Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 82 of 356
Found at i:25817693 original size:30 final size:30
Alignment explanation
Indices: 25817659--25817716 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
25817649 CACAGTCATG
*
25817659 ACACACGGGCATGTGG-TCTACCCGTGTGTC
1 ACACACGGGCATATGGATC-ACCCGTGTGTC
*
25817689 ACACACGGGCCTATGGATCACCCGTGTG
1 ACACACGGGCATATGGATCACCCGTGTG
25817717 GAAGTGCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.21
Consensus pattern (30 bp):
ACACACGGGCATATGGATCACCCGTGTGTC
Found at i:25821431 original size:12 final size:12
Alignment explanation
Indices: 25821414--25821452 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
25821404 TGGTTTCCTC
25821414 AAAATGGAAATG
1 AAAATGGAAATG
* *
25821426 AAAATGAAAATA
1 AAAATGGAAATG
25821438 AAAATGGGAAATG
1 AAAAT-GGAAATG
25821451 AA
1 AA
25821453 TTGATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:25823315 original size:26 final size:25
Alignment explanation
Indices: 25823265--25823323 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 25
25823255 ATTTTTCTTG
25823265 AAATTTTATCGGGGTAAAATCATCA
1 AAATTTTATCGGGGTAAAATCATCA
*
25823290 AAATTTTATTGAGGGTAAAA-CTATCA
1 AAATTTTATCG-GGGTAAAATC-ATCA
25823316 AAATTTTA
1 AAATTTTA
25823324 CTGGGAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 11 0.35
26 20 0.65
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (25 bp):
AAATTTTATCGGGGTAAAATCATCA
Found at i:25825471 original size:22 final size:22
Alignment explanation
Indices: 25825429--25825471 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
25825419 GAGTTCTAAA
*
25825429 AAAATTATTCAATTTAAGTTAT
1 AAAATTATTCAATATAAGTTAT
*
25825451 AAAATCTATT-AATATATGTTA
1 AAAAT-TATTCAATATAAGTTA
25825472 AGGATGAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (22 bp):
AAAATTATTCAATATAAGTTAT
Found at i:25833442 original size:39 final size:39
Alignment explanation
Indices: 25833388--25833463 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
25833378 TCCTGTGGTT
25833388 GAGTGTTAATATACCATTAGGTTTACCCACATGAATTTA
1 GAGTGTTAATATACCATTAGGTTTACCCACATGAATTTA
25833427 GAGTGTTAATATACCATTAGGTTTACCCACATGAATT
1 GAGTGTTAATATACCATTAGGTTTACCCACATGAATT
25833464 CAGACTTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (39 bp):
GAGTGTTAATATACCATTAGGTTTACCCACATGAATTTA
Found at i:25835142 original size:44 final size:44
Alignment explanation
Indices: 25835094--25835182 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
25835084 ATGGCCAAAT
25835094 CTTAAATAGGTGGCACTTTGGAATGAACACAGATTTTGTTCTTA
1 CTTAAATAGGTGGCACTTTGGAATGAACACAGATTTTGTTCTTA
* * *
25835138 CTTAAATAGGTGGCACTTTGGAATGAACCCAGGTTTTGTTTTTA
1 CTTAAATAGGTGGCACTTTGGAATGAACACAGATTTTGTTCTTA
25835182 C
1 C
25835183 ATAACCATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (44 bp):
CTTAAATAGGTGGCACTTTGGAATGAACACAGATTTTGTTCTTA
Found at i:25841532 original size:22 final size:23
Alignment explanation
Indices: 25841507--25841552 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
25841497 CAATGCAACC
*
25841507 ATACATAAC-ATAAATTGAGAGA
1 ATACATAACAAGAAATTGAGAGA
* *
25841529 ATACCTAACAAGAAATTTAGAGA
1 ATACATAACAAGAAATTGAGAGA
25841552 A
1 A
25841553 AAAGTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (23 bp):
ATACATAACAAGAAATTGAGAGA
Found at i:25846926 original size:11 final size:11
Alignment explanation
Indices: 25846910--25846944 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
25846900 CACGTCTTGT
25846910 TTTTCTTTTGA
1 TTTTCTTTTGA
*
25846921 TTTTCTTTTGT
1 TTTTCTTTTGA
25846932 TTTTCCTTTTGA
1 TTTT-CTTTTGA
25846944 T
1 T
25846945 CTTGACCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.06, C:0.11, G:0.09, T:0.74
Consensus pattern (11 bp):
TTTTCTTTTGA
Found at i:25852279 original size:60 final size:60
Alignment explanation
Indices: 25852186--25852307 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
25852176 ATCTCTTTAC
*
25852186 TTCTAAGGCAGTAGGTGAATGTGGTAGAATCTTCAAAAGTAGTCAACCTTGCATATTCGA
1 TTCTAAGGCAGTAGGTGAATGTCGTAGAATCTTCAAAAGTAGTCAACCTTGCATATTCGA
*
25852246 TTCTAAGGCAGTAGGTGAATGTCGTAGAATCTTCGAAAGTAGTCAACCTTGCATATTCGA
1 TTCTAAGGCAGTAGGTGAATGTCGTAGAATCTTCAAAAGTAGTCAACCTTGCATATTCGA
25852306 TT
1 TT
25852308 TTTTGAATGT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (60 bp):
TTCTAAGGCAGTAGGTGAATGTCGTAGAATCTTCAAAAGTAGTCAACCTTGCATATTCGA
Found at i:25857164 original size:33 final size:33
Alignment explanation
Indices: 25857122--25857188 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
25857112 GCATTTGAAA
25857122 TAGTATATTGAGAGTGAGGAAAAATAATTTCAT
1 TAGTATATTGAGAGTGAGGAAAAATAATTTCAT
25857155 TAGTATATTGAGAGTGAGGAAAAATAATTTCAT
1 TAGTATATTGAGAGTGAGGAAAAATAATTTCAT
25857188 T
1 T
25857189 CACTGACTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (33 bp):
TAGTATATTGAGAGTGAGGAAAAATAATTTCAT
Found at i:25861047 original size:13 final size:13
Alignment explanation
Indices: 25861031--25861057 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25861021 TTTAAATCAA
25861031 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
25861044 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
25861057 A
1 A
25861058 TTGCCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:25861638 original size:39 final size:40
Alignment explanation
Indices: 25861576--25861664 Score: 137
Period size: 39 Copynumber: 2.2 Consensus size: 40
25861566 TTGCAAATAT
*
25861576 TTATATTAAAAAAACTATCATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACTATAATAAATATAATAAATATTTTA
25861616 TTATATTAAAAAATAC-A-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAA-ACTATAATAAATATAATAAATATTTTA
*
25861655 TTGTATTAAA
1 TTATATTAAA
25861665 TATAATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 30 0.65
40 14 0.30
41 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (40 bp):
TTATATTAAAAAAACTATAATAAATATAATAAATATTTTA
Found at i:25861805 original size:33 final size:32
Alignment explanation
Indices: 25861765--25861835 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 32
25861755 GTTAGTGATT
25861765 TAATATAAATATAATATATAATTATTATT-TAACA
1 TAATATAAAT-TAATATA-AA-TATTATTATAACA
*
25861799 T-ATAT-AATTAATATAAATATTTTTATAACA
1 TAATATAAATTAATATAAATATTATTATAACA
25861829 TAATATA
1 TAATATA
25861836 TTCGAGTCAG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
29 6 0.18
30 8 0.24
31 11 0.33
32 3 0.09
33 4 0.12
34 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (32 bp):
TAATATAAATTAATATAAATATTATTATAACA
Found at i:25861812 original size:29 final size:29
Alignment explanation
Indices: 25861772--25861835 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
25861762 ATTTAATATA
*
25861772 AATATAATATATAATTATTATT-TAACAT
1 AATATAATATATAAATATTATTATAACAT
*
25861800 -ATATAATTAATATAAATATTTTTATAACAT
1 AATATAA-T-ATATAAATATTATTATAACAT
25861830 AATATA
1 AATATA
25861836 TTCGAGTCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 6 0.20
28 1 0.03
29 12 0.40
30 6 0.20
31 5 0.17
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (29 bp):
AATATAATATATAAATATTATTATAACAT
Found at i:25887346 original size:40 final size:40
Alignment explanation
Indices: 25887272--25887478 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
25887262 CCTTCGGAGT
* *
25887272 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
* *
25887311 TTAGCCCGGTTATAATAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
25887351 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
25887391 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
25887430 TTAGCCC-GAAATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
25887470 TTAGCCCGG
1 TTAGCCCGG
25887479 TTATCAATCC
Statistics
Matches: 154, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
38 3 0.02
39 37 0.24
40 113 0.73
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:25895480 original size:17 final size:17
Alignment explanation
Indices: 25895460--25895542 Score: 73
Period size: 17 Copynumber: 4.9 Consensus size: 17
25895450 TCTCCTCTTC
* *
25895460 CTCTTCTTATTTTTTTT
1 CTCTTCTTCTTCTTTTT
*
25895477 CTCTTTCTTCTTCTTCTT
1 CTC-TTCTTCTTCTTTTT
*
25895495 CTCTTGTTCTTCTTTTT
1 CTCTTCTTCTTCTTTTT
*
25895512 CT-TT-TTCTTC-TTTG
1 CTCTTCTTCTTCTTTTT
*
25895526 CTTCTTCTTTTTCTTTT
1 C-TCTTCTTCTTCTTTT
25895543 ATTGCCCAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
14 4 0.07
15 7 0.13
16 4 0.07
17 22 0.41
18 17 0.31
ACGTcount: A:0.01, C:0.24, G:0.02, T:0.72
Consensus pattern (17 bp):
CTCTTCTTCTTCTTTTT
Found at i:25895487 original size:3 final size:3
Alignment explanation
Indices: 25895481--25895540 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
25895471 TTTTTTCTCT
* * * *
25895481 TTC TTC TTC TTC TTC -TC TTG TTC TTC TTT TTC TTT TTC TTC TT- TGC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
25895527 TTC TTC TTT TTC TT
1 TTC TTC TTC TTC TT
25895541 TTATTGCCCA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
2 3 0.07
3 42 0.93
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:25895499 original size:35 final size:35
Alignment explanation
Indices: 25895447--25895533 Score: 95
Period size: 35 Copynumber: 2.4 Consensus size: 35
25895437 AGAATTTTTC
* *
25895447 TCTTC-TCCTCTTCCTCTTCTTATTTTTTTTCTCTT
1 TCTTCTTCTTCTT-CTCTTCTTATTCTTTTTCTCTT
* * *
25895482 TCTTCTTCTTCTTCTCTTGTTCTTCTTTTTCTTTT
1 TCTTCTTCTTCTTCTCTTCTTATTCTTTTTCTCTT
25895517 TCTTCTTTGCTTCTTCT
1 TCTTC-TT-CTTCTTCT
25895534 TTTTCTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
35 28 0.64
36 8 0.18
37 8 0.18
ACGTcount: A:0.01, C:0.29, G:0.02, T:0.68
Consensus pattern (35 bp):
TCTTCTTCTTCTTCTCTTCTTATTCTTTTTCTCTT
Found at i:25895541 original size:6 final size:6
Alignment explanation
Indices: 25895463--25895542 Score: 56
