Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 274 of 335
Found at i:83131737 original size:82 final size:83
Alignment explanation
Indices: 83131649--83131867 Score: 226
Period size: 83 Copynumber: 2.6 Consensus size: 83
83131639 AATTTTTAAT
* * * * * * *
83131649 AAAAATAGGG-CTTAATTATTTTTTTGAAAAAATTTGTGGGTCTTTTTGATGTATTTTGAAAGTT
1 AAAAATAGGGACTCAATTACTTTTTTGAAAAAATTTGAGAGCCTTTTTGATGCATTTTAAAAGTT
83131713 CAAGTACTCAATTGGGTA
66 CAAGTACTCAATTGGGTA
* *
83131731 AAAAATAGGGACTCAATTGCTTTTTTGAAAAGATTTGAGAGCCTTTTTGATGCATTTTAAAAGTT
1 AAAAATAGGGACTCAATTACTTTTTTGAAAAAATTTGAGAGCCTTTTTGATGCATTTTAAAAGTT
* * *
83131796 TAAGTACTCAAATGAGTGAGAA
66 CAAGTACTC-AAT---TGGGTA
* * * *
83131818 AAGAAAAAGGGACTTAATTACTTTTTCTGAAAAACTTTGAG-GACTTTTTG
1 AA-AAATAGGGACTCAATTACTTTTT-TGAAAAAATTTGAGAGCCTTTTTG
83131868 CACAATTAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
82 10 0.09
83 53 0.47
84 3 0.03
87 6 0.05
88 28 0.25
89 12 0.11
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (83 bp):
AAAAATAGGGACTCAATTACTTTTTTGAAAAAATTTGAGAGCCTTTTTGATGCATTTTAAAAGTT
CAAGTACTCAATTGGGTA
Found at i:83148152 original size:17 final size:17
Alignment explanation
Indices: 83148130--83148163 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
83148120 ATAAAAATGT
83148130 CACTTTAATTTCTCTCA
1 CACTTTAATTTCTCTCA
*
83148147 CACTTTAATTTTTCTCA
1 CACTTTAATTTCTCTCA
83148164 ATTTCGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (17 bp):
CACTTTAATTTCTCTCA
Found at i:83149129 original size:33 final size:33
Alignment explanation
Indices: 83149092--83149162 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
83149082 CATATTTTTT
83149092 TTATTGTATTG-TTATTAAATAGTATAAGTATTA
1 TTATTGTA-TGATTATTAAATAGTATAAGTATTA
* * *
83149125 TTATTGTATGATTATTAAATATTATTATTATTA
1 TTATTGTATGATTATTAAATAGTATAAGTATTA
83149158 TTATT
1 TTATT
83149163 ATTAAAGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (33 bp):
TTATTGTATGATTATTAAATAGTATAAGTATTA
Found at i:83149173 original size:27 final size:25
Alignment explanation
Indices: 83149120--83149212 Score: 89
Period size: 27 Copynumber: 3.6 Consensus size: 25
83149110 ATAGTATAAG
* *
83149120 TATTATTATT-GTATGATTATTAAA
1 TATTATTATTATTATTATTATTAAA
83149144 TATTATTATTATTATTATTATTAAAGA
1 TATTATTATTATTATTATTATT-AA-A
* *
83149171 TATAAGTATTATTATTATTATTCAACA
1 TATTATTATTATTATTATTATT-AA-A
* *
83149198 TATTTTTTTTATTAT
1 TATTATTATTATTAT
83149213 AGGATTATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
24 10 0.18
25 9 0.16
26 2 0.04
27 35 0.62
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (25 bp):
TATTATTATTATTATTATTATTAAA
Found at i:83149212 original size:3 final size:3
Alignment explanation
Indices: 83149120--83149166 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
83149110 ATAGTATAAG
* * *
83149120 TAT TAT TAT T-G TAT GAT TAT TAAA TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
83149165 TA
1 TA
83149167 AAGATATAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 1 0.03
3 33 0.92
4 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:83153980 original size:36 final size:34
Alignment explanation
Indices: 83153939--83154006 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 34
83153929 AAAATAAAAT
*
83153939 TAATTA-AATTTTTTACAATATATAATTATAAAACAG
1 TAATTATAATTTTTTA-AAT-TAAAATTA-AAAACAG
83153975 TAATTATTAATTTTTTAAATTAAAATTAAAAA
1 TAATTA-TAATTTTTTAAATTAAAATTAAAAA
83154007 TTTTAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 4 0.14
36 13 0.45
37 3 0.10
38 9 0.31
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (34 bp):
TAATTATAATTTTTTAAATTAAAATTAAAAACAG
Found at i:83154012 original size:15 final size:16
Alignment explanation
Indices: 83153994--83154023 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
83153984 ATTTTTTAAA
83153994 TTAAAAT-TAAAAATT
1 TTAAAATATAAAAATT
83154009 TTAAAATATAAAAAT
1 TTAAAATATAAAAAT
83154024 ATAGGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAAATATAAAAATT
Found at i:83154172 original size:12 final size:13
Alignment explanation
Indices: 83154136--83154173 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
83154126 TACTTTTATG
*
83154136 TCAATATAAAAAT
1 TCAATATAAATAT
*
83154149 TCAATGTAAATAT
1 TCAATATAAATAT
83154162 TCAA-ATAAATAT
1 TCAATATAAATAT
83154174 ATTAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (13 bp):
TCAATATAAATAT
Found at i:83156829 original size:36 final size:37
Alignment explanation
Indices: 83156771--83156846 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 37
83156761 ATTAGCTTAA
83156771 CTTAAAATTTTCATTTCAAATCGAACTGACAAAGCAT
1 CTTAAAATTTTCATTTCAAATCGAACTGACAAAGCAT
*
83156808 CTTAAAA-TTTCCTTTCAAATCGAACTGACAAAGCAT
1 CTTAAAATTTTCATTTCAAATCGAACTGACAAAGCAT
83156844 CTT
1 CTT
83156847 GAAGACTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 31 0.82
37 7 0.18
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (37 bp):
CTTAAAATTTTCATTTCAAATCGAACTGACAAAGCAT
Found at i:83160925 original size:2 final size:2
Alignment explanation
Indices: 83160920--83160955 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
83160910 TTTAAGTGTG
83160920 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
83160956 AAACAAAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:83161500 original size:16 final size:16
Alignment explanation
Indices: 83161479--83161512 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
83161469 ATATATAGTT
83161479 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
83161495 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
83161511 AA
1 AA
83161513 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:83161742 original size:47 final size:47
Alignment explanation
Indices: 83161685--83161788 Score: 154
Period size: 47 Copynumber: 2.2 Consensus size: 47
83161675 CTGTTGCCGT
* *
83161685 TACTGTTACTGTTTCGAATTTGTTCCAATGAGGTACTCTATGTACCG
1 TACTGTTACTGTTCCGAATTTGTTCCAATGAGGTACCCTATGTACCG
* * *
83161732 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACCCTGTGTACCG
1 TACTGTTACTGTTCCGAATTTGTTCCAATGAGGTACCCTATGTACCG
*
83161779 TACTGCTACT
1 TACTGTTACT
83161789 ATTACTGTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.38
Consensus pattern (47 bp):
TACTGTTACTGTTCCGAATTTGTTCCAATGAGGTACCCTATGTACCG
Found at i:83161979 original size:18 final size:18
Alignment explanation
Indices: 83161916--83161986 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
83161906 TGGAAAGATC
83161916 GACTGTTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* *
83161935 AATTGTTACT--ATATATCT
1 GACTGTTACTGAATA-AT-T
* *
83161953 GATTTTTACTGAATAATT
1 GACTGTTACTGAATAATT
*
83161971 GACTGTTACTGGATAA
1 GACTGTTACTGAATAA
83161987 CCAATCAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
17 4 0.10
18 24 0.59
19 10 0.24
20 3 0.07
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:83162027 original size:18 final size:18
Alignment explanation
Indices: 83162003--83162066 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
83161993 AATTGATTGA
83162003 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* * *
83162021 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
* *
83162039 TACCGAATAACTGACTAT
1 TACTGAATAACTGATTAT
*
83162057 TACTAAATAA
1 TACTGAATAA
83162067 ATAATTGTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:83162066 original size:36 final size:36
Alignment explanation
Indices: 83161993--83162075 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
83161983 ATAACCAATC
* * * * *
83161993 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
83162029 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
* *
83162065 AAATAATTGTT
1 AATTGATTGTT
83162076 CTGATTGACT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGACTATTACTAAAT
Found at i:83168210 original size:34 final size:33
Alignment explanation
Indices: 83168147--83168212 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
83168137 TAATACAGTA
* * *
83168147 ACAGTTCAGTTTCAGTTAGGGCTTTAGCCCATT
1 ACAGTTCAGTATCAGTTAGGGCCTGAGCCCATT
83168180 ACAGTATCAGTATCAGTGT-GGGCCTGAGCCCAT
1 ACAGT-TCAGTATCAGT-TAGGGCCTGAGCCCAT
83168213 CTCAGTGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 5 0.18
34 22 0.79
35 1 0.04
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (33 bp):
ACAGTTCAGTATCAGTTAGGGCCTGAGCCCATT
Found at i:83169968 original size:43 final size:42
Alignment explanation
Indices: 83169921--83170085 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 42
83169911 AACATATACA
*
83169921 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAA-ATCG
*
83169964 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATC-AAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAAAT-CG
* * * * * *
83170006 ATACCGATGTCCCAGACATGGTCTTACACGTAAAACAGAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AATCA-AAATCG
*
83170050 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCA
83170086 CATAATGAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.02
42 30 0.30
43 36 0.36
44 29 0.29
45 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAAATCG
Found at i:83170073 original size:86 final size:85
Alignment explanation
Indices: 83169929--83170085 Score: 221
Period size: 86 Copynumber: 1.8 Consensus size: 85
83169919 CAATGCCAAC
* * *
83169929 GTCCCAGACGTGGTCTTACATGTAATCAAACATCGATGCCACTGTCCCAGACAGGGTCTTACACG
1 GTCCCAGACATGGTCTTACACGTAAACAAACATCGATGCCACTGTCCCAGACAGGGTCTTACACG
83169994 AAATCAAATACGATACCGAT
66 AAATCAAATACGATACCGAT
*
83170014 GTCCCAGACATGGTCTTACACGTAAAACAGAA-GTCGATGCCAAC-GTCCCAGAC-GTGGTCTTA
1 GTCCCAGACATGGTCTTACACGT-AAACA-AACATCGATGCC-ACTGTCCCAGACAG-GGTCTTA
83170076 CACGAAATCA
62 CACGAAATCA
83170086 CATAATGAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
85 22 0.34
86 38 0.59
87 4 0.06
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACACGTAAACAAACATCGATGCCACTGTCCCAGACAGGGTCTTACACG
AAATCAAATACGATACCGAT
Found at i:83182324 original size:25 final size:25
Alignment explanation
Indices: 83182296--83182380 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 25
83182286 ATGATTTCCT
83182296 TGCCTTATAGAACTTATCAGTGCCA
1 TGCCTTATAGAACTTATCAGTGCCA
* * *
83182321 TGCCTTGGCAT-GACCTTA-CATGATTTCCT
1 TGCCTT---ATAGAACTTATCA-G--TGCCA
*
83182350 TGCCTTATAGAACTTATCAATGCCA
1 TGCCTTATAGAACTTATCAGTGCCA
83182375 TGCCTT
1 TGCCTT
83182381 GGCATGGTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
25 15 0.33
26 4 0.09
27 13 0.29
28 4 0.09
29 9 0.20
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (25 bp):
TGCCTTATAGAACTTATCAGTGCCA
Found at i:83182328 original size:62 final size:60
Alignment explanation
Indices: 83182232--83182396 Score: 216
Period size: 54 Copynumber: 2.8 Consensus size: 60
83182222 CATGGGTCCT
* *
83182232 TTGCCTTATAGTAACTCATCAATGCCATGTCTTGGCATGGTCTTACATGGGACCATGATTTCC
1 TTGCCTTATAG-AACTTATCAATGCCATGCCTTGGCATGGTCTTACAT-GGA-CATGATTTCC
* * *
83182295 TTGCCTTATAGAACTTATCAGTGCCATGCCTTGGCAT-G----ACCT-TACATGATTTCC
1 TTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGACATGATTTCC
83182349 TTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
1 TTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
83182397 ATATCCTTAT
Statistics
Matches: 89, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
54 46 0.52
55 2 0.02
57 3 0.03
59 3 0.03
61 1 0.01
62 23 0.26
63 11 0.12
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (60 bp):
TTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGACATGATTTCC
Found at i:83182438 original size:47 final size:47
Alignment explanation
Indices: 83182383--83182504 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
83182373 CATGCCTTGG
* * *
83182383 CATGGTCTTACATGATATCCTTATCTTACTAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
83182430 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
83182477 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
83182505 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:83192136 original size:48 final size:48
Alignment explanation
Indices: 83192060--83192445 Score: 691
Period size: 48 Copynumber: 8.0 Consensus size: 48
83192050 CAAGATAAAT
* *
83192060 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
83192108 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATTTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
83192156 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
83192204 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGACATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
83192252 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
83192300 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
83192348 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
83192396 ATATGTATATGTGGTAAAGCCGAATGGCTAGTATGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
83192444 AT
1 AT
83192446 GTGTGTATAT
Statistics
Matches: 329, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 329 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:83192637 original size:37 final size:37
Alignment explanation
Indices: 83192586--83192725 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
83192576 GGAAATATAT
83192586 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
83192623 CCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
83192660 TCCGGGTAAGACCCGATGGCTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
83192697 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
83192726 GGACTATTCG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:83195596 original size:27 final size:27
Alignment explanation
Indices: 83195523--83195599 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
83195513 CACACCTGAA
*
83195523 CCCTTATATGATAAAATGACGATATTG
1 CCCTTATATGATAAAATGATGATATTG
*
83195550 CCCTTAAATGATAAAATGATGATATTG
1 CCCTTATATGATAAAATGATGATATTG
*
83195577 CCCTTATGTGATAAAATGATGAT
1 CCCTTATATGATAAAATGATGAT
83195600 TTTACCCCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.34
Consensus pattern (27 bp):
CCCTTATATGATAAAATGATGATATTG
Found at i:83195700 original size:31 final size:27
Alignment explanation
Indices: 83195610--83195764 Score: 186
Period size: 27 Copynumber: 5.6 Consensus size: 27
83195600 TTTACCCCCA
* * *
83195610 TAGGGCAAAATGACTATAATA-CCCTCA
1 TAGGGTAAAATGACTGTAATACCCCT-G
83195637 TAGGGTAAAATGACTGTAATACCCCTG
1 TAGGGTAAAATGACTGTAATACCCCTG
83195664 TAGGGTAAAATGACTGTAATACCCCTGTATG
1 TAGGGTAAAATGACTGTAATACCCC----TG
*
83195695 TAGGGTAAAATGACTGTAATACTCCTG
1 TAGGGTAAAATGACTGTAATACCCCTG
* * *
83195722 TAGGGTAAAATGACTATAAAACCCCTA
1 TAGGGTAAAATGACTGTAATACCCCTG
*
83195749 TAAGGTAAAATGACTG
1 TAGGGTAAAATGACTG
83195765 ATTTGCTCTA
Statistics
Matches: 113, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
27 83 0.73
28 4 0.04
31 26 0.23
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
TAGGGTAAAATGACTGTAATACCCCTG
Found at i:83195716 original size:58 final size:58
Alignment explanation
Indices: 83195637--83195747 Score: 195
Period size: 58 Copynumber: 1.9 Consensus size: 58
83195627 AATACCCTCA
* *
83195637 TAGGGTAAAATGACTGTAATACCCCTGTAGGGTAAAATGACTGTAATACCCCTGTATG
1 TAGGGTAAAATGACTGTAATACCCCTGTAGGGTAAAATGACTATAAAACCCCTGTATG
*
83195695 TAGGGTAAAATGACTGTAATACTCCTGTAGGGTAAAATGACTATAAAACCCCT
1 TAGGGTAAAATGACTGTAATACCCCTGTAGGGTAAAATGACTATAAAACCCCT
83195748 ATAAGGTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (58 bp):
TAGGGTAAAATGACTGTAATACCCCTGTAGGGTAAAATGACTATAAAACCCCTGTATG
Found at i:83196185 original size:18 final size:18
Alignment explanation
Indices: 83196158--83196226 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
83196148 TATTTGCATT
*
83196158 CTGCGCTGATTACTATTA
1 CTGCACTGATTACTATTA
* * *
83196176 CTGCATTGATCA-TGGTTA
1 CTGCACTGATTACT-ATTA
**
83196194 CTGCACTGATTACTACCA
1 CTGCACTGATTACTATTA
83196212 CTGCTACTG-TTACTA
1 CTGC-ACTGATTACTA
83196227 AAATAGGCCA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
17 1 0.03
18 33 0.85
19 5 0.13
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (18 bp):
CTGCACTGATTACTATTA
Found at i:83201462 original size:16 final size:16
Alignment explanation
Indices: 83201441--83201489 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
83201431 TTTGTTTCAG
83201441 GGTAACCGTACTAATA
1 GGTAACCGTACTAATA
83201457 GGTAACCGTACTAATA
1 GGTAACCGTACTAATA
83201473 GGTAACCGTACTAATA
1 GGTAACCGTACTAATA
83201489 G
1 G
83201490 CTTATTGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (16 bp):
GGTAACCGTACTAATA
Found at i:83211162 original size:26 final size:26
Alignment explanation
Indices: 83211133--83211188 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
83211123 TGATAAAAAT
83211133 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83211159 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83211185 TGAT
1 TGAT
83211189 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83212826 original size:27 final size:26
Alignment explanation
Indices: 83212786--83212926 Score: 192
Period size: 27 Copynumber: 5.2 Consensus size: 26
83212776 AGGAAGCGTC
*
83212786 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGTT
*
83212813 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGTT
83212840 CTGGTGGCTATGCCACGATTATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGTT
*
83212867 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGTT
* *
83212894 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACATTATCTGT-T
83212921 CTGGTG
1 CTGGTG
83212927 ACTTCATCAC
Statistics
Matches: 105, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
26 11 0.10
27 92 0.88
28 2 0.02
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGTT
Found at i:83212870 original size:54 final size:54
Alignment explanation
Indices: 83212786--83212926 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
83212776 AGGAAGCGTC
* *
83212786 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGTTCTGGTGGCTCTGCCACATATATCTGTT
83212840 CTGGTGGCTATGCCACGATTATCTGTTCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGTTCTGGTGGCTCTGCCACATATATCTGTT
* *
83212894 CTGGTGGCTCTGCCAC-AATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACGATTATCTGT-TCTGGTG
