Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 54 of 295
Found at i:15616935 original size:46 final size:45
Alignment explanation
Indices: 15616884--15617013 Score: 129
Period size: 47 Copynumber: 2.8 Consensus size: 45
15616874 ACCTTACGAG
* *
15616884 GTCGATGCATGTCCCAGACACATCTTACACTAGCTCTCGTCTCAAT-T
1 GTCGATGCATGTCCCAGACACGTCTTACACTAGCTCTC--AT-AATAT
* * *
15616931 -TCGATGCCATGTCCCAGGCATGGTCTTACAGTAGCTCTCATAATAT
1 GTCGATG-CATGTCCCAGACA-CGTCTTACACTAGCTCTCATAATAT
* *
15616977 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GTC-GATGCATGTCCCAGACACGTCTTACACTAGCTC
15617014 ACAATAGCCC
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
45 3 0.04
46 22 0.32
47 25 0.36
48 19 0.28
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
GTCGATGCATGTCCCAGACACGTCTTACACTAGCTCTCATAATAT
Found at i:15622602 original size:23 final size:23
Alignment explanation
Indices: 15622567--15622611 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15622557 ATAGCTATGC
*
15622567 AACAACAATAAAACAACACCAAT
1 AACAACAACAAAACAACACCAAT
* * *
15622590 AACAACACCAAAATAGCACCAA
1 AACAACAACAAAACAACACCAA
15622612 AAACCTGCAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.29, G:0.02, T:0.07
Consensus pattern (23 bp):
AACAACAACAAAACAACACCAAT
Found at i:15630292 original size:29 final size:30
Alignment explanation
Indices: 15630235--15630292 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
15630225 CTTTTGAAAA
*** *
15630235 TATTTACAAAAAGAGGCATTTAATTTTTAT
1 TATTTACAAAAAGAGGCAACCAAATTTTAT
15630265 TATTTACAAAAAGA-GCAACCAAATTTTA
1 TATTTACAAAAAGAGGCAACCAAATTTTA
15630293 AAAATACTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAAATTTTAT
Found at i:15639611 original size:43 final size:43
Alignment explanation
Indices: 15639441--15639613 Score: 167
Period size: 43 Copynumber: 4.0 Consensus size: 43
15639431 ATATCGTACA
* * *
15639441 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCACATGTCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATCG
*
15639484 ATGCC-ACTGTCCCAAACAG-GGTCTTACAC-AAATCACA-ATTACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCACATA-T-CG
* * * * * *
15639527 ATGCCGATGTCCTAGACATGGTCTTACTCGAAATCAGATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATCG
*
15639570 ATGCCAACGTCCCAGATGTGGTCTTACACGAGAA-CACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA-AATCACATATCG
15639613 A
1 A
15639614 AAATCCTATG
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 11 0.11
43 80 0.77
44 12 0.12
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATCG
Found at i:15647059 original size:29 final size:30
Alignment explanation
Indices: 15647002--15647059 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
15646992 CTTTTGAAAA
* * * *
15647002 TATTTACAAAAAGTGGCATCTAATTTTTAT
1 TATTTACAAAAAGTAGCAACCAAATTTTAT
15647032 TATTTACAAAAAG-AGCAACCAAATTTTA
1 TATTTACAAAAAGTAGCAACCAAATTTTA
15647060 AAAATACTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (30 bp):
TATTTACAAAAAGTAGCAACCAAATTTTAT
Found at i:15653305 original size:68 final size:68
Alignment explanation
Indices: 15653233--15653380 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 68
15653223 CATCATGTGT
* * * *
15653233 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
15653296 TGTAG
64 TGTAG
* ** * *
15653301 ACAAGAGAGCT--ATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
15653364 GTAG
65 GTAG
15653368 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
15653381 GAGATAAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
64 24 0.36
65 3 0.05
66 5 0.08
67 23 0.35
68 11 0.17
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:15653337 original size:64 final size:64
Alignment explanation
Indices: 15653257--15653440 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
15653247 AGACATTATG
* * * *
15653257 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
15653321 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
15653386 AA
63 AA
* * *
15653388 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
15653441 CAAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 32 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:15662747 original size:51 final size:50
Alignment explanation
Indices: 15662681--15662809 Score: 152
Period size: 50 Copynumber: 2.6 Consensus size: 50
15662671 TGAGGTCGCA
* *
15662681 TGTGTAGTACTAAGTGCAGGCTACTAGGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-AAACT-TAGATCACG
* * * *** *
15662732 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAACTTAGATCACG
15662782 TGTGTAGTACTAAGTGCAGGCTACTACG
1 TGTGTAGTACTAAGTGCAGGCTACTACG
15662810 TGCAGGCTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 1 0.01
50 35 0.52
51 31 0.46
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAACTTAGATCACG
Found at i:15662812 original size:14 final size:14
Alignment explanation
Indices: 15662789--15662825 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
15662779 ACGTGTGTAG
*
15662789 TACTAAGTGCAGGC
1 TACTACGTGCAGGC
15662803 TACTACGTGCAGGC
1 TACTACGTGCAGGC
15662817 TACTACGTG
1 TACTACGTG
15662826 TACCGGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (14 bp):
TACTACGTGCAGGC
Found at i:15662865 original size:63 final size:64
Alignment explanation
Indices: 15662739--15662867 Score: 170
Period size: 64 Copynumber: 2.0 Consensus size: 64
15662729 ACGTGTGTAG
* * ** *
15662739 TACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGC
1 TACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGTAGTACTAAGTGCAGGC
* * * *
15662803 TACTACGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCATGTGTAGTACTATGTGCAGGC
1 TACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGTAGTACTAAGTGCAGGC
15662866 TA
1 TA
15662868 TTATGCGTAC
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
63 27 0.48
64 29 0.52
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (64 bp):
TACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGTAGTACTAAGTGCAGGC
Found at i:15670816 original size:29 final size:31
Alignment explanation
Indices: 15670768--15670831 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
15670758 TTTATATTTA
*
15670768 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
15670799 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
15670828 TTTA
1 TTTA
15670832 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:15670820 original size:8 final size:8
Alignment explanation
Indices: 15670809--15670833 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15670799 TTTAATAAGA
15670809 TATTTTAT
1 TATTTTAT
15670817 TATTTTAT
1 TATTTTAT
15670825 TATTTTAT
1 TATTTTAT
15670833 T
1 T
15670834 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:15678201 original size:75 final size:75
Alignment explanation
Indices: 15678078--15678229 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
15678068 ACTTAGGGAT
15678078 CTCTACGGAACAAGTTGAATGAATAAATTGTCCGATTCAGAGTCAAATAACAAGTAAAGTCTAGG
1 CTCTACGGAACAAGTTGAATGAATAAATTGTCCGATTCAGAGTCAAATAACAAGTAAAGTCTAGG
15678143 TGGATTTTTC
66 TGGATTTTTC
15678153 CTCTACGGAACAAGTTGAATGAATAAATTGTCCGATTCAGAGTCAAATAACAAGTAAAGTCTAGG
1 CTCTACGGAACAAGTTGAATGAATAAATTGTCCGATTCAGAGTCAAATAACAAGTAAAGTCTAGG
15678218 TGGATTTTTC
66 TGGATTTTTC
15678228 CT
1 CT
15678230 TAGGTATTGT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (75 bp):
CTCTACGGAACAAGTTGAATGAATAAATTGTCCGATTCAGAGTCAAATAACAAGTAAAGTCTAGG
TGGATTTTTC
Found at i:15680346 original size:83 final size:83
Alignment explanation
Indices: 15680246--15680418 Score: 310
Period size: 83 Copynumber: 2.1 Consensus size: 83
15680236 TTGAACTTTT
*
15680246 TAAACAACTACATATTAACTTACCTTTTGTTGAAGCTATATCGTAGATGCCTGCATACGCAAAAT
1 TAAACAACTACATATTAACTTACCTTTTGTTGAAGCTATATCGCAGATGCCTGCATACGCAAAAT
*
15680311 TTTTAAAGGATCTCCTAA
66 TTTTAAAGGAGCTCCTAA
*
15680329 TAAACAACTACATATTAACTTACCTTTTGTTGAAGCTATATCGCGGATGCCTGCATACGCAAAAT
1 TAAACAACTACATATTAACTTACCTTTTGTTGAAGCTATATCGCAGATGCCTGCATACGCAAAAT
15680394 TTTTAAAGGAGCTCCTAA
66 TTTTAAAGGAGCTCCTAA
*
15680412 CAAACAA
1 TAAACAA
15680419 AATGAAGTTT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 86 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (83 bp):
TAAACAACTACATATTAACTTACCTTTTGTTGAAGCTATATCGCAGATGCCTGCATACGCAAAAT
TTTTAAAGGAGCTCCTAA
Found at i:15688700 original size:26 final size:24
Alignment explanation
Indices: 15688655--15688705 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 24
15688645 AGAAATTTGA
15688655 CATCAATAATATAGTATTATTTCATG
1 CATCAATAATATAG-ATTA-TTCATG
15688681 CATCAATAGATATA-ACTTATTCATG
1 CATCAATA-ATATAGA-TTATTCATG
15688706 TCATAAACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (24 bp):
CATCAATAATATAGATTATTCATG
Found at i:15692029 original size:13 final size:13
Alignment explanation
Indices: 15692011--15692037 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15692001 GATATCTGAA
15692011 AAAAATAAAAAAT
1 AAAAATAAAAAAT
15692024 AAAAATAAAAAAT
1 AAAAATAAAAAAT
15692037 A
1 A
15692038 TGGACCAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:15693352 original size:20 final size:20
Alignment explanation
Indices: 15693327--15693366 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15693317 AGTAACTAAG
*
15693327 AAAAGAAATATGATTTTAAC
1 AAAAGAAATATAATTTTAAC
15693347 AAAAGAAATATAATTTTAAC
