Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 107 of 121
Found at i:18264806 original size:13 final size:13
Alignment explanation
Indices: 18264788--18264817 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18264778 ATTAAATCAT
18264788 AATAAATAATTAA
1 AATAAATAATTAA
18264801 AATAAATAATTAA
1 AATAAATAATTAA
18264814 AATA
1 AATA
18264818 TTTTTAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATAAATAATTAA
Found at i:18267663 original size:2 final size:2
Alignment explanation
Indices: 18267656--18267682 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18267646 TGTTATGAGG
18267656 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 T
18267683 ATGATGGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18270748 original size:121 final size:121
Alignment explanation
Indices: 18270534--18270775 Score: 430
Period size: 121 Copynumber: 2.0 Consensus size: 121
18270524 GTCAATAGAA
18270534 GGATCGGATTCATGGGTTGATGATCTAATTACGCATCATATTATAGGCCTTTGCATAAACAAAGA
1 GGATCGGATTCATGGGTTGATGATCTAATTACGCATCATATTATAGGCCTTTGCATAAACAAAGA
18270599 GGAGGAAGGAGATAAAGGGTCCTTATTGCATTCTTATACTGCCTTCTGTTGAGCCC
66 GGAGGAAGGAGATAAAGGGTCCTTATTGCATTCTTATACTGCCTTCTGTTGAGCCC
* * *
18270655 GGATCGGATTCATGGGTTGATGATCTCATTACGCATCATATTGTAGGCCTTTGCATAAACAACGA
1 GGATCGGATTCATGGGTTGATGATCTAATTACGCATCATATTATAGGCCTTTGCATAAACAAAGA
* * *
18270720 GGAGGAAGGAGATCAAGGGTCCTTATTGCATTCTTCTACTGCCTTTTGTTGAGCCC
66 GGAGGAAGGAGATAAAGGGTCCTTATTGCATTCTTATACTGCCTTCTGTTGAGCCC
18270776 AGACATGTAA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 115 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (121 bp):
GGATCGGATTCATGGGTTGATGATCTAATTACGCATCATATTATAGGCCTTTGCATAAACAAAGA
GGAGGAAGGAGATAAAGGGTCCTTATTGCATTCTTATACTGCCTTCTGTTGAGCCC
Found at i:18283017 original size:5 final size:5
Alignment explanation
Indices: 18283009--18283040 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
18282999 GAGGGAATGG
*
18283009 AAAGA AAAGA AAAGA AAAGA AAAGA AGAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AA
18283041 GTTTTCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:18284785 original size:16 final size:16
Alignment explanation
Indices: 18284760--18284795 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18284750 TTGTAAAAAA
18284760 TTTTTCTTTTCTTTTC
1 TTTTTCTTTTCTTTTC
* *
18284776 TTTTTTTTTTCTTTTG
1 TTTTTCTTTTCTTTTC
18284792 TTTT
1 TTTT
18284796 CAAAGAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTTTCTTTTCTTTTC
Found at i:18287905 original size:15 final size:15
Alignment explanation
Indices: 18287869--18287898 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18287859 TCAACCCCAA
18287869 CTCTTTTCAAATTTT
1 CTCTTTTCAAATTTT
*
18287884 CTCTTTTCAAGTTTT
1 CTCTTTTCAAATTTT
18287899 TTTTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.20, G:0.03, T:0.60
Consensus pattern (15 bp):
CTCTTTTCAAATTTT
Found at i:18289981 original size:22 final size:23
Alignment explanation
Indices: 18289949--18290001 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
18289939 CGATGAAATT
*
18289949 AAAAATAATAATAATAAT-TTTA
1 AAAAATAATAATAATAATGATTA
* *
18289971 AAAAATTATAATAATTATGATTA
1 AAAAATAATAATAATAATGATTA
18289994 AAAAATAA
1 AAAAATAA
18290002 ATTTAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAAATAATAATAATAATGATTA
Found at i:18292958 original size:27 final size:27
Alignment explanation
Indices: 18292927--18292978 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
18292917 AATTATTCAA
18292927 AATCAAA-TGATATTTTTTAATTTTATT
1 AATCAAATTGA-ATTTTTTAATTTTATT
18292954 AATCAAATTGAATTTTTTAATTTTA
1 AATCAAATTGAATTTTTTAATTTTA
18292979 AAAATTAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (27 bp):
AATCAAATTGAATTTTTTAATTTTATT
Found at i:18299032 original size:21 final size:19
Alignment explanation
Indices: 18298982--18299037 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 19
18298972 AAAATATGCT
*
18298982 ATCATTCAAATATCATAATA
1 ATCATT-AAAAATCATAATA
* *
18299002 ATAATAAAAAATCATAGATCA
1 ATCATTAAAAATCATA-AT-A
18299023 ATCATTAAAAATCAT
1 ATCATTAAAAATCAT
18299038 CGTAAATCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 9 0.31
20 6 0.21
21 14 0.48
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.30
Consensus pattern (19 bp):
ATCATTAAAAATCATAATA
Found at i:18299045 original size:20 final size:21
Alignment explanation
Indices: 18298982--18299047 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
18298972 AAAATATGCT
*
18298982 ATCATTCAAATATCATA-AT-A
1 ATCATT-AAAAATCATAGATAA
* * *
18299002 ATAATAAAAAATCATAGATCA
1 ATCATTAAAAATCATAGATAA
*
18299023 ATCATTAAAAATCATCG-TAA
1 ATCATTAAAAATCATAGATAA
18299043 ATCAT
1 ATCAT
18299048 CATCATCATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 9 0.24
20 13 0.35
21 15 0.41
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.30
Consensus pattern (21 bp):
ATCATTAAAAATCATAGATAA
Found at i:18299054 original size:16 final size:16
Alignment explanation
Indices: 18299033--18299072 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
18299023 ATCATTAAAA
*
18299033 ATCATCGTAAATCATC
1 ATCATCATAAATCATC
18299049 ATCATCATAAATCATC
1 ATCATCATAAATCATC
*
18299065 ATTATCAT
1 ATCATCAT
18299073 TAGTTTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:18301667 original size:13 final size:12
Alignment explanation
Indices: 18301610--18301668 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 12
18301600 ATTTTTAATT
18301610 ATATCAT-TTTC
1 ATATCATATTTC
* *
18301621 GTATCTTATATTC
1 ATATCATAT-TTC
*
18301634 ATATTATATTT-
1 ATATCATATTTC
*
18301645 ATATCGTATTATC
1 ATATCATATT-TC
18301658 ATATCATATTT
1 ATATCATATTT
18301669 TAAATTATCA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
11 13 0.36
12 5 0.14
13 18 0.50
ACGTcount: A:0.31, C:0.12, G:0.03, T:0.54
Consensus pattern (12 bp):
ATATCATATTTC
Found at i:18301686 original size:14 final size:15
Alignment explanation
Indices: 18301659--18301688 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18301649 CGTATTATCA
18301659 TATCATATTTTAAAT
1 TATCATATTTTAAAT
*
18301674 TATCATATTTAAAAT
1 TATCATATTTTAAAT
18301689 AAAATATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
TATCATATTTTAAAT
Found at i:18310052 original size:19 final size:19
Alignment explanation
Indices: 18310029--18310066 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
18310019 AAAATTTAAA
18310029 AAAAACTAAAAATAAAATAG
1 AAAAACT-AAAATAAAATAG
*
18310049 AAAAAGTAAAATAAAATA
1 AAAAACTAAAATAAAATA
18310067 AAATCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAAACTAAAATAAAATAG
Found at i:18310069 original size:30 final size:30
Alignment explanation
Indices: 18310025--18310081 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
18310015 AGTAAAAATT
18310025 TAAAAAAAACTAAAAAT-AAAATAGAAAAAG
1 TAAAAAAAACT-AAAATCAAAATAGAAAAAG
18310055 TAAAATAAAA-TAAAATCAAAATAGAAA
1 TAAAA-AAAACTAAAATCAAAATAGAAA
18310082 TTAGGATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 5 0.20
30 16 0.64
31 4 0.16
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (30 bp):
TAAAAAAAACTAAAATCAAAATAGAAAAAG
Found at i:18311046 original size:17 final size:16
Alignment explanation
Indices: 18311024--18311066 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
18311014 TCAAAATTTC
18311024 AAAGATTCAAGATTCGT
1 AAAGATTC-AGATTCGT
18311041 AAAGATTTTCAGATTCGT
1 AAAGA--TTCAGATTCGT
*
18311059 AAGGATTC
1 AAAGATTC
18311067 TAAGTTGTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 3 0.13
17 5 0.22
18 12 0.52
19 3 0.13
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (16 bp):
AAAGATTCAGATTCGT
Found at i:18311326 original size:35 final size:35
Alignment explanation
Indices: 18311270--18311338 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
18311260 TCTAGATTTG
* * *
18311270 TAAACGTTTCAAATTTGCAAAGATTTTAAGTTTCA
1 TAAAAGTTTCAAATTTACAAAGATTTCAAGTTTCA
* *
18311305 TAAAAGTTTCAGATTTACAAAGGTTTCAAGTTTC
1 TAAAAGTTTCAAATTTACAAAGATTTCAAGTTTC
18311339 CCAGAGGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (35 bp):
TAAAAGTTTCAAATTTACAAAGATTTCAAGTTTCA
Found at i:18311331 original size:52 final size:53
Alignment explanation
Indices: 18311223--18311333 Score: 127
Period size: 52 Copynumber: 2.1 Consensus size: 53
18311213 TCATAACAAT
* **
18311223 TTTCAAATTCACAAAAATTTTTAAGTTTTACAAAAGTTCTAGATTTGTAAACG
1 TTTCAAATTCACAAAAATTTTTAAGTTTCACAAAAGTTCTAGATTTACAAACG
** * * *
18311276 TTTCAAATTTGCAAAGA-TTTTAAGTTTCATAAAAGTT-TCAGATTTACAAAGG
1 TTTCAAATTCACAAAAATTTTTAAGTTTCACAAAAGTTCT-AGATTTACAAACG
18311328 TTTCAA
1 TTTCAA
18311334 GTTTCCCAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
51 1 0.02
52 34 0.69
53 14 0.29
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.40
Consensus pattern (53 bp):
TTTCAAATTCACAAAAATTTTTAAGTTTCACAAAAGTTCTAGATTTACAAACG
Found at i:18311485 original size:17 final size:17
Alignment explanation
Indices: 18311465--18311503 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
18311455 TTCGCAAGAG
18311465 TTTCAAATTCT-TAAAAA
1 TTTCAAATT-TGTAAAAA
*
18311482 TTTCAAATTTGTAAGAA
1 TTTCAAATTTGTAAAAA
18311499 TTTCA
1 TTTCA
18311504 GTTTCGTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (17 bp):
TTTCAAATTTGTAAAAA
Found at i:18311518 original size:34 final size:34
Alignment explanation
Indices: 18311442--18311518 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
18311432 ACTGTTTCAC
* *
18311442 AAGAATTTTCAAATTCGCAAGAGTTTCAAATTCTT
1 AAGAA-TTTCAAATTCGCAAGAATTTCAAATTCGT
* * * **
18311477 AAAAATTTCAAATTTGTAAGAATTTCAGTTTCGT
1 AAGAATTTCAAATTCGCAAGAATTTCAAATTCGT
18311511 AAGAATTT
1 AAGAATTT
18311519 TAAGTTCATA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
34 30 0.88
35 4 0.12
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (34 bp):
AAGAATTTCAAATTCGCAAGAATTTCAAATTCGT
Found at i:18311676 original size:64 final size:64
Alignment explanation
Indices: 18311608--18311740 Score: 171
Period size: 64 Copynumber: 2.1 Consensus size: 64
18311598 TCAGGTTTGT
* *
18311608 AAGAAATCAAATATTCGA-ATTTTA-ACTTCGCAAGAACTCAGATTCGCAAGAATTTCAAGTTCA
1 AAGAAATCAAATATTC-ACATTTCAGA-TTCACAAGAACTCAGATTCGCAAGAATTTCAAGTTCA
18311671 C
64 C
* * * * *
18311672 AAGAAATCAAATATTCACATTTCAGATTCACAAGAATTTAGATTCGCTAGAATTTCAATTTCGC
1 AAGAAATCAAATATTCACATTTCAGATTCACAAGAACTCAGATTCGCAAGAATTTCAAGTTCAC
18311736 AAGAA
1 AAGAA
18311741 TTTTAATTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
63 1 0.02
64 58 0.97
65 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (64 bp):
