Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 81 of 175
Found at i:25241947 original size:23 final size:23
Alignment explanation
Indices: 25241919--25241986 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
25241909 GCTAACGGAA
* *
25241919 TGCCATAAAGGCCAAATTAGAAT
1 TGCCATAAAGGCAAAATCAGAAT
25241942 TGCCATAAAGGCAAAATCAGAAT
1 TGCCATAAAGGCAAAATCAGAAT
**
25241965 ACACCATAAAGG--AAATCAGAAT
1 -TGCCATAAAGGCAAAATCAGAAT
25241987 GACACCTAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
22 10 0.25
23 21 0.52
24 9 0.22
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.18
Consensus pattern (23 bp):
TGCCATAAAGGCAAAATCAGAAT
Found at i:25241983 original size:22 final size:24
Alignment explanation
Indices: 25241944--25241992 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
25241934 ATTAGAATTG
25241944 CCATAAAGGCAAAATCAGAAT-ACA
1 CCATAAAGG-AAAATCAGAATGACA
25241968 CCATAAAGG-AAATCAGAATGACA
1 CCATAAAGGAAAATCAGAATGACA
25241991 CC
1 CC
25241993 TAAGCATTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 10 0.42
23 5 0.21
24 9 0.38
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.12
Consensus pattern (24 bp):
CCATAAAGGAAAATCAGAATGACA
Found at i:25251367 original size:31 final size:30
Alignment explanation
Indices: 25251332--25251390 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
25251322 TTTACATGAA
*
25251332 ATACATGGAAAT-GATTTTACATGATATATAG
1 ATACAT-GAAATGGATGTTACATG-TATATAG
*
25251363 ATACATGATATGGATGTTACATGTATAT
1 ATACATGAAATGGATGTTACATGTATAT
25251391 GGAAACTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (30 bp):
ATACATGAAATGGATGTTACATGTATATAG
Found at i:25257504 original size:24 final size:24
Alignment explanation
Indices: 25257471--25257541 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
25257461 ACGAGTTGAG
*
25257471 AATCGCTAAGCTCTCACGAGCTGC
1 AATCGATAAGCTCTCACGAGCTGC
25257495 AATCGATAAGCTCTCACGAGCTGC
1 AATCGATAAGCTCTCACGAGCTGC
* *
25257519 AATTGGTAAGCTCAT-ACGAGCTG
1 AATCGATAAGCTC-TCACGAGCTG
25257542 AGAATCGGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 42 0.98
25 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (24 bp):
AATCGATAAGCTCTCACGAGCTGC
Found at i:25262061 original size:8 final size:8
Alignment explanation
Indices: 25262043--25262071 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25262033 TATATATTGG
25262043 AAAAATA-
1 AAAAATAC
25262050 AAAAATAC
1 AAAAATAC
25262058 AAAAATAC
1 AAAAATAC
25262066 AAAAAT
1 AAAAAT
25262072 GACTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAATAC
Found at i:25263804 original size:23 final size:22
Alignment explanation
Indices: 25263764--25263807 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25263754 AAAATTCTAC
*
25263764 AAAAAGAAAAATGAAATAAAAT
1 AAAAAGAAAAATAAAATAAAAT
*
25263786 AAAAATAAAAATAAGAATAAAA
1 AAAAAGAAAAATAA-AATAAAA
25263808 AGATAAAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAAAGAAAAATAAAATAAAAT
Found at i:25269375 original size:3 final size:3
Alignment explanation
Indices: 25269367--25269407 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
25269357 AAATTAGTTA
25269367 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25269408 AAGGATAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:25269750 original size:31 final size:31
Alignment explanation
Indices: 25269707--25269799 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
25269697 AGGCAAATTA
25269707 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
*
25269738 CAAGAGTCATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
*
25269769 TAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
25269800 AAAATTATCT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:25274072 original size:11 final size:12
Alignment explanation
Indices: 25274055--25274121 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
25274045 GTAGGCAACT
*
25274055 TTTTTTTTGCGG
1 TTTTTTTTGCGC
25274067 TTTTTTTTGCGC
1 TTTTTTTTGCGC
** *
25274079 TTTTTGCTTTTTGT
1 TTTTT--TTTGCGC
*
25274093 TTTTTTTTGCGG
1 TTTTTTTTGCGC
*
25274105 TTTTTTTT-CAC
1 TTTTTTTTGCGC
25274116 TTTTTT
1 TTTTTT
25274122 CTTTTTTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
11 7 0.16
12 28 0.64
14 9 0.20
ACGTcount: A:0.01, C:0.10, G:0.15, T:0.73
Consensus pattern (12 bp):
TTTTTTTTGCGC
Found at i:25274072 original size:12 final size:12
Alignment explanation
Indices: 25274055--25274112 Score: 62
Period size: 12 Copynumber: 4.7 Consensus size: 12
25274045 GTAGGCAACT
25274055 TTTTTTTTGCGG
1 TTTTTTTTGCGG
*
25274067 TTTTTTTTGCGC
1 TTTTTTTTGCGG
** *
25274079 TTTTTGCTTTTTGT
1 TTTTT--TTTGCGG
25274093 TTTTTTTTGCGG
1 TTTTTTTTGCGG
25274105 TTTTTTTT
1 TTTTTTTT
25274113 CACTTTTTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 28 0.76
14 9 0.24
ACGTcount: A:0.00, C:0.09, G:0.17, T:0.74
Consensus pattern (12 bp):
TTTTTTTTGCGG
Found at i:25274109 original size:37 final size:37
Alignment explanation
Indices: 25274054--25274131 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 37
25274044 GGTAGGCAAC
*
25274054 TTTTTTTTTGCGGTTTTTTTTGCGCTTTTTGCTTTTT
1 TTTTTTTTTGCGGTTTTTTTTGCACTTTTTGCTTTTT
*
25274091 GTTTTTTTTTGCGGTTTTTTTT-CACTTTTTTCTTTTT
1 -TTTTTTTTTGCGGTTTTTTTTGCACTTTTTGCTTTTT
25274128 TTTT
1 TTTT
25274132 AAAGAATAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 4 0.11
37 13 0.34
38 21 0.55
ACGTcount: A:0.01, C:0.10, G:0.13, T:0.76
Consensus pattern (37 bp):
TTTTTTTTTGCGGTTTTTTTTGCACTTTTTGCTTTTT
Found at i:25274678 original size:31 final size:31
Alignment explanation
Indices: 25274643--25274704 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
25274633 AGGCAAATTA
25274643 CAAGAGTAATTGAATCCTAATAAAAATCTTT
1 CAAGAGTAATTGAATCCTAATAAAAATCTTT
*
25274674 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAATCTTT
25274705 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAAATCTTT
Found at i:25279977 original size:12 final size:13
Alignment explanation
Indices: 25279960--25279990 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
25279950 TAAATTGAAA
25279960 TAAAATAAAAA-C
1 TAAAATAAAAACC
25279972 TAAAATAAAAACC
1 TAAAATAAAAACC
25279985 TAAAAT
1 TAAAAT
25279991 TAACTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (13 bp):
TAAAATAAAAACC
Found at i:25280440 original size:13 final size:13
Alignment explanation
Indices: 25280410--25280434 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25280400 AATCAAACTT
25280410 CAAAAAATAAAAA
1 CAAAAAATAAAAA
25280423 CAAAAAATAAAA
1 CAAAAAATAAAA
25280435 TAAAAACACT
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:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
CAAAAAATAAAAA
Found at i:25290361 original size:17 final size:17
Alignment explanation
Indices: 25290334--25290375 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
25290324 AATGACTAAG
25290334 TTTTTCTACTTTTGTGA-C
1 TTTTTC-ACTTTT-TGATC
25290352 TTTTTCACTTTTTGATC
1 TTTTTCACTTTTTGATC
25290369 TTTTTCA
1 TTTTTCA
25290376 TACATCTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.13
17 14 0.61
18 6 0.26
ACGTcount: A:0.12, C:0.17, G:0.07, T:0.64
Consensus pattern (17 bp):
TTTTTCACTTTTTGATC
Found at i:25297221 original size:30 final size:30
Alignment explanation
Indices: 25297187--25297410 Score: 288
Period size: 30 Copynumber: 7.5 Consensus size: 30
25297177 ATGGTCGTCA
* * * *
25297187 CCATCTCTTTCCATAATTTGATAGTCGAAG
1 CCATCCCTTTTCATAATTCGATAGCCGAAG
*
25297217 CCATCCCTTTACATAATTCGATAGCCGAAG
1 CCATCCCTTTTCATAATTCGATAGCCGAAG
25297247 CCATCCCTTTTCATAATTCGATAGCCGAAG
1 CCATCCCTTTTCATAATTCGATAGCCGAAG
* *
25297277 CCATCCATTTTCATAAATCGATAGCCGAAG
1 CCATCCCTTTTCATAATTCGATAGCCGAAG
*
25297307 CCATCCCTTTTCATAATTCGATAGCTGAAG
1 CCATCCCTTTTCATAATTCGATAGCCGAAG
* * *
25297337 CCATCCCTTTTCATAATTTGATAGTCGCAG
1 CCATCCCTTTTCATAATTCGATAGCCGAAG
* * * * *
25297367 CCATCCATTTTCATAATTTGATGGTCGTCA-
1 CCATCCCTTTTCATAATTCGATAGCCG-AAG
25297397 CCATCCCTTTTCAT