1 AAAAGAAATATAATTTTAAC
15693367 TCAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAAGAAATATAATTTTAAC
Found at i:15705264 original size:48 final size:48
Alignment explanation
Indices: 15705191--15705366 Score: 257
Period size: 48 Copynumber: 3.7 Consensus size: 48
15705181 TCATGTCAGT
* *
15705191 GTCGATGCCATGTCCCAGACATGGTCTTACACTAG-TACACATATCAAT
1 GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCT-CACATATCAAC
* *
15705239 GCCGATGCCATTTCCTAGACATGGTCTTACACTAGCTCACATATCAAC
1 GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCAAC
*
15705287 GTCGATGCCATGTTCC-AGACATGGTCTTACACTGGCTCACATATCAAC
1 GTCGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCACATATCAAC
* *
15705335 ATCGATGCTATGTCCTAGACATGGTCTTACAC
1 GTCGATGCCATGTCCTAGACATGGTCTTACAC
15705367 GGAATCTCAT
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 3 0.03
48 109 0.94
49 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCAAC
Found at i:15707235 original size:17 final size:17
Alignment explanation
Indices: 15707202--15707239 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
15707192 TGGCATTGTA
* *
15707202 AGAACGTTTACATTGCG
1 AGAACATTTACACTGCG
15707219 AGAACATTTACACTGCG
1 AGAACATTTACACTGCG
15707236 AGAA
1 AGAA
15707240 AGATGACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (17 bp):
AGAACATTTACACTGCG
Found at i:15708759 original size:19 final size:19
Alignment explanation
Indices: 15708735--15708827 Score: 70
Period size: 19 Copynumber: 4.9 Consensus size: 19
15708725 TATTTCAAAA
15708735 TAATATTATTTTAATATTT
1 TAATATTATTTTAATATTT
*
15708754 TAATATTA-ATTAA-A-TT
1 TAATATTATTTTAATATTT
*
15708770 TAATACTTATCTTAATATTAT
1 TAATA-TTATTTTAATATT-T
* *
15708791 T-TTATTAATTTAATA-TT
1 TAATATTATTTTAATATTT
*
15708808 AAAGTGATTATTTTAATATT
1 TAA-T-ATTATTTTAATATT
15708828 AAATTTAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
16 7 0.12
17 5 0.09
18 9 0.16
19 19 0.33
20 14 0.25
21 3 0.05
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TAATATTATTTTAATATTT
Found at i:15708797 original size:36 final size:36
Alignment explanation
Indices: 15708735--15708827 Score: 91
Period size: 36 Copynumber: 2.5 Consensus size: 36
15708725 TATTTCAAAA
*
15708735 TAATATTATTTTAATATTTTAATATTAATTAAAT-T
1 TAATATTATCTTAATATTTTAATATTAATTAAATAT
* *
15708770 TAATACTTATCTTAATATTATT-TTATTAATTTAATAT
1 TAATA-TTATCTTAATATT-TTAATATTAATTAAATAT
*
15708807 TAAAGTGATTATTTTAATATT
1 T-AA-T-ATTATCTTAATATT
15708828 AAATTTAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
35 5 0.10
36 23 0.48
37 4 0.08
38 2 0.04
39 13 0.27
40 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (36 bp):
TAATATTATCTTAATATTTTAATATTAATTAAATAT
Found at i:15710736 original size:12 final size:12
Alignment explanation
Indices: 15710719--15710754 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
15710709 TCACTTAATT
15710719 GTAAAATTATTC
1 GTAAAATTATTC
15710731 GTAAAATTATTC
1 GTAAAATTATTC
15710743 GTAAAATTATTC
1 GTAAAATTATTC
15710755 TTTACAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
GTAAAATTATTC
Found at i:15713180 original size:16 final size:18
Alignment explanation
Indices: 15713153--15713188 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
15713143 TAGAATTGGG
15713153 TTGAGAAAATT-ATTTAT
1 TTGAGAAAATTAATTTAT
15713170 TTGAG-AAATTAATTTAT
1 TTGAGAAAATTAATTTAT
15713187 TT
1 TT
15713189 AAATTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAT
Found at i:15718241 original size:27 final size:27
Alignment explanation
Indices: 15718203--15718257 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
15718193 TTATTAGGTG
15718203 TGATTGGATCATCTCGAAATTTAATCA
1 TGATTGGATCATCTCGAAATTTAATCA
15718230 TGATTGGATCATCTCGAAATTTAATCA
1 TGATTGGATCATCTCGAAATTTAATCA
15718257 T
1 T
15718258 TTTAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (27 bp):
TGATTGGATCATCTCGAAATTTAATCA
Found at i:15720195 original size:21 final size:21
Alignment explanation
Indices: 15720158--15720197 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
15720148 TTTTGCTTTC
*
15720158 TGTCTTCTATTTTTTTTTTTT
1 TGTCTTCTATTTCTTTTTTTT
*
15720179 TGTCTTCT-TTTCCTTTTTT
1 TGTCTTCTATTTCTTTTTTT
15720198 GCAGGTGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (21 bp):
TGTCTTCTATTTCTTTTTTTT
Found at i:15724291 original size:23 final size:23
Alignment explanation
Indices: 15724247--15724500 Score: 136
Period size: 24 Copynumber: 10.4 Consensus size: 23
15724237 CATTATATAC
15724247 TATTTTAAATTATTTTACATATTATT
1 TATTTTAAATT-TTTT--ATATTATT
*
15724273 TATTTTAAGTTTTTTATATACACTATT
1 TATTTTAAATTTTTTATAT----TATT
* *
15724300 TATTTTAAACTTTTATATATTATA
1 TATTTTAAA-TTTTTTATATTATT
* * * * * *
15724324 CATTTTAAGTTTATGTACATAATG
1 TATTTTAAATTT-TTTATATTATT
*
15724348 TAGTTTAAACTATTTTATATATTATT
1 TATTTTAAA-T-TTTT-TATATTATT
** *
15724374 TATTTTAAACCTTTTATATTAGT
1 TATTTTAAATTTTTTATATTATT
** * *
15724397 TATTTTAAACCGTTTTACATTGTT
1 TATTTTAAA-TTTTTTATATTATT
*
15724421 TATTTTAAATATTTTT-TGTTA-T
1 TATTTTAAAT-TTTTTATATTATT
*
15724443 T-TTTTAACTATTTTATATATTATT
1 TATTTTAA--ATTTTTTATATTATT
* *
15724467 CACTTTAAATTTTTTATATAATATT
1 TATTTTAAATTTTTTATAT--TATT
15724492 TATTTTAAA
1 TATTTTAAA
15724501 CTGTTTTTTA
Statistics
Matches: 173, Mismatches: 37, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
21 6 0.03
22 6 0.03
23 42 0.24
24 50 0.29
25 22 0.13
26 26 0.15
27 12 0.07
28 9 0.05
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (23 bp):
TATTTTAAATTTTTTATATTATT
Found at i:15724507 original size:28 final size:28
Alignment explanation
Indices: 15724476--15724541 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
15724466 TCACTTTAAA
*
15724476 TTTTTTATATA-ATATTTATTTTAAACTG
1 TTTTTTATATACAT-GTTATTTTAAACTG
* *
15724504 TTTTTTA-ATACATGTTATTTTGAATTG
1 TTTTTTATATACATGTTATTTTAAACTG
*
15724531 TTTTATATATA
1 TTTTTTATATA
15724542 TTAATTACTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 20 0.62
28 12 0.38
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (28 bp):
TTTTTTATATACATGTTATTTTAAACTG
Found at i:15724745 original size:48 final size:48
Alignment explanation
Indices: 15724656--15724750 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
15724646 TTTTATATGG
* *
15724656 ATTATTTATTTTCAAATTTCTATTTATTGTTTATCTTAAACTCTTTATAC
1 ATTATTTATTTT-AAATTTCTATATATTATTTATCTTAAACT-TTTATAC
* * *
15724706 ATTATTTATTTT-ATTTTTTATATATTATTTATGTTAAACTTTTAT
1 ATTATTTATTTTAAATTTCTATATATTATTTATCTTAAACTTTTAT
15724751 TTTATTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
47 5 0.12
48 23 0.57
50 12 0.30
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.62
Consensus pattern (48 bp):
ATTATTTATTTTAAATTTCTATATATTATTTATCTTAAACTTTTATAC
Found at i:15724750 original size:36 final size:36
Alignment explanation
Indices: 15724710--15724779 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
15724700 TTATACATTA
*
15724710 TTTATTTTATTTTTTATATATTATTTATGTTAAACT
1 TTTATTTTATTTTATATATATTATTTATGTTAAACT
* *
15724746 TTTATTTTATTTTATGTATATTATTTATTTTAAA
1 TTTATTTTATTTTATATATATTATTTATGTTAAA
15724780 TTTCTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (36 bp):
TTTATTTTATTTTATATATATTATTTATGTTAAACT
Found at i:15724756 original size:25 final size:23
Alignment explanation
Indices: 15724646--15724757 Score: 77
Period size: 25 Copynumber: 4.7 Consensus size: 23
15724636 TAAACTTCCT
15724646 TTTTATATGGATTATTTATTTTCAAA-
1 TTTTATAT--ATTATTTA-TTT-AAAC
* *
15724672 TTTCTATTTATTGTTTATCTTAAAC
1 TTT-TATATATTATTTAT-TTAAAC
* * **
15724697 TCTTTATACATTATTTATTTTATT
1 T-TTTATATATTATTTATTTAAAC
15724721 TTTTATATATTATTTATGTTAAAC
1 TTTTATATATTATTTAT-TTAAAC
15724745 TTTTAT-T-TTATTT
1 TTTTATATATTATTT
15724758 TATGTATATT
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
22 6 0.09
23 16 0.23
24 17 0.25
25 21 0.30
26 5 0.07
27 4 0.06
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTTATATATTATTTATTTAAAC
Found at i:15724811 original size:25 final size:26
Alignment explanation
Indices: 15724764--15724814 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
15724754 ATTTTATGTA
15724764 TATTATTTATTTTAAATTTCTTTTTACG
1 TATTATTTATTTTAAA--TCTTTTTACG
*
15724792 TATTATTTATTTTAGA-CTTTTTA
1 TATTATTTATTTTAAATCTTTTTA
15724815 TTTTAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
28 15 0.68
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (26 bp):
TATTATTTATTTTAAATCTTTTTACG
Found at i:15724838 original size:24 final size:24
Alignment explanation
Indices: 15724811--15724941 Score: 68
Period size: 24 Copynumber: 5.1 Consensus size: 24
15724801 TTTTAGACTT
15724811 TTTATTTTAAATTTTTTTGTATTA
1 TTTATTTTAAATTTTTTTGTATTA
* **
15724835 TTTACTTTAAATTGCTTT-TATGGTA
1 TTTATTTTAAATTTTTTTGTAT--TA
15724860 TTTATTTTAAACCTTTTTATATGTATATA
1 TTTATTTTAAA--TTTTT-T-TGTAT-TA
* * *
15724889 TATTATTTATTTAAAATTATCT-TATTA
1 T-TTA--T-TTTAAATTTTTTTGTATTA
* * *
15724916 TTTGTTTTAAGTTGTTTTGTATTA
1 TTTATTTTAAATTTTTTTGTATTA
15724940 TT
1 TT
15724942 GCTTCATTTC
Statistics
Matches: 79, Mismatches: 16, Indels: 24
0.66 0.13 0.20
Matches are distributed among these distances:
23 11 0.14
24 23 0.29
25 12 0.15
26 2 0.03
27 6 0.08
28 4 0.05
29 5 0.06
30 6 0.08
31 3 0.04
32 1 0.01
33 6 0.08
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.63
Consensus pattern (24 bp):
TTTATTTTAAATTTTTTTGTATTA
