Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 68 of 182
Found at i:20769259 original size:21 final size:21
Alignment explanation
Indices: 20769233--20769279 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
20769223 GGTATAGCAA
20769233 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
20769254 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
20769275 GATCA
1 GATCA
20769280 ATATTTGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:20769385 original size:17 final size:18
Alignment explanation
Indices: 20769365--20769405 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
20769355 CTATTTTTAC
20769365 TTTTTCATTTTTT-TTCA
1 TTTTTCATTTTTTATTCA
20769382 TTTTTCATTTTTTCATTCA
1 TTTTTCATTTTTT-ATTCA
20769401 TTTTT
1 TTTTT
20769406 TAAGTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 13 0.59
19 9 0.41
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTCATTTTTTATTCA
Found at i:20769404 original size:25 final size:24
Alignment explanation
Indices: 20769357--20769404 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
20769347 TAGCCTCTCT
**
20769357 ATTTTTACTTTTTCATTTTTTTTC
1 ATTTTTACTTTTTCATTCATTTTC
*
20769381 ATTTTTCATTTTTTCATTCATTTT
1 ATTTTT-ACTTTTTCATTCATTTT
20769405 TTAAGTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (24 bp):
ATTTTTACTTTTTCATTCATTTTC
Found at i:20770255 original size:6 final size:6
Alignment explanation
Indices: 20770244--20770291 Score: 73
Period size: 6 Copynumber: 8.3 Consensus size: 6
20770234 TTGACCTCTC
*
20770244 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT -TCTTT -TTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
20770290 CT
1 CT
20770292 CCTATTTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 8 0.21
6 31 0.79
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:20770335 original size:19 final size:19
Alignment explanation
Indices: 20770310--20770380 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
20770300 TGACTTTGAT
*
20770310 TTTTTTTATTTTTATTTTTG
1 TTTTTTT-TTTTGATTTTTG
20770330 TTTTTTTTTTTGATTTTT-
1 TTTTTTTTTTTGATTTTTG
**
20770348 TTGATTTTTTTGATTTTTTG
1 TTTTTTTTTTTGA-TTTTTG
**
20770368 AATTTTTTTTTGA
1 TTTTTTTTTTTGA
20770381 GTCTGAACTC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
18 11 0.26
19 15 0.36
20 16 0.38
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.80
Consensus pattern (19 bp):
TTTTTTTTTTTGATTTTTG
Found at i:20770340 original size:28 final size:28
Alignment explanation
Indices: 20770245--20770340 Score: 66
Period size: 28 Copynumber: 3.2 Consensus size: 28
20770235 TGACCTCTCC
* * * *
20770245 TTTTTCTTTTTCTTTTTCTTTTTCTTTT
1 TTTTTTTTTTTATTTTTATTTTTGTTTT
* **
20770273 TTCTTTTTTTTCTTTTTCTCCTATTTTTGACTT
1 TT-TTTTTTTT-TATTT-T--TATTTTTGTTTT
**
20770306 TGATTTTTTTTATTTTTATTTTTGTTTT
1 TTTTTTTTTTTATTTTTATTTTTGTTTT
20770334 TTTTTTT
1 TTTTTTT
20770341 GATTTTTTTG
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
28 17 0.34
29 7 0.14
30 5 0.10
31 5 0.10
32 7 0.14
33 9 0.18
ACGTcount: A:0.05, C:0.10, G:0.03, T:0.81
Consensus pattern (28 bp):
TTTTTTTTTTTATTTTTATTTTTGTTTT
Found at i:20770368 original size:8 final size:9
Alignment explanation
Indices: 20770304--20770376 Score: 75
Period size: 9 Copynumber: 8.3 Consensus size: 9
20770294 TATTTTTGAC
20770304 TTTGATTTT
1 TTTGATTTT
*
20770313 TTTTATTTT
1 TTTGATTTT
20770322 TATT--TTTGT
1 T-TTGATTT-T
20770331 TTT--TTTT
1 TTTGATTTT
20770338 TTTGATTTT
1 TTTGATTTT
20770347 TTTGATTTT
1 TTTGATTTT
20770356 TTTGA-TTT
1 TTTGATTTT
20770364 TTTGAATTTT
1 TTTG-ATTTT
20770374 TTT
1 TTT
20770377 TTGAGTCTGA
Statistics
Matches: 57, Mismatches: 1, Indels: 11
0.83 0.01 0.16
Matches are distributed among these distances:
7 4 0.07
8 15 0.26
9 30 0.53
10 8 0.14
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (9 bp):
TTTGATTTT
Found at i:20771102 original size:17 final size:18
Alignment explanation
Indices: 20771070--20771106 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
20771060 TATGTACAAT
20771070 ATGATTATGAATGAAAGA
1 ATGATTATGAATGAAAGA
*
20771088 ATGATT-TGGATGAAAGA
1 ATGATTATGAATGAAAGA
20771105 AT
1 AT
20771107 AAAAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (18 bp):
ATGATTATGAATGAAAGA
Found at i:20772376 original size:19 final size:20
Alignment explanation
Indices: 20772347--20772398 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
20772337 CACTTCGTGA
* *
20772347 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
20772366 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
20772386 AAATG-AATGCAAA
1 AAATGTAATGCAAA
20772399 AGGAGACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:20772731 original size:3 final size:3
Alignment explanation
Indices: 20772723--20772757 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
20772713 TAAATGAACA
* *
20772723 AAT AAT AAT AAT AAT AAT AAT GAT AGT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20772758 ATTTGTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:20774064 original size:12 final size:12
Alignment explanation
Indices: 20774042--20774072 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
20774032 GTACAACATA
20774042 TTTACAATACTTT
1 TTTA-AATACTTT
20774055 TTTAAATACTTT
1 TTTAAATACTTT
20774067 TTTAAA
1 TTTAAA
20774073 GTTTAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTAAATACTTT
Found at i:20775973 original size:17 final size:17
Alignment explanation
Indices: 20775951--20775984 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20775941 TTCAAAATTA
20775951 ACATATAACTAAATACT
1 ACATATAACTAAATACT
*
20775968 ACATATAACTAAGTACT
1 ACATATAACTAAATACT
20775985 TAACTACATG
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:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (17 bp):
ACATATAACTAAATACT
Found at i:20777460 original size:45 final size:44
Alignment explanation
Indices: 20777309--20777481 Score: 157
Period size: 45 Copynumber: 4.0 Consensus size: 44
20777299 ATATCGAACA
* * *
20777309 ATGCCAACGTCCCAGACGTGGTCTTACATGCT-ATCTC-ATATCG
1 ATGCCATCGTCCCAGACGTGGTCTTACACG-TAATCACAATATCG
* *
20777352 ATGCCA-CTGCCCCGGACAGT-GTCTTACACG-AATCA-AATA-CG
1 ATGCCATC-GTCCCAGAC-GTGGTCTTACACGTAATCACAATATCG
* *
20777393 ATGCCAAT-GTCCTAGACATGGTCTTACACGTAATCACATATATCG
1 ATGCC-ATCGTCCCAGACGTGGTCTTACACGTAATCACA-ATATCG
* *
20777438 ATGCCATCGTCCCAGACGTGGTCTTACACGAAAACAC-ATATCG
1 ATGCCATCGTCCCAGACGTGGTCTTACACGTAATCACAATATCG
20777481 A
1 A
20777482 AAATCGTATG
Statistics
Matches: 106, Mismatches: 12, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
40 1 0.01
41 23 0.22
42 13 0.12
43 30 0.28
44 7 0.07
45 32 0.30
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (44 bp):
ATGCCATCGTCCCAGACGTGGTCTTACACGTAATCACAATATCG
Found at i:20780054 original size:20 final size:20
Alignment explanation
Indices: 20780031--20780068 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20780021 CTATGTACAT
20780031 ATATATATAAAAAT-TATAGG
1 ATATA-ATAAAAATATATAGG
20780051 ATATAATAAAAATATATA
1 ATATAATAAAAATATATA
20780069 AGTATGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
ATATAATAAAAATATATAGG
Found at i:20797094 original size:39 final size:39
Alignment explanation
Indices: 20797051--20797226 Score: 246
Period size: 39 Copynumber: 4.5 Consensus size: 39
20797041 AACATGTTTT
*
20797051 TGAGTATTGCGACATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
* *
20797090 TGAGTATTACGATATATGCTTGAATGTTATGTGATCATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
* * *
20797129 TGAGTATTGCGATATGTGCTTGAACGTTATGTAATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
*
20797168 TGAGTATTGTGATATATGCTT-AAGTGTTATGTGATTATA
1 TGAGTATTGCGATATATGCTTGAA-TGTTATGTGATTATA
* * *
20797207 TGTGTAATGAGATATATGCT
1 TGAGTATTGCGATATATGCT
20797227 CAAAAGTGGA
Statistics
Matches: 121, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 2 0.02
39 119 0.98
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (39 bp):
TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
Found at i:20805545 original size:16 final size:15
Alignment explanation
Indices: 20805519--20805558 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
20805509 GTATTATATT
20805519 TTTTAAAAAAATTAA
1 TTTTAAAAAAATTAA
20805534 TTTTAAATAAAATTAA
1 TTTTAAA-AAAATTAA
20805550 -TTTAAAAAA
1 TTTTAAAAAA
20805559 TCAAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.12
15 13 0.54
16 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTTAAAAAAATTAA
Found at i:20806048 original size:10 final size:10
Alignment explanation
Indices: 20806033--20806057 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20806023 TAGTGCAATT
20806033 AACAAAAATA
1 AACAAAAATA
20806043 AACAAAAATA
1 AACAAAAATA
20806053 AACAA
1 AACAA
20806058 TCTCTATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (10 bp):
AACAAAAATA
Found at i:20806409 original size:24 final size:24
Alignment explanation
Indices: 20806377--20806431 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
20806367 AATTGTTTTG
20806377 ATTAACCGATTGCTAACATGATAC
1 ATTAACCGATTGCTAACATGATAC
*
20806401 ATTAACCGATTGTTAACATGATAC
1 ATTAACCGATTGCTAACATGATAC
20806425 ATTAACC
1 ATTAACC
20806432 AATTAGTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (24 bp):
ATTAACCGATTGCTAACATGATAC
Found at i:20806469 original size:13 final size:13
Alignment explanation
Indices: 20806451--20806481 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
20806441 AAACTATTTT
20806451 TTAACATGATACA
1 TTAACATGATACA
20806464 TTAACATGATACA
1 TTAACATGATACA
20806477 TTAAC
1 TTAAC
20806482 CGATTGAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (13 bp):
TTAACATGATACA
Found at i:20811651 original size:6 final size:6
Alignment explanation
Indices: 20811640--20811666 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20811630 ATTAAAATTT
20811640 TCAAAA TCAAAA TCAAAA TCAAAA TCA
1 TCAAAA TCAAAA TCAAAA TCAAAA TCA
20811667 TAATAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (6 bp):
TCAAAA
Found at i:20816993 original size:62 final size:63
Alignment explanation
Indices: 20816886--20817006 Score: 176
Period size: 62 Copynumber: 1.9 Consensus size: 63
20816876 TGACAGGCTA
* **
20816886 TGTAACTCACTGTTTGTGAATTAGGTTTACACGGGCCAAGGACATGGGCGTGTGTCCAGGCCG
1 TGTAACTCACTGTTCGTGAATTAGGTTTACACAAGCCAAGGACATGGGCGTGTGTCCAGGCCG
20816949 TGTAACTCACTGTTCG-GAATTAGAG-TTACACAAGCC-AGAGACATGGGCGTGTGTCCAG
1 TGTAACTCACTGTTCGTGAATTAG-GTTTACACAAGCCAAG-GACATGGGCGTGTGTCCAG
20817007 TCCATGTGGG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 2 0.04
62 35 0.66
63 16 0.30
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.26
Consensus pattern (63 bp):