1 CCATCCCTTTTCAT
25297411 TAGTCGATGA
Statistics
Matches: 176, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
30 174 0.99
31 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (30 bp):
CCATCCCTTTTCATAATTCGATAGCCGAAG
Found at i:25297418 original size:90 final size:90
Alignment explanation
Indices: 25297198--25297410 Score: 320
Period size: 90 Copynumber: 2.4 Consensus size: 90
25297188 CATCTCTTTC
*
25297198 CATAATTTGATAGTCGAAGCCATCCCTTTACATAATTCGATAGCCGAAGCCATCCCTTTTCATAA
1 CATAATTTGATAGTCGAAGCCATCCCTTTTCATAATTCGATAGCCGAAGCCATCCCTTTTCATAA
25297263 TTCGATAGCCGAAGCCATCCATTTT
66 TTCGATAGCCGAAGCCATCCATTTT
* * * *
25297288 CATAAATCGATAGCCGAAGCCATCCCTTTTCATAATTCGATAGCTGAAGCCATCCCTTTTCATAA
1 CATAATTTGATAGTCGAAGCCATCCCTTTTCATAATTCGATAGCCGAAGCCATCCCTTTTCATAA
* * *
25297353 TTTGATAGTCGCAGCCATCCATTTT
66 TTCGATAGCCGAAGCCATCCATTTT
* *
25297378 CATAATTTGATGGTCGTCA-CCATCCCTTTTCAT
1 CATAATTTGATAGTCG-AAGCCATCCCTTTTCAT
25297411 TAGTCGATGA
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 108 0.99
91 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (90 bp):
CATAATTTGATAGTCGAAGCCATCCCTTTTCATAATTCGATAGCCGAAGCCATCCCTTTTCATAA
TTCGATAGCCGAAGCCATCCATTTT
Found at i:25297425 original size:30 final size:31
Alignment explanation
Indices: 25297158--25297425 Score: 136
Period size: 30 Copynumber: 8.9 Consensus size: 31
25297148 ATGGTTGTTA
* *
25297158 CCATCCCATTTCAT--TGTTGATGGTCGTCA-
1 CCATCCCTTTTCATAAT-TTGATGATCGTCAG
* * *
25297187 CCATCTCTTTCCATAATTTGAT-AGTCG-AAG
1 CCATCCCTTTTCATAATTTGATGA-TCGTCAG
* * * *
25297217 CCATCCCTTTACATAATTCGAT-AGCCG-AAG
1 CCATCCCTTTTCATAATTTGATGA-TCGTCAG
* * *
25297247 CCATCCCTTTTCATAATTCGAT-AGCCG-AAG
1 CCATCCCTTTTCATAATTTGATGA-TCGTCAG
* * * * *
25297277 CCATCCATTTTCATAAATCGAT-AGCCG-AAG
1 CCATCCCTTTTCATAATTTGATGA-TCGTCAG
* * *
25297307 CCATCCCTTTTCATAATTCGAT-AGC-TGAAG
1 CCATCCCTTTTCATAATTTGATGATCGT-CAG
25297337 CCATCCCTTTTCATAATTTGAT-AGTCG-CAG
1 CCATCCCTTTTCATAATTTGATGA-TCGTCAG
* *
25297367 CCATCCATTTTCATAATTTGATGGTCGTCA-
1 CCATCCCTTTTCATAATTTGATGATCGTCAG
* * *
25297397 CCATCCCTTTTCATTAGTCGATGATCGTC
1 CCATCCCTTTTCATAATTTGATGATCGTC
25297426 GATACGCTGT
Statistics
Matches: 204, Mismatches: 25, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
29 13 0.06
30 187 0.92
31 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (31 bp):
CCATCCCTTTTCATAATTTGATGATCGTCAG
Found at i:25298701 original size:5 final size:5
Alignment explanation
Indices: 25298691--25298730 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
25298681 AGACATTAAT
*
25298691 AAATA AAATA AAATA AAATA AAATAGA AAATA AAGTA AAA
1 AAATA AAATA AAATA AAATA AAAT--A AAATA AAATA AAA
25298731 AATGAAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 26 0.84
7 5 0.16
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:25301285 original size:25 final size:25
Alignment explanation
Indices: 25301256--25301308 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
25301246 AACATAATTA
25301256 AAACATACTAAAATTGCTTGTATTC
1 AAACATACTAAAATTGCTTGTATTC
25301281 AAACATACTAAAATTGCTTGTATTC
1 AAACATACTAAAATTGCTTGTATTC
25301306 AAA
1 AAA
25301309 GTATGAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (25 bp):
AAACATACTAAAATTGCTTGTATTC
Found at i:25302873 original size:20 final size:20
Alignment explanation
Indices: 25302850--25302893 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
25302840 TTCTATCATT
*
25302850 TATTTATTTATTATTTTTAA
1 TATTTATTTATTATTCTTAA
25302870 TATTTATTTATTATTCTTAA
1 TATTTATTTATTATTCTTAA
25302890 -ATTT
1 TATTT
25302894 CTTATTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTATTTATTATTCTTAA
Found at i:25304183 original size:31 final size:31
Alignment explanation
Indices: 25304148--25304277 Score: 93
Period size: 31 Copynumber: 4.2 Consensus size: 31
25304138 CTTGGATAGT
* *
25304148 AAACACATAATAGATAGTCTGCTGGGACAGC
1 AAACACAGAACAGATAGTCTGCTGGGACAGC
* * * *
25304179 AAACACAGAATAAACT-GTCTGCTTGGACAGT
1 AAACACAGAACAGA-TAGTCTGCTGGGACAGC
* * * ** *
25304210 AAATACAAAACAGAGAGTCTATTGGGACAGT
1 AAACACAGAACAGATAGTCTGCTGGGACAGC
* * *
25304241 AAACATAGAACAGATATTCTGCCGGGACA-C
1 AAACACAGAACAGATAGTCTGCTGGGACAGC
25304271 TAAACAC
1 -AAACAC
25304278 GAGTTGGTCT
Statistics
Matches: 74, Mismatches: 22, Indels: 6
0.73 0.22 0.06
Matches are distributed among these distances:
31 73 0.99
32 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (31 bp):
AAACACAGAACAGATAGTCTGCTGGGACAGC
Found at i:25322689 original size:40 final size:39
Alignment explanation
Indices: 25322645--25322778 Score: 182
Period size: 39 Copynumber: 3.4 Consensus size: 39
25322635 GGATATAGCT
* * *
25322645 ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAACCCGGTT-TAGTA
*
25322685 ACTCGTACAAATGCCTTC-GGACTTAACCCGGATTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAACCCGGTTTAGTA
*
25322723 ACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAACCCGG-TTTAGTA
*
25322762 ACTCGCACAAATGCCTT
1 ACTCGTACAAATGCCTT
25322779 TGGATCTTAG
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
37 9 0.11
38 25 0.29
39 26 0.31
40 25 0.29
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (39 bp):
ACTCGTACAAATGCCTTCGGGACTTAACCCGGTTTAGTA
Found at i:25322771 original size:39 final size:40
Alignment explanation
Indices: 25322652--25322778 Score: 190
Period size: 38 Copynumber: 3.2 Consensus size: 40
25322642 GCTACTCGTT
* * *
25322652 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
25322692 CAAATGCCTTC-GGACTTAACCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25322730 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25322769 CAAATGCCTT
1 CAAATGCCTT
25322779 TGGATCTTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
37 9 0.11
38 26 0.32
39 26 0.32
40 19 0.24
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:25330711 original size:40 final size:40
Alignment explanation
Indices: 25330681--25330866 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
25330671 GCTACTCGTT
* *
25330681 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
25330721 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25330761 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
25330801 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
25330842 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
25330867 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:25332963 original size:50 final size:50
Alignment explanation
Indices: 25332897--25333082 Score: 164
Period size: 50 Copynumber: 3.7 Consensus size: 50
25332887 GAGGATGAGA
* * **
25332897 TCCCAAGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGACAAC
* * * * *
25332947 TCCCCCGTAAGACCATGTCTGTGACATGGTATAT-GCACTGATATGACAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCAT-TGGCACCGAGATGACAAC
* * * * *
25332997 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAGGA-AAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGACAAC
* * *
25333045 ATCCCATGTAAGACCATGTCTGGGACATAGCTTTGGCA
1 -TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
25333083 TTTTATTATC
Statistics
Matches: 111, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
48 4 0.04
49 38 0.34
50 68 0.61
51 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGACAAC
Found at i:25333301 original size:12 final size:12
Alignment explanation
Indices: 25333284--25333322 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
25333274 ATGAGTTATT
25333284 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
25333296 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
25333308 TAAGAAAGTAAG
1 TAAGTAAGCAAG
25333320 TAA
1 TAA
25333323 AGAAGAAACG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.05, G:0.21, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:25338957 original size:13 final size:13
Alignment explanation
Indices: 25338934--25338969 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