83212927 ACTTCATCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 8 0.10
54 74 0.90
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGTTCTGGTGGCTCTGCCACATATATCTGTT
Found at i:83218222 original size:26 final size:26
Alignment explanation
Indices: 83218193--83218274 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
83218183 TGATAAAAAT
*
83218193 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
83218219 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83218245 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
83218271 TGAT
1 TGAT
83218275 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:83219912 original size:27 final size:27
Alignment explanation
Indices: 83219872--83219954 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
83219862 AGGAAGTGTC
83219872 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
83219899 CTGGTGGCTTTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
* *
83219926 CTGGTGGCTCTGGCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
83219953 CT
1 CT
83219955 TTTGACTTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
26 8 0.17
27 39 0.81
28 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:83222016 original size:22 final size:25
Alignment explanation
Indices: 83221991--83222037 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
83221981 TCTAAATGCA
83221991 ACTAT-AAA-AAAAAACTTA-TTTT
1 ACTATAAAATAAAAAACTTACTTTT
83222013 ACTATAAAATAAAAAACTTACTTTT
1 ACTATAAAATAAAAAACTTACTTTT
83222038 CAAGACAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 3 0.14
24 10 0.45
25 4 0.18
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (25 bp):
ACTATAAAATAAAAAACTTACTTTT
Found at i:83227332 original size:41 final size:41
Alignment explanation
Indices: 83227223--83227332 Score: 112
Period size: 41 Copynumber: 2.7 Consensus size: 41
83227213 TTGACTAGGC
* * * * * *
83227223 CGTGTGGCCCACATAATCTGCCACACGACCTACCACTTGGT
1 CGTGTGACCCACACAGTCTACCACACGGCCTACCACATGGT
* *
83227264 CGTGTGACCCACACAGTCTACGACACGGCTTACCACATGGT
1 CGTGTGACCCACACAGTCTACCACACGGCCTACCACATGGT
* * **
83227305 TGTGTGACCTACATGGTCTACCACACGG
1 CGTGTGACCCACACAGTCTACCACACGG
83227333 TCGTGTAACT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.22
Consensus pattern (41 bp):
CGTGTGACCCACACAGTCTACCACACGGCCTACCACATGGT
Found at i:83227338 original size:29 final size:29
Alignment explanation
Indices: 83227294--83227358 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
83227284 CGACACGGCT
* * * * *
83227294 TACCACATGGTTGTGTGACCTACATGGTC
1 TACCACACGGTCGTGTAACCTACACGATC
*
83227323 TACCACACGGTCGTGTAACTTACACGATC
1 TACCACACGGTCGTGTAACCTACACGATC
83227352 TACCACA
1 TACCACA
83227359 TGGCCTAGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (29 bp):
TACCACACGGTCGTGTAACCTACACGATC
Found at i:83227438 original size:41 final size:41
Alignment explanation
Indices: 83227315--83227445 Score: 154
Period size: 41 Copynumber: 3.2 Consensus size: 41
83227305 TGTGTGACCT
* * * ** * *
83227315 ACATGGTCTACCACACGGTCGTGTAACTTACACGATCTACC
1 ACATGGCCTACCACACGATCGTGTGACCAACACGGTCTGCC
* *
83227356 ACATGGCCTAGCACATGATCGTGTGACCAACACGGTCTGCC
1 ACATGGCCTACCACACGATCGTGTGACCAACACGGTCTGCC
* * *
83227397 ACATGGCCTACCACACGATTGTGTGACCAACATGGTTTGCC
1 ACATGGCCTACCACACGATCGTGTGACCAACACGGTCTGCC
83227438 ACATGGCC
1 ACATGGCC
83227446 AGCTACATGG
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.22
Consensus pattern (41 bp):
ACATGGCCTACCACACGATCGTGTGACCAACACGGTCTGCC
Found at i:83227462 original size:41 final size:41
Alignment explanation
Indices: 83227344--83227463 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
83227334 CGTGTAACTT
* *
83227344 ACACGATCTACCACATGGCCTAGCACATGATCGTGTGACCA
1 ACACGGTCTGCCACATGGCCTAGCACATGATCGTGTGACCA
* * *
83227385 ACACGGTCTGCCACATGGCCTACCACACGATTGTGTGACCA
1 ACACGGTCTGCCACATGGCCTAGCACATGATCGTGTGACCA
* * *
83227426 ACATGGTTTGCCACATGGCC-AGCTACATGGTCGTGTGA
1 ACACGGTCTGCCACATGGCCTAGC-ACATGATCGTGTGA
83227464 TGCAGTTTAC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 2 0.03
41 65 0.97
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (41 bp):
ACACGGTCTGCCACATGGCCTAGCACATGATCGTGTGACCA
Found at i:83233409 original size:17 final size:17
Alignment explanation
Indices: 83233389--83233434 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 17
83233379 TAAAAAAATA
83233389 AAATTAATTAGGAGTTT
1 AAATTAATTAGGAGTTT
* *
83233406 AAATTTA-TA--TGTTT
1 AAATTAATTAGGAGTTT
83233420 AAATTAATTAGGAGT
1 AAATTAATTAGGAGT
83233435 CTATTTTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 6
0.69 0.12 0.19
Matches are distributed among these distances:
14 10 0.45
15 2 0.09
16 2 0.09
17 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.43
Consensus pattern (17 bp):
AAATTAATTAGGAGTTT
Found at i:83241090 original size:47 final size:45
Alignment explanation
Indices: 83240980--83241343 Score: 193
Period size: 47 Copynumber: 7.8 Consensus size: 45
83240970 TGATTTGTGC
* * ** *
83240980 GCCAGTGTAA-ACATGTTTGGGACATGCTTTGGCCA-CATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-CATCA-GATGAGA
* *
83241025 GCCAGTGTAAGACTATGTCTGGGACATGGCATCAGCATCCAGACGAGG
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCAT-CAGATGAGA
* ** * *
83241073 GCTAGTGTAAGACATGTCAAGGACATGCATTAGCCAT-ATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-CATCA-GATGAGA
* * *
83241119 GCCAGTGTAAGACCATGTCTGGGACAGGGCATCGGCA-CAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACA-TGCATCAGCATC--AGATGAGA
* * * *
83241167 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA-GAAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCAT---CAGATGAGA
* * * * * * *
83241214 GCCAGTGTAAGACGTGTCAGGGACACGCATCGGC-TAAGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCATCAGATG-AGA
** ** * *
83241258 GTTAGTGTAAGACATGTCCAGGACATGCATCAGCACGCATATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCA-TC--A-GATGAGA
*
83241307 GCCAGTGTAAGACCATGTCTGGGACATGGCAACAGCA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCA
83241344 ATATATCCCA
Statistics
Matches: 242, Mismatches: 52, Indels: 44
0.72 0.15 0.13
Matches are distributed among these distances:
43 4 0.02
44 27 0.11
45 11 0.05
46 32 0.13
47 86 0.36
48 45 0.19
49 15 0.06
50 14 0.06
51 8 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCATCAGATGAGA
Found at i:83241151 original size:94 final size:93
Alignment explanation
Indices: 83241011--83241343 Score: 322
Period size: 94 Copynumber: 3.5 Consensus size: 93
83241001 ACATGCTTTG
* * * *
83241011 GCCACATTATGAGAGCCAGTGTAAGACTATGTCTGGGACATGGCATCAGCATCCAGACGAGGGCT
1 GCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCAAGA-GAGTGCT
*
83241076 AGTGTAAGACATGTCAAGGACATGCATTA
65 AGTGTAAGACATGTCAAGGACATGCATCA
* *
83241105 GCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAGGGCATCGGCA-CAGAGATGAGTGC
1 GCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCA-AGA-GAGTGC
* * ** *
83241169 CAGAGTAAGACATGTCTGGGACATGCATCG
64 TAGTGTAAGACATGTCAAGGACATGCATCA
* * * * * *
83241199 GCC-TCGA-CA-GAGAAAGCCAGTGTAAGA-CGTGTCAGGGACA-CGCATCGGC-T-AAGAGTTG
1 GCCAT--ATTATGAG--AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCAAGAG-AG
* *
83241257 TGTTAGTGTAAGACATGTCCAGGACATGCATCA
61 TGCTAGTGTAAGACATGTCAAGGACATGCATCA
*
83241290 GCACGCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAACAGCA
1 G--C-CATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCA
83241344 ATATATCCCA
Statistics
Matches: 193, Mismatches: 30, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
90 1 0.01
91 32 0.17
92 1 0.01
93 28 0.15
94 107 0.55
95 24 0.12
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (93 bp):
GCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCAAGAGAGTGCTA
GTGTAAGACATGTCAAGGACATGCATCA
Found at i:83243079 original size:26 final size:26
Alignment explanation
Indices: 83243050--83243127 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
83243040 CAACCTTAAC
* *
83243050 CCTATGGGTATATCAGTAATTTTGCT
1 CCTATGGGTATATCAGTAATTTTCCA
* *
83243076 CCTAGGGGTATATCTGTAAATTTTCCA
1 CCTATGGGTATATCAGT-AATTTTCCA
* *
83243103 CCTATAAAGGTATTTCAGTAATTTT
1 CCTAT--GGGTATATCAGTAATTTT
83243128 ATCAGTTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 15 0.37
27 11 0.27
28 6 0.15
29 9 0.22
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (26 bp):
CCTATGGGTATATCAGTAATTTTCCA
Found at i:83246049 original size:22 final size:22
Alignment explanation
Indices: 83246023--83246064 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
83246013 CATGTAGTTT
83246023 AACAACATATAAAA-CCAAAACC
1 AACAA-ATATAAAACCCAAAACC
*
83246045 AACAATTATAAAACCCAAAA
1 AACAAATATAAAACCCAAAA
83246065 ACTCCAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (22 bp):
AACAAATATAAAACCCAAAACC
Found at i:83251550 original size:29 final size:27
Alignment explanation
Indices: 83251516--83251618 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
83251506 TACTCAATCA
*
83251516 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