TGTAACTCACTGTTCGTGAATTAGGTTTACACAAGCCAAGGACATGGGCGTGTGTCCAGGCCG
Found at i:20823202 original size:90 final size:90
Alignment explanation
Indices: 20823049--20823218 Score: 313
Period size: 90 Copynumber: 1.9 Consensus size: 90
20823039 AGATGATATC
*
20823049 ATCTCTCCATCCACCAATTTCACTTTTATACTAAGATTAGTTTGTTAATTAACCTTAATTTACTT
1 ATCTCTCCATCCACAAATTTCACTTTTATACTAAGATTAGTTTGTTAATTAACCTTAATTTACTT
20823114 ATTTAACTATGTTTTGGTAACTTGG
66 ATTTAACTATGTTTTGGTAACTTGG
* *
20823139 ATCTCTCTATCCACAAATTTCACTTTTATACTAAGATTAGTTTGTTAATTAACTTTAATTTACTT
1 ATCTCTCCATCCACAAATTTCACTTTTATACTAAGATTAGTTTGTTAATTAACCTTAATTTACTT
20823204 ATTTAACTATGTTTT
66 ATTTAACTATGTTTT
20823219 AATCAAATTA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.48
Consensus pattern (90 bp):
ATCTCTCCATCCACAAATTTCACTTTTATACTAAGATTAGTTTGTTAATTAACCTTAATTTACTT
ATTTAACTATGTTTTGGTAACTTGG
Found at i:20835546 original size:13 final size:13
Alignment explanation
Indices: 20835530--20835571 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
20835520 TTTTTAAATA
20835530 ATTTAGTGATAAT
1 ATTTAGTGATAAT
20835543 ATTTAG-GAT--T
1 ATTTAGTGATAAT
*
20835553 ATTTTGTGATAAT
1 ATTTAGTGATAAT
20835566 ATTTAG
1 ATTTAG
20835572 GAAAAATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
12 3 0.12
13 12 0.50
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (13 bp):
ATTTAGTGATAAT
Found at i:20835556 original size:23 final size:23
Alignment explanation
Indices: 20835530--20835573 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
20835520 TTTTTAAATA
20835530 ATTTAGTGATAATATTTAGGATT
1 ATTTAGTGATAATATTTAGGATT
*
20835553 ATTTTGTGATAATATTTAGGA
1 ATTTAGTGATAATATTTAGGA
20835574 AAAATCTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (23 bp):
ATTTAGTGATAATATTTAGGATT
Found at i:20843225 original size:33 final size:33
Alignment explanation
Indices: 20843156--20843391 Score: 124
Period size: 33 Copynumber: 6.7 Consensus size: 33
20843146 ATGTGAACGG
*
20843156 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
20843183 GGTTGCTAAGTGTTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
20843216 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGAATC----AT-TG---GT
** *
20843258 GGTTGCTAAGTGCTGATTCCTTGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * * * *
20843291 GGTTGCTAAGTGTTGATTCTACCGTATTTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTC-CCCG-A---AT-CAT-TG---GT
20843334 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
20843367 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
20843392 TAACGGATAA
Statistics
Matches: 159, Mismatches: 24, Indels: 45
0.70 0.11 0.20
Matches are distributed among these distances:
27 21 0.13
31 2 0.01
32 2 0.01
33 57 0.36
34 11 0.07
35 1 0.01
36 4 0.03
37 4 0.03
38 5 0.03
39 4 0.03
40 2 0.01
41 4 0.03
42 23 0.14
43 19 0.12
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:20843352 original size:76 final size:75
Alignment explanation
Indices: 20843179--20843390 Score: 318
Period size: 76 Copynumber: 2.8 Consensus size: 75
20843169 TGATTCCCCC
*
20843179 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
20843244 TTAAATGTGA
66 TTAAATGTGA
** * * * *
20843254 AAGGGGTTGCTAAGTGCTGATTCCTTGATTCATTGGTGGTTGCTAAGTGTTGATTCTACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTA-T
* *
20843319 TTTGAATGTGA
65 CTTAAATGTGA
20843330 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAAT-CCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTG-ATCCCACCG
20843391 ATAACGGATA
Statistics
Matches: 121, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
75 56 0.46
76 63 0.52
77 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
TTAAATGTGA
Found at i:20845345 original size:14 final size:14
Alignment explanation
Indices: 20845326--20845353 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20845316 GACTCGGACT
20845326 TTGGCGGATACACG
1 TTGGCGGATACACG
20845340 TTGGCGGATACACG
1 TTGGCGGATACACG
20845354 GATCCAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (14 bp):
TTGGCGGATACACG
Found at i:20845511 original size:41 final size:38
Alignment explanation
Indices: 20845416--20845514 Score: 92
Period size: 41 Copynumber: 2.6 Consensus size: 38
20845406 AGCAATAAAG
*
20845416 TGACACCCAGTGTCTCATCG-GCCAAGCCGAAGTAAGT
1 TGACACCCAGTGTCTCATCGAACCAAGCCGAAGTAAGT
** ** * * *
20845453 TGGTACCCAGTACCTCATCGAATCTATCCGAAGTAACAGT
1 TGACACCCAGTGTCTCATCGAACCAAGCCGAAGT-A-AGT
20845493 ATGACACCCAGTGTCTCATCGA
1 -TGACACCCAGTGTCTCATCGA
20845515 CTCAAGGTTG
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
37 16 0.35
38 9 0.20
39 1 0.02
40 3 0.07
41 17 0.37
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (38 bp):
TGACACCCAGTGTCTCATCGAACCAAGCCGAAGTAAGT
Found at i:20845831 original size:19 final size:19
Alignment explanation
Indices: 20845763--20845837 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
20845753 AATCAATACA
20845763 CAATTCACATATTCACATAT
1 CAATTCACA-ATTCACATAT
* *
20845783 C--TTCA-AATCTCATATCT
1 CAATTCACAAT-TCACATAT
*
20845800 CGATTTC-CAATTCACATAT
1 C-AATTCACAATTCACATAT
20845819 CAATTCACAATTCACATAT
1 CAATTCACAATTCACATAT
20845838 TCACACATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.05
17 8 0.18
18 8 0.18
19 19 0.43
20 7 0.16
ACGTcount: A:0.36, C:0.27, G:0.01, T:0.36
Consensus pattern (19 bp):
CAATTCACAATTCACATAT
Found at i:20846742 original size:5 final size:5
Alignment explanation
Indices: 20846732--20846767 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
20846722 TGTTATACAT
20846732 ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
20846768 AAACATAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:20855772 original size:105 final size:105
Alignment explanation
Indices: 20855484--20855753 Score: 488
Period size: 105 Copynumber: 2.6 Consensus size: 105
20855474 AATGTTTAAA
* * * *
20855484 TGTAAGACCATAGCTGGGGTATGGCATTTTAATGA-AATGACCATAACTGGGTTATGACACCTTG
1 TGTAAGATCATAGCTGGGCTATGGCATTCTGATGATAA-GACCATAACTGGGTTATGACACCTTG
20855548 AACGTAAAACCATGGTTGGACCATGGCAGTATAGATACATG
65 AACGTAAAACCATGGTTGGACCATGGCAGTATAGATACATG
20855589 TGTAAGATCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGACACCTTGA
1 TGTAAGATCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGACACCTTGA
20855654 ACGTAAAACCATGGTTGGACCATGGCAGTATAGATACATG
66 ACGTAAAACCATGGTTGGACCATGGCAGTATAGATACATG
20855694 TGTAAGATCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGACAC
1 TGTAAGATCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGACAC
20855754 TACAAATGTA
Statistics
Matches: 160, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
105 158 0.99
106 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (105 bp):
TGTAAGATCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGACACCTTGA
ACGTAAAACCATGGTTGGACCATGGCAGTATAGATACATG
Found at i:20861699 original size:21 final size:21
Alignment explanation
Indices: 20861652--20861734 Score: 109
Period size: 21 Copynumber: 4.1 Consensus size: 21
20861642 ATTTTCGAGG
*
20861652 ATATACAATCTTAGATATAAT
1 ATATACAATCTTAGATATGAT
*
20861673 -TATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
20861693 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
20861714 ATATACAATATTAG-TA-GAT
1 ATATACAATCTTAGATATGAT
20861733 AT
1 AT
20861735 GATTTTATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
19 5 0.09
20 20 0.35
21 32 0.56
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:20862216 original size:15 final size:14
Alignment explanation
Indices: 20862192--20862222 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
20862182 TTAATTTTGT
20862192 TATTATTATTATTA
1 TATTATTATTATTA
20862206 TATTATATATTATTA
1 TATTAT-TATTATTA
20862221 TA
1 TA
20862223 CCTACATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:20862310 original size:29 final size:31
Alignment explanation
Indices: 20862249--20862311 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
20862239 CATATGCATG
* *
20862249 TTAATATATATACATATATATTTTAAATGTT
1 TTAATATATATACATATATATTATAAATATT
*
20862280 TTAATATATATACATAT-TA-TATACATATT
1 TTAATATATATACATATATATTATAAATATT
20862309 TTA
1 TTA
20862312 TTATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.34
30 2 0.07
31 17 0.59
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (31 bp):
TTAATATATATACATATATATTATAAATATT
Found at i:20866498 original size:21 final size:22
Alignment explanation
Indices: 20866467--20866514 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
20866457 TCAAATTTTT
*
20866467 CAAAA-AAAAAGAGAAAGAAAG
1 CAAAAGAAAAAGAGAAAAAAAG
*
20866488 -AAAAGAAAAAGGGAAAAAAAG
1 CAAAAGAAAAAGAGAAAAAAAG
20866509 CAAAAG
1 CAAAAG
20866515 GAGAGGCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.75, C:0.04, G:0.21, T:0.00
Consensus pattern (22 bp):
CAAAAGAAAAAGAGAAAAAAAG
Found at i:20866503 original size:17 final size:16
Alignment explanation
Indices: 20866470--20866515 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
20866460 AATTTTTCAA
*
20866470 AAAAAAAGAGAAA--G
1 AAAAAAAGAAAAAGGG
20866484 AAAGAAAAGAAAAAGGG
1 AAA-AAAAGAAAAAGGG
*
20866501 AAAAAAAGCAAAAGG
1 AAAAAAAGAAAAAGG
20866516 AGAGGCCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 3 0.11
15 9 0.33
16 11 0.41
17 4 0.15
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAGGG
Found at i:20867833 original size:44 final size:44
Alignment explanation
Indices: 20867785--20867969 Score: 115
Period size: 44 Copynumber: 4.2 Consensus size: 44
20867775 AAGATTGTAG
20867785 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
* * * ** * **
20867829 ATCTTATTTTTCCAAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATCTCTCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCAA
** * * * * * * * * * *
20867873 GCCTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTGAAAATC-GTAG
1 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGA-CGGCAA
* * *
20867917 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAA
1 ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
20867961 ATCTTATCT
1 ATCTTATCT
20867970 TTCCAAGATA
Statistics
Matches: 97, Mismatches: 38, Indels: 12
0.66 0.26 0.08
Matches are distributed among these distances:
42 4 0.04
43 4 0.04
44 83 0.86
45 4 0.04
46 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
Found at i:20868235 original size:257 final size:257
Alignment explanation
Indices: 20867779--20868552 Score: 1289
Period size: 257 Copynumber: 3.0 Consensus size: 257
20867769 AGGTTGAAGA
* *
20867779 TTGTAGATCTTATCT-CTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATTTTTCCA
1 TTGTAGATCCTATCTCCT-TAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCA
* * *