Period size: 6 Copynumber: 13.2 Consensus size: 6
25895453 CCTCTTCCTC
* * * * * *
25895463 TTCTTAT TT-TTT TTCTCT TTCTTC TTCTTC TTC-TC TTGTTC TTCTTT
1 TTCTT-T TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
*
25895510 TTCTTT TTCTTCT TTGCTTC TTCTTT TTCTTT T
1 TTCTTT TTCTT-T TT-CTTT TTCTTT TTCTTT T
25895543 ATTGCCCAGC
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
5 7 0.11
6 44 0.72
7 7 0.11
8 3 0.05
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.74
Consensus pattern (6 bp):
TTCTTT
Found at i:25895541 original size:26 final size:26
Alignment explanation
Indices: 25895478--25895542 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
25895468 ATTTTTTTTC
*
25895478 TCTTTCTTCTTCTTCTTCTCTTGTTCT
1 TCTTT-TTCTTTTTCTTCTCTTGTTCT
25895505 TCTTTTTCTTTTTCTTCT-TTGCTTCT
1 TCTTTTTCTTTTTCTTCTCTTG-TTCT
25895531 TCTTTTTCTTTT
1 TCTTTTTCTTTT
25895543 ATTGCCCAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
25 3 0.08
26 28 0.78
27 5 0.14
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (26 bp):
TCTTTTTCTTTTTCTTCTCTTGTTCT
Found at i:25896972 original size:29 final size:30
Alignment explanation
Indices: 25896940--25897018 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
25896930 ATATTAATAT
* *
25896940 AAAATTTAAATTTATTATTATA-CTTTTTG
1 AAAATTTATATTTATTATTATATATTTTTG
* *
25896969 AAAATATT-TATTTATTTTTATATATTTTTT
1 AAAAT-TTATATTTATTATTATATATTTTTG
*
25896999 AAATTTTATATATTATTATT
1 AAAATTTATAT-TTATTATT
25897019 TGTTGTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
29 19 0.47
30 14 0.35
31 7 0.17
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (30 bp):
AAAATTTATATTTATTATTATATATTTTTG
Found at i:25897004 original size:23 final size:23
Alignment explanation
Indices: 25896978--25897078 Score: 62
Period size: 25 Copynumber: 4.0 Consensus size: 23
25896968 GAAAATATTT
*
25896978 ATTTATTTTTATATATTTTTTAA
1 ATTTATTATTATATATTTTTTAA
25897001 ATTTTATATATTAT-TATTTGTTGTGAACAA
1 A-TTTAT-TATTATATATTT-TT-T----AA
*
25897031 CATTT-TTATTTTTATATGATTTTTAA
1 -ATTTATTA-TTATATAT--TTTTTAA
25897057 ATTTATTATTATATATTTTTTA
1 ATTTATTATTATATATTTTTTA
25897079 GAAAATATTT
Statistics
Matches: 61, Mismatches: 3, Indels: 28
0.66 0.03 0.30
Matches are distributed among these distances:
23 7 0.11
24 10 0.16
25 18 0.30
26 6 0.10
28 2 0.03
29 4 0.07
30 9 0.15
31 3 0.05
32 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (23 bp):
ATTTATTATTATATATTTTTTAA
Found at i:25897099 original size:56 final size:53
Alignment explanation
Indices: 25896944--25897115 Score: 176
Period size: 55 Copynumber: 3.2 Consensus size: 53
25896934 TAATATAAAA
*
25896944 TTTAAATTTATTA-T-TATACTTTTTGAAAATATTTATTTATTTTTATATATTT
1 TTTAAATTTATTATTATATATTTTTTGAAAATATTTA-TTATTTTTATATATTT
*
25896996 TTTAAATTTTATATATTAT-TATTTGTTGTGAACAACATTT-TTATTTTTATATGA-TT
1 TTTAAA-TTTAT-TATTATATATTT-TT-TGAA-AATATTTATTATTTTTATAT-ATTT
*
25897052 TTTAAATTTATTATTATATATTTTTTAGAAAATATTTATGTATTTTTTTGA-ATTT
1 TTTAAATTTATTATTATATATTTTTT-GAAAATATTTAT-TATTTTTAT-ATATTT
25897107 TTTAGAATT
1 TTTA-AATT
25897116 GGGATCAAAT
Statistics
Matches: 101, Mismatches: 4, Indels: 26
0.77 0.03 0.20
Matches are distributed among these distances:
52 6 0.06
53 12 0.12
54 15 0.15
55 29 0.29
56 28 0.28
57 5 0.05
58 6 0.06
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (53 bp):
TTTAAATTTATTATTATATATTTTTTGAAAATATTTATTATTTTTATATATTT
Found at i:25898266 original size:53 final size:53
Alignment explanation
Indices: 25898199--25898300 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 53
25898189 TTTTCAATTG
25898199 GTAAGACACAATGTT-TCCGGTATTGAACAAAAGTGTTTAATTATTTTTTGTTT
1 GTAAGACACAATGTTCT-CGGTATTGAACAAAAGTGTTTAATTATTTTTTGTTT
* * * *
25898252 GTAATACACAATGTTCTCGGTCTTGAACAAAATTGTTTAATTTTTTTTT
1 GTAAGACACAATGTTCTCGGTATTGAACAAAAGTGTTTAATTATTTTTT
25898301 TCAGTATTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 43 0.98
54 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (53 bp):
GTAAGACACAATGTTCTCGGTATTGAACAAAAGTGTTTAATTATTTTTTGTTT
Found at i:25899757 original size:20 final size:20
Alignment explanation
Indices: 25899732--25899780 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
25899722 ATCGATTAAT
* *
25899732 TCAATTAATAGTAATTTGAG
1 TCAATTAACAGTAATTCGAG
*
25899752 TCAATTAACGGTAATTCGAG
1 TCAATTAACAGTAATTCGAG
25899772 TCAATTAAC
1 TCAATTAAC
25899781 CGATCAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (20 bp):
TCAATTAACAGTAATTCGAG
Found at i:25899789 original size:12 final size:12
Alignment explanation
Indices: 25899772--25899796 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25899762 GTAATTCGAG
25899772 TCAATTAACCGA
1 TCAATTAACCGA
25899784 TCAATTAACCGA
1 TCAATTAACCGA
25899796 T
1 T
25899797 TATACACGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (12 bp):
TCAATTAACCGA
Found at i:25900215 original size:28 final size:27
Alignment explanation
Indices: 25900181--25900233 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
25900171 CTTTTATATC
*
25900181 ATTATTTA-CTGAAATGGGCCTATTTTTT
1 ATTATTTACCGGAAAT-GGCC-ATTTTTT
25900209 ATTATTTACCGGAAATGGCCATTTT
1 ATTATTTACCGGAAATGGCCATTTT
25900234 CCCCGAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 5 0.22
28 12 0.52
29 6 0.26
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.45
Consensus pattern (27 bp):
ATTATTTACCGGAAATGGCCATTTTTT
Found at i:25900425 original size:16 final size:15
Alignment explanation
Indices: 25900393--25900429 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
25900383 TTGTCCTGAT
25900393 TTTTTAGGGTTAAGG
1 TTTTTAGGGTTAAGG
*
25900408 TTTTTAGGGTTTAGG
1 TTTTTAGGGTTAAGG
*
25900423 GTTTTAG
1 TTTTTAG
25900430 TGTGTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.51
Consensus pattern (15 bp):
TTTTTAGGGTTAAGG
Found at i:25900782 original size:126 final size:125
Alignment explanation
Indices: 25900557--25900865 Score: 451
Period size: 126 Copynumber: 2.4 Consensus size: 125
25900547 ATTAACTAAT
* * *
25900557 AATTACGGAAAAAAGCTCCTATGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
1 AATTACGGAAAAAAACTCC-ACGTGGACGCTTTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
* * *
25900622 GAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGGACTGTCTA-CAA
65 GAGAAGATGTTTCTAAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTATC-AGCAA
* *
25900683 AATTACGGAAAAAAACTCTCACATGGACGCTTTTTTGCTACAGTAGTATTTGAAAAAATAATTTT
1 AATTACGGAAAAAAACTC-CACGTGGACGCTTTTTTGCTACAGTAGTATCTGAAAAAATAATTTT
*
25900748 GAGAAGATGTTTCTGAAAAAAATAGTGTC-AAAACGCTTCAAGCAGGATGCACTATCAGCAA
65 GAGAAGATGTTTCT-AAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTATCAGCAA
* * *
25900809 AATTACGGAAAAAAACTCCCACGTGGACGATTTATTGCTATAGTAGTATCTGAAAAA
1 AATTACGGAAAAAAACT-CCACGTGGACGCTTTTTTGCTACAGTAGTATCTGAAAAA
25900866 GCCTTAGACT
Statistics
Matches: 165, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
125 1 0.01
126 149 0.90
127 15 0.09
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (125 bp):
AATTACGGAAAAAAACTCCACGTGGACGCTTTTTTGCTACAGTAGTATCTGAAAAAATAATTTTG
AGAAGATGTTTCTAAAAAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTATCAGCAA
Found at i:25902174 original size:16 final size:15
Alignment explanation
Indices: 25902153--25902182 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
25902143 GGTTCTTGAA
25902153 TAATATTGTTATTATG
1 TAATATTG-TATTATG
25902169 TAATATTGTATTAT
1 TAATATTGTATTAT
25902183 TTAACATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (15 bp):
TAATATTGTATTATG
Found at i:25904334 original size:132 final size:130
Alignment explanation
Indices: 25903948--25904791 Score: 1356
Period size: 131 Copynumber: 6.4 Consensus size: 130
25903938 ATATTTATTC
* * * * * * *
25903948 TAATGAAAATTATTGACTAATTTAAAAGAATATTTATTGTATTAAAATTTTAAAAAAAGTAAAAT
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAA--TTAAAAAAAGTAAAGT
* *
25904013 ACAATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAA-TAGATATAAA
64 ACAATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAATTAAATATAAA
25904077 AA
129 AA
*
25904079 TAAT-AAAAATATTGGCTAATTTAAAAGAATATTTATTTTAATAAAATTAAAAAAAAGTAAAGTA
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATT-AAAAAAAGTAAAGTA
* * * *
25904143 CGATTAAAGTATTAAAAATAACTTTTATTTTATTAATTGAAACTATATAAAAAATATATATATAA
65 CAATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATAT-AAAAAT-TAAATATAA
25904208 AAA
128 AAA
*
25904211 TAAT-AAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTGAAGTAC
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
25904275 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAATT-AATATAAAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAATTAAATATAAAAA
*
25904339 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAACT-AAAAAAGTAAAGTAC
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
*
25904403 AATTAAAATATTGAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAATTAAATATAAAAA
66 AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAATTAAATATAAAAA
*
25904468 TAATAAAAAAAATATTGGTTAATTTAAAAGAACATTTATTTTTAATAAAATTAAAAAAAAGTAAA
1 TAAT--AAAAAATATTGGCTAATTTAAAAGAACATTTA-TTTTAATAAAATT-AAAAAAAGTAAA
25904533 GTACAATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAATTAAATATA
62 GTACAATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAATTAAATATA
25904598 AAAA
127 AAAA
* *
25904602 TAATAAAAAATATTGTCTAATTTAAAAGAATATTTATTTTAATAAAATTTAAAAAAAGTAAAGTA
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAA-TTAAAAAAAGTAAAGTA
25904667 CAATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAAATTAAATATAAA
65 CAATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATAT-AAAAATTAAATATAAA
25904732 AA
129 AA
* *
25904734 TAATAAAAAATATTGTCTAATTTAAAAGAACATTAATTTTAATAAAATTAAAAAAAGT