25338924 CCGTGTGAGT
*
25338934 CACACGACCTAGC
1 CACACGGCCTAGC
*
25338947 CACATGGCCTAGC
1 CACACGGCCTAGC
25338960 CACACGGCCT
1 CACACGGCCT
25338970 TGTGACCCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.25, C:0.44, G:0.19, T:0.11
Consensus pattern (13 bp):
CACACGGCCTAGC
Found at i:25350736 original size:13 final size:13
Alignment explanation
Indices: 25350718--25350747 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
25350708 AGCCCAAACT
25350718 CAATTACCCAACC
1 CAATTACCCAACC
25350731 CAATTACCCAACC
1 CAATTACCCAACC
25350744 CAAT
1 CAAT
25350748 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:25350899 original size:9 final size:9
Alignment explanation
Indices: 25350887--25350972 Score: 93
Period size: 9 Copynumber: 9.4 Consensus size: 9
25350877 AAAATAAAAA
25350887 AATTCGGGT
1 AATTCGGGT
*
25350896 AATTCAGGT
1 AATTCGGGT
*
25350905 ATTTTTC-GGT
1 A--ATTCGGGT
*
25350915 AATTCGGTT
1 AATTCGGGT
*
25350924 AATTCGGTT
1 AATTCGGGT
*
25350933 AATTCGGTT
1 AATTCGGGT
25350942 AATTCGGGT
1 AATTCGGGT
25350951 AATTCGGGT
1 AATTCGGGT
*
25350960 AATTCGGCT
1 AATTCGGGT
25350969 AATT
1 AATT
25350973 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
8 3 0.04
9 58 0.85
10 4 0.06
11 3 0.04
ACGTcount: A:0.23, C:0.12, G:0.24, T:0.41
Consensus pattern (9 bp):
AATTCGGGT
Found at i:25354140 original size:28 final size:27
Alignment explanation
Indices: 25354109--25354174 Score: 69
Period size: 30 Copynumber: 2.3 Consensus size: 27
25354099 ATAAAAAAAG
**
25354109 AATAATTAAAATTATAAAATTTATTAGA
1 AATAATTAAAACCATAAAATTTATTA-A
*
25354137 AATAAATTAAAAACCATATAATTTATTAA
1 AAT-AATT-AAAACCATAAAATTTATTAA
*
25354166 AAAAATTAA
1 AATAATTAA
25354175 TTTATTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.06
28 7 0.22
29 7 0.22
30 16 0.50
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.35
Consensus pattern (27 bp):
AATAATTAAAACCATAAAATTTATTAA
Found at i:25354166 original size:19 final size:19
Alignment explanation
Indices: 25354142--25354190 Score: 75
Period size: 17 Copynumber: 2.7 Consensus size: 19
25354132 TTAGAAATAA
25354142 ATTAAAAACCATATAATTT
1 ATTAAAAACCATATAATTT
*
25354161 ATTAAAAA-AAT-TAATTT
1 ATTAAAAACCATATAATTT
25354178 ATTAAAAACCATA
1 ATTAAAAACCATA
25354191 AAAATAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 14 0.54
18 4 0.15
19 8 0.31
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAAAAACCATATAATTT
Found at i:25354253 original size:10 final size:10
Alignment explanation
Indices: 25354238--25354297 Score: 77
Period size: 10 Copynumber: 5.9 Consensus size: 10
25354228 AATTAAAACC
25354238 ATAAAATTTT
1 ATAAAATTTT
*
25354248 ATAAAAATAATT
1 AT-AAAAT-TTT
*
25354260 A-AATATTTT
1 ATAAAATTTT
25354269 ATAAAATTTT
1 ATAAAATTTT
25354279 ATAAAATTTT
1 ATAAAATTTT
25354289 ATAAAATTT
1 ATAAAATTT
25354298 ATTTTTCTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 3 0.07
10 32 0.74
11 5 0.12
12 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:25354544 original size:20 final size:20
Alignment explanation
Indices: 25354521--25354639 Score: 78
Period size: 20 Copynumber: 5.8 Consensus size: 20
25354511 TTATTTTTTC
*
25354521 TAAATTTTTATGGTTTTTAA
1 TAAATTTTTATAGTTTTTAA
**
25354541 TAAATTATTTTATAAATTTT-A
1 TAAA-T-TTTTATAGTTTTTAA
* *
25354562 TAAAATTTTATTGTTTTTAA
1 TAAATTTTTATAGTTTTTAA
** * * * *
25354582 TTTATTTCTAAAATTTTTTA
1 TAAATTTTTATAGTTTTTAA
* *
25354602 TAAATTTTAATGATTTTTTAA
1 TAAATTTTTAT-AGTTTTTAA
*
25354623 TAATTTTTTATAGTTTT
1 TAAATTTTTATAGTTTT
25354640 AATTCTAAAA
Statistics
Matches: 70, Mismatches: 25, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
19 10 0.14
20 28 0.40
21 22 0.31
22 10 0.14
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (20 bp):
TAAATTTTTATAGTTTTTAA
Found at i:25354578 original size:41 final size:40
Alignment explanation
Indices: 25354516--25354634 Score: 120
Period size: 41 Copynumber: 3.0 Consensus size: 40
25354506 ATAAATTATT
* * *
25354516 TTTTCTAAATTTTTATGGTTTTTAATAAATTATTTTATAAA
1 TTTTATAAAATTTTATTGTTTTTAAT-AATTATTTTATAAA
25354557 TTTTATAAAATTTTATTGTTTTTAAT--TTATTTCTA-AAA
1 TTTTATAAAATTTTATTGTTTTTAATAATTATTT-TATAAA
* *
25354595 TTTTTTATAAATTTTAATGATTTTTTAATAATT-TTTTATA
1 TTTTATA-AAATTTTATTG--TTTTTAATAATTATTTTATA
25354635 GTTTTAATTC
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
38 15 0.23
39 12 0.18
41 33 0.50
42 4 0.06
43 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (40 bp):
TTTTATAAAATTTTATTGTTTTTAATAATTATTTTATAAA
Found at i:25354610 original size:30 final size:28
Alignment explanation
Indices: 25354576--25354643 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 28
25354566 ATTTTATTGT
25354576 TTTTAATTTATTTCTAA-AATTTTTTATAAA
1 TTTTAATTT-TTT-TAATAATTTTTTAT-AA
*
25354606 TTTTAATGATTTTTTAATAATTTTTTATAG
1 TTTTAAT--TTTTTTAATAATTTTTTATAA
25354636 TTTTAATT
1 TTTTAATT
25354644 CTAAAATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
28 1 0.03
30 18 0.53
31 13 0.38
32 2 0.06
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (28 bp):
TTTTAATTTTTTTAATAATTTTTTATAA
Found at i:25356430 original size:15 final size:15
Alignment explanation
Indices: 25356410--25356439 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25356400 CTTTTTGACA
25356410 AAATTGCAATATGTT
1 AAATTGCAATATGTT
25356425 AAATTGCAATATGTT
1 AAATTGCAATATGTT
25356440 TTGCAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (15 bp):
AAATTGCAATATGTT
Found at i:25369732 original size:45 final size:46
Alignment explanation
Indices: 25369641--25369734 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
25369631 GTATAAAGGT
25369641 ACTTTTATCAGTTATGATACATACACAAAAAAAATATTCATAATAA
1 ACTTTTATCAGTTATGATACATACACAAAAAAAATATTCATAATAA
25369687 ACTTTTATCAGTTATGATACATACAC-AAAAAAATATTCATAATAA
1 ACTTTTATCAGTTATGATACATACACAAAAAAAATATTCATAATAA
25369732 ACT
1 ACT
25369735 CAAATTATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 22 0.46
46 26 0.54
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (46 bp):
ACTTTTATCAGTTATGATACATACACAAAAAAAATATTCATAATAA
Found at i:25370840 original size:37 final size:37
Alignment explanation
Indices: 25370789--25370939 Score: 162
Period size: 37 Copynumber: 4.0 Consensus size: 37
25370779 TGTACAGGTA
*
25370789 TATGCACTTTGTGTGCCAATATGCACTTATGTGCTAG
1 TATGCACTTCGTGTGCCAATATGCACTTATGTGCTAG
* *
25370826 TATGCACTTCGTGTGCCAGGA-ATGCGCTTATGCGCTAG
1 TATGCACTTCGTGTGCCA--ATATGCACTTATGTGCTAG
* * * * * *
25370864 TATGCACTTCGTGTGCTAGTATGCGCTTGTGGGCCAAG
1 TATGCACTTCGTGTGCCAATATGCACTTATGTG-CTAG
*
25370902 -ATGCACTTTGTGTGCCAATATGCACTATATGTGCTAG
1 TATGCACTTCGTGTGCCAATATGCACT-TATGTGCTAG
25370939 T
1 T
25370940 TTCTATTACT
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
37 53 0.57
38 39 0.42
39 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.34
Consensus pattern (37 bp):
TATGCACTTCGTGTGCCAATATGCACTTATGTGCTAG
Found at i:25370935 original size:19 final size:18
Alignment explanation
Indices: 25370788--25370927 Score: 102
Period size: 19 Copynumber: 7.5 Consensus size: 18
25370778 CTGTACAGGT
25370788 ATATGCACTTTGTGTGCCA
1 ATATGCAC-TTGTGTGCCA
* *
25370807 ATATGCACTTATGTGCTA
1 ATATGCACTTGTGTGCCA
*
25370825 GTATGCACTTCGTGTGCCA
1 ATATGCACTT-GTGTGCCA
* * * *
25370844 GGA-ATGCGCTTATGCGCTA
1 --ATATGCACTTGTGTGCCA
* *
25370863 GTATGCACTTCGTGTGCTA
1 ATATGCACTT-GTGTGCCA
* * *
25370882 GTATGCGCTTGTGGGCCA
1 ATATGCACTTGTGTGCCA
*
25370900 AGATGCACTTTGTGTGCCA
1 ATATGCAC-TTGTGTGCCA
25370919 ATATGCACT
1 ATATGCACT
25370928 ATATGTGCTA
Statistics
Matches: 93, Mismatches: 22, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
18 36 0.39
19 50 0.54
20 7 0.08
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (18 bp):
ATATGCACTTGTGTGCCA
Found at i:25374147 original size:4 final size:4
Alignment explanation
Indices: 25374140--25374279 Score: 271
Period size: 4 Copynumber: 35.0 Consensus size: 4
25374130 CACACATATG
25374140 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
