Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 103 of 129
Found at i:18730259 original size:24 final size:24
Alignment explanation
Indices: 18730224--18730269 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
18730214 GTTGGTAGGA
*
18730224 TTTTTTGAAAATTATTATTTTTTAT
1 TTTTTTGAAAATT-TAATTTTTTAT
18730249 TTTTTTG-AAATTTAATTTTTT
1 TTTTTTGAAAATTTAATTTTTT
18730270 GTTAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 5 0.25
25 7 0.35
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTTTTGAAAATTTAATTTTTTAT
Found at i:18733101 original size:24 final size:24
Alignment explanation
Indices: 18733038--18733093 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
18733028 TCATGATCTT
18733038 TTGACCATGAGAACTCATGGTTCA
1 TTGACCATGAGAACTCATGGTTCA
18733062 TTGACCATGAGAACTCATGGTTCA
1 TTGACCATGAGAACTCATGGTTCA
18733086 TTGACCAT
1 TTGACCAT
18733094 CATAACTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
TTGACCATGAGAACTCATGGTTCA
Found at i:18735475 original size:16 final size:15
Alignment explanation
Indices: 18735439--18735480 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
18735429 TAATTATCTT
18735439 TATAAA-AAATAAAA
1 TATAAATAAATAAAA
18735453 TAAATAAATAAATAAAA
1 T--ATAAATAAATAAAA
18735470 GTATAAATAAA
1 -TATAAATAAA
18735481 ACAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.04
16 14 0.58
17 8 0.33
18 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
TATAAATAAATAAAA
Found at i:18739852 original size:7 final size:7
Alignment explanation
Indices: 18739813--18739860 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
18739803 GAGAAGGTAA
18739813 AAAGAAG
1 AAAGAAG
*
18739820 AAAAAAG
1 AAAGAAG
*
18739827 -ATGAAG
1 AAAGAAG
18739833 AAAGAGGAG
1 AAAGA--AG
18739842 AAAGAAG
1 AAAGAAG
18739849 AAAGAAG
1 AAAGAAG
18739856 AAAGA
1 AAAGA
18739861 TAAGGCCCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 4 0.12
7 23 0.68
9 7 0.21
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (7 bp):
AAAGAAG
Found at i:18745879 original size:28 final size:28
Alignment explanation
Indices: 18745823--18745889 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
18745813 TTAAAGTAAG
*
18745823 AAGATT-CAAGAATTCTTAAATTAGGAT
1 AAGATTCCAAGAATTCTTAAATTAGAAT
18745850 AAGATTCCAAGAATAT-TTAAATT-GAAAT
1 AAGATTCCAAGAAT-TCTTAAATTAG-AAT
* *
18745878 AAAATTCTAAGA
1 AAGATTCCAAGA
18745890 CTTTTGAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 7 0.21
28 26 0.76
29 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.31
Consensus pattern (28 bp):
AAGATTCCAAGAATTCTTAAATTAGAAT
Found at i:18746905 original size:23 final size:22
Alignment explanation
Indices: 18746852--18746906 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
18746842 CATTCCTTAT
*
18746852 TTTTATAAAAAAAAATGTAATAA
1 TTTTA-AAAAAAAAATATAATAA
*
18746875 TTGCTTAAAAAAATAAATATGATAA
1 TT--TTAAAAAAA-AAATATAATAA
18746900 TTTTAAA
1 TTTTAAA
18746907 TATGACATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 7 0.26
24 6 0.22
25 14 0.52
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.36
Consensus pattern (22 bp):
TTTTAAAAAAAAAATATAATAA
Found at i:18751318 original size:58 final size:57
Alignment explanation
Indices: 18751201--18751321 Score: 143
Period size: 58 Copynumber: 2.0 Consensus size: 57
18751191 CTCCTTGGAC
* *
18751201 ATTAAAGTAATGTTTGGGATGGATTGGTCATTTCAATTAGGGTGATTTATGAACGATG
1 ATTAAAGTAATGTTTGGGATGGATTGGTCATTACAATTAGAGTGATTTAT-AACGATG
* * * *
18751259 ATTAAAGTAATGTTTGGGATGGGTTGGTTATTACAAAAATTATAGTGATTTATATATGATG
1 ATTAAAGTAATGTTTGGGATGGATTGGTCATTAC---AATTAGAGTGATTTATA-ACGATG
18751320 AT
1 AT
18751322 CAGATAATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
58 31 0.58
60 1 0.02
61 21 0.40
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.40
Consensus pattern (57 bp):
ATTAAAGTAATGTTTGGGATGGATTGGTCATTACAATTAGAGTGATTTATAACGATG
Found at i:18752211 original size:32 final size:32
Alignment explanation
Indices: 18752159--18752223 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
18752149 CAATAATAGT
**
18752159 ATTACCAACATTTTTTACATAAAAGGATTCCA
1 ATTACCAACATTTTAGACATAAAAGGATTCCA
*
18752191 ATTATCAACATTTTAGACATAAAAGGATTCCA
1 ATTACCAACATTTTAGACATAAAAGGATTCCA
18752223 A
1 A
18752224 GCAAAATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (32 bp):
ATTACCAACATTTTAGACATAAAAGGATTCCA
Found at i:18760071 original size:12 final size:13
Alignment explanation
Indices: 18760040--18760071 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18760030 CATAAATTAA
18760040 TTAAA-TTAAATT
1 TTAAATTTAAATT
18760052 TTAAATTTAAA-T
1 TTAAATTTAAATT
18760064 TTAAATTT
1 TTAAATTT
18760072 TATTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAAATTTAAATT
Found at i:18760588 original size:22 final size:21
Alignment explanation
Indices: 18760554--18760605 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
18760544 TCCGAAATTA
18760554 ATAAAATATTTTTTT-TAAAT
1 ATAAAATATTTTTTTATAAAT
18760574 ATAAAATATTATTTTTATAAAT
1 ATAAAATATT-TTTTTATAAAT
18760596 AT-AAATATTT
1 ATAAAATATTT
18760606 AAAAATATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.37
21 12 0.40
22 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAAAATATTTTTTTATAAAT
Found at i:18760601 original size:28 final size:27
Alignment explanation
Indices: 18760569--18760636 Score: 73
Period size: 30 Copynumber: 2.4 Consensus size: 27
18760559 ATATTTTTTT
* *
18760569 TAAATATAAAATATTATTTTTATAAATA
1 TAAATATAAAATATCA-TTATATAAATA
18760597 TAAATATTTAAAAATATCATTATATAAATA
1 TAAATA--T-AAAATATCATTATATAAATA
*
18760627 TATATATAAA
1 TAAATATAAA
18760637 TAATTAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 3 0.09
28 7 0.21
30 16 0.47
31 8 0.24
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (27 bp):
TAAATATAAAATATCATTATATAAATA
Found at i:18760646 original size:28 final size:29
Alignment explanation
Indices: 18760571--18760646 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
18760561 ATTTTTTTTA
* *
18760571 AATATA-AAAT-ATTATTTTTATAAATAT
1 AATATATAAATAATTAATTATATAAATAT
* *
18760598 AAATATTTAAA-AATATCATTATATAAATAT
1 -AATATATAAATAAT-TAATTATATAAATAT
18760628 -ATATATAAATAATTAATTA
1 AATATATAAATAATTAATTA
18760647 AAAAATAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
28 18 0.47
29 8 0.21
30 12 0.32
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (29 bp):
AATATATAAATAATTAATTATATAAATAT
Found at i:18762968 original size:33 final size:31
Alignment explanation
Indices: 18762926--18762986 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 31
18762916 TTTTTATTTT
18762926 TAATGTTAAAA-AGTAAAAATAAATTATAAAAAA
1 TAATGTTAAAATA-TAAAAA-AAATT-TAAAAAA
*
18762959 TAATTTTAAAATATAAAAAAAATTTAAA
1 TAATGTTAAAATATAAAAAAAATTTAAA
18762987 TATTCAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 4 0.15
32 5 0.19
33 16 0.62
34 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (31 bp):
TAATGTTAAAATATAAAAAAAATTTAAAAAA
Found at i:18762986 original size:18 final size:20
Alignment explanation
Indices: 18762945--18762983 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18762935 AAAGTAAAAA
*
18762945 TAAATTATAAAAAATAATTT
1 TAAAATATAAAAAATAATTT
18762965 TAAAATATAAAAAA-AATTT
1 TAAAATATAAAAAATAATTT
18762984 AAATATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATATAAAAAATAATTT
Found at i:18763788 original size:15 final size:14
Alignment explanation
Indices: 18763764--18763810 Score: 76
Period size: 14 Copynumber: 3.3 Consensus size: 14
18763754 TTTTTTTGTG
18763764 AAATGATTTTTAAA
1 AAATGATTTTTAAA
18763778 AAATGATTTTTAAA
1 AAATGATTTTTAAA
*
18763792 AAATAATTTTTGAAA
1 AAATGATTTTT-AAA
18763807 AAAT
1 AAAT
18763811 TTATATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 24 0.77
15 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (14 bp):
AAATGATTTTTAAA
Found at i:18763968 original size:16 final size:15
Alignment explanation
Indices: 18763948--18763987 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
18763938 TTATTAAAGT
18763948 ATATTGAAATTATTTA
1 ATATTGAAATTA-TTA
* *
18763964 TTATTAAAATTATTA
1 ATATTGAAATTATTA
18763979 ATATTGAAA
1 ATATTGAAA
18763988 AATAGTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (15 bp):
ATATTGAAATTATTA
Found at i:18763988 original size:16 final size:17
Alignment explanation
Indices: 18763948--18763988 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
18763938 TTATTAAAGT
18763948 ATATTG-AAATTATTTA
1 ATATTGAAAATTATTTA
*
18763964 TTATT-AAAATTA-TTA
1 ATATTGAAAATTATTTA
18763979 ATATTGAAAA
1 ATATTGAAAA
18763989 ATAGTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
ATATTGAAAATTATTTA
Found at i:18764125 original size:22 final size:22
Alignment explanation
Indices: 18764078--18764169 Score: 93
Period size: 22 Copynumber: 4.3 Consensus size: 22
18764068 TTCTTTATAT
* *
18764078 TATTTATTAATATATTATTATAA
1 TATTTATTAAT-TAATATAATAA
*
18764101 TATTTATGAATTAATATAATAA
1 TATTTATTAATTAATATAATAA
*
18764123 TA--T-TT-ATTAATATAATAT
1 TATTTATTAATTAATATAATAA
* *
18764141 TATTAATTAATTAATATAATAT
1 TATTTATTAATTAATATAATAA
18764163 TATTTAT
1 TATTTAT
18764170 AAATAAAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
18 14 0.24
19 1 0.02
20 1 0.02
21 2 0.03
22 30 0.52
23 10 0.17
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (22 bp):
TATTTATTAATTAATATAATAA
Found at i:18764185 original size:40 final size:40
Alignment explanation
Indices: 18764100--18764254 Score: 114
Period size: 40 Copynumber: 4.0 Consensus size: 40
18764090 TATTATTATA
* * * * *