20867843 AGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTGA
65 AGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTATCCCTGAGCAGCAGCGGAGAAGGTTGA
* *
20867908 AAATCGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTC
130 AGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTC
* * *
20867973 CAAGATAGTGGGAAGCGGATTTAAGCCACAAAGCCTTGTCTCCTTGAGAAGCAACGGAGTAGG
195 CAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCTTGAGCAGCAGCGGAGTAGG
* ** *
20868036 TTGTAGATCCTATCTCCTTAAGTAGTAGTGGAGCAGATCGAAGACGAAAAATCTTATCTTCCCAA
1 TTGTAGATCCTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAA
*
20868101 GATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTATCCCTGAGCAGCAACGGAGAAGGTTGAA
66 GATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTATCCCTGAGCAGCAGCGGAGAAGGTTGAA
20868166 GATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCC
131 GATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCC
* *
20868231 AAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCTTGAGCAGTAGCAGAGTAGG
196 AAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCTTGAGCAGCAGCGGAGTAGG
* *
20868293 TTGTAGATCCTATCTCCCTAAGCAGTAGAGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAA
1 TTGTAGATCCTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAA
* *
20868358 GATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTATCCCTGAGCAACAGCGGAAAAGGTTGAA
66 GATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTATCCCTGAGCAGCAGCGGAGAAGGTTGAA
* *
20868423 GATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACAGTAAATCTTATCTTTCC
131 GATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCC
* * * *
20868488 AAGATAGTGGGAAGAAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGG
196 AAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCTTGAGCAGCAGCGGAGTAGG
20868550 TTG
1 TTG
20868553 AAAATGGCAA
Statistics
Matches: 482, Mismatches: 34, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
257 480 1.00
258 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (257 bp):
TTGTAGATCCTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAA
GATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTATCCCTGAGCAGCAGCGGAGAAGGTTGAA
GATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCC
AAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCTTGAGCAGCAGCGGAGTAGG
Found at i:20868575 original size:132 final size:132
Alignment explanation
Indices: 20867734--20868554 Score: 1166
Period size: 132 Copynumber: 6.3 Consensus size: 132
20867724 ACCGGTGAAA
** * *
20867734 CACCAAGCCTTGTCTCATTGAGCAGCAGCGGAAGAAGGTTGAAGATTGTAGATCTTATCTCTCTA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGG-AGTAGGTTGAAGATTGTAGATCTTATCTCCCTA
* * *
20867799 AGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATTTTTCCAAGATAGTGGGAAGCAGATTTA
65 AGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
20867864 AGC
130 AGC
* * *
20867867 CACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTGAAAATCGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
20867932 GCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCGGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
20867997 GC
131 GC
* * * * * *
20867999 CACAAAGCCTTGTCTCCTTGAGAAGCAACGGAGTA----G--G-TTGTAGATCCTATCTCCTTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * ** *
20868057 GTAGTAGTGGAGCAGATCGAAGACGAAAAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
20868122 GC
131 GC
* * *
20868124 CACCAAGCCTTGTATCCCTGAGCAGCAACGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
20868189 GCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
20868254 GC
131 GC
* * * * *
20868256 CACAAAGCCTTGTCTCCTTGAGCAGTAGC--AG-A-G-T--AGGTTGTAGATCCTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
20868314 GCAGTAGAGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
20868379 GC
131 GC
* * **
20868381 CACCAAGCCTTGTATCCCTGAGCAACAGCGGAAAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
20868446 ACAGTAGTGGAGCAGATCAAAGACAGTAAATCTTATCTTTCCAAGATAGTGGGAAGAAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
20868511 GC
131 GC
*
20868513 CACCAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAA
20868555 AATGGCAAAA
Statistics
Matches: 608, Mismatches: 66, Indels: 29
0.86 0.09 0.04
Matches are distributed among these distances:
125 219 0.36
127 2 0.00
128 3 0.00
129 3 0.00
130 3 0.00
131 1 0.00
132 348 0.57
133 29 0.05
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:20868575 original size:389 final size:385
Alignment explanation
Indices: 20867734--20868554 Score: 1186
Period size: 389 Copynumber: 2.1 Consensus size: 385
20867724 ACCGGTGAAA
** *
20867734 CACCAAGCCTTGTCTCATTGAGCAGCAGCGGAAGAAGGTTGAAGATTGTAGATCTTATCTCTCTA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGG-AGAAGGTTGAAGATTGTAGATCTTATCTCCCTA
* *
20867799 AGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATTTTTCCAAGATAGTGGGAAGCAGATTTA
65 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
* * *
20867864 AGCCACCAAGCCTTGTCTCTCTGAGCAGCAGCGGAGTAGGTTGAAAATCGTAGATCTTATCTCCC
130 AGCCACAAAGCCTTGTCTCTCTGAGCAGCAGCAGAGTAGGTT----ATCGTAGATCCTATCTCCC
* * *
20867929 TAAGCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCGGATT
191 TAAGCAGTAGAGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATT
* * * * **
20867994 TAAGCCACAAAGCCTTGTCTCCTTGAGAAGCAACGGAGTAGGTTGTAGATCCTATCTCCTTAAGT
256 TAAGCCACAAAGCCTTGTATCCCTGAGAAGCAACGGAGTAGATTGTAGATCCTATCTCCCTAAAC
* *
20868059 AGTAGTGGAGCAGATCGAAGACGAAAAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTTAAGC
321 AGTAGTGGAGCAGATCAAAGACGAAAAATCTTATCTTCCCAAGATAGTGGGAAGAAGATTTAAGC
* *
20868124 CACCAAGCCTTGTATCCCTGAGCAGCAACGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
20868189 GCAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
20868254 GCCACAAAGCCTTGTCTC-CTTGAGCAGTAGCAGAGTAGG-T-T-GTAGATCCTATCTCCCTAAG
131 GCCACAAAGCCTTGTCTCTC-TGAGCAGCAGCAGAGTAGGTTATCGTAGATCCTATCTCCCTAAG
*
20868315 CAGTAGAGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
195 CAGTAGAGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAG
* * *
20868380 CCACCAAGCCTTGTATCCCTGAGCAA-CAGCGGAAAAGGTTGAAGATTGTAGATCTTATCTCCCT
260 CCACAAAGCCTTGTATCCCTGAG-AAGCAACGG---A-G-T--AGATTGTAGATCCTATCTCCCT
* *
20868444 AAACAGTAGTGGAGCAGATCAAAGAC-AGTAAATCTTATCTTTCCAAGATAGTGGGAAGAAGATT
317 AAACAGTAGTGGAGCAGATCAAAGACGA-AAAATCTTATCTTCCCAAGATAGTGGGAAGAAGATT
20868508 TAAGC
381 TAAGC
* *
20868513 CACCAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTTGAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAA
20868555 AATGGCAAAA
Statistics
Matches: 388, Mismatches: 33, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
382 105 0.27
383 3 0.01
385 1 0.00
386 1 0.00
387 1 0.00
388 3 0.01
389 247 0.64
390 27 0.07
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (385 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GCCACAAAGCCTTGTCTCTCTGAGCAGCAGCAGAGTAGGTTATCGTAGATCCTATCTCCCTAAGC
AGTAGAGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGC
CACAAAGCCTTGTATCCCTGAGAAGCAACGGAGTAGATTGTAGATCCTATCTCCCTAAACAGTAG
TGGAGCAGATCAAAGACGAAAAATCTTATCTTCCCAAGATAGTGGGAAGAAGATTTAAGC
Found at i:20868615 original size:44 final size:44
Alignment explanation
Indices: 20868567--20868848 Score: 211
Period size: 44 Copynumber: 6.5 Consensus size: 44
20868557 TGGCAAAACT
20868567 TATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCC
** * * * * *
20868611 TATCTCTTTGAAGTTGCAGT-AGAGCGGATTAAAACC-TTGGATCT
1 TATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGCCGAT-AATCC
** * * *** * *
20868655 TATCTCTTTGAAGTTGCAGAG-AGCAGA-T--CGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCC
* * *
20868695 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCC
* * * * * *
20868739 TATCTTCCTGAAGTTGCAGTGAGGTAGACTGAAGATGGC-A-AATCT
1 TATCTCCCTGAAGTTGCAGTGAAGCAGA-TTAA-A-GCCGATAATCC
* *
20868784 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCC
*
20868828 TATCTTCCTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTG
20868849 GAGCGGATCA
Statistics
Matches: 182, Mismatches: 43, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
40 21 0.12
41 7 0.04
42 4 0.02
43 9 0.05
44 107 0.59
45 30 0.16
46 2 0.01
47 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCC
Found at i:20868966 original size:44 final size:44
Alignment explanation
Indices: 20868910--20868995 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
20868900 TGCGTCTAGT
* * *
20868910 CTTATCTCCCTGAAATTGTAGTGGAGCAAACTAAGTAAACAAGC
1 CTTATCTCCCTGAAATTGCAGTGAAGCAAACTAAATAAACAAGC
* *
20868954 CTTATC-CTCCTGAAGTTGCAGTGAAGCAGACTAAATAAACAA
1 CTTATCTC-CCTGAAATTGCAGTGAAGCAAACTAAATAAACAA
20868996 ATCTCGTCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 1 0.03
44 35 0.97
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.24
Consensus pattern (44 bp):
CTTATCTCCCTGAAATTGCAGTGAAGCAAACTAAATAAACAAGC
Found at i:20868967 original size:217 final size:217
Alignment explanation
Indices: 20868551--20868977 Score: 635
Period size: 217 Copynumber: 2.0 Consensus size: 217
20868541 CGGAGTAGGT
20868551 TGAAAATGGCAAAACTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCT
1 TGAAAATGGCAAAACTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCT
* * *
20868616 CTTTGAAGTTGCAGTAGAGCGGATTAAAACCTTGGATCTTATCTCTTTGAAGTTGCAGAGAGCAG
66 CTCTGAAGTTGCAGTAGAGCGGATCAAAACCTTGGATCTTATCTCTATGAAGTTGCAGAGAGCAG
* * ** * * *
20868681 ATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCTTC
131 ATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAAACTAGAGCAAACAAGCCTATCCTC
20868746 CTGAAGTTGCAGTGAGGTAGAC
196 CTGAAGTTGCAGTGAGGTAGAC
* * * *
20868768 TGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAGCCGATAATCCTATCT
1 TGAAAATGGCAAAACTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCT
*
20868833 -TCCTGAAGTTGCAGTGGAGCGGATCAAAACCTTGGATCTTATCTCTATGAAGTTGCAGAGAGCA
66 CT-CTGAAGTTGCAGTAGAGCGGATCAAAACCTTGGATCTTATCTCTATGAAGTTGCAGAGAGCA
* * * *
20868897 GATTGCGTCTAGTCTTATCTCCCTGAAA-TTGTAGTGGAGCAAACTA-AGTAAACAAGCCTTATC
130 GATCGCATCTAGTCTTATCTCCCT-AAAGTTGCAGTGGAGCAAACTAGAGCAAACAAGCC-TATC
20868960 CTCCTGAAGTTGCAGTGA
193 CTCCTGAAGTTGCAGTGA
20868978 AGCAGACTAA
Statistics
Matches: 188, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
216 8 0.04
217 177 0.94
218 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
TGAAAATGGCAAAACTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGATAATCCTATCT
CTCTGAAGTTGCAGTAGAGCGGATCAAAACCTTGGATCTTATCTCTATGAAGTTGCAGAGAGCAG
ATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAAACTAGAGCAAACAAGCCTATCCTC
CTGAAGTTGCAGTGAGGTAGAC
Found at i:20869392 original size:19 final size:21