AAGAAATCAAATATTCACATTTCAGATTCACAAGAACTCAGATTCGCAAGAATTTCAAGTTCAC
Found at i:18311716 original size:16 final size:17
Alignment explanation
Indices: 18311690--18311743 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
18311680 AAATATTCAC
18311690 ATTTCAGATTCACAAGA
1 ATTTCAGATTCACAAGA
* *
18311707 ATTT-AGATTCGCTAGA
1 ATTTCAGATTCACAAGA
*
18311723 ATTTCA-ATTTCGCAAGA
1 ATTTCAGA-TTCACAAGA
18311740 ATTT
1 ATTT
18311744 TAATTTCAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 15 0.47
17 17 0.53
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (17 bp):
ATTTCAGATTCACAAGA
Found at i:18311740 original size:17 final size:17
Alignment explanation
Indices: 18311702--18311804 Score: 63
Period size: 17 Copynumber: 5.9 Consensus size: 17
18311692 TTCAGATTCA
18311702 CAAGAATTT-AGA-TTCG
1 CAAGAATTTCA-ATTTCG
*
18311718 CTAGAATTTCAATTTCG
1 CAAGAATTTCAATTTCG
*
18311735 CAAGAATTTTAATTTCAG
1 CAAGAATTTCAATTTC-G
*
18311753 -AAGAA-ATCAAATATTCTTG
1 CAAGAATTTC-AAT-TTC--G
*
18311772 CAAGAATTTCAAATTCG
1 CAAGAATTTCAATTTCG
*
18311789 TAA-AAGTTTCAATTTC
1 CAAGAA-TTTCAATTTC
18311805 ACAAATATGG
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
16 12 0.18
17 39 0.57
18 4 0.06
19 4 0.06
20 7 0.10
21 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.36
Consensus pattern (17 bp):
CAAGAATTTCAATTTCG
Found at i:18311743 original size:145 final size:143
Alignment explanation
Indices: 18311501--18311768 Score: 315
Period size: 145 Copynumber: 1.9 Consensus size: 143
18311491 TGTAAGAATT
* * * * *
18311501 TCAGTTTCGTAAGAATTTTAAGTTCATAAGAAATCAAAGATTCGAATTCAAATTCACAATAACTC
1 TCAGATTCGCAAGAATTTCAAGTTCACAAGAAATCAAAGATTCGAATTCAAATTCACAAGAACTC
* * *
18311566 AAATTGGCAAGAATTTTAATTTCAAAACAATTTCAGGTTT-GTAAGAAATCAAATATTCGAATTT
66 AAATTCGCAAGAATTTCAATTTCAAAACAATTTCA-ATTTAG-AAGAAATCAAATATTCGAATTT
18311630 TAACTTCGCAAGAAC
129 TAACTTCGCAAGAAC
* * *
18311645 TCAGATTCGCAAGAATTTCAAGTTCACAAGAAATCAAATATTC-ACATTTCAGATTCACAAGAAT
1 TCAGATTCGCAAGAATTTCAAGTTCACAAGAAATCAAAGATTCGA-A-TTCAAATTCACAAGAAC
* * * ** * *
18311709 TTAGATTCGCTAGAATTTCAATTTCGCAAGAATTTTAATTTCAGAAGAAATCAAATATTC
64 TCAAATTCGCAAGAATTTCAATTTCAAAACAATTTCAATTT-AGAAGAAATCAAATATTC
18311769 TTGCAAGAAT
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
143 1 0.01
144 42 0.41
145 58 0.57
146 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (143 bp):
TCAGATTCGCAAGAATTTCAAGTTCACAAGAAATCAAAGATTCGAATTCAAATTCACAAGAACTC
AAATTCGCAAGAATTTCAATTTCAAAACAATTTCAATTTAGAAGAAATCAAATATTCGAATTTTA
ACTTCGCAAGAAC
Found at i:18312076 original size:44 final size:43
Alignment explanation
Indices: 18312028--18312197 Score: 128
Period size: 45 Copynumber: 3.8 Consensus size: 43
18312018 GCTAGAATTC
* *
18312028 AAAGATTCTTATTCAAAAGTTTTAGAGTTTCACATCCAAAAGTT
1 AAAGATTCTTATTCAAAAATTTTAAAGTTT-ACATCCAAAAGTT
* *
18312072 AAAGATT-TTCCTTCAAAAAATTTAAAGATTTACATCCAAAA-TT
1 AAAGATTCTT-ATTCAAAAATTTTAAAG-TTTACATCCAAAAGTT
* * * * * *
18312115 GCAAAAATTCATATTCGAAAAATTTTAAAAATTAACATCTAAAAGCT
1 --AAAGATTCTTATTC-AAAAATTTT-AAAGTTTACATCCAAAAGTT
* * *
18312162 GAAGATTTTTATTCAAAAAAATTTAAAGATTTACAT
1 AAAGATTCTTATTC-AAAAATTTTAAAG-TTTACAT
18312198 TAAAAAAATT
Statistics
Matches: 97, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
43 4 0.04
44 33 0.34
45 36 0.37
46 20 0.21
47 4 0.04
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.35
Consensus pattern (43 bp):
AAAGATTCTTATTCAAAAATTTTAAAGTTTACATCCAAAAGTT
Found at i:18312081 original size:23 final size:22
Alignment explanation
Indices: 18312041--18312112 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
18312031 GATTCTTATT
**
18312041 CAAAAGTTTTAGAGTTTCACATC
1 CAAAAGTTAAAGA-TTTCACATC
*
18312064 CAAAAGTTAAAGATTTTC-CTTC
1 CAAAAGTTAAAGA-TTTCACATC
* *
18312086 AAAAAATTTAAAGATTT-ACATC
1 -CAAAAGTTAAAGATTTCACATC
18312108 CAAAA
1 CAAAA
18312113 TTGCAAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
21 4 0.10
22 9 0.23
23 26 0.67
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.32
Consensus pattern (22 bp):
CAAAAGTTAAAGATTTCACATC
Found at i:18312213 original size:22 final size:23
Alignment explanation
Indices: 18312176--18312219 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
18312166 ATTTTTATTC
*
18312176 AAAAAAATTTAAAGATTTACATT
1 AAAAAAATTTAAAGATTCACATT
*
18312199 AAAAAAA-TTAGAGATTCACAT
1 AAAAAAATTTAAAGATTCACAT
18312220 CCAAAGTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (23 bp):
AAAAAAATTTAAAGATTCACATT
Found at i:18312824 original size:389 final size:384
Alignment explanation
Indices: 18312344--18313114 Score: 1265
Period size: 389 Copynumber: 2.0 Consensus size: 384
18312334 AGCTTTTTTA
* *
18312344 AACAAAAGCTATATATTTAAAAAGTTTGGAAAGTTTTTCTTATAAAAAAAAATCTCATCACAAAA
1 AACAAAAGCTATATATTTAAAAAGTATGGAAAGTTTTCCTTATAAAAAAAAATCTCATCACAAAA
*
18312409 GATCTTCCTTATTCGAACATTCAAAAGTAAAAAAATTTTCTCCAATCAAAGTCAAATTTTGCATG
66 GATCTTCCTTATTCAAACATTCAAAAGTAAAAAAATTTTCTCCAATCAAAGTCAAATTTTGCATG
* * *
18312474 CAATAAATGTTAGTGCAAATGTCTTCTACATGTTGCAAATTTAACAATCGAGATTTTCACTAAAT
131 CAATAAATGTTAATGCAAATGTCTTCTAAATGTTGCAAATGTAACAATCGAGATTTTCACTAAAT
* * *
18312539 TATGCAAATGCATGTCTTAAACAATAATGCAAATGTCATACTATGATTTAAATATTCTTTACATG
196 TATGCAAATGCATGCCTTAAACAATAATGCAAATATCATACTATGATTTAAATATTCTTTACATA
* *
18312604 ACACAAATGCTTACCCCAACCATGATGCAAATGCAATATTCAAAACAATAGTTTAAATATTCACC
261 ACACAAATGCATACCCCAACCATGATGCAAATGCAATATTCAAAACAATAGATTAAATATTCACC
*
18312669 AAATAATGAAGATGCATGGTCCAATCTACTATGCAACTTAGAAATTCCCCAAATGATAC
326 AAATAATGAAGATGCATGGTCCAATCCACTATGCAACTTAGAAATTCCCCAAATGATAC
*
18312728 AACAAAAGCTATATATTTAAAAAGTATGGAAAGTTTTCCTTATCAAAAAAAAAAAAATCTTATCA
1 AACAAAAGCTATATATTTAAAAAGTATGGAAAGTTTTCCTTAT-----AAAAAAAAATCTCATCA
** *
18312793 TGAAAGATCTT-CTTCATTCAAACATTCAAAAGTAAAAAAATTTTCTCCAATCAGAGTCAAATTT
61 CAAAAGATCTTCCTT-ATTCAAACATTCAAAAGTAAAAAAATTTTCTCCAATCAAAGTCAAATTT
*
18312857 TGCATGCAATAAATGTTAATGCAAATGTCTTTTAAATGTTGCAAATGTAACAATCGAGATTTTCA
125 TGCATGCAATAAATGTTAATGCAAATGTCTTCTAAATGTTGCAAATGTAACAATCGAGATTTTCA
18312922 CTAAATTATGCAAATGCATGCCTTAAACAATAATGCAAATATCATACTATGATTTAAATATTCTT
190 CTAAATTATGCAAATGCATGCCTTAAACAATAATGCAAATATCATACTATGATTTAAATATTCTT
* * * * *
18312987 TTCATAACACAAATGCATGCCTCAACCATGCTGCAAATGCAATATTCAAAACAATGGATTAAATA
255 TACATAACACAAATGCATACCCCAACCATGATGCAAATGCAATATTCAAAACAATAGATTAAATA
* *
18313052 TTCACCAAATAATGAATATGCATGGTCCAATCCACTATGCAACTTAGAAATTTCCCAAATGAT
320 TTCACCAAATAATGAAGATGCATGGTCCAATCCACTATGCAACTTAGAAATTCCCCAAATGAT
18313115 GCAAATGCAT
Statistics
Matches: 357, Mismatches: 24, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
384 41 0.11
388 3 0.01
389 313 0.88
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (384 bp):
AACAAAAGCTATATATTTAAAAAGTATGGAAAGTTTTCCTTATAAAAAAAAATCTCATCACAAAA
GATCTTCCTTATTCAAACATTCAAAAGTAAAAAAATTTTCTCCAATCAAAGTCAAATTTTGCATG
CAATAAATGTTAATGCAAATGTCTTCTAAATGTTGCAAATGTAACAATCGAGATTTTCACTAAAT
TATGCAAATGCATGCCTTAAACAATAATGCAAATATCATACTATGATTTAAATATTCTTTACATA
ACACAAATGCATACCCCAACCATGATGCAAATGCAATATTCAAAACAATAGATTAAATATTCACC
AAATAATGAAGATGCATGGTCCAATCCACTATGCAACTTAGAAATTCCCCAAATGATAC
Found at i:18315553 original size:143 final size:143
Alignment explanation
Indices: 18315385--18315656 Score: 429
Period size: 143 Copynumber: 1.9 Consensus size: 143
18315375 TACATGGATC
* * *
18315385 TATATGCAAATACATGTATATAATACATAAATGAAAACAAAAATTCATATCCAAAACTACGTACA
1 TATATGCAAATACATATATACAATACATAAAGGAAAACAAAAATTCATATCCAAAACTACGTACA
* * * * * *
18315450 AAATTGAAAAGGCAAAGATTTTTTCAAACAAAGAAAATAATGTACATACAAAGATGCTTT-CATA
66 AAATTAAAAAAGCAAAAATTTTCTCAAACAAAGAAAATAATGCAAATACAAAGATG-TTTACATA
18315514 AATATATATATATA
130 AATATATATATATA
*
18315528 TATATGCAAATACATATATACAATACATAAAGGAAAACAAAAATTCATATCCAAAACTATGTACA
1 TATATGCAAATACATATATACAATACATAAAGGAAAACAAAAATTCATATCCAAAACTACGTACA
*
18315593 AAATTAAAAAAGCAAAAATTTTCTCAAACAAATAAAATAATGCAAATACAAAGATGTTTACATA
66 AAATTAAAAAAGCAAAAATTTTCTCAAACAAAGAAAATAATGCAAATACAAAGATGTTTACATA
18315657 CATGTATGCA
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
142 3 0.03
143 114 0.97
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.26
Consensus pattern (143 bp):
TATATGCAAATACATATATACAATACATAAAGGAAAACAAAAATTCATATCCAAAACTACGTACA
AAATTAAAAAAGCAAAAATTTTCTCAAACAAAGAAAATAATGCAAATACAAAGATGTTTACATAA
ATATATATATATA
Found at i:18317426 original size:19 final size:19
Alignment explanation
Indices: 18317385--18317429 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18317375 GGTAATGAGT
* *
18317385 AAAATAATAATTAAAGATG
1 AAAATAATAATAAAAGATA
18317404 AAAATAATAATAATAAG-TA
1 AAAATAATAATAA-AAGATA
18317423 AAAATAA
1 AAAATAA
18317430 AAAATCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (19 bp):
AAAATAATAATAAAAGATA
Found at i:18318050 original size:25 final size:25
Alignment explanation
Indices: 18318021--18318074 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
18318011 TTCTGGGAGT
*
18318021 GAAAAAATTTT-TAGAAATTTTTGG
1 GAAAAAATTTTCTAGAAATTTCTGG
* *
18318045 CGAAAAATTTTTCTGGAAATTTCTGG
1 -GAAAAAATTTTCTAGAAATTTCTGG
18318071 GAAA
1 GAAA
18318075 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.37
Consensus pattern (25 bp):
GAAAAAATTTTCTAGAAATTTCTGG
Found at i:18318612 original size:4 final size:4
Alignment explanation
Indices: 18318571--18318596 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
18318561 TCCAGGTTTT
18318571 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
18318597 AGATTAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:18318636 original size:11 final size:11
Alignment explanation
Indices: 18318620--18318667 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
18318610 TTAATATTCT
*
18318620 TTTTATCTTTA
1 TTTTATTTTTA
18318631 TTTTATTTTTA
1 TTTTATTTTTA
*
18318642 TTTTGTTTTTTA
1 TTTT-ATTTTTA
*
18318654 TTTT-TATTTA
1 TTTTATTTTTA
18318664 TTTT
1 TTTT
18318668 CACTTTCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 9 0.27
11 14 0.42
12 10 0.30
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:18318640 original size:6 final size:6
Alignment explanation
Indices: 18318619--18318662 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
18318609 TTTAATATTC
*
18318619 TTTTTA TCTTTA -TTTTA TTTTTA TTTTGT- TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA TTT
18318663 ATTTTCACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 5 0.15
6 27 0.82
7 1 0.03
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:18318679 original size:29 final size:29