18764100 ATATTTATGAATTAATATAATAATATTTATTAATATAA-T
1 ATATTAATTAATTAATATAATATTATTTATAAATAAAATT
18764139 ATTATTAATTAATTAATATAATATTATTTATAAATAAAATT
1 A-TATTAATTAATTAATATAATATTATTTATAAATAAAATT
* ** *
18764180 ATATTAA--AA--AATAT--TGA-TATTAATAATATATTATA
1 ATATTAATTAATTAATATAAT-ATTATTTATAA-ATAAAATT
* *
18764215 ATATT-ATT-ATTAACATAATATTATTTATAAGTAAAATT
1 ATATTAATTAATTAATATAATATTATTTATAAATAAAATT
18764253 AT
1 AT
18764255 GCTCAAAAGT
Statistics
Matches: 90, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
34 10 0.11
35 12 0.13
36 5 0.06
37 4 0.04
38 9 0.10
39 10 0.11
40 38 0.42
41 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (40 bp):
ATATTAATTAATTAATATAATATTATTTATAAATAAAATT
Found at i:18764390 original size:22 final size:21
Alignment explanation
Indices: 18764348--18764394 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
18764338 AATAACTTTC
*
18764348 TTTTTTATTGATCAATAAATT
1 TTTTTTATTAATCAATAAATT
* *
18764369 ATTTTTTATTAATTAATTAATT
1 -TTTTTTATTAATCAATAAATT
18764391 TTTT
1 TTTT
18764395 ATCAAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTTTATTAATCAATAAATT
Found at i:18764409 original size:18 final size:18
Alignment explanation
Indices: 18764361--18764409 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
18764351 TTTATTGATC
*
18764361 AATAAATTATTTTTTATTA
1 AATAAA-TATTTTTTATCA
* *
18764380 ATTAATTAATTTTTTATCA
1 AATAAAT-ATTTTTTATCA
18764399 AATAAATATTT
1 AATAAATATTT
18764410 AAAAATTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
AATAAATATTTTTTATCA
Found at i:18765405 original size:11 final size:11
Alignment explanation
Indices: 18765389--18765428 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
18765379 TCCCATAAGA
18765389 GATTTGTTTGG
1 GATTTGTTTGG
* *
18765400 GATTTGTTAGA
1 GATTTGTTTGG
18765411 GATTTGTTTGG
1 GATTTGTTTGG
18765422 GATTTGT
1 GATTTGT
18765429 CAGATATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.53
Consensus pattern (11 bp):
GATTTGTTTGG
Found at i:18765414 original size:22 final size:22
Alignment explanation
Indices: 18765386--18765428 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
18765376 AAATCCCATA
18765386 AGAGATTTGTTTGGGATTTGTT
1 AGAGATTTGTTTGGGATTTGTT
18765408 AGAGATTTGTTTGGGATTTGT
1 AGAGATTTGTTTGGGATTTGT
18765429 CAGATATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGGGATTTGTT
Found at i:18765541 original size:52 final size:52
Alignment explanation
Indices: 18765453--18765598 Score: 179
Period size: 52 Copynumber: 2.8 Consensus size: 52
18765443 TGAACAAAAA
* * *
18765453 GACTTGCAAAAGAAGAATTCCAAGA-GAAAGAAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAA-ATGATTCTTAATAGGTAAGTTT
*
18765505 GACTTGCAAGAGAAGAATTCTAAAAGGAAAATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAATGATTCTTAATAGGTAAGTTT
* * * * *
18765557 GACTTACAGGAAAAAAATTCTAAGAGG-AGATGGATTCTTAAT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAT-GATTCTTAAT
18765599 GGACAAGTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
51 3 0.04
52 75 0.91
53 4 0.05
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAATGATTCTTAATAGGTAAGTTT
Found at i:18766194 original size:25 final size:24
Alignment explanation
Indices: 18766142--18766224 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 24
18766132 AAGTGGTATC
* *
18766142 AGAGCTGAAGGTTCGAA-ACGTGAGA
1 AGAGCTGAAGATTC-AAGATGTGA-A
*
18766167 AGAGTTGAAGATTCAAGATGTGGAA
1 AGAGCTGAAGATTCAAGATGT-GAA
* * *
18766192 AGAGCCGAAGGTTCGAGATGTGAA
1 AGAGCTGAAGATTCAAGATGTGAA
18766216 AGAGCTGAA
1 AGAGCTGAA
18766225 AGTTTGAGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
24 13 0.27
25 33 0.69
26 2 0.04
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (24 bp):
AGAGCTGAAGATTCAAGATGTGAA
Found at i:18766252 original size:49 final size:50
Alignment explanation
Indices: 18766142--18766253 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 50
18766132 AAGTGGTATC
*
18766142 AGAGCTGAAGGTTCGAAACGTGAGAAGAGTTGAAGATTCAAGATGTGGAA
1 AGAGCTGAAGGTTCGAAACGTGAGAAGAGCTGAAGATTCAAGATGTGGAA
* * * ** *
18766192 AGAGCCGAAGGTTCGAGATGTGA-AAGAGCTGAA-AGTTTGAGATGTGGGA
1 AGAGCTGAAGGTTCGAAACGTGAGAAGAGCTGAAGA-TTCAAGATGTGGAA
*
18766241 AGAGCTAAAGGTT
1 AGAGCTGAAGGTT
18766254 TGGGAAGTGC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.02
49 31 0.60
50 20 0.38
ACGTcount: A:0.36, C:0.08, G:0.36, T:0.21
Consensus pattern (50 bp):
AGAGCTGAAGGTTCGAAACGTGAGAAGAGCTGAAGATTCAAGATGTGGAA
Found at i:18766254 original size:25 final size:25
Alignment explanation
Indices: 18766182--18766255 Score: 89
Period size: 24 Copynumber: 3.0 Consensus size: 25
18766172 TGAAGATTCA
** *
18766182 AGATGTGGAAAGAGCCGAAGGTTCG
1 AGATGTGGAAAGAGCTAAAGGTTTG
18766207 AGATGT-GAAAGAGCTGAAA-GTTTG
1 AGATGTGGAAAGAGCT-AAAGGTTTG
*
18766231 AGATGTGGGAAGAGCTAAAGGTTTG
1 AGATGTGGAAAGAGCTAAAGGTTTG
18766256 GGAAGTGCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
24 21 0.50
25 21 0.50
ACGTcount: A:0.34, C:0.07, G:0.38, T:0.22
Consensus pattern (25 bp):
AGATGTGGAAAGAGCTAAAGGTTTG
Found at i:18766317 original size:18 final size:19
Alignment explanation
Indices: 18766294--18766330 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
18766284 AAGCAAGTTC
18766294 AGAAGAGCTCGA-TTCGAG
1 AGAAGAGCTCGAGTTCGAG
*
18766312 AGAAGAGTTCGAGTTCGAG
1 AGAAGAGCTCGAGTTCGAG
18766331 TTTTGAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.14, G:0.35, T:0.19
Consensus pattern (19 bp):
AGAAGAGCTCGAGTTCGAG
Found at i:18766520 original size:11 final size:11
Alignment explanation
Indices: 18766504--18766541 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
18766494 TCCCATAAGA
18766504 GATTTGTTTGG
1 GATTTGTTTGG
* *
18766515 GATTTGTTAGA
1 GATTTGTTTGG
18766526 GATTTGTTTGG
1 GATTTGTTTGG
18766537 GATTT
1 GATTT
18766542 ATCAGATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.53
Consensus pattern (11 bp):
GATTTGTTTGG
Found at i:18766656 original size:52 final size:52
Alignment explanation
Indices: 18766568--18766713 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 52
18766558 TGGACAAAAA
* *
18766568 GACTTGCAAAAGAAGAATTCCAAGA-GAAAGAAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAA-AAGATTCTTAATAGGTAAGTTT
* *
18766620 GACTTGCAAGAGAAGAATTCTAAAAGGAAAATGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAAGATTCTTAATAGGTAAGTTT
* * * * * **
18766672 GACTTACAGGAAAAAAATTCTAAGAGGAGAGGGATTCTTAAT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAAGATTCTTAAT
18766714 GGACAAGTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 77 0.95
53 4 0.05
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAAAGATTCTTAATAGGTAAGTTT
Found at i:18769146 original size:28 final size:28
Alignment explanation
Indices: 18769113--18769168 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
18769103 AATATAAAAA
18769113 TTAATATATCTAGTTTTATTATTCACTT
1 TTAATATATCTAGTTTTATTATTCACTT
* *
18769141 TTAATATCTCTAGTTTTATTATTTACTT
1 TTAATATATCTAGTTTTATTATTCACTT
18769169 CAAAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.59
Consensus pattern (28 bp):
TTAATATATCTAGTTTTATTATTCACTT
Found at i:18774677 original size:18 final size:19
Alignment explanation
Indices: 18774651--18774692 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
18774641 CAAAAACATG
*
18774651 AACAAAATAA-AATCTGAA
1 AACAGAATAACAATCTGAA
* *
18774669 AACAGAATAACATTCTGGA
1 AACAGAATAACAATCTGAA
18774688 AACAG
1 AACAG
18774693 CTTTTAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.57, C:0.14, G:0.12, T:0.17
Consensus pattern (19 bp):
AACAGAATAACAATCTGAA
Found at i:18776267 original size:8 final size:8
Alignment explanation
Indices: 18776254--18776283 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18776244 TTGGTGTTTG
18776254 TATTTAGA
1 TATTTAGA
18776262 TATTTAGA
1 TATTTAGA
*
18776270 TATTTAAA
1 TATTTAGA
18776278 TATTTA
1 TATTTA
18776284 TAATATCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (8 bp):
TATTTAGA
Found at i:18776349 original size:21 final size:20
Alignment explanation
Indices: 18776312--18776350 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18776302 TTTAAATTCA
* *
18776312 TTTTTATTTCTTTTAATAAT
1 TTTTTATTTATTATAATAAT
18776332 TTTTTATTTAATTATAATA
1 TTTTTATTT-ATTATAATA
18776351 GTAAATATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTATTTATTATAATAAT
Found at i:18777428 original size:130 final size:129
Alignment explanation
Indices: 18777220--18777920 Score: 636
Period size: 130 Copynumber: 5.4 Consensus size: 129
18777210 TAATGATCAC
* * * * * * * * * *
18777220 AAAAAA-TTGTTATGAAAACTTATATTATTTGTAATGATTTTTTAATGTCGTTACTTAAATTA-T
1 AAAAAAGTTGTTGTGAAAACTTGTTTTATTTGCAATCATTTTTCAAAGTCATTGCTTAAGTTATT
* * * * *
18777283 CTTTTAATATTTTATATAATGACAAAGATAA-TTGTTACAAAAATTTTGATCATATTTGTAACAA
66 TTTTTAATATTTTATATAATGACAAA-A-AAGTTATTACAAAAA-TTTGATAAAATTTGTAATAA
18777347 CA
128 CA
* ** * ** *
18777349 ACAAAAAGTTATTACGTAAACTTGTTTTATTTATAA-CGA-TTTTCAAAGTTATTGCTTAAGTTA
1 A-AAAAAGTTGTTGTGAAAACTTGTTTTATTTGCAATC-ATTTTTCAAAGTCATTGCTTAAGTTA
* * * *
18777412 -TTTTTTAATATTTTATATAATAACAAATAAAGTTATTATGAAAAATTTGATAACATTTGTAACA
64 TTTTTTTAATATTTTATATAATGACAAA-AAAGTTATTA-CAAAAATTTGATAAAATTTGTAATA
18777476 ACA
127 ACA
* * * * * * *
18777479 ATATAAAGTTGATATGAAAACTTGTTTTGTTTGCAATCATTTTTAAAAGTCATTACTTAAGTTAC
1 A-AAAAAGTTGTTGTGAAAACTTGTTTTATTTGCAATCATTTTTCAAAGTCATTGCTTAAGTTAT
* * * * *
18777544 TTGTTTAATATTTTATA-CACGACAAAAAAAGTTATTACGAAAAATTTGATCATATTTGTAATAA
65 TTTTTTAATATTTTATATAATGAC-AAAAAAGTTATTAC-AAAAATTTGATAAAATTTGTAATAA
*
18777608 TA
128 CA