Found at i:15724861 original size:66 final size:64
Alignment explanation
Indices: 15724728--15724853 Score: 164
Period size: 66 Copynumber: 1.9 Consensus size: 64
15724718 ATTTTTTATA
* *
15724728 TATTATTTATGTTAAACTTTTATTTTATTTTATGTATATTATTTATTTTAAATTTCTTTTTACG
1 TATTATTTATGTTAAACTTTTATTTTATTTTATGTATATTATTTACTTTAAATTGCTTTTTACG
* * * *
15724792 TATTATTTATTTTAGACTTTTTATTTTAAATTTT-TTTGTATTATTTACTTTAAATTGCTTTT
1 TATTATTTATGTTAAAC-TTTTATTTT--ATTTTATGTATATTATTTACTTTAAATTGCTTTT
15724854 ATGGTATTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
64 15 0.28
65 9 0.17
66 24 0.45
67 5 0.09
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (64 bp):
TATTATTTATGTTAAACTTTTATTTTATTTTATGTATATTATTTACTTTAAATTGCTTTTTACG
Found at i:15724885 original size:25 final size:22
Alignment explanation
Indices: 15724811--15724885 Score: 53
Period size: 25 Copynumber: 3.0 Consensus size: 22
15724801 TTTTAGACTT
15724811 TTTATTTTAAATTTTTT-TGTATTA
1 TTTATTTTAAATTTTTTATG---TA
*
15724835 TTTACTTTAAATTGCTTTTATGGTA
1 TTTATTTTAAATT--TTTTAT-GTA
15724860 TTTATTTTAAACCTTTTTATATGTA
1 TTTATTTTAAA--TTTTT-TATGTA
15724885 T
1 T
15724886 ATATATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
24 12 0.29
25 19 0.45
26 7 0.17
27 3 0.07
28 1 0.02
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.63
Consensus pattern (22 bp):
TTTATTTTAAATTTTTTATGTA
Found at i:15725297 original size:20 final size:20
Alignment explanation
Indices: 15725272--15725311 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15725262 CGCGTTTTGG
15725272 AACATCGAGGAATTGTGCAC
1 AACATCGAGGAATTGTGCAC
15725292 AACATCGAGGAATTGTGCAC
1 AACATCGAGGAATTGTGCAC
15725312 TAACTTACGG
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:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (20 bp):
AACATCGAGGAATTGTGCAC
Found at i:15726952 original size:25 final size:25
Alignment explanation
Indices: 15726912--15726981 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
15726902 CTCTTTCTAT
*
15726912 TTGCA-TTCATCCCATGCATTTGCA
1 TTGCATTTCATCACATGCATTTGCA
* *
15726936 TTGTATTTCATCACATGCATTTTCA
1 TTGCATTTCATCACATGCATTTGCA
15726961 TTGCATTTCATCACATGCATT
1 TTGCATTTCATCACATGCATT
15726982 AGATTTTCAC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 4 0.10
25 37 0.90
ACGTcount: A:0.23, C:0.24, G:0.10, T:0.43
Consensus pattern (25 bp):
TTGCATTTCATCACATGCATTTGCA
Found at i:15728773 original size:32 final size:32
Alignment explanation
Indices: 15728729--15728793 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
15728719 TGCCTAAGCT
15728729 ACTAAGACATGAGGATGCTATGGGGTGTTCGA
1 ACTAAGACATGAGGATGCTATGGGGTGTTCGA
*
15728761 ACTAAGATATGAGGATGCTATGGGGTGTTCGA
1 ACTAAGACATGAGGATGCTATGGGGTGTTCGA
15728793 A
1 A
15728794 AAGCACAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.11, G:0.34, T:0.26
Consensus pattern (32 bp):
ACTAAGACATGAGGATGCTATGGGGTGTTCGA
Found at i:15731929 original size:44 final size:44
Alignment explanation
Indices: 15731879--15732086 Score: 170
Period size: 44 Copynumber: 4.7 Consensus size: 44
15731869 AAGATTGTAG
* * * *
15731879 ATCTTGTCTCTCTGAAGTTGCAGTGGAGAAGATCAAAGCCGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGCAA
* ** * ** *
15731923 ATCTTGTCTCTTTGAAGTTGCAGTGGAGCAGATTGAAGTTGCGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGCAA
* *
15731967 ATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATTAAAGCCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGCAA
* * * ***
15732011 GTCTTATAC-CCCTGAAGTTGCAAG-AGAGCAGATTGAAG-TTTAA
1 ATCTTAT-CTCCCTGAAGTTGC-AGTGGAGCAGATTAAAGCCGCAA
* * *
15732054 GACCTTATCTCCTTAAAGTTGCAGTGGAGCAGA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
15732087 CTGAAGATAG
Statistics
Matches: 131, Mismatches: 28, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
43 5 0.04
44 124 0.95
45 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGCAA
Found at i:15731932 original size:392 final size:393
Alignment explanation
Indices: 15730984--15731905 Score: 1348
Period size: 392 Copynumber: 2.3 Consensus size: 393
15730974 CCTAAGTAGT
* * * * *
15730984 AGTGGAGCAGATCGAAGATGGTGAATCTTGTCTTCCTAACCAGTAGTAGAGTAGATTTAAGCCAC
1 AGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGCCAC
* *
15731049 CATCCTACCTCCCTAAGCAGTAGTAGAGTAGGCTGAAGATTACAGATCTTGTCT-TCCTGAAGTT
66 CATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCT-CTGAAGTT
* * * *
15731113 GCAGTGAAACAGATCGAAGACGGTGAATCTTGTCTTCCTAACTAGTAGTGGAGTAGATTTAAGCC
130 GCAGTGGAACAGATCGAAGACAGTGAATCTTGTCTCCCTAACCAGTAGTGGAGTAGATTTAAGCC
* * *
15731178 ATCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCCCTGAAGT
195 ACCATCCTATCTCCCTAAGCAGTAATGGAGTAGGCTAAAGATTACAGATCTTGTCTCCCTGAAGT
* *
15731243 TGCAGTGGAATAGATCGAAGACAGCGAATCTTGTCTCCCTAACTAGTAGTGGAGCAGATTTAAGC
260 TGCAGTGGAACAGATCGAAGACAGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGC
* * * * * *
15731308 CATCATCCTATCTCCCTAAGCAATAGTGGAGTAAGTTGAAGATTGTAGGTCTTGTCTTCCTGAAG
325 CACCATCCTATCTCCCTAAGCAATAGTGGAGTAAGCTGAAGATTGCAGATCTCGTCTCCCTGAAG
* *
15731373 TTGT
390 GTGC
* ** *
15731377 AGTGGAGA-AGATCGAAG-CCGCAAATCTTGTCTCCCTAACCAATAGTGGAGCAGATTTAAGCCA
1 AGTGGA-ACAGATCGAAGACGGTGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGCCA
* * ** * *
15731440 CCATCCTATCTTCCTAAGCAGTAGTGGAGTAGGCTAAAGATTACAGATCTCATCTCCCTAAAGTT
65 CCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCTCTGAAGTT
*
15731505 GCAGTGGAACAGATCGAAGATAGTGAATCTTGTCTCCCTAACCAGTAGTGGAGTAGATTTAAGCC
130 GCAGTGGAACAGATCGAAGACAGTGAATCTTGTCTCCCTAACCAGTAGTGGAGTAGATTTAAGCC
* *
15731570 ACCATCCTATCTCCCTAAGCAGTAATGGAGTAGGCTAAAGATTGCAGATCTTGTCTCCCTTAAGT
195 ACCATCCTATCTCCCTAAGCAGTAATGGAGTAGGCTAAAGATTACAGATCTTGTCTCCCTGAAGT
* * *
15731635 TGTAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGC
260 TGCAGTGGAACAGATCGAAGACAGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGC
* * * *
15731700 CACCATCCTATCTTCCTAAGCAGTAGTGGAGTAGGCTGAATATTGCAGATCTCGTCTCCCT-AGA
325 CACCATCCTATCTCCCTAAGCAATAGTGGAGTAAGCTGAAGATTGCAGATCTCGTCTCCCTGA-A
15731764 GGTGC
389 GGTGC
* * *
15731769 AGTGGAACAGATCGAAGACGGTGAATTTTGTCTCCCTAAGCAGTAGTGGAACAGATTTAAGCCAC
1 AGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGCCAC
**
15731834 CATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCTCTGAAGTTG
66 CATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCTCTGAAGTTG
15731899 CAGTGGA
131 CAGTGGA
15731906 GAAGATCAAA
Statistics
Matches: 465, Mismatches: 59, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
391 2 0.00
392 344 0.74
393 119 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (393 bp):
AGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGCCAC
CATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTACAGATCTTGTCTCTCTGAAGTTG
CAGTGGAACAGATCGAAGACAGTGAATCTTGTCTCCCTAACCAGTAGTGGAGTAGATTTAAGCCA
CCATCCTATCTCCCTAAGCAGTAATGGAGTAGGCTAAAGATTACAGATCTTGTCTCCCTGAAGTT
GCAGTGGAACAGATCGAAGACAGCGAATCTTGTCTCCCTAACCAGTAGTGGAGCAGATTTAAGCC
ACCATCCTATCTCCCTAAGCAATAGTGGAGTAAGCTGAAGATTGCAGATCTCGTCTCCCTGAAGG
TGC
Found at i:15731956 original size:131 final size:131
Alignment explanation
Indices: 15730961--15731905 Score: 1340
Period size: 131 Copynumber: 7.2 Consensus size: 131
15730951 GGTGAATTCA
* * * * * *
15730961 CAGATCTTATCTCCCT-AAGTAGTAGTGGAGCAGATCGAAGATGGTGAATCTTGTCTTCCTAACC
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTAACC
* * * *
15731025 AGTAGTAGAGTAGATTTAAGCCACCATCCTACCTCCCTAAGCAGTAGTAGAGTAGGCTGAAGATT
66 AGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATT
*
15731090 A
131 G
* * * *
15731091 CAGATCTTGTCTTCCTGAAGTTGCAGTGAAACAGATCGAAGACGGTGAATCTTGTCTTCCTAACT
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTAACC
* *
15731156 AGTAGTGGAGTAGATTTAAGCCATCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATT
66 AGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATT
*
15731221 A
131 G
* * * *
15731222 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAATAGATCGAAGACAGCGAATCTTGTCTCCCTAACT
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTAACC
* * * *
15731287 AGTAGTGGAGCAGATTTAAGCCATCATCCTATCTCCCTAAGCAATAGTGGAGTAAGTTGAAGATT
66 AGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATT
15731352 G
131 G
* * * * * **
15731353 TAGGTCTTGTCTTCCTGAAGTTGTAGTGGAGA-AGATCGAAG-CCGCAAATCTTGTCTCCCTAAC
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGA-ACAGATCGAAGACGGTGAATCTTGTCTCCCTAAC
* * *
15731416 CAATAGTGGAGCAGATTTAAGCCACCATCCTATCTTCCTAAGCAGTAGTGGAGTAGGCTAAAGAT
65 CAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
*
15731481 TA
130 TG
** * **
15731483 CAGATCTCATCTCCCTAAAGTTGCAGTGGAACAGATCGAAGATAGTGAATCTTGTCTCCCTAACC
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTAACC
* * *
15731548 AGTAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAATGGAGTAGGCTAAAGATT
66 AGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATT
15731613 G
131 G
* *
15731614 CAGATCTTGTCTCCCTTAAGTTGTAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTAACC
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTAACC
* *
15731679 AGTAGTGGAGCAGATTTAAGCCACCATCCTATCTTCCTAAGCAGTAGTGGAGTAGGCTGAATATT
66 AGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATT
15731744 G
131 G
* * * *
15731745 CAGATCTCGTCTCCCT-AGAGGTGCAGTGGAACAGATCGAAGACGGTGAATTTTGTCTCCCTAAG