Alignment explanation
Indices: 18318619--18318681 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
18318609 TTTAATATTC
* **
18318619 TTTTTATCTTTATTTTATTTTTATTTTGT
1 TTTTTATCTTTATTTTATTTTCATTTCAT
*
18318648 TTTTTATTTTTA-TTTATTTTCACTTTCAT
1 TTTTTATCTTTATTTTATTTTCA-TTTCAT
18318677 TTTTT
1 TTTTT
18318682 TCATTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 9 0.31
29 20 0.69
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (29 bp):
TTTTTATCTTTATTTTATTTTCATTTCAT
Found at i:18318786 original size:59 final size:59
Alignment explanation
Indices: 18318709--18319364 Score: 778
Period size: 59 Copynumber: 11.0 Consensus size: 59
18318699 TTTCTTTAAA
18318709 TAAAAATCAAAATTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT--AAATTTTCAAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
* **** * **
18318771 TAAAAATAAA-GTTC--AAAAAGGGGTTTTTGAGGAAAAATTGAAAGTATCAATTTTTTT
1 TAAAAATAAATTTTCAAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT
*
18318828 TGAAAATCAAAATTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT--AAATTTTCAAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT
* * *
18318890 TAAGAATAAATTTTC--AAAAAAATATTTTTGGGGTAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAATAAATTTTCAAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
* *
18318948 TAAAAATAAA-TTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAATAAATTTTCAAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
* *
18319007 TGAAATTCAAAATTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT--AAATTTTCAAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT
* * * *
18319069 TAAAAATAAA-TTTCCAAAAAATATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCTT
1 TAAAAATAAATTTTCAAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
* **
18319128 TAGAAATAAATTTTC-AAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT
* *
18319187 TGAAAATCAAAATTTCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT-AAATTTTCAAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT
* ***
18319248 TAGAAATAAATTTTC-AAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCT
*
18319307 TGAAAATCGAAATTTTC---AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCC
1 TAAAAAT--AAATTTTCAAAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCC
18319365 CTACACAAAA
Statistics
Matches: 515, Mismatches: 56, Indels: 49
0.83 0.09 0.08
Matches are distributed among these distances:
56 1 0.00
57 44 0.09
58 51 0.10
59 227 0.44
60 36 0.07
61 57 0.11
62 99 0.19
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (59 bp):
TAAAAATAAATTTTCAAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:18318969 original size:120 final size:118
Alignment explanation
Indices: 18318711--18319364 Score: 817
Period size: 120 Copynumber: 5.5 Consensus size: 118
18318701 TCTTTAAATA
* *
18318711 AAAATCAAAATTTTCAAAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
1 AAAATC-AAA-TTTCCAAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAG
* ** * * **
18318775 AATAAA-GTTCAAAAAGGGGTTTTTGAGGAAAAATTGAAAGTATCAATTTTTTTTG
63 AATAAATTTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
18318830 AAAATCAAAATTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGA
1 AAAATC-AAA-TTTCCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGA
* * * * *
18318895 ATAAATTTTCAAAAAAATATTTTTGGGGTAAAGTTGAAAGTATCAATTTTTCTTA
64 ATAAATTTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
18318950 AAAAT-AAATTTCCAAAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCTTGAA-A
1 AAAATCAAATTTCCAAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTT-AAGA
* * *
18319012 TTCAAAATTTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTA
64 AT--AAATTTTC--AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * *
18319071 AAAAT-AAATTTCCAAAAAATATATTTTTGGGGAAAAGTTAAAAGTATCAATTTT-CTTTAGAAA
1 AAAATCAAATTTCCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AA
*
18319134 TAAATTTTCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
65 TAAATTTTC-AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
18319189 AAAATCAAAATTTCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAA
1 AAAATC-AAATTTCCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-A
*
18319253 ATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
64 ATAAATTTTCAAAAAAA-GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
18319309 AAAATCGAAATTTTC--AAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAATC-AAATTTCCAAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCC
18319365 CTACACAAAA
Statistics
Matches: 488, Mismatches: 31, Indels: 33
0.88 0.06 0.06
Matches are distributed among these distances:
116 1 0.00
117 49 0.10
118 92 0.19
119 91 0.19
120 158 0.32
121 97 0.20
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (118 bp):
AAAATCAAATTTCCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAT
AAATTTTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:18319026 original size:179 final size:178
Alignment explanation
Indices: 18318718--18319362 Score: 924
Period size: 179 Copynumber: 3.6 Consensus size: 178
18318708 ATAAAAATCA
* *
18318718 AAATTTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-G
1 AAATTTTC--AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATT
** * * *
18318782 TTCAAAAAGGGGTTTTTGAGGAAAAATTGAAAGTATCAATTTTTTTTGAAAATCAAAATTTTCAA
64 TTCAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTCAA
18318847 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAT
129 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAT
* * *
18318897 AAATTTTCAAAAAAATATTTTTGGGGTAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTC
1 AAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* *
18318962 CAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTCAAAATTTTCAA
66 CAAAAAAAGAT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTCAA
*
18319026 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
129 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAT
* * * *
18319076 AAATTTCCAAAAAATATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCTTTAGAAATAAATTT
1 AAATTTTCAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
* *
18319141 TCAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAA-TTTCAA
65 TC-AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTCAA
*
18319205 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT
129 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AAT
** * *
18319255 AAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAAT
1 AAATTTTCAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAAT
*
18319320 TTTC-AAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTT
63 TTTCAAAAAAAGATTTTTGAG-GAAAAGTTGAAAGTATCAATTTT
18319363 CCCTACACAA
Statistics
Matches: 419, Mismatches: 36, Indels: 22
0.88 0.08 0.05
Matches are distributed among these distances:
177 51 0.12
178 15 0.04
179 249 0.59
180 83 0.20
181 20 0.05
182 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (178 bp):
AAATTTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
CAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTCAAAA
AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAT
Found at i:18321673 original size:6 final size:6
Alignment explanation
Indices: 18321662--18321686 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18321652 ATTTTGAAGT
18321662 ATTAAA ATTAAA ATTAAA ATTAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA A
18321687 AGATAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATTAAA
Found at i:18323118 original size:23 final size:24
Alignment explanation
Indices: 18323071--18323118 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
18323061 AAAGAATTTC
* * *
18323071 ATTTGTCTAGTTTTTAGAGAGAGA
1 ATTTGCCTAGTTTTTAGAAAAAGA
18323095 ATTTGCCTAG-TTTTAGAAAAAGA
1 ATTTGCCTAGTTTTTAGAAAAAGA
18323118 A
1 A
18323119 AAAGAATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (24 bp):
ATTTGCCTAGTTTTTAGAAAAAGA
Found at i:18330467 original size:65 final size:63
Alignment explanation
Indices: 18330349--18330521 Score: 154
Period size: 65 Copynumber: 2.6 Consensus size: 63
18330339 TAGCAAATGT
* * ** * *
18330349 ATAATAACATAATAGTAAATTATTGATAATTTTATTGTAAATTAGTGATAATTTAGATA-AAATC
1 ATAATAAC-TTATATTAAATTAAAGATAA-TTTATAGTAAATTAGTGACAATTTA-ATAGAAATC
18330413 A
63 A
18330414 ATAATAACTTTATATTAAATTAAAGATAATTGTATAGTAAATTA-TGGACAATTTAATAGTAAAT
1 ATAATAAC-TTATATTAAATTAAAGATAATT-TATAGTAAATTAGT-GACAATTTAATAG-AAAT
*
18330478 TA
62 CA
* *
18330480 GTAATAACTTA-ATTATAAATAAATGATAATTTAATAGTAAAT
1 ATAATAACTTATATTA-AATTAAA-GATAATTT-ATAGTAAAT
18330522 AATTAATAAC
Statistics
Matches: 91, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
64 10 0.11
65 53 0.58
66 28 0.31
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.39
Consensus pattern (63 bp):
ATAATAACTTATATTAAATTAAAGATAATTTATAGTAAATTAGTGACAATTTAATAGAAATCA
Found at i:18330491 original size:22 final size:21
Alignment explanation
Indices: 18330343--18330543 Score: 77
Period size: 22 Copynumber: 9.2 Consensus size: 21
18330333 ATATAGTAGC
*
18330343 AAATGTATAATAACATAATAGT
1 AAAT-TATAATAACTTAATAGT
* * * *
18330365 AAATTATTGATAATTTTATTGT
1 AAATTA-TAATAACTTAATAGT
* *
18330387 AAATTAGTGATAATTTAGATA--
1 AAATTA-TAATAACTTA-ATAGT
* * *
18330408 AAATCAATAATAACTTTATATT
1 AAAT-TATAATAACTTAATAGT
* *
18330430 AAATTAAAGATAA-TTGTATAGT
1 AAATTATA-ATAACTT-AATAGT
* * *
18330452 AAATTATGGACAATTTAATAGT
1 AAATTAT-AATAACTTAATAGT
18330474 AAATTAGTAATAACTTAATTA-T
1 AAATTA-TAATAACTTAA-TAGT
* * *
18330496 AAATAAATGATAATTTAATAGT
1 AAAT-TATAATAACTTAATAGT
* **
18330518 AAATAATTAATAACTTTTTAGT
1 AAATTA-TAATAACTTAATAGT
18330540 AAAT
1 AAAT
18330544 CAATAGCAAT
Statistics
Matches: 136, Mismatches: 29, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
20 3 0.02
21 21 0.15
22 104 0.76
23 8 0.06
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (21 bp):
AAATTATAATAACTTAATAGT
Found at i:18330765 original size:21 final size:22
Alignment explanation
Indices: 18330740--18330910 Score: 86
Period size: 22 Copynumber: 7.9 Consensus size: 22
18330730 ATTAATTAAC
18330740 AGTAGTAAATCAAT-ATAATTT
1 AGTAGTAAATCAATGATAATTT
*
18330761 AGTAGCAAATCAATGATAATTT
1 AGTAGTAAATCAATGATAATTT
* * * *
18330783 AATATTAAAT-TATGCATAAGTT
1 AGTAGTAAATCAATG-ATAATTT
* * * *
18330805 AATA-TAAATCATTAATAACTT
1 AGTAGTAAATCAATGATAATTT
* ** * *
18330826 AATAGTGCATC-ATAGACACTTT
1 AGTAGTAAATCAAT-GATAATTT
**
18330848 AGT-GATAAATTGATGATAATTT