* * * ** **
18777610 AAAAAAGTTGTTGTGTAAACTTATTTTATTTGCGA-CGATTTTTTGAAGTTGTTGCTTAAGTTAT
1 AAAAAAGTTGTTGTGAAAACTTGTTTTATTTGCAATC-ATTTTTCAAAGTCATTGCTTAAGTTAT
* * * *
18777674 TTTTTTAATATTTTATACAA-CAAAAAAAAG---TTACAATTAAATTT-ATAAAATTTGTAATTA
65 TTTTTTAATATTTTATATAATGACAAAAAAGTTATTACAA--AAATTTGATAAAATTTGTAATAA
18777734 CA
128 CA
*
18777736 AAAAAAGTTGTTGTGAAAACTTGTTTTATTTGCAATCATTTTTCAAGGTCATTGCTTAAGTTATT
1 AAAAAAGTTGTTGTGAAAACTTGTTTTATTTGCAATCATTTTTCAAAGTCATTGCTTAAGTTATT
* * *
18777801 TTTTTAATATTTTATATAATGATAAAAAAAGTTATTACAGAAAATTTTATAAAATTTGTAATGAC
66 TTTTTAATATTTTATATAATGA-CAAAAAAGTTATTACA-AAAATTTGATAAAATTTGTAATAAC
18777866 A
129 A
* ** * *
18777867 ACAAAAAATTGTTGCAAAAACTTGTTTTATTTGCAACCATTTTTCAATGTCATT
1 A-AAAAAGTTGTTGTGAAAACTTGTTTTATTTGCAATCATTTTTCAAAGTCATT
18777921 AATTTAATTT
Statistics
Matches: 471, Mismatches: 78, Indels: 43
0.80 0.13 0.07
Matches are distributed among these distances:
125 2 0.00
126 91 0.19
127 8 0.02
128 8 0.02
129 11 0.02
130 173 0.37
131 111 0.24
132 67 0.14
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (129 bp):
AAAAAAGTTGTTGTGAAAACTTGTTTTATTTGCAATCATTTTTCAAAGTCATTGCTTAAGTTATT
TTTTTAATATTTTATATAATGACAAAAAAGTTATTACAAAAATTTGATAAAATTTGTAATAACA
Found at i:18777594 original size:261 final size:255
Alignment explanation
Indices: 18777220--18777913 Score: 761
Period size: 261 Copynumber: 2.7 Consensus size: 255
18777210 TAATGATCAC
* * * * * * * * *
18777220 AAAAAA-TTGTTATGAAAACTTATATTATTTGTAATGATTTTTTAATGTCGTTACTTAAATTATC
1 AAAAAAGTTGATATGAAAACTTGTTTTATTTGCAATCATTTTTAAAAGTCATTACTTAAGTTAT-
* * *
18777284 TTTTAATATTTTATATAATGACAAAGATAA-TTGTTACAAAAATTTTGATCATATTTGTAACAAC
65 TTTTAATATTTTATATAATGACAAA-AAAAGTTATTACAAAAA-TTTGATCATATTTGTAATAAC
* * *
18777348 AACAAAAAGTTATTACGTAAACTTGTTTTATTTATAACGA-TTTTCAAAGTTATTGCTTAAGTTA
128 AACAAAAAGTTGTTGCGTAAACTTGTTTTATTTACAACGATTTTTCAAAGTTATTGCTTAAGTTA
* * ** *
18777412 -TTTTTTAATATTTTATATAATAACAAATAAAGTTATTATGAAAAATTTGATAACATTTGTAACA
193 TTTTTTTAATATTTTATACAACAA-AAA-AAAGTTACAAT--AAAATTT-ATAAAATTTGTAACA
18777476 ACA
253 ACA
* *
18777479 ATATAAAGTTGATATGAAAACTTGTTTTGTTTGCAATCATTTTTAAAAGTCATTACTTAAGTTAC
1 A-AAAAAGTTGATATGAAAACTTGTTTTATTTGCAATCATTTTTAAAAGTCATTACTTAAGTTA-
* *
18777544 TTGTTTAATATTTTATA-CACGACAAAAAAAGTTATTACGAAAAATTTGATCATATTTGTAATAA
64 TT-TTTAATATTTTATATAATGACAAAAAAAGTTATTAC-AAAAATTTGATCATATTTGTAATAA
* * * * * ** *
18777608 TAA-AAAAAGTTGTTGTGTAAACTTATTTTATTTGCGACGATTTTTTGAAGTTGTTGCTTAAGTT
127 CAACAAAAAGTTGTTGCGTAAACTTGTTTTATTTACAACGATTTTTCAAAGTTATTGCTTAAGTT
* **
18777672 ATTTTTTTAATATTTTATACAACAAAAAAAAGTTACAATTAAATTTATAAAATTTGTAATTACA
192 ATTTTTTTAATATTTTATACAACAAAAAAAAGTTACAATAAAATTTATAAAATTTGTAACAACA
* * * * *
18777736 AAAAAAGTTGTTGTGAAAACTTGTTTTATTTGCAATCATTTTTCAAGGTCATTGCTTAAGTTATT
1 AAAAAAGTTGATATGAAAACTTGTTTTATTTGCAATCATTTTTAAAAGTCATTACTTAAGTTA--
* * * * *
18777801 TTTTTAATATTTTATATAATGATAAAAAAAGTTATTACAGAAAATTTTATAAAATTTGTAATGAC
64 TTTTTAATATTTTATATAATGACAAAAAAAGTTATTACA-AAAATTTGATCATATTTGTAATAAC
* ** * *
18777866 AACAAAAAATTGTTGCAAAAACTTGTTTTATTTGCAACCATTTTTCAA
128 AACAAAAAGTTGTTGCGTAAACTTGTTTTATTTACAACGATTTTTCAA
18777914 TGTCATTAAT
Statistics
Matches: 363, Mismatches: 60, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
256 70 0.19
257 58 0.16
258 42 0.12
259 1 0.00
260 46 0.13
261 105 0.29
262 41 0.11
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (255 bp):
AAAAAAGTTGATATGAAAACTTGTTTTATTTGCAATCATTTTTAAAAGTCATTACTTAAGTTATT
TTTAATATTTTATATAATGACAAAAAAAGTTATTACAAAAATTTGATCATATTTGTAATAACAAC
AAAAAGTTGTTGCGTAAACTTGTTTTATTTACAACGATTTTTCAAAGTTATTGCTTAAGTTATTT
TTTTAATATTTTATACAACAAAAAAAAGTTACAATAAAATTTATAAAATTTGTAACAACA
Found at i:18781248 original size:38 final size:37
Alignment explanation
Indices: 18781191--18781265 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
18781181 AGCATCATTG
* * *
18781191 TTTTTAAAATTCAAGTTTAATTGTATTCTTCAATGCA
1 TTTTTAAAAATCAAGTTTAACTGTATTCTTAAATGCA
*
18781228 TTTTTCAAAAATCAAGTTTAACTGTATTTTTAAATGCA
1 TTTTT-AAAAATCAAGTTTAACTGTATTCTTAAATGCA
18781266 CTAGCAATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
37 5 0.15
38 28 0.85
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.47
Consensus pattern (37 bp):
TTTTTAAAAATCAAGTTTAACTGTATTCTTAAATGCA
Found at i:18782596 original size:103 final size:100
Alignment explanation
Indices: 18782294--18782587 Score: 320
Period size: 103 Copynumber: 2.9 Consensus size: 100
18782284 AAACAATGAT
* * *
18782294 ATTTAATTGTTACGAAACATGTTATCT-ACAAAAATAATATTGTTACTTAAGAGTTTTTATAATC
1 ATTTAATTGTTACGAAATATGTTATGTAACAACAATAATATTGTTA-TTAAGAGTTTTTATAA-C
** ** *
18782358 AATATTTATGGTTGTTGAAAAAGAGTTTAACAAATGAT
64 AA-ATTTATGGTTGTTGAAAATCAGTTTAACAAACAAC
** * * * *
18782396 ATTTAATCATTACAAAATATGCTACGTAACTACAATAATATTGTTATTTAAGAGTTTTTATAACC
1 ATTTAATTGTTACGAAATATGTTATGTAACAACAATAATATTGTTA-TTAAGAGTTTTTATAA-C
* * *
18782461 AACTTTTATGGTTGTTGAAAATTAGTTTAACAAGCAAC
64 AA-ATTTATGGTTGTTGAAAATCAGTTTAACAAACAAC
*
18782499 ATTTAATTGTTACGAAATATGTTATGTAACAACAATAATATGGTTATGTAAGAGTTTTTATAACG
1 ATTTAATTGTTACGAAATATGTTATGTAACAACAATAATATTGTTAT-TAAGAGTTTTTATAAC-
* *
18782564 AAATTATATAGTTGTTGAACATCA
64 AAATT-TATGGTTGTTGAAAATCA
18782588 TTAAAACAAC
Statistics
Matches: 158, Mismatches: 30, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
102 24 0.15
103 134 0.85
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (100 bp):
ATTTAATTGTTACGAAATATGTTATGTAACAACAATAATATTGTTATTAAGAGTTTTTATAACAA
ATTTATGGTTGTTGAAAATCAGTTTAACAAACAAC
Found at i:18786245 original size:29 final size:30
Alignment explanation
Indices: 18786187--18786246 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
18786177 ATGCATTATA
* *
18786187 TTAATAAAAAAAATTATTTAATATCTTAAT
1 TTAACAAAAAAAATTATTTAATATCATAAT
*
18786217 TTAACAAAAATAATATATTT-ATA-CATAAT
1 TTAACAAAAAAAAT-TATTTAATATCATAAT
18786246 T
1 T
18786247 AAAATATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 6 0.23
30 15 0.58
31 5 0.19
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (30 bp):
TTAACAAAAAAAATTATTTAATATCATAAT
Found at i:18786909 original size:17 final size:15
Alignment explanation
Indices: 18786883--18786926 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 15
18786873 AAAATCCAAC
18786883 AAATTAAAAAATTATGA
1 AAATTAAAAAA-TAT-A
18786900 AAAGTTAAAAAATATA
1 AAA-TTAAAAAATATA
18786916 AAATTAAAAAA
1 AAATTAAAAAA
18786927 ATGAAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.31
16 4 0.15
17 6 0.23
18 8 0.31
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
AAATTAAAAAATATA
Found at i:18786972 original size:21 final size:20
Alignment explanation
Indices: 18786930--18786968 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18786920 TAAAAAAATG
*
18786930 AAAACTTTTTAGAATTTTTA
1 AAAAATTTTTAGAATTTTTA
18786950 AAAAATTTTTAGAATTTTT
1 AAAAATTTTTAGAATTTTT
18786969 TAAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (20 bp):
AAAAATTTTTAGAATTTTTA
Found at i:18787095 original size:19 final size:19
Alignment explanation
Indices: 18787031--18787095 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
18787021 TTAAGAAAAT
*
18787031 TTTTTGAAATTTTAT-TAA
1 TTTTTGAAATTTTTTATAA
* *
18787049 TTTTTTAGA-TTTTTAT-A
1 TTTTTGAAATTTTTTATAA
18787066 TTTTCAT-AAATTTTTTATAA
1 TTTT--TGAAATTTTTTATAA
18787086 TTTTTGAAAT
1 TTTTTGAAAT
18787096 ATTTCAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
17 9 0.24
18 11 0.30
19 12 0.32
20 5 0.14
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTTGAAATTTTTTATAA
Found at i:18787127 original size:9 final size:9
Alignment explanation
Indices: 18787040--18787155 Score: 53
Period size: 9 Copynumber: 12.4 Consensus size: 9
18787030 TTTTTTGAAA
18787040 TTTTATTAAT
1 TTTTA-TAAT
18787050 TTTT-TAGAT
1 TTTTATA-AT
18787059 TTTTAT-AT
1 TTTTATAAT
*
18787067 TTTCATAAATT
1 TTTTAT-AA-T
18787078 TTTTATAAT
1 TTTTATAAT
18787087 TTTTGA-AAT
1 TTTT-ATAAT
* *
18787096 ATTT-CAAT
1 TTTTATAAT
*
18787104 TTTTATTTTAT
1 TTTTA--TAAT
18787115 TTTTATAAT
1 TTTTATAAT
*
18787124 TTTTAGAAT
1 TTTTATAAT
*
18787133 ATTTCA-AATT
1 -TTTTATAA-T
*
18787143 TTTTAAAAT
1 TTTTATAAT
18787152 TTTT
1 TTTT
18787156 TTTTAGAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 27
0.69 0.08 0.22
Matches are distributed among these distances:
8 15 0.18
9 39 0.47
10 16 0.19
11 13 0.16
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:18787135 original size:20 final size:20
Alignment explanation
Indices: 18787057--18787136 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 20
18787047 AATTTTTTAG
18787057 ATTTTTAT-ATTTTCATA-AAT
1 ATTTTTATAATTTT--TAGAAT
18787077 -TTTTTATAATTTTT-GAA-
1 ATTTTTATAATTTTTAGAAT
* * ***
18787094 ATATTT-CAATTTTTATTTT
1 ATTTTTATAATTTTTAGAAT
18787113 ATTTTTATAATTTTTAGAAT
1 ATTTTTATAATTTTTAGAAT
18787133 ATTT
1 ATTT
18787137 CAAATTTTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
17 7 0.16
18 7 0.16
19 12 0.27
20 18 0.41
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTTTATAATTTTTAGAAT
Found at i:18787154 original size:37 final size:37
Alignment explanation
Indices: 18787027--18787155 Score: 106
Period size: 37 Copynumber: 3.5 Consensus size: 37
18787017 AATTTTAAGA
* *
18787027 AAATTTTTTGAAA-TTTTATTAATTTTTTAG-AT-TTTT
1 AAATTTTTTAAAATTTTTA-TAA-TTTTTAGAATATTTC
* * *
18787063 ATATTTTCATAAATTTTTTATAATTTTT-GAAATATTTC
1 AAATTTT-TTAAAATTTTTATAATTTTTAG-AATATTTC
***
18787101 -AATTTTTATTTTATTTTTATAATTTTTAGAATATTTC
1 AAATTTTT-TAAAATTTTTATAATTTTTAGAATATTTC
18787138 AAATTTTTTAAAATTTTT
1 AAATTTTTTAAAATTTTT