25374188 TACA TACA TACA TATA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
25374236 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
25374280 ACAACTTCTC
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 134 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:25378635 original size:14 final size:15
Alignment explanation
Indices: 25378616--25378644 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25378606 ACTAAAAATG
25378616 CTATGGCAAA-GATA
1 CTATGGCAAATGATA
25378630 CTATGGCAAATGATA
1 CTATGGCAAATGATA
25378645 GAAGGTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (15 bp):
CTATGGCAAATGATA
Found at i:25380028 original size:13 final size:13
Alignment explanation
Indices: 25380012--25380044 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
25380002 GATTAGAAAT
*
25380012 TAAATAACTAATA
1 TAAATAAATAATA
25380025 TAAATAAATAATA
1 TAAATAAATAATA
25380038 -AAATAAA
1 TAAATAAA
25380045 CAAATGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAATAAATAATA
Found at i:25390359 original size:6 final size:6
Alignment explanation
Indices: 25390348--25390373 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25390338 GAGCTACAGT
25390348 AAAAGC AAAAGC AAAAGC AAAAGC AA
1 AAAAGC AAAAGC AAAAGC AAAAGC AA
25390374 GCACAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGC
Found at i:25394402 original size:22 final size:22
Alignment explanation
Indices: 25394369--25394413 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
25394359 TAGTTTTAGG
*
25394369 TTTAGTTTTCTCTA-AGTTTTC
1 TTTAGTTTTCTCTACACTTTTC
25394390 TTTAGTTTTTCTCTACACTTTTC
1 TTTAG-TTTTCTCTACACTTTTC
25394413 T
1 T
25394414 AGGGTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 9 0.43
23 7 0.33
ACGTcount: A:0.13, C:0.18, G:0.07, T:0.62
Consensus pattern (22 bp):
TTTAGTTTTCTCTACACTTTTC
Found at i:25397675 original size:17 final size:19
Alignment explanation
Indices: 25397649--25397693 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
25397639 CAAGATAAAC
25397649 ATTAAAATAA-AT-TTAAT
1 ATTAAAATAACATCTTAAT
*
25397666 ATTAAGATAATCATCTTAAT
1 ATTAAAATAA-CATCTTAAT
25397686 ATTAAAAT
1 ATTAAAAT
25397694 TAATAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 9 0.39
19 2 0.09
20 12 0.52
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
ATTAAAATAACATCTTAAT
Found at i:25404691 original size:25 final size:27
Alignment explanation
Indices: 25404662--25404719 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
25404652 TCTATAACAT
*
25404662 AAATATTAAATTAA-ATTAAA-TATTA
1 AAATATTAAATTAATATTAAATTAATA
**
25404687 AAATAATTACTTTAATATTAAATTAATA
1 AAAT-ATTAAATTAATATTAAATTAATA
25404715 AAATA
1 AAATA
25404720 CTATTAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.15
26 8 0.30
27 7 0.26
28 8 0.30
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATATTAAATTAATATTAAATTAATA
Found at i:25404760 original size:37 final size:35
Alignment explanation
Indices: 25404703--25404772 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 35
25404693 TTACTTTAAT
*
25404703 ATTAAATTAATAAAATACTATTAAGATAAGTATTGA
1 ATTAAATTAATAAAATACTATTAAAATAA-TATTGA
*
25404739 ATTAAATTTAATATTAA-ACTATTAAAATAATATT
1 ATTAAA-TTAATA-AAATACTATTAAAATAATATT
25404773 ATTTTTGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 10 0.33
37 18 0.60
38 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (35 bp):
ATTAAATTAATAAAATACTATTAAAATAATATTGA
Found at i:25405792 original size:26 final size:26
Alignment explanation
Indices: 25405756--25405806 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25405746 CACCAATTTT
25405756 GCAGCAAAGCTACCAGAAATAGTATC
1 GCAGCAAAGCTACCAGAAATAGTATC
*
25405782 GCAGCAAAGCTACCAGTAATAGTAT
1 GCAGCAAAGCTACCAGAAATAGTAT
25405807 ATGTGGCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (26 bp):
GCAGCAAAGCTACCAGAAATAGTATC
Found at i:25406034 original size:27 final size:27
Alignment explanation
Indices: 25405980--25406121 Score: 164
Period size: 27 Copynumber: 5.4 Consensus size: 27
25405970 GGGTATAACA
*
25405980 GTCATTTTA-CC-ATGTGGGTATTTCG
1 GTCATTTTATCCTATGGGGGTATTTCG
*
25406005 GTCATTTTATCCTATGGGGGTATTTTG
1 GTCATTTTATCCTATGGGGGTATTTCG
* * *
25406032 GTCATTTTACCCTACGAGGGTATTTCG
1 GTCATTTTATCCTATGGGGGTATTTCG
* * *
25406059 GTCATTTTACCCTAT-GGGGTCTTCCG
1 GTCATTTTATCCTATGGGGGTATTTCG
* * *
25406085 GTCATTTTATCCTACGGAGGTATTTCA
1 GTCATTTTATCCTATGGGGGTATTTCG
25406112 GTCATTTTAT
1 GTCATTTTAT
25406122 TGACCTCACG
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
25 9 0.09
26 23 0.23
27 66 0.67
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTTTATCCTATGGGGGTATTTCG
Found at i:25406107 original size:53 final size:54
Alignment explanation
Indices: 25405995--25406120 Score: 175
Period size: 53 Copynumber: 2.4 Consensus size: 54
25405985 TTTACCATGT
* **
25405995 GGGTATTTCGGTCATTTTATCCTATGGGGGTATTTTGGTCATTTTACCCTACGA
1 GGGTATTTCGGTCATTTTACCCTATGGGGGTATTCCGGTCATTTTACCCTACGA
* *
25406049 GGGTATTTCGGTCATTTTACCCTAT-GGGGTCTTCCGGTCATTTTATCCTACG-
1 GGGTATTTCGGTCATTTTACCCTATGGGGGTATTCCGGTCATTTTACCCTACGA
*
25406101 GAGGTATTTCAGTCATTTTA
1 G-GGTATTTCGGTCATTTTA
25406121 TTGACCTCAC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.02
53 40 0.62
54 24 0.37
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (54 bp):
GGGTATTTCGGTCATTTTACCCTATGGGGGTATTCCGGTCATTTTACCCTACGA
Found at i:25413560 original size:27 final size:26
Alignment explanation
Indices: 25413530--25413699 Score: 187
Period size: 27 Copynumber: 6.3 Consensus size: 26
25413520 GGGTATAATA
*
25413530 GTCATTTTAACCTATGTGGGTATTTTG
1 GTCATTTTACCCTATG-GGGTATTTTG
* *
25413557 GTCATTTTACCCGATGGCGGTGTTTTG
1 GTCATTTTACCCTATGG-GGTATTTTG
* * *
25413584 GTTATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTA-TGGGGTATTTTG
*
25413611 GTCATTTTCCCCTATAGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTTG
* *
25413638 GTTATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTTG
* *
25413665 GTTATTTTACCCTACGGGGTATTTTG
1 GTCATTTTACCCTATGGGGTATTTTG
*
25413691 ATCATTTTA
1 GTCATTTTA
25413700 TTGACCTCAC
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
26 18 0.15
27 100 0.83
28 2 0.02
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTTG
Found at i:25413668 original size:81 final size:80
Alignment explanation
Indices: 25413530--25413699 Score: 227
Period size: 81 Copynumber: 2.1 Consensus size: 80
25413520 GGGTATAATA
* *
25413530 GTCATTTTAACCTATGTGGGTATTTTGGTCATTTTACCCGATGGCGGTGTTTTGGTTATTTTACC
1 GTCATTTTAACCTATGTGGGTATTTTGGTCATTTTACCCGATGGCGGTATTTCGGTTATTTTACC
25413595 CTACAGGGGTATTTCG
66 CTAC-GGGGTATTTCG
** * *
25413611 GTCATTTTCCCCTATAG-GGGTATTTTGGTTATTTTACCCTATGAG-GGTATTTCGGTTATTTTA
1 GTCATTTTAACCTAT-GTGGGTATTTTGGTCATTTTACCCGATG-GCGGTATTTCGGTTATTTTA
*
25413674 CCCTACGGGGTATTTTG
64 CCCTACGGGGTATTTCG
*
25413691 ATCATTTTA
1 GTCATTTTA
25413700 TTGACCTCAC
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 17 0.22
81 59 0.76
82 2 0.03
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (80 bp):
GTCATTTTAACCTATGTGGGTATTTTGGTCATTTTACCCGATGGCGGTATTTCGGTTATTTTACC
CTACGGGGTATTTCG
Found at i:25415497 original size:24 final size:25
Alignment explanation
Indices: 25415465--25415515 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
25415455 AAATATCATA
*
25415465 TTAATTTTAATTAATTTAAA-TAAT
1 TTAATTTTAATTAATTAAAATTAAT
* *
25415489 TTAATTTTATTTGATTAAAATTAAT
1 TTAATTTTAATTAATTAAAATTAAT
25415514 TT
1 TT
25415516 CCCGAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTTTAATTAATTAAAATTAAT
Found at i:25418277 original size:63 final size:63
Alignment explanation
Indices: 25418176--25418303 Score: 220
Period size: 63 Copynumber: 2.0 Consensus size: 63
25418166 AGCCACGAAC
25418176 ATTGAGGGTTAGATAGAAATAATTTGGAGGTTTAAAAAATGAAATTGAATGAATAGTGAATAG
1 ATTGAGGGTTAGATAGAAATAATTTGGAGGTTTAAAAAATGAAATTGAATGAATAGTGAATAG
* * * *