1 TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGT
25904792 CAATGTTGGT
Statistics
Matches: 673, Mismatches: 27, Indels: 26
0.93 0.04 0.04
Matches are distributed among these distances:
128 82 0.12
129 116 0.17
130 49 0.07
131 179 0.27
132 164 0.24
134 83 0.12
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (130 bp):
TAATAAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAGTAAAGTAC
AATTAAAATATTAAAAACAACTTTTATTTTATTAATTGAAACTATATAAAAATTAAATATAAAAA
Found at i:25904342 original size:11 final size:11
Alignment explanation
Indices: 25904318--25904350 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
25904308 AATTGAAACT
25904318 ATATAAAAATTA
1 ATATAAAAA-TA
25904330 ATATAAAAATA
1 ATATAAAAATA
25904341 ATA-AAAAATA
1 ATATAAAAATA
25904351 TTGGCTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 5 0.24
12 9 0.43
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:25905179 original size:18 final size:18
Alignment explanation
Indices: 25905138--25905180 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
25905128 GACTGGAAAA
* *
25905138 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
* *
25905156 ACGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
25905174 AGGATAC
1 AGGATAC
25905181 GTACCTGGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:25905268 original size:30 final size:30
Alignment explanation
Indices: 25905249--25905327 Score: 158
Period size: 30 Copynumber: 2.6 Consensus size: 30
25905239 CAGGTGGCAG
25905249 TGTGGGCGCTGCTGATGGGCCCGGTGATTA
1 TGTGGGCGCTGCTGATGGGCCCGGTGATTA
25905279 TGTGGGCGCTGCTGATGGGCCCGGTGATTA
1 TGTGGGCGCTGCTGATGGGCCCGGTGATTA
25905309 TGTGGGCGCTGCTGATGGG
1 TGTGGGCGCTGCTGATGGG
25905328 TCCGCGTCGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.09, C:0.19, G:0.46, T:0.27
Consensus pattern (30 bp):
TGTGGGCGCTGCTGATGGGCCCGGTGATTA
Found at i:25905839 original size:7 final size:7
Alignment explanation
Indices: 25905829--25905875 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
25905819 TTATATACGT
25905829 AATACTA
1 AATACTA
25905836 AATACTA
1 AATACTA
*
25905843 AATAATA
1 AATACTA
25905850 AATACTA
1 AATACTA
25905857 AATACTA
1 AATACTA
*
25905864 AGTACTA
1 AATACTA
25905871 AATAC
1 AATAC
25905876 GAAACGACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:25906996 original size:21 final size:22
Alignment explanation
Indices: 25906951--25906997 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
25906941 ACAAAGCTTT
*
25906951 TTTG-CAAAAATTAAAGAGAGT
1 TTTGACAAAAATTAAAGAGAGA
25906972 TTTGACAAAAATTGAAAGA-A-A
1 TTTGACAAAAATT-AAAGAGAGA
25906993 TTTGA
1 TTTGA
25906998 GAGAATTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 9 0.39
22 9 0.39
23 5 0.22
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.30
Consensus pattern (22 bp):
TTTGACAAAAATTAAAGAGAGA
Found at i:25907002 original size:11 final size:11
Alignment explanation
Indices: 25906983--25907023 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
25906973 TTGACAAAAA
*
25906983 TTGAAAGAAAT
1 TTGAGAGAAAT
25906994 TTGAGAG-AAT
1 TTGAGAGAAAT
25907004 TTG-GAGAAAT
1 TTGAGAGAAAT
25907014 TTAGAGAGAA
1 TT-GAGAGAA
25907024 TTGTGAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
9 3 0.12
10 11 0.42
11 7 0.27
12 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (11 bp):
TTGAGAGAAAT
Found at i:25907793 original size:21 final size:20
Alignment explanation
Indices: 25907751--25907797 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
25907741 ATTGATACAA
**
25907751 TATTAATAATTTTTAATTTT
1 TATTAATAATTTTTAAAATT
25907771 TAATTAA-AATATTTTAAAATT
1 T-ATTAATAAT-TTTTAAAATT
25907792 TATTAA
1 TATTAA
25907798 GATTTAGTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTAATAATTTTTAAAATT
Found at i:25916517 original size:21 final size:19
Alignment explanation
Indices: 25916493--25916531 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
25916483 TAGACTATCG
*
25916493 AGAAAATATAAGTTACAACAA
1 AGAAAACAT-AGTTA-AACAA
25916514 AGAAAACATAGTTAAACA
1 AGAAAACATAGTTAAACA
25916532 GAGATTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (19 bp):
AGAAAACATAGTTAAACAA
Found at i:25917984 original size:12 final size:12
Alignment explanation
Indices: 25917967--25917991 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25917957 AAATTTAAAA
25917967 ATTTTAAAAATT
1 ATTTTAAAAATT
25917979 ATTTTAAAAATT
1 ATTTTAAAAATT
25917991 A
1 A
25917992 AAATTAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTTAAAAATT
Found at i:25924952 original size:23 final size:23
Alignment explanation
Indices: 25924926--25924969 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
25924916 CCTTTATCTA
25924926 TGTAATCCAACGAATATTTAACG
1 TGTAATCCAACGAATATTTAACG
25924949 TGTAATCCAACGAATATTTAA
1 TGTAATCCAACGAATATTTAA
25924970 GATGTGATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (23 bp):
TGTAATCCAACGAATATTTAACG
Found at i:25926746 original size:31 final size:30
Alignment explanation
Indices: 25926689--25926746 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
25926679 ATGTGTTCAG
* *
25926689 TTTTTATATTCAATTTAGTATTTAAGTGTT
1 TTTTTATATTCAAGTTAGTATCTAAGTGTT
* *
25926719 TTTTTTTATCTCAAGTTGGTATCTAAGT
1 TTTTTATAT-TCAAGTTAGTATCTAAGT
25926747 TTGGTTACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 8 0.35
31 15 0.65
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.57
Consensus pattern (30 bp):
TTTTTATATTCAAGTTAGTATCTAAGTGTT
Found at i:25930728 original size:15 final size:15
Alignment explanation
Indices: 25930708--25930738 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25930698 TTGACAACAT
25930708 TTTAGTATTTTAAGC
1 TTTAGTATTTTAAGC
25930723 TTTAGTATTTTAAGC
1 TTTAGTATTTTAAGC
25930738 T
1 T
25930739 ACCTCCCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (15 bp):
TTTAGTATTTTAAGC
Found at i:25935420 original size:25 final size:25
Alignment explanation
Indices: 25935386--25935433 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
25935376 TATTAGGTTA
25935386 ATTTAGTCTTGATTTTAAAAAAACT
1 ATTTAGTCTTGATTTTAAAAAAACT
25935411 ATTTAGTCTTGATTTTAAAAAAA
1 ATTTAGTCTTGATTTTAAAAAAA
25935434 TCTAACCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (25 bp):
ATTTAGTCTTGATTTTAAAAAAACT
Found at i:25938300 original size:39 final size:39
Alignment explanation
Indices: 25938257--25938409 Score: 177
Period size: 39 Copynumber: 4.0 Consensus size: 39
25938247 AAGCTGATTC
* * * *
25938257 CACTCCCCCATGCTACTTTGTTTTATTATTAATCAAAAA
1 CACTTCCCCATACTATTTTGTTTTATTATTAATTAAAAA
* *
25938296 CAC-T-CCCATGCTATTTTGTTTTATTGTTAATT-AAAA
1 CACTTCCCCATACTATTTTGTTTTATTATTAATTAAAAA
* * *
25938332 CTATTTCCCCATACTATTTTGTTTTATTGTTAATTAAAAT
1 C-ACTTCCCCATACTATTTTGTTTTATTATTAATTAAAAA
* *
25938372 TACTTCCTCATACTATTTTGTTTTATTATTAATTAAAA
1 CACTTCCCCATACTATTTTGTTTTATTATTAATTAAAA
25938410 CTATACTTTA
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
36 5 0.05
37 26 0.26
38 1 0.01
39 64 0.65
40 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.48
Consensus pattern (39 bp):
CACTTCCCCATACTATTTTGTTTTATTATTAATTAAAAA
Found at i:25938354 original size:76 final size:78
Alignment explanation
Indices: 25938262--25938413 Score: 218
Period size: 78 Copynumber: 2.0 Consensus size: 78
25938252 GATTCCACTC
* * *
25938262 CCCCATGCTACTTTGTTTTATTATTAATCAAAAACAC-TCC-CATGCTATTTTGTTTTATTGTTA
1 CCCCATACTACTTTGTTTTATTATTAATCAAAAACACTTCCTCATACTATTTTGTTTTATTATTA
25938325 ATTAAAACTATTT
66 ATTAAAACTATTT
* * * **
25938338 CCCCATACTATTTTGTTTTATTGTTAATTAAAATTACTTCCTCATACTATTTTGTTTTATTATTA
1 CCCCATACTACTTTGTTTTATTATTAATCAAAAACACTTCCTCATACTATTTTGTTTTATTATTA
25938403 ATTAAAACTAT
66 ATTAAAACTAT
25938414 ACTTTATTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
76 31 0.47
77 3 0.05
78 32 0.48
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (78 bp):
CCCCATACTACTTTGTTTTATTATTAATCAAAAACACTTCCTCATACTATTTTGTTTTATTATTA
ATTAAAACTATTT
Found at i:25939685 original size:45 final size:45
Alignment explanation
Indices: 25939621--25939706 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
25939611 CGATATCTGC
* *
25939621 TATCTTTGATCTGCCCCCCGTCTACTACAGAGACGCCAAATCTAT
1 TATCTTCGATCTGCCCCCCGTCTAATACAGAGACGCCAAATCTAT
*
25939666 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
1 TATCTTCGATCTGCCCCCCGTCTAATACAGAGACGCCAAAT
25939707 TTGCTTCTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.28
Consensus pattern (45 bp):
TATCTTCGATCTGCCCCCCGTCTAATACAGAGACGCCAAATCTAT
Found at i:25940196 original size:210 final size:211
Alignment explanation
Indices: 25939920--25940768 Score: 1168
Period size: 210 Copynumber: 4.1 Consensus size: 211
25939910 GATGCCAAAC
* * ** *
25939920 CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCAGCTATGTGTCTG-CTCTCCATC
1 CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTCTCCATC
* *
25939984 AAAGT-GAAGATGCCAAACTTTGATTCGTTCTCTGACAATACAGAGACGATAAATCATCTTAGAT
66 AAAGTGGAA-ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAT
* *
25940048 TTGCTTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTTGTTCCCTACCGAATAC
130 TTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCCTACCGAATAC
25940113 AGAGAGATAAGATCTGT
195 AGAGAGATAAGATCTGT
** * *
25940130 CATCTTGGATCTGCTTCAGTGTAAACATCTAAAGGTAAGATCTGCTATGTGTCTGCCT-TGCATC
1 CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTCTCCATC
* *
25940194 AAAGTGGAAATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCGTCTTAGATT
66 AAAGTGGAAATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
* *
25940259 TGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACA
131 TGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCCTACCGAATACA
*
25940324 TAGAGATAAGATCTGT