18787156 TTTTAGAATT
Statistics
Matches: 71, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
35 1 0.01
36 11 0.15
37 43 0.61
38 16 0.23
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (37 bp):
AAATTTTTTAAAATTTTTATAATTTTTAGAATATTTC
Found at i:18787174 original size:30 final size:32
Alignment explanation
Indices: 18787123--18787192 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
18787113 ATTTTTATAA
*
18787123 TTTTTAGAATATTTCAAATTTTT-TAAAATTTT
1 TTTTTAGAATATTTC-AATTTTTAAAAAATTTT
18787155 TTTTTAGAAT-TGTTC-ATTTTTAAAAAATTTT
1 TTTTTAGAATAT-TTCAATTTTTAAAAAATTTT
18787186 TCTTTTA
1 T-TTTTA
18787193 ATGCTAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
30 6 0.18
31 10 0.29
32 18 0.53
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (32 bp):
TTTTTAGAATATTTCAATTTTTAAAAAATTTT
Found at i:18790629 original size:13 final size:13
Alignment explanation
Indices: 18790611--18790637 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18790601 ATATCACTTT
18790611 TAACATACTTCCA
1 TAACATACTTCCA
18790624 TAACATACTTCCA
1 TAACATACTTCCA
18790637 T
1 T
18790638 CCCTTGTAGG
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:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (13 bp):
TAACATACTTCCA
Found at i:18796193 original size:2 final size:2
Alignment explanation
Indices: 18796180--18796227 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
18796170 ACACTGAACA
* * *
18796180 AT AT AC AT AT AT AT AA AT AT AT AT AC 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
18796222 AT AT AT
1 AT AT AT
18796228 TCAAATTCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:18799221 original size:54 final size:54
Alignment explanation
Indices: 18799161--18799338 Score: 181
Period size: 54 Copynumber: 3.4 Consensus size: 54
18799151 TGACTATTTT
** *
18799161 ATGATGCACAAATGGATGAATGCATGCATTAGATGCTAGATACATAAAAATTCA
1 ATGATGCATGAATGGATAAATGCATGCATTAGATGCTAGATACATAAAAATTCA
* * * * * ** **
18799215 ATGATGCATGAATGCATAAATG-ATTGC-CTAG--G-T-TA-ACGTGACTATTTT
1 ATGATGCATGAATGGATAAATGCA-TGCATTAGATGCTAGATACATAAAAATTCA
*
18799263 ATGATGCATGAATGGATGAATGCATGCATTAGATGCTAGATACATAAAAATTCA
1 ATGATGCATGAATGGATAAATGCATGCATTAGATGCTAGATACATAAAAATTCA
18799317 ATGATGCATGAATGGATAAATG
1 ATGATGCATGAATGGATAAATG
18799339 TATGAATGTG
Statistics
Matches: 93, Mismatches: 23, Indels: 16
0.70 0.17 0.12
Matches are distributed among these distances:
48 30 0.32
49 5 0.05
50 1 0.01
51 2 0.02
52 1 0.01
53 5 0.05
54 49 0.53
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (54 bp):
ATGATGCATGAATGGATAAATGCATGCATTAGATGCTAGATACATAAAAATTCA
Found at i:18799277 original size:102 final size:102
Alignment explanation
Indices: 18799095--18799338 Score: 416
Period size: 102 Copynumber: 2.4 Consensus size: 102
18799085 CAACAACCCA
*
18799095 TAGATACATAAAAATTCAACGATGCATGAATGAATAAATGACTACCTAGGTTAACATGACTATTT
1 TAGATACATAAAAATTCAATGATGCATGAATGAATAAATGACTACCTAGGTTAACATGACTATTT
18799160 TATGATGCACAAATGGATGAATGCATGCATTAGATGC
66 TATGATGCACAAATGGATGAATGCATGCATTAGATGC
* * * *
18799197 TAGATACATAAAAATTCAATGATGCATGAATGCATAAATGATTGCCTAGGTTAACGTGACTATTT
1 TAGATACATAAAAATTCAATGATGCATGAATGAATAAATGACTACCTAGGTTAACATGACTATTT
**
18799262 TATGATGCATGAATGGATGAATGCATGCATTAGATGC
66 TATGATGCACAAATGGATGAATGCATGCATTAGATGC
*
18799299 TAGATACATAAAAATTCAATGATGCATGAATGGATAAATG
1 TAGATACATAAAAATTCAATGATGCATGAATGAATAAATG
18799339 TATGAATGTG
Statistics
Matches: 134, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 134 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (102 bp):
TAGATACATAAAAATTCAATGATGCATGAATGAATAAATGACTACCTAGGTTAACATGACTATTT
TATGATGCACAAATGGATGAATGCATGCATTAGATGC
Found at i:18800472 original size:23 final size:23
Alignment explanation
Indices: 18800443--18800488 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
18800433 AATTCATAAT
*
18800443 AAAATACCCAATCCAATAAAATA
1 AAAATACACAATCCAATAAAATA
*
18800466 AAAATACACAATTCAATAAAATA
1 AAAATACACAATCCAATAAAATA
18800489 CAATAATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAATACACAATCCAATAAAATA
Found at i:18801417 original size:4 final size:4
Alignment explanation
Indices: 18801408--18801433 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
18801398 AACCCAAGCG
18801408 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
18801434 ATTATCTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:18801747 original size:16 final size:16
Alignment explanation
Indices: 18801726--18801756 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18801716 ATATTACATA
*
18801726 AAATATGCAAGTTTAC
1 AAATATGCAACTTTAC
18801742 AAATATGCAACTTTA
1 AAATATGCAACTTTA
18801757 TGAACAAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (16 bp):
AAATATGCAACTTTAC
Found at i:18804161 original size:28 final size:27
Alignment explanation
Indices: 18804119--18804186 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
18804109 TAAATTACAG
* *
18804119 TAAAATATTTGATAT-ATTATTTAAACTT
1 TAAAATTTTTAATATGA-TATTTAAA-TT
18804147 TAAAATTTTTAATATGATATTTAAATT
1 TAAAATTTTTAATATGATATTTAAATT
18804174 TAAAAATTTTTAA
1 T-AAAATTTTTAA
18804187 CGTGACATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 3 0.08
28 32 0.89
29 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (27 bp):
TAAAATTTTTAATATGATATTTAAATT
Found at i:18804206 original size:29 final size:28
Alignment explanation
Indices: 18804137--18804206 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
18804127 TTGATATATT
* *
18804137 ATTTAAACTTT-AAAATTTTTAATATGAT
1 ATTTAAA-TTTAAAAATTTTTAACATGAC
*
18804165 ATTTAAATTTAAAAATTTTTAACGTGAC
1 ATTTAAATTTAAAAATTTTTAACATGAC
*
18804193 ATTTTAATTATAAA
1 ATTTAAATT-TAAA
18804207 TATATTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 3 0.08
28 29 0.81
29 4 0.11
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (28 bp):
ATTTAAATTTAAAAATTTTTAACATGAC
Found at i:18805249 original size:28 final size:29
Alignment explanation
Indices: 18805161--18805251 Score: 107
Period size: 28 Copynumber: 3.1 Consensus size: 29
18805151 TGGAATTCTC
*
18805161 TTAAATTATAATAAAA-TATTTATATAATAT
1 TTAAATT-TAA-AAAATTATTAATATAATAT
18805191 TTAAATTTAAAAAATT-TGTAATATAATAT
1 TTAAATTTAAAAAATTAT-TAATATAATAT
* *
18805220 TTAAA-TTATAAACTTATTAATATAATAT
1 TTAAATTTAAAAAATTATTAATATAATAT
18805248 TTAA
1 TTAA
18805252 CGAAAAATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
28 28 0.51
29 20 0.36
30 7 0.13
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (29 bp):
TTAAATTTAAAAAATTATTAATATAATAT
Found at i:18806340 original size:14 final size:15
Alignment explanation
Indices: 18806314--18806342 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18806304 CCCGATCAAT
18806314 CTCCTCATCTTCCTC
1 CTCCTCATCTTCCTC
18806329 CTCCTC-TCTTCCTC
1 CTCCTCATCTTCCTC
18806343 TCATCATCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.03, C:0.55, G:0.00, T:0.41
Consensus pattern (15 bp):
CTCCTCATCTTCCTC
Found at i:18808987 original size:16 final size:16
Alignment explanation
Indices: 18808956--18809003 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
18808946 TAATTAATCT
*
18808956 TTTTTTATTAACATTTCA
1 TTTTTTATT-A-ATTTAA
18808974 TTTTTTATTAATTTAA
1 TTTTTTATTAATTTAA
*
18808990 TATTTTATTAATTT
1 TTTTTTATTAATTT
18809004 TATAATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 18 0.64
17 1 0.04
18 9 0.32
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTATTAATTTAA
Found at i:18810425 original size:18 final size:19
Alignment explanation
Indices: 18810388--18810427 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
18810378 ATAATTGAAT
*
18810388 TATATATTTTTATTAATTTA
1 TATATATTTATATT-ATTTA
18810408 TATATATTTATATT-TTTA
1 TATATATTTATATTATTTA
18810426 TA
1 TA
18810428 AAAATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
20 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATATATTTATATTATTTA
Found at i:18812995 original size:28 final size:28
Alignment explanation
Indices: 18812966--18813019 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
18812956 AAATTTAAAA
*
18812966 AAAAAATT-TCAAAACT-TTAAAATTTT
1 AAAAAATTCTCAAAAATATTAAAATTTT
18812992 AAAAAATTCTCAAAAATATTAAAATTTT
1 AAAAAATTCTCAAAAATATTAAAATTTT
18813020 TTAATTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 8 0.32
27 7 0.28
28 10 0.40
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAAAATTCTCAAAAATATTAAAATTTT
Found at i:18813052 original size:14 final size:15
Alignment explanation
Indices: 18813019--18813052 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
18813009 ATTAAAATTT
18813019 TTTAATTTATAAAAA
1 TTTAATTTATAAAAA
*
18813034 ATTAATTTA-AAAAA
1 TTTAATTTATAAAAA
18813048 TTTAA
1 TTTAA
18813053 AGTAAACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTAATTTATAAAAA
Found at i:18813217 original size:28 final size:28
Alignment explanation
Indices: 18813153--18813217 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
18813143 TAAAGTTTTT
* * *
18813153 TGAAAAATTATAAAAAAATTATAAAATT
1 TGAAAATTTATAAAAAAATTAAAAAATG
*
18813181 TTAAAATTTATAAAAAAA-TAAAAAATG
1 TGAAAATTTATAAAAAAATTAAAAAATG
18813208 TGAAATATTT
1 TGAAA-ATTT
18813218 TTAGAAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 11 0.35
28 20 0.65
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (28 bp):
TGAAAATTTATAAAAAAATTAAAAAATG
Found at i:18813307 original size:17 final size:15
Alignment explanation
Indices: 18813287--18813325 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
18813277 AAAATAAAAT
18813287 AATTTCTAAAAATATTA