1 CAGATCTTGTCTCCCTGA-AGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTAAC
*
15731809 CAGTAGTGGAACAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
65 CAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
15731874 TG
130 TG
* *
15731876 TAGATCTTGTCTCTCTGAAGTTGCAGTGGA
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGA
15731906 GAAGATCAAA
Statistics
Matches: 732, Mismatches: 77, Indels: 11
0.89 0.09 0.01
Matches are distributed among these distances:
129 1 0.00
130 125 0.17
131 604 0.83
132 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (131 bp):
CAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTAACC
AGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATT
G
Found at i:15731984 original size:88 final size:88
Alignment explanation
Indices: 15731877--15732082 Score: 220
Period size: 88 Copynumber: 2.3 Consensus size: 88
15731867 TGAAGATTGT
* * * * **
15731877 AGATCTTGTCTCTCTGAAGTTGCAGTGGAGAAGATCAAAGCCGCAAATCTTGT-CTCTTTGAAGT
1 AGATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATCAAAGCCACAAATCTTATAC-CCCTGAAGT
* *
15731941 TGC-AGTGGAGCAGATTGAAGTTGCG
65 TGCAAG-AGAGCAGATTGAAGTT-CA
* * * *
15731966 A-ATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATTAAAGCCACAAGTCTTATACCCCTGAAGTT
1 AGATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATCAAAGCCACAAATCTTATACCCCTGAAGTT
*
15732030 GCAAGAGAGCAGATTGAAGTTTA
66 GCAAGAGAGCAGATTGAAGTTCA
* * *
15732053 AGACCTTATCTCCTTAAAGTTGCAGTGGAG
1 AGATCTTATCTCCCTGAAGTTGCAGTGGAG
15732083 CAGACTGAAG
Statistics
Matches: 97, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
87 1 0.01
88 92 0.95
89 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (88 bp):
AGATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATCAAAGCCACAAATCTTATACCCCTGAAGTT
GCAAGAGAGCAGATTGAAGTTCA
Found at i:15733589 original size:24 final size:25
Alignment explanation
Indices: 15733540--15733773 Score: 156
Period size: 24 Copynumber: 9.4 Consensus size: 25
15733530 CATTACATAC
*
15733540 TATTTTAAATTATTTTACATATTATT
1 TATTTTAAATT-TTTTATATATTATT
*
15733566 TATTTTAAGTTTTTTATATATATTATT
1 TATTTTAA-ATTTTT-TATATATTATT
* * *
15733593 TATTTTAAA-CTTTTACATATTATA
1 TATTTTAAATTTTTTATATATTATT
* * * *
15733617 TATTTTAAGTTTATGTACATA--ATG
1 TATTTTAAATTT-TTTATATATTATT
* * *
15733641 TAGTTTAAACTATTTTATATATTAGT
1 TATTTTAAA-TTTTTTATATATTATT
*** * *
15733667 TATTTTAAACCGTTT-TACATTGTT
1 TATTTTAAATTTTTTATATATTATT
*
15733691 TATTTTAAATATTTTT-T-TGTTATT
1 TATTTTAAAT-TTTTTATATATTATT
* * *
15733715 TTTTTTAACTATTTTATATATTATT
1 TATTTTAAATTTTTTATATATTATT
* * *
15733740 CACTTTAAATTTTTTATATAATATT
1 TATTTTAAATTTTTTATATATTATT
15733765 TATTTTAAA
1 TATTTTAAA
15733774 CTGTTTTTTG
Statistics
Matches: 156, Mismatches: 42, Indels: 21
0.71 0.19 0.10
Matches are distributed among these distances:
23 4 0.03
24 60 0.38
25 45 0.29
26 27 0.17
27 20 0.13
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (25 bp):
TATTTTAAATTTTTTATATATTATT
Found at i:15733620 original size:28 final size:27
Alignment explanation
Indices: 15733558--15733621 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
15733548 ATTATTTTAC
* **
15733558 ATATTATTTATTTTAAGTTTTTTATAT
1 ATATTATTTATTTTAACTTTTACATAT
15733585 ATATTATTTATTTTAAACTTTTACATAT
1 ATATTATTTATTTT-AACTTTTACATAT
15733613 -TATATATTT
1 ATAT-TATTT
15733622 TAAGTTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 17 0.53
28 15 0.47
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATTATTTATTTTAACTTTTACATAT
Found at i:15734028 original size:36 final size:36
Alignment explanation
Indices: 15733988--15734057 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
15733978 TTATACATTA
*
15733988 TTTATTTTATTTTTTATATATTATTTATGTTAAACT
1 TTTATTTTATTTTATATATATTATTTATGTTAAACT
* *
15734024 TTTATTTTATTTTATGTATATTATTTATTTTAAA
1 TTTATTTTATTTTATATATATTATTTATGTTAAA
15734058 TTTCTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (36 bp):
TTTATTTTATTTTATATATATTATTTATGTTAAACT
Found at i:15734089 original size:25 final size:26
Alignment explanation
Indices: 15734041--15734092 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
15734031 TATTTTATGT
15734041 ATATTATTTATTTTAAATTTCTTTTTAA
1 ATATTATTTATTTTAAA--TCTTTTTAA
*
15734069 ATATTATTTATTTTAGA-CTTTTTA
1 ATATTATTTATTTTAAATCTTTTTA
15734093 TTTTAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
28 16 0.70
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
ATATTATTTATTTTAAATCTTTTTAA
Found at i:15734116 original size:24 final size:24
Alignment explanation
Indices: 15734089--15734148 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
15734079 TTTTAGACTT
**
15734089 TTTATTTTAAATTGTTTTGTAT-TA
1 TTTATTTTAAATTAATTT-TATGTA
*
15734113 TTTACTTTAAATTAATTTTATGGTA
1 TTTATTTTAAATTAATTTTAT-GTA
15734138 TTTATTTTAAA
1 TTTATTTTAAA
15734149 CCTTTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 3 0.10
24 15 0.50
25 12 0.40
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.62
Consensus pattern (24 bp):
TTTATTTTAAATTAATTTTATGTA
Found at i:15736735 original size:21 final size:21
Alignment explanation
Indices: 15736705--15736745 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15736695 CGTTACTTTG
*
15736705 GTTTAATGATTTTGA-AAATC
1 GTTTAATGATATTGAGAAATC
15736725 GTTTATATGATATTGAGAAAT
1 GTTTA-ATGATATTGAGAAAT
15736746 GGTATAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (21 bp):
GTTTAATGATATTGAGAAATC
Found at i:15739076 original size:5 final size:5
Alignment explanation
Indices: 15739066--15739103 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
15739056 ATTTGTGTTC
15739066 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
15739104 TTCACAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:15743536 original size:5 final size:5
Alignment explanation
Indices: 15743526--15743557 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
15743516 TTGTGTGTTC
15743526 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
15743558 TTCACAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:15743540 original size:9 final size:9
Alignment explanation
Indices: 15743526--15743556 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
15743516 TTGTGTGTTC
15743526 TTTATTTTA
1 TTTATTTTA
15743535 TTTATTTTA
1 TTTATTTTA
15743544 TTTTATTTTA
1 -TTTATTTTA
15743554 TTT
1 TTT
15743557 TTTCACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:15745987 original size:19 final size:19
Alignment explanation
Indices: 15745963--15746011 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
15745953 TTTTTGGGCT
15745963 TAATGGGCCAAAAACGGGA
1 TAATGGGCCAAAAACGGGA
15745982 TAATGGGCCAAAAACGGGA
1 TAATGGGCCAAAAACGGGA
15746001 TAATGGGCCAA
1 TAATGGGCCAA
15746012 CGGACCCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.31, T:0.12
Consensus pattern (19 bp):
TAATGGGCCAAAAACGGGA
Found at i:15746339 original size:54 final size:54
Alignment explanation
Indices: 15746248--15746409 Score: 204
Period size: 54 Copynumber: 3.0 Consensus size: 54
15746238 TGGAGGAACC
* * * *
15746248 GTCCTGGTGGCTATGCCACAATTATTTTATCTAGTGGCTCTGCCACATATATCT
1 GTCCTGATGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
15746302 GTCCTGATGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGATGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
15746356 GTTCT-AGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATCT
1 GTCCTGA-TGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
15746409 G
1 G
15746410 GTAGCCTCGC
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
53 14 0.14
54 83 0.86
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (54 bp):
GTCCTGATGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:15746403 original size:81 final size:80
Alignment explanation
Indices: 15746251--15746409 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 80
15746241 AGGAACCGTC
* * *
15746251 CTGGTGGCTATGCCACAATTATTTTATCTAGTGGCTCTGCCACATATATCTGTCCTGATGGCTAT
1 CTGGTGGCTATGCCACAATTATTGTATCTAGTGGCTCTGCCACATATATCTGTCCTGATGACTAC
15746316 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
15746332 CTGGTGGCTCTGCCAC-ATATATCTGT-TCTAGTGGCTCTGCCACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TAT-TGTATCTAGTGGCTCTGCCACATATATCTGT-CCTGATGAC
* *
15746394 TCCGTCACAATATCTG
63 TACGCCACAATATCTG
15746410 GTAGCCTCGC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
80 16 0.24
81 49 0.73
82 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATTGTATCTAGTGGCTCTGCCACATATATCTGTCCTGATGACTAC
GCCACAATATCTGAT
Found at i:15746406 original size:27 final size:27
Alignment explanation
Indices: 15746251--15746409 Score: 164
Period size: 27 Copynumber: 5.9 Consensus size: 27
15746241 AGGAACCGTC
* *
15746251 CTGGTGGCTATGCCACAATTAT-TTTAT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
15746278 CTAGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
15746305 CTGATGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
15746332 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
15746359 CTAGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* * *
15746386 CTGGTGACTCCGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
15746410 GTAGCCTCGC
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
26 9 0.08
27 97 0.88
28 4 0.04
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:15752575 original size:46 final size:46