1 AGTAG-TAAATCAATGATAATTT
* *
18330870 A-TAGTAAAT-AATTGAAAATTA
1 AGTAGTAAATCAA-TGATAATTT
*
18330891 AGTAGTACATCAATGATAAT
1 AGTAGTAAATCAATGATAAT
18330911 ATAATAATAA
Statistics
Matches: 111, Mismatches: 28, Indels: 21
0.69 0.17 0.13
Matches are distributed among these distances:
20 1 0.01
21 47 0.42
22 59 0.53
23 4 0.04
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (22 bp):
AGTAGTAAATCAATGATAATTT
Found at i:18330782 original size:22 final size:21
Alignment explanation
Indices: 18330740--18330783 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
18330730 ATTAATTAAC
*
18330740 AGTAGTAAATCAATATAATTT
1 AGTAGCAAATCAATATAATTT
18330761 AGTAGCAAATCAATGATAATTT
1 AGTAGCAAATCAAT-ATAATTT
18330783 A
1 A
18330784 ATATTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (21 bp):
AGTAGCAAATCAATATAATTT
Found at i:18330792 original size:22 final size:21
Alignment explanation
Indices: 18330745--18330829 Score: 66
Period size: 21 Copynumber: 4.0 Consensus size: 21
18330735 TTAACAGTAG
*
18330745 TAAATCAAT-ATAATTTAGTA
1 TAAATCAATGATAATTTAATA
*
18330765 GCAAATCAATGATAATTTAATA
1 -TAAATCAATGATAATTTAATA
* *
18330787 TTAAAT-TATGCATAAGTTAATA
1 -TAAATCAATG-ATAATTTAATA
* * *
18330809 TAAATCATTAATAACTTAATA
1 TAAATCAATGATAATTTAATA
18330830 GTGCATCATA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
21 26 0.51
22 25 0.49
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (21 bp):
TAAATCAATGATAATTTAATA
Found at i:18330963 original size:22 final size:22
Alignment explanation
Indices: 18330845--18330968 Score: 65
Period size: 22 Copynumber: 5.7 Consensus size: 22
18330835 TCATAGACAC
*
18330845 TTTAGTGATAAATTGA-TGATAA
1 TTTAGTAATAAATT-ATTGATAA
* * *
18330867 TTTA-TAGTAAATAATTGAAAA
1 TTTAGTAATAAATTATTGATAA
* * * * *
18330888 TTAAGTAGTACATCAATGATAA
1 TTTAGTAATAAATTATTGATAA
* * * *
18330910 TATAATAATAAA-TATATAAAAA
1 TTTAGTAATAAATTAT-TGATAA
* **
18330932 TATAACAATAAATTATTGATAA
1 TTTAGTAATAAATTATTGATAA
18330954 TTTAGTAATAAATTA
1 TTTAGTAATAAATTA
18330969 ATAACTTTAT
Statistics
Matches: 74, Mismatches: 24, Indels: 8
0.70 0.23 0.08
Matches are distributed among these distances:
20 1 0.01
21 15 0.20
22 55 0.74
23 3 0.04
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (22 bp):
TTTAGTAATAAATTATTGATAA
Found at i:18331098 original size:22 final size:22
Alignment explanation
Indices: 18331051--18331098 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
18331041 AGTAGTAAAT
* * *
18331051 TAGTTAATCATTGATAATTTTT
1 TAGTGAATCATTGATAAATTTG
18331073 TAGTGAATCATT-AGTAAATTTG
1 TAGTGAATCATTGA-TAAATTTG
18331095 TAGT
1 TAGT
18331099 AAATAAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (22 bp):
TAGTGAATCATTGATAAATTTG
Found at i:18331190 original size:22 final size:22
Alignment explanation
Indices: 18331157--18331289 Score: 88
Period size: 22 Copynumber: 6.1 Consensus size: 22
18331147 CACTAACAAT
*
18331157 TTAATA-TAAATCATTTATAAC
1 TTAATAGTAAATCATTCATAAC
* *
18331178 TTAATGGTAAATCATTCATAAA
1 TTAATAGTAAATCATTCATAAC
* ** * * *
18331200 TTAAAAAAAAATTATTGATAAT
1 TTAATAGTAAATCATTCATAAC
* * *
18331222 TTAGTATTAAATCATCCATAAC
1 TTAATAGTAAATCATTCATAAC
* * * *
18331244 TTAGTAGTAAATAATTTATAAT
1 TTAATAGTAAATCATTCATAAC
* * *
18331266 TTAATTGTTAATCATTAATAAC
1 TTAATAGTAAATCATTCATAAC
18331288 TT
1 TT
18331290 TTTTGTACTT
Statistics
Matches: 82, Mismatches: 29, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
21 5 0.06
22 77 0.94
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (22 bp):
TTAATAGTAAATCATTCATAAC
Found at i:18331600 original size:22 final size:22
Alignment explanation
Indices: 18331568--18331796 Score: 95
Period size: 22 Copynumber: 10.6 Consensus size: 22
18331558 CATTAATATC
* *
18331568 TTAATAATAAATTAATGATAAT
1 TTAATAGTAAATTAATAATAAT
*** **
18331590 TTAATAGTAAACGGATTTTAAT
1 TTAATAGTAAATTAATAATAAT
*
18331612 TTAGTAGT-AATTAATTAATAAAT
1 TTAATAGTAAATTAA-TAAT-AAT
* *
18331635 TTAGTAGTAAA-TCATAAATAAT
1 TTAATAGTAAATTAAT-AATAAT
* * *
18331657 TTAATAGTTAATCAATAATAGT
1 TTAATAGTAAATTAATAATAAT
* * * * *
18331679 TTAGTAGTTAATCATTAAAAAT
1 TTAATAGTAAATTAATAATAAT
* * * *
18331701 TTAAAAATAAATCAAT-ATAAC
1 TTAATAGTAAATTAATAATAAT
*
18331722 TTAATAGT-AATTAATTATCAA-
1 TTAATAGTAAATTAATAAT-AAT
*
18331743 -TAACT--TAATAGT-A-AATAAT
1 TTAA-TAGTAA-ATTAATAATAAT
18331762 TTAATAGTAAATT-ATAAATAAT
1 TTAATAGTAAATTAAT-AATAAT
18331784 TTAATA-TAAATTA
1 TTAATAGTAAATTA
18331797 GTGATAACTT
Statistics
Matches: 155, Mismatches: 35, Indels: 34
0.69 0.16 0.15
Matches are distributed among these distances:
18 2 0.01
19 4 0.03
20 17 0.11
21 26 0.17
22 86 0.55
23 18 0.12
24 2 0.01
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (22 bp):
TTAATAGTAAATTAATAATAAT
Found at i:18331657 original size:45 final size:45
Alignment explanation
Indices: 18331608--18331754 Score: 122
Period size: 44 Copynumber: 3.3 Consensus size: 45
18331598 AAACGGATTT
* *
18331608 TAATTTAGTAG-TAATTAATTAATAAATTTAGTAGTAAATCA-TAAA
1 TAATTTAATAGTTAATCAA-TAAT-AATTTAGTAGTAAATCATTAAA
* *
18331653 TAATTTAATAGTTAATCAATAATAGTTTAGTAGTTAATCATTAAA
1 TAATTTAATAGTTAATCAATAATAATTTAGTAGTAAATCATTAAA
* * * * * * *
18331698 -AATTTAAAAATAAATCAAT-ATAACTTAATAGTAATTAATTATCAA
1 TAATTTAATAGTTAATCAATAATAATTTAGTAGTAAATCATTA--AA
*
18331743 TAACTTAATAGT
1 TAATTTAATAGT
18331755 AAATAATTTA
Statistics
Matches: 81, Mismatches: 16, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
43 16 0.20
44 31 0.38
45 20 0.25
46 14 0.17
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (45 bp):
TAATTTAATAGTTAATCAATAATAATTTAGTAGTAAATCATTAAA
Found at i:18331759 original size:15 final size:15
Alignment explanation
Indices: 18331741--18331773 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18331731 ATTAATTATC
18331741 AATAACTTAATAGTA
1 AATAACTTAATAGTA
*
18331756 AATAATTTAATAGTA
1 AATAACTTAATAGTA
18331771 AAT
1 AAT
18331774 TATAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (15 bp):
AATAACTTAATAGTA
Found at i:18331915 original size:22 final size:22
Alignment explanation
Indices: 18331885--18331926 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18331875 TAGCAGATTA
*
18331885 ATAACAACATATTAATAAATGC
1 ATAACAACATAATAATAAATGC
*
18331907 ATAATAACATAATAATAAAT
1 ATAACAACATAATAATAAAT
18331927 TATTGATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (22 bp):
ATAACAACATAATAATAAATGC
Found at i:18331935 original size:22 final size:22
Alignment explanation
Indices: 18331910--18331957 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
18331900 TAAATGCATA
18331910 ATAACATA-ATAATAAATTATTG
1 ATAACATAGAT-ATAAATTATTG
**
18331932 ATAATTTAGATATAAATTATTG
1 ATAACATAGATATAAATTATTG
18331954 ATAA
1 ATAA
18331958 TTTAGTAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (22 bp):
ATAACATAGATATAAATTATTG
Found at i:18331958 original size:22 final size:22
Alignment explanation
Indices: 18331921--18331962 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
18331911 TAACATAATA
18331921 ATAAATTATTGATAATTTAGAT
1 ATAAATTATTGATAATTTAGAT
18331943 ATAAATTATTGATAATTTAG
1 ATAAATTATTGATAATTTAG
18331963 TAGCAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (22 bp):
ATAAATTATTGATAATTTAGAT
Found at i:18331970 original size:22 final size:21
Alignment explanation
Indices: 18331923--18331985 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
18331913 ACATAATAAT
*
18331923 AAATTATTGATAATTTAGATAT
1 AAATTATTGATAATTTAG-TAC
18331945 AAATTATTGATAATTTAGTAGC
1 AAATTATTGATAATTTAGTA-C
* * *
18331967 AAATAATTAATAACTTAGT
1 AAATTATTGATAATTTAGT
18331986 TGTAAAGCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 2 0.06
22 34 0.94
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (21 bp):
AAATTATTGATAATTTAGTAC
Found at i:18332139 original size:66 final size:66
Alignment explanation
Indices: 18332054--18332211 Score: 169
Period size: 66 Copynumber: 2.4 Consensus size: 66
18332044 CATCGATAAA
** * * * *
18332054 TTAATAGTAAATCGGTTATAACTTTA-TAATAGATCA-TAAGTAATTTAGTAGTAAAT-TATCAA
1 TTAATAGTAAATCATTTATAA-TTTAGTAAAAAATCATTAA-TAAATTAGTAGTAAATCAAT-AA
18332116 CAAT
63 CAAT
* **
18332120 TTAATAGTAAATCATTTATAATTTAGTAAAAAATCATTCATAAATTAGTAGTAAATCAATATTAA
1 TTAATAGTAAATCATTTATAATTTAGTAAAAAATCATTAATAAATTAGTAGTAAATCAATAACAA
18332185 T
66 T
* *
18332186 TTATTAGTAAATCATTGATAATTTAG
1 TTAATAGTAAATCATTTATAATTTAG
18332212 CAATATATTA
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
65 4 0.05
66 70 0.90
67 4 0.05
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (66 bp):
TTAATAGTAAATCATTTATAATTTAGTAAAAAATCATTAATAAATTAGTAGTAAATCAATAACAA
T
Found at i:18332142 original size:22 final size:22
Alignment explanation
Indices: 18332027--18332210 Score: 104
Period size: 22 Copynumber: 8.4 Consensus size: 22
18332017 TTAATTATTG
* * **
18332027 ATAATTTTATAATAAATCATCG
1 ATAATTTAATAGTAAATCATTT
* **
18332049 ATAAATTAATAGTAAATCGGTT
1 ATAATTTAATAGTAAATCATTT
* * *
18332071 ATAACTTT-ATAATAGATCA-TA
1 ATAA-TTTAATAGTAAATCATTT
* * **
18332092 AGTAATTTAGTAGTAAATTATCA
1 A-TAATTTAATAGTAAATCATTT
*
18332115 ACAATTTAATAGTAAATCATTT
1 ATAATTTAATAGTAAATCATTT
* ** *
18332137 ATAATTTAGTAAAAAATCATTC
1 ATAATTTAATAGTAAATCATTT
* * *
18332159 ATAAATTAGTAGTAAATCA-AT
1 ATAATTTAATAGTAAATCATTT
* *
18332180 ATTAATTTATTAGTAAATCATTG
1 A-TAATTTAATAGTAAATCATTT
18332203 ATAATTTA
1 ATAATTTA
18332211 GCAATATATT
Statistics
Matches: 120, Mismatches: 36, Indels: 12
0.71 0.21 0.07
Matches are distributed among these distances:
21 6 0.05
22 109 0.91
23 5 0.04
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.40
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCATTT
Found at i:18332224 original size:22 final size:22
Alignment explanation
Indices: 18332193--18332273 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 22
18332183 AATTTATTAG
*
18332193 TAAATCATTGATAATTTAGCAA
1 TAAATTATTGATAATTTAGCAA
* ** * *
18332215 TATATTATTGATAGCTTAGTAG
1 TAAATTATTGATAATTTAGCAA
*
18332237 TAAATTATTGATAA--TA-TAA
1 TAAATTATTGATAATTTAGCAA
*
18332256 TAAATTAATGATAATTTA
1 TAAATTATTGATAATTTA
18332274 ATTATCAATC
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
19 15 0.32
20 2 0.04
21 2 0.04
22 28 0.60
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (22 bp):
TAAATTATTGATAATTTAGCAA
Found at i:18332234 original size:66 final size:66
Alignment explanation
Indices: 18332117--18332241 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 66
18332107 AATTATCAAC
* *
18332117 AATTTAATAGTAAATCATTTATAATTTAGTAAAAAATCATTCATAAATTAGTAGTAAATCAATAT