196 GAGAGATAAGATCTGT
* *
25940340 CATCTTGGATTTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCT-TCCATC
1 CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTCTCCATC
* * *
25940404 AAAGTGGAAATGCCAGACTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
66 AAAGTGGAAATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
* * * * * **** *
25940469 TGTTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATTTG-TTCCTTGTAAACACA
131 TGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCCTACCGAATACA
25940533 -AG-GATGCCAA-A-C---
196 GAGAGAT---AAGATCTGT
* * * * *
25940545 CATCTTGTATCCGCTTCAGCATAAACATCTGAAGGTCAGATCTGCTATGTGTCT-ACTCTCTATC
1 CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTCTCCATC
25940609 AAAGT-GAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAT
66 AAAGTGGAA-ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAT
* * * *
25940673 TTTCTTCATCGTAAACACGTGAAAGCCAAATCAACTATATCTTCGATATGCTCCCCACCGAATAC
130 TTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCCTACCGAATAC
25940738 AGAGAGATAAGATCTGT
195 AGAGAGATAAGATCTGT
*
25940755 CATCTTAGATCTGC
1 CATCTTGGATCTGC
25940769 CCCGATGAAG
Statistics
Matches: 561, Mismatches: 63, Indels: 30
0.86 0.10 0.05
Matches are distributed among these distances:
204 5 0.01
205 156 0.28
206 9 0.02
207 6 0.01
208 6 0.01
209 10 0.02
210 364 0.65
211 5 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (211 bp):
CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTCTCCATC
AAAGTGGAAATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATT
TGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCCTACCGAATACA
GAGAGATAAGATCTGT
Found at i:25940652 original size:205 final size:206
Alignment explanation
Indices: 25939797--25940726 Score: 1064
Period size: 210 Copynumber: 4.5 Consensus size: 206
25939787 AAATCTGCTT
* * * * * * *
25939797 CTTCGATTTGTTCCCTGATAATACAGAGATGCCAAATCATCTTAGATTTACTTTGA-CGTAAGCA
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT-GTTTCATCGTAAACA
* * * * *
25939861 CGTGAAAGCCAAATCAACTATGA--TTCAATTTGCTCCTTGTAAGCATA-AG-GATGCCAA-A-C
65 CGTGAAAGCCAAATCAGCTAT-ATCTTCGATTTGCTCCTTGCAAACACAGAGAGAT---AAGATC
* ** *
25939920 -CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCAGCTATGTGTCTGCTCTCCATC
126 TCATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGC-CTCCATC
25939984 AAAGT-GAAGATGCCAAA
190 AAAGTGGAA-ATGCCAAA
* * * * *
25940001 CTTTGATTCGTTCTCTGACAATACAGAGACGATAAATCATCTTAGATTTGCTTCATCGAAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAAACAC
* ** * *
25940066 GTGAAAGCCAAATCAGCTATATCTTCGATTTGTTCCCTACCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATTTGCT-CCTTGCAAACACAGAGAGATAAGATC--TC
* ** * *
25940131 ATCTTGGATCTGCTTCAGTGTAAACATCTAAAGGTAAGATCTGCTATGTGTCTGCCTTGCATCAA
128 ATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCC-TCCATCAA
25940196 AGTGGAAATGCCAAA
192 AGTGGAAATGCCAAA
* *
25940211 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCGTCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAAACAC
* * * * *
25940276 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACATAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCTTG-CAAACACAGAGAGATAAGATC--TC
** *
25940341 ATCTTGGATTTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
128 ATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCC-TCCATCAA
*
25940406 AGTGGAAATGCCAGA
192 AGTGGAAATGCCAAA
* *
25940421 CTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAAACAC
* * * *
25940486 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAACACA-AG-GATGCCAA-A-C-C
66 GTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCTTGCAAACACAGAGAGAT---AAGATCTC
* * * *
25940546 ATCTTGTATCCGCTTCAGCATAAACATCTGAAGGTCAGATCTGCTATGTGTCTACTCTCTATCAA
128 ATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGC-CTCCATCAA
25940611 AGT-GAAGATGCCAAA
192 AGTGGAA-ATGCCAAA
*
25940626 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT-TCTTCATCGTAAACA
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGT-TTCATCGTAAACA
* *
25940690 CGTGAAAGCCAAATCAACTATATCTTCGATATGCTCC
65 CGTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCC
25940727 CCACCGAATA
Statistics
Matches: 631, Mismatches: 75, Indels: 39
0.85 0.10 0.05
Matches are distributed among these distances:
203 4 0.01
204 72 0.11
205 169 0.27
206 8 0.01
207 6 0.01
208 6 0.01
209 9 0.01
210 354 0.56
211 3 0.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCTTGCAAACACAGAGAGATAAGATCTCATC
TTGGATCCGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTCCATCAAAGTG
GAAATGCCAAA
Found at i:25940713 original size:415 final size:417
Alignment explanation
Indices: 25939920--25940765 Score: 1199
Period size: 415 Copynumber: 2.0 Consensus size: 417
25939910 GATGCCAAAC
*
25939920 CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCAGCTATGTGTCTGCTCTCCATCA
1 CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCAAGATCAGCTATGTGTCTGCTCTCCATCA
*
25939985 AAGTGAAGATGCCAAACTTTGATTCGTTCTCTGACAATACAGAGACGATAAATCATCTTAGATTT
66 AAGTGAAGATGCCAAACTTTGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
* * *
25940050 GCTTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTTGTTCCCTACCGAATACAG
131 GCTTCAACGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTTGTTCCCTACCAAACACAG
* **
25940115 AGAGATAAGATCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTAAAGGTAAGATCTGCTATGT
196 AGAGATAAGATC--TCATCTTGGATCCGCTTCAGCATAAACATCTAAAGGTAAGATCTGCTATGT
* *
25940180 GTCTGCCTTGCATCAAAGTGGAAATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACA
259 GTCTACCTT-CATCAAAGTGGAAATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACA
* * *
25940245 AATCGTCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCT
323 AATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAACTATATCTTCGATATGCT
** *
25940310 CCCTGCCGAATACATAGAGATAAGATCTGT
388 CCCCACCGAATACAGAGAGATAAGATCTGT
** * * * *
25940340 CATCTTGGATTTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGC-CTTCCATC
1 CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCAAGATCAGCTATGTGTCTGCTC-TCCATC
* *
25940404 AAAGTGGAA-ATGCCAGACTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAT
65 AAAGT-GAAGATGCCAAACTTTGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAT
* * * * ***
25940468 TTGTTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTT-CCTTGTAAACAC
129 TTGCTTCAACGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTTGTTCCCTACCAAACAC
* * *
25940532 A-AG-GATGCCAA-A-C-CATCTTGTATCCGCTTCAGCATAAACATCTGAAGGTCAGATCTGCTA
194 AGAGAGAT---AAGATCTCATCTTGGATCCGCTTCAGCATAAACATCTAAAGGTAAGATCTGCTA
25940592 TGTGTCTA-CTCTCTATCAAAGT-GAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGA
256 TGTGTCTACCT-TC-ATCAAAGTGGAA-ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGA
*
25940655 CGACAAATCATCTTAGATTTTCTTCATCGTAAACACGTGAAAGCCAAATCAACTATATCTTCGAT
318 CGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAACTATATCTTCGAT
25940720 ATGCTCCCCACCGAATACAGAGAGATAAGATCTGT
383 ATGCTCCCCACCGAATACAGAGAGATAAGATCTGT
*
25940755 CATCTTAGATC
1 CATCTTGGATC
25940766 TGCCCCGATG
Statistics
Matches: 381, Mismatches: 37, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
414 6 0.02
415 195 0.51
417 3 0.01
418 3 0.01
419 10 0.03
420 161 0.42
421 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (417 bp):
CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCAAGATCAGCTATGTGTCTGCTCTCCATCA
AAGTGAAGATGCCAAACTTTGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
GCTTCAACGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATTTGTTCCCTACCAAACACAG
AGAGATAAGATCTCATCTTGGATCCGCTTCAGCATAAACATCTAAAGGTAAGATCTGCTATGTGT
CTACCTTCATCAAAGTGGAAATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAAT
CATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAACTATATCTTCGATATGCTCCC
CACCGAATACAGAGAGATAAGATCTGT
Found at i:25948768 original size:15 final size:15
Alignment explanation
Indices: 25948748--25948776 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25948738 TTTCAGATTT
25948748 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
25948763 TCTTTTCTACCTCT
1 TCTTTTCTACCTCT
25948777 TTGGAAAGTA
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:0.07, C:0.38, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:25948863 original size:15 final size:15
Alignment explanation
Indices: 25948822--25948871 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
25948812 ATAACCTTGA
* *
25948822 ATGCAGATG-ATGTG
1 ATGCAAATGTATGAG
25948836 ATG-AAATGTTATGAG
1 ATGCAAATG-TATGAG
25948851 ATGCAAATGTATGA-
1 ATGCAAATGTATGAG
25948865 ATGCAAA
1 ATGCAAA
25948872 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 12 0.39
16 5 0.16
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (15 bp):
ATGCAAATGTATGAG
Found at i:25948870 original size:14 final size:16
Alignment explanation
Indices: 25948835--25948871 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
25948825 CAGATGATGT
25948835 GATG-AAATGTTATGA
1 GATGCAAATGTTATGA
25948850 GATGCAAATG-TATGA
1 GATGCAAATGTTATGA
25948865 -ATGCAAA
1 GATGCAAA
25948872 AAGAATATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 9 0.43
16 5 0.24
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.27
Consensus pattern (16 bp):
GATGCAAATGTTATGA
Found at i:25962566 original size:21 final size:21
Alignment explanation
Indices: 25962536--25962624 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
25962526 CTCACAAAGA
* *
25962536 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
25962556 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
25962577 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
25962598 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