Alignment explanation
Indices: 15752525--15752693 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
15752515 TGAGCATCCA
*
15752525 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * *
15752571 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* * *
15752618 AACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* *
15752664 AGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
15752694 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 56 0.55
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:15752677 original size:93 final size:93
Alignment explanation
Indices: 15752518--15752688 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
15752508 GGATGGTTGA
* * *
15752518 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
15752583 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
15752611 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
15752676 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
15752689 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15764048 original size:47 final size:47
Alignment explanation
Indices: 15763970--15764328 Score: 565
Period size: 47 Copynumber: 7.5 Consensus size: 47
15763960 CCCTTCGGGA
* * * * * *
15763970 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
15764017 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15764064 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15764113 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15764160 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15764209 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
15764256 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
15764303 CTTATCACATATATATACACTTTCAC
1 CTTATCAC--ATATATACACTTTCAC
15764329 GTATACACAC
Statistics
Matches: 291, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
47 183 0.63
49 108 0.37
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15764132 original size:96 final size:96
Alignment explanation
Indices: 15763970--15764328 Score: 582
Period size: 96 Copynumber: 3.8 Consensus size: 96
15763960 CCCTTCGGGA
* * * * * * *
15763970 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
15764033 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
15764064 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
15764129 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
15764160 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
15764225 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
15764256 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
15764319 ACACTTTCAC
64 ACACTTTCAC
15764329 GTATACACAC
Statistics
Matches: 250, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
94 55 0.22
95 1 0.00
96 194 0.78
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:15764228 original size:143 final size:144
Alignment explanation
Indices: 15763970--15764328 Score: 589
Period size: 143 Copynumber: 2.5 Consensus size: 144
15763960 CCCTTCGGGA
* * * * * * * *
15763970 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
15764033 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
15764098 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
15764113 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
15764178 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATTAC-ATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
15764242 ATCGGCCATTAGGC
131 ATCGGCCATTAGGC
*
15764256 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
15764321 ACTTTCAC
66 ACTTTCAC
15764329 GTATACACAC
Statistics
Matches: 203, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
143 158 0.78
145 45 0.22
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (144 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:15767441 original size:24 final size:24
Alignment explanation
Indices: 15767414--15767476 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
15767404 ACCTAGAAAG
* * *
15767414 CAATAGAAACACAAACCCATATAT
1 CAATAGAAACGCAAACCCACAAAT
* * *
15767438 CAATAAAAATGCAAACTCACAAAT
1 CAATAGAAACGCAAACCCACAAAT
15767462 CAATAGAAACGCAAA
1 CAATAGAAACGCAAA
15767477 ATCACAAACC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.57, C:0.22, G:0.06, T:0.14
Consensus pattern (24 bp):
CAATAGAAACGCAAACCCACAAAT
Found at i:15767481 original size:24 final size:24
Alignment explanation
Indices: 15767436--15767484 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
15767426 AAACCCATAT
* *
15767436 ATCAATAAAAATGCAAACTCACAA
1 ATCAATAAAAACGCAAAATCACAA
*
15767460 ATCAATAGAAACGCAAAATCACAA
1 ATCAATAAAAACGCAAAATCACAA
15767484 A
1 A
15767485 CCTTGAAGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.59, C:0.20, G:0.06, T:0.14
Consensus pattern (24 bp):
ATCAATAAAAACGCAAAATCACAA
Found at i:15768488 original size:19 final size:19
Alignment explanation
Indices: 15768451--15768488 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15768441 TTATATAGAT
*
15768451 ATTTATAAATTAATTTATA
1 ATTTATAAATTAATATATA
15768470 ATTTAT-AATTAAATATATA
1 ATTTATAAATT-AATATATA
15768489 TTAATATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTATAAATTAATATATA
Found at i:15770008 original size:22 final size:21
Alignment explanation
Indices: 15769983--15770024 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15769973 ATTCAAGCAT
*
15769983 TTTTTATTTTTTAAATTTTTAA
1 TTTTTA-TTTTTAAACTTTTAA
15770005 TTTTTATTTTTAAACTTTTA
1 TTTTTATTTTTAAACTTTTA
15770025 GTTAGTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTATTTTTAAACTTTTAA
Found at i:15770108 original size:24 final size:26
Alignment explanation
Indices: 15770063--15770115 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
15770053 AACAATTTAT
15770063 TTATATAGATAAAATGAAAATTATATAA
1 TTATATAGATAAAAT--AAATTATATAA
*
15770091 TTATATA-ATAAAATAATTTTATATA
1 TTATATAGATAAAATAA-ATTATATA
15770116 TATATTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 2 0.09
26 7 0.30
27 7 0.30
28 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
TTATATAGATAAAATAAATTATATAA
Found at i:15770148 original size:17 final size:17
Alignment explanation
Indices: 15770107--15770149 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
15770097 AATAAAATAA
*
15770107 TTTTATATATATATTAT
1 TTTTAAATATATATTAT
*
15770124 TATGTTAAATATATTTTAT
1 T-T-TTAAATATATATTAT
15770143 TTTTAAA
1 TTTTAAA
15770150 CATCAACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 6 0.27
18 2 0.09
19 14 0.64
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTAAATATATATTAT
Found at i:15770404 original size:54 final size:54
Alignment explanation
Indices: 15770311--15770427 Score: 182
Period size: 54 Copynumber: 2.2 Consensus size: 54
15770301 AAAAATATCA
* *
15770311 AAAAAATTAATTGATTTTTTTTAAAAATAAAATATATTTAATATAATAATATAT
1 AAAAAATTAATTGATGTATTTTAAAAATAAAATATATTTAATATAATAATATAT
* *
15770365 AGAAAAATTAGTTGATGTATTTTAAAAAT-AAATATATTTAATATAATCATATAT
1 A-AAAAATTAATTGATGTATTTTAAAAATAAAATATATTTAATATAATAATATAT
15770419 AAAAAATTA
1 AAAAAATTA
15770428 TTTTCATTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
53 8 0.14
54 26 0.45
55 24 0.41
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (54 bp):
AAAAAATTAATTGATGTATTTTAAAAATAAAATATATTTAATATAATAATATAT
Found at i:15774680 original size:140 final size:140
Alignment explanation
Indices: 15774428--15774706 Score: 549
Period size: 140 Copynumber: 2.0 Consensus size: 140
15774418 TTTCATAGAT
15774428 TGTCTATTTGTTCCCCAAGATCAGTAGTTCTTAACGTATTTCAACTTCAATTTTAGGCTTCTCCC
1 TGTCTATTTGTTCCCCAAGATCAGTAGTTCTTAACGTATTTCAACTTCAATTTTAGGCTTCTCCC
*
15774493 ATTTTAAAGTTTTCCTGATATAACTGTCATTTAGATTTGGTGTTTCCATTAGAGTAACTAAAACA
66 ATTTTAAAGTTTTCCTGATATAACTGTCATTTAGATTTGGTGTTTCCATTAAAGTAACTAAAACA
15774558 TAGTTATTGG
131 TAGTTATTGG
15774568 TGTCTATTTGTTCCCCAAGATCAGTAGTTCTTAACGTATTTCAACTTCAATTTTAGGCTTCTCCC
1 TGTCTATTTGTTCCCCAAGATCAGTAGTTCTTAACGTATTTCAACTTCAATTTTAGGCTTCTCCC
15774633 ATTTTAAAGTTTTCCTGATATAACTGTCATTTAGATTTGGTGTTTCCATTAAAGTAACTAAAACA
66 ATTTTAAAGTTTTCCTGATATAACTGTCATTTAGATTTGGTGTTTCCATTAAAGTAACTAAAACA
15774698 TAGTTATTG
131 TAGTTATTG
15774707 TTGGTCAAAA
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 138 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (140 bp):
TGTCTATTTGTTCCCCAAGATCAGTAGTTCTTAACGTATTTCAACTTCAATTTTAGGCTTCTCCC
ATTTTAAAGTTTTCCTGATATAACTGTCATTTAGATTTGGTGTTTCCATTAAAGTAACTAAAACA
TAGTTATTGG
Found at i:15781148 original size:9 final size:9
Alignment explanation
Indices: 15781128--15781180 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
15781118 CTGCTGTTAC
15781128 TTTTTTTCT
1 TTTTTTTCT
15781137 TTTTCTTT-T
1 TTTT-TTTCT
*
15781146 TTTTTTTAT
1 TTTTTTTCT
15781155 TTTTTTTACT
1 TTTTTTT-CT
**
15781165 TTCGTTTCT
1 TTTTTTTCT
15781174 TTTTTTT
1 TTTTTTT
15781181 TATGTTTTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
8 3 0.08
9 24 0.67
10 9 0.25
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.85
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:15781225 original size:17 final size:18
Alignment explanation
Indices: 15781193--15781226 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15781183 TGTTTTGTCT
15781193 TTTATCTTTATTTATTTA
1 TTTATCTTTATTTATTTA
*
15781211 TTTAT-TTTGTTTATTT
1 TTTATCTTTATTTATTT
15781227 TTTTGATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTATCTTTATTTATTTA
Found at i:15781282 original size:23 final size:20
Alignment explanation
Indices: 15781251--15781305 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
15781241 AAAAAACTTG
*
15781251 AAATGTATATTTGAAATATTTT
1 AAATATATATTT-AAA-ATTTT
*
15781273 ATAATATATATTTTAAATTTT
1 A-AATATATATTTAAAATTTT
15781294 AAATATATATTT
1 AAATATATATTT
15781306 TTGAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 11 0.37
21 6 0.20
22 3 0.10
23 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (20 bp):
AAATATATATTTAAAATTTT
Found at i:15781307 original size:21 final size:21
Alignment explanation
Indices: 15781268--15781396 Score: 86
Period size: 21 Copynumber: 6.0 Consensus size: 21
15781258 TATTTGAAAT
15781268 ATTTTATAATATATA-TTTTAA
1 ATTTTA-AATATATATTTTTAA
15781289 ATTTTAAATATATATTTTTGAA
1 ATTTTAAATATATATTTTT-AA
** * * *
15781311 ATTATT-TTTCTAAATTTTAAAA
1 ATT-TTAAATATATATTTT-TAA
***
15781333 ATTATTTTTTA-ATATTTTTTAA
1 ATT-TTAAATATATA-TTTTTAA
15781355 ATTTTAAATAT-TATTTTTTAA
1 ATTTTAAATATATA-TTTTTAA
*
15781376 ATATTAAATATATATTTTTAA
1 ATTTTAAATATATATTTTTAA
15781397 TAATATAAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
20 8 0.09
21 41 0.47
22 30 0.34
23 9 0.10
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (21 bp):
ATTTTAAATATATATTTTTAA
Found at i:15781312 original size:22 final size:22
Alignment explanation
Indices: 15781268--15781394 Score: 93
Period size: 22 Copynumber: 5.9 Consensus size: 22
15781258 TATTTGAAAT
15781268 ATTTTATAATATATA--TTTTAA
1 ATTTTA-AATATATATTTTTTAA
*
15781289 ATTTTAAATATATATTTTTGAA
1 ATTTTAAATATATATTTTTTAA
** * * **
15781311 ATTATT-TTTCTAAATTTTAAAA
1 ATT-TTAAATATATATTTTTTAA
***
15781333 ATTATTTTTTA-ATATTTTTTAA
1 ATT-TTAAATATATATTTTTTAA
15781355 ATTTTAAATAT-TATTTTTTAA
1 ATTTTAAATATATATTTTTTAA
*
15781376 ATATTAAATATATATTTTT
1 ATTTTAAATATATATTTTT
15781395 AATAATATAA
Statistics
Matches: 85, Mismatches: 15, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
20 8 0.09
21 30 0.35
22 42 0.49
23 5 0.06
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (22 bp):
ATTTTAAATATATATTTTTTAA
Found at i:15781401 original size:23 final size:22
Alignment explanation
Indices: 15781344--15781409 Score: 89
Period size: 21 Copynumber: 3.0 Consensus size: 22
15781334 TTATTTTTTA
*
15781344 ATATTTTTTAAATTTTAAATAT
1 ATATTTTTTAAATATTAAATAT
15781366 -TATTTTTTAAATATTAAATAT
1 ATATTTTTTAAATATTAAATAT
* *
15781387 ATATTTTTAATAATATAAAATAT
1 ATATTTTTTA-AATATTAAATAT
15781410 TTAAATATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
21 20 0.51
22 8 0.21
23 11 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATTTTTTAAATATTAAATAT
Found at i:15781413 original size:52 final size:53
Alignment explanation
Indices: 15781311--15781418 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 53
15781301 TATTTTTGAA
* * * *
15781311 ATTATTTTTCTAAATTTTAAAAATTATTTTTTAATATTTTTTAAATTTTAAAT
1 ATTATTTTTCTAAATATTAAAAATTATTTTTTAATATATATAAAATTTTAAAT
*
15781364 ATTATTTTT-TAAATATTAAATA-TATATTTTTAATA-ATATAAAATATTTAAAT
1 ATTATTTTTCTAAATATTAAAAATTAT-TTTTTAATATATATAAAAT-TTTAAAT
15781416 ATT
1 ATT
15781419 TTAATTATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
51 9 0.19
52 30 0.62
53 9 0.19
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (53 bp):
ATTATTTTTCTAAATATTAAAAATTATTTTTTAATATATATAAAATTTTAAAT
Found at i:15781626 original size:19 final size:21
Alignment explanation
Indices: 15781602--15781645 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 21
15781592 ATTAAAAAAG
15781602 ATTTGTTAAAAAAA-G-ATTT
1 ATTTGTTAAAAAAATGAATTT
15781621 ATTTGTTAAAAAAATGAATTT
1 ATTTGTTAAAAAAATGAATTT
15781642 ATTT
1 ATTT
15781646 AAATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.61
20 1 0.04
21 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (21 bp):
ATTTGTTAAAAAAATGAATTT
Found at i:15781699 original size:20 final size:20
Alignment explanation
Indices: 15781644--15781699 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
15781634 ATGAATTTAT
*
15781644 TTAAATATATATATTAAAAA
1 TTAAAAATATATATTAAAAA
** * *
15781664 GAAAAAATTTAAATTAAAAA
1 TTAAAAATATATATTAAAAA
15781684 TTAAAAATATATATTA
1 TTAAAAATATATATTA
15781700 TAACTAGTCA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TTAAAAATATATATTAAAAA
Found at i:15782183 original size:40 final size:41
Alignment explanation
Indices: 15782133--15782211 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 41
15782123 TAACAGTAAA
* *
15782133 ATTAATTTTTTTAATTTTAGTACACATTTATAAATTTATAT
1 ATTAATTTTTTTAATTTTACTACACATTCATAAATTTATAT
*
15782174 ATTAA-TTTTTTAATTTTACTACACATTCATGAATTTAT
1 ATTAATTTTTTTAATTTTACTACACATTCATAAATTTAT
15782212 GTACCTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 30 0.86
41 5 0.14
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (41 bp):
ATTAATTTTTTTAATTTTACTACACATTCATAAATTTATAT
Found at i:15782372 original size:71 final size:72
Alignment explanation
Indices: 15782286--15782433 Score: 221
Period size: 71 Copynumber: 2.1 Consensus size: 72
15782276 TAAAAACTTA
* *
15782286 AAAAAATTAAATATATT-AAAAAATGTTAAGTATAATCAATCTTAAAATTTTT-ATATATTTAAT
1 AAAAAATTAAATATATTAAAAAAATGTT-AGTATAACCAAT-TTAAAATTTTTAATATATTCAAT
15782349 ATA-TTTTT
64 ATATTTTTT
* *
15782357 AAAATATTAAATATATTAAAAAAATGTTAGTATAACCAATTTTAAATTTTTAATATATTCAATAT
1 AAAAAATTAAATATATTAAAAAAATGTTAGTATAACCAATTTAAAATTTTTAATATATTCAATAT
15782422 ATTTTTT
66 ATTTTTT
15782429 AAAAA
1 AAAAA
15782434 TATATTTTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
70 10 0.14
71 40 0.58
72 19 0.28
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (72 bp):
AAAAAATTAAATATATTAAAAAAATGTTAGTATAACCAATTTAAAATTTTTAATATATTCAATAT
ATTTTTT
Found at i:15782546 original size:19 final size:19
Alignment explanation
Indices: 15782524--15782578 Score: 60
Period size: 17 Copynumber: 3.0 Consensus size: 19
15782514 TAAAAAAACT
15782524 TTAAAAAAATTTAAATATA
1 TTAAAAAAATTTAAATATA
* * *
15782543 TT--AAAATTTTGAACATA
1 TTAAAAAAATTTAAATATA
*
15782560 TTAAAAAAATTTAAGTATA
1 TTAAAAAAATTTAAATATA
15782579 ACCAATTTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
17 14 0.52
19 13 0.48
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
TTAAAAAAATTTAAATATA
Found at i:15788280 original size:24 final size:24
Alignment explanation
Indices: 15788234--15788326 Score: 71
Period size: 25 Copynumber: 3.5 Consensus size: 24
15788224 AGGTCATATC
*
15788234 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATAATATATTTAAAAT-A
*
15788259 TTTAAAAATTATA-ATTTAAAATA
1 TTTAAAAATAATATATTTAAAATA
15788282 TTGTAAAACAACTTAAATAATATTTAAAATA
1 TT-T-AAA-AA--T-AAT-ATATTTAAAATA
*
15788313 TTATAAAACTAATA
1 TT-TAAAAATAATA
15788327 ATAAATTTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
23 3 0.05
24 9 0.16
25 16 0.29
26 5 0.09
27 1 0.02
28 1 0.02
29 3 0.05
30 4 0.07
31 13 0.24
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (24 bp):
TTTAAAAATAATATATTTAAAATA
Found at i:15788390 original size:21 final size:20
Alignment explanation
Indices: 15788366--15788427 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
15788356 ATTTAAATGT
15788366 TTTATATTATTAAAAAATATA
1 TTTA-ATTATTAAAAAATATA
15788387 TTTAA-TATTTAAAAAATAATA
1 TTTAATTA-TTAAAAAAT-ATA
15788408 TTTAAAATT-TTAAAAAATAT
1 TTT--AATTATTAAAAAATAT
15788428 TAAAAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.06
20 10 0.28
21 12 0.33
22 9 0.25
23 2 0.06
24 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAATTATTAAAAAATATA
Found at i:15788394 original size:22 final size:21
Alignment explanation
Indices: 15788369--15788427 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 21
15788359 TAAATGTTTT
15788369 ATATTATTAAAAAATATATTTA
1 ATATT-TTAAAAAATATATTTA
15788391 ATA-TTTAAAAAATAATATTTA
1 ATATTTTAAAAAAT-ATATTTA
*
15788412 AAATTTTAAAAAATAT
1 ATATTTTAAAAAATAT
15788428 TAAAAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.26
21 12 0.35
22 13 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATTTTAAAAAATATATTTA
Found at i:15788423 original size:23 final size:20
Alignment explanation
Indices: 15788375--15788467 Score: 85
Period size: 20 Copynumber: 5.0 Consensus size: 20
15788365 TTTTATATTA
*
15788375 TTAAAAAATATATTTAATAT
1 TTAAAAAATATATTTAAAAT
15788395 TTAAAAAATAATATTTAAAAT
1 TTAAAAAAT-ATATTTAAAAT
*
15788416 TTTAAAAA-ATA-TT-AAA-
1 TTAAAAAATATATTTAAAAT
*
15788432 --AAATAATA-ATTTAAAAT
1 TTAAAAAATATATTTAAAAT
15788449 TTAGAAAAATA-ATTTAAAA
1 TTA-AAAAATATATTTAAAA
15788468 ATATATATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
14 5 0.08
15 3 0.05
16 3 0.05
17 3 0.05
18 2 0.03
19 4 0.07
20 23 0.38
21 17 0.28
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (20 bp):
TTAAAAAATATATTTAAAAT
Found at i:15788425 original size:114 final size:114
Alignment explanation
Indices: 15788191--15788441 Score: 291
Period size: 114 Copynumber: 2.2 Consensus size: 114
15788181 AATTATATTA
*
15788191 TTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTTAAAAATAATATATTTTAAA
1 TTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATCTTTAAAAATAATATATTTTAAA
* ** *
15788256 TAATTTAAAAATTATAATTTAAAATATTGTAAAACAACTTAAATAATAT
66 TAATTTAAAAAATATAATTTAAAATATTAAAAAACAAATTAAATAATAT
*
15788305 TTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATCTTTAAAATATTTAA-ATGTTTT
1 TTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATCTTTAAAA-A--TAATATATTTT