25418239 ATTGAGGGTTAGGTAGAAATAATTTGGAGGTTTTAAAAATGAAATTGAGTGAGTAGTGAATAG
1 ATTGAGGGTTAGATAGAAATAATTTGGAGGTTTAAAAAATGAAATTGAATGAATAGTGAATAG
25418302 AT
1 AT
25418304 GGTCCGATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.31
Consensus pattern (63 bp):
ATTGAGGGTTAGATAGAAATAATTTGGAGGTTTAAAAAATGAAATTGAATGAATAGTGAATAG
Found at i:25424046 original size:27 final size:26
Alignment explanation
Indices: 25423983--25424039 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
25423973 TAAAACTCTT
*
25423983 TTAAAAGAAAACTCAAGAGAAATTAT
1 TTAAAAGAAAACTCAAGAGAAATTAG
* *
25424009 TTAAAAGAAAACTCACAGAGAATTTCG
1 TTAAAAGAAAACTCA-AGAGAAATTAG
25424036 TTAA
1 TTAA
25424040 TTGAAAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.25
Consensus pattern (26 bp):
TTAAAAGAAAACTCAAGAGAAATTAG
Found at i:25436518 original size:27 final size:26
Alignment explanation
Indices: 25436458--25436518 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
25436448 TTGTTAAAAC
*
25436458 TTATCTAAAAGAAAACTCAAGAGAATT
1 TTAT-TAAAAGAAAAATCAAGAGAATT
*
25436485 TCT-TTAAAATAAAAATCAAAGAGAATT
1 T-TATTAAAAGAAAAATC-AAGAGAATT
25436512 TTATTAA
1 TTATTAA
25436519 CCCAAAAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
26 12 0.41
27 16 0.55
28 1 0.03
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.31
Consensus pattern (26 bp):
TTATTAAAAGAAAAATCAAGAGAATT
Found at i:25439971 original size:22 final size:23
Alignment explanation
Indices: 25439946--25439989 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
25439936 GATTTTCCCG
25439946 ACTTCATTTCCCC-AATTTCCTA
1 ACTTCATTTCCCCAAATTTCCTA
*
25439968 ACTTCGTTTCCCCTAAATTTCC
1 ACTTCATTTCCCC-AAATTTCC
25439990 CTAAGTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
24 7 0.37
ACGTcount: A:0.20, C:0.36, G:0.02, T:0.41
Consensus pattern (23 bp):
ACTTCATTTCCCCAAATTTCCTA
Found at i:25441197 original size:3 final size:3
Alignment explanation
Indices: 25441189--25441215 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
25441179 GGTGATTCAT
25441189 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
25441216 ATGATTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25443717 original size:43 final size:43
Alignment explanation
Indices: 25443646--25443891 Score: 348
Period size: 43 Copynumber: 5.7 Consensus size: 43
25443636 ACAGTATTTT
* * * *
25443646 TAGCGGCTTTTGTGGAAAAAGCGTCGCTAAAGGTCTTGAGCTG
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
25443689 TAGCAGCGTTTGTGGAAAAAGCACCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
25443732 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * *
25443775 TTGCGGCATTTGTGGAAAAAACGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
*
25443818 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
25443861 TAGCAGCATTTGTGGGAAAAGCGCCGCTAAA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAA
25443892 AACCTATTTT
Statistics
Matches: 181, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 181 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:25443878 original size:129 final size:129
Alignment explanation
Indices: 25443648--25443891 Score: 389
Period size: 129 Copynumber: 1.9 Consensus size: 129
25443638 AGTATTTTTA
* * * * *
25443648 GCGGCTTTTGTGGAAAAAGCGTCGCTAAAGGTCTTGAGCTGTAGCAGCGTTTGTGGAAAAAGCAC
1 GCGGCATTTGTGGAAAAAACGCCGCTAAAGGTCCTGAGCTATAGCAGCGTTTGTGGAAAAAGCAC
* * *
25443713 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATT
66 CGCTAAAGGTCCTGATCTATAGCAGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATT
* * *
25443777 GCGGCATTTGTGGAAAAAACGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGAAAAAGCGC
1 GCGGCATTTGTGGAAAAAACGCCGCTAAAGGTCCTGAGCTATAGCAGCGTTTGTGGAAAAAGCAC
25443842 CGCTAAAGGTCCTGATCTATAGCAGCATTTGTGGGAAAAGCGCCGCTAAA
66 CGCTAAAGGTCCTGATCTATAGCAGCATTTGTGGGAAAAGCGCCGCTAAA
25443892 AACCTATTTT
Statistics
Matches: 104, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 104 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (129 bp):
GCGGCATTTGTGGAAAAAACGCCGCTAAAGGTCCTGAGCTATAGCAGCGTTTGTGGAAAAAGCAC
CGCTAAAGGTCCTGATCTATAGCAGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATT
Found at i:25443998 original size:16 final size:16
Alignment explanation
Indices: 25443961--25444012 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
25443951 GATAAATAGC
*
25443961 ATAAACTAAATAACTAAA
1 ATAAA-TAAACAACT-AA
25443979 ATAAATAAACAACTAA
1 ATAAATAAACAACTAA
*
25443995 ATAAACAAACAACTAA
1 ATAAATAAACAACTAA
25444011 AT
1 AT
25444013 TGATTAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 19 0.59
17 8 0.25
18 5 0.16
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAATAAACAACTAA
Found at i:25445298 original size:9 final size:9
Alignment explanation
Indices: 25445275--25445315 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
25445265 ATTAAAATTA
*
25445275 TTTAAAAAG
1 TTTAAAAAC
*
25445284 TATAAAAAC
1 TTTAAAAAC
25445293 TTTAAAAAC
1 TTTAAAAAC
25445302 TTTAAAAAC
1 TTTAAAAAC
25445311 TTTAA
1 TTTAA
25445316 TATATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (9 bp):
TTTAAAAAC
Found at i:25468336 original size:17 final size:18
Alignment explanation
Indices: 25468305--25468340 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
25468295 ATCGAAAAAG
25468305 TGAAAAAATAGAAAAATA
1 TGAAAAAATAGAAAAATA
*
25468323 TGAAAAAA-ATAAAAATA
1 TGAAAAAATAGAAAAATA
25468340 T
1 T
25468341 ATTCTGTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (18 bp):
TGAAAAAATAGAAAAATA
Found at i:25472463 original size:40 final size:40
Alignment explanation
Indices: 25472380--25472642 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
25472370 TTGAATGCTG
* * * * * *
25472380 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
25472420 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
25472460 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
25472500 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
25472540 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
25472580 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
25472619 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25472643 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:25472662 original size:79 final size:80
Alignment explanation
Indices: 25472419--25472677 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
25472409 AAGTGAATAT
* * * * * *
25472419 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
25472483 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
25472499 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
25472564 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
25472579 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
25472643 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
25472658 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
25472678 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:25480410 original size:40 final size:40
Alignment explanation
Indices: 25480327--25480589 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
25480317 TTGAATGCTG
* * * * * *
25480327 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
25480367 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
25480407 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
25480447 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
25480487 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
25480527 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
25480566 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25480590 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:25480609 original size:79 final size:80
Alignment explanation
Indices: 25480366--25480624 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
25480356 AAGTGAATAT
* * * * * *
25480366 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
25480430 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
25480446 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