25962622 AAA
1 AAA
25962625 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:25962617 original size:24 final size:21
Alignment explanation
Indices: 25962536--25962604 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
25962526 CTCACAAAGA
* * *
25962536 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
25962556 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
25962577 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
25962598 AAAAAGA
1 AAAAAGA
25962605 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:25966785 original size:14 final size:14
Alignment explanation
Indices: 25966766--25966794 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25966756 TACAATATAT
25966766 ATAAGAATTATACG
1 ATAAGAATTATACG
25966780 ATAAGAATTATACG
1 ATAAGAATTATACG
25966794 A
1 A
25966795 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:25969203 original size:29 final size:29
Alignment explanation
Indices: 25969161--25969218 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
25969151 TATCTTCTAT
*
25969161 TAGGAATAGCGTTTTAATATGATAATAAA
1 TAGGAATAGCGTTTCAATATGATAATAAA
* *
25969190 TAGGAATAGCGTTTCGATATGATACTAAA
1 TAGGAATAGCGTTTCAATATGATAATAAA
25969219 AATGGGTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (29 bp):
TAGGAATAGCGTTTCAATATGATAATAAA
Found at i:25972510 original size:16 final size:16
Alignment explanation
Indices: 25972485--25972517 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
25972475 ACGGTATTCT
*
25972485 ATATTTTATAGTAGCA
1 ATATTCTATAGTAGCA
25972501 ATATTCTATAGTAGCA
1 ATATTCTATAGTAGCA
25972517 A
1 A
25972518 AGGAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (16 bp):
ATATTCTATAGTAGCA
Found at i:25973011 original size:15 final size:15
Alignment explanation
Indices: 25972978--25973011 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25972968 AGTTATGTCT
*
25972978 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
*
25972993 ATGTATGGAATTAGC
1 ATGTATGGAATTAGA
25973008 ATGT
1 ATGT
25973012 CAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:25974033 original size:19 final size:19
Alignment explanation
Indices: 25974011--25974050 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
25974001 TTAAACTTTT
* *
25974011 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
25974030 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
25974049 AT
1 AT
25974051 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:25975750 original size:14 final size:14
Alignment explanation
Indices: 25975731--25975759 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25975721 CTTTTTACTT
25975731 TGTTATATAGATTA
1 TGTTATATAGATTA
25975745 TGTTATATAGATTA
1 TGTTATATAGATTA
25975759 T
1 T
25975760 TATTTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TGTTATATAGATTA
Found at i:25975908 original size:21 final size:21
Alignment explanation
Indices: 25975884--25975923 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25975874 TTTATCAGTA
*
25975884 ATTCCATTTCATTTATATTAT
1 ATTCCATATCATTTATATTAT
*
25975905 ATTCTATATCATTTATATT
1 ATTCCATATCATTTATATT
25975924 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTAT
Found at i:25976532 original size:11 final size:11
Alignment explanation
Indices: 25976516--25976540 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25976506 CTTTATATTT
25976516 ATATACAATAA
1 ATATACAATAA
25976527 ATATACAATAA
1 ATATACAATAA
25976538 ATA
1 ATA
25976541 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:25977551 original size:21 final size:22
Alignment explanation
Indices: 25977524--25977581 Score: 93
Period size: 21 Copynumber: 2.7 Consensus size: 22
25977514 TTTAGTTTTT
25977524 CCAACCAAGAGAAAAGAAAAAA
1 CCAACCAAGAGAAAAGAAAAAA
25977546 -CAACCAAGAGAAAAGAAAAAA
1 CCAACCAAGAGAAAAGAAAAAA
25977567 CCGAA-CAAGAGAAAA
1 CC-AACCAAGAGAAAA
25977582 AAAGTCAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 21 0.62
22 11 0.32
23 2 0.06
ACGTcount: A:0.67, C:0.17, G:0.16, T:0.00
Consensus pattern (22 bp):
CCAACCAAGAGAAAAGAAAAAA
Found at i:25981948 original size:23 final size:23
Alignment explanation
Indices: 25981918--25981963 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
25981908 TATATTTTGA
25981918 GTTCGTATATAACTAGTCAATAT
1 GTTCGTATATAACTAGTCAATAT
25981941 GTTCGTATATAACTAGTCAATAT
1 GTTCGTATATAACTAGTCAATAT
25981964 CTAATATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (23 bp):
GTTCGTATATAACTAGTCAATAT
Found at i:25982526 original size:14 final size:14
Alignment explanation
Indices: 25982507--25982534 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25982497 TCAAGATAAA
25982507 GATAATATTGATCG
1 GATAATATTGATCG
25982521 GATAATATTGATCG
1 GATAATATTGATCG
25982535 AAGGTAAATA
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:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GATAATATTGATCG
Found at i:25983735 original size:29 final size:29
Alignment explanation
Indices: 25983693--25983750 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
25983683 TATTAACCGA
25983693 TTCCATAGATCTATGTAGTTCCAAAAAAG
1 TTCCATAGATCTATGTAGTTCCAAAAAAG
25983722 TTCCATAGATCTATGTAGTTCCAAAAAAG
1 TTCCATAGATCTATGTAGTTCCAAAAAAG
25983751 AATTTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (29 bp):
TTCCATAGATCTATGTAGTTCCAAAAAAG
Found at i:25996120 original size:15 final size:15
Alignment explanation
Indices: 25996088--25996116 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25996078 ACTATTAGTA
25996088 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
25996103 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
25996117 TATTGTACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:25999168 original size:30 final size:30
Alignment explanation
Indices: 25999122--25999245 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
25999112 TTTTATTATG
25999122 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TCGATACCCATATCTTTGACTTT
*
25999153 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTCGATACCCATATCTTTGACTTT
*
25999183 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTCGATACCCATATCTTTGACTTT
* * *
25999213 CTATTATTCGATACCCATATCTTTGATTTT
1 CCAATATTCGATACCCATATCTTTGACTTT
25999243 CCA
1 CCA
25999246 TAAATATGGA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 80 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTCGATACCCATATCTTTGACTTT
Found at i:25999177 original size:15 final size:15
Alignment explanation
Indices: 25999132--25999239 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
25999122 CCAATATCTC
25999132 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25999147 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25999162 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25999177 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25999192 GATACCCATATCTTT
1 GATACCCATATCTTT
** * * *
25999207 GACTTTCTAT-TATTC
1 GA-TACCCATATCTTT
25999222 GATACCCATATCTTT
1 GATACCCATATCTTT
25999237 GAT
1 GAT
25999240 TTTCCATAAA
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 12 0.18
15 41 0.63
16 12 0.18
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:26003860 original size:30 final size:30
Alignment explanation
Indices: 26003814--26003900 Score: 129
Period size: 30 Copynumber: 2.9 Consensus size: 30
26003804 TTTTATTATG
*
26003814 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
26003845 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
26003875 CTATTGTTTGATACCCATATCTTTGA
1 CCAATATTTGATACCCATATCTTTGA
26003901 TTTTTCATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 45 0.87
31 7 0.13
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:26003869 original size:15 final size:15
Alignment explanation
Indices: 26003824--26003901 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
26003814 CCAATATCTC
26003824 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
26003839 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
26003854 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
26003869 GACTTTCTAT-TGTTT
1 GA-TACCCATATCTTT
26003884 GATACCCATATCTTT
1 GATACCCATATCTTT
26003899 GAT
1 GAT
26003902 TTTTCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:26005396 original size:28 final size:29
Alignment explanation
Indices: 26005339--26005399 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
26005329 TTATGTGAAT
* *
26005339 TTTTAATAATTTTTAGTACCATTAAAATG
1 TTTTAATAAATTTAAGTACCATTAAAATG
* *
26005368 TTTTAATAAATTTAAGT-CCGTTACAATG
1 TTTTAATAAATTTAAGTACCATTAAAATG
26005396 TTTT
1 TTTT
26005400 TTTTATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (29 bp):
TTTTAATAAATTTAAGTACCATTAAAATG
Found at i:26016197 original size:28 final size:28
Alignment explanation
Indices: 26016165--26016230 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
26016155 AAATTTTTGT
*
26016165 TTTGGTCACTTAATTAAAAAAAATACTA
1 TTTGGCCACTTAATTAAAAAAAATACTA
26016193 TTTGGCCACTTAATTAAAAAAAATACTA
1 TTTGGCCACTTAATTAAAAAAAATACTA
26016221 TTTGGCCACT
1 TTTGGCCACT
26016231 AAACTCTCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (28 bp):
TTTGGCCACTTAATTAAAAAAAATACTA
Found at i:26024839 original size:28 final size:27
Alignment explanation
Indices: 26024781--26024839 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
26024771 CATCTGATAT
* ** *
26024781 TGATTCTGTATTGGGCTTAGGCCTTCT
1 TGATTCTGTATTGGGCTAAGGCCCACC
26024808 TGATTCTGTTATTGGGCTAAGGCCCACC
1 TGATTCTG-TATTGGGCTAAGGCCCACC
26024836 TGAT
1 TGAT
26024840 ACTATTTCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.39
Consensus pattern (27 bp):
TGATTCTGTATTGGGCTAAGGCCCACC
Found at i:26034875 original size:17 final size:17
Alignment explanation