* * * * *
15788369 ATATTA-TTAAAAAATAT-ATTTAATAT-TTAAAAAATAATATTTAA-AAT-T
63 AAATAATTTAAAAAATATAATTTAAAATATTAAAAAACAA-ATTAAATAATAT
*
15788417 TTAAAAAATATTA-AAAAATAATAAT
1 TT--AAAATATTATAAAACTAATAAT
15788442 TTAAAATTTA
Statistics
Matches: 119, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
112 3 0.03
113 22 0.18
114 70 0.59
115 11 0.09
116 10 0.08
117 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (114 bp):
TTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATCTTTAAAAATAATATATTTTAAA
TAATTTAAAAAATATAATTTAAAATATTAAAAAACAAATTAAATAATAT
Found at i:15788434 original size:33 final size:31
Alignment explanation
Indices: 15788390--15788494 Score: 138
Period size: 33 Copynumber: 3.2 Consensus size: 31
15788380 AAATATATTT
15788390 AATATTTAAAAAATAATATTTAAAATTTTAAAA
1 AATA-TTAAAAAATAATATTTAAAA-TTTAAAA
15788423 AATATTAAAAAATAATAATTTAAAATTTAGAAA
1 AATATTAAAAAATAAT-ATTTAAAATTTA-AAA
*
15788456 AATAATTTAAAAATATATATTTAAAATTTAAAA
1 AAT-ATTAAAAAATA-ATATTTAAAATTTAAAA
15788489 ATATAT
1 A-ATAT
15788495 ATATTATAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 10
0.86 0.01 0.13
Matches are distributed among these distances:
32 16 0.24
33 24 0.36
34 24 0.36
35 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (31 bp):
AATATTAAAAAATAATATTTAAAATTTAAAA
Found at i:15788479 original size:14 final size:12
Alignment explanation
Indices: 15788393--15788481 Score: 50
Period size: 10 Copynumber: 7.7 Consensus size: 12
15788383 TATATTTAAT
15788393 ATTTAAAAAATA
1 ATTTAAAAAATA
*
15788405 ATATT-TAAAAT-
1 AT-TTAAAAAATA
15788416 -TTTAAAAAAT-
1 ATTTAAAAAATA
15788426 A-TTAAAAAATA
1 ATTTAAAAAATA
**
15788437 A--TAATTTAA-A
1 ATTTAA-AAAATA
15788447 ATTTAGAAAAATA
1 ATTTA-AAAAATA
15788460 ATTTAAAAATATA
1 ATTTAAAAA-ATA
15788473 TATTTAAAA
1 -ATTTAAAA
15788482 TTTAAAAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
9 2 0.03
10 20 0.33
11 3 0.05
12 15 0.25
13 12 0.20
14 8 0.13
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (12 bp):
ATTTAAAAAATA
Found at i:15788483 original size:21 final size:21
Alignment explanation
Indices: 15788375--15788496 Score: 81
Period size: 21 Copynumber: 5.7 Consensus size: 21
15788365 TTTTATATTA
*
15788375 TTAAAAA-ATATATTTAATAT
1 TTAAAAATATATATTTAAAAT
15788395 TTAAAAA-ATAATATTTAAAATT
1 TTAAAAATAT-ATATTTAAAA-T
* **
15788417 TTAAAAAATATTAAAAAATAATAAT
1 TT-AAAAATA-T-ATATTTAA-AAT
* * **
15788442 TT-AAAATTTAGA-AAAATAAT
1 TTAAAAATATATATTTAA-AAT
15788462 TTAAAAATATATATTTAAAAT
1 TTAAAAATATATATTTAAAAT
15788483 TTAAAAATATATAT
1 TTAAAAATATATAT
15788497 ATTATAAAAC
Statistics
Matches: 83, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
20 18 0.22
21 36 0.43
22 6 0.07
23 10 0.12
24 1 0.01
25 10 0.12
26 2 0.02
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (21 bp):
TTAAAAATATATATTTAAAAT
Found at i:15788498 original size:23 final size:22
Alignment explanation
Indices: 15788375--15788530 Score: 71
Period size: 23 Copynumber: 7.1 Consensus size: 22
15788365 TTTTATATTA
*
15788375 TTAAAAA-ATATATT-TAATAT
1 TTAAAAATATATATTATAAAAT
15788395 TTAAAAA-ATAATATT-TAAAATT
1 TTAAAAATAT-ATATTATAAAA-T
* **
15788417 TTAAAAAATATTAAAAAATAATAAT
1 TT-AAAAATA-TATATTATAA-AAT
** *
15788442 TT-AAAAT-T-TAGAAAAATAAT
1 TTAAAAATATATATTATAA-AAT
15788462 TTAAAAATATATATT-TAAAAT
1 TTAAAAATATATATTATAAAAT
15788483 TTAAAAATATATATATTATAAAACAT
1 TT-AAAA-ATATATATTAT-AAA-AT
* *
15788509 TT-CAAATATATATT-TCAAAT
1 TTAAAAATATATATTATAAAAT
15788529 TT
1 TT
15788531 TTTAAATTAA
Statistics
Matches: 109, Mismatches: 12, Indels: 30
0.72 0.08 0.20
Matches are distributed among these distances:
20 24 0.22
21 22 0.20
22 11 0.10
23 30 0.28
24 6 0.06
25 10 0.09
26 6 0.06
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (22 bp):
TTAAAAATATATATTATAAAAT
Found at i:15788555 original size:5 final size:5
Alignment explanation
Indices: 15788547--15788580 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
15788537 TTAATCATAA
15788547 AAAAT AAAAT AAAAT AAAAT -AAAT AAAGAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAA
15788581 GACAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:15793673 original size:72 final size:72
Alignment explanation
Indices: 15793504--15793653 Score: 300
Period size: 72 Copynumber: 2.1 Consensus size: 72
15793494 TCTCCTAACA
15793504 AAGTTTTATACAAAACTATGGAATCTTAAAGTGCCAAGTAAAATCAGAATACATTTATGGAAAGT
1 AAGTTTTATACAAAACTATGGAATCTTAAAGTGCCAAGTAAAATCAGAATACATTTATGGAAAGT
15793569 TGCGAAT
66 TGCGAAT
15793576 AAGTTTTATACAAAACTATGGAATCTTAAAGTGCCAAGTAAAATCAGAATACATTTATGGAAAGT
1 AAGTTTTATACAAAACTATGGAATCTTAAAGTGCCAAGTAAAATCAGAATACATTTATGGAAAGT
15793641 TGCGAAT
66 TGCGAAT
15793648 AAGTTT
1 AAGTTT
15793654 GTGCCGGTCT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 78 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.30
Consensus pattern (72 bp):
AAGTTTTATACAAAACTATGGAATCTTAAAGTGCCAAGTAAAATCAGAATACATTTATGGAAAGT
TGCGAAT
Found at i:15797504 original size:34 final size:34
Alignment explanation
Indices: 15797461--15797581 Score: 127
Period size: 34 Copynumber: 3.6 Consensus size: 34
15797451 GTTCTAATCT
* *
15797461 AATATGACATTCTGATATGATATATGTTTCTGAA
1 AATATGACATTCTAATATGATATATATTTCTGAA
* * * *
15797495 AATATGACATTCTGATCTGGTATATATTTCTGGA
1 AATATGACATTCTAATATGATATATATTTCTGAA
* * * *
15797529 AATATCACATTCTAATTTAATATATATTTCT-AGT
1 AATATGACATTCTAATATGATATATATTTCTGA-A
*
15797563 AATGTGACATTCTAATATG
1 AATATGACATTCTAATATG
15797582 GTATTTGTAT
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
34 71 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (34 bp):
AATATGACATTCTAATATGATATATATTTCTGAA
Found at i:15813402 original size:12 final size:12
Alignment explanation
Indices: 15813385--15813414 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15813375 TATAAAACTT
15813385 ATTTTATTATTA
1 ATTTTATTATTA
15813397 ATTTTATTATTA
1 ATTTTATTATTA
*
15813409 TTTTTA
1 ATTTTA
15813415 AGACATTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTTATTATTA
Found at i:15813430 original size:30 final size:30
Alignment explanation
Indices: 15813394--15813455 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
15813384 TATTTTATTA
15813394 TTAATTTTATTATTATTTTTA-AGACATTTG
1 TTAATTTTATTATTA-TTTTAGAGACATTTG
15813424 TTAATTTTATTATTATTTTAGAGACATTTG
1 TTAATTTTATTATTATTTTAGAGACATTTG
15813454 TT
1 TT
15813456 TGGTAAGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.60
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAGAGACATTTG
Found at i:15813557 original size:18 final size:18
Alignment explanation
Indices: 15813536--15813575 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
15813526 AAAATATTTA
*
15813536 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
15813554 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
15813572 TTTT
1 TTTT
15813576 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:15813607 original size:12 final size:12
Alignment explanation
Indices: 15813577--15813609 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
15813567 TATATTTTTT
15813577 AAAATT-ATATA
1 AAAATTAATATA
15813588 AAAA-TAATATA
1 AAAATTAATATA
15813599 AAAATTAATAT
1 AAAATTAATAT
15813610 GGGCGGGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:15816660 original size:6 final size:6
Alignment explanation
Indices: 15816651--15816685 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
15816641 TAAGGAGAGC
*
15816651 TTTT-A TTTTTA TTTTCA TTTTCA TTTTCA TTTTCA
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
15816686 ATTTGGTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:15817235 original size:23 final size:23
Alignment explanation
Indices: 15817195--15817245 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
15817185 AATTATTTTA
*
15817195 TTAAATTTAAATTCATTACAATG
1 TTAAATTCAAATTCATTACAATG
* * * *
15817218 TTAAATTCAAGTTTATTACCATT
1 TTAAATTCAAATTCATTACAATG
15817241 TTAAA
1 TTAAA
15817246 ATATCATTCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (23 bp):
TTAAATTCAAATTCATTACAATG
Found at i:15818408 original size:5 final size:5
Alignment explanation
Indices: 15818398--15818464 Score: 63
Period size: 5 Copynumber: 14.4 Consensus size: 5
15818388 AAGAAGAAGG
* * *
15818398 GAGAA GAGAA GA-AA -AAAA GAAAA GAGAA GA-AA GA-AA GAAAA GAGAA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA
*
15818444 AAGAA GAGAA GAGAA GA-AA GA
1 GAGAA GAGAA GAGAA GAGAA GA
15818465 AAAGTTTTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
3 1 0.02
4 16 0.29
5 38 0.69
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:15818410 original size:18 final size:17
Alignment explanation
Indices: 15818387--15818466 Score: 74
Period size: 18 Copynumber: 4.6 Consensus size: 17
15818377 AAAACATAAG
* *
15818387 GAAGAAGAAGGGAGAAGA
1 GAAGAAGAA-AGAAAAGA
*
15818405 GAAGAAAAAAAGAAAAGA
1 GAAG-AAGAAAGAAAAGA
15818423 GAAGAAAGAAAGAAAAGA
1 GAAG-AAGAAAGAAAAGA
*
15818441 GAA-AAG-AAGAGAAGA
1 GAAGAAGAAAGAAAAGA
15818456 GAAGAAAGAAA
1 GAAG-AAGAAA
15818467 AGTTTTATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
15 11 0.21
16 3 0.06
17 3 0.06
18 32 0.60
19 4 0.08
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
GAAGAAGAAAGAAAAGA
Found at i:15821704 original size:6 final size:6
Alignment explanation