25480511 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
25480526 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
25480590 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
25480605 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
25480625 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:25486865 original size:42 final size:42
Alignment explanation
Indices: 25486804--25487043 Score: 209
Period size: 42 Copynumber: 5.7 Consensus size: 42
25486794 TTAGCCGATA
** * * * *
25486804 ATGCACTTACCTGCTAGTATATTTGTTTTGGTTTATCTGATG
1 ATGCACTTATGTGCCAGTATAATTGCTTCGGTTTATCTGATG
* * *
25486846 ATGCACTTATGTGTCAGTATAATTGTTTCGGTTTATCCGATG
1 ATGCACTTATGTGCCAGTATAATTGCTTCGGTTTATCTGATG
* *** *
25486888 ATGCACTTACGTGCCAGTATAATTGCTTCGGAACATCTAATG
1 ATGCACTTATGTGCCAGTATAATTGCTTCGGTTTATCTGATG
*
25486930 ATGCACTT-TGTGCCAGCATAATTGCTTCGGTTTAT-TCGATG
1 ATGCACTTATGTGCCAGTATAATTGCTTCGGTTTATCT-GATG
* * * *
25486971 ATGCA-TTACGCGTGCCAGTATAATTGCTTTGGTTTGTCCGAT-
1 ATGCACTTA--TGTGCCAGTATAATTGCTTCGGTTTATCTGATG
* ** *
25487013 ATACACCTCGTGTGCCATTATAATTGCTTCG
1 ATGCA-CTTATGTGCCAGTATAATTGCTTCG
25487044 ACTTGCCCAA
Statistics
Matches: 159, Mismatches: 32, Indels: 14
0.78 0.16 0.07
Matches are distributed among these distances:
40 3 0.02
41 30 0.19
42 99 0.62
43 26 0.16
44 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (42 bp):
ATGCACTTATGTGCCAGTATAATTGCTTCGGTTTATCTGATG
Found at i:25486975 original size:83 final size:84
Alignment explanation
Indices: 25486838--25486999 Score: 247
Period size: 83 Copynumber: 1.9 Consensus size: 84
25486828 GTTTTGGTTT
* * * *
25486838 ATCTGATGATGCACTTATGTGTCAGTATAATTGTTTCGGTTTATCCGATGATGCACTTA-CGTGC
1 ATCTAATGATGCACTTATGTGCCAGCATAATTGCTTCGGTTTATCCGATGATGCA-TTACCGTGC
25486902 CAGTATAATTGCTTCGGAAC
65 CAGTATAATTGCTTCGGAAC
*
25486922 ATCTAATGATGCACTT-TGTGCCAGCATAATTGCTTCGGTTTATTCGATGATGCATTACGCGTGC
1 ATCTAATGATGCACTTATGTGCCAGCATAATTGCTTCGGTTTATCCGATGATGCATTAC-CGTGC
25486986 CAGTATAATTGCTT
65 CAGTATAATTGCTT
25487000 TGGTTTGTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
82 3 0.04
83 34 0.48
84 34 0.48
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (84 bp):
ATCTAATGATGCACTTATGTGCCAGCATAATTGCTTCGGTTTATCCGATGATGCATTACCGTGCC
AGTATAATTGCTTCGGAAC
Found at i:25486990 original size:84 final size:84
Alignment explanation
Indices: 25486793--25486999 Score: 247
Period size: 84 Copynumber: 2.5 Consensus size: 84
25486783 TATACTTTGA
* * * * * * * *** *
25486793 TTTAGCCGATAATGCACTTACCTGCTAGTATATTTGTTTTGGTTTATCTGATGATGCACTTATGT
1 TTTATCCGATGATGCACTTACGTGCCAGTATAATTGCTTCGGAACATCTAATGATGCACTTATGT
* * *
25486858 GTCAGTATAATTGTTTCGG
66 GCCAGCATAATTGCTTCGG
25486877 TTTATCCGATGATGCACTTACGTGCCAGTATAATTGCTTCGGAACATCTAATGATGCACTT-TGT
1 TTTATCCGATGATGCACTTACGTGCCAGTATAATTGCTTCGGAACATCTAATGATGCACTTATGT
25486941 GCCAGCATAATTGCTTCGG
66 GCCAGCATAATTGCTTCGG
*
25486960 TTTATTCGATGATGCA-TTACGCGTGCCAGTATAATTGCTT
1 TTTATCCGATGATGCACTTA--CGTGCCAGTATAATTGCTT
25487000 TGGTTTGTCC
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
82 3 0.03
83 34 0.32
84 69 0.65
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (84 bp):
TTTATCCGATGATGCACTTACGTGCCAGTATAATTGCTTCGGAACATCTAATGATGCACTTATGT
GCCAGCATAATTGCTTCGG
Found at i:25489684 original size:35 final size:33
Alignment explanation
Indices: 25489621--25489710 Score: 91
Period size: 35 Copynumber: 2.8 Consensus size: 33
25489611 TTTTTTTTAC
* *
25489621 TTATAAA-CTTTTAAATTTAAAAA-A--ATAAT
1 TTATAAATATTTTAAATATAAAAATAGCATAAT
*
25489650 TTTTAAATACTTTTATAA-ATTAAAAATAGCATAAT
1 TTATAAATA-TTTTA-AATA-TAAAAATAGCATAAT
25489685 TTATAAATATTTTAAATATAAAAATA
1 TTATAAATATTTTAAATATAAAAATA
25489711 ATTATTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
29 6 0.12
31 5 0.10
32 8 0.16
33 11 0.22
34 6 0.12
35 13 0.27
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (33 bp):
TTATAAATATTTTAAATATAAAAATAGCATAAT
Found at i:25507465 original size:21 final size:21
Alignment explanation
Indices: 25507439--25507480 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
25507429 GTCTAATTTT
25507439 TGTCTTTCTATCAGTAGATCG
1 TGTCTTTCTATCAGTAGATCG
25507460 TGTCTTTCTATCAGTAGATCG
1 TGTCTTTCTATCAGTAGATCG
25507481 GGTAACAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (21 bp):
TGTCTTTCTATCAGTAGATCG
Found at i:25512180 original size:790 final size:790
Alignment explanation
Indices: 25510659--25512243 Score: 3134
Period size: 790 Copynumber: 2.0 Consensus size: 790
25510649 CCACTATTTT
25510659 TAAAAATTAACTCGCCTAGCCTCGACCACTGACTTCAATAAAAAAAATTGACCCTATCGGGTTAG
1 TAAAAATTAACTCGCCTAGCCTCGACCACTGACTTCAATAAAAAAAATTGACCCTATCGGGTTAG
25510724 ATCGGCTCGAAACCCGTTGGATTCAGGATTTTTTGCCATATCAACGAGTAACACATGTGAGATAT
66 ATCGGCTCGAAACCCGTTGGATTCAGGATTTTTTGCCATATCAACGAGTAACACATGTGAGATAT
25510789 TAAAATAAGAAAAAGAGTACTAATAAATAATGATGTGGATGAATGCGAAAGCGGATCGTAAAGTT
131 TAAAATAAGAAAAAGAGTACTAATAAATAATGATGTGGATGAATGCGAAAGCGGATCGTAAAGTT
25510854 TGTCAAAGTCGCAGATTTATCCTAGATCTCTAGACGAATATAAACTGAAACGAGAAATAACAAAA
196 TGTCAAAGTCGCAGATTTATCCTAGATCTCTAGACGAATATAAACTGAAACGAGAAATAACAAAA
25510919 ACAGATTAGTTGTCACAAAAGAGAGTCAAACGAAATTAAAACAAAAGAAAGATGAACCGGTTGGT
261 ACAGATTAGTTGTCACAAAAGAGAGTCAAACGAAATTAAAACAAAAGAAAGATGAACCGGTTGGT
*
25510984 AAAGAGTCCAATAGAGAATGAATTAGGGTTTCTTGAATGGAAAGAAACCGTGCTTGGACCTCAAG
326 AAAGAGTCCAATAGAGAATGAATTAGGATTTCTTGAATGGAAAGAAACCGTGCTTGGACCTCAAG
25511049 AAAATGCCCTAACCAGATCTGGAAAAACAAAACACAAACAGATTTGTTAGAAGTGATTTTAAAGA
391 AAAATGCCCTAACCAGATCTGGAAAAACAAAACACAAACAGATTTGTTAGAAGTGATTTTAAAGA
25511114 CAAAAGTAAACTGTTTTGTGCAAAAATGCTTGAAACAACAAGAAAAGGGTTAAAACTCCTAATTT
456 CAAAAGTAAACTGTTTTGTGCAAAAATGCTTGAAACAACAAGAAAAGGGTTAAAACTCCTAATTT
25511179 TGATGTGTTTCTTGATGGAACAAGATAGAATAACGTCTTTCTTGAAGCAACTTTAACCTAGAACG
521 TGATGTGTTTCTTGATGGAACAAGATAGAATAACGTCTTTCTTGAAGCAACTTTAACCTAGAACG
25511244 AAAACCAATAAAATTAGTAAGCCAAAATAGTAAGAAATGATAAATTAAGGATAGAAAAGATAAGA
586 AAAACCAATAAAATTAGTAAGCCAAAATAGTAAGAAATGATAAATTAAGGATAGAAAAGATAAGA
25511309 TGACGTCATAAGAAGCACTGGAAACATTAAAAATCCACAACTCATTTCGAAGGCTTTAATTTCCT
651 TGACGTCATAAGAAGCACTGGAAACATTAAAAATCCACAACTCATTTCGAAGGCTTTAATTTCCT
25511374 CTCCAAGAAAGAGATCTTAGCAAGAAAAGGCTTGAAAATGATTCCCACAACCTGAAAGATTTTTA
716 CTCCAAGAAAGAGATCTTAGCAAGAAAAGGCTTGAAAATGATTCCCACAACCTGAAAGATTTTTA
25511439 AAACAGTTTC
781 AAACAGTTTC
*
25511449 TAAAAATTAACTCGCCTAGCCTCGACCACTGACTTCAATAAAAAAAATTGGCCCTATCGGGTTAG
1 TAAAAATTAACTCGCCTAGCCTCGACCACTGACTTCAATAAAAAAAATTGACCCTATCGGGTTAG
25511514 ATCGGCTCGAAACCCGTTGGATTCAGGATTTTTTGCCATATCAACGAGTAACACATGTGAGATAT
66 ATCGGCTCGAAACCCGTTGGATTCAGGATTTTTTGCCATATCAACGAGTAACACATGTGAGATAT
25511579 TAAAATAAGAAAAAGAGTACTAATAAATAATGATGTGGATGAATGCGAAAGCGGATCGTAAAGTT
131 TAAAATAAGAAAAAGAGTACTAATAAATAATGATGTGGATGAATGCGAAAGCGGATCGTAAAGTT
25511644 TGTCAAAGTCGCAGATTTATCCTAGATCTCTAGACGAATATAAACTGAAACGAGAAATAACAAAA
196 TGTCAAAGTCGCAGATTTATCCTAGATCTCTAGACGAATATAAACTGAAACGAGAAATAACAAAA
25511709 ACAGATTAGTTGTCACAAAAGAGAGTCAAACGAAATTAAAACAAAAGAAAGATGAACCGGTTGGT
261 ACAGATTAGTTGTCACAAAAGAGAGTCAAACGAAATTAAAACAAAAGAAAGATGAACCGGTTGGT
25511774 AAAGAGTCCAATAGAGAATGAATTAGGATTTCTTGAATGGAAAGAAACCGTGCTTGGACCTCAAG
326 AAAGAGTCCAATAGAGAATGAATTAGGATTTCTTGAATGGAAAGAAACCGTGCTTGGACCTCAAG
25511839 AAAATGCCCTAACCAGATCTGGAAAAACAAAACACAAACAGATTTGTTAGAAGTGATTTTAAAGA
391 AAAATGCCCTAACCAGATCTGGAAAAACAAAACACAAACAGATTTGTTAGAAGTGATTTTAAAGA
25511904 CAAAAGTAAACTGTTTTGTGCAAAAATGCTTGAAACAACAAGAAAAGGGTTAAAACTCCTAATTT
456 CAAAAGTAAACTGTTTTGTGCAAAAATGCTTGAAACAACAAGAAAAGGGTTAAAACTCCTAATTT
25511969 TGATGTGTTTCTTGATGGAACAAGATAGAATAACGTCTTTCTTGAAGCAACTTTAACCTAGAACG
521 TGATGTGTTTCTTGATGGAACAAGATAGAATAACGTCTTTCTTGAAGCAACTTTAACCTAGAACG
25512034 AAAACCAATAAAATTAGTAAGCCAAAATAGTAAGAAATGATAAATTAAGGATAGAAAAGATAAGA
586 AAAACCAATAAAATTAGTAAGCCAAAATAGTAAGAAATGATAAATTAAGGATAGAAAAGATAAGA
25512099 TGACGTCATAAGAAGCACTGGAAACATTAAAAATCCACAACTCATTTCGAAGGCTTTAATTTCCT