83251545 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
83251574 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
83251603 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
83251619 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:83259220 original size:41 final size:40
Alignment explanation
Indices: 83259123--83259245 Score: 201
Period size: 40 Copynumber: 3.0 Consensus size: 40
83259113 ATAGGCACAC
83259123 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTAATGCTCGAT
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTAATGCTCGAT
* **
83259163 CTTTAGCGGCGCTTTTTAAAAAATGCTACTAATGCTCGAT
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTAATGCTCGAT
*
83259203 CTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAATGCTCAAT
1 CTTTAGCGGCGC-TTTTTAAAAAACGCCGCTAATGCTCGAT
83259244 CT
1 CT
83259246 CAAAAAACGA
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
40 49 0.65
41 26 0.35
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (40 bp):
CTTTAGCGGCGCTTTTTAAAAAACGCCGCTAATGCTCGAT
Found at i:83259578 original size:21 final size:21
Alignment explanation
Indices: 83259545--83259659 Score: 90
Period size: 21 Copynumber: 5.4 Consensus size: 21
83259535 GTTTAAAGGT
83259545 GGTTTAAGG-GTTAGGGTTTAA
1 GGTTT-AGGTGTTAGGGTTTAA
* *
83259566 TGTTTAGGTGTTAGGGGTTAA
1 GGTTTAGGTGTTAGGGTTTAA
* *
83259587 GGGTTAGGAGTTCAGGGTTTAA
1 GGTTTAGGTGTT-AGGGTTTAA
* * * *
83259609 GGTTTATGTTTTAGGATTTAT
1 GGTTTAGGTGTTAGGGTTTAA
* *
83259630 GGTTTAGG-GTTTAAGGATTAA
1 GGTTTAGGTG-TTAGGGTTTAA
83259651 GAGTTTAGG
1 G-GTTTAGG
83259660 GTTTAGATTA
Statistics
Matches: 72, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
20 3 0.04
21 46 0.64
22 23 0.32
ACGTcount: A:0.23, C:0.01, G:0.36, T:0.41
Consensus pattern (21 bp):
GGTTTAGGTGTTAGGGTTTAA
Found at i:83259665 original size:7 final size:7
Alignment explanation
Indices: 83259545--83259665 Score: 68
Period size: 7 Copynumber: 17.0 Consensus size: 7
83259535 GTTTAAAGGT
83259545 GGTTTAAG
1 GGTTT-AG
83259553 GG-TTAG
1 GGTTTAG
*
83259559 GGTTTAA
1 GGTTTAG
*
83259566 TGTTTA-
1 GGTTTAG
83259572 GGTGTTAGG
1 GGT-TTA-G
*
83259581 GGTTAAG
1 GGTTTAG
83259588 GG-TTAG
1 GGTTTAG
*
83259594 GAGTTCAG
1 G-GTTTAG
*
83259602 GGTTTAA
1 GGTTTAG
*
83259609 GGTTTAT
1 GGTTTAG
*
83259616 GTTTTAG
1 GGTTTAG
* *
83259623 GATTTAT
1 GGTTTAG
83259630 GGTTTAG
1 GGTTTAG
83259637 GGTTTAAG
1 GGTTT-AG
* *
83259645 GATTAAG
1 GGTTTAG
*
83259652 AGTTTAG
1 GGTTTAG
83259659 GGTTTAG
1 GGTTTAG
83259666 ATTAATTAGT
Statistics
Matches: 85, Mismatches: 21, Indels: 15
0.70 0.17 0.12
Matches are distributed among these distances:
6 10 0.12
7 59 0.69
8 13 0.15
9 3 0.04
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:83259779 original size:14 final size:14
Alignment explanation
Indices: 83259760--83259786 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
83259750 TAATTATCAT
83259760 TATGGTTTAGGGTA
1 TATGGTTTAGGGTA
83259774 TATGGTTTAGGGT
1 TATGGTTTAGGGT
83259787 TTAAAGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (14 bp):
TATGGTTTAGGGTA
Found at i:83259833 original size:22 final size:22
Alignment explanation
Indices: 83259758--83259843 Score: 59
Period size: 22 Copynumber: 4.0 Consensus size: 22
83259748 ATTAATTATC
* *
83259758 ATTATG-GTTTAGGGTATATGG
1 ATTATGAGTTTAAGGTTTATGG
* * * *
83259779 TTTA-GGGTTTAAAGTGTATGG
1 ATTATGAGTTTAAGGTTTATGG
* * *
83259800 GTTATTATTTTAAGGTTTATGG
1 ATTATGAGTTTAAGGTTTATGG
* *
83259822 ATTATGAGTTTAGGGATTATGG
1 ATTATGAGTTTAAGGTTTATGG
83259844 TTTAGGGGTT
Statistics
Matches: 48, Mismatches: 15, Indels: 3
0.73 0.23 0.05
Matches are distributed among these distances:
20 1 0.02
21 18 0.38
22 29 0.60
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (22 bp):
ATTATGAGTTTAAGGTTTATGG
Found at i:83259848 original size:14 final size:14
Alignment explanation
Indices: 83259813--83259850 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
83259803 ATTATTTTAA
*
83259813 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
83259827 GAGTTTAGGGATTAT
1 G-GTTTAGGGATTAT
83259842 GGTTTAGGG
1 GGTTTAGGG
83259851 GTTGGGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:83259890 original size:21 final size:21
Alignment explanation
Indices: 83259842--83259891 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
83259832 TAGGGATTAT
83259842 GGTTTAGGGGTTGGGGTTTAA
1 GGTTTAGGGGTTGGGGTTTAA
* *
83259863 GGCTTAGGGGTTATGGG-TTAA
1 GGTTTAGGGGTT-GGGGTTTAA
*
83259884 GTTTTAGG
1 GGTTTAGG
83259892 TTTTTAAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.16, C:0.02, G:0.44, T:0.38
Consensus pattern (21 bp):
GGTTTAGGGGTTGGGGTTTAA
Found at i:83260668 original size:7 final size:7
Alignment explanation
Indices: 83260656--83260712 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
83260646 AATCTTCAAA
83260656 AAAATTT
1 AAAATTT
83260663 AAAATTT
1 AAAATTT
83260670 AAAATTT
1 AAAATTT
* *
83260677 AAAAATA
1 AAAATTT
*
83260684 AAAACTTA
1 AAAA-TTT
83260692 AAAATTT
1 AAAATTT
*
83260699 AATATTT
1 AAAATTT
*
83260706 AATATTT
1 AAAATTT
83260713 TTGTCCATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (7 bp):
AAAATTT
Found at i:83260681 original size:8 final size:8
Alignment explanation
Indices: 83260629--83260700 Score: 62
Period size: 8 Copynumber: 8.9 Consensus size: 8
83260619 TTTATATGAT
83260629 AATTTAAA
1 AATTTAAA
83260637 AATTATAAA
1 AATT-TAAA
83260646 AATCTTCAAAAA
1 AAT-TT---AAA
83260658 AATTT-AA
1 AATTTAAA
83260665 AATTT-AA
1 AATTTAAA
83260672 AATTTAAA
1 AATTTAAA
83260680 AA--TAAA
1 AATTTAAA
*
83260686 AACTTAAA
1 AATTTAAA
83260694 AATTTAA
1 AATTTAA
83260701 TATTTAATAT
Statistics
Matches: 55, Mismatches: 1, Indels: 16
0.76 0.01 0.22
Matches are distributed among these distances:
6 6 0.11
7 14 0.25
8 18 0.33
9 8 0.15
10 1 0.02
11 2 0.04
12 6 0.11
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (8 bp):
AATTTAAA
Found at i:83260835 original size:17 final size:18
Alignment explanation
Indices: 83260800--83260842 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
83260790 TTTTGAAAGA
*
83260800 AAAAAT-AAAAATATGTT
1 AAAAATAAAAAAAATGTT
83260817 AAAAATAAAAAAAAT-TT
1 AAAAATAAAAAAAATGTT
*
83260834 AAAATTAAA
1 AAAAATAAA
83260843 CAATAGTGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAATAAAAAAAATGTT
Found at i:83267101 original size:11 final size:11
Alignment explanation
Indices: 83267085--83267132 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
83267075 CTTTATATAC
83267085 TAATAAAATAA
1 TAATAAAATAA
*
83267096 TAATAAAATATCT
1 TAATAAAATA--A
* *
83267109 TATTAAAATAT
1 TAATAAAATAA
83267120 TAATAAAATAA
1 TAATAAAATAA
83267131 TA
1 TA
83267133 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:83271090 original size:6 final size:6
Alignment explanation
Indices: 83271060--83271184 Score: 60
Period size: 6 Copynumber: 20.3 Consensus size: 6
83271050 AAGAAACATT
* * * *
83271060 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
83271109 ATCAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATTAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
* *
83271158 ATTAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
83271185 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 22, Indels: 22
0.66 0.17 0.17
Matches are distributed among these distances:
5 5 0.06
6 71 0.83
7 7 0.08
8 3 0.03
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:83271118 original size:31 final size:31
Alignment explanation
Indices: 83271081--83271184 Score: 163
Period size: 31 Copynumber: 3.4 Consensus size: 31
83271071 AATCAAAATG
83271081 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
* *
83271112 AGAATCAGAATCAAAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
* *
83271143 AGAATCAGAATCAGTATTAGGTAACAGAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
*
83271174 AAAATCAGAAT
1 AGAATCAGAAT
83271185 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATTAGGTGACAGAATC
Found at i:83271351 original size:27 final size:26
Alignment explanation
Indices: 83271303--83271362 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
83271293 GCGAGGCTAC
*
83271303 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
83271330 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
83271356 CAGATAT
1 CAGATAT
83271363 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:83271366 original size:2 final size:2
Alignment explanation
Indices: 83271359--83271406 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
83271349 ACCAGAACAG
83271359 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
83271401 AT AT AT
1 AT AT AT
83271407 GTGGCGAAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83271757 original size:27 final size:27
Alignment explanation
Indices: 83271727--83272108 Score: 440
Period size: 27 Copynumber: 14.1 Consensus size: 27
83271717 ACACCGTAGA
** * * *
83271727 GGTAAAATGGTAATTTTATAAATTGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* *
83271754 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* * *
83271781 GGTAAAACAGTAATTTTGTAAATCAAT