Alignment explanation
Indices: 20869336--20869394 Score: 90
Period size: 19 Copynumber: 3.0 Consensus size: 21
20869326 TTCGAGGATA
20869336 TACAATCTTAGATATGATATG
1 TACAATCTTAGATATGATATG
20869357 --CAATCTTAGATATGATATG
1 TACAATCTTAGATATGATATG
20869376 TACAATCTTAGA-A-GATATG
1 TACAATCTTAGATATGATATG
20869395 ATTTTGTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
19 25 0.69
20 1 0.03
21 10 0.28
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (21 bp):
TACAATCTTAGATATGATATG
Found at i:20869606 original size:19 final size:21
Alignment explanation
Indices: 20869582--20869620 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
20869572 GGCTTACTGT
*
20869582 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
20869601 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
20869621 TTTAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:20869848 original size:3 final size:3
Alignment explanation
Indices: 20869840--20869879 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
20869830 ATTAATTTTG
*
20869840 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
20869880 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:20869848 original size:15 final size:15
Alignment explanation
Indices: 20869824--20869878 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
20869814 GTTTTTAGTC
20869824 TATT-TTATTAATTT
1 TATTATTATTAATTT
* *
20869838 TGTTATTATTATTTT
1 TATTATTATTAATTT
20869853 TATTATTA-T-ATTAT
1 TATTATTATTAATT-T
20869867 ATATTATTATTA
1 -TATTATTATTA
20869879 TACCTACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 2 0.06
14 5 0.16
15 24 0.75
16 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTATTATTAATTT
Found at i:20869855 original size:12 final size:12
Alignment explanation
Indices: 20869826--20869877 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
20869816 TTTTAGTCTA
20869826 TTTTATTAATT-T
1 TTTTATT-ATTAT
*
20869838 TGTTATTATTAT
1 TTTTATTATTAT
20869850 TTTTATTATTAT
1 TTTTATTATTAT
20869862 ATTATATATTATTAT
1 -TT-T-TATTATTAT
20869877 T
1 T
20869878 ATACCTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 18 0.53
13 2 0.06
14 2 0.06
15 9 0.26
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:20877125 original size:24 final size:24
Alignment explanation
Indices: 20877093--20877140 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
20877083 TATCACTAGG
20877093 GTAGCTTGGATAGTCATCCAGTAA
1 GTAGCTTGGATAGTCATCCAGTAA
*
20877117 GTAGCTTGGATGGTCATCCAGTAA
1 GTAGCTTGGATAGTCATCCAGTAA
20877141 ATGCTGTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (24 bp):
GTAGCTTGGATAGTCATCCAGTAA
Found at i:20877150 original size:24 final size:24
Alignment explanation
Indices: 20877094--20877150 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
20877084 ATCACTAGGG
*
20877094 TAGCTTGGATAGTCATCCAGTAAG
1 TAGCTTGGATAGTCATCCAGTAAA
*
20877118 TAGCTTGGATGGTCATCCAGTAAA
1 TAGCTTGGATAGTCATCCAGTAAA
20877142 T-GCTGTGGA
1 TAGCT-TGGA
20877151 AGATTTCTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (24 bp):
TAGCTTGGATAGTCATCCAGTAAA
Found at i:20879092 original size:17 final size:17
Alignment explanation
Indices: 20879051--20879092 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
20879041 AATAAATGCT
*
20879051 TAAATAATTGTAAAACC
1 TAAATAATTGTAAAACA
*
20879068 TAAGTAATTGTAAAACA
1 TAAATAATTGTAAAACA
20879085 TAAATAAT
1 TAAATAAT
20879093 CCTAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (17 bp):
TAAATAATTGTAAAACA
Found at i:20879116 original size:13 final size:13
Alignment explanation
Indices: 20879098--20879122 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20879088 ATAATCCTAA
20879098 AATATTAAAAATG
1 AATATTAAAAATG
20879111 AATATTAAAAAT
1 AATATTAAAAAT
20879123 TGAGAGTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATATTAAAAATG
Found at i:20888444 original size:72 final size:72
Alignment explanation
Indices: 20888310--20888450 Score: 185
Period size: 72 Copynumber: 2.0 Consensus size: 72
20888300 TATATATTGG
* * *
20888310 TAAAGAATGATTCAATGTTACTCACACAAGCTTTAGAGAATCCAAAACACGTGTTGGATCTCAAG
1 TAAAGAATGATTCAATGTTACTCACACAAGCTTCAAAGAATCCAAAACACGTATTGGATCTCAAG
20888375 CCATCGA
66 CCATCGA
* ** * * *
20888382 TAAAGAATGATTCGATGTTGTTCACACAAGCTTCAAATAAT-CAACAACATGTATTGGGTCTCAA
1 TAAAGAATGATTCAATGTTACTCACACAAGCTTCAAAGAATCCAA-AACACGTATTGGATCTCAA
20888446 GCCAT
65 GCCAT
20888451 AGATCATTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
71 3 0.05
72 56 0.95
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (72 bp):
TAAAGAATGATTCAATGTTACTCACACAAGCTTCAAAGAATCCAAAACACGTATTGGATCTCAAG
CCATCGA
Found at i:20890888 original size:3 final size:3
Alignment explanation
Indices: 20890880--20890928 Score: 62
Period size: 3 Copynumber: 15.3 Consensus size: 3
20890870 TAAATAGTTG
*
20890880 TAT TAT TAT TAT TAT TAT TAT TAT TACT TACCT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA--T TAT TAT TAT TAT TAT
20890928 T
1 T
20890929 TACCCATTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 35 0.83
4 3 0.07
5 4 0.10
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:20891402 original size:20 final size:20
Alignment explanation
Indices: 20891370--20891407 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20891360 TTTTCATTTA
20891370 CATTATCATAATTGTTATTC
1 CATTATCATAATTGTTATTC
*
20891390 CATTA-CATCAATTTTTAT
1 CATTATCAT-AATTGTTAT
20891408 CCAGATTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.50
Consensus pattern (20 bp):
CATTATCATAATTGTTATTC
Found at i:20893045 original size:9 final size:8
Alignment explanation
Indices: 20893033--20893130 Score: 52
Period size: 9 Copynumber: 10.8 Consensus size: 8
20893023 AAATTTAAAA
20893033 TTTAAACTT
1 TTTAAA-TT
20893042 TTTATATATTT
1 TTTA-A-AT-T
20893053 TTTAGAATT
1 TTTA-AATT
*
20893062 TTTAAAAAT
1 TTT-AAATT
20893071 TTTAAATT
1 TTTAAATT
*
20893079 TTGAAATTT
1 TTTAAA-TT
20893088 TTATAAATAT
1 TT-TAAAT-T
*
20893098 TTTGAATT
1 TTTAAATT
*
20893106 TTAAAAATTAT
1 TT-TAAA-T-T
20893117 TTTAAATT
1 TTTAAATT
20893125 TTTAAA
1 TTTAAA
20893131 AATTATTTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
8 19 0.27
9 26 0.37
10 15 0.21
11 10 0.14
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (8 bp):
TTTAAATT
Found at i:20893075 original size:45 final size:43
Alignment explanation
Indices: 20893020--20893114 Score: 120
Period size: 45 Copynumber: 2.2 Consensus size: 43
20893010 TTATTTTAGA
* * *
20893020 AAAAAATTTAAAATTT-AAACTTTTTATATATTTTTTAGAATTTTT
1 AAAAATTTTAAAATTTGAAA-TTTTTATAAATATTTT-GAA-TTTT
*
20893065 AAAAATTTTAAATTTTGAAATTTTTATAAATATTTTGAATTTT
1 AAAAATTTTAAAATTTGAAATTTTTATAAATATTTTGAATTTT
20893108 AAAAATT
1 AAAAATT
20893115 ATTTTAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 11 0.24
44 3 0.07
45 28 0.62
46 3 0.07
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (43 bp):
AAAAATTTTAAAATTTGAAATTTTTATAAATATTTTGAATTTT
Found at i:20893079 original size:27 final size:28
Alignment explanation
Indices: 20893049--20893130 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 28
20893039 CTTTTTATAT
*
20893049 ATTTTTTAGAATTTTTA-AAA-ATTTTAA
1 ATTTTTGA-AATTTTTATAAATATTTTAA
*
20893076 A-TTTTGAAATTTTTATAAATATTTTGA
1 ATTTTTGAAATTTTTATAAATATTTTAA
**
20893103 ATTTTAAAAATTATTT-TAAAT-TTTTAA
1 ATTTTTGAAATT-TTTATAAATATTTTAA
20893130 A
1 A
20893131 AATTATTTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
25 8 0.17
26 8 0.17
27 14 0.30
28 13 0.28
29 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (28 bp):
ATTTTTGAAATTTTTATAAATATTTTAA
Found at i:20893107 original size:19 final size:20
Alignment explanation
Indices: 20893052--20893146 Score: 97
Period size: 20 Copynumber: 4.6 Consensus size: 20
20893042 TTTATATATT
20893052 TTTTAGAATTTTTAAAAATTTTAAA
1 TTTT-GAATTTTTAAAAA--TT--A
*
20893077 TTTTGAAATTTTTATAAA-TA
1 TTTTG-AATTTTTAAAAATTA
20893097 TTTTGAA-TTTTAAAAATTA
1 TTTTGAATTTTTAAAAATTA
*
20893116 TTTTAAATTTTTAAAAATTA
1 TTTTGAATTTTTAAAAATTA
20893136 TTTTG-ATTTTT
1 TTTTGAATTTTT
20893147 TTTGTAATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
18 8 0.13
19 16 0.25
20 22 0.35
22 1 0.02
24 1 0.02
25 15 0.24
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTGAATTTTTAAAAATTA
Found at i:20902492 original size:11 final size:11
Alignment explanation
Indices: 20902478--20902515 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
20902468 ATTTTTTTAA
20902478 TTTTAAAATAT
1 TTTTAAAATAT
*
20902489 TTTTGAAATAT
1 TTTTAAAATAT
20902500 TTTTAAAATACT
1 TTTTAAAATA-T
20902512 TTTT
1 TTTT
20902516 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:20902523 original size:22 final size:21
Alignment explanation
Indices: 20902469--20902531 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
20902459 TATTTTTAAA
20902469 TTTTTTTAA-TTTTAAAATAT
1 TTTTTTTAATTTTTAAAATAT
***
20902489 TTTTGAAATATTTTTAAAATACT
1 TTTTTTTA-ATTTTTAAAATA-T
20902512 TTTTTTTAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAATA
20902532 AATTTTTGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 5 0.15
21 1 0.03
22 22 0.65
23 6 0.18
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTTTTAATTTTTAAAATAT
Found at i:20902537 original size:22 final size:22
Alignment explanation
Indices: 20902465--20902538 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
20902455 TATTTATTTT
20902465 TAAATTTTTTTAA-TTTTAAAA
1 TAAATTTTTTTAATTTTTAAAA
**
20902486 T--ATTTTTGAAATATTTTTAAAA
1 TAAATTTTT-TTA-ATTTTTAAAA
**
20902508 TACTTTTTTTTAATTTTTAAAA
1 TAAATTTTTTTAATTTTTAAAA
20902530 TAAATTTTT
1 TAAATTTTT
20902539 GGTATTTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
19 6 0.15
20 1 0.02
21 2 0.05
22 26 0.63
23 1 0.02
24 5 0.12
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (22 bp):
TAAATTTTTTTAATTTTTAAAA
Found at i:20902545 original size:22 final size:22
Alignment explanation
Indices: 20902497--20902556 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
20902487 ATTTTTGAAA
* **
20902497 TATTTTTAAAAT-ACTTTTTTT
1 TATTTTTAAAATAAATTTTTGG
20902518 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTTGG
20902541 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
20902557 AGGCCGGGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 1 0.03
22 19 0.58
23 13 0.39
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTTGG
Found at i:20902545 original size:44 final size:43
Alignment explanation
Indices: 20902469--20902552 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 43
20902459 TATTTTTAAA
20902469 TTTTTTTAATTTTAAAATATTTTTGAAATATTT-TTAAAATACT
1 TTTTTTTAATTTTAAAATATTTTTG-AATATTTATTAAAATACT
*
20902512 TTTTTTTAATTTTTAAAATAAATTTTTG-GTATTTATTAAAA