Indices: 26034863--26034898 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
26034853 AGAGAAATGG
26034863 ATCATATTCAGAAATAA
1 ATCATATTCAGAAATAA
26034880 ATCATATTCAGAAATAA
1 ATCATATTCAGAAATAA
26034897 AT
1 AT
26034899 GTGTTTTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.31
Consensus pattern (17 bp):
ATCATATTCAGAAATAA
Found at i:26035543 original size:20 final size:20
Alignment explanation
Indices: 26035506--26035543 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26035496 ATAATGAGAA
*
26035506 TTTATTTTCTAAGTATAAAT
1 TTTATTTTCTAAGAATAAAT
*
26035526 TTTATTTTCTAGGAATAA
1 TTTATTTTCTAAGAATAA
26035544 CAATTCTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTATTTTCTAAGAATAAAT
Found at i:26039719 original size:16 final size:16
Alignment explanation
Indices: 26039698--26039748 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
26039688 TTCGCTGTAT
26039698 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
**
26039714 TGGAATAGAGAAGTAA
1 TGGAATAGAGGCGTAA
26039730 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
26039746 TGG
1 TGG
26039749 CAAATCAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.39, C:0.04, G:0.37, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:26043499 original size:19 final size:20
Alignment explanation
Indices: 26043477--26043517 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
26043467 AAGAAGAAAA
26043477 TTATATAACATT-AAAAATT
1 TTATATAACATTCAAAAATT
* *
26043496 TTATATAATATTCTAAAATT
1 TTATATAACATTCAAAAATT
26043516 TT
1 TT
26043518 CAATATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATATAACATTCAAAAATT
Found at i:26043530 original size:22 final size:20
Alignment explanation
Indices: 26043477--26043530 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
26043467 AAGAAGAAAA
* *
26043477 TTATATAACATT-AAAAATT
1 TTATATAAAATTCTAAAATT
*
26043496 TTATATAATATTCTAAAATT
1 TTATATAAAATTCTAAAATT
26043516 TTCAATATAAAATTC
1 TT--ATATAAAATTC
26043531 CATAGAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 11 0.38
20 8 0.28
22 10 0.34
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATATAAAATTCTAAAATT
Found at i:26062876 original size:23 final size:23
Alignment explanation
Indices: 26062850--26062895 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
26062840 CAAACCTTAT
26062850 GCCCAAACCCTGCATTTCTGACG
1 GCCCAAACCCTGCATTTCTGACG
26062873 GCCCAAACCCTGCATTTCTGACG
1 GCCCAAACCCTGCATTTCTGACG
26062896 CATGATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.39, G:0.17, T:0.22
Consensus pattern (23 bp):
GCCCAAACCCTGCATTTCTGACG
Found at i:26064736 original size:21 final size:22
Alignment explanation
Indices: 26064694--26064738 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
26064684 CTATTATAAA
*
26064694 TTTTTTTAAAAAAATTGTATAT
1 TTTTTTTAAAAAAATTGAATAT
*
26064716 TTTTTTTAAAATAA-TGAATAT
1 TTTTTTTAAAAAAATTGAATAT
26064737 TT
1 TT
26064739 ATATTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTTTTAAAAAAATTGAATAT
Found at i:26065016 original size:30 final size:30
Alignment explanation
Indices: 26064976--26065046 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
26064966 TTAAATTAGT
26064976 AAAA-ATAAAATTAT-ATTTTAATCTCCTAA
1 AAAATATAAAATTATGA-TTTAATCTCCTAA
* **
26065005 AAAATATAAAATTTTGATTTAATCTTTTAA
1 AAAATATAAAATTATGATTTAATCTCCTAA
*
26065035 AAATTATAAAAT
1 AAAATATAAAAT
26065047 CTAAACTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 4 0.11
30 31 0.86
31 1 0.03
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (30 bp):
AAAATATAAAATTATGATTTAATCTCCTAA
Found at i:26065879 original size:23 final size:23
Alignment explanation
Indices: 26065834--26065881 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
26065824 CAGCTCACCT
* *
26065834 TCTCCCACGTCCACAGCTTGCCA
1 TCTCCCACGTCCACAACTCGCCA
*
26065857 TCTCCCACGTCCATAACTCGCCA
1 TCTCCCACGTCCACAACTCGCCA
26065880 TC
1 TC
26065882 CCCTATTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.19, C:0.48, G:0.10, T:0.23
Consensus pattern (23 bp):
TCTCCCACGTCCACAACTCGCCA
Found at i:26071408 original size:15 final size:15
Alignment explanation
Indices: 26071390--26071420 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26071380 TAATATTAAA
*
26071390 TTATTTTTTATTTTT
1 TTATTTTTAATTTTT
26071405 TTATTTTTAATTTTT
1 TTATTTTTAATTTTT
26071420 T
1 T
26071421 AAGTAACTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TTATTTTTAATTTTT
Found at i:26074027 original size:24 final size:23
Alignment explanation
Indices: 26073999--26074047 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 23
26073989 GTATAAAATG
26073999 TCACTAACTTTGAGTATGGGATTC
1 TCACT-ACTTTGAGTATGGGATTC
26074023 T--C-ACTTTGAGTATGGGATTC
1 TCACTACTTTGAGTATGGGATTC
26074043 TCACT
1 TCACT
26074048 GGATGCCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
20 19 0.86
22 2 0.09
24 1 0.05
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (23 bp):
TCACTACTTTGAGTATGGGATTC
Found at i:26074030 original size:20 final size:20
Alignment explanation
Indices: 26074005--26074047 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
26073995 AATGTCACTA
26074005 ACTTTGAGTATGGGATTCTC
1 ACTTTGAGTATGGGATTCTC
26074025 ACTTTGAGTATGGGATTCTC
1 ACTTTGAGTATGGGATTCTC
26074045 ACT
1 ACT
26074048 GGATGCCGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (20 bp):
ACTTTGAGTATGGGATTCTC
Found at i:26074422 original size:37 final size:35
Alignment explanation
Indices: 26074381--26074453 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
26074371 CCGACGATAA
* *
26074381 TAATTATAAGCCTAGCTCTAGTTGGATAAACCAACAG
1 TAATTAT--GCCTAGCGCTAGTCGGATAAACCAACAG
* * *
26074418 TAATTGTGCCTAGCGCTAGTCGGATTAACCGACAG
1 TAATTATGCCTAGCGCTAGTCGGATAAACCAACAG
26074453 T
1 T
26074454 TATGTGCCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 25 0.81
37 6 0.19
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (35 bp):
TAATTATGCCTAGCGCTAGTCGGATAAACCAACAG
Found at i:26074429 original size:35 final size:34
Alignment explanation
Indices: 26074390--26074461 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 34
26074380 ATAATTATAA
* *
26074390 GCCTAGCTCTAGTTGGATAAACCAACAGTAATTGT
1 GCCTAGCGCTAGTCGGATAAACCAACAGTAA-TGT
* * *
26074425 GCCTAGCGCTAGTCGGATTAACCGACAGTTATGT
1 GCCTAGCGCTAGTCGGATAAACCAACAGTAATGT
26074459 GCC
1 GCC
26074462 CAGCAATAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
34 6 0.19
35 26 0.81
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (34 bp):
GCCTAGCGCTAGTCGGATAAACCAACAGTAATGT
Found at i:26075429 original size:13 final size:14
Alignment explanation
Indices: 26075399--26075432 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
26075389 TCCTACTAAC
26075399 TCTTTTATTTATTT
1 TCTTTTATTTATTT
26075413 TCTTTTATTTA-TT
1 TCTTTTATTTATTT
26075426 TCTTTTA
1 TCTTTTA
26075433 CTAACTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (14 bp):
TCTTTTATTTATTT
Found at i:26094044 original size:146 final size:145
Alignment explanation
Indices: 26093780--26094061 Score: 352
Period size: 146 Copynumber: 1.9 Consensus size: 145
26093770 TACCAGAAAA
* * *
26093780 ACTTTCCTTTAACAGAGATTGCCACTAAGATGTTTCCCTTCAAAGATTTTCTACAAAAGCGTTCT
1 ACTTTCCTTTAACAGAGATCGCCACAAAGATGTTTCCCTTCAAAGATTTAC-ACAAAAGCGTTCT
** * *
26093845 TAAACAAAGGTTGCCATAAGGACTTACCTTTCCAAAGTTCTGCCATAAAGGCATCATTTACATCC
65 TAAACAAACATTGCCATAAGGACTTACCTTTCCAAAGTTCTGCCACAAAGGCATCACTTACATCC
26093910 AGTACTTGCCACAAAG
130 AGTACTTGCCACAAAG
* * * *
26093926 ACTTTCTTTTAACAGAGATCGTCACAAAGATGTTT-CTTCTCAGAGATTTAC-CATAAAGACGTT
1 ACTTTCCTTTAACAGAGATCGCCACAAAGATGTTTCCCT-TCAAAGATTTACACA-AAAG-CGTT
* * * * * *
26093989 CTTAAACAGACATTGTCATAAGGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCATCCCTTACAT
63 CTTAAACAAACATTGCCATAAGGACTTACCTTTCCAAAGTTCTGCCACAAAGGCATCACTTACAT
*
26094054 CTAGTACT
128 CCAGTACT
26094062 CGCTACAGAG
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
144 2 0.02
145 6 0.05
146 107 0.93
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (145 bp):
ACTTTCCTTTAACAGAGATCGCCACAAAGATGTTTCCCTTCAAAGATTTACACAAAAGCGTTCTT
AAACAAACATTGCCATAAGGACTTACCTTTCCAAAGTTCTGCCACAAAGGCATCACTTACATCCA
GTACTTGCCACAAAG
Found at i:26094192 original size:61 final size:60
Alignment explanation
Indices: 26094031--26094196 Score: 181
Period size: 61 Copynumber: 2.7 Consensus size: 60
26094021 TCCAGAGTTT
* * * * * *
26094031 TGCCACAAAGGCATCCCTTACATCTAGTACTCGCTACAGAGGTTTTCCTATCTAGAGTTG
1 TGCCACAAAGGTATCCTTTACATCTAGTACTCGCTACAAAGGCTTTCCTATCTAGAATTA
* * * * * *
26094091 TGCCACAAAAGCTATCATTTACATCCAATACTAG-TCACAAAGGCTTTCCTGTCTAGAATTA
1 TGCCAC-AAAGGTATCCTTTACATCTAGTACTCGCT-ACAAAGGCTTTCCTATCTAGAATTA
*
26094152 TGCCACAAAGGTTGTCCTTTACATCTAGTACTCGCTACAAAGGCT
1 TGCCACAAAGG-TATCCTTTACATCTAGTACTCGCTACAAAGGCT
26094197 ATCATTTACA
Statistics
Matches: 84, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
60 11 0.13
61 72 0.86
62 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (60 bp):
TGCCACAAAGGTATCCTTTACATCTAGTACTCGCTACAAAGGCTTTCCTATCTAGAATTA
Found at i:26094252 original size:31 final size:32
Alignment explanation
Indices: 26094092--26094263 Score: 122
Period size: 32 Copynumber: 5.5 Consensus size: 32
26094082 CTAGAGTTGT
* * * *
26094092 GCCACAAAAGCTATCATTTACATCCAATACTA
1 GCCACAAAGGCTTTCCTTTACATCCAATACTC
* * **
26094124 GTCACAAAGGCTTTCCTGT-C-TAGAATTA-T-
1 GCCACAAAGGCTTTCCTTTACATCCAA-TACTC
* *
26094153 GCCACAAAGG-TTGTCCTTTACATCTAGTACTC
1 GCCACAAAGGCTT-TCCTTTACATCCAATACTC
* * * * *
26094185 GCTACAAAGGCTATCATTTACATGCAATACTA
1 GCCACAAAGGCTTTCCTTTACATCCAATACTC
* *
26094217 GCCAC-AAGGCTTTCCTTTACAACCACTACTC
1 GCCACAAAGGCTTTCCTTTACATCCAATACTC
26094248 GCCACAAAGGCCTTTC
1 GCCACAAAGG-CTTTC
26094264 TGTCCAGAGT
Statistics
Matches: 105, Mismatches: 26, Indels: 17