651 TGACGTCATAAGAAGCACTGGAAACATTAAAAATCCACAACTCATTTCGAAGGCTTTAATTTCCT
* *
25512164 CTCCAAGAAAGAGATCTTGGCAAGAAAAGGCTTGAAGATGATTCCCACAACCTGAAAGATTTTTA
716 CTCCAAGAAAGAGATCTTAGCAAGAAAAGGCTTGAAAATGATTCCCACAACCTGAAAGATTTTTA
25512229 AAACAGTTTC
781 AAACAGTTTC
25512239 TAAAA
1 TAAAA
25512244 GAAACTCAAC
Statistics
Matches: 791, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
790 791 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.24
Consensus pattern (790 bp):
TAAAAATTAACTCGCCTAGCCTCGACCACTGACTTCAATAAAAAAAATTGACCCTATCGGGTTAG
ATCGGCTCGAAACCCGTTGGATTCAGGATTTTTTGCCATATCAACGAGTAACACATGTGAGATAT
TAAAATAAGAAAAAGAGTACTAATAAATAATGATGTGGATGAATGCGAAAGCGGATCGTAAAGTT
TGTCAAAGTCGCAGATTTATCCTAGATCTCTAGACGAATATAAACTGAAACGAGAAATAACAAAA
ACAGATTAGTTGTCACAAAAGAGAGTCAAACGAAATTAAAACAAAAGAAAGATGAACCGGTTGGT
AAAGAGTCCAATAGAGAATGAATTAGGATTTCTTGAATGGAAAGAAACCGTGCTTGGACCTCAAG
AAAATGCCCTAACCAGATCTGGAAAAACAAAACACAAACAGATTTGTTAGAAGTGATTTTAAAGA
CAAAAGTAAACTGTTTTGTGCAAAAATGCTTGAAACAACAAGAAAAGGGTTAAAACTCCTAATTT
TGATGTGTTTCTTGATGGAACAAGATAGAATAACGTCTTTCTTGAAGCAACTTTAACCTAGAACG
AAAACCAATAAAATTAGTAAGCCAAAATAGTAAGAAATGATAAATTAAGGATAGAAAAGATAAGA
TGACGTCATAAGAAGCACTGGAAACATTAAAAATCCACAACTCATTTCGAAGGCTTTAATTTCCT
CTCCAAGAAAGAGATCTTAGCAAGAAAAGGCTTGAAAATGATTCCCACAACCTGAAAGATTTTTA
AAACAGTTTC
Found at i:25512743 original size:184 final size:183
Alignment explanation
Indices: 25512434--25512810 Score: 619
Period size: 184 Copynumber: 2.1 Consensus size: 183
25512424 AAGTGTGAAC
* *
25512434 TTTTAATGAGAATTCAGCCAAAGGAATTAAATGGGCTCTTTGGGTGAATTCTTACATGATGATCC
1 TTTTAATGGGAATTCAGCCAAAGGAATTAAATGGGCTCTTTGGGTAAATTCTTACATGATGATCC
* * * *
25512499 ACCTATTAAAATAAAATTGAACCCGTAGTTTAAATATTTTACAATTTGGGCCATTTTGATAATTT
66 ACCTATTAAAATAAAATTGAACCCATAGTTTAAATAGTTTACAATTTGGGCCACTTTGATAAATT
* *
25512564 GACCTGATATTTAATTAAATTGCTTTCCAAACTTCAGGATGGGCTTGTAGACA
131 GACCTGATATTTAATTAAATTACTTTCCAAACTTCAAGATGGGCTTGTAGACA
*
25512617 TTTTAATGGGAATTCAGGCAAAGGAATTAAATGGGCTCTTTGGGCTAAATTCTTACATGATGATC
1 TTTTAATGGGAATTCAGCCAAAGGAATTAAATGGGCTCTTTGGG-TAAATTCTTACATGATGATC
* *
25512682 CACCTATTAAAATAAAATTGAACCTATAGTTTAAATAGTTTACAATTTGGGTCACTTTGATAAAT
65 CACCTATTAAAATAAAATTGAACCCATAGTTTAAATAGTTTACAATTTGGGCCACTTTGATAAAT
* *
25512747 TGGCCTGATATTTAATTAAATTACTTTTCAAACTTCAAGATGGGCTTGTAGACA
130 TGACCTGATATTTAATTAAATTACTTTCCAAACTTCAAGATGGGCTTGTAGACA
*
25512801 TCTTAATGGG
1 TTTTAATGGG
25512811 TCATTTTTTC
Statistics
Matches: 179, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
183 42 0.23
184 137 0.77
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (183 bp):
TTTTAATGGGAATTCAGCCAAAGGAATTAAATGGGCTCTTTGGGTAAATTCTTACATGATGATCC
ACCTATTAAAATAAAATTGAACCCATAGTTTAAATAGTTTACAATTTGGGCCACTTTGATAAATT
GACCTGATATTTAATTAAATTACTTTCCAAACTTCAAGATGGGCTTGTAGACA
Found at i:25514625 original size:44 final size:45
Alignment explanation
Indices: 25514552--25514649 Score: 182
Period size: 44 Copynumber: 2.2 Consensus size: 45
25514542 CCATACAATC
25514552 ATAAAACCATCAACAATTATATCATTTAAATAAACTAAACATATT
1 ATAAAACCATCAACAATTATATCATTTAAATAAACTAAACATATT
25514597 ATAAAACCATCAAC-ATTATATCATTTAAATAAACTAAACATATT
1 ATAAAACCATCAACAATTATATCATTTAAATAAACTAAACATATT
25514641 AT-AAACCAT
1 ATAAAACCAT
25514650 TCATTCATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 7 0.13
44 32 0.60
45 14 0.26
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (45 bp):
ATAAAACCATCAACAATTATATCATTTAAATAAACTAAACATATT
Found at i:25515790 original size:19 final size:19
Alignment explanation
Indices: 25515768--25515805 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
25515758 TCAATCATCC
25515768 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
25515787 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
25515806 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:25519208 original size:23 final size:27
Alignment explanation
Indices: 25519169--25519230 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 27
25519159 ACTGAAGAAT
*
25519169 GGTAAGCTC-TATCGAGCTGA-A-A-C
1 GGTAAGCTCATATAGAGCTGATATATC
*
25519192 GGTAAGCTCATA-AGAGCTTATATATC
1 GGTAAGCTCATATAGAGCTGATATATC
25519218 GGTAAGCTCATAT
1 GGTAAGCTCATAT
25519231 GAGTTGTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 15 0.47
24 3 0.09
25 1 0.03
26 13 0.41
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (27 bp):
GGTAAGCTCATATAGAGCTGATATATC
Found at i:25520004 original size:43 final size:42
Alignment explanation
Indices: 25519867--25520014 Score: 154
Period size: 43 Copynumber: 3.5 Consensus size: 42
25519857 TATCCTAGAT
* * *
25519867 ATGGTCTTACATGTTATCACATATCGATGCCACT-TCCCAGAC
1 ATGGTCTTACACGTAATCACATA-CGATGCCAATGTCCCAGAC
* * * * * *
25519909 AGGGTCTTAAACGAAATCATATAACGATGCTAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACAT-ACGATGCCAATGTCCCAGAC
*
25519952 ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCAC-ATACGATGCCAATGTCCCAGAC
* *
25519995 ATGGTCTTACATGTTATCAC
1 ATGGTCTTACACGTAATCAC
25520015 CTCTCAGTAA
Statistics
Matches: 85, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
42 24 0.28
43 59 0.69
44 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCACATACGATGCCAATGTCCCAGAC
Found at i:25524101 original size:26 final size:27
Alignment explanation
Indices: 25524072--25524122 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
25524062 TTCTTTATAT
* *
25524072 ATATATTTTTTATAATTTTT-TAAAAC
1 ATATATATTTTAGAATTTTTATAAAAC
*
25524098 ATATATATTTTGGAATTTTTATAAA
1 ATATATATTTTAGAATTTTTATAAA
25524123 TATTTTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
ATATATATTTTAGAATTTTTATAAAAC
Found at i:25524135 original size:19 final size:18
Alignment explanation
Indices: 25524111--25524174 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
25524101 TATATTTTGG
25524111 AATTTTTATAAATATTTTT
1 AATTTTTA-AAATATTTTT
* *
25524130 AATTTTAAAAATTATTTTG
1 AATTTTTAAAA-TATTTTT
* *
25524149 AATTTTGAAAATCTTTTT
1 AATTTTTAAAATATTTTT
25524167 GAATTTTT
1 -AATTTTT
25524175 TTTTTTTGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
18 8 0.22
19 29 0.78
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (18 bp):
AATTTTTAAAATATTTTT
Found at i:25524751 original size:27 final size:27
Alignment explanation
Indices: 25524721--25524776 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
25524711 ATTATTATAT
*
25524721 TTTTATAAAAAATATGAATTTTAGAAA
1 TTTTATAAAAAATATGAATTTTAAAAA
* * *
25524748 TTTTATAAATATTTTGAATTTTAAAAA
1 TTTTATAAAAAATATGAATTTTAAAAA
25524775 TT
1 TT
25524777 AATTTGAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (27 bp):
TTTTATAAAAAATATGAATTTTAAAAA
Found at i:25524769 original size:18 final size:19
Alignment explanation
Indices: 25524746--25524788 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
25524736 GAATTTTAGA
* *
25524746 AATTTTATAAA-TATTTTG
1 AATTTTAAAAATTAATTTG
25524764 AATTTTAAAAATTAATTTG
1 AATTTTAAAAATTAATTTG
25524783 AATTTT
1 AATTTT
25524789 TTTTATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
AATTTTAAAAATTAATTTG
Found at i:25531719 original size:13 final size:14
Alignment explanation
Indices: 25531691--25531725 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
25531681 TATCTTTAAT
25531691 ATTTAAAAATACTA
1 ATTTAAAAATACTA
25531705 ATTTAAAAATA-TA
1 ATTTAAAAATACTA
25531718 ATGTTAAA
1 AT-TTAAA
25531726 TATTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (14 bp):
ATTTAAAAATACTA
Found at i:25539893 original size:22 final size:21
Alignment explanation
Indices: 25539836--25539937 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 21
25539826 GTTTATCATC
*
25539836 TTGCGCTTTGGTGCTTACCGTT
1 TTGCACTTTGGTGCTTA-CGTT
* *
25539858 TCGCACTTCGGTGCTTATCGTT
1 TTGCACTTTGGTGCTTA-CGTT
* * *
25539880 TTGGACTTTAGTGCCTACTGTT
1 TTGCACTTTGGTGCTTAC-GTT
*
25539902 TTGCACTTTGGTACTTA-GTGAT
1 TTGCACTTTGGTGCTTACGT--T
*
25539924 TTGCACTTCGGTGC
1 TTGCACTTTGGTGC
25539938 CTACTGTTCT