1 TTTTTTTAA-TTTTAAAAT--ATTTTTGAATATTTATTAAAA
20902553 AAATAGGCCG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
43 9 0.25
44 14 0.39
45 6 0.17
46 7 0.19
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (43 bp):
TTTTTTTAATTTTAAAATATTTTTGAATATTTATTAAAATACT
Found at i:20914811 original size:22 final size:21
Alignment explanation
Indices: 20914765--20914813 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
20914755 TTTCATTGTC
*
20914765 ATTTTGTTGTTATATTGCTACT
1 ATTTTGTTGTTATATTGC-AAT
20914787 ATTTTGTTGTTATTATTAG-AAT
1 ATTTTGTTGTTA-TATT-GCAAT
20914809 ATTTT
1 ATTTT
20914814 ATAACTCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 19 0.79
23 4 0.17
24 1 0.04
ACGTcount: A:0.22, C:0.04, G:0.12, T:0.61
Consensus pattern (21 bp):
ATTTTGTTGTTATATTGCAAT
Found at i:20918374 original size:5 final size:5
Alignment explanation
Indices: 20918364--20918391 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
20918354 AATTGTAGTC
20918364 TTAAT TTAAT TTAAT TTAAT TTAAT TTA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTA
20918392 TCAAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTAAT
Found at i:20921363 original size:26 final size:26
Alignment explanation
Indices: 20921316--20921365 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
20921306 CATGTTGTAT
*
20921316 TTCATTTAAGTTTAACTCTACATTCA
1 TTCATTTAAGATTAACTCTACATTCA
*
20921342 TTCATTTAAGAATTATCT-TACATT
1 TTCATTTAAG-ATTAACTCTACATT
20921366 AATCTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (26 bp):
TTCATTTAAGATTAACTCTACATTCA
Found at i:20922049 original size:2 final size:2
Alignment explanation
Indices: 20922044--20922071 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
20922034 ACACTATCTC
20922044 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
20922072 CTCTTAATGA
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):
AT
Found at i:20926219 original size:25 final size:25
Alignment explanation
Indices: 20926185--20926253 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
20926175 TACCGATTCT
*
20926185 AGCTCTTATGAGCTTACCGACACTC
1 AGCTCGTATGAGCTTACCGACACTC
* * * *
20926210 AGCTCGTATGCGCTTATCGATATTC
1 AGCTCGTATGAGCTTACCGACACTC
* *
20926235 AGCTCGCAGGAGCTTACCG
1 AGCTCGTATGAGCTTACCG
20926254 TTTATCACTC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGACACTC
Found at i:20929419 original size:44 final size:43
Alignment explanation
Indices: 20929356--20929472 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 43
20929346 TGTTTGTTAT
*
20929356 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTATG-ATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA--TATGTAATTA
20929400 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTAATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTAATTA
* *
20929443 CATGTAAGACCACGTTTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
20929473 TGTATGAGCT
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
42 5 0.08
43 29 0.45
44 30 0.46
45 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTAATTA
Found at i:20929463 original size:43 final size:43
Alignment explanation
Indices: 20929358--20929472 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
20929348 TTTGTTATCG
* *
20929358 TGTAAGACCACGTCTGGGACGTTGGCATCGATTTATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TTATGAATTACA
20929402 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGA-TATGTAATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATTATG-AATTACA
*
20929445 TGTAAGACCACGTTTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
20929473 TGTATGAGCT
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
42 5 0.08
43 29 0.46
44 28 0.44
45 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTATGAATTACA
Found at i:20933345 original size:23 final size:23
Alignment explanation
Indices: 20933310--20933368 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
20933300 CCGAGCTGAT
* * *
20933310 AAACAGTAAGCTCTATTGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
* *
20933333 AGACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
20933356 AAACGGTAAGCTC
1 AAACGGTAAGCTC
20933369 ATACAAGCTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAGAGCTG
Found at i:20933377 original size:23 final size:23
Alignment explanation
Indices: 20933310--20933378 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
20933300 CCGAGCTGAT
* * **
20933310 AAACAGTAAGCTCTATTGAGCTG
1 AAACGGTAAGCTCCATAAAGCTG
* * *
20933333 AGACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCATAAAGCTG
20933356 AAACGGTAAGCT-CATACAAGCTG
1 AAACGGTAAGCTCCATA-AAGCTG
20933379 TGGTAAGTCC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 3 0.08
23 34 0.92
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAAAGCTG
Found at i:20944088 original size:16 final size:16
Alignment explanation
Indices: 20944067--20944102 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
20944057 GTCCTATCTA
20944067 TTTTAGCTCTAAC-TTC
1 TTTTAGCTC-AACTTTC
20944083 TTTTAGCTCAACTTTC
1 TTTTAGCTCAACTTTC
20944099 TTTT
1 TTTT
20944103 TAACTTCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.17, C:0.22, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTTAGCTCAACTTTC
Found at i:20944276 original size:16 final size:17
Alignment explanation
Indices: 20944245--20944276 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20944235 AATAAATTAT
20944245 TAAAAATTTTATAAAAA
1 TAAAAATTTTATAAAAA
20944262 TAAAAATTTTA-AAAA
1 TAAAAATTTTATAAAA
20944277 TTATTGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAATTTTATAAAAA
Found at i:20948708 original size:34 final size:35
Alignment explanation
Indices: 20948650--20948716 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
20948640 CAAACAGCAG
*
20948650 AAAATATTTTCTAGTAAATCATTTTACAGAAAAAT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAAT
*
20948685 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
20948717 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAAT
Found at i:20951405 original size:18 final size:18
Alignment explanation
Indices: 20951382--20951447 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 18
20951372 AAAATTATTA
20951382 TTTTATAAAATTTTAATT
1 TTTTATAAAATTTTAATT
**
20951400 TTTTATATATTTTTTAGATT
1 TTTTATA-AAATTTTA-ATT
*
20951420 TTTTTTAAAATTTATAATT
1 TTTTATAAAATTT-TAATT
20951439 TTTT-TAAAA
1 TTTTATAAAA
20951448 ATACAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 12 0.30
19 17 0.43
20 11 0.28
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTATAAAATTTTAATT
Found at i:20951442 original size:17 final size:17
Alignment explanation
Indices: 20951372--20951465 Score: 50
Period size: 16 Copynumber: 5.4 Consensus size: 17
20951362 TCTATAATTC
* *
20951372 AAAA-TTATTATTTTAT
1 AAAATTTATAATTTTTT
20951388 AAAATTT-TAATTTTTT
1 AAAATTTATAATTTTTT
* *
20951404 ATATATTTTTTAGATTTTTTTT
1 A-A-AATTTATA-A--TTTTTT
20951426 AAAATTTATAATTTTTTT
1 AAAATTTATAA-TTTTTT
* * *
20951444 AAAA-ATACAATTTTTA
1 AAAATTTATAATTTTTT
20951460 AAAATT
1 AAAATT
20951466 ATTTTCAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
16 21 0.34
17 7 0.11
18 15 0.25
19 3 0.05
20 7 0.11
21 1 0.02
22 7 0.11
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
AAAATTTATAATTTTTT
Found at i:20951498 original size:20 final size:20
Alignment explanation
Indices: 20951451--20951490 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20951441 TTTAAAAATA
*
20951451 CAATTTTTAAAAATTATTTT
1 CAATTTTTAAAAATTACTTT
*
20951471 CAAATTTTAAAAATTACTTT
1 CAATTTTTAAAAATTACTTT
20951491 GATTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
CAATTTTTAAAAATTACTTT
Found at i:20962378 original size:98 final size:100
Alignment explanation
Indices: 20962249--20962453 Score: 315
Period size: 98 Copynumber: 2.0 Consensus size: 100
20962239 AAAAACGAAA
* * *
20962249 AAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAATTTTTAAAAAAAAA-TTTT
1 AAAAAAATTTGAGTGCTGGCCTATCAATGGCCGACACCCAGTACAATTTTAAAAAAAAAATTTTT
*
20962313 -GTGTCAGAGTCAGATATCAGTATACGAAAAAAAT
66 CGTGTCAGAATCAGATATCAGTATACGAAAAAAAT
* *
20962347 AAAAAAATTTGAGTGTTGGCCTGTCAATGGCCGACACCCAGTACAATTTTAAAAAAAAAATTTTT
1 AAAAAAATTTGAGTGCTGGCCTATCAATGGCCGACACCCAGTACAATTTTAAAAAAAAAA--TTT
*
20962412 TTCGTGTTAGAATCAGATATCAGTATACGAAAAAAAT
64 TTCGTGTCAGAATCAGATATCAGTATACGAAAAAAAT
20962449 AAAAA
1 AAAAA
20962454 TAAAAAATTT
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
98 55 0.57
101 4 0.04
102 37 0.39
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (100 bp):
AAAAAAATTTGAGTGCTGGCCTATCAATGGCCGACACCCAGTACAATTTTAAAAAAAAAATTTTT
CGTGTCAGAATCAGATATCAGTATACGAAAAAAAT
Found at i:20964919 original size:14 final size:14
Alignment explanation
Indices: 20964902--20964933 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
20964892 AGATTATAAA
20964902 ATATAGATATATGT
1 ATATAGATATATGT
*
20964916 ATATATATATATGT
1 ATATAGATATATGT
20964930 ATAT
1 ATAT
20964934 GTCTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (14 bp):
ATATAGATATATGT
Found at i:20965076 original size:22 final size:21
Alignment explanation
Indices: 20965039--20965079 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
20965029 AATATCAATA
20965039 ATAATATAATAATAATATTGT
1 ATAATATAATAATAATATTGT
*
20965060 ATAATGATATTAATAATATT
1 ATAAT-ATAATAATAATATT
20965080 AAAACAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
ATAATATAATAATAATATTGT
Found at i:20966715 original size:50 final size:49
Alignment explanation
Indices: 20966649--20967963 Score: 553
Period size: 50 Copynumber: 26.3 Consensus size: 49
20966639 AGTCATCTCT
*
20966649 AATCTGTTTAACTGCAATGTCGAGGAAGTAAGATTCGCCGTCGTAGCTTC
1 AATCT-TTTAACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
* * * * * * *
20966699 CATCTATTTAATTGCAATGTCAAGGAGGCAAAATTCACCGTTGTAGCTTC
1 AATCT-TTTAACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
** ** * * *
20966749 AATCTGTTTCGCTGCACCGCCGAGGGAGTAAGATTCGTCGTTGT-GTCTTC
1 AATCT-TTTAACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAG-CTTC
* * * * *
20966799 AATCTTTTTAATTACAATGTCGGGGAAGCAAGATTTGCCGTTGTAGCTTC
1 AATC-TTTTAACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
** * * * *
20966849 AATCTGTTCCACTG-TATCGTCTG-GAAAGTAAAATTCGCC-TTGGTGGCTTC
1 AATCT-TTTAACTGCAAT-GTC-GAGGAAGTAAGATTCGCCGTT-GTAGCTTC
* * * * * *
20966899 AATCTTTTGAATTGCAATGTTGGGGAAGTGAGATTCGCCATCGTAGCTTC
1 AATCTTTT-AACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
** * * * *
20966949 AATCTGTTCCACTGC-ATCG-CTAGGGAAATGAGATTTGCCGTTGT-GACTTC
1 AATCT-TTTAACTGCAAT-GTCGA-GGAAGTAAGATTCGCCGTTGTAG-CTTC
* * * * *
20966999 AATCTTTTGAATTGCAATGTTG-GGAAAGTGAGATTCGTCGTCGTAGCTTC