Indices: 15821693--15821726 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
15821683 GTATACAATC
* *
15821693 GCTCAG GCTCAG GCTCTG ACTCAG GCTCAG GCTC
1 GCTCAG GCTCAG GCTCAG GCTCAG GCTCAG GCTC
15821727 TGACTTTGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.15, C:0.35, G:0.29, T:0.21
Consensus pattern (6 bp):
GCTCAG
Found at i:15821743 original size:18 final size:18
Alignment explanation
Indices: 15821694--15821731 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
15821684 TATACAATCG
15821694 CTCAGGCTCAGGCTCTGA
1 CTCAGGCTCAGGCTCTGA
15821712 CTCAGGCTCAGGCTCTGA
1 CTCAGGCTCAGGCTCTGA
15821730 CT
1 CT
15821732 TTGGCTCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.34, G:0.26, T:0.24
Consensus pattern (18 bp):
CTCAGGCTCAGGCTCTGA
Found at i:15822623 original size:19 final size:20
Alignment explanation
Indices: 15822599--15822648 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
15822589 TTAATAGTAA
*
15822599 ATACATGTGTA-AAAATAAT
1 ATACATATGTATAAAATAAT
*
15822618 ATACATATGTATAAATTAAT
1 ATACATATGTATAAAATAAT
*
15822638 A-AAATATGTAT
1 ATACATATGTAT
15822649 TACTTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (20 bp):
ATACATATGTATAAAATAAT
Found at i:15822743 original size:19 final size:19
Alignment explanation
Indices: 15822721--15822760 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
15822711 TAAATGAAAT
* *
15822721 AATAAATAAAAATAAAAAA
1 AATAAAGAAAAAGAAAAAA
15822740 AATAAAGAAAAAGAAAAAA
1 AATAAAGAAAAAGAAAAAA
15822759 AA
1 AA
15822761 GATGGAACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (19 bp):
AATAAAGAAAAAGAAAAAA
Found at i:15824425 original size:29 final size:29
Alignment explanation
Indices: 15824390--15824452 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
15824380 TGAGCAGGCA
* *
15824390 GTGTGCCTCACACGGCCTTAGACACGCCC
1 GTGTGCCTCACACGGCCCTAAACACGCCC
*
15824419 GTGTGCCTCACACGGCCCTAAACACGCCT
1 GTGTGCCTCACACGGCCCTAAACACGCCC
15824448 GTGTG
1 GTGTG
15824453 TCTAAGCCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.17, C:0.38, G:0.25, T:0.19
Consensus pattern (29 bp):
GTGTGCCTCACACGGCCCTAAACACGCCC
Found at i:15829540 original size:24 final size:25
Alignment explanation
Indices: 15829494--15829540 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
15829484 CGCTCTTTTC
*
15829494 TTTTTCTTCTTCTCTTCTTCAAAGA
1 TTTTTCTTCTTCTCTTCTGCAAAGA
15829519 TTTTT-TTC-TCTCTTCTGGCAAA
1 TTTTTCTTCTTCTCTTCT-GCAAA
15829541 AAATGGGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 7 0.35
25 5 0.25
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.55
Consensus pattern (25 bp):
TTTTTCTTCTTCTCTTCTGCAAAGA
Found at i:15830637 original size:16 final size:16
Alignment explanation
Indices: 15830606--15830642 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15830596 ATGTGAATAA
15830606 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
15830622 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
15830638 TATTA
1 TATTA
15830643 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:15833715 original size:30 final size:29
Alignment explanation
Indices: 15833670--15833726 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
15833660 CAACATTATA
*
15833670 TGAATTAATTAAATTTTAATATTTAAAAT
1 TGAAGTAATTAAATTTTAATATTTAAAAT
* *
15833699 TGAAGTAATATAAATTTTACTTTTTAAA
1 TGAAGTAAT-TAAATTTTAATATTTAAA
15833727 GATAATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (29 bp):
TGAAGTAATTAAATTTTAATATTTAAAAT
Found at i:15837765 original size:6 final size:6
Alignment explanation
Indices: 15837754--15837785 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
15837744 TGGAGAAAGA
*
15837754 ATATGT ATATGT ATATGT ATATGT TTATGT AT
1 ATATGT ATATGT ATATGT ATATGT ATATGT AT
15837786 GTATATACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (6 bp):
ATATGT
Found at i:15837792 original size:18 final size:18
Alignment explanation
Indices: 15837754--15837792 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
15837744 TGGAGAAAGA
*
15837754 ATATGTATATGTATATGT
1 ATATGTATATGTATATAT
* *
15837772 ATATGTTTATGTATGTAT
1 ATATGTATATGTATATAT
15837790 ATA
1 ATA
15837793 CTAATATTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (18 bp):
ATATGTATATGTATATAT
Found at i:15839916 original size:14 final size:15
Alignment explanation
Indices: 15839897--15839925 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15839887 GAGTAATTTT
15839897 AAATATT-GTATTAA
1 AAATATTAGTATTAA
15839911 AAATATTAGTATTAA
1 AAATATTAGTATTAA
15839926 TCTTGACACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (15 bp):
AAATATTAGTATTAA
Found at i:15841129 original size:8 final size:8
Alignment explanation
Indices: 15841118--15841142 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15841108 TTTAATAAGA
15841118 TATTTTAT
1 TATTTTAT
15841126 TATTTTAT
1 TATTTTAT
15841134 TATTTTAT
1 TATTTTAT
15841142 T
1 T
15841143 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:15843206 original size:41 final size:41
Alignment explanation
Indices: 15843040--15843195 Score: 226
Period size: 41 Copynumber: 3.8 Consensus size: 41
15843030 TTTATCGTTA
* * * * *
15843040 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
15843081 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
15843122 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
15843163 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
15843196 AAGAGCCGGT
Statistics
Matches: 106, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 101 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:15843466 original size:33 final size:33
Alignment explanation
Indices: 15843410--15843507 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
15843400 ATAGATATGT
*
15843410 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
15843442 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
15843475 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
15843508 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:15850835 original size:41 final size:41
Alignment explanation
Indices: 15850669--15850824 Score: 226
Period size: 41 Copynumber: 3.8 Consensus size: 41
15850659 TTTATCGTTA
* * * * *
15850669 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
15850710 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
15850751 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
15850792 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
15850825 AAGAGCCGGT
Statistics
Matches: 106, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 101 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:15851095 original size:33 final size:33
Alignment explanation
Indices: 15851039--15851136 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
15851029 ATAGATATGT
*
15851039 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
15851071 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
15851104 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
15851137 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:15858612 original size:2 final size:2
Alignment explanation
Indices: 15858605--15858633 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15858595 TATACTCTTT
15858605 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
15858634 TTGTAATTCA
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:15864264 original size:24 final size:26
Alignment explanation
Indices: 15864237--15864297 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
15864227 ACATATTTTC
15864237 TCAAAATTTTA-CAAAGGCAAAA-TG
1 TCAAAATTTTACCAAAGGCAAAATTG
* * *
15864261 TCAAAATGTTACCAAGGGTAAAATTG
1 TCAAAATTTTACCAAAGGCAAAATTG
15864287 TCAAAATTTTA
1 TCAAAATTTTA
15864298 TTGGGGGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 10 0.32
25 9 0.29
26 12 0.39
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (26 bp):
TCAAAATTTTACCAAAGGCAAAATTG
Found at i:15864292 original size:26 final size:24
Alignment explanation
Indices: 15864237--15864293 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
15864227 ACATATTTTC
*
15864237 TCAAAATTTTACAAAGGCAAAATG
1 TCAAAATGTTACAAAGGCAAAATG
* *
15864261 TCAAAATGTTACCAAGGGTAAAATTG
1 TCAAAATGTTA-CAAAGGCAAAA-TG
15864287 TCAAAAT
1 TCAAAAT
15864294 TTTATTGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 10 0.36
25 9 0.32
26 9 0.32
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.26
Consensus pattern (24 bp):
TCAAAATGTTACAAAGGCAAAATG
Found at i:15866607 original size:37 final size:37
Alignment explanation
Indices: 15866566--15866638 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
15866556 ACTTAATACA
15866566 TAACCTAAATAGCCAAAGTACATATAACCCTAATGAG
1 TAACCTAAATAGCCAAAGTACATATAACCCTAATGAG
*
15866603 TAACCTACATAGCCAAAGTACATATAACCCTAATGA
1 TAACCTAAATAGCCAAAGTACATATAACCCTAATGA
15866639 CTGAATACGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.22
Consensus pattern (37 bp):
TAACCTAAATAGCCAAAGTACATATAACCCTAATGAG
Found at i:15874186 original size:20 final size:21
Alignment explanation
Indices: 15874161--15874199 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
15874151 ACGTCCACGT
15874161 ATATATAAAATT-TTAAAAAA
1 ATATATAAAATTATTAAAAAA
15874181 ATATATAAAATTATTAAAA
1 ATATATAAAATTATTAAAA
15874200 TTTTCATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATATATAAAATTATTAAAAAA
Done.