1 AATTTCT-AAAA-ATTA
*
18813304 AATTTATAAAAATTA
1 AATTTCTAAAAATTA
18813319 AATTTCT
1 AATTTCT
18813326 TAAAGTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
16 4 0.20
17 6 0.30
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTTCTAAAAATTA
Found at i:18813595 original size:16 final size:17
Alignment explanation
Indices: 18813564--18813596 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18813554 CATTTTCTAG
*
18813564 AATTTTTAGAATATTTT
1 AATTTTTAGAAAATTTT
18813581 AATTTTTA-AAAATTTT
1 AATTTTTAGAAAATTTT
18813597 TTAAATGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
AATTTTTAGAAAATTTT
Found at i:18813624 original size:9 final size:9
Alignment explanation
Indices: 18813518--18813923 Score: 127
Period size: 10 Copynumber: 41.2 Consensus size: 9
18813508 TTTTTGAAAA
18813518 TTTTAAAGTT
1 TTTTAAA-TT
*
18813528 TCTTTAATTCT
1 T-TTTAAAT-T
*
18813539 TTTTGAATT
1 TTTTAAATT
18813548 TTTTAACATT
1 TTTTAA-ATT
*
18813558 TTCTAGAA-T
1 TTTTA-AATT
*
18813567 TTTTAGAATA
1 TTTTA-AATT
18813577 TTTT-AATT
1 TTTTAAATT
*
18813585 TTTAAAAATT
1 TTT-TAAATT
18813595 TTTTAAATGT
1 TTTTAAAT-T
18813605 TTTTAGAATT
1 TTTTA-AATT
*
18813615 TTTTACATT
1 TTTTAAATT
18813624 TTTTCAAAATT
1 TTTT--AAATT
*
18813635 TTATAAATTT
1 TTTTAAA-TT
* *
18813645 TTTTATATG
1 TTTTAAATT
**
18813654 TTAAAAATT
1 TTTTAAATT
18813663 TTTTAAATT
1 TTTTAAATT
* *
18813672 TTAT-ATTT
1 TTTTAAATT
18813680 TTTTGAAATT
1 TTTT-AAATT
**
18813690 CTTTTAAAAAAG
1 -TTTT--AAATT
*
18813702 TTTTAATTTT
1 TTTTAA-ATT
*
18813712 TTTTGAATT
1 TTTTAAATT
*
18813721 TTCTAAAAATT
1 TT-T-TAAATT
*
18813732 TTTTGAAAGTA
1 TTTT-AAA-TT
*
18813743 CTTTAGAATT
1 TTTTA-AATT
18813753 TTTGT-AATT
1 TTT-TAAATT
*
18813762 TTTAAAAATGT
1 TTT-TAAAT-T
*
18813773 TTTTGAATT
1 TTTTAAATT
18813782 TTTTAAATTT
1 TTTTAAA-TT
*
18813792 ATATTTGAATT
1 -T-TTTAAATT
* *
18813803 TTTAAAACT
1 TTTTAAATT
*
18813812 TTTTGAATT
1 TTTTAAATT
**
18813821 TTCAAAAAAATT
1 TT---TTAAATT
*
18813833 TTTAAAATT
1 TTTTAAATT
18813842 ATTTTAGAATT
1 -TTTTA-AATT
*
18813853 TTTGAAATT
1 TTTTAAATT
18813862 TTTTAGAATT
1 TTTTA-AATT
*
18813872 TTGTAGAATT
1 TTTTA-AATT
*
18813882 TATTAAAATT
1 T-TTTAAATT
* *
18813892 GTATTCAATT
1 -TTTTAAATT
18813902 TTTTAAGATTT
1 TTTTAA-A-TT
18813913 TTTTAAATT
1 TTTTAAATT
18813922 TT
1 TT
18813924 AAAAAATTTA
Statistics
Matches: 290, Mismatches: 68, Indels: 77
0.67 0.16 0.18
Matches are distributed among these distances:
8 12 0.04
9 99 0.34
10 104 0.36
11 61 0.21
12 14 0.05
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (9 bp):
TTTTAAATT
Found at i:18813861 original size:29 final size:29
Alignment explanation
Indices: 18813827--18813891 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
18813817 AATTTTCAAA
*
18813827 AAAATTTTTAAAATTATTTTAGAATTT-TT
1 AAAATTTTTAAAATT-TTGTAGAATTTATT
* *
18813856 GAAATTTTTTAGAATTTTGTAGAATTTATT
1 -AAAATTTTTAAAATTTTGTAGAATTTATT
18813886 AAAATT
1 AAAATT
18813892 GTATTCAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (29 bp):
AAAATTTTTAAAATTTTGTAGAATTTATT
Found at i:18813865 original size:19 final size:20
Alignment explanation
Indices: 18813829--18813873 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
18813819 TTTTCAAAAA
18813829 AATTTTTAAAATTATTTTAG
1 AATTTTTAAAATTATTTTAG
*
18813849 AATTTTTGAAATT-TTTTAG
1 AATTTTTAAAATTATTTTAG
18813868 AATTTT
1 AATTTT
18813874 GTAGAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
AATTTTTAAAATTATTTTAG
Found at i:18813905 original size:100 final size:101
Alignment explanation
Indices: 18813711--18813929 Score: 248
Period size: 100 Copynumber: 2.2 Consensus size: 101
18813701 GTTTTAATTT
* * * *
18813711 TTTTTGAATTTTCTAAAAATTTTTTGAAAGTACTTTAGAATTTTTGTAATTTTTAAAAATGTTTT
1 TTTTTGAATTTTCAAAAAAATTTTTAAAAGTACTTTAGAATTTTTGAAATTTTTAAAAATGTTTT
* * * *
18813776 TGAATTTTTTAAATTTATATTTGAATTTTTAA-AAC
66 AGAATTTATTAAAATTATATTTCAATTTTTAAGAAC
* * * *
18813811 TTTTTGAATTTTCAAAAAAATTTTTAAAATTATTTTAGAATTTTTGAAATTTTTTAGAAT-TTTG
1 TTTTTGAATTTTCAAAAAAATTTTTAAAAGTACTTTAGAATTTTTGAAATTTTTAAAAATGTTT-
* **
18813875 TAGAATTTATTAAAATTGTA-TTCAATTTTTTAAGATT
65 TAGAATTTATTAAAATTATATTTCAA-TTTTTAAGAAC
*
18813912 TTTTTAAATTTT-AAAAAA
1 TTTTTGAATTTTCAAAAAA
18813930 TTTAATTTTT
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
99 7 0.07
100 81 0.81
101 12 0.12
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (101 bp):
TTTTTGAATTTTCAAAAAAATTTTTAAAAGTACTTTAGAATTTTTGAAATTTTTAAAAATGTTTT
AGAATTTATTAAAATTATATTTCAATTTTTAAGAAC
Found at i:18818474 original size:17 final size:17
Alignment explanation
Indices: 18818435--18818476 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
18818425 AAAAATAATT
18818435 TATAT-TATTTAATAAA
1 TATATATATTTAATAAA
* * *
18818451 AAAATATATTTAGTAAA
1 TATATATATTTAATAAA
18818468 TATATATAT
1 TATATATAT
18818477 ATATGTAAGG
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TATATATATTTAATAAA
Found at i:18819352 original size:60 final size:60
Alignment explanation
Indices: 18819277--18819643 Score: 340
Period size: 61 Copynumber: 6.1 Consensus size: 60
18819267 TACTTTTATA
*
18819277 TAAGAAAAATCGATACTTTCAACTTTTCCTTAAAAATATTTTTTTCAAATTTTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTCAAATTTTTTATTTT
** * *
18819337 TAAGAAAAATTGATACTTTCAACTTTTTTTTAAAAATATTTTTTTAAAAATATTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTT-CAAATTTTTTATTTT
* * * * * * *
18819398 CAAGAAAAATCGATAATTTCAACTTTTCCTTAAAAGTGTTTTCTTGAAATCTTTTTATTTT
1 TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTCAAAT-TTTTTATTTT
* * * * *
18819459 TATTTTTAAAGAAAATTAATGCTTTCAACTTTTCCTTAAAAATA-TTTTTTGAAAATTTTTATTT
1 TA-----AGA-AAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTCAAATTTTTTATTT
18819523 T
60 T
* *
18819524 CAA-AAGAAATTGATACTTTCAACTTTT-CTTCAAAAATATTTTTTT--AA-TTTTTATGTT
1 TAAGAA-AAATTGATACTTTCAACTTTTCCTT-AAAAATATTTTTTTCAAATTTTTTATTTT
* * * * *
18819581 CAA-AGGAAATTGATACATTCAA-GTTTCCTTCAAAAATA-TTTTTTCACA-TTTTTATTTT
1 TAAGA-AAAATTGATACTTTCAACTTTTCCTT-AAAAATATTTTTTTCAAATTTTTTATTTT
18819639 TAAGA
1 TAAGA
18819644 GATCATTGAA
Statistics
Matches: 256, Mismatches: 35, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
56 9 0.04
57 39 0.15
58 18 0.07
59 28 0.11
60 53 0.21
61 60 0.23
65 11 0.04
66 11 0.04
67 27 0.11
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (60 bp):
TAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTCAAATTTTTTATTTT
Found at i:18819380 original size:14 final size:14
Alignment explanation
Indices: 18819361--18819392 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
18819351 ACTTTCAACT
18819361 TTTTTTTAAAAATA
1 TTTTTTTAAAAATA
18819375 TTTTTTTAAAAATA
1 TTTTTTTAAAAATA
18819389 TTTT
1 TTTT
18819393 ATTTTCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTTTAAAAATA
Found at i:18819596 original size:57 final size:57
Alignment explanation
Indices: 18819449--18819638 Score: 231
Period size: 57 Copynumber: 3.3 Consensus size: 57
18819439 TCTTGAAATC
* * * *
18819449 TTTTT-ATTTTTATTTTTAAAGAAAATTAATGCTTTCAACTTTTCCTT-AAAAATATT
1 TTTTTAATTTTTATTTTCAAAGGAAATTGATACTTTCAACTTTT-CTTCAAAAATATT
* *
18819505 TTTTGAAAATTTTTATTTTCAAAAGAAATTGATACTTTCAACTTTTCTTCAAAAATATT
1 TTTT--TAATTTTTATTTTCAAAGGAAATTGATACTTTCAACTTTTCTTCAAAAATATT
* * * *
18819564 TTTTTAATTTTTATGTTCAAAGGAAATTGATACATTCAAGTTTCCTTCAAAAATATT
1 TTTTTAATTTTTATTTTCAAAGGAAATTGATACTTTCAACTTTTCTTCAAAAATATT
*
18819621 TTTTCACATTTTTATTTT
1 TTTTTA-ATTTTTATTTT
18819639 TAAGAGATCA
Statistics
Matches: 115, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
56 4 0.03
57 52 0.45
58 13 0.11
59 46 0.40
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (57 bp):
TTTTTAATTTTTATTTTCAAAGGAAATTGATACTTTCAACTTTTCTTCAAAAATATT
Found at i:18820178 original size:21 final size:21
Alignment explanation
Indices: 18820152--18820191 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
18820142 AAAATTTCCA
18820152 GAAAAAAATGCC-AAAAATTAT
1 GAAAAAAAT-CCTAAAAATTAT
18820173 GAAAAAAATCCTAAAAATT
1 GAAAAAAATCCTAAAAATT
18820192 CTATGATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.20
Consensus pattern (21 bp):
GAAAAAAATCCTAAAAATTAT
Found at i:18821066 original size:58 final size:58
Alignment explanation
Indices: 18820998--18821275 Score: 338
Period size: 58 Copynumber: 4.8 Consensus size: 58
18820988 TACTTTTATA
18820998 CAAAAAAATTGATACTTTCAACTTTTCTTTAAAAATATATTTTTTAATTTTTTATTTT
1 CAAAAAAATTGATACTTTCAACTTTTCTTTAAAAATATATTTTTTAATTTTTTATTTT
* **
18821056 CAAAAAAATTGATACTTTTAACTTTTCCTTT--AAA-ATATTTTTTAAAATTTTATTTT
1 CAAAAAAATTGATACTTTCAACTTTT-CTTTAAAAATATATTTTTTAATTTTTTATTTT
* *
18821112 TAAAAAAATTGATACTTTCAACTTTTCTTTAAAAATATTTTTTTTAA--TTTTATTTT
1 CAAAAAAATTGATACTTTCAACTTTTCTTTAAAAATATATTTTTTAATTTTTTATTTT
* * **
18821168 CAAGAAAAAATTGATATTTTTAACTTTT-TCTTAAAAATAT-TTTTAAAATTTTTTTTTATTTT
1 C-A-AAAAAATTGATACTTTCAACTTTTCT-TTAAAAATATATTTTTTAA---TTTTTTATTTT
18821230 CAAGAAAAATTGATACTTTCAACTTTT-TCTTAAAAATATATTTTTT
1 CAA-AAAAATTGATACTTTCAACTTTTCT-TTAAAAATATATTTTTT
18821276 TGAAAATTTT
Statistics
Matches: 191, Mismatches: 15, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
55 4 0.02
56 53 0.28
57 14 0.07
58 67 0.35
59 4 0.02
60 1 0.01
61 34 0.18
62 14 0.07
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.53
Consensus pattern (58 bp):
CAAAAAAATTGATACTTTCAACTTTTCTTTAAAAATATATTTTTTAATTTTTTATTTT
Found at i:18821129 original size:114 final size:114
Alignment explanation
Indices: 18820998--18821275 Score: 402
Period size: 114 Copynumber: 2.4 Consensus size: 114
18820988 TACTTTTATA