1 AATTTAATAGTAAATCATTGATAATTTAGCAAAAAATCATTCATAAATTAGTAGTAAATCAATAT
18332182 T
66 T
* * * * * **
18332183 AATTTATTAGTAAATCATTGATAATTTAGCAATATATTATTGATAGCTTAGTAGTAAAT
1 AATTTAATAGTAAATCATTGATAATTTAGCAAAAAATCATTCATAAATTAGTAGTAAAT
18332242 TATTGATAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 50 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.41
Consensus pattern (66 bp):
AATTTAATAGTAAATCATTGATAATTTAGCAAAAAATCATTCATAAATTAGTAGTAAATCAATAT
T
Found at i:18332261 original size:19 final size:19
Alignment explanation
Indices: 18332237--18332275 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
18332227 AGCTTAGTAG
*
18332237 TAAATTATTGATAATATAA
1 TAAATTAATGATAATATAA
*
18332256 TAAATTAATGATAATTTAA
1 TAAATTAATGATAATATAA
18332275 T
1 T
18332276 TATCAATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
TAAATTAATGATAATATAA
Found at i:18332645 original size:21 final size:22
Alignment explanation
Indices: 18332614--18332668 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
18332604 ATCAAAATTT
*
18332614 TATCAATAGTTACTAAAATT-A
1 TATCAAAAGTTACTAAAATTAA
* * *
18332635 TATTACAAGTTA-TCAAATTAA
1 TATCAAAAGTTACTAAAATTAA
18332656 TATCAAAAGTTAC
1 TATCAAAAGTTAC
18332669 CAATATTGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.36
Consensus pattern (22 bp):
TATCAAAAGTTACTAAAATTAA
Found at i:18332749 original size:21 final size:20
Alignment explanation
Indices: 18332723--18332761 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18332713 GATTACTTTG
18332723 TATCAAAGTTTACCAAAATTT
1 TATCAAAG-TTACCAAAATTT
*
18332744 TATCAAAGTTATCAAAAT
1 TATCAAAGTTACCAAAAT
18332762 CAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (20 bp):
TATCAAAGTTACCAAAATTT
Found at i:18333635 original size:22 final size:23
Alignment explanation
Indices: 18333610--18333673 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
18333600 GTTGATAAAT
18333610 TTTTTTTTTTATATTTA-TTGTA
1 TTTTTTTTTTATATTTATTTGTA
* *
18333632 TTTTGTTTATT-TATTTATTTGTT
1 TTTT-TTTTTTATATTTATTTGTA
*
18333655 TGTTTTATTTTTATTTTTA
1 T-TTTT-TTTTTATATTTA
18333674 CGCATATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
22 10 0.30
23 11 0.33
24 7 0.21
25 5 0.15
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (23 bp):
TTTTTTTTTTATATTTATTTGTA
Found at i:18333664 original size:17 final size:17
Alignment explanation
Indices: 18333621--18333655 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
18333611 TTTTTTTTTA
18333621 TATTTATTGTATTTTGTT
1 TATTTATT-TATTTTGTT
18333639 TATTTATTTA-TTTGTT
1 TATTTATTTATTTTGTT
18333655 T
1 T
18333656 GTTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 2 0.12
18 8 0.47
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (17 bp):
TATTTATTTATTTTGTT
Found at i:18335681 original size:17 final size:18
Alignment explanation
Indices: 18335659--18335693 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18335649 TTGAGATTTA
18335659 ATTCTTTT-TATTCTTTT
1 ATTCTTTTCTATTCTTTT
*
18335676 ATTCTTTTCTTTTCTTTT
1 ATTCTTTTCTATTCTTTT
18335694 GTTTTTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (18 bp):
ATTCTTTTCTATTCTTTT
Found at i:18336638 original size:26 final size:25
Alignment explanation
Indices: 18336584--18336639 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
18336574 TTTAACTCAC
* **
18336584 TTTTTTTTTTTTTCTTTACTTTTTT
1 TTTTTTTTTTTTTATTTACTTTTCA
18336609 TTTTTTCTTTTTTTATATT-CTTTTCA
1 TTTTTT-TTTTTTTAT-TTACTTTTCA
18336635 TTTTT
1 TTTTT
18336640 CTACTCTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 6 0.23
26 18 0.69
27 2 0.08
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (25 bp):
TTTTTTTTTTTTTATTTACTTTTCA
Found at i:18337171 original size:7 final size:7
Alignment explanation
Indices: 18337159--18337210 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
18337149 ATGAGCTAAT
18337159 TTTTTTA
1 TTTTTTA
18337166 TTTTTTA
1 TTTTTTA
* *
18337173 TCTTTCA
1 TTTTTTA
18337180 TTTTTT-
1 TTTTTTA
18337186 TATTTTTA
1 T-TTTTTA
*
18337194 GTTTTTA
1 TTTTTTA
18337201 TATTTTTA
1 T-TTTTTA
18337209 TT
1 TT
18337211 AGATAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
6 1 0.03
7 28 0.78
8 7 0.19
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:18337193 original size:21 final size:21
Alignment explanation
Indices: 18337157--18337210 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
18337147 CAATGAGCTA
18337157 ATTTTTTTATTTTTTA-TCTTTC
1 ATTTTTTTA-TTTTTAGT-TTTC
*
18337179 ATTTTTTTATTTTTAGTTTTT
1 ATTTTTTTATTTTTAGTTTTC
*
18337200 ATATTTTTATT
1 ATTTTTTTATT
18337211 AGATAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.78
Consensus pattern (21 bp):
ATTTTTTTATTTTTAGTTTTC
Found at i:18337198 original size:15 final size:14
Alignment explanation
Indices: 18337160--18337210 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
18337150 TGAGCTAATT
18337160 TTTTTA-TTTTTTA
1 TTTTTATTTTTTTA
*
18337173 TCTTTCATTTTTTTA
1 T-TTTTATTTTTTTA
*
18337188 TTTTTAGTTTTTATA
1 TTTTTA-TTTTTTTA
18337203 TTTTTATT
1 TTTTTATT
18337211 AGATAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 1 0.03
14 10 0.31
15 21 0.66
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:18338338 original size:12 final size:12
Alignment explanation
Indices: 18338313--18338360 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
18338303 TACGACATCA
* *
18338313 ACATATATATAT
1 ACATACATACAT
18338325 ACATACATACAT
1 ACATACATACAT
18338337 ACATACATACAT
1 ACATACATACAT
* *
18338349 ATACACATACAT
1 ACATACATACAT
18338361 GTATATACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (12 bp):
ACATACATACAT
Found at i:18338366 original size:16 final size:16
Alignment explanation
Indices: 18338337--18338383 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
18338327 ATACATACAT
**
18338337 ACATACATACATATAC
1 ACATACATGTATATAC
18338353 ACATACATGTATATAC
1 ACATACATGTATATAC
* *
18338369 ATATATATGTATATA
1 ACATACATGTATATA
18338384 GCTACCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (16 bp):
ACATACATGTATATAC
Found at i:18338375 original size:8 final size:8
Alignment explanation
Indices: 18338313--18338360 Score: 60
Period size: 8 Copynumber: 6.0 Consensus size: 8
18338303 TACGACATCA
*
18338313 ACATATAT
1 ACATACAT
*
18338321 ATATACAT
1 ACATACAT
18338329 ACATACAT
1 ACATACAT
18338337 ACATACAT
1 ACATACAT
* *
18338345 ACATATAC
1 ACATACAT
18338353 ACATACAT
1 ACATACAT
18338361 GTATATACAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (8 bp):
ACATACAT
Found at i:18340503 original size:54 final size:54
Alignment explanation
Indices: 18340400--18340505 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 54
18340390 TTAAAGTTGT
* * * ** *
18340400 TTATAATTGTAAGTATGTTAATTCGTAAATATATATAAGTATATAAATATATGC
1 TTATAATTATAAGAATGTTAATTCGCAAATATATATAACAAAATAAATATATGC
* *
18340454 TTATAGTTATAAGAATGTTAATAT-GCAAATATATATAACAAAATGAATATAT
1 TTATAATTATAAGAATGTTAAT-TCGCAAATATATATAACAAAATAAATATAT
18340506 TAAATAATTG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 42 0.98
55 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (54 bp):
TTATAATTATAAGAATGTTAATTCGCAAATATATATAACAAAATAAATATATGC
Found at i:18341193 original size:2 final size:2
Alignment explanation
Indices: 18341186--18341211 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18341176 TAAAAATAAC
18341186 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18341212 TTCAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18341719 original size:23 final size:23
Alignment explanation
Indices: 18341685--18341743 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
18341675 TATAAATTAA
18341685 ATAAAT-TTAAATGAATATATGT
1 ATAAATATTAAATGAATATATGT
* *
18341707 ATAAATATTAAATGAATATTTTT
1 ATAAATATTAAATGAATATATGT
*
18341730 ATGAATATATAAAT
1 ATAAATAT-TAAAT
18341744 AAATTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 6 0.19
23 21 0.66
24 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (23 bp):
ATAAATATTAAATGAATATATGT
Found at i:18341921 original size:21 final size:21
Alignment explanation
Indices: 18341896--18341949 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
18341886 ATATAATTTT
* *
18341896 AATTTTGATAATCTTTGTTAA
1 AATTTTGATAATATTTGATAA
*
18341917 AATTTTGATAAAATTTGATAA
1 AATTTTGATAATATTTGATAA
*
18341938 AATTTTAATAAT
1 AATTTTGATAAT
18341950 TTTCAATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (21 bp):
AATTTTGATAATATTTGATAA
Found at i:18341924 original size:48 final size:48
Alignment explanation
Indices: 18341841--18341946 Score: 117
Period size: 48 Copynumber: 2.2 Consensus size: 48
18341831 ACTAATAATT
** *
18341841 TAATTTTAATTTTGGTATAATATAAGTAAAATTTGATAATTTTTTATA
1 TAATTTTAATTTTGGTATAATATAAGTAAAATTTGATAAAATTTGATA
* **
18341889 TAATTTTAATTTT-G-ATAATCTTTGTTAAAATTTTGATAAAATTTGATA
1 TAATTTTAATTTTGGTATAATATAAG-TAAAA-TTTGATAAAATTTGATA
*
18341937 AAATTTTAAT
1 TAATTTTAAT
18341947 AATTTTCAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
46 7 0.14
47 6 0.12
48 36 0.73
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.52
Consensus pattern (48 bp):
TAATTTTAATTTTGGTATAATATAAGTAAAATTTGATAAAATTTGATA
Found at i:18341928 original size:11 final size:11
Alignment explanation
Indices: 18341896--18341948 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
18341886 ATATAATTTT
18341896 AATTTTGAT--
1 AATTTTGATAA
*
18341905 AATCTTTGTTAA
1 AAT-TTTGATAA
18341917 AATTTTGATAA
1 AATTTTGATAA
18341928 AA-TTTGATAA
1 AATTTTGATAA
*
18341938 AATTTTAATAA
1 AATTTTGATAA
18341949 TTTTCAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 3 0.08
10 15 0.41
11 16 0.43
12 3 0.08
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (11 bp):
AATTTTGATAA
Found at i:18343068 original size:14 final size:14
Alignment explanation
Indices: 18343045--18343076 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
18343035 TATCTTATTA
18343045 ATGAGATAAATCAG
1 ATGAGATAAATCAG
*
18343059 ATGAGGTAAATCAG
1 ATGAGATAAATCAG
18343073 ATGA
1 ATGA
18343077 TATCAGCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (14 bp):
ATGAGATAAATCAG
Found at i:18343729 original size:22 final size:22
Alignment explanation
Indices: 18343679--18343752 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 22
18343669 TGACAAATCA
* *
18343679 ATTG-TAACATAGTAGCAAATGT
1 ATTGATAATATAGTAGTAAAT-T
*
18343701 A-TAATAATATAGTAGTAAATT
1 ATTGATAATATAGTAGTAAATT
* *
18343722 ATTGATAATTTTGTTA-TAAATT
1 ATTGATAATATAG-TAGTAAATT
*
18343744 AGTGATAAT
1 ATTGATAAT