1 GGTAAAACAGTAATTCTGTAAATCGAG
*
83271808 GGTAAAACAGTAATTTTGTAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* * *
83271835 GGTAAAATAATAATTCTATAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* *
83271862 GGTAAAACAGTAATTCTATTAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* * * *
83271889 GGTAAAATAATAATTTTGCAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* *
83271916 GGTAAAATAATAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* * *
83271943 GGTAAAACAATAATTCTATCAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* *
83271970 GGTAAAACGGTAATTTTGTAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
*
83271997 GGTAAAATAGTAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* ** * *
83272024 CGTAAAATTGTAATTTTGTAAATTGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
*
83272051 GGTAAAATAGTAATTCTGTAAATCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
* *
83272078 GGTAAAACAGTAATTTTGTAATTCGAG
1 GGTAAAACAGTAATTCTGTAAATCGAG
83272105 GGTA
1 GGTA
83272109 CTTTGATAAT
Statistics
Matches: 308, Mismatches: 47, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 308 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (27 bp):
GGTAAAACAGTAATTCTGTAAATCGAG
Found at i:83271862 original size:81 final size:81
Alignment explanation
Indices: 83271727--83272108 Score: 485
Period size: 81 Copynumber: 4.7 Consensus size: 81
83271717 ACACCGTAGA
* * * ** *
83271727 GGTAAAATGGTAATTTTATAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGT
1 GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGT
* * * *
83271792 AATTTTGTAAATCAAT
66 AATTCTATAAATCGAG
* * *
83271808 GGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAATAATTCTATAAATCGAGGGTAAAACAGT
1 GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGT
*
83271873 AATTCTATTAATCGAG
66 AATTCTATAAATCGAG
* * * *
83271889 GGTAAAATAATAATTTTGCAAATCGAGGGTAAAATAATAATTCTGTAAATCGAGGGTAAAACAAT
1 GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGT
*
83271954 AATTCTATCAATCGAG
66 AATTCTATAAATCGAG
** * **
83271970 GGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGCGTAAAATTGT
1 GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGT
* * *
83272035 AATTTTGTAAATTGAG
66 AATTCTATAAATCGAG
* * * *
83272051 GGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAATTCGAGGGTA
1 GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTA
83272109 CTTTGATAAT
Statistics
Matches: 263, Mismatches: 38, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 263 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (81 bp):
GGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGT
AATTCTATAAATCGAG
Found at i:83272118 original size:27 final size:27
Alignment explanation
Indices: 83272085--83272254 Score: 132
Period size: 27 Copynumber: 6.3 Consensus size: 27
83272075 GAGGGTAAAA
** *
83272085 CAGTAATTTTGTAATTCGAGGGTACTTT
1 CAGTAATTTTACAAGTCGAGGGTA-TTT
*
83272113 GA-TAATTTTACAAGTCGAGGGTATTT
1 CAGTAATTTTACAAGTCGAGGGTATTT
*
83272139 CAGTAATTTTACAA-ACTGAGGGTATTT
1 CAGTAATTTTACAAGTC-GAGGGTATTT
* * *
83272166 CGGTAATTTTACAAATCGAGGATATTT
1 CAGTAATTTTACAAGTCGAGGGTATTT
** * ** *
83272193 GGGTAATTTTATAAACCGGGGGTACTTT
1 CAGTAATTTTACAAGTCGAGGGTA-TTT
* * *
83272221 -GGTAATTTTACAACT-GGGGGTATTT
1 CAGTAATTTTACAAGTCGAGGGTATTT
83272246 CAGTAATTT
1 CAGTAATTT
83272255 GGTAAACTAA
Statistics
Matches: 119, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
25 3 0.03
26 19 0.16
27 92 0.77
28 5 0.04
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
CAGTAATTTTACAAGTCGAGGGTATTT
Found at i:83272143 original size:54 final size:53
Alignment explanation
Indices: 83272070--83272254 Score: 194
Period size: 54 Copynumber: 3.5 Consensus size: 53
83272060 GTAATTCTGT
*** * * *
83272070 AAATCGAGGGTAAAACAGTAATTTTGTAATTCGAGGGTACTTTGATAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTATAA-ACGAGGGTACTTTGGTAATTTTAC
* *
83272124 AAGTCGAGGGTATTTCAGTAATTTTACAAACTGAGGGTA-TTTCGGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTATAAAC-GAGGGTACTTT-GGTAATTTTAC
* ** *
83272178 AAATCGAGGATATTTGGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTATAAA-CGAGGGTACTTTGGTAATTTTAC
* *
83272232 AACT-GGGGGTATTTCAGTAATTT
1 AAATCGAGGGTATTTCAGTAATTT
83272255 GGTAAACTAA
Statistics
Matches: 108, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
53 19 0.18
54 85 0.79
55 4 0.04
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.37
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTATAAACGAGGGTACTTTGGTAATTTTAC
Found at i:83272172 original size:81 final size:80
Alignment explanation
Indices: 83272085--83272260 Score: 194
Period size: 81 Copynumber: 2.2 Consensus size: 80
83272075 GAGGGTAAAA
* * **
83272085 CAGTAATTTTGTAATTCGAGGGTACTTT-GATAATTTTACAAGTCGAGGGTA-TTTCAGTAATTT
1 CAGTAATTTTGTAAATCGAGGATA-TTTGGATAATTTTACAAACCGAGGGTACTTT-AGTAATTT
83272148 TACAAACTGAGGGTATTT
64 TAC-AACTGAGGGTATTT
* ** * * * *
83272166 CGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACCGGGGGTACTTTGGTAATTTTA
1 CAGTAATTTTGTAAATCGAGGATATTTGGATAATTTTACAAACCGAGGGTACTTTAGTAATTTTA
*
83272231 CAACTGGGGGTATTT
66 CAACTGAGGGTATTT
*
83272246 CAGTAATTTGGTAAA
1 CAGTAATTTTGTAAA
83272261 CTAAAGTATT
Statistics
Matches: 77, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
80 27 0.35
81 47 0.61
82 3 0.04
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (80 bp):
CAGTAATTTTGTAAATCGAGGATATTTGGATAATTTTACAAACCGAGGGTACTTTAGTAATTTTA
CAACTGAGGGTATTT
Found at i:83287137 original size:46 final size:46
Alignment explanation
Indices: 83287084--83287258 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
83287074 GTGAACCCGC
* *
83287084 CCATAAGTGAACTCGGACTCAAATCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
83287130 CCATAAGTGAACTAGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * * * *
83287180 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
83287223 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
83287259 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:83287251 original size:93 final size:93
Alignment explanation
Indices: 83287092--83287262 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
83287082 GCCCATAAGT
* *
83287092 GAACTCGGACTCAAATCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCAGACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
83287157 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
83287185 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCAGACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
83287250 CGAGTTCGGATGC
66 CGAGTTCGGATGC
83287263 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAAATCAACGAGCTCAGACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:83287714 original size:30 final size:30
Alignment explanation
Indices: 83287680--83287739 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
83287670 ATTTAATACG
83287680 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
83287710 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
83287740 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:83290254 original size:27 final size:27
Alignment explanation
Indices: 83290202--83290282 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
83290192 GATGGCTTCT
* *
83290202 CCACATATACTATTTCTGG-TGACTTTG
1 CCACATATACTATTACTGGCAG-CTTTG
*
83290229 CCACATATACTGTTACTGGCAGCTTTG
1 CCACATATACTATTACTGGCAGCTTTG
*** *
83290256 TTGCA-ATACTATTACTGGCAGCCTTG
1 CCACATATACTATTACTGGCAGCTTTG
83290282 C
1 C
83290283 TGCGATATTG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
26 19 0.43
27 24 0.55
28 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
CCACATATACTATTACTGGCAGCTTTG
Found at i:83292226 original size:25 final size:25
Alignment explanation
Indices: 83292198--83292245 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83292188 TTATACCATG
* * *
83292198 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
83292223 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
83292246 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:83292314 original size:20 final size:20
Alignment explanation
Indices: 83292289--83292347 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
83292279 TAAATATGGT
*
83292289 ATGTATGAGATGCACATGAC
1 ATGTATGATATGCACATGAC
*
83292309 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
83292329 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
83292348 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:83292425 original size:24 final size:24
Alignment explanation
Indices: 83292398--83292540 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
83292388 GAGGAAGTGA
83292398 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
83292422 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
83292446 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
83292469 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
83292493 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
83292517 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