18820998 CAAAAAAATTGATACTTTCAACTTTTCTTTAAAAATATATTTTTTAATTTTTTATTTTC-A-AAA
1 CAAAAAAATTGATACTTTCAACTTTTCTTTAAAAATATATTTTTTAA--TTTTATTTTCAAGAAA
*
18821061 AAATTGATACTTTTAACTTTTCCTTTAAAATATTTTTTAAAA-TTTTATTTT
64 AAATTGATACTTTTAACTTTTCCTTAAAAATA-TTTTTAAAATTTTTATTTT
* *
18821112 TAAAAAAATTGATACTTTCAACTTTTCTTTAAAAATATTTTTTTTAATTTTATTTTCAAGAAAAA
1 CAAAAAAATTGATACTTTCAACTTTTCTTTAAAAATATATTTTTTAATTTTATTTTCAAGAAAAA
* *
18821177 ATTGATATTTTTAACTTTTTCTTAAAAATATTTTTAAAATTTTTTTTTATTTT
66 ATTGATACTTTTAACTTTTCCTTAAAAATATTTTTAAAA----TTTTTATTTT
18821230 CAAGAAAAATTGATACTTTCAACTTTT-TCTTAAAAATATATTTTTT
1 CAA-AAAAATTGATACTTTCAACTTTTCT-TTAAAAATATATTTTTT
18821276 TGAAAATTTT
Statistics
Matches: 148, Mismatches: 7, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
112 10 0.07
113 10 0.07
114 77 0.52
118 12 0.08
119 39 0.26
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.53
Consensus pattern (114 bp):
CAAAAAAATTGATACTTTCAACTTTTCTTTAAAAATATATTTTTTAATTTTATTTTCAAGAAAAA
ATTGATACTTTTAACTTTTCCTTAAAAATATTTTTAAAATTTTTATTTT
Found at i:18821380 original size:3 final size:3
Alignment explanation
Indices: 18821372--18821418 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
18821362 AATAAGCAGA
* *
18821372 AAT AAT AAT AAT AGT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18821419 ATGAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18822304 original size:5 final size:5
Alignment explanation
Indices: 18822279--18822318 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
18822269 AAATATACCA
18822279 AAAAT ATAAAT AAAA- AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
18822319 ATATGCCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 4 0.12
5 18 0.56
6 10 0.31
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:18822583 original size:42 final size:42
Alignment explanation
Indices: 18822510--18822823 Score: 409
Period size: 42 Copynumber: 7.5 Consensus size: 42
18822500 TTTTTTTTTT
* * *
18822510 TTTGAAAAAGTAAATTAAGCTCCTCTAAATAGAGGCAACACAAC
1 TTTGAAAAAATAAATT--GCTCCTTTAAATAGAGGCAACAAAAC
* * * * *
18822554 TTTGAAAAAATGAATTGCTCATCTAAATAGAGGTAACAAAAT
1 TTTGAAAAAATAAATTGCTCCTTTAAATAGAGGCAACAAAAC
*
18822596 TTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAAC
1 TTTGAAAAAATAAATTGCTCCTTTAAATAGAGGCAACAAAAC
* * *
18822638 TTTG--AAAATAAATTGCTTCTTTAAATAGAGGCAACATAAT
1 TTTGAAAAAATAAATTGCTCCTTTAAATAGAGGCAACAAAAC
* *
18822678 TTTG-AAAAATAAATTGCTCCTTTAAATAGAGGCAATAGAAC
1 TTTGAAAAAATAAATTGCTCCTTTAAATAGAGGCAACAAAAC
* * * *
18822719 TTTGGAAAAATAAATTACTTCTTTAAATAAAGGCAACAAAAC
1 TTTGAAAAAATAAATTGCTCCTTTAAATAGAGGCAACAAAAC
*
18822761 TTTGAAAAAATAAATTGCTCCTTTAAATAGAGGTAACAAAAC
1 TTTGAAAAAATAAATTGCTCCTTTAAATAGAGGCAACAAAAC
18822803 TTTGAAAAAAATAAATTGCTC
1 TTTG-AAAAAATAAATTGCTC
18822824 TTAGACAATC
Statistics
Matches: 239, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
40 36 0.15
41 36 0.15
42 137 0.57
43 16 0.07
44 14 0.06
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.28
Consensus pattern (42 bp):
TTTGAAAAAATAAATTGCTCCTTTAAATAGAGGCAACAAAAC
Found at i:18822807 original size:165 final size:166
Alignment explanation
Indices: 18822509--18822814 Score: 456
Period size: 165 Copynumber: 1.8 Consensus size: 166
18822499 TTTTTTTTTT
* *
18822509 TTTTGAAAAAGTAAATTAAGCTCCTCTAAATAGAGGCAACACAACTTTGAAAAAATGAATTGCTC
1 TTTTGAAAAAGTAAATT-AGCTCCTCTAAATAGAGGCAACACAACTTTGAAAAAATAAATTACTC
* * *
18822574 ATCTAAATAGAGGTAACAAAATTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAACT
65 ATCTAAATAAAGGCAACAAAACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAACT
18822639 TTGAAAATAAATTGCTTCTTTAAATAGAGGCAACATAA
130 TTGAAAA-AAATTGCTTCTTTAAATAGAGGCAACATAA
* * * *
18822677 TTTTGAAAAA-TAAATT-GCTCCTTTAAATAGAGGCAATAGAACTTTGGAAAAATAAATTACTTC
1 TTTTGAAAAAGTAAATTAGCTCCTCTAAATAGAGGCAACACAACTTTGAAAAAATAAATTAC-TC
* * *
18822740 -TTTAAATAAAGGCAACAAAACTTTGAAAAAATAAATTGCTCCTTTAAATAGAGGTAACAAAACT
65 ATCTAAATAAAGGCAACAAAACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAACT
18822804 TTGAAAAAAAT
130 TTGAAAAAAAT
18822815 AAATTGCTCT
Statistics
Matches: 125, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
164 4 0.03
165 103 0.82
166 2 0.02
167 6 0.05
168 10 0.08
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (166 bp):
TTTTGAAAAAGTAAATTAGCTCCTCTAAATAGAGGCAACACAACTTTGAAAAAATAAATTACTCA
TCTAAATAAAGGCAACAAAACTTTGAAAAAATAAATTGCTCCTCTAAATAGAGGCAACAAAACTT
TGAAAAAAATTGCTTCTTTAAATAGAGGCAACATAA
Found at i:18823209 original size:21 final size:21
Alignment explanation
Indices: 18823185--18823242 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
18823175 ATCTCACATC
* *
18823185 TCAAAGATTCTCGTTTTAAAT
1 TCAAAGATTCTCATTTAAAAT
18823206 TCAAAGATTCTCATTTAAAAT
1 TCAAAGATTCTCATTTAAAAT
* * *
18823227 TTAAAGAATCACATTT
1 TCAAAGATTCTCATTT
18823243 GAGAACTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (21 bp):
TCAAAGATTCTCATTTAAAAT
Found at i:18823769 original size:63 final size:63
Alignment explanation
Indices: 18823673--18823794 Score: 149
Period size: 63 Copynumber: 1.9 Consensus size: 63
18823663 GTTTTATCCA
* * *
18823673 CCATCACTGGGTCACTACTCATAGGTGTCTCAGCATT-AGC-TATTCCAAAACAAATTTTGTTGT
1 CCATCACTAGGTCACCACTCATAAGTGTCTCAGCATTAAGCGT-TT-CAAAACAAATTTTGTTGT
* * * *
18823736 CCATCACTAGGTCACCACTCATAAGTTTTTCAGCCTTAATCGTTTCAAAACAAATTTTG
1 CCATCACTAGGTCACCACTCATAAGTGTCTCAGCATTAAGCGTTTCAAAACAAATTTTG
18823795 CCCATTGATC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
63 45 0.90
64 4 0.08
65 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (63 bp):
CCATCACTAGGTCACCACTCATAAGTGTCTCAGCATTAAGCGTTTCAAAACAAATTTTGTTGT
Found at i:18824412 original size:5 final size:6
Alignment explanation
Indices: 18824398--18824474 Score: 72
Period size: 6 Copynumber: 12.7 Consensus size: 6
18824388 GTCTTTCTTC
*
18824398 TTTTAT TTTTAT TTTTAT TTTT-T TCTTTCAT TTTTCT TTTTATT TTTTCAT
1 TTTTAT TTTTAT TTTTAT TTTTAT T-TTT-AT TTTTAT TTTTA-T TTTT-AT
18824449 TTTT-T TTATT-T TTTTAT TTTT-T TTTT
1 TTTTAT TT-TTAT TTTTAT TTTTAT TTTT
18824475 TTCCCTTCCT
Statistics
Matches: 62, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
5 12 0.19
6 34 0.55
7 13 0.21
8 3 0.05
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:18824413 original size:1 final size:1
Alignment explanation
Indices: 18824398--18824476 Score: 50
Period size: 1 Copynumber: 79.0 Consensus size: 1
18824388 GTCTTTCTTC
* * * * ** * * ** *
18824398 TTTTATTTTTATTTTTATTTTTTTCTTTCATTTTTCTTTTTATTTTTTCATTTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
18824463 TATTTTTTTTTTTT
1 TTTTTTTTTTTTTT
18824477 CCCTTCCTTC
Statistics
Matches: 56, Mismatches: 22, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:18824430 original size:25 final size:24
Alignment explanation
Indices: 18824399--18824471 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
18824389 TCTTTCTTCT
18824399 TTTATTTTTATTTTTATTTTTTTC
1 TTTATTTTTATTTTTATTTTTTTC
*
18824423 TTTCATTTTTCTTTTTA-TTTTTTC
1 TTT-ATTTTTATTTTTATTTTTTTC
18824447 ATTT-TTTTTATTTTTTTATTTTTTT
1 -TTTATTTTTA--TTTTTATTTTTTT
18824472 TTTTTCCCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 5 0.12
24 10 0.24
25 21 0.50
26 6 0.14
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (24 bp):
TTTATTTTTATTTTTATTTTTTTC
Found at i:18824463 original size:31 final size:31
Alignment explanation
Indices: 18824399--18824476 Score: 81
Period size: 33 Copynumber: 2.5 Consensus size: 31
18824389 TCTTTCTTCT
*
18824399 TTTA-TTTTTATTTTTATTTTTTTCT-TTCATT
1 TTTATTTTTTTTTTTTATTTTTTT-TATT-ATT
* *
18824430 TTTCTTTTTATTTTTTCATTTTTTTTATT-TT
1 TTTATTTTT-TTTTTTTATTTTTTTTATTATT
18824461 TTTATTTTTTTTTTTT
1 TTTATTTTTTTTTTTT
18824477 CCCTTCCTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
30 6 0.15
31 13 0.33
32 5 0.13
33 15 0.38
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (31 bp):
TTTATTTTTTTTTTTTATTTTTTTTATTATT
Found at i:18824471 original size:8 final size:8
Alignment explanation
Indices: 18824409--18824476 Score: 68
Period size: 8 Copynumber: 8.4 Consensus size: 8
18824399 TTTATTTTTA
18824409 TTTTTATT
1 TTTTTATT
*
18824417 TTTTTCTT
1 TTTTTATT
*
18824425 TCATTTT-TC
1 T--TTTTATT
18824434 TTTTTATT
1 TTTTTATT
*
18824442 TTTTCATTT
1 TTTTTA-TT
18824451 TTTTTATT
1 TTTTTATT
18824459 TTTTTATT
1 TTTTTATT
18824467 TTTTT-TT
1 TTTTTATT
18824474 TTT
1 TTT
18824477 CCCTTCCTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
7 9 0.18
8 29 0.57
9 9 0.18
10 4 0.08
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTATT
Found at i:18824476 original size:25 final size:26
Alignment explanation
Indices: 18824403--18824477 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 26
18824393 TCTTCTTTTA
18824403 TTTTTATTTTTATTTTTTTCTTTCATT
1 TTTTTATTTTT-TTTTTTTCTTTCATT
* *
18824430 TTTCTT-TTTATTTTTTCATTTTTTTTATT
1 TTT-TTATTT-TTTTTT--TTTCTTTCATT
18824459 TTTTTATTTTTTTTTTTTC
1 TTTTTATTTTTTTTTTTTC
18824478 CCTTCCTTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
26 3 0.08
27 10 0.25
28 12 0.30
29 15 0.38
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (26 bp):
TTTTTATTTTTTTTTTTTCTTTCATT
Found at i:18824477 original size:31 final size:29
Alignment explanation
Indices: 18824399--18824476 Score: 68
Period size: 31 Copynumber: 2.6 Consensus size: 29
18824389 TCTTTCTTCT
*
18824399 TTTATTTTTATTTTTATT-TTTTTCTTTCATT
1 TTTATTTTT-TTTTT-TTATTTTT-TTTTATT
* * *
18824430 TTTCTTTTTATTTTTTCATTTTTTTTATTTT
1 TTTATTTTT-TTTTTTTATTTTTTTT-TATT
18824461 TTTATTTTTTTTTTTT
1 TTTATTTTTTTTTTTT