0.71 0.18 0.11
Matches are distributed among these distances:
28 2 0.02
29 14 0.13
30 7 0.07
31 31 0.30
32 45 0.43
33 6 0.06
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (32 bp):
GCCACAAAGGCTTTCCTTTACATCCAATACTC
Found at i:26094556 original size:53 final size:53
Alignment explanation
Indices: 26094410--26094558 Score: 199
Period size: 53 Copynumber: 2.8 Consensus size: 53
26094400 TTATTATTTT
*
26094410 CCATATGATGCCATAACTTACCAGTTACGGTCTTACATAATATAGTCTTCTCC
1 CCATATGATGCCATAACTTACCAGTTACGGTCTTACACAATATAGTCTTCTCC
* * * *
26094463 CCATATGATGCCATAACTTACCAATTGCGGTCTTATACAATATAGTCTTTTCC
1 CCATATGATGCCATAACTTACCAGTTACGGTCTTACACAATATAGTCTTCTCC
* ** ** *
26094516 CCATATAATGCCATAACCCACCAGTTACAATCTTGCACAATAT
1 CCATATGATGCCATAACTTACCAGTTACGGTCTTACACAATAT
26094559 TGTCCTTTAA
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 82 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (53 bp):
CCATATGATGCCATAACTTACCAGTTACGGTCTTACACAATATAGTCTTCTCC
Found at i:26100337 original size:34 final size:30
Alignment explanation
Indices: 26100299--26100365 Score: 80
Period size: 34 Copynumber: 2.1 Consensus size: 30
26100289 TATATTATTT
26100299 TAATAAAATTATATATTTATTATTTTATAAAAAG
1 TAATAAAATTA-ATA--TATTATTTT-TAAAAAG
* *
26100333 TAATAATATTAATATATTATTTTTAAATAG
1 TAATAAAATTAATATATTATTTTTAAAAAG
26100363 TAA
1 TAA
26100366 CTGTCGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 9 0.29
31 9 0.29
33 3 0.10
34 10 0.32
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
TAATAAAATTAATATATTATTTTTAAAAAG
Found at i:26101282 original size:3 final size:3
Alignment explanation
Indices: 26101274--26101321 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
26101264 AGTTTAAAAT
* * * *
26101274 TAA TAA TAA TAA TAA TGA TAA TAT TAA TAA TAA TGA TAG TAA CTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
26101320 TA
1 TA
26101322 GAATACCTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:26101301 original size:18 final size:18
Alignment explanation
Indices: 26101274--26101321 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
26101264 AGTTTAAAAT
26101274 TAATAATAATAATAATGA
1 TAATAATAATAATAATGA
*
26101292 TAATATTAATAATAATGA
1 TAATAATAATAATAATGA
*
26101310 TAGTAACTAATA
1 TAATAA-TAATA
26101322 GAATACCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (18 bp):
TAATAATAATAATAATGA
Found at i:26101372 original size:12 final size:13
Alignment explanation
Indices: 26101352--26101459 Score: 55
Period size: 12 Copynumber: 8.2 Consensus size: 13
26101342 TATATAAAAG
26101352 AATATAAATAAAT
1 AATATAAATAAAT
*
26101365 AATA-AAATGAAT
1 AATATAAATAAAT
*
26101377 AAAATAAGATAAAT
1 AATATAA-ATAAAT
* *
26101391 GTATTTAAA-AAAT
1 -AATATAAATAAAT
*
26101404 AATAATAAGTAAAT
1 AAT-ATAAATAAAT
*
26101418 AA-ATACAA-AAAA
1 AATATA-AATAAAT
*
26101430 AATAAAAATAATACT
1 AATATAAATAA-A-T
*
26101445 AATATTAAT-AAT
1 AATATAAATAAAT
26101457 AAT
1 AAT
26101460 GCTAAATTAA
Statistics
Matches: 70, Mismatches: 15, Indels: 21
0.66 0.14 0.20
Matches are distributed among these distances:
12 26 0.37
13 19 0.27
14 14 0.20
15 11 0.16
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (13 bp):
AATATAAATAAAT
Found at i:26101388 original size:22 final size:21
Alignment explanation
Indices: 26101345--26101388 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
26101335 TTGAAATTAT
26101345 ATAAAAGAATATAAATAAATA
1 ATAAAAGAATATAAATAAATA
26101366 ATAAAATGAATA-AAATAAGATA
1 ATAAAA-GAATATAAATAA-ATA
26101388 A
1 A
26101389 ATGTATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (21 bp):
ATAAAAGAATATAAATAAATA
Found at i:26101474 original size:18 final size:18
Alignment explanation
Indices: 26101436--26101470 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
26101426 AAAAAATAAA
26101436 AATAATACTAATATTAAT
1 AATAATACTAATATTAAT
*
26101454 AATAATGCTAA-ATTAAT
1 AATAATACTAATATTAAT
26101471 TAATTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (18 bp):
AATAATACTAATATTAAT
Found at i:26103081 original size:89 final size:88
Alignment explanation
Indices: 26102924--26103174 Score: 255
Period size: 89 Copynumber: 2.8 Consensus size: 88
26102914 ACTTTAATCC
* * * *
26102924 GCTCCACTGCAAATTCAGGGAGATAAGA-TTGATA-TTTTCAGTCTGC-TCTA-TTGCAACTTCA
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTG-TAGTTTT-AATCTGCTTC-ACTT-CAACTTCA
* *
26102985 AGGAGATAAGACTT-GTAATTTCAACCT
62 GGGAGATAAGA-TTCGTAACTTCAACCT
* * *
26103012 GCTCTACTGCAACTTTAGAGAGATAAGGTTTGCTA-TCTTTAATCTGCTTCACTGT-AACTTTAG
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTG-TAGT-TTTAATCTGCTTCACT-TCAACTTCAG
* **
26103075 GGAGATAAGATTCGTGACTTCAATTT
63 GGAGATAAGATTCGTAACTTCAACCT
* *
26103101 GCTCTACTGCAACTTCAGAGAGATAAGATTTGTAGTTTTAATCTGCTTTACTTCAACTTCAGAGA
1 GCTCTACTGCAACTTCAGAGAGATAAGATTTGTAGTTTTAATCTGCTTCACTTCAACTTCAGGGA
26103166 GATAAGATT
66 GATAAGATT
26103175 GCCATAATAA
Statistics
Matches: 137, Mismatches: 18, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
87 1 0.01
88 60 0.44
89 69 0.50
90 6 0.04
91 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (88 bp):
GCTCTACTGCAACTTCAGAGAGATAAGATTTGTAGTTTTAATCTGCTTCACTTCAACTTCAGGGA
GATAAGATTCGTAACTTCAACCT
Found at i:26103084 original size:133 final size:133
Alignment explanation
Indices: 26102883--26103171 Score: 331
Period size: 133 Copynumber: 2.2 Consensus size: 133
26102873 TTAATCCGAC
26102883 CTACTGCAACTTCAGAG-G-TATAGGATTTGTCACTTTAATCCGCTCCACTGCAAATTCAGGGAG
1 CTACTGCAACTTCAGAGAGATA-AGGATTTGTCACTTTAATCCGCTCCACTGCAAATTCAGGGAG
* * *
26102946 ATAAGATT-GAT-ATTTTCAGTCTGCTCTATTGCAACTTCA-AGGAGATAAGACTTGTAATTTCA
65 ATAAGATTCG-TGA-CTTCAATCTGCTCTACTGCAACTTCAGA-GAGATAAGACTTGTAATTTCA
26103008 ACCTGCT
127 ACCTGCT
* * * * * *
26103015 CTACTGCAACTTTAGAGAGATAAGG-TTTG-CTATCTTTAATCTGCTTCACTGTAACTTTAGGGA
1 CTACTGCAACTTCAGAGAGATAAGGATTTGTC-A-CTTTAATCCGCTCCACTGCAAATTCAGGGA
* * * * *
26103078 GATAAGATTCGTGACTTCAATTTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAGTTTTAAT
64 GATAAGATTCGTGACTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTCAAC
26103143 CTGCT
129 CTGCT
* *
26103148 TTACTTCAACTTCAGAGAGATAAG
1 CTACTGCAACTTCAGAGAGATAAG
26103172 ATTGCCATAA
Statistics
Matches: 133, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
131 1 0.01
132 21 0.16
133 106 0.80
134 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (133 bp):
CTACTGCAACTTCAGAGAGATAAGGATTTGTCACTTTAATCCGCTCCACTGCAAATTCAGGGAGA
TAAGATTCGTGACTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAATTTCAACCT
GCT
Found at i:26103268 original size:44 final size:44
Alignment explanation
Indices: 26102885--26103646 Score: 293
Period size: 44 Copynumber: 16.6 Consensus size: 44
26102875 AATCCGACCT
* * * *
26102885 ACTGCAACTTCAGAGG-TATAGGATTTGTCACTTTAATCCGCTCC
1 ACTGCAACTTCAG-GGAGATAAGATTTGTAACTTTAATCTGCTCC
* * * *
26102929 ACTGCAAATTCAGGGAGATAAGA-TTG-ATATTTTCAGTCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTA-ACTTT-AATCTGCTCC
* * * * *
26102973 ATTGCAACTTCAAGGAGATAAGACTTGTAA-TTTCAACCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAACTTT-AATCTGCTCC
* * * * *
26103017 ACTGCAACTTTAGAGAGATAAGGTTTGCTATCTTTAATCTGCTTC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TAACTTTAATCTGCTCC
* * * * * * *
26103062 ACTGTAACTTTAGGGAGATAAGATTCGTGACTTCAATTTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCTCC
* ** **
26103106 ACTGCAACTTCAGAGAGATAAGATTTGTAGTTTTAATCTGCTTT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCTCC
* * * *
26103150 ACTTCAACTTCAGAGAGATAAGATTGCCATAATAACTTCAATC--CATCCC
1 ACTGCAACTTCAGGGAGATAAGATT----T-GTAACTTTAATCTGC-T-CC
* * * *
26103199 ATTGCAAACTTTAGGG-GTATGAGATTTGTAACTTTAATCTACTCC
1 ACTGC-AACTTCAGGGAG-ATAAGATTTGTAACTTTAATCTGCTCC
* * * **
26103244 ACTGTAACTTTAGGGAGATAAGATTTTTTATTTTTAA-CTTGCTCC
1 ACTGCAACTTCAGGGAGATAAGA-TTTGTAACTTTAATC-TGCTCC
* * * * * * *
26103289 ACTGCAACTTCAAGGAAATAAGGTTTGCAATTTGTAGCTTTATTTTGATCT
1 ACTGCAACTTCAGGGAGATAA-----G--ATTTGTAACTTTAATCTGCTCC
* * * ** * *
26103340 ACTGCAACTTTAGGAAAATAAGATTCACT-ATTTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATT-TGTAACTTT-AATCTGCTCC
* * *
26103385 ACTGCAACTTTAGGGAGATAAGATTTGCAATTTGTAGCTTTAATCTGCTCT
1 ACTGCAACTTCAGGGAGAT-A-A---G--ATTTGTAACTTTAATCTGCTCC
** * * ** * *
26103436 GTTGCAACTTCAGGGAGTTTAGATTTGTGATTTTTAACCTTCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGT-AACTTTAATCTGCTCC
* * *
26103481 ACTGTAACTTCAGGGAGATAAGGTTTGAACTTCGATAGCTTTAATCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG----T--A-A-CTTTAATCTGCTCC
** * * * * *
26103533 ACAACAACCTT-AGGGAAATAAGATTTTCTATCTTTTACCTGCTCC
1 ACTGCAA-CTTCAGGGAGATAAGA-TTTGTAACTTTAATCTGCTCC
* * * ** *
26103578 ACTACAACTTCAGGAAGATAAGGTTTGTGGCTTTAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCTCC
* *
26103622 ACTGCAACTTTAGAGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
26103647 CGCCATAACA
Statistics
Matches: 528, Mismatches: 140, Indels: 100
0.69 0.18 0.13
Matches are distributed among these distances:
43 9 0.02
44 212 0.40
45 166 0.31
46 9 0.02
47 4 0.01
48 2 0.00
49 15 0.03
50 19 0.04
51 55 0.10
52 31 0.06
53 6 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTAACTTTAATCTGCTCC
Found at i:26103298 original size:45 final size:44
Alignment explanation
Indices: 26103240--26103410 Score: 108
Period size: 45 Copynumber: 3.7 Consensus size: 44
26103230 CTTTAATCTA
* *
26103240 CTCCACTGTAACTTTAGGGAGATAAGATTTTTTATTTTTAACTTG
1 CTCCACTGCAACTTTAGGGAAATAAGATTTTTTA-TTTTAACTTG
* * * * **
26103285 CTCCACTGCAACTTCAAGGAAATAAGGTTTGCAATTTGTAGCTTTATTTTG
1 CTCCACTGCAACTTTAGGGAAATAA-GATT----TTT-TA-TTTTAACTTG
* * * *** * *
26103336 ATCTACTGCAACTTTAGGAAAATAAGATTCACTATTTTCAGTCTG
1 CTCCACTGCAACTTTAGGGAAATAAGATTTTTTATTTTAACT-TG
*