18343753 TTAGACAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 3 0.07
22 37 0.88
23 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.41
Consensus pattern (22 bp):
ATTGATAATATAGTAGTAAATT
Found at i:18343884 original size:22 final size:22
Alignment explanation
Indices: 18343834--18344117 Score: 90
Period size: 22 Copynumber: 13.0 Consensus size: 22
18343824 TAAATTCGTG
*
18343834 ATAATTAAATAATAAATTAATA
1 ATAATTTAATAATAAATTAATA
*
18343856 ATAATTTAGTAATAAA-TAATTA
1 ATAATTTAATAATAAATTAA-TA
** * *
18343878 ATAATTTTTTAGTAAATTAGTA
1 ATAATTTAATAATAAATTAATA
* * * **
18343900 GTAATATAATAATATATGCATA
1 ATAATTTAATAATAAATTAATA
* ** * *
18343922 ATACTTTAATGGTAAATCAATT
1 ATAATTTAATAATAAATTAATA
* * * * **
18343944 ATAATATAGTTATAGATGCATA
1 ATAATTTAATAATAAATTAATA
** * * * *
18343966 ATAACATAGTACTAAATCAATG
1 ATAATTTAATAATAAATTAATA
* * * *
18343988 ATAACTTAACAA-AAAATAAGTG
1 ATAATTTAATAATAAATTAA-TA
* * * * *
18344010 ATAACTTAATAGTTAATTATTG
1 ATAATTTAATAATAAATTAATA
** *
18344032 ATAGCTTAATAATAAATCAATA
1 ATAATTTAATAATAAATTAATA
* * * *
18344054 AAAAGTTAATAGTAAATTAGTA
1 ATAATTTAATAATAAATTAATA
* *
18344076 ATAATTTAA-AAGTAAATTAGTT
1 ATAATTTAATAA-TAAATTAATA
*
18344098 TTAATTTAATAAT-AATTAAT
1 ATAATTTAATAATAAATTAAT
18344118 TGACAGTAGT
Statistics
Matches: 187, Mismatches: 69, Indels: 13
0.70 0.26 0.05
Matches are distributed among these distances:
21 15 0.08
22 164 0.88
23 8 0.04
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (22 bp):
ATAATTTAATAATAAATTAATA
Found at i:18344064 original size:11 final size:11
Alignment explanation
Indices: 18344037--18344175 Score: 59
Period size: 11 Copynumber: 12.1 Consensus size: 11
18344027 TATTGATAGC
18344037 TTAATAATAAA
1 TTAATAATAAA
*
18344048 TCAATAA-AAA
1 TTAATAATAAA
*
18344058 GTTAATAGTAAA
1 -TTAATAATAAA
* *
18344070 TTAGTAATAAT
1 TTAATAATAAA
18344081 TTAA-AAGTAAA
1 TTAATAA-TAAA
* ** *
18344092 TTAGTTTTAAT
1 TTAATAATAAA
18344103 TTAATAAT-AA
1 TTAATAATAAA
18344113 TTAATTGACAGTAGTAA
1 TTAA-T-A-A-TA--AA
* *
18344130 ATAATAAGTAAT
1 TTAATAA-TAAA
*
18344142 TTAGTAATAAA
1 TTAATAATAAA
* *
18344153 TCAATGATAAA
1 TTAATAATAAA
18344164 TTAATAATAAA
1 TTAATAATAAA
18344175 T
1 T
18344176 AATTGATAAT
Statistics
Matches: 91, Mismatches: 26, Indels: 22
0.65 0.19 0.16
Matches are distributed among these distances:
10 10 0.11
11 58 0.64
12 10 0.11
13 1 0.01
14 5 0.05
15 1 0.01
16 1 0.01
17 5 0.05
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (11 bp):
TTAATAATAAA
Found at i:18344153 original size:61 final size:61
Alignment explanation
Indices: 18344063--18344181 Score: 134
Period size: 61 Copynumber: 2.0 Consensus size: 61
18344053 AAAAAGTTAA
* * * ** * *
18344063 TAGTAAATTAGTAATAATTTAAAAGTAAATTAGTTTTAATTTAATAATAATTAATTGACAG
1 TAGTAAATTAATAATAATTTAAAAGTAAATCAATGATAAATTAATAATAAATAATTGACAG
*
18344124 TAGTAAA-TAATAAGTAATTTAGTAA-TAAATCAATGATAAATTAATAATAAATAATTGA
1 TAGTAAATTAATAA-TAATTTA-AAAGTAAATCAATGATAAATTAATAATAAATAATTGA
18344182 TAATTTAGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
60 5 0.10
61 41 0.85
62 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (61 bp):
TAGTAAATTAATAATAATTTAAAAGTAAATCAATGATAAATTAATAATAAATAATTGACAG
Found at i:18344198 original size:22 final size:21
Alignment explanation
Indices: 18344122--18344198 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 21
18344112 ATTAATTGAC
* *
18344122 AGTAGTAAATAATAAGTAATTT
1 AGTAATAAATAATGA-TAATTT
*
18344144 AGTAATAAATCAATGATAAATT
1 AGTAATAAAT-AATGATAATTT
*
18344166 AATAATAAATAATTGATAATTT
1 AGTAATAAATAA-TGATAATTT
* *
18344188 AGCAATTAATA
1 AGTAATAAATA
18344199 TTTAAAAACT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.04
22 39 0.87
23 4 0.09
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (21 bp):
AGTAATAAATAATGATAATTT
Found at i:18344633 original size:19 final size:19
Alignment explanation
Indices: 18344586--18344633 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
18344576 AGTTTTTTGG
*
18344586 TGAATTTTTCGACATCGGT
1 TGAATTTTTCGACATCAGT
* * * *
18344605 TAAATCTTTCGACGTTAGT
1 TGAATTTTTCGACATCAGT
18344624 TGAATTTTTC
1 TGAATTTTTC
18344634 TACTAGCTTC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.46
Consensus pattern (19 bp):
TGAATTTTTCGACATCAGT
Found at i:18349443 original size:23 final size:23
Alignment explanation
Indices: 18349417--18349485 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 23
18349407 AATGGATGGG
**
18349417 AAAAGATGAAAAAAAATTTAAAA
1 AAAAGATGAAAAAAAATGAAAAA
*
18349440 AAAAGA--AAAAAAAAAGAAAAA
1 AAAAGATGAAAAAAAATGAAAAA
18349461 ATGAAAGAATGAAAAAAAATGAAAA
1 A--AAAG-ATGAAAAAAAATGAAAA
18349486 TGAGAGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
21 13 0.35
23 10 0.27
24 1 0.03
26 13 0.35
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (23 bp):
AAAAGATGAAAAAAAATGAAAAA
Found at i:18349449 original size:10 final size:11
Alignment explanation
Indices: 18349436--18349485 Score: 55
Period size: 11 Copynumber: 4.2 Consensus size: 11
18349426 AAAAAAATTT
18349436 AAAAAAAAGAA
1 AAAAAAAAGAA
18349447 AAAAAAAAGAA
1 AAAAAAAAGAA
*
18349458 AAAATGAAAGAA
1 AAAA-AAAAGAA
18349470 TGAAAAAAAATGAA
1 --AAAAAAAA-GAA
18349484 AA
1 AA
18349486 TGAGAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
11 15 0.45
12 8 0.24
13 3 0.09
14 7 0.21
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:18350835 original size:21 final size:21
Alignment explanation
Indices: 18350809--18350848 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18350799 ATCTTCAAAC
18350809 TCAAATAAGAATCTTTGAATT
1 TCAAATAAGAATCTTTGAATT
*
18350830 TCAAATGAGAATCTTTGAA
1 TCAAATAAGAATCTTTGAA
18350849 GTGTGAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (21 bp):
TCAAATAAGAATCTTTGAATT
Found at i:18350889 original size:79 final size:79
Alignment explanation
Indices: 18350758--18350905 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 79
18350748 TTCTTAAGTA
* * *
18350758 AGAATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTCAAAT-AAGAATC
1 AGAATCTTTGAAGTGTGAAACACAAAATTTATCGAACGTGAATCTTCAAACTCAAATGAA-AATC
18350822 TTTGAATTTCAAATG
65 TTTGAATTTCAAATG
* * * *
18350837 AGAATCTTTGAAGTGTGAAACACAAAATTTGTTGAACGTGAATTTTTAAACTCAAATGAAAATCT
1 AGAATCTTTGAAGTGTGAAACACAAAATTTATCGAACGTGAATCTTCAAACTCAAATGAAAATCT
18350902 TTGA
66 TTGA
18350906 GGTGTGAAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 59 0.97
80 2 0.03
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (79 bp):
AGAATCTTTGAAGTGTGAAACACAAAATTTATCGAACGTGAATCTTCAAACTCAAATGAAAATCT
TTGAATTTCAAATG
Found at i:18350901 original size:58 final size:58
Alignment explanation
Indices: 18350830--18350964 Score: 198
Period size: 58 Copynumber: 2.3 Consensus size: 58
18350820 TCTTTGAATT
* * * *
18350830 TCAAATGAGAATCTTTGAAGTGTGAAACACAAAATTTGTTGAACGTGAATTTTTAAAC
1 TCAAATGAGAATCTTTGAAGTGTGAAACACAAAATTTATCGAACGTGAATCTTCAAAC
* * * *
18350888 TCAAATGAAAATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAAC
1 TCAAATGAGAATCTTTGAAGTGTGAAACACAAAATTTATCGAACGTGAATCTTCAAAC
18350946 TCAAATGAGAATCTTTGAA
1 TCAAATGAGAATCTTTGAA
18350965 TTTTAAATGA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 67 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (58 bp):
TCAAATGAGAATCTTTGAAGTGTGAAACACAAAATTTATCGAACGTGAATCTTCAAAC
Found at i:18350973 original size:79 final size:79
Alignment explanation
Indices: 18350888--18351063 Score: 298
Period size: 79 Copynumber: 2.2 Consensus size: 79
18350878 ATTTTTAAAC
* *
18350888 TCAAATGAAAATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTCAAATG
1 TCAAATGAAAATCTTTGAGGTGTGAAACCCAAAATTTATCAAACGTGAATCTTCAAACTCAAATG
18350953 AGAATCTTTGAATT
66 AGAATCTTTGAATT
* * *
18350967 TTAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTATCAAACGTGAATCTTTAAACTCAAATG
1 TCAAATGAAAATCTTTGAGGTGTGAAACCCAAAATTTATCAAACGTGAATCTTCAAACTCAAATG
18351032 AGAATCTTTGAATT
66 AGAATCTTTGAATT
*
18351046 TCAAATGAAGATCTTTGA
1 TCAAATGAAAATCTTTGA
18351064 ATCTCAAATG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 89 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (79 bp):
TCAAATGAAAATCTTTGAGGTGTGAAACCCAAAATTTATCAAACGTGAATCTTCAAACTCAAATG
AGAATCTTTGAATT
Found at i:18351012 original size:137 final size:137
Alignment explanation
Indices: 18350760--18351042 Score: 485
Period size: 137 Copynumber: 2.1 Consensus size: 137
18350750 CTTAAGTAAG
18350760 AATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTCAAATAAGAATCTTT
1 AATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTCAAATAAGAATCTTT
* ** *
18350825 GAATTTCAAATGAGAATCTTTGAAGTGTGAAACACAAAATTTGTTGAACGTGAATTTTTAAACTC
66 GAATTTCAAATGAGAATCTTTGAAGTGTGAAACACAAAATTTATCAAACGTGAATCTTTAAACTC
18350890 AAATGAA
131 AAATGAA
*
18350897 AATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTCAAATGAGAATCTTT
1 AATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTCAAATAAGAATCTTT
* * *
18350962 GAATTTTAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTATCAAACGTGAATCTTTAAACTC
66 GAATTTCAAATGAGAATCTTTGAAGTGTGAAACACAAAATTTATCAAACGTGAATCTTTAAACTC
*
18351027 AAATGAG
131 AAATGAA
18351034 AATCTTTGA
1 AATCTTTGA
18351043 ATTTCAAATG
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (137 bp):
AATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTCAAATAAGAATCTTT
GAATTTCAAATGAGAATCTTTGAAGTGTGAAACACAAAATTTATCAAACGTGAATCTTTAAACTC
AAATGAA
Found at i:18351051 original size:21 final size:21
Alignment explanation
Indices: 18351025--18351387 Score: 269
Period size: 21 Copynumber: 17.8 Consensus size: 21
18351015 ATCTTTAAAC
18351025 TCAAATGAGAATCTTTGAATT
1 TCAAATGAGAATCTTTGAATT
*
18351046 TCAAATGA-AGATCTTTGAATC
1 TCAAATGAGA-ATCTTTGAATT
* *
18351067 TCAAATGAGAATGTTTGAATC
1 TCAAATGAGAATCTTTGAATT
18351088 TCAAATGAGAATCTTTGAATT
1 TCAAATGAGAATCTTTGAATT
* *
18351109 TCAAATAAGGATCTTTGAATCT
1 TCAAATGAGAATCTTTGAAT-T
*
18351131 T-AAATGAGAATATTTGAATT
1 TCAAATGAGAATCTTTGAATT
*
18351151 TCAAATAAGAATCTTTG-ATGT
1 TCAAATGAGAATCTTTGAAT-T
* ** *
18351172 GTGAAACCCA-AA-ATTT--A--
1 -TCAAA-TGAGAATCTTTGAATT
* * *
18351189 TCAAATGTGAATCTTCGAA-C
1 TCAAATGAGAATCTTTGAATT
*
18351209 TCAAATGAGAATATTTGAATT
1 TCAAATGAGAATCTTTGAATT
18351230 TCAAATGAGAATCTTTG-ATGT
1 TCAAATGAGAATCTTTGAAT-T
* ** *
18351251 GTGAAACCCA-AA-ATTT--A--
1 -TCAAA-TGAGAATCTTTGAATT
**
18351268 TCAAAT-ATGAATCTTT-AAAC
1 TCAAATGA-GAATCTTTGAATT
*
18351288 TCAAATGAGAATCTTTAAATT
1 TCAAATGAGAATCTTTGAATT
*
18351309 TCAAATGAGAATCTTAGAATT
1 TCAAATGAGAATCTTTGAATT
* *
18351330 TCAAATAAGAATCTTTGAATC