1 AATCTTTT-AACTGCAATGTCGAGG-AAGTAAGATTCGCCGTTGTAGCTTC
*** * * * * *
20967049 AATCTGTTCCGCTGC-ATCGCCTG-GGAAATAAGATTCACCGTTGTGGCATC
1 AATCT-TTTAACTGCAAT-GTC-GAGGAAGTAAGATTCGCCGTTGTAGCTTC
* * * * * * *
20967099 GATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGTCGTCGTAACTTC
1 AATCTTTT-AACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
*** * * *
20967149 AATCTGTTCCGCTGC-ATCGCCTG-GGAAATAAGATTCGCCGTTGTGGCTTC
1 AATCT-TTTAACTGCAAT-GTC-GAGGAAGTAAGATTCGCCGTTGTAGCTTC
* * * *
20967199 GATCTTTTAAACTGCAATGTCTG-GGAAGTGAGATTCGTCGTCGTAGCTTC
1 AATCTTTT-AACTGCAATGTC-GAGGAAGTAAGATTCGCCGTTGTAGCTTC
** * * * *
20967249 AAT-TTGTTCCGCTGC-ATCGCCTGA-GAAATAAGATTCACCGTTGTGGCTTC
1 AATCTT-TT-AACTGCAAT-GTC-GAGGAAGTAAGATTCGCCGTTGTAGCTTC
* * * * * * * *
20967299 GATCTTTTAAATTGCAACGTCAAGAAAGCAAGATCCGCTGTTGTAGCTTC
1 AATCTTTT-AACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
* * * * *
20967349 AATCTATTCAACTGCACTGCCTG-GGAAATAAGATTCGCCGTTGTGGCTTC
1 AATCT-TTTAACTGCAATGTC-GAGGAAGTAAGATTCGCCGTTGTAGCTTC
* * * * *
20967399 GATCTTTTAAACTGCAATGTCGGGGAAGTGAGATTCGTCGTCGTAGCTTC
1 AATCTTTT-AACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
* * * * * *
20967449 GATCTGTT--CTGCTACATCGTCTA-GAAGTAAGATTCGTCATTGTGGCTTC
1 AATCTTTTAACTGC-A-AT-GTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
* * * * * *
20967498 AATTTTTTAAATTGCAATATCGGGGAAGTGAGATTCGCCGTCGTAGCTTC
1 AATCTTTT-AACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
* *** ** * * * *
20967548 GATCTGTTCCGCTGCACCGTC-AGGGAGGTGAGATTCGCTGTTGTAGCTTT
1 AATCT-TTTAACTGCAATGTCGA-GGAAGTAAGATTCGCCGTTGTAGCTTC
* * * *
20967598 AATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTC
1 AATCTTTT-AACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
* *** * * *
20967648 GATCTGTTCCGCTGC-ATCG-CCAGGGAGGTAAGATTCGCTGTTGTAGCTTC
1 AATCT-TTTAACTGCAAT-GTCGA-GGAAGTAAGATTCGCCGTTGTAGCTTC
* * * * * *
20967698 AATCTTTTAAATTGCAATATCGGGGAAGTGAGATTCACCGTCGTAGCTTC
1 AATCTTTT-AACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
*** * * **
20967748 AATCTGTTCCGCTGC-ATCGTC-AGGGAGGTGAGATTCGCTATTGTAGCTTC
1 AATCT-TTTAACTGCAAT-GTCGA-GGAAGTAAGATTCGCCGTTGTAGCTTC
* * * *
20967798 AATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTC
1 AATCTTTT-AACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
*** * * * *
20967848 AATCTGTTCCGCTGC-ATCGTC-AGGGAGGTGAGATTCGCTGTTGTAGCTTT
1 AATCT-TTTAACTGCAAT-GTCGA-GGAAGTAAGATTCGCCGTTGTAGCTTC
* * * *
20967898 AATCTTTTAAATTACAATGTCAAGGAAGTGAA-ATTCGCCGTCGTAGCTTC
1 AATCTTTT-AACTGCAATGTCGAGGAAGT-AAGATTCGCCGTTGTAGCTTC
* *
20967948 GATCTGTTTCACTGCA
1 AATCT-TTTAACTGCA
20967964 TCGCCAGAGA
Statistics
Matches: 909, Mismatches: 284, Indels: 144
0.68 0.21 0.11
Matches are distributed among these distances:
47 4 0.00
48 1 0.00
49 79 0.09
50 773 0.85
51 49 0.05
52 3 0.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (49 bp):
AATCTTTTAACTGCAATGTCGAGGAAGTAAGATTCGCCGTTGTAGCTTC
Found at i:20966840 original size:100 final size:100
Alignment explanation
Indices: 20966669--20968015 Score: 1392
Period size: 100 Copynumber: 13.5 Consensus size: 100
20966659 ACTGCAATGT
* * * ** * ** *
20966669 CGAGGAAGTAAGATTCGCCGTCGTAGCTTCCATCTATTT-AATTGCAATGTCAAGGAGGCAAAAT
1 CGAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTAAATTGCAATGTCGGGGAAGTGAGAT
* * * *
20966733 TCACCGTTGTAGCTTCAATCTGTTTCGCTGCACCGC
65 TCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * * * **
20966769 CGAGGGAGTAAGATTCGTCGTTGTGTCTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATT
1 CGAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATT
* * * *
20966834 TGCCGTTGTAGCTTCAATCTGTTCCACTGTATCGTC
66 CGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCG-C
* * * * *
20966870 TG-GAAAGTAAAATTCGCC-TTGGTGGCTTCAATCTTTTGAATTGCAATGTTGGGGAAGTGAGAT
1 CGAGGAAGTAAGATTCGCCGTT-GTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
* *
20966933 TCGCCATCGTAGCTTCAATCTGTTCCACTGCATCG-
65 TCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * * * * * *
20966968 CTAGGGAAATGAGATTTGCCGTTGTGACTTCAATCTTTTGAATTGCAATGTTGGGAAAGTGAGAT
1 CGA-GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
*
20967033 TCGTCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
65 TCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * *
20967069 CTG-GGAAATAAGATTCACCGTTGTGGCATCGATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
1 C-GAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
* *
20967133 TCGTCGTCGTAACTTCAATCTGTTCCGCTGCATCGC
65 TCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * *
20967169 CTG-GGAAATAAGATTCGCCGTTGTGGCTTCGATCTTTTAAACTGCAATGTCTGGGAAGTGAGAT
1 C-GAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
* *
20967233 TCGTCGTCGTAGCTTCAATTTGTTCCGCTGCATCGC
65 TCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * * ** * **
20967269 CTGA-GAAATAAGATTCACCGTTGTGGCTTCGATCTTTTAAATTGCAACGTCAAGAAAGCAAGAT
1 C-GAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
* * * * **
20967333 CCGCTGTTGTAGCTTCAATCTATTCAACTGCA-CTGC
65 TCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATC-GC
* * *
20967369 CTG-GGAAATAAGATTCGCCGTTGTGGCTTCGATCTTTTAAACTGCAATGTCGGGGAAGTGAGAT
1 C-GAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
* * * * *
20967433 TCGTCGTCGTAGCTTCGATCTGTTCTGCTACATCGT
65 TCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * * *
20967469 CTA-GAAGTAAGATTCGTCATTGTGGCTTCAATTTTTTAAATTGCAATATCGGGGAAGTGAGATT
1 CGAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATT
* * *
20967533 CGCCGTCGTAGCTTCGATCTGTTCCGCTGCACCGT
66 CGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * * *
20967568 C-AGGGAGGTGAGATTCGCTGTTGTAGCTTTAATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
1 CGA-GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
*
20967632 TCGCCGTCGTAGCTTCGATCTGTTCCGCTGCATCGC
65 TCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * *
20967668 C-AGGGAGGTAAGATTCGCTGTTGTAGCTTCAATCTTTTAAATTGCAATATCGGGGAAGTGAGAT
1 CGA-GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
* *
20967732 TCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGT
65 TCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * ** *
20967768 C-AGGGAGGTGAGATTCGCTATTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
1 CGA-GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
*
20967832 TCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGT
65 TCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * * * * * ** *
20967868 C-AGGGAGGTGAGATTCGCTGTTGTAGCTTTAATCTTTTAAATTACAATGTCAAGGAAGTGAAAT
1 CGA-GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGAT
* * *
20967932 TCGCCGTCGTAGCTTCGATCTGTTTCACTGCATCGC
65 TCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
* * ** * *
20967968 C-AGAGAGGTGAGATTTACCATTGTGGCTTCAATCTTTTGAATTGCAAT
1 CGAG-GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAAT
20968016 CTACGATTTT
Statistics
Matches: 1085, Mismatches: 146, Indels: 32
0.86 0.12 0.03
Matches are distributed among these distances:
98 1 0.00
99 93 0.09
100 985 0.91
101 6 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (100 bp):
CGAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATT
CGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGC
Found at i:20969382 original size:17 final size:15
Alignment explanation
Indices: 20969356--20969391 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
20969346 ATTCTTCTTC
20969356 TTTTTTTTTTGCTTTT
1 TTTTTTTTTTG-TTTT
20969372 TTTTGTTTTTTGTTTT
1 TTTT-TTTTTTGTTTT
20969388 TTTT
1 TTTT
20969392 ATTGAATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTTGTTTT
Found at i:20970424 original size:8 final size:8
Alignment explanation
Indices: 20970411--20970452 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
20970401 TTTTCTCTTA
20970411 TGATTTTT
1 TGATTTTT
20970419 TGA-TTTT
1 TGATTTTT
20970426 TGATTTTTTTT
1 TGA---TTTTT
20970437 TGATTTTT
1 TGATTTTT
20970445 TGATTTTT
1 TGATTTTT
20970453 CTTTCGAGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
7 7 0.23
8 16 0.53
11 7 0.23
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (8 bp):
TGATTTTT
Found at i:20970435 original size:18 final size:19
Alignment explanation
Indices: 20970414--20970452 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
20970404 TCTCTTATGA
20970414 TTTTTTGA-TTTTTGATTT
1 TTTTTTGATTTTTTGATTT
20970432 TTTTTTGATTTTTTGATTT
1 TTTTTTGATTTTTTGATTT
20970451 TT
1 TT
20970453 CTTTCGAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (19 bp):
TTTTTTGATTTTTTGATTT
Found at i:20974595 original size:14 final size:14
Alignment explanation
Indices: 20974578--20974607 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20974568 AGATTATAAA
20974578 ATATAGATATGTAT
1 ATATAGATATGTAT
*
20974592 ATATATATATGTAT
1 ATATAGATATGTAT
20974606 AT
1 AT
20974608 GTCTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
ATATAGATATGTAT
Found at i:20974750 original size:22 final size:21
Alignment explanation
Indices: 20974713--20974753 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
20974703 AATATCAATA
20974713 ATAATATAATAATAATATTGT
1 ATAATATAATAATAATATTGT
*
20974734 ATAATGATATTAATAATATT
1 ATAAT-ATAATAATAATATT
20974754 AAAACAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
ATAATATAATAATAATATTGT
Found at i:20983685 original size:30 final size:30
Alignment explanation
Indices: 20983646--20983702 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
20983636 TTTTATAAAT
20983646 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
20983676 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
20983703 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:20985573 original size:42 final size:42
Alignment explanation
Indices: 20985506--20985675 Score: 277
Period size: 42 Copynumber: 4.0 Consensus size: 42
20985496 CAAACAAAAA
* * *
20985506 CGCCGCTAAAGAACATGGTCATTAGCGGCGTTTTTTTATAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAG
*
20985548 CGCCTCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAG
* * *
20985590 AGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTCTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAG
20985632 CGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAG
20985674 CG
1 CG
20985676 TTTTTTAGCG
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 117 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAG
Found at i:20986079 original size:21 final size:21
Alignment explanation
Indices: 20986012--20986081 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
20986002 TTTGCTCTAT
* *
20986012 TCTGCTTCTCTCGCTACAGCC
1 TCTGCTTCCCTCGCTGCAGCC