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
20 2 0.03
21 1 0.02
22 59 0.95
ACGTcount: A:0.11, C:0.22, G:0.25, T:0.43
Consensus pattern (21 bp):
TTGCACTTTGGTGCTTACGTT
Found at i:25545815 original size:35 final size:35
Alignment explanation
Indices: 25545774--25545841 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
25545764 TCAAAGACCA
25545774 ATGAATTTAAAACAAATAGTATAAAATAAAAAAAT
1 ATGAATTTAAAACAAATAGTATAAAATAAAAAAAT
25545809 ATGAATTTAAAACAAATAGTATAAAATAAAAAA
1 ATGAATTTAAAACAAATAGTATAAAATAAAAAA
25545842 TATAAGGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (35 bp):
ATGAATTTAAAACAAATAGTATAAAATAAAAAAAT
Found at i:25546764 original size:23 final size:22
Alignment explanation
Indices: 25546721--25546778 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
25546711 AAAGGGTATC
* *
25546721 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
25546742 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
25546765 TGCATATCATATCT
1 TACAAATCATATCT
25546779 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:25546772 original size:17 final size:17
Alignment explanation
Indices: 25546750--25546801 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 17
25546740 ATTACAAAAT
25546750 CATATCTTCTAAGATTG
1 CATATCTTCTAAGATTG
25546767 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTG
25546786 CATATCCTTC-AAGATT
1 CATAT-CTTCTAAGATT
25546802 ATGTTTCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 12 0.38
18 3 0.09
19 16 0.50
20 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (17 bp):
CATATCTTCTAAGATTG
Found at i:25547607 original size:132 final size:132
Alignment explanation
Indices: 25547241--25547628 Score: 521
Period size: 131 Copynumber: 2.9 Consensus size: 132
25547231 GCAACTTCAG
* * * *** * ** *
25547241 GGAGATAAGG-CTGGTGCCTTAAATTTGCTTCCCTCCTACCTCAAGAAGATACGCCTCGCCGTCT
1 GGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCT
* * *
25547305 TTAATCTGCTCCACTACTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCTACTACTGCT
65 TTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCT
*
25547370 CAG
130 CAA
* * *
25547373 GGAGATAGGACTGGTGGCTTAAATCCGCTT-CCTACTA-TTTCGGAAAGATAAGATTCGTCGTCT
1 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTT-GGGAAGATAAGATTCGTCGTCT
* * * * *
25547436 TCGATCTACTTCACTACTACTTAGGGAGACAGGACCTACAATCTTCAACCTACTCCACTACTGCT
65 TTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCT
*
25547501 TAA
130 CAA
25547504 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCTT
1 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCTT
*
25547569 TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAACCTTCAACCTACTCCACTAC
66 TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTAC
25547629 AACCTCAGAG
Statistics
Matches: 220, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
130 1 0.00
131 111 0.50
132 106 0.48
133 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (132 bp):
GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCTT
TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCTC
AA
Found at i:25547751 original size:89 final size:89
Alignment explanation
Indices: 25547620--25547891 Score: 305
Period size: 89 Copynumber: 3.1 Consensus size: 89
25547610 CTTCAACCTA
* * * * * * * * *
25547620 CTCCACTACAACCTCAGAGAGGCAAGGGTAGTGTTTTTGATCTACTTCACTGCTAGTACAAGAAG
1 CTCCGCTACAAACTCAGAGAGGCAAGGCTGGTGTCTTTGATCTACTTCGCTGCCAATACAGGAAG
* *
25547685 ACAAGATCTGCTAT-TTTCGGTC-G
66 ACAAAATCTGCTATCTTT-AGTCTG
* * * * *
25547708 ACTCCGCTGCAAACTCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTACCAATACAGGAG
1 -CTCCGCTACAAACTCAGAGAGGCAAGGCTGGTGTCTTTGATCTACTTCGCTGCCAATACAGGAA
* *
25547773 GACAAAATTTGCTATCTTTATTCTG
65 GACAAAATCTGCTATCTTTAGTCTG
* *
25547798 CTCCGCTACAAACTCAGGGAGGCAAGGCTGATGTCTTTGATCTACTTCGCTGCCAATACAGGAAG
1 CTCCGCTACAAACTCAGAGAGGCAAGGCTGGTGTCTTTGATCTACTTCGCTGCCAATACAGGAAG
* * *
25547863 ACAATATATGTTATCTTTAGTCTG
66 ACAAAATCTGCTATCTTTAGTCTG
25547887 CTCCG
1 CTCCG
25547892 ATGCAACTTT
Statistics
Matches: 152, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
89 148 0.97
90 4 0.03
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (89 bp):
CTCCGCTACAAACTCAGAGAGGCAAGGCTGGTGTCTTTGATCTACTTCGCTGCCAATACAGGAAG
ACAAAATCTGCTATCTTTAGTCTG
Found at i:25548063 original size:44 final size:44
Alignment explanation
Indices: 25547979--25548092 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
25547969 ATTTTAATCC
* * * *
25547979 ACTCCACTGAAACTTTAGGGAGATAGGATTAGTAGCTTCAATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAACCT
* * **
25548023 GA-TTCATTGCAACTTCAGGGAGATAAGATT-GATATTTTCAACCT
1 -ACTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAACCT
25548067 ACTCCACTGCAACTTCAGGGAGATAA
1 ACTCCACTGCAACTTCAGGGAGATAA
25548093 AGTTTGATGT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
43 2 0.04
44 54 0.95
45 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAACCT
Found at i:25548252 original size:42 final size:43
Alignment explanation
Indices: 25548197--25548317 Score: 136
Period size: 44 Copynumber: 2.8 Consensus size: 43
25548187 GATTTGCTAT
* * * *
25548197 CTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGA-CTTCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATTCA
* * * **
25548239 CTTCAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TATTCA
*
25548283 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
25548318 AATTTGCCAT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 31 0.48
44 33 0.52
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATTCA
Found at i:25548487 original size:18 final size:19
Alignment explanation
Indices: 25548450--25548488 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25548440 CTTCAGGGGG
**
25548450 ATAAGACTTGTTTTCTTCA
1 ATAAGACTTGTTAACTTCA
25548469 ATAAGACTTG-TAACTTCA
1 ATAAGACTTGTTAACTTCA
25548487 AT
1 AT
25548489 CCGCTCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (19 bp):
ATAAGACTTGTTAACTTCA
Found at i:25548574 original size:44 final size:43
Alignment explanation
Indices: 25548469--25548921 Score: 313
Period size: 44 Copynumber: 10.2 Consensus size: 43
25548459 GTTTTCTTCA
* * * **
25548469 ATAAGACTTGTAACTTCAATCCGCTCCACTGCAACTTCAAAGAG
1 ATAAGA-TTTTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
25548513 ATAGGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGAGAG
1 ATAAGATTT-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* ** * * *
25548557 ATAGGATTATTGGCTTTAATCTACTCCATTGCAACTTTAGGGAG
1 ATAAGATT-TTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * *
25548601 ATAAGA-TTCACCATTTTTAGTCTG-TCCCACTGCAACATCAGGGGG
1 ATAAGATTTTA--A-CTTTAATCTGCT-CCACTGCAACTTCAGGGAG
* * * * * *
25548646 ATAAGACTTGCTT-TCTTCAGTCTACTCCACTACAAATTCAGGGAG
1 ATAAGA-TT--TTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
25548691 ATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTTAGGGAG
1 ATAAGA-TTTTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
25548735 ATAGGATTATTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAG
1 ATAAGATT-TTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
25548779 ATAAGATTTTCCATCTTCAGTCTGCTCAACTGCAACTTCAAGGGA-
1 ATAAGATTTT--AACTTTAATCTGCTCCACTGCAACTTC-AGGGAG
* * * * * *
25548824 ATAAGACTTACTT-TCTTCAGTCTGCTCCACTGCAATTTTAGGCAG
1 ATAAGA-TT--TTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
25548869 ATAAGACTTGTAACTTTAATCTGCTCCACTGCAACCTCAGGGAG
1 ATAAGA-TTTTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
*
25548913 ATAGGATTT
1 ATAAGATTT
25548922 GTGGTTTCAC
Statistics
Matches: 323, Mismatches: 65, Indels: 43
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.00
43 11 0.03
44 178 0.55
45 121 0.37
46 8 0.02
47 1 0.00
48 2 0.01
49 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
ATAAGATTTTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
Found at i:25548813 original size:178 final size:178
Alignment explanation