1 TCAAATGAGAATCTTTGAATT
*
18351351 TCAAATGAGAATCTTAGAATT
1 TCAAATGAGAATCTTTGAATT
*
18351372 TCAAATTAGAATCTTT
1 TCAAATGAGAATCTTT
18351388 AATGTGTGAA
Statistics
Matches: 273, Mismatches: 45, Indels: 48
0.75 0.12 0.13
Matches are distributed among these distances:
14 1 0.00
16 12 0.04
17 5 0.02
18 1 0.00
19 1 0.00
20 39 0.14
21 197 0.72
22 15 0.05
23 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (21 bp):
TCAAATGAGAATCTTTGAATT
Found at i:18351201 original size:38 final size:38
Alignment explanation
Indices: 18351159--18351283 Score: 103
Period size: 38 Copynumber: 3.2 Consensus size: 38
18351149 TTTCAAATAA
18351159 GAATCTTTGATGTGTGAAACCCAAAATTTATCAAATGT
1 GAATCTTTGATGTGTGAAACCCAAAATTTATCAAATGT
* ** * ** *
18351197 GAATCTTCGA--ACTCAAA-TGAGAATATTTGAATTTCAAATGA
1 GAATCTTTGATGTGTGAAACCCA-AA-ATTT--A--TCAAATGT
*
18351238 GAATCTTTGATGTGTGAAACCCAAAATTTATCAAATAT
1 GAATCTTTGATGTGTGAAACCCAAAATTTATCAAATGT
18351276 GAATCTTT
1 GAATCTTT
18351284 AAACTCAAAT
Statistics
Matches: 63, Mismatches: 15, Indels: 18
0.66 0.16 0.19
Matches are distributed among these distances:
35 1 0.02
36 6 0.10
37 4 0.06
38 23 0.37
39 1 0.02
40 1 0.02
41 16 0.25
42 4 0.06
43 6 0.10
44 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.34
Consensus pattern (38 bp):
GAATCTTTGATGTGTGAAACCCAAAATTTATCAAATGT
Found at i:18351214 original size:20 final size:21
Alignment explanation
Indices: 18351189--18351244 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
18351179 CCAAAATTTA
*
18351189 TCAAATGTGAATCTTCGAA-C
1 TCAAATGAGAATCTTCGAATC
* * *
18351209 TCAAATGAGAATATTTGAATT
1 TCAAATGAGAATCTTCGAATC
18351230 TCAAATGAGAATCTT
1 TCAAATGAGAATCTT
18351245 TGATGTGTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (21 bp):
TCAAATGAGAATCTTCGAATC
Found at i:18351233 original size:79 final size:79
Alignment explanation
Indices: 18351132--18351323 Score: 330
Period size: 79 Copynumber: 2.4 Consensus size: 79
18351122 TTTGAATCTT
* *
18351132 AAATGAGAATATTTGAATTTCAAATAAGAATCTTTGATGTGTGAAACCCAAAATTTATCAAATGT
1 AAATGAGAATATTTGAATTTCAAATGAGAATCTTTGATGTGTGAAACCCAAAATTTATCAAATAT
*
18351197 GAATCTTCGAACTC
66 GAATCTTCAAACTC
18351211 AAATGAGAATATTTGAATTTCAAATGAGAATCTTTGATGTGTGAAACCCAAAATTTATCAAATAT
1 AAATGAGAATATTTGAATTTCAAATGAGAATCTTTGATGTGTGAAACCCAAAATTTATCAAATAT
*
18351276 GAATCTTTAAACTC
66 GAATCTTCAAACTC
* *
18351290 AAATGAGAATCTTTAAATTTCAAATGAGAATCTT
1 AAATGAGAATATTTGAATTTCAAATGAGAATCTT
18351324 AGAATTTCAA
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 107 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (79 bp):
AAATGAGAATATTTGAATTTCAAATGAGAATCTTTGATGTGTGAAACCCAAAATTTATCAAATAT
GAATCTTCAAACTC
Found at i:18351270 original size:263 final size:263
Alignment explanation
Indices: 18350888--18351387 Score: 824
Period size: 263 Copynumber: 1.9 Consensus size: 263
18350878 ATTTTTAAAC
*
18350888 TCAAATGAAAATCTTTGAGGTGTGAAACCCAAAATTTATCGAATGTGAATCTTCAAACTCAAATG
1 TCAAATGAAAATCTTTGAGGTGTGAAACCCAAAATTTATCAAATGTGAATCTTCAAACTCAAATG
* * *
18350953 AGAATCTTTGAATTTTAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTATCAAACGTGAATC
66 AGAATATTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTATCAAACATGAATC
* * * *
18351018 TTTAAACTCAAATGAGAATCTTTGAATTTCAAATGA-AGATCTTTGAATCTCAAATGAGAATGTT
131 TTTAAACTCAAATGAGAATCTTTAAATTTCAAATGAGA-ATCTTAGAATCTCAAATAAGAATCTT
* *
18351082 TGAATCTCAAATGAGAATCTTTGAATTTCAAATAAGGATCTTTGAATCTTAAATGAGAATATTTG
195 TGAATCTCAAATGAGAATCTTAGAATTTCAAATAAGAATCTTTGAATCTTAAATGAGAATATTTG
18351147 AATT
260 AATT
* *
18351151 TCAAAT-AAGAATCTTTGATGTGTGAAACCCAAAATTTATCAAATGTGAATCTTCGAACTCAAAT
1 TCAAATGAA-AATCTTTGAGGTGTGAAACCCAAAATTTATCAAATGTGAATCTTCAAACTCAAAT
* *
18351215 GAGAATATTTGAATTTCAAATGAGAATCTTTGATGTGTGAAACCCAAAATTTATCAAATATGAAT
65 GAGAATATTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTATCAAACATGAAT
*
18351280 CTTTAAACTCAAATGAGAATCTTTAAATTTCAAATGAGAATCTTAGAATTTCAAATAAGAATCTT
130 CTTTAAACTCAAATGAGAATCTTTAAATTTCAAATGAGAATCTTAGAATCTCAAATAAGAATCTT
*
18351345 TGAATCTCAAATGAGAATCTTAGAATTTCAAATTAGAATCTTT
195 TGAATCTCAAATGAGAATCTTAGAATTTCAAATAAGAATCTTT
18351388 AATGTGTGAA
Statistics
Matches: 219, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
262 2 0.01
263 216 0.99
264 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (263 bp):
TCAAATGAAAATCTTTGAGGTGTGAAACCCAAAATTTATCAAATGTGAATCTTCAAACTCAAATG
AGAATATTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTATCAAACATGAATC
TTTAAACTCAAATGAGAATCTTTAAATTTCAAATGAGAATCTTAGAATCTCAAATAAGAATCTTT
GAATCTCAAATGAGAATCTTAGAATTTCAAATAAGAATCTTTGAATCTTAAATGAGAATATTTGA
ATT
Found at i:18351331 original size:221 final size:217
Alignment explanation
Indices: 18351056--18351489 Score: 638
Period size: 221 Copynumber: 2.0 Consensus size: 217
18351046 TCAAATGAAG
* * * * *
18351056 ATCTTTGAATCTCAAATGAGAATGTTTGAATCTCAAATGAGAATCTTTGAATTTCAAATAAGGAT
1 ATCTTTGAAACTCAAATGAGAATCTTTAAATCTCAAATGAGAATCTTAGAATTTCAAATAAGAAT
* * *
18351121 CTTTGAATCTTAAATGAGAATATTTGAATTTCAAATAAGAATCTTTGATGTGTGAAACCCAAAAT
66 CTTTGAATCTCAAATGAGAATATTAGAATTTCAAATAAGAATCTTTAATGTGTGAAACCCAAAAT
* * *
18351186 TTATCAAATGTGAATCTTCGAACTCAAATGAGAATATTTGAATTTCAAATGAGAATCTTTGATGT
131 TTATCAAATGTGAATCTTCGAACTC-----A-AATATTTGAATTTCAAATGAGAATCTTTAAGGG
18351251 GTGAAACCC-AAAATTTATCAAATATGA
190 GTGAAACCCTAAAATTTATCAAATATGA
*
18351278 ATCTTT-AAACTCAAATGAGAATCTTTAAATTTCAAATGAGAATCTTAGAATTTCAAATAAGAAT
1 ATCTTTGAAACTCAAATGAGAATCTTTAAATCTCAAATGAGAATCTTAGAATTTCAAATAAGAAT
* *
18351342 CTTTGAATCTCAAATGAGAATCTTAGAATTTCAAATTAGAATCTTTAATGTGTGAAACCCAAAAT
66 CTTTGAATCTCAAATGAGAATATTAGAATTTCAAATAAGAATCTTTAATGTGTGAAACCCAAAAT
* * *
18351407 TTATCGAATGTGAATCTTCGAACTCAAATCTTTGAATTTCAAATGAGAATTTTTAAGGGGTGAAA
131 TTATCAAATGTGAATCTTCGAACTCAAATATTTGAATTTCAAATGAGAATCTTTAAGGGGTGAAA
*
18351472 CCCTAAAATTTGTCAAAT
196 CCCTAAAATTTATCAAAT
18351490 GTGAGCTTTT
Statistics
Matches: 193, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
215 37 0.19
216 14 0.07
221 136 0.70
222 6 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (217 bp):
ATCTTTGAAACTCAAATGAGAATCTTTAAATCTCAAATGAGAATCTTAGAATTTCAAATAAGAAT
CTTTGAATCTCAAATGAGAATATTAGAATTTCAAATAAGAATCTTTAATGTGTGAAACCCAAAAT
TTATCAAATGTGAATCTTCGAACTCAAATATTTGAATTTCAAATGAGAATCTTTAAGGGGTGAAA
CCCTAAAATTTATCAAATATGA
Found at i:18351848 original size:41 final size:41
Alignment explanation
Indices: 18351791--18352056 Score: 327
Period size: 41 Copynumber: 6.4 Consensus size: 41
18351781 GATTGTCAAT
18351791 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAG
1 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAG
* * *
18351832 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTTTGTTTA-AGG
1 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGA-G
* * * * *
18351873 GAACATTTTATTTTTCAAAGTTGTGGTGCCTTTGCTTAAAG
1 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAG
*
18351914 GAGCATTTTATTTTTCAAAAGTTATGGTGCCTTTGTTTAGAG
1 GAGCATTTTATTTTTC-AAAGTTATGGTGCCTCTGTTTAGAG
* *
18351956 GAGCATTTTATTTCTCAAAGTTATAGTGCCTCTGTTTAGAG
1 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAG
* * ** *
18351997 GAACATTTTATTTGTCAAAAGTTATGGTGTTTCTATTTAGAG
1 GAGCATTTTATTTTTC-AAAGTTATGGTGCCTCTGTTTAGAG
*
18352039 GAGCTTAATTTATTTTTC
1 GAGC--ATTTTATTTTTC
18352057 TCAAAGTCGT
Statistics
Matches: 197, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 124 0.63
42 62 0.31
44 10 0.05
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (41 bp):
GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAG
Found at i:18351976 original size:83 final size:83
Alignment explanation
Indices: 18351791--18352056 Score: 349
Period size: 83 Copynumber: 3.2 Consensus size: 83
18351781 GATTGTCAAT
* *
18351791 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTC-AAAGTTG
1 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAAGTTA
18351855 TGGTGCCTTTGTTTA-AGG
66 TGGTGCCTTTGTTTAGA-G
* * * * *
18351873 GAACATTTTATTTTTCAAAGTTGTGGTGCCTTTGCTTAAAGGAGCATTTTATTTTTCAAAAGTTA
1 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAAGTTA
18351938 TGGTGCCTTTGTTTAGAG
66 TGGTGCCTTTGTTTAGAG
* * * *
18351956 GAGCATTTTATTTCTCAAAGTTATAGTGCCTCTGTTTAGAGGAACATTTTATTTGTCAAAAGTTA
1 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAAGTTA
* *
18352021 TGGTG-TTTCTATTTAGAG
66 TGGTGCCTT-TGTTTAGAG
*
18352039 GAGCTTAATTTATTTTTC
1 GAGC--ATTTTATTTTTC
18352057 TCAAAGTCGT
Statistics
Matches: 159, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
82 53 0.33
83 95 0.60
84 1 0.01
85 10 0.06
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (83 bp):
GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAAGTTA
TGGTGCCTTTGTTTAGAG
Found at i:18352015 original size:124 final size:124
Alignment explanation
Indices: 18351791--18352025 Score: 366
Period size: 124 Copynumber: 1.9 Consensus size: 124
18351781 GATTGTCAAT
* *
18351791 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGT
1 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTATTTCTCAAAGTTAT
* * * *
18351856 GGTGCCTTTGTTTAAGGGAACATTTTATTTTTC-AAAGTTGTGGTGCCTTTGCTTAAAG
66 AGTGCCTCTGTTTAAGGGAACATTTTATTTGTCAAAAGTTATGGTGCCTTTGCTTAAAG
* *
18351914 GAGCATTTTATTTTTCAAAAGTTATGGTGCCTTTGTTTAGAGGAGCATTTTATTTCTCAAAGTTA
1 GAGCATTTTATTTTTC-AAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTATTTCTCAAAGTTA
18351979 TAGTGCCTCTGTTT-AGAGGAACATTTTATTTGTCAAAAGTTATGGTG
65 TAGTGCCTCTGTTTAAG-GGAACATTTTATTTGTCAAAAGTTATGGTG
18352026 TTTCTATTTA
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
123 18 0.18
124 72 0.71
125 11 0.11
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.43
Consensus pattern (124 bp):
GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTATTTCTCAAAGTTAT
AGTGCCTCTGTTTAAGGGAACATTTTATTTGTCAAAAGTTATGGTGCCTTTGCTTAAAG
Found at i:18353023 original size:11 final size:10
Alignment explanation
Indices: 18353002--18353039 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
18352992 TAGCTGAGCC
18353002 ATTTTTTGGT
1 ATTTTTTGGT
18353012 ATTTTTTAGGT
1 ATTTTTT-GGT
*
18353023 ATTTTTTTGT
1 ATTTTTTGGT
18353033 ATTTTTT
1 ATTTTTT
18353040 AATTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.74
Consensus pattern (10 bp):
ATTTTTTGGT
Found at i:18353131 original size:17 final size:18
Alignment explanation
Indices: 18353100--18353134 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
18353090 AATTTAAAAA
18353100 AATAAAAAATGTAAAATCG
1 AATAAAAAA-GTAAAATCG
18353119 AATAAAAAA-TAAAATC
1 AATAAAAAAGTAAAATC