20986033 TCTGCTTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCC
* * *
20986054 ACTGCTTCCCTCGCTGCTGCT
1 TCTGCTTCCCTCGCTGCAGCC
20986075 TCTGCTT
1 TCTGCTT
20986082 TAAATTGTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.06, C:0.43, G:0.17, T:0.34
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCC
Found at i:20987742 original size:9 final size:9
Alignment explanation
Indices: 20987728--20988157 Score: 139
Period size: 9 Copynumber: 48.7 Consensus size: 9
20987718 TAAATATTAA
20987728 TAAGTTATG
1 TAAGTTATG
20987737 TAAGTTAT-
1 TAAGTTATG
*
20987745 T-A--TAAG
1 TAAGTTATG
*
20987751 TACGTTATG
1 TAAGTTATG
20987760 TAAGTTAT-
1 TAAGTTATG
*
20987768 T-A--TAAG
1 TAAGTTATG
20987774 TAAGTTATG
1 TAAGTTATG
* *
20987783 AAAGTTATATA
1 TAAG-T-TATG
20987794 TAAG-T-TG
1 TAAGTTATG
20987801 TATA-TTATG
1 TA-AGTTATG
* *
20987810 TAAGTTTTT
1 TAAGTTATG
*
20987819 TAAGTTATA
1 TAAGTTATG
*
20987828 TAAGTTGTG
1 TAAGTTATG
20987837 T-A-TTATG
1 TAAGTTATG
20987844 TAAGTTATG
1 TAAGTTATG
*
20987853 TAAG-TCTG
1 TAAGTTATG
20987861 ATAAGTTATG
1 -TAAGTTATG
*
20987871 TTTAG-TAT-
1 -TAAGTTATG
20987879 TAA-TTAAT-
1 TAAGTT-ATG
20987887 TAAGTTATG
1 TAAGTTATG
*
20987896 TAAGTTGTG
1 TAAGTTATG
*
20987905 TAAGTTGTG
1 TAAGTTATG
20987914 T--GTTATG
1 TAAGTTATG
20987921 TAAGTTATG
1 TAAGTTATG
*
20987930 TAAG-TCTG
1 TAAGTTATG
*
20987938 ACAAGTTATG
1 -TAAGTTATG
*
20987948 TTTAGTATTAAT-
1 -TAAG--TT-ATG
20987960 TAAGTTATG
1 TAAGTTATG
*
20987969 TGAGTTATG
1 TAAGTTATG
*
20987978 TATAATATTAATG
1 --TAA-GTT-ATG
20987991 TAAGTTATG
1 TAAGTTATG
20988000 T-A-TTATG
1 TAAGTTATG
*
20988007 TAAGTTATT
1 TAAGTTATG
* *
20988016 TTAGTTTTG
1 TAAGTTATG
*
20988025 TAAGTTGTG
1 TAAGTTATG
20988034 T-A-TTATG
1 TAAGTTATG
*
20988041 TGAGTTATG
1 TAAGTTATG
* * *
20988050 CAATTTACG
1 TAAGTTATG
* *
20988059 TAGGTTATA
1 TAAGTTATG
20988068 T-AG-TATG
1 TAAGTTATG
*
20988075 TACGTTAT-
1 TAAGTTATG
*
20988083 TATGTTATTATG
1 TAAG---TTATG
20988095 TAAGTTATG
1 TAAGTTATG
* *
20988104 CAAGTTGTTATA
1 TAA---GTTATG
*
20988116 TAAGTTCTATA
1 TAAG-T-TATG
20988127 TAAGTTATG
1 TAAGTTATG
20988136 TAAGTTATG
1 TAAGTTATG
20988145 T-A-TTATG
1 TAAGTTATG
20988152 TAAGTT
1 TAAGTT
20988158 TATATATAAG
Statistics
Matches: 310, Mismatches: 60, Indels: 102
0.66 0.13 0.22
Matches are distributed among these distances:
5 4 0.01
6 2 0.01
7 41 0.13
8 34 0.11
9 168 0.54
10 16 0.05
11 26 0.08
12 14 0.05
13 5 0.02
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:20987758 original size:23 final size:23
Alignment explanation
Indices: 20987728--20987798 Score: 115
Period size: 23 Copynumber: 3.0 Consensus size: 23
20987718 TAAATATTAA
20987728 TAAGTTATGTAAGTTATTATAAG
1 TAAGTTATGTAAGTTATTATAAG
*
20987751 TACGTTATGTAAGTTATTATAAG
1 TAAGTTATGTAAGTTATTATAAG
*
20987774 TAAGTTATGAAAGTTATATATAAG
1 TAAGTTATGTAAGTTAT-TATAAG
20987798 T
1 T
20987799 TGTATATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 37 0.84
24 7 0.16
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.42
Consensus pattern (23 bp):
TAAGTTATGTAAGTTATTATAAG
Found at i:20987857 original size:34 final size:35
Alignment explanation
Indices: 20987773--20987934 Score: 123
Period size: 34 Copynumber: 4.4 Consensus size: 35
20987763 GTTATTATAA
* *
20987773 GTAAGTTATGAAAGTTATATATAAGTTGTATATTAT
1 GTAAGTTATGTAAG-TATATATAAGTTGTGTATTAT
* *
20987809 GTAAGTTTTTTAAGT-TATATAAGTTGTGTATTAT
1 GTAAGTTATGTAAGTATATATAAGTTGTGTATTAT
* *
20987843 GTAAGTTATGTAAGTCT-GATAAGTTATGTTTAGTATTAATT
1 GTAAGTTATGTAAGTATATATAAG-T-TG--T-GTATT-A-T
* * * *
20987884 AATTAAGTTATGTAAGT-TGTGTAAGTTGTGTGTTAT
1 --GTAAGTTATGTAAGTATATATAAGTTGTGTATTAT
20987920 GTAAGTTATGTAAGT
1 GTAAGTTATGTAAGT
20987935 CTGACAAGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
34 50 0.49
35 3 0.03
36 14 0.14
37 1 0.01
38 5 0.05
39 6 0.06
40 1 0.01
41 3 0.03
42 2 0.02
43 18 0.17
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (35 bp):
GTAAGTTATGTAAGTATATATAAGTTGTGTATTAT
Found at i:20987909 original size:77 final size:77
Alignment explanation
Indices: 20987810--20987962 Score: 252
Period size: 77 Copynumber: 2.0 Consensus size: 77
20987800 GTATATTATG
* * *
20987810 TAAGTTTTTTAAGTTATATAAGTTGTGTATTATGTAAGTTATGTAAGTCTGATAAGTTATGTTTA
1 TAAGTTATGTAAGTTATATAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
20987875 GTATTAATTAAT
66 GTATTAATTAAT
* * *
20987887 TAAGTTATGTAAGTTGTGTAAGTTGTGTGTTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
1 TAAGTTATGTAAGTTATATAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
20987952 GTATTAATTAA
66 GTATTAATTAA
20987963 GTTATGTGAG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (77 bp):
TAAGTTATGTAAGTTATATAAGTTGTGTATTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTA
GTATTAATTAAT
Found at i:20987975 original size:30 final size:30
Alignment explanation
Indices: 20987941--20988008 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
20987931 AAGTCTGACA
* *
20987941 AGTTATGTTTAGTATTAAT-TAAGTTATGT
1 AGTTATGTATAATATTAATGTAAGTTATGT
20987970 GAGTTATGTATAATATTAATGTAAGTTATGT
1 -AGTTATGTATAATATTAATGTAAGTTATGT
20988001 A-TTATGTA
1 AGTTATGTA
20988009 AGTTATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 7 0.20
30 18 0.51
31 10 0.29
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.49
Consensus pattern (30 bp):
AGTTATGTATAATATTAATGTAAGTTATGT
Found at i:20988006 original size:77 final size:76
Alignment explanation
Indices: 20987839--20988011 Score: 203
Period size: 77 Copynumber: 2.2 Consensus size: 76
20987829 AAGTTGTGTA
* * *
20987839 TTATGTAAGTTATGTAAGTCTGATAAGTTATGTTTAGTATTAATTAATTAAGTTATGTAAGTTGT
1 TTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTAGTATTAATTAATTAAGTTATGTAAGATAT
**
20987904 GTAAGTTGTGTG
66 GTAAG-TGTAAG
20987916 TTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTAGTATTAATTAAGTTATGTGAGTTATGTAT
1 TTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTAGTATTAATTAA-TTA----AGTTATGTA-
20987981 A-ATAT-TAA-TGTAAG
60 AGATATGTAAGTGTAAG
20987995 TTATGT-A-TTATGTAAGT
1 TTATGTAAGTTATGTAAGT
20988012 TATTTTAGTT
Statistics
Matches: 85, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
77 56 0.66
78 4 0.05
79 10 0.12
81 3 0.04
82 11 0.13
83 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (76 bp):
TTATGTAAGTTATGTAAGTCTGACAAGTTATGTTTAGTATTAATTAATTAAGTTATGTAAGATAT
GTAAGTGTAAG
Found at i:20988957 original size:13 final size:13
Alignment explanation
Indices: 20988939--20988997 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
20988929 CAAATTTTAG
*
20988939 TAAGTAATGTATT
1 TAAGTAATATATT
*
20988952 TAAGTAATTTATT
1 TAAGTAATATATT
*
20988965 TAAGTAACATATT
1 TAAGTAATATATT
*
20988978 CAAGTAATATATT
1 TAAGTAATATATT
*
20988991 AAAGTAA
1 TAAGTAA
20988998 ATTTTAGTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:20989058 original size:12 final size:13
Alignment explanation
Indices: 20989041--20989069 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
20989031 TAAGTCATGT
20989041 AAAATATAT-TTA
1 AAAATATATGTTA
20989053 AAAATATATGTTA
1 AAAATATATGTTA
20989066 AAAA
1 AAAA
20989070 AAACAGCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
AAAATATATGTTA
Found at i:20989417 original size:15 final size:15
Alignment explanation
Indices: 20989397--20989425 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20989387 CCACCAATCA
20989397 AAACAACTTAATGCG
1 AAACAACTTAATGCG
20989412 AAACAACTTAATGC
1 AAACAACTTAATGC
20989426 AGTATAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (15 bp):
AAACAACTTAATGCG
Found at i:20990826 original size:23 final size:22
Alignment explanation
Indices: 20990787--20990835 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
20990777 GCAAAACCCT
* *
20990787 TAAACCTTAAAATCCTAAGTCGC
1 TAAACCTTAAAACCCTAAATC-C
20990810 TAAACCGTT-AAACCCTAAATCC
1 TAAACC-TTAAAACCCTAAATCC
20990832 TAAA
1 TAAA
20990836 ACCAACAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 16 0.70
24 2 0.09
ACGTcount: A:0.43, C:0.27, G:0.06, T:0.24
Consensus pattern (22 bp):
TAAACCTTAAAACCCTAAATCC
Found at i:20991256 original size:14 final size:14
Alignment explanation
Indices: 20991237--20991277 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
20991227 TAAAGCAGCC
*
20991237 TAAACCCCAAACCT
1 TAAACCCTAAACCT
*
20991251 TAAACCTTAAACCT
1 TAAACCCTAAACCT
20991265 TAAACCCTAAACC
1 TAAACCCTAAACC
20991278 CAAAACACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:20991278 original size:7 final size:7
Alignment explanation
Indices: 20991235--20991311 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
20991225 ACTAAAGCAG
20991235 CCTAAAC
1 CCTAAAC
*
20991242 CCCAAAC
1 CCTAAAC
*
20991249 CTTAAAC
1 CCTAAAC
*
20991256 CTTAAAC
1 CCTAAAC
*
20991263 CTTAAAC
1 CCTAAAC
20991270 CCTAAAC
1 CCTAAAC
*
20991277 CCAAAAC
1 CCTAAAC
*
20991284 ACC-AAAA
1 -CCTAAAC
* *
20991291 CCTACAT
1 CCTAAAC
*
20991298 CATAAAC
1 CCTAAAC
20991305 CCTAAAC
1 CCTAAAC
20991312 TCAAAACTCT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
6 2 0.04
7 52 0.93
8 2 0.04
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.16
Consensus pattern (7 bp):
CCTAAAC
Found at i:20991981 original size:188 final size:190
Alignment explanation
Indices: 20991669--20992017 Score: 499
Period size: 188 Copynumber: 1.8 Consensus size: 190
20991659 TTAGTATAAA
* * *
20991669 TCAAGACCAAAACGCTGCATTTTGTTTAAGGTATTTTGCGGCGATAGCCACAAATCGCCGCTAAT
1 TCAAGACCAAAACGCTGCATTTTGGTTAAGATATTTTGCGGCGATAGCCACAAAGCGCCGCTAAT
* * *
20991734 ACTATGCTTTAGCGGTGTTTCATCGTAAGCGCCACTAAATCAAGTATACATCAAGACCAAAACGT
66 ACTATGCTTTAACGGCGTTTCACCGTAAGCGCCACTAAATCAAGTATACATCAAGACCAAAAC-T
* *
20991799 -TGCGTTTTGGTTCAGATATTTTACGGGGCTTACAAAAAGCGCCACTAATTCTTACATACC
130 ATGCGTTTTGGTTAAGATATTTTACGGCGCTTACAAAAAGCGCCACTAATTCTTACATACC
* * * ***
20991859 TCAAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCT-TTTAGCAAAGCGCCGCTAA
1 TCAAGACCAAAACGCTGCATTTTGGTTAAGATATTTTGCGGCGATAGCCA-CAAAGCGCCGCTAA
* *
20991922 TACTATGCTTTAACGGCGTTTC-CCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACT
65 TACTATGCTTTAACGGCGTTTCACCGTAAGCGCCACTAAATCAAGTATACATCAAGACCAAAACT
*
20991986 ATGCGTTTTGGTTAAGATATTTTGCGGCGCTT
130 ATGCGTTTTGGTTAAGATATTTTACGGCGCTT
20992018 CTCACAAAGC
Statistics
Matches: 140, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
187 1 0.01
188 67 0.48
189 64 0.46
190 8 0.06
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (190 bp):
TCAAGACCAAAACGCTGCATTTTGGTTAAGATATTTTGCGGCGATAGCCACAAAGCGCCGCTAAT
ACTATGCTTTAACGGCGTTTCACCGTAAGCGCCACTAAATCAAGTATACATCAAGACCAAAACTA
TGCGTTTTGGTTAAGATATTTTACGGCGCTTACAAAAAGCGCCACTAATTCTTACATACC
Found at i:20992034 original size:114 final size:112
Alignment explanation