26103381 CTCCACTGCAACTTTAGGGAGATAAGATTT
1 CTCCACTGCAACTTTAGGGAAATAAGATTT
26103411 GCAATTTGTA
Statistics
Matches: 92, Mismatches: 27, Indels: 14
0.69 0.20 0.11
Matches are distributed among these distances:
44 4 0.04
45 50 0.54
46 3 0.03
50 6 0.07
51 29 0.32
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (44 bp):
CTCCACTGCAACTTTAGGGAAATAAGATTTTTTATTTTAACTTG
Found at i:26103578 original size:97 final size:96
Alignment explanation
Indices: 26103222--26103604 Score: 353
Period size: 96 Copynumber: 4.0 Consensus size: 96
26103212 GGGGTATGAG
* * * * * * *
26103222 ATTTGTAACTTTAATCT-ACTCCACTGTAACTTTAGGGAGATAAGATTTTTTATTTTTAACTTGC
1 ATTTGTAGCTTTAATCTGA-TCTACTGCAACCTTAGGGAAATAAGATTTTCTATTTTTAACCTGC
* *
26103286 TCCACTGCAACTTCAAGGAAATAAGGTTTGCA
65 TCCACTGCAACTTCAGGGAGATAAGGTTTGCA
* * * * ** * **
26103318 ATTTGTAGCTTTATTTTGATCTACTGCAACTTTAGGAAAATAAGATTCACTATTTTCAGTCTGCT
1 ATTTGTAGCTTTAATCTGATCTACTGCAACCTTAGGGAAATAAGATTTTCTATTTTTAACCTGCT
* *
26103383 CCACTGCAACTTTAGGGAGATAAGATTTGCA
66 CCACTGCAACTTCAGGGAGATAAGGTTTGCA
* ** ** * * *
26103414 ATTTGTAGCTTTAATCTGCTCTGTTGCAA-CTTCAGGGAGTTTAGATTTGT-GATTTTTAACCTT
1 ATTTGTAGCTTTAATCTGATCTACTGCAACCTT-AGGGAAATAAGATTT-TCTATTTTTAACCTG
*
26103477 CTCCACTGTAACTTCAGGGAGATAAGGTTTG-A
64 CTCCACTGCAACTTCAGGGAGATAAGGTTTGCA
* * * **
26103509 ACTTCGATAGCTTTAATCTGTTCCACAACAACCTTAGGGAAATAAGATTTTCTATCTTTT-ACCT
1 A-TTTG-TAGCTTTAATCTGATCTACTGCAACCTTAGGGAAATAAGATTTTCTAT-TTTTAACCT
* *
26103573 GCTCCACTACAACTTCAGGAAGATAAGGTTTG
63 GCTCCACTGCAACTTCAGGGAGATAAGGTTTG
26103605 TGGCTTTAAT
Statistics
Matches: 226, Mismatches: 53, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
95 4 0.02
96 150 0.66
97 65 0.29
98 7 0.03
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (96 bp):
ATTTGTAGCTTTAATCTGATCTACTGCAACCTTAGGGAAATAAGATTTTCTATTTTTAACCTGCT
CCACTGCAACTTCAGGGAGATAAGGTTTGCA
Found at i:26108752 original size:93 final size:93
Alignment explanation
Indices: 26108589--26108853 Score: 467
Period size: 93 Copynumber: 2.8 Consensus size: 93
26108579 GCCCATAAGT
* * * * *
26108589 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
*
26108654 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
26108682 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
*
26108747 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
26108775 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
26108840 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
26108854 CAAATATCCC
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 164 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:26108849 original size:46 final size:46
Alignment explanation
Indices: 26108581--26108849 Score: 289
Period size: 46 Copynumber: 5.8 Consensus size: 46
26108571 TGTAACCCGC
* * * *
26108581 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
26108627 CCATGAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
26108677 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
26108720 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
26108770 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
26108813 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
26108850 TGCCCAAATA
Statistics
Matches: 184, Mismatches: 25, Indels: 28
0.78 0.11 0.12
Matches are distributed among these distances:
43 12 0.07
44 4 0.02
45 4 0.02
46 90 0.49
47 56 0.30
48 4 0.02
49 4 0.02
50 10 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:26114248 original size:46 final size:45
Alignment explanation
Indices: 26114176--26114348 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
26114166 TGTAACCCGC
*
26114176 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
* *
26114222 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * * *
26114272 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCAT
*
26114315 CCATAAGTGAACTCGGACTCAACTCAATGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
26114349 AGATGCCTAG
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.55
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:26114298 original size:47 final size:47
Alignment explanation
Indices: 26114230--26114402 Score: 228
Period size: 47 Copynumber: 3.7 Consensus size: 47
26114220 ATCCATGAGT
26114230 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
26114277 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-C
* *
26114323 GAACTCGGACTCAACTCAATGAGTTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
*
26114370 AAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
26114403 CAAATATCCC
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 27 0.25
47 59 0.56
48 2 0.02
49 2 0.02
50 6 0.06
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:26114347 original size:93 final size:93
Alignment explanation
Indices: 26114184--26114398 Score: 358
Period size: 93 Copynumber: 2.3 Consensus size: 93
26114174 GCCCATAAGT
* * * *
26114184 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
26114249 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
*
26114277 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
26114342 TGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
*
26114370 AAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
26114399 TGCCCAAATA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 114 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:26123865 original size:21 final size:21
Alignment explanation
Indices: 26123839--26123878 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
26123829 TTGAAATTAT
26123839 ATAAAAGG-ATATAAATAAATA
1 ATAAAAGGAATA-AAATAAATA
*
26123860 ATAAAATGAATAAAATAAA
1 ATAAAAGGAATAAAATAAA
26123879 ATAAGTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (21 bp):
ATAAAAGGAATAAAATAAATA
Found at i:26123918 original size:19 final size:18
Alignment explanation
Indices: 26123896--26123933 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
26123886 TATTTAAAAA
26123896 AAATAATAAGTAAATA-AAT
1 AAATAA-AAG-AAATATAAT
26123915 AAATAAAAGAAATATAAT
1 AAATAAAAGAAATATAAT
26123933 A
1 A
26123934 CTAATAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 7 0.39
19 6 0.33
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAAAAGAAATATAAT
Found at i:26124793 original size:28 final size:28
Alignment explanation
Indices: 26124734--26124796 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
26124724 GCTTTCTCTA
* *
26124734 TTTTTTTTTGTTTGGATTCGATTTTCT-
1 TTTTTTTTTGTTTGGATTCAATCTTCTG
* *
26124761 TTTTTTCTTTTTTTGGATTCAATCTTGTG
1 TTTTTT-TTTGTTTGGATTCAATCTTCTG
26124790 TTTTTTT
1 TTTTTTT
26124797 GTATTCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 6 0.20
28 18 0.60
29 6 0.20
ACGTcount: A:0.08, C:0.08, G:0.13, T:0.71
Consensus pattern (28 bp):
TTTTTTTTTGTTTGGATTCAATCTTCTG
Found at i:26129135 original size:3 final size:3
Alignment explanation
Indices: 26129127--26129158 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
26129117 CTAAATCACA
26129127 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
26129159 AGCACTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:26130164 original size:20 final size:20
Alignment explanation
Indices: 26130113--26130164 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
26130103 CTCGATTCTT
*
26130113 TTTGTTGTTTGAATCAATTC
1 TTTGTTGTTTAAATCAATTC
* * * **
26130133 ATTATTGCTTAAATTGATTC
1 TTTGTTGTTTAAATCAATTC
26130153 TTTGTTGTTTAA
1 TTTGTTGTTTAA
26130165 CCCAATTCAA
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.08, G:0.13, T:0.56
Consensus pattern (20 bp):
TTTGTTGTTTAAATCAATTC
Found at i:26130324 original size:22 final size:22
Alignment explanation
Indices: 26130299--26130341 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
26130289 GAATCGTTTA
*
26130299 TTTTGTTGATTGACTCAATTCT
1 TTTTGTTGATTGAATCAATTCT
*
26130321 TTTTGTTGTTTGAATCAATTC
1 TTTTGTTGATTGAATCAATTC
26130342 ATTATTGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (22 bp):
TTTTGTTGATTGAATCAATTCT
Found at i:26130361 original size:20 final size:20
Alignment explanation
Indices: 26130333--26130382 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
26130323 TTGTTGTTTG
*
26130333 AATCAATTCATTATTGCTTA
1 AATCGATTCATTATTGCTTA
* * *
26130353 AATCGATTCTTTGTTGTTTA
1 AATCGATTCATTATTGCTTA
*
26130373 ACTCGATTCA
1 AATCGATTCA
26130383 AACGCTAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (20 bp):
AATCGATTCATTATTGCTTA
Found at i:26131128 original size:27 final size:26
Alignment explanation
Indices: 26131068--26131128 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
26131058 TTAAATATAA
* *
26131068 TAATAT-ATTATATTTAAAAATAATT
1 TAATATAATGATATATAAAAATAATT
26131093 TAATATAATGATATATAAAATATAATT
1 TAATATAATGATATATAAAA-ATAATT
*
26131120 TAATTTAAT
1 TAATATAAT
26131129 TTTTTTATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 6 0.19
26 11 0.35
27 14 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
TAATATAATGATATATAAAAATAATT
Found at i:26136651 original size:12 final size:12
Alignment explanation
Indices: 26136634--26136660 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26136624 TTTTGAGCAT
26136634 ACACCCCGAAAG
1 ACACCCCGAAAG
26136646 ACACCCCGAAAG
1 ACACCCCGAAAG
26136658 ACA
1 ACA
26136661 AACGAAGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.41, G:0.15, T:0.00
Consensus pattern (12 bp):
ACACCCCGAAAG
Found at i:26138877 original size:17 final size:17
Alignment explanation
Indices: 26138857--26138892 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26138847 TGACTTCCTC
* *
26138857 AATTAATTATATATAAA
1 AATTAATAAAATATAAA
26138874 AATTAATAAAATATAAA
1 AATTAATAAAATATAAA
26138891 AA
1 AA
26138893 ATTTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTAATAAAATATAAA
Done.