATATAA
1 TAATA-TTATATTATTAATATAA
*
23267732 TCATATT-TATTA
1 TAATATTATATTA
23267744 ATATATTATT
Statistics
Matches: 96, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
17 2 0.02
18 13 0.14
19 2 0.02
20 9 0.09
21 30 0.31
22 10 0.10
23 27 0.28
24 3 0.03
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (22 bp):
TAATATTATATTATTAATATAA
Found at i:23267661 original size:41 final size:41
Alignment explanation
Indices: 23267580--23267749 Score: 147
Period size: 41 Copynumber: 4.2 Consensus size: 41
23267570 ATGATATAAA
** * *
23267580 TAATATAT-TAATAGATAT-TATTTAT-TAATATTATATTAT
1 TAATATATATAATATTTATATATTAATATAATAATAT-TTAT
23267619 TAATATATATAATATCTT-TATATTAATA-AATAATATTGTAT
1 TAATATATATAATAT-TTATATATTAATATAATAATATT-TAT
* * * *
23267660 TATTA-ATATAATATATTATTTATTAACATAATATTATTTAT
1 TAATATATATAATAT-TTATATATTAATATAATAATATTTAT
* * *
23267701 TAATATA-ATATTATTTATATAATAAATATAATCATATTTAT
1 TAATATATATAATATTTATAT-ATTAATATAATAATATTTAT
23267742 TAATATAT
1 TAATATAT
23267750 TATTTGTCAT
Statistics
Matches: 105, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
39 8 0.08
40 23 0.22
41 65 0.62
42 9 0.09
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (41 bp):
TAATATATATAATATTTATATATTAATATAATAATATTTAT
Found at i:23268482 original size:61 final size:59
Alignment explanation
Indices: 23268235--23268754 Score: 561
Period size: 59 Copynumber: 8.8 Consensus size: 59
23268225 TTGTACAGGA
* ** * *
23268235 AAAATTGATACATTCAACTTTTCCTCAAAAATTTATTATTTTTTTTAAATTTA--TT-AAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--CCTT-TTTTTTTGAAATTTATTTTCAAGG
* *
23268294 AAAATTGATACTTTCAACTTTTCCTCAAAAATC-TTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTG-AAATTTATTTTCAAGG
23268353 AAAATTGATACTTTCAACTTTTCCTCAAAAATCC---TTTTTTGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CCTTTTTTTTTGAAA-TTT-ATTTTCAAGG
* *
23268412 AAAATTGATACTTTCAACTTTTTCC-CAAAAACCCTTTTTTTTTTTAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAA-CC-TTTTTTTTTGAAATTTATTTTCAAGG
23268473 AAAATTGATACTTTCAACTTTTCC-CTAAAAA--TATTTTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAACCT-TTTTTTTTG-AAA-TTT-ATTTTCAAGG
* *
23268534 AAAATTGATACTTTCAACTTTTCCTCAAAAACC-CTTTTTTTGAAATTTATTTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTGAAATTTATTTTCAAGG
** * *
23268592 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTGGAAATTTTGATTTTCAGGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAACCTTTTTTTTTGAAA-TTT-ATTTTCAAGG
* * * *
23268653 AAAATTAATACTTTCAACTTTTCCTCAAAAACC-CTTTTTTTGAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTGAAATTTATTTTCAAGG
* *
23268711 AAAATTGATACTTTCAATTTTTCC-CTAAAAA--TATTTTTTTGAAA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAACCTTTTTTTTTGAAA
23268755 ATTTTGATTT
Statistics
Matches: 404, Mismatches: 30, Indels: 56
0.82 0.06 0.11
Matches are distributed among these distances:
55 7 0.02
56 8 0.02
57 18 0.04
58 92 0.23
59 118 0.29
60 33 0.08
61 114 0.28
62 5 0.01
63 9 0.02
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTTGAAATTTATTTTCAAGG
Found at i:23268612 original size:119 final size:119
Alignment explanation
Indices: 23268235--23268765 Score: 742
Period size: 119 Copynumber: 4.5 Consensus size: 119
23268225 TTGTACAGGA
* ** *
23268235 AAAATTGATACATTCAACTTTT-CCTCAAAAATTTATTATTTTTTTTAAA-TTT-A--TT-AAGA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAA--TATT-TTTTTTGAAAATTTTGATTTTCAAGG
* *
23268294 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAGG
62 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTG-AAATTTATTTTTAAGG
** *
23268353 AAAATTGATACTTTCAACTTTT-CCTCAAAAAT-CCTTTTTTG-AAACTTTGATTTTCAAGGAAA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGAAAATTTTGATTTTCAAGGAAA
*
23268415 ATTGATACTTTCAACTTTTTCC-CAAAAACCCTTTTTTTTTTTAAATTTATTTTTAAGG
65 ATTGATACTTTCAAC-TTTTCCTCAAAAACCC---TTTTTTTGAAATTTATTTTTAAGG