Indices: 20991835--20992346 Score: 623
Period size: 114 Copynumber: 4.5 Consensus size: 112
20991825 GGCTTACAAA
* * *
20991835 AAGCGCCACTAATTCTTACATACCTCAAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGG
1 AAGCGCCACTAATTC-TATATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCGG
** * *
20991899 CGCTTTTAGCAAAGCGCCGCTAATACTATGCTTTAACGGCGTTTCCCGT
65 CGCTTCCA-CAAAGCGCCGCTAATACTATACTTTAGCGGCGTTTCCCGT
20991948 AAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCGG
1 AAGCGCCACTAATTCTA-TATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCGG
* * *
20992013 CGCTTCTCACAAAGCGCCGCTATTACTATTCTTTCGCGGCGGTTTCCCGT
65 CGCTTC-CACAAAGCGCCGCTAATACTATACTTTAGCGGC-GTTTCCCGT
* ** *
20992063 AAGCGCCACTAATTTTATATACATCAAGACCAAAACGCTGCATTTTGGTTAAGATATTTTGCGGC
1 AAGCGCCACTAATTCTATATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCGGC
* * * *
20992128 GCTAGCCACGAATCGCCGCTAATACTATATTTTAGCGGCGTTTCACCGT
66 GCT-TCCACAAAGCGCCGCTAATACTATACTTTAGCGGCGTTTC-CCGT
* * *
20992177 AAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTCAGATATTTTGTGG
1 AAGCGCCACTAATTCTA-TATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCGG
* * * * * * * *
20992242 CGTTTCCAAAAAGCGCCTCTAATACTGTCCTTTTGCGGCGTTTTCTCAT
65 CGCTTCCACAAAGCGCCGCTAATACTATACTTTAGCGGCG-TTTCCCGT
* * * *
20992291 AAACGCCACTAATTCTAACATACCTCAAGACC-AAACTTTGCGTTTTGGTTAAGATA
1 AAGCGCCACTAATTCT-ATATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATA
20992347 ACGGTGTTTC
Statistics
Matches: 347, Mismatches: 43, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
112 2 0.01
113 53 0.15
114 214 0.62
115 78 0.22
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (112 bp):
AAGCGCCACTAATTCTATATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCGGC
GCTTCCACAAAGCGCCGCTAATACTATACTTTAGCGGCGTTTCCCGT
Found at i:20992257 original size:228 final size:226
Alignment explanation
Indices: 20991835--20992346 Score: 724
Period size: 228 Copynumber: 2.2 Consensus size: 226
20991825 GGCTTACAAA
20991835 AAGCGCCACTAATTCTTACATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGC
1 AAGCGCCACTAATTCTTACATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGC
*
20991900 GCTTTTAGCAAAGCGCCGCTAATACTATGCTTTAACGGCGTTTCCCGTAAGCGCCACTAATTCTA
66 GC--TTAGCAAAGCGCCGCTAATACTATACTTTAACGGCGTTTCCCGTAAGCGCCACTAATTCTA
* *
20991965 GTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGC
129 GTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAGCGC
* * *
20992030 CGCTATTACTATTCTTTCGCGGCGGTTTCCCGT
194 CGCTAATACTATCCTTTCGCGGCGGTTTCCCAT
* * * *
20992063 AAGCGCCACTAATT-TTATATACATCAAGACCAAAACGCTGCATTTTGGTTAAGATATTTTGCGG
1 AAGCGCCACTAATTCTTACATACCTCAAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGG
* * *
20992127 CGC-TAGCCACGAATCGCCGCTAATACTATATTTTAGCGGCGTTTCACCGTAAGCGCCACTAATT
65 CGCTTAG-CA--AAGCGCCGCTAATACTATACTTTAACGGCGTTTC-CCGTAAGCGCCACTAATT
* * *
20992191 CTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTCAGATATTTTGTGGCGTTTC-CAAAAAG
126 CTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAG
* * * * *
20992255 CGCCTCTAATACTGTCCTTTTGCGGCGTTTTCTCAT
191 CGCCGCTAATACTATCCTTTCGCGGCGGTTTCCCAT
* * *
20992291 AAACGCCACTAATTCTAACATACCTCAAGACCAAACTTTGCGTTTTGGTTAAGATA
1 AAGCGCCACTAATTCTTACATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATA
20992347 ACGGTGTTTC
Statistics
Matches: 250, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
225 3 0.01
226 2 0.01
227 15 0.06
228 145 0.58
229 85 0.34
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (226 bp):
AAGCGCCACTAATTCTTACATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGC
GCTTAGCAAAGCGCCGCTAATACTATACTTTAACGGCGTTTCCCGTAAGCGCCACTAATTCTAGT
ATACATCAAGACCAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAGCGCCG
CTAATACTATCCTTTCGCGGCGGTTTCCCAT
Found at i:21002531 original size:30 final size:30
Alignment explanation
Indices: 21002495--21002553 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
21002485 CTTAACAAGC
21002495 AAATGTCTCTAAAATAATAACAAAATTAAT
1 AAATGTCTCTAAAATAATAACAAAATTAAT
*
21002525 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGTCTCTAAAATAATAACAAAATTAA
21002554 CAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAACAAAATTAAT
Found at i:21002611 original size:22 final size:22
Alignment explanation
Indices: 21002586--21002627 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21002576 TATACAAACA
21002586 ATAACAATAAAATAGTAGCAGC
1 ATAACAATAAAATAGTAGCAGC
* *
21002608 ATAATAGTAAAATAGTAGCA
1 ATAACAATAAAATAGTAGCA
21002628 AAATAGGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAGC
Found at i:21013584 original size:15 final size:15
Alignment explanation
Indices: 21013529--21013585 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
21013519 TTTATACTAC
21013529 AAAATATTTATTATT
1 AAAATATTTATTATT
* * *
21013544 AATATATTCATAATTGTA
1 AAAATATT--T-ATTATT
21013562 ATAAATATTTATTATT
1 A-AAATATTTATTATT
21013578 AAAATATT
1 AAAATATT
21013586 AATATTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 14 0.44
16 5 0.16
17 2 0.06
18 5 0.16
19 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:21013701 original size:16 final size:16
Alignment explanation
Indices: 21013655--21013704 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
21013645 TAAAATTAAA
21013655 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
21013672 A-A--AATAATAAATT
1 ATATTAATAATTTATT
21013685 ATATTAATAATTTATT
1 ATATTAATAATTTATT
21013701 ATAT
1 ATAT
21013705 GACTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:21015198 original size:15 final size:15
Alignment explanation
Indices: 21015159--21015207 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
21015149 AAATATGCGT
*
21015159 AATTATCTA-AAAAA
1 AATTATCAATAAAAA
21015173 AATTAACTCAATAAAAA
1 AATT-A-TCAATAAAAA
*
21015190 AATTATCAATAAACA
1 AATTATCAATAAAAA
21015205 AAT
1 AAT
21015208 GTACGAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 4 0.13
15 13 0.43
16 4 0.13
17 9 0.30
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (15 bp):
AATTATCAATAAAAA
Found at i:21020622 original size:3 final size:3
Alignment explanation
Indices: 21020614--21020664 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
21020604 TCTCTCCCTT
21020614 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21020662 TTA
1 TTA
21020665 CAATGCCATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21023282 original size:36 final size:36
Alignment explanation
Indices: 21023242--21023317 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
21023232 ATATCGATAT
* * *
21023242 TCCAATTGAAACACACCATATGCTCATAAGAGCTAG
1 TCCAACTGAAACACACCAAATGCTCATAAGAGCCAG
21023278 TCCAACTGAAACACACCAAATGCTCATAAGAGCCAG
1 TCCAACTGAAACACACCAAATGCTCATAAGAGCCAG
21023314 TCCA
1 TCCA
21023318 CCCAATAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.18
Consensus pattern (36 bp):
TCCAACTGAAACACACCAAATGCTCATAAGAGCCAG
Found at i:21024732 original size:62 final size:62
Alignment explanation
Indices: 21024635--21024760 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
21024625 ACCACTGTTC
* * * *
21024635 TGTCACCACTAAAAATTAGGTTGTTATAAGGGGACAAAGGCATGGAAATGGGATAATGTGAG
1 TGTCACCACTAAAAATCAGGTTGTTACAAGGGGACAAAGGCATGAAAATGGGATAATGGGAG
* *
21024697 TGTCACCACTAAAAATCGGGTTTTTACAAGGGGACAAAGGCATGAAAATGGGATAATGGGAG
1 TGTCACCACTAAAAATCAGGTTGTTACAAGGGGACAAAGGCATGAAAATGGGATAATGGGAG
21024759 TG
1 TG
21024761 AAAATGGGAG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.23
Consensus pattern (62 bp):
TGTCACCACTAAAAATCAGGTTGTTACAAGGGGACAAAGGCATGAAAATGGGATAATGGGAG
Found at i:21026651 original size:20 final size:19
Alignment explanation
Indices: 21026611--21026660 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
21026601 AAAAAACTAA
21026611 AATAATAAAT-TTAAGAAT
1 AATAATAAATATTAAGAAT
21026629 AATGAATAAATATTCAA-AAT
1 AAT-AATAAATATT-AAGAAT
21026649 AATAACTAAATA
1 AATAA-TAAATA
21026661 AAGAAACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 3 0.11
19 9 0.32
20 14 0.50
21 2 0.07
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (19 bp):
AATAATAAATATTAAGAAT
Found at i:21028649 original size:16 final size:16
Alignment explanation
Indices: 21028624--21028654 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21028614 AAAAGAAAAC
21028624 ACAAAGAGTTGTATTG
1 ACAAAGAGTTGTATTG
*
21028640 ACAAATAGTTGTATT
1 ACAAAGAGTTGTATT
21028655 AAATCAAAAA
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:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (16 bp):
ACAAAGAGTTGTATTG
Found at i:21030907 original size:18 final size:18
Alignment explanation
Indices: 21030884--21030925 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
21030874 TGCTCGGGTC
*
21030884 TATAGCGGCGTTTTCGTA
1 TATAGCGGCGTTTTCATA
21030902 TATAGCGGCGTTTTCATA
1 TATAGCGGCGTTTTCATA
21030920 TA-AGCG
1 TATAGCG
21030926 CCGCTAATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (18 bp):
TATAGCGGCGTTTTCATA
Found at i:21030937 original size:59 final size:60
Alignment explanation
Indices: 21030845--21030958 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 60
21030835 TTTAAACATT
** * * *
21030845 TAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGGTCTATAGCGGCGTTTTCGTATA
1 TAGCGGCGTTTTCATATAAGCGCCGCTAATGCTCCGAGTCTATAGCGGCGCTTTCGTATA
*
21030904 TAGCGGCGTTTTCATATAAGCGCCGCTAATGCTCCGAGTCTTTAGCGGCGCTTTC
1 TAGCGGCGTTTTCATATAAGCGCCGCTAATGCTCCGAGTCTATAGCGGCGCTTTC
21030959 ATCTAAGCGC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 30 0.62
60 18 0.38
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (60 bp):
TAGCGGCGTTTTCATATAAGCGCCGCTAATGCTCCGAGTCTATAGCGGCGCTTTCGTATA
Found at i:21030966 original size:42 final size:42
Alignment explanation
Indices: 21030904--21031135 Score: 245
Period size: 42 Copynumber: 5.6 Consensus size: 42
21030894 TTTTCGTATA
*
21030904 TAGCGGCGTTTTCATATAAGCGCCGCTAATGCTCCGAGTCTT
1 TAGCGGCGTTTTCATCTAAGCGCCGCTAATGCTCCGAGTCTT
*
21030946 TAGCGGCGCTTTCATCTAAGCGCCGCTAATGCTCCGAGTCTT
1 TAGCGGCGTTTTCATCTAAGCGCCGCTAATGCTCCGAGTCTT
* * * * *
21030988 TAGCGGCGTTTTCGTCTAAGCGCCGATAATGCTCTGTGTCTA
1 TAGCGGCGTTTTCATCTAAGCGCCGCTAATGCTCCGAGTCTT
* ** * *
21031030 CAGCGGCGTTTTCGCCTATGCGCCGCTAATGCT-CGGGTCTT
1 TAGCGGCGTTTTCATCTAAGCGCCGCTAATGCTCCGAGTCTT
* * * * * * *
21031071 TAGTGGCGTTTTTATATATGCGCCGCTAATTCTCC-TGTATT
1 TAGCGGCGTTTTCATCTAAGCGCCGCTAATGCTCCGAGTCTT
* *
21031112 CAGTGGCGTTTGT-ATCTAAGCGCC
1 TAGCGGCGTTT-TCATCTAAGCGCC
21031136 ACGAATGTAT
Statistics
Matches: 161, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
41 54 0.34
42 107 0.66
ACGTcount: A:0.16, C:0.26, G:0.25, T:0.33
Consensus pattern (42 bp):
TAGCGGCGTTTTCATCTAAGCGCCGCTAATGCTCCGAGTCTT
Done.