18824477 CCCTTCCTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
30 10 0.26
31 29 0.74
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (29 bp):
TTTATTTTTTTTTTTTATTTTTTTTTATT
Found at i:18827667 original size:57 final size:57
Alignment explanation
Indices: 18827491--18827928 Score: 470
Period size: 57 Copynumber: 7.6 Consensus size: 57
18827481 TTGTGCAGAA
* * * * **
18827491 AAAATTGATACTTTCAACTTTT-TTCCAAAATAT-TTTTTTAGAAATTTTAATATCGAGG
1 AAAATTGATACTTTCAACTTTTCCT-CAAAA-ATCTTTTTT-GAAAATTTATTTTTAAGG
* * * * **
18827549 AAAATTGATACTTTCAACTTTTCC-CTAAAATCTCTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTGAAAATTTATTTTTAAGG
* *
18827605 TAAATTGATACTTTCAATTTTTCCTCAAAAATCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTGAAAATTTATTTTTAAGG
* * * * * *
18827662 AAAATTGATACTTTCAGCTTTTCC-CAAAAAATATTTTTAGACAGTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATCTTTTTTGAAAATTTATTTTTAAGG
* *
18827719 AAAATTGATACTTTCAATTTTTCCTCAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATC-TTTTTTGAAAATTTATTTTTAAGG
* * * ** * * *
18827777 AAAATTGATACTCTCAACTTTTCCCTAAAAATATTTTTTTTGGAATTTTTAATTTCAAGA
1 AAAATTGATACTTTCAACTTTT-CCTCAAAA-ATCTTTTTT-GAAAATTTATTTTTAAGG
*
18827837 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAATCTTTTTTGAAAATTTATTCTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC---AAAAATCTTTTTTGAAAATTTATTTTTAAGG
18827897 AAAATTGATACTTTCAACTTTTCCTCAAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT
18827929 ATATTTTTTT
Statistics
Matches: 320, Mismatches: 48, Indels: 25
0.81 0.12 0.06
Matches are distributed among these distances:
56 41 0.13
57 115 0.36
58 63 0.20
59 16 0.05
60 73 0.23
61 8 0.03
62 4 0.01
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTGAAAATTTATTTTTAAGG
Found at i:18827960 original size:6 final size:5
Alignment explanation
Indices: 18827952--18828089 Score: 63
Period size: 5 Copynumber: 26.8 Consensus size: 5
18827942 TTATTTAAAG
*
18827952 AAAAT GAAAT -AAAT AAAAAT AAAAT AAAA- ATAAAT AAAAAT GAAAAT
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT A-AAAT -AAAAT -AAAAT
* * * *** *
18827999 AAAAA AAAATT AAAA- AAAAT ATATT AAACA- ACCTT AATAT AATAAT
1 AAAAT AAAA-T AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA-AAT
*
18828045 AATAAT -AAAT -AAAT AAAAT AAAAT AAAAAT AAAAAT AATAT AAAA
1 AA-AAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAA
18828090 AAGAAAAAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 24
0.72 0.12 0.17
Matches are distributed among these distances:
4 16 0.15
5 51 0.49
6 36 0.35
7 1 0.01
ACGTcount: A:0.74, C:0.02, G:0.01, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:18827973 original size:10 final size:10
Alignment explanation
Indices: 18827958--18828077 Score: 77
Period size: 10 Copynumber: 11.7 Consensus size: 10
18827948 AAAGAAAATG
18827958 AAATAAATAA
1 AAATAAATAA
18827968 AAATAAAATAA
1 AAAT-AAATAA
18827979 AAATAAATAA
1 AAATAAATAA
18827989 AAATGAAAATAA
1 AAAT--AAATAA
*
18828001 AAAAAAATTAA
1 AAATAAA-TAA
18828012 AAA-AAAT-A
1 AAATAAATAA
* * *
18828020 TATTAAACAA
1 AAATAAATAA
***
18828030 CCTTAATATAA
1 AAATAA-ATAA
*
18828041 TAAT-AATAA
1 AAATAAATAA
18828050 TAAATAAAT-A
1 -AAATAAATAA
18828060 AAATAAAATAA
1 AAAT-AAATAA
18828071 AAATAAA
1 AAATAAA
18828078 AATAATATAA
Statistics
Matches: 88, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
8 2 0.02
9 12 0.14
10 37 0.42
11 28 0.32
12 9 0.10
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.23
Consensus pattern (10 bp):
AAATAAATAA
Found at i:18827978 original size:11 final size:11
Alignment explanation
Indices: 18827958--18828090 Score: 85
Period size: 11 Copynumber: 11.3 Consensus size: 11
18827948 AAAGAAAATG
18827958 AAAT-AAATAA
1 AAATAAAATAA
18827968 AAATAAAATAA
1 AAATAAAATAA
18827979 AAAT-AAATAA
1 AAATAAAATAA
18827989 AAATGAAAATAA
1 AAAT-AAAATAA
18828001 AAA-AAAATTAA
1 AAATAAAA-TAA
*
18828012 AAAAAATATATTAA
1 AAATAA-A-A-TAA
*
18828026 ACAACCTTAATATAA
1 A-AA---TAAAATAA
*
18828041 TAATAATAATAAA
1 AAATAA-AAT-AA
18828054 TAAATAAAAT-A
1 -AAATAAAATAA
18828065 AAATAAAAATAA
1 AAAT-AAAATAA
*
18828077 AAATAATATAA
1 AAATAAAATAA
18828088 AAA
1 AAA
18828091 AGAAAAAAAA
Statistics
Matches: 101, Mismatches: 6, Indels: 31
0.73 0.04 0.22
Matches are distributed among these distances:
10 22 0.22
11 34 0.34
12 18 0.18
13 6 0.06
14 13 0.13
15 5 0.05
16 1 0.01
18 2 0.02
ACGTcount: A:0.74, C:0.02, G:0.01, T:0.23
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:18828064 original size:27 final size:27
Alignment explanation
Indices: 18828034--18828089 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
18828024 AAACAACCTT
* *
18828034 AATATAATAATAATAATAAATAA-ATAA
1 AATAAAATAAAAATAA-AAATAATATAA
18828061 AATAAAATAAAAATAAAAATAATATAA
1 AATAAAATAAAAATAAAAATAATATAA
18828088 AA
1 AA
18828090 AAGAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (27 bp):
AATAAAATAAAAATAAAAATAATATAA
Found at i:18828096 original size:17 final size:16
Alignment explanation
Indices: 18828042--18828096 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 16
18828032 TTAATATAAT
18828042 AATAATAATAAATAAATAA
1 AATAAT-ATAAA-AAA-AA
*
18828061 AATAAAATAAAAATAAA
1 AATAATATAAAAA-AAA
18828078 AATAATATAAAAAAGAA
1 AATAATATAAAAAA-AA
18828095 AA
1 AA
18828097 AAAAACACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 1 0.03
17 20 0.62
18 6 0.19
19 5 0.16
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AATAATATAAAAAAAA
Found at i:18828602 original size:17 final size:18
Alignment explanation
Indices: 18828577--18828618 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
18828567 TCAGCCGAAT
*
18828577 AAATCAAAAAAATAAT-A
1 AAATAAAAAAAATAATGA
*
18828594 AAATAAAAAAATTAATGA
1 AAATAAAAAAAATAATGA
18828612 AAATAAA
1 AAATAAA
18828619 TCAGATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (18 bp):
AAATAAAAAAAATAATGA
Found at i:18828643 original size:20 final size:21
Alignment explanation
Indices: 18828611--18828670 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 21
18828601 AAAATTAATG
18828611 AAAATAAAT--CAGATAAATC
1 AAAATAAATAACAGATAAATC
* *
18828630 AAAA-AATTAACAGATAAATT
1 AAAATAAATAACAGATAAATC
18828650 AAAATTAAATAACAGATAAAT
1 AAAA-TAAATAACAGATAAAT
18828671 TATAACATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 3 0.09
19 4 0.12
20 13 0.38
22 14 0.41
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAATAAATAACAGATAAATC
Found at i:18828650 original size:12 final size:12
Alignment explanation
Indices: 18828633--18828672 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
18828623 ATAAATCAAA
18828633 AAATTAACAGAT
1 AAATTAACAGAT
18828645 AAATTAA-A-ATT
1 AAATTAACAGA-T
18828656 AAA-TAACAGAT
1 AAATTAACAGAT
18828667 AAATTA
1 AAATTA
18828673 TAACATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (12 bp):
AAATTAACAGAT
Found at i:18828767 original size:6 final size:6
Alignment explanation
Indices: 18828756--18828839 Score: 59
Period size: 6 Copynumber: 14.0 Consensus size: 6
18828746 AATACATAAG
* *
18828756 ATAAAA ATAAAA GA-AAAA A-ATAT ATAAAA ATAAAA ATAAAA AT--AA
1 ATAAAA ATAAAA -ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* * *
18828801 ATAAAA ATGTAAA ATACAAA ATTAAAA AAAAAA AGAAAA
1 ATAAAA AT-AAAA ATA-AAA A-TAAAA ATAAAA ATAAAA
18828840 TAGACTTACT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
4 4 0.06
5 4 0.06
6 39 0.62
7 14 0.22
8 2 0.03
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:18828782 original size:23 final size:22
Alignment explanation
Indices: 18828751--18828808 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 22
18828741 TAATAAATAC
18828751 ATAAGATAAAAATAAAAGAAAAAA
1 ATAA-ATAAAAATAAAA-AAAAAA
* *
18828775 ATATATAAAAATAAAAATAAAA
1 ATAAATAAAAATAAAAAAAAAA
18828797 ATAAATAAAAAT
1 ATAAATAAAAAT
18828809 GTAAAATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 16 0.52
23 12 0.39
24 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (22 bp):
ATAAATAAAAATAAAAAAAAAA
Found at i:18828792 original size:16 final size:16
Alignment explanation
Indices: 18828760--18828808 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
18828750 CATAAGATAA
*
18828760 AAATAAAAGAAAAAAAT
1 AAATAAAA-ATAAAAAT
*
18828777 ATATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
18828793 AAA-AATAAATAAAAAT
1 AAATAA-AAATAAAAAT
18828809 GTAAAATACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 2 0.07
16 19 0.68
17 7 0.25
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:18828814 original size:29 final size:28
Alignment explanation
Indices: 18828756--18828834 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 28
18828746 AATACATAAG
*
18828756 ATAAAAATAAAAGAAAAAAATATATAAAA
1 ATAAAAATAAAA-AAAAAAAAATATAAAA
*
18828785 ATAAAAATAAAAATAAATAAAAATGT-AAA
1 ATAAAAATAAAAA-AAA-AAAAATATAAAA
*
18828814 ATACAAAATTAAAAAAAAAAA
1 ATA-AAAATAAAAAAAAAAAA
18828835 GAAAATAGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 5 0.11
29 24 0.55
30 15 0.34
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.18
Consensus pattern (28 bp):
ATAAAAATAAAAAAAAAAAAATATAAAA
Found at i:18830436 original size:14 final size:15
Alignment explanation
Indices: 18830417--18830452 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
18830407 CAACTTTTCC
18830417 TTAAAAA-TATATTT
1 TTAAAAATTATATTT
*
18830431 TTAAAAATTTTATTT
1 TTAAAAATTATATTT
18830446 TTAAAAA
1 TTAAAAA
18830453 AATTGATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAAAAATTATATTT
Found at i:18830460 original size:58 final size:59