23268473 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTTCAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTTCAAGGAAAA
**
23268538 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTATTTTCGAGG
66 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTATTTTTAAGG
* *
23268592 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTGATTTTCAGGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTTCAAGGAAAA
* *
23268657 TTAATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTATTTTTAAGA
66 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTATTTTTAAGG
*
23268711 AAAATTGATACTTTCAATTTTTCCCTAAAAATA-TTTTTTTGAAAATTTTGATTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTT
23268766 TTATTTAAAG
Statistics
Matches: 378, Mismatches: 22, Indels: 26
0.89 0.05 0.06
Matches are distributed among these distances:
113 3 0.01
114 9 0.02
115 1 0.00
116 1 0.00
117 2 0.01
118 79 0.21
119 172 0.46
120 44 0.12
121 23 0.06
122 44 0.12
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTTCAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTATTTTTAAGG
Found at i:23268819 original size:18 final size:18
Alignment explanation
Indices: 23268798--23268853 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
23268788 TAAAAAAGTG
23268798 AAAATAAATAAAGATAAA
1 AAAATAAATAAAGATAAA
*
23268816 AAAATAAAGGAAAG-TAAA
1 AAAATAAA-TAAAGATAAA
**
23268834 ACCA-AAATAAAGATAAA
1 AAAATAAATAAAGATAAA
23268851 AAA
1 AAA
23268854 GAATATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 4 0.13
17 8 0.27
18 14 0.47
19 4 0.13
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.12
Consensus pattern (18 bp):
AAAATAAATAAAGATAAA
Found at i:23268822 original size:35 final size:34
Alignment explanation
Indices: 23268783--23268853 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 34
23268773 AAGAAAATAG
*
23268783 AATAATAAAAAAGTGAAAA-TAAATAAAGATAAAAA
1 AATAA-AAAAAAGT-AAAACAAAATAAAGATAAAAA
**
23268818 AATAAAGGAAAGTAAAACCAAAATAAAGATAAAAA
1 AATAAAAAAAAGTAAAA-CAAAATAAAGATAAAAA
23268853 A
1 A
23268854 GAATATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 4 0.13
34 6 0.19
35 21 0.68
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.14
Consensus pattern (34 bp):
AATAAAAAAAAGTAAAACAAAATAAAGATAAAAA
Found at i:23270284 original size:20 final size:19
Alignment explanation
Indices: 23270248--23270297 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
23270238 TTTTCAATTT
23270248 AAAAAAAAAACTAAAAATG
1 AAAAAAAAAACTAAAAATG
23270267 AAAAAAGAAAAC-AGAAAATG
1 AAAAAA-AAAACTA-AAAATG
* *
23270287 GAAACAAAAAC
1 AAAAAAAAAAC
23270298 AAACGACCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.76, C:0.08, G:0.10, T:0.06
Consensus pattern (19 bp):
AAAAAAAAAACTAAAAATG
Found at i:23271141 original size:32 final size:30
Alignment explanation
Indices: 23271099--23271162 Score: 74
Period size: 32 Copynumber: 2.1 Consensus size: 30
23271089 TGAATTATTG
* * *
23271099 ATATATTAAATTAAAAATTTAATTGTGAAATA
1 ATATAATAAATCAAAAATAT-ATTGT-AAATA
*
23271131 ATATAATAAATCAATAATATATTGTAAATA
1 ATATAATAAATCAAAAATATATTGTAAATA
23271161 AT
1 AT
23271163 TATTTTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 7 0.25
31 5 0.18
32 16 0.57
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (30 bp):
ATATAATAAATCAAAAATATATTGTAAATA
Found at i:23271301 original size:17 final size:17
Alignment explanation
Indices: 23271275--23271308 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23271265 ATTTAGTGTG
23271275 TTTCAAAATTAAATTTA
1 TTTCAAAATTAAATTTA
* *
23271292 TTTCATAATTGAATTTA
1 TTTCAAAATTAAATTTA
23271309 ATGATTGAAT
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:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTCAAAATTAAATTTA
Found at i:23273407 original size:2 final size:2
Alignment explanation
Indices: 23273400--23273428 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23273390 AAAATGCTAT