18353135 TTTTGAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (18 bp):
AATAAAAAAGTAAAATCG
Found at i:18353185 original size:25 final size:26
Alignment explanation
Indices: 18353152--18353206 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
18353142 AATAAATATT
18353152 AATTATCAAATGATGAAATTTATA-AA
1 AATTATCAAATGAT-AAATTTATATAA
* *
18353178 AATT-TCAAATGGTAAATTTTTATAA
1 AATTATCAAATGATAAATTTATATAA
18353203 AATT
1 AATT
18353207 CTTAGGTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 8 0.31
25 14 0.54
26 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (26 bp):
AATTATCAAATGATAAATTTATATAA
Found at i:18354179 original size:22 final size:22
Alignment explanation
Indices: 18354160--18354234 Score: 100
Period size: 22 Copynumber: 3.4 Consensus size: 22
18354150 TGATAATTTT
18354160 ATAGTAAATAATAAAAAAT-TA
1 ATAGTAAATAATAAAAAATATA
* *
18354181 AGTAGTAAATAATTAATAATATA
1 A-TAGTAAATAATAAAAAATATA
18354204 ATAGTAAAT-ATATAAAAATATA
1 ATAGTAAATAATA-AAAAATATA
18354226 ATAGTAAAT
1 ATAGTAAAT
18354235 CATTGATAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
21 3 0.06
22 41 0.87
23 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (22 bp):
ATAGTAAATAATAAAAAATATA
Found at i:18354200 original size:44 final size:44
Alignment explanation
Indices: 18354152--18354341 Score: 126
Period size: 44 Copynumber: 4.4 Consensus size: 44
18354142 TAAATCGGTG
*
18354152 ATAATTTTATAGTAAATA-ATAAAAA-ATTAAGTAGTAAATAATTA
1 ATAATTTAATAGTAAATATATAAAAATA-TAA-TAGTAAATAATTA
* * *
18354196 ATAATATAATAGTAAATATATAAAAATATAATAGTAAATCATTG
1 ATAATTTAATAGTAAATATATAAAAATATAATAGTAAATAATTA
* * * * ** * *
18354240 ATAATTTAACAATAAAT-TA-ATAACT-TAGCAGTAAATTACTA
1 ATAATTTAATAGTAAATATATAAAAATATAATAGTAAATAATTA
* * * *
18354281 ATAATGTAATAGTAAAT-TACTAATAACT-TAATTA-TAAATCAGTA
1 ATAATTTAATAGTAAATATA-TAA-AAATATAA-TAGTAAATAATTA
*
18354325 ACAATTTAATAGTAAAT
1 ATAATTTAATAGTAAAT
18354342 TAATTAATCA
Statistics
Matches: 116, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
41 27 0.23
42 4 0.03
43 3 0.03
44 70 0.60
45 11 0.09
46 1 0.01
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (44 bp):
ATAATTTAATAGTAAATATATAAAAATATAATAGTAAATAATTA
Found at i:18354213 original size:12 final size:12
Alignment explanation
Indices: 18354198--18354234 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18354188 AATAATTAAT
18354198 AATATAATAGTA
1 AATATAATAGTA
*
18354210 AATAT-ATA-AA
1 AATATAATAGTA
18354220 AATATAATAGTA
1 AATATAATAGTA
18354232 AAT
1 AAT
18354235 CATTGATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 6 0.29
11 6 0.29
12 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (12 bp):
AATATAATAGTA
Found at i:18354294 original size:22 final size:20
Alignment explanation
Indices: 18354160--18354343 Score: 95
Period size: 22 Copynumber: 8.6 Consensus size: 20
18354150 TGATAATTTT
* *
18354160 ATAGTAAATAATAAAAAATTA
1 ATAGTAAATTAT-AATAATTA
*
18354181 AGTAGTAAATAATTAATAATATA
1 A-TAGTAAATTA-TAATAAT-TA
*
18354204 ATAGTAAATATATAAAAATATA
1 ATAGTAAAT-TATAATAAT-TA
* *
18354226 ATAGTAAATCATTGATAATTTA
1 ATAGTAAATTA-TAATAA-TTA
* *
18354248 ACAATAAA-T-TAATAACTTA
1 ATAGTAAATTATAATAA-TTA
**
18354267 GCAGTAAATTACTAATAATGTA
1 ATAGTAAATTA-TAATAAT-TA
18354289 ATAGTAAATTACTAATAACTTA
1 ATAGTAAATTA-TAATAA-TTA
* *
18354311 ATTA-TAAATCAGTAACAATTTA
1 A-TAGTAAATTA-TAATAA-TTA
18354333 ATAGTAAATTA
1 ATAGTAAATTA
18354344 ATTAATCATT
Statistics
Matches: 130, Mismatches: 20, Indels: 25
0.74 0.11 0.14
Matches are distributed among these distances:
19 14 0.11
20 1 0.01
21 5 0.04
22 101 0.78
23 9 0.07
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (20 bp):
ATAGTAAATTATAATAATTA
Found at i:18354319 original size:85 final size:85
Alignment explanation
Indices: 18354184--18354345 Score: 195
Period size: 85 Copynumber: 1.9 Consensus size: 85
18354174 AAAATTAAGT
* * * *
18354184 AGTAAATAATTAATAATATAATAGTAAATATATAAAAATATAATAGTAAATCATTGATAATTTAA
1 AGTAAATAACTAATAATATAATAGTAAATATATAAAAATATAATAGTAAATCAGTAACAATTTAA
18354249 CAATAAATTAATAACTTAGC
66 CAATAAATTAATAACTTAGC
* * *
18354269 AGTAAATTACTAATAATGTAATAGTAAAT-TACTAATAACT-TAATTA-TAAATCAGTAACAATT
1 AGTAAATAACTAATAATATAATAGTAAATATA-TAA-AAATATAA-TAGTAAATCAGTAACAATT
* *
18354331 TAATAGTAAATTAAT
63 TAACAATAAATTAAT
18354346 TAATCATTGA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
84 2 0.03
85 58 0.89
86 5 0.08
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (85 bp):
AGTAAATAACTAATAATATAATAGTAAATATATAAAAATATAATAGTAAATCAGTAACAATTTAA
CAATAAATTAATAACTTAGC
Found at i:18354481 original size:22 final size:22
Alignment explanation
Indices: 18354454--18354554 Score: 87
Period size: 22 Copynumber: 4.6 Consensus size: 22
18354444 AATTTAACAA
* *
18354454 AAATCATTCGTTATTTAATGAT
1 AAATCATTCATAATTTAATGAT
*
18354476 AAATCATTCATAATTTAATGGT
1 AAATCATTCATAATTTAATGAT
* * * *
18354498 AAATCGTTCAAAAATTAGAAGA-
1 AAATCATTCATAATTTA-ATGAT
* * *
18354520 AAATTATTGATAATTTAATCAT
1 AAATCATTCATAATTTAATGAT
*
18354542 AAATAATTCATAA
1 AAATCATTCATAA
18354555 CTTAGTAGTA
Statistics
Matches: 60, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
21 2 0.03
22 56 0.93
23 2 0.03
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (22 bp):
AAATCATTCATAATTTAATGAT
Found at i:18354997 original size:22 final size:22
Alignment explanation
Indices: 18354965--18355112 Score: 83
Period size: 22 Copynumber: 6.7 Consensus size: 22
18354955 TAAATTGCTA
* *
18354965 AACTTAGTAGTAAATCATAAAT
1 AACTTAATAGTAAATCATAGAT
*
18354987 AACTTAATAGTTAATCA-ATGAT
1 AACTTAATAGTAAATCATA-GAT
* * ** *
18355009 AATTTAGTAGTCGATAATTAGA-
1 AACTTAATAGTAAATCA-TAGAT
* *
18355031 AATTTAAAAGTAAATCA-ATG-T
1 AACTTAATAGTAAATCATA-GAT
18355052 AACTTAATAGTAATTAATCATCA-AT
1 AACTTAATAGT-A--AATCAT-AGAT
*
18355077 AACTTAATAGTAAATTATAGAT
1 AACTTAATAGTAAATCATAGAT
*
18355099 AATTTAATA-TAAAT
1 AACTTAATAGTAAAT
18355113 TAGTGATAAC
Statistics
Matches: 97, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
20 1 0.01
21 17 0.18
22 57 0.59
23 2 0.02
24 7 0.07
25 12 0.12
26 1 0.01
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
AACTTAATAGTAAATCATAGAT
Found at i:18355120 original size:21 final size:22
Alignment explanation
Indices: 18355075--18355124 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
18355065 TTAATCATCA
18355075 ATAACTTAATAGTAAATTATAG
1 ATAACTTAATAGTAAATTATAG
*
18355097 ATAATTTAATA-TAAATTAGT-G
1 ATAACTTAATAGTAAATTA-TAG
18355118 ATAACTT
1 ATAACTT
18355125 GATAATGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTATAG
Found at i:18355253 original size:22 final size:21
Alignment explanation
Indices: 18355195--18355246 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
18355185 AACTAAGTAA
*
18355195 TAAATCAATAATAATATAATAG
1 TAAATC-ATAATAGTATAATAG
18355217 TAAATGCATAATAGTATAATAG
1 TAAAT-CATAATAGTATAATAG
18355239 TAAATCAT
1 TAAATCAT
18355247 TGATAGTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 3 0.11
22 24 0.86
23 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.33
Consensus pattern (21 bp):
TAAATCATAATAGTATAATAG
Found at i:18355279 original size:22 final size:23
Alignment explanation
Indices: 18355235--18355339 Score: 74
Period size: 22 Copynumber: 4.7 Consensus size: 23
18355225 TAATAGTATA
* * **
18355235 ATAGTAAATCATTGATAGTTTAG
1 ATAGTAAATTATTAATAACTTAG
18355258 AT-GTAAATTATTAATAACTTAG
1 ATAGTAAATTATTAATAACTTAG
* * *
18355280 -TAGTGAATCACTAATAACTTAG
1 ATAGTAAATTATTAATAACTTAG
* * * *
18355302 -TTGTAAATTAGTGATAATTTA-
1 ATAGTAAATTATTAATAACTTAG
18355323 ATAGTAAATTAATTAAT
1 ATAGTAAATT-ATTAAT
18355340 TGTTGATAAC
Statistics
Matches: 63, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
21 1 0.02
22 56 0.89
23 6 0.10
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (23 bp):
ATAGTAAATTATTAATAACTTAG
Found at i:18356312 original size:18 final size:17
Alignment explanation
Indices: 18356272--18356315 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
18356262 CTTCATGTTT
*
18356272 TTTATTACTTATTTTAA
1 TTTATTAATTATTTTAA
* *
18356289 TATATTAATTAATTTTTA
1 TTTATTAATT-ATTTTAA
18356307 TTTATTAAT
1 TTTATTAAT
18356316 ATAAAAAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTATTAATTATTTTAA
Found at i:18356968 original size:16 final size:16
Alignment explanation
Indices: 18356947--18356977 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18356937 GTTGGTGTCG
18356947 CCGCCGTCCATCGTCA
1 CCGCCGTCCATCGTCA
18356963 CCGCCGTCCATCGTC
1 CCGCCGTCCATCGTC
18356978 GATCACCGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.52, G:0.19, T:0.19
Consensus pattern (16 bp):
CCGCCGTCCATCGTCA
Found at i:18357503 original size:11 final size:11
Alignment explanation
Indices: 18357469--18357518 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
18357459 GGGATTTGAT
18357469 TGGCTGTAGGG
1 TGGCTGTAGGG
18357480 TGG-T-TAGTTGG
1 TGGCTGTAG--GG
18357491 TGGCTGTAGGG
1 TGGCTGTAGGG
*
18357502 TGGCTGGAGGG
1 TGGCTGTAGGG
18357513 TGGCTG
1 TGGCTG
18357519 GTCGGGAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
9 3 0.09
10 1 0.03
11 26 0.76
12 1 0.03
13 3 0.09
ACGTcount: A:0.08, C:0.08, G:0.54, T:0.30
Consensus pattern (11 bp):
TGGCTGTAGGG
Found at i:18357531 original size:11 final size:11
Alignment explanation
Indices: 18357517--18357556 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
18357507 GGAGGGTGGC
18357517 TGGTCGGGAGT
1 TGGTCGGGAGT
18357528 TGGTCGGGAGT
1 TGGTCGGGAGT
*
18357539 TGGTCGGGGGT
1 TGGTCGGGAGT
18357550 TGGTCGG
1 TGGTCGG
18357557 ACCAATTCGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.05, C:0.10, G:0.57, T:0.28
Consensus pattern (11 bp):
TGGTCGGGAGT
Found at i:18357661 original size:18 final size:17
Alignment explanation
Indices: 18357638--18357684 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
18357628 TTTTTTCTTG
*
18357638 TTTATTAATAATAATTTA
1 TTTATTAAAAATAA-TTA
18357656 TTTATTAAAAAT-ATTA
1 TTTATTAAAAATAATTA
*
18357672 -TTATTAAGAATAA
1 TTTATTAAAAATAA
18357685 AACGGTAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 10 0.38
16 4 0.15
17 1 0.04
18 11 0.42
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TTTATTAAAAATAATTA
Found at i:18357813 original size:8 final size:8
Alignment explanation
Indices: 18357800--18357828 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
18357790 AATCATGATG
18357800 ATTTTTTT
1 ATTTTTTT
18357808 ATTTTTTT
1 ATTTTTTT
18357816 ATTTTTTT
1 ATTTTTTT
18357824 ATTTT
1 ATTTT
18357829 ATTTTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
ATTTTTTT
Done.