Alignment explanation
Indices: 18830392--18830514 Score: 203
Period size: 58 Copynumber: 2.1 Consensus size: 59
18830382 TTTATACAAG
18830392 AAAAATTGATACTTTCAACTTTTCCTTAAAAATA-TATTTTTAAAAATTTTATTTTTAA
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTATTTTTAAAAATTTTATTTTTAA
* * *
18830450 AAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTGAAAATTTTATTTTTAA
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTATTTTTAAAAATTTTATTTTTAA
*
18830509 GAAAAT
1 AAAAAT
18830515 CATTGAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 33 0.55
59 27 0.45
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (59 bp):
AAAAATTGATACTTTCAACTTTTCCTTAAAAATATTATTTTTAAAAATTTTATTTTTAA
Found at i:18830481 original size:27 final size:27
Alignment explanation
Indices: 18830392--18830482 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
18830382 TTTATACAAG
*
18830392 AAAAATTGATACTTTCAACTTTTCCTT
1 AAAAATTGATACTTTCAACTTTTTCTT
* * * *
18830419 AAAAA-T-ATATTTTTAAAAATTTTATTTTT
1 AAAAATTGATA-CTTT--CAACTTT-TTCTT
18830448 AAAAAAATTGATACTTTCAACTTTTTCTT
1 --AAAAATTGATACTTTCAACTTTTTCTT
18830477 AAAAAT
1 AAAAAT
18830483 ATTTTTTTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 16
0.65 0.12 0.22
Matches are distributed among these distances:
25 3 0.06
26 4 0.09
27 11 0.23
28 5 0.11
29 7 0.15
30 5 0.11
31 5 0.11
32 4 0.09
33 3 0.06
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCTT
Found at i:18830594 original size:3 final size:3
Alignment explanation
Indices: 18830586--18830617 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18830576 AAATAAGCAA
18830586 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18830618 ATGAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18831383 original size:13 final size:12
Alignment explanation
Indices: 18831355--18831398 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
18831345 AATTCAGAAC
18831355 AAAT-AAATCAAA
1 AAATAAAAT-AAA
18831367 AAATAAAATAAA
1 AAATAAAATAAA
18831379 TAAATAAAAT-AA
1 -AAATAAAATAAA
18831391 AAATAAAA
1 AAATAAAA
18831399 ATAAGCCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.27
12 9 0.30
13 13 0.43
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:18831401 original size:21 final size:21
Alignment explanation
Indices: 18831355--18831402 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
18831345 AATTCAGAAC
*
18831355 AAATAAATCAAAAAATAAAAT
1 AAATAAATCAAAAAATAAAAA
18831376 AAATAAAT-AAAATAA-AAATAA
1 AAATAAATCAAAA-AATAAA-AA
18831397 AAATAA
1 AAATAA
18831403 GCCAATTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATAAATCAAAAAATAAAAA
Found at i:18849958 original size:2 final size:2
Alignment explanation
Indices: 18849951--18849988 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
18849941 ATTTTCATAA
*
18849951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18849989 CGATCTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18856475 original size:25 final size:25
Alignment explanation
Indices: 18856447--18856508 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
18856437 TTCTCACCTA
18856447 GAAATTTTATAAAAATTTATCATTT
1 GAAATTTTATAAAAATTTATCATTT
*
18856472 GAAATTTCTA-AAAATTTTATCATTT
1 GAAATTT-TATAAAAATTTATCATTT
18856497 GATAATTATTAT
1 GA-AATT-TTAT
18856509 TTATTCTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 23 0.72
26 8 0.25
27 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (25 bp):
GAAATTTTATAAAAATTTATCATTT
Found at i:18857378 original size:6 final size:7
Alignment explanation
Indices: 18857356--18857391 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
18857346 AGATAAAACC
18857356 AAATCAA
1 AAATCAA
18857363 AAATCAA
1 AAATCAA
18857370 AAATCAA
1 AAATCAA
18857377 AAAT-AA
1 AAATCAA
*
18857383 AAAACAA
1 AAATCAA
18857390 AA
1 AA
18857392 CAAATAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (7 bp):
AAATCAA
Found at i:18858756 original size:13 final size:13
Alignment explanation
Indices: 18858734--18858772 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
18858724 ATTTTTTAAA
*
18858734 ATTTTTATATATT
1 ATTTTAATATATT
**
18858747 ATTTTAATATAAA
1 ATTTTAATATATT
18858760 ATTTTAATATATT
1 ATTTTAATATATT
18858773 TAAGTAGATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:18858834 original size:19 final size:19
Alignment explanation
Indices: 18858810--18858852 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
18858800 TTTTTTATTT
*
18858810 TATAAAAATTTAA-AAAATA
1 TATAAAAA-CTAAGAAAATA
18858829 TATAAAAACTAAGAAAATA
1 TATAAAAACTAAGAAAATA
18858848 TATAA
1 TATAA
18858853 TTTGATTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
TATAAAAACTAAGAAAATA
Found at i:18860359 original size:23 final size:23
Alignment explanation
Indices: 18860333--18860399 Score: 59
Period size: 24 Copynumber: 3.0 Consensus size: 23
18860323 TTTAATATAT
18860333 TATTTAAATTATGAAAAATTAAC
1 TATTTAAATTATGAAAAATTAAC
* **
18860356 TATTATAATATT-TGAAAAGTTATT
1 TATT-TAA-ATTATGAAAAATTAAC
*
18860380 TATTT--ATTATTAAAAATTAA
1 TATTTAAATTATGAAAAATTAA
18860400 TCACGTTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
20 3 0.09
21 8 0.23
23 5 0.14
24 16 0.46
25 3 0.09
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (23 bp):
TATTTAAATTATGAAAAATTAAC
Found at i:18860460 original size:12 final size:11
Alignment explanation
Indices: 18860441--18860492 Score: 51
Period size: 12 Copynumber: 5.0 Consensus size: 11
18860431 TAGATTCATA
18860441 ATTTAAATATT
1 ATTTAAATATT
18860452 ATATTAAATATT
1 AT-TTAAATATT
18860464 -TTT-AA-A--
1 ATTTAAATATT
18860470 ATTTAAATATT
1 ATTTAAATATT
18860481 ATATTAAATATT
1 AT-TTAAATATT
18860493 TCACTATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
7 3 0.09
8 3 0.09
9 3 0.09
10 2 0.06
11 5 0.15
12 18 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTAAATATT
Found at i:18865376 original size:145 final size:145
Alignment explanation
Indices: 18865163--18865428 Score: 365
Period size: 145 Copynumber: 1.8 Consensus size: 145
18865153 GGGAAGTACA
* * * *
18865163 AAATTACCAAAATACCCTTGTAAGGGATATTTTCGTAATTTGACCTTCCTGAGATCAAATTTTCA
1 AAATTACCAAAATAACCATATAAGGGATATTTTCGTAATTTGACCTTCCTAAGATCAAATTTTCA
* * *
18865228 TGAAACTTTTTAGATCTTAATTTCATAATATTTCATAATTTTTGGTGCATTTGAAATTACAGCAG
66 TGAAACTTTTCAGATCTCAATTTCATAATATTTCATAATTTTTGGTG-ATTTAAAATTACAGCAG
18865293 TACCTCAAAAAATGTG
130 TACCTCAAAAAATGTG
* * *** *
18865309 AAATTACCAAAATAATCATATAAGGG-TATTTTCGTAATTTGACCTTTCC-AAGCTTGGATTTTT
1 AAATTACCAAAATAACCATATAAGGGATATTTTCGTAATTTGACC-TTCCTAAGATCAAATTTTC
* *
18865372 ATGAAACTTTTCAGATCTCAATTTTATAATATTTCATGATTTTTGGTGATTTAAAAT
65 ATGAAACTTTTCAGATCTCAATTTCATAATATTTCATAATTTTTGGTGATTTAAAAT
18865429 CCCAAAAATG
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
144 8 0.08
145 70 0.67
146 26 0.25
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (145 bp):
AAATTACCAAAATAACCATATAAGGGATATTTTCGTAATTTGACCTTCCTAAGATCAAATTTTCA
TGAAACTTTTCAGATCTCAATTTCATAATATTTCATAATTTTTGGTGATTTAAAATTACAGCAGT
ACCTCAAAAAATGTG
Found at i:18865935 original size:26 final size:27
Alignment explanation
Indices: 18865905--18865957 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
18865895 ATAGCTGGGG
*
18865905 GGAAGGATTGCC-AAAAAGAAAAAGGA
1 GGAAGGATTACCAAAAAAGAAAAAGGA
*
18865931 GGAAGGATTACCAAAAAAGAAGAAGGA
1 GGAAGGATTACCAAAAAAGAAAAAGGA
18865958 AAGATGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.55, C:0.08, G:0.30, T:0.08
Consensus pattern (27 bp):
GGAAGGATTACCAAAAAAGAAAAAGGA
Found at i:18865968 original size:20 final size:20
Alignment explanation
Indices: 18865943--18865982 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18865933 AAGGATTACC
*
18865943 AAAAAAGAAGAAGGAAAGATGT
1 AAAAAA-AA-AAGAAAAGATGT
18865965 AAAAAAAAAAGAAAAGAT
1 AAAAAAAAAAGAAAAGAT
18865983 CTACTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.07
Consensus pattern (20 bp):
AAAAAAAAAAGAAAAGATGT
Found at i:18866037 original size:13 final size:13
Alignment explanation
Indices: 18866019--18866044 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18866009 GTGGTAATCT
18866019 TTTCTTCTTTGTA
1 TTTCTTCTTTGTA
18866032 TTTCTTCTTTGTA
1 TTTCTTCTTTGTA
18866045 AATGATACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (13 bp):
TTTCTTCTTTGTA
Found at i:18866495 original size:21 final size:21
Alignment explanation
Indices: 18866471--18866513 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18866461 CTATGTGCTA
*
18866471 GTTATTTTAATTTGGTTTCAT
1 GTTATTTTAATATGGTTTCAT
*
18866492 GTTATTTTACTATGGTTTCAT
1 GTTATTTTAATATGGTTTCAT
18866513 G
1 G
18866514 ATAGTTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.07, G:0.16, T:0.58
Consensus pattern (21 bp):
GTTATTTTAATATGGTTTCAT
Found at i:18869576 original size:68 final size:68
Alignment explanation
Indices: 18869488--18869637 Score: 259
Period size: 68 Copynumber: 2.2 Consensus size: 68
18869478 GTTCAACTAT
*
18869488 AATTT-CATAAGAT-AGGATTTGATATTATTTTCAAGATTATCACAGTGATCTAATTACAGTGAT
1 AATTTACA-AAGATGAGGATTTGATATTATTTTCAAGATTATCACAGTGATCTAATTACAATGAT
18869551 GATA
65 GATA
*
18869555 AATTTACAAAGATGAGGATTTGGTATTATTTTCAAGATTATCACAGTGATCTAATTACAATGATG
1 AATTTACAAAGATGAGGATTTGATATTATTTTCAAGATTATCACAGTGATCTAATTACAATGATG
18869620 ATA
66 ATA
18869623 AATTTACAAAGATGA
1 AATTTACAAAGATGA
18869638 TTTGATTACC
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
67 10 0.13
68 69 0.87
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (68 bp):
AATTTACAAAGATGAGGATTTGATATTATTTTCAAGATTATCACAGTGATCTAATTACAATGATG
ATA
Done.