23273400 TA TA 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 TA TA T
23273429 TGGAATTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23277307 original size:13 final size:13
Alignment explanation
Indices: 23277284--23277333 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
23277274 TGATAATTTT
23277284 AAATATAATATAA
1 AAATATAATATAA
* *
23277297 TAATATGATAT-A
1 AAATATAATATAA
23277309 AAA-ATAATATAA
1 AAATATAATATAA
*
23277321 ATATATATATATA
1 AAATATA-ATATA
23277334 TTTAGTATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
11 6 0.21
12 6 0.21
13 12 0.41
14 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
AAATATAATATAA
Found at i:23277315 original size:24 final size:25
Alignment explanation
Indices: 23277283--23277333 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
23277273 GTGATAATTT
*
23277283 TAAATATAATAT-AATA-ATATGATA
1 TAAAAATAATATAAATATATAT-ATA
23277307 TAAAAATAATATAAATATATATATA
1 TAAAAATAATATAAATATATATATA
23277332 TA
1 TA
23277334 TTTAGTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 11 0.46
25 9 0.38
26 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
TAAAAATAATATAAATATATATATA
Found at i:23277620 original size:19 final size:19
Alignment explanation
Indices: 23277592--23277628 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23277582 CAATCATATT
* *
23277592 TAATTGTATTAGTTGTATA
1 TAATTATATTAATTGTATA
23277611 TAATTATATTAATTGTAT
1 TAATTATATTAATTGTAT
23277629 CATATCATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (19 bp):
TAATTATATTAATTGTATA
Found at i:23280031 original size:31 final size:31
Alignment explanation
Indices: 23279975--23280081 Score: 108
Period size: 31 Copynumber: 3.4 Consensus size: 31
23279965 ATAAATTTAT
* * *
23279975 TTTTAAAAATGATCTGAACATTTTTACATAATA
1 TTTT-AAAATGATAT-AAAATTTTTACTTAATA
* * *
23280008 TTTTAACATGATATAAAGTTTTTATTTAATA
1 TTTTAAAATGATATAAAATTTTTACTTAATA
* **
23280039 TCTTAAGTTGATATAAAATTTTTACTTAAT-
1 TTTTAAAATGATATAAAATTTTTACTTAATA
23280069 TTTTAAAATGATA
1 TTTTAAAATGATA
23280082 CGTAATTTTA
Statistics
Matches: 60, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
30 10 0.17
31 38 0.63
32 8 0.13
33 4 0.07
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.48
Consensus pattern (31 bp):
TTTTAAAATGATATAAAATTTTTACTTAATA
Found at i:23293129 original size:27 final size:26
Alignment explanation
Indices: 23293098--23293157 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
23293088 AGATAGTATG
*
23293098 ATATTATTTAATTTAATATTGTTCATA
1 ATATTATTTAATTTAATATTATT-ATA
* * *
23293125 ATATTATTTTATTTTATCTTATTATA
1 ATATTATTTAATTTAATATTATTATA
23293151 ATATTAT
1 ATATTAT
23293158 GTACCAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATTATTTAATTTAATATTATTATA
Found at i:23296074 original size:18 final size:17
Alignment explanation
Indices: 23296047--23296080 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23296037 TTCAAATCTT
23296047 TAAAACTTATAATATATA
1 TAAAACTTAT-ATATATA
*
23296065 TAAAATTTATATATAT
1 TAAAACTTATATATAT
23296081 TAACTTGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAACTTATATATATA
Found at i:23296352 original size:19 final size:21
Alignment explanation
Indices: 23296313--23296368 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
23296303 ATTATATAAA
23296313 ATATGAAAAATATTAAAAAAT
1 ATATGAAAAATATTAAAAAAT
23296334 ATATGAAAAA-A-TAAAAAAT
1 ATATGAAAAATATTAAAAAAT
* *
23296353 AAAATAAAAAATATTA
1 -ATATGAAAAATATTA
23296369 TTTTTCATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 8 0.27
20 9 0.30
21 11 0.37
22 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (21 bp):
ATATGAAAAATATTAAAAAAT
Found at i:23296356 original size:12 final size:12
Alignment explanation
Indices: 23296341--23296365 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23296331 AATATATGAA
23296341 AAAATAAAAAAT
1 AAAATAAAAAAT
23296353 AAAATAAAAAAT
1 AAAATAAAAAAT
23296365 A
1 A
23296366 TTATTTTTCA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:23298357 original size:30 final size:30
Alignment explanation
Indices: 23298321--23298383 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
23298311 TCGAAATTAA
* * * *
23298321 TAAAAATATTATTTTTTAAATATAAATATT
1 TAAAAATATCATTATATAAATATAAATAAT
*
23298351 TAAAAATATCATTATATAAATATATATAAT
1 TAAAAATATCATTATATAAATATAAATAAT
23298381 TAA
1 TAA
23298384 TTAAAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
TAAAAATATCATTATATAAATATAAATAAT
Found at i:23298619 original size:16 final size:17
Alignment explanation
Indices: 23298594--23298626 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23298584 GTCCCTAATC
*
23298594 AGAAGTAAAG-AAGGAA
1 AGAAGGAAAGAAAGGAA
23298610 AGAAGGAAAGAAAGGAA
1 AGAAGGAAAGAAAGGAA
23298627 TAAAAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (17 bp):
AGAAGGAAAGAAAGGAA
Found at i:23298883 original size:30 final size:30
Alignment explanation
Indices: 23298816--23298888 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
23298806 GACTCACATT
* **
23298816 TAATAATTTTAAATAAATATGAATTATATT
1 TAATAATTTTAAATAAATATGAAATATAAG
23298846 TAATAATTTTAAATAAAT-T-AAATATCAAG
1 TAATAATTTTAAATAAATATGAAATAT-AAG
23298875 TAATTAATTTTAAA
1 TAA-TAATTTTAAA
23298889 ATATTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 5 0.13
29 5 0.13
30 28 0.74
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (30 bp):
TAATAATTTTAAATAAATATGAAATATAAG
Found at i:23299737 original size:10 final size:10
Alignment explanation
Indices: 23299705--23299751 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
23299695 TTCAAAAAGC
23299705 TTTTAAAAAA
1 TTTTAAAAAA
**
23299715 TTCAAAAAAA
1 TTTTAAAAAA
23299725 TTTTAAAAAA
1 TTTTAAAAAA
* *
23299735 TTTTGAAATA
1 TTTTAAAAAA
23299745 TTTTAAA
1 TTTTAAA
23299752 TATATATAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:23299751 original size:20 final size:20
Alignment explanation
Indices: 23299689--23299736 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
23299679 GTCAATATAA
**
23299689 AAAAAATTCAAAAAGCTTTT
1 AAAAAATTCAAAAAAATTTT
23299709 AAAAAATTCAAAAAAATTTT
1 AAAAAATTCAAAAAAATTTT
23299729 AAAAAATT
1 AAAAAATT
23299737 TTGAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAAATTCAAAAAAATTTT
Found at i:23299970 original size:30 final size:30
Alignment explanation
Indices: 23299936--23299993 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
23299926 TTTGTTTTAT
* *
23299936 AATTTTTTTTAAATATTAAAAAAATTTAAG
1 AATTTTTGTAAAATATTAAAAAAATTTAAG
* *
23299966 AATTTTTGTAAAATTTTTAAAAAATTTA
1 AATTTTTGTAAAATATTAAAAAAATTTA
23299994 TTTTAATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
AATTTTTGTAAAATATTAAAAAAATTTAAG
Found at i:23308815 original size:18 final size:17
Alignment explanation
Indices: 23308788--23308822 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23308778 TGTCATCGTG
23308788 TTATATAAATATTATAT
1 TTATATAAATATTATAT
*
23308805 TTATGATAAATTTTATAT
1 TTAT-ATAAATATTATAT
23308823 AAAAATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTATATAAATATTATAT
Found at i:23308940 original size:24 final size:24
Alignment explanation
Indices: 23308913--23308958 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23308903 TTTATTAAAA
23308913 TTTTAAATTACATTATTTTCATAT
1 TTTTAAATTACATTATTTTCATAT
* * *
23308937 TTTTTATTTATATTATTTTCAT
1 TTTTAAATTACATTATTTTCAT
23308959 GTCATGTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTAAATTACATTATTTTCATAT
Found at i:23317638 original size:14 final size:14
Alignment explanation
Indices: 23317616--23317648 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
23317606 CATAAATCGG
*
23317616 TTTTCAAAAAATAT
1 TTTTAAAAAAATAT
23317630 TTTTAAAAAAATAT
1 TTTTAAAAAAATAT
23317644 TTTTA
1 TTTTA
23317649 TTTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTTAAAAAAATAT
Done.