83292541 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:83292491 original size:47 final size:47
Alignment explanation
Indices: 83292398--83292540 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
83292388 GAGGAAGTGA
83292398 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
83292446 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
83292493 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
83292541 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:83292514 original size:71 final size:72
Alignment explanation
Indices: 83292398--83292541 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
83292388 GAGGAAGTGA
*
83292398 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
83292461 CCAGTTAT
65 CCAGTTAT
** * *
83292469 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
83292534 CAGTTAT
66 CAGTTAT
83292541 A
1 A
83292542 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:83292767 original size:31 final size:31
Alignment explanation
Indices: 83292732--83292826 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
83292722 CGTTTACAGT
83292732 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
83292763 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
83292794 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
83292825 AA
1 AA
83292827 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:83299737 original size:25 final size:25
Alignment explanation
Indices: 83299709--83299756 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83299699 GTATACCATG
* * *
83299709 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
83299734 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
83299757 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:83299832 original size:20 final size:20
Alignment explanation
Indices: 83299803--83299858 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
83299793 ATATGGTATG
*
83299803 TATGAGATGCACATGACATA
1 TATGATATGCACATGACATA
* *
83299823 TATGATATGCACATGATATG
1 TATGATATGCACATGACATA
*
83299843 TATGATATGCATATGA
1 TATGATATGCACATGA
83299859 GGTAATCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGACATA
Found at i:83299857 original size:11 final size:11
Alignment explanation
Indices: 83299822--83299858 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
83299812 CACATGACAT
83299822 ATATGATATGC
1 ATATGATATGC
*
83299833 ACATGATATG-
1 ATATGATATGC
83299843 -TATGATATGC
1 ATATGATATGC
83299853 ATATGA
1 ATATGA
83299859 GGTAATCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (11 bp):
ATATGATATGC
Found at i:83299936 original size:24 final size:24
Alignment explanation
Indices: 83299909--83300051 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
83299899 GAGGAAGTGA
83299909 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
83299933 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
83299957 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
83299980 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
83300004 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
83300028 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
83300052 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:83300002 original size:47 final size:47
Alignment explanation
Indices: 83299909--83300051 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
83299899 GAGGAAGTGA
83299909 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
83299957 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
83300004 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
83300052 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:83300025 original size:71 final size:72
Alignment explanation
Indices: 83299909--83300052 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
83299899 GAGGAAGTGA
*
83299909 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
83299972 CCAGTTAT
65 CCAGTTAT
** * *
83299980 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
83300045 CAGTTAT
66 CAGTTAT
83300052 A
1 A
83300053 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:83300278 original size:31 final size:31
Alignment explanation
Indices: 83300243--83300337 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
83300233 CGTTTACAGT
83300243 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
83300274 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
83300305 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
83300336 AA
1 AA
83300338 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:83304478 original size:40 final size:40
Alignment explanation
Indices: 83304429--83304649 Score: 247
Period size: 39 Copynumber: 5.6 Consensus size: 40
83304419 CGCTCACGCA
*
83304429 GGAGCTTTGCTGATACACAGTTTATTCATAAGCTCACAGG
1 GGAGCTTTGCTGATACACAGCTTATTCATAAGCTCACAGG
* *
83304469 GGAAG-TTTGCTAATACACAGCTTATTCATAAGCTCACAAG
1 GG-AGCTTTGCTGATACACAGCTTATTCATAAGCTCACAGG
* * *
83304509 GGAGATTTGCTGATACACAGCTTA-TCCTTAGCTCACA-G
1 GGAGCTTTGCTGATACACAGCTTATTCATAAGCTCACAGG
* ** *
83304547 AGAGCTTTGCTGATACACAATTTATCCATAAGCTCA-AGG
1 GGAGCTTTGCTGATACACAGCTTATTCATAAGCTCACAGG
* * * * *
83304586 GGAGCTTTGCTGATACACAACTT-CTCCTTAGCTCA-TGG
1 GGAGCTTTGCTGATACACAGCTTATTCATAAGCTCACAGG
83304624 AGGAGCTTTGCTGATACACAGCTTAT
1 -GGAGCTTTGCTGATACACAGCTTAT
83304650 AAAACCATTC
Statistics
Matches: 153, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
38 32 0.21
39 65 0.42
40 54 0.35
41 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (40 bp):
GGAGCTTTGCTGATACACAGCTTATTCATAAGCTCACAGG
Found at i:83304580 original size:78 final size:77
Alignment explanation
Indices: 83304361--83304643 Score: 252
Period size: 78 Copynumber: 3.6 Consensus size: 77
83304351 GGATCTTCAT
* ** * **
83304361 TGATACACAAG-TTATCCATAAGTTCACAGAAGAGCTTCCCTGATA-ATAATTTATCATTCGCTC
1 TGATACAC-AGCTTATCC-TAAGCTCACAG-AGAGCTTTGCTGATACACAATTTATCATAAGCTC
*
83304424 ACGCA-GGAGCTTTGC
63 AC-AAGGGAGCTTTGC
* * * * **
83304439 TGATACACAGTTTATTCATAAGCTCACAGGGGAAG-TTTGCTAATACACAGCTTATTCATAAGCT
1 TGATACACAGCTTA-TCCTAAGCTCACA-GAG-AGCTTTGCTGATACACAATTTA-TCATAAGCT
*
83304503 CACAAGGGAGATTTGC
62 CACAAGGGAGCTTTGC
*
83304519 TGATACACAGCTTATCCTTAGCTCACAGAGAGCTTTGCTGATACACAATTTATCCATAAGCTCA-
1 TGATACACAGCTTATCCTAAGCTCACAGAGAGCTTTGCTGATACACAATTTAT-CATAAGCTCAC
*
83304583 AGGGGAGCTTTGC
65 AAGGGAGCTTTGC
* * * **
83304596 TGATACACAACTTCTCCTTAGCTCATGGAGGAGCTTTGCTGATACACA
1 TGATACACAGCTTATCCTAAGCTCACAGA-GAGCTTTGCTGATACACA
83304644 GCTTATAAAA
Statistics
Matches: 169, Mismatches: 26, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
77 41 0.24
78 74 0.44
79 22 0.13
80 32 0.19
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (77 bp):
TGATACACAGCTTATCCTAAGCTCACAGAGAGCTTTGCTGATACACAATTTATCATAAGCTCACA
AGGGAGCTTTGC
Found at i:83307558 original size:13 final size:13
Alignment explanation
Indices: 83307540--83307569 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
83307530 TGATTTGGGT
*
83307540 GCCACACGGCCTG
1 GCCACACAGCCTG
83307553 GCCACACAGCCTG
1 GCCACACAGCCTG
83307566 GCCA
1 GCCA
83307570 TACAATTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.47, G:0.27, T:0.07
Consensus pattern (13 bp):
GCCACACAGCCTG
Found at i:83316997 original size:17 final size:18
Alignment explanation
Indices: 83316955--83317003 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
83316945 AGTTGAAAAG
83316955 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
83316974 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
83316991 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
83317004 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:83317892 original size:40 final size:40
Alignment explanation
Indices: 83317826--83317976 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
83317816 AAATTGAATG
* * *
83317826 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
83317865 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
83317905 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
83317945 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
83317977 ACTTGATTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:83317990 original size:40 final size:40
Alignment explanation
Indices: 83317862--83317992 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
83317852 TATGCTGGAA
* * * *
83317862 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
* * *
83317902 GTTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
83317942 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
83317982 ATTATATCCGG
1 ATTATATCCGG
83317993 TTATATTCCG
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:83325005 original size:17 final size:18
Alignment explanation
Indices: 83324963--83325011 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
83324953 AGTTGAAAAG
83324963 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
83324982 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
83324999 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
83325012 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:83325896 original size:40 final size:40
Alignment explanation
Indices: 83325830--83325980 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
83325820 AAATTGAATG
* * *
83325830 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
83325869 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
83325909 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
83325949 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
83325981 ACTGATTATA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:83333220 original size:24 final size:23
Alignment explanation
Indices: 83333166--83333234 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
83333156 GGTACGAAAC
* *
83333166 AAAAGGAAAGGAAAGA-GAGAAG
1 AAAAGGAGAGGAAAAAGGAGAAG
83333188 AAAAGGGAGAGGAAAAAGGAGAAG
1 AAAA-GGAGAGGAAAAAGGAGAAG
*
83333212 AGTAAGGAGA-GAAAAGAGGAGAA
1 A-AAAGGAGAGGAAAA-AGGAGAA
83333235 AAGTTTGGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 4 0.10
23 15 0.38
24 19 0.47
25 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.01
Consensus pattern (23 bp):
AAAAGGAGAGGAAAAAGGAGAAG
Found at i:83335590 original size:14 final size:14
Alignment explanation
Indices: 83335571--83335597 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
83335561 TTAAAGTCAA
83335571 ATAAATATTTAAAT
1 ATAAATATTTAAAT
83335585 ATAAATATTTAAA
1 ATAAATATTTAAA
83335598 CATGCCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAATATTTAAAT
Found at i:83337155 original size:15 final size:15
Alignment explanation
Indices: 83337135--83337167 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
83337125 AATCATTGGG
83337135 TTGAGCCTGAAAAGT
1 TTGAGCCTGAAAAGT
*
83337150 TTGAGCCTGAAAGGT
1 TTGAGCCTGAAAAGT
83337165 TTG
1 TTG
83337168 TCAACAGTTC
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:0.27, C:0.12, G:0.30, T:0.30
Consensus pattern (15 bp):
TTGAGCCTGAAAAGT
Found at i:83350442 original size:40 final size:39
Alignment explanation
Indices: 83350387--83350590 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 39
83350377 TTGAATGATA
* *
83350387 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
* *
83350427 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
83350467 CCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
83350507 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGT--TATAT
* * *
83350547 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTTATAT
83350587 CCGG
1 CCGG
83350591 TTAAATCCCG
Statistics
Matches: 144, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 139 0.97
41 2 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
Found at i:83358442 original size:40 final size:39
Alignment explanation
Indices: 83358387--83358591 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 39
83358377 TGAATGATAC
* * *
83358387 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
83358427 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* *
83358467 CCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTAT-AT
* * * *
83358508 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* * **
83358548 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
83358588 CCGG
1 CCGG
83358592 TTAAATCCCG
Statistics
Matches: 143, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 109 0.76
41 32 0.22
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:83358585 original size:81 final size:80
Alignment explanation
Indices: 83358387--83358591 Score: 243
Period size: 81 Copynumber: 2.5 Consensus size: 80
83358377 TGAATGATAC
* * * *
83358387 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
* *** *
83358452 TGCGAGTTGTTATAT
66 TGCAAGTTACCAAAT
* * *
83358467 CCGGACTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAATCCGGGCTAAGACCCGAAGGCAAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTTAT-ATCCGGGCTAAGACCCGAAGGC-AT
83358531 T-GTGCAAGTTACCAAAT
63 TCGTGCAAGTTACCAAAT
* *
83358548 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGG
83358592 TTAAATCCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
79 2 0.02
80 34 0.33
81 62 0.60
82 6 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACCAAAT
Found at i:83366422 original size:40 final size:39
Alignment explanation
Indices: 83366367--83366570 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 39
83366357 TGAATGATAC
* *
83366367 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
* *
83366407 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
83366447 CCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
83366487 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGT--TATAT
* * *
83366527 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTTATAT
83366567 CCGG
1 CCGG
83366571 TTAAATCCCG
Statistics
Matches: 144, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 139 0.97
41 2 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
Found at i:83366999 original size:75 final size:73
Alignment explanation
Indices: 83366874--83367022 Score: 280
Period size: 75 Copynumber: 2.0 Consensus size: 73
83366864 TTCATCACTT
83366874 GAGACTTACTAAGCATTAAAATGCTACCCGTTGCTTTGGCTCTTTGTTTTATAGATTTTGCTCGT
1 GAGACTTACTAAGCATTAAAATGCTACCCGTTGCTTTGGCTCTTTGTTTTATAGATTTTGCTCGT
83366939 TAGCTATC
66 TAGCTATC
83366947 GAGACTTACTAAGCATTAAAATGCTTACCCCGTTGCTTTGGCTCTTTGTTTTATAGATTTTGCTC
1 GAGACTTACTAAGCATTAAAATGC-TA-CCCGTTGCTTTGGCTCTTTGTTTTATAGATTTTGCTC
83367012 GTTAGCTATC
64 GTTAGCTATC
83367022 G
1 G
83367023 GATTCGGGAT
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
73 24 0.32
74 2 0.03
75 48 0.65
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.41
Consensus pattern (73 bp):
GAGACTTACTAAGCATTAAAATGCTACCCGTTGCTTTGGCTCTTTGTTTTATAGATTTTGCTCGT
TAGCTATC
Found at i:83369531 original size:19 final size:19
Alignment explanation
Indices: 83369486--83369532 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
83369476 AGTAAAGTTT
* *
83369486 ATATTAAAATCCTTGAAGG
1 ATATTAAAATCCTAGAAGC
*
83369505 AT-TTAAAATGCTAGAAGC
1 ATATTAAAATCCTAGAAGC
83369523 ATATTAAAAT
1 ATATTAAAAT
83369533 TCTCGGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.32
Consensus pattern (19 bp):
ATATTAAAATCCTAGAAGC
Found at i:83370844 original size:13 final size:13
Alignment explanation
Indices: 83370821--83370862 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
83370811 TTCTAAAATC
83370821 AAATA-AATACTT
1 AAATATAATACTT
83370833 AAATATAATACTT
1 AAATATAATACTT
83370846 CAAA-ATAAATACTT
1 -AAATAT-AATACTT
83370860 AAA
1 AAA
83370863 CATGCCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 5 0.19
13 12 0.44
14 10 0.37
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATATAATACTT
Found at i:83370856 original size:14 final size:12
Alignment explanation
Indices: 83370821--83370862 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 12
83370811 TTCTAAAATC
83370821 AAATAAATACTT
1 AAATAAATACTT
83370833 AAATATAATACTT
1 AAATA-AATACTT
83370846 CAAAATAAATACTT
1 --AAATAAATACTT
83370860 AAA
1 AAA
83370863 CATGCCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
14 7 0.26
15 5 0.19
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATAAATACTT
Found at i:83372420 original size:15 final size:15
Alignment explanation
Indices: 83372400--83372432 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
83372390 AATCATTGGG
83372400 TTGAGCCTGAAAAGT
1 TTGAGCCTGAAAAGT
*
83372415 TTGAGCCTGAAAGGT
1 TTGAGCCTGAAAAGT
83372430 TTG
1 TTG
83372433 TCAACAGTTC
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:0.27, C:0.12, G:0.30, T:0.30
Consensus pattern (15 bp):
TTGAGCCTGAAAAGT
Found at i:83373024 original size:15 final size:15
Alignment explanation
Indices: 83373004--83373033 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83372994 CCCATCTGCT
*
83373004 TACCCAATTACCTAA
1 TACCCAATAACCTAA
83373019 TACCCAATAACCTAA
1 TACCCAATAACCTAA
83373034 GCCCATACAA
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:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
TACCCAATAACCTAA
Found at i:83375326 original size:28 final size:28
Alignment explanation
Indices: 83375292--83375349 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
83375282 ACTATTTGTG
83375292 TTGTGCTCATATTTTCCTTTTATATTTA
1 TTGTGCTCATATTTTCCTTTTATATTTA
83375320 TTGTGCTCATATTTTCCTTTTATATTTA
1 TTGTGCTCATATTTTCCTTTTATATTTA
83375348 TT
1 TT
83375350 ATTCTCTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.14, G:0.07, T:0.62
Consensus pattern (28 bp):
TTGTGCTCATATTTTCCTTTTATATTTA
Found at i:83378820 original size:2 final size:2
Alignment explanation
Indices: 83378813--83378840 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
83378803 TACATAGAAT
83378813 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
83378841 AAATCTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:83388885 original size:10 final size:10
Alignment explanation
Indices: 83388858--83388905 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
83388848 TTAAATTCTA
83388858 AAAGATAAAT
1 AAAGATAAAT
83388868 ACAA-ATAAAT
1 A-AAGATAAAT
*
83388878 AAAGATAATT
1 AAAGATAAAT
83388888 AAAGATAAA-
1 AAAGATAAAT
83388897 AAAGATAAA
1 AAAGATAAA
83388906 AGCTAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 11 0.32
10 21 0.62
11 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:83389779 original size:99 final size:99
Alignment explanation
Indices: 83389603--83389786 Score: 260
Period size: 99 Copynumber: 1.9 Consensus size: 99
83389593 ATTATTATTG
* * * * ** *
83389603 CTTAAGAATACATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCTGCCCCGGTTAC
1 CTTAAGAACACATTAAACCTTTTGACACGAAGAGAGATGACAGCCAAACACCCCACCCCGATTAC
83389668 TCAGCCCAACATACTCCTAATTTATTATATTTTT
66 TCAGCCCAACATACTCCTAATTTATTATATTTTT
* **
83389702 CTTAAGAACATATTAAACCTTTTGACACGAAGAGAGATGACAGCCAAACACCCCACCTTGATTAC
1 CTTAAGAACACATTAAACCTTTTGACACGAAGAGAGATGACAGCCAAACACCCCACCCCGATTAC
* *
83389767 TCAGCCCGACATATTCCTAA
66 TCAGCCCAACATACTCCTAA
83389787 AAAAAATTAT
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
99 73 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (99 bp):
CTTAAGAACACATTAAACCTTTTGACACGAAGAGAGATGACAGCCAAACACCCCACCCCGATTAC
TCAGCCCAACATACTCCTAATTTATTATATTTTT
Found at i:83389798 original size:99 final size:98
Alignment explanation
Indices: 83389593--83389798 Score: 232
Period size: 99 Copynumber: 2.1 Consensus size: 98
83389583 TTTAATCATT
* * * * **
83389593 ATTATTATTGCTTAAGAATACATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCTG
1 ATTATT-TTGCTTAAGAACACATTAAACCTTTTGACACGAAGAGAGATGACAGCCAAACACCCCA
* ***
83389658 CCCCGGTTACTCAGCCCAACATACTCCTAATTTA
65 CCCCGATTACTCAGCCCAACATACTCCTAAAAAA
* * *
83389692 TTATATTTTTCTTAAGAACATATTAAACCTTTTGACACGAAGAGAGATGACAGCCAAACACCCCA
1 AT-TATTTTGCTTAAGAACACATTAAACCTTTTGACACGAAGAGAGATGACAGCCAAACACCCCA
** * *
83389757 CCTTGATTACTCAGCCCGACATATTCCTAAAAAAA
65 CCCCGATTACTCAGCCCAACATACTCCT-AAAAAA
83389792 ATTATTT
1 ATTATTT
83389799 AATTTTGGTT
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
99 79 0.91
100 8 0.09
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.28
Consensus pattern (98 bp):
ATTATTTTGCTTAAGAACACATTAAACCTTTTGACACGAAGAGAGATGACAGCCAAACACCCCAC
CCCGATTACTCAGCCCAACATACTCCTAAAAAA
Found at i:83390628 original size:16 final size:17
Alignment explanation
Indices: 83390607--83390677 Score: 80
Period size: 16 Copynumber: 4.5 Consensus size: 17
83390597 ACATCCAAAC
*
83390607 AAAATAAAGTAATAAT-
1 AAAATAAAGTAAAAATA
*
83390623 AAAATAAAAT-AAAATA
1 AAAATAAAGTAAAAATA
*
83390639 AAAATTAAG-AAAAAT-
1 AAAATAAAGTAAAAATA
83390654 AAAATAAA-TAAAAATA
1 AAAATAAAGTAAAAATA
83390670 AAAATAAA
1 AAAATAAA
83390678 AATTGGGTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
15 17 0.37
16 29 0.63
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (17 bp):
AAAATAAAGTAAAAATA
Found at i:83390630 original size:5 final size:5
Alignment explanation
Indices: 83390607--83390678 Score: 67
Period size: 5 Copynumber: 13.8 Consensus size: 5
83390597 ACATCCAAAC
* *
83390607 AAAAT AAAGT AATAAT AAAAT AAAAT AAAAT AAAAATT AAGA- AAAAT
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT -AAAA-T AAAAT AAAAT
83390654 AAAAT -AAAT AAAAAT AAAAAT AAAA
1 AAAAT AAAAT -AAAAT -AAAAT AAAA
83390679 ATTGGGTTGC
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
4 7 0.12
5 28 0.49
6 21 0.37
7 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:83390631 original size:21 final size:20
Alignment explanation
Indices: 83390607--83390678 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
83390597 ACATCCAAAC
*
83390607 AAAATAAAGTAATAATAAAAT
1 AAAATAAAATAA-AATAAAAT
*
83390628 AAAATAAAATAAAAATTAAGA-
1 AAAATAAAAT-AAAA-TAAAAT
83390649 AAAATAAAAT-AAATAAAAAT
1 AAAATAAAATAAAAT-AAAAT
83390669 AAAAATAAAA
1 -AAAATAAAA
83390679 ATTGGGTTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
18 1 0.02
19 6 0.14
21 30 0.70
22 6 0.14
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (20 bp):
AAAATAAAATAAAATAAAAT
Found at i:83390657 original size:6 final size:6
Alignment explanation
Indices: 83390623--83390680 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
83390613 AAGTAATAAT
*
83390623 AAAAT- AAAAT- AAAATA AAAATTA AGAAA-A ATAAA-A TAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAA-TA A-AAATA A-AAATA AAAATA AAAATA
83390670 AAAATA AAAAT
1 AAAATA AAAAT
83390681 TGGGTTGCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
5 13 0.28
6 27 0.59
7 3 0.07
8 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:83397498 original size:35 final size:35
Alignment explanation
Indices: 83397452--83397523 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
83397442 TAAGACCATG
*
83397452 GTTGAAAGATACCATGGCAATCTGATATGAAATGT
1 GTTGAAAGATACCATGGCAACCTGATATGAAATGT
83397487 GTTGAAAGATACCATGGCAACCTGATATGAAATGT
1 GTTGAAAGATACCATGGCAACCTGATATGAAATGT
83397522 GT
1 GT
83397524 AAGACCATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (35 bp):
GTTGAAAGATACCATGGCAACCTGATATGAAATGT
Found at i:83397559 original size:46 final size:46
Alignment explanation
Indices: 83397487--83397648 Score: 200
Period size: 46 Copynumber: 3.5 Consensus size: 46
83397477 TATGAAATGT
* * **
83397487 GTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATG
1 GTTGAAAGACACCATGGCAACATGATATGAAATGAATAAGACCATG
* * *
83397533 GTTGAAAGACACCATAGCAACGTGATATGAAATGAACAAGACCATG
1 GTTGAAAGACACCATGGCAACATGATATGAAATGAATAAGACCATG
* * *
83397579 GTTGAAAGATACCATGGCAACATGACA-GAAAATGAATAAGACCATA
1 GTTGAAAGACACCATGGCAACATGATATG-AAATGAATAAGACCATG
* *
83397625 GTTGAAAGACACTATGGCATCATG
1 GTTGAAAGACACCATGGCAACATG
83397649 TCAAAGATAA
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 99 0.99
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.20
Consensus pattern (46 bp):
GTTGAAAGACACCATGGCAACATGATATGAAATGAATAAGACCATG
Found at i:83400131 original size:10 final size:10
Alignment explanation
Indices: 83400114--83400171 Score: 75
Period size: 10 Copynumber: 5.9 Consensus size: 10
83400104 TTAAATTCTA
83400114 AAAGATAAAT
1 AAAGATAAAT
*
83400124 ACAGATAAAT
1 AAAGATAAAT
*
83400134 -AAGATAATT
1 AAAGATAAAT
83400143 AAAGATAGAA-
1 AAAGATA-AAT
83400153 AAAGATAAAT
1 AAAGATAAAT
83400163 AAAGATAAA
1 AAAGATAAA
83400172 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 9 0.22
10 31 0.76
11 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:83404961 original size:21 final size:21
Alignment explanation
Indices: 83404935--83404975 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
83404925 AGACGAGCGA
* *
83404935 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
83404956 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
83404976 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:83412254 original size:15 final size:15
Alignment explanation
Indices: 83412234--83412266 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
83412224 AATTATTGGG
83412234 TTGAGCCTGAAAAGT
1 TTGAGCCTGAAAAGT
*
83412249 TTGAGCCTGAAAGGT
1 TTGAGCCTGAAAAGT
83412264 TTG
1 TTG
83412267 TAAACAGTTC
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:0.27, C:0.12, G:0.30, T:0.30
Consensus pattern (15 bp):
TTGAGCCTGAAAAGT
Found at i:83414366 original size:17 final size:17
Alignment explanation
Indices: 83414346--83414402 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
83414336 TCAATATGAC
83414346 TAAACAATTTAATAATA
1 TAAACAATTTAATAATA
* *
83414363 TAAACAATATAA-AATG
1 TAAACAATTTAATAATA
*
83414379 TGAAATTTAATTTAATAATA
1 T-AAA--CAATTTAATAATA
83414399 TAAA
1 TAAA
83414403 TAGTAGAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 4 0.13
17 14 0.45
19 9 0.29
20 4 0.13
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (17 bp):
TAAACAATTTAATAATA
Found at i:83414540 original size:15 final size:16
Alignment explanation
Indices: 83414514--83414543 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
83414504 GGGGAAAATA
83414514 AAAAGTTTTGAGGGAT
1 AAAAGTTTTGAGGGAT
83414530 AAAAG-TTTGAGGGA
1 AAAAGTTTTGAGGGA
83414544 AAGTAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.27
Consensus pattern (16 bp):
AAAAGTTTTGAGGGAT
Found at i:83414857 original size:30 final size:30
Alignment explanation
Indices: 83414802--83414858 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
83414792 GGGATAGAAG
* * *
83414802 AGGAGTAAAAGTTTTGGGGGGAAAGTAGGA
1 AGGAGTAAAAGTTTTGAGAGAAAAGTAGGA
83414832 AGGAGTAAAAGTTTTGAGAGAAAAGTA
1 AGGAGTAAAAGTTTTGAGAGAAAAGTA
83414859 AAAAGGTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.21
Consensus pattern (30 bp):
AGGAGTAAAAGTTTTGAGAGAAAAGTAGGA
Found at i:83418096 original size:26 final size:26
Alignment explanation
Indices: 83418060--83418195 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
83418050 TGATACAAAT
* *
83418060 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
83418086 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
83418112 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
83418138 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
83418164 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
83418190 TGATAA
1 TGATAA
83418196 GAATTTCATG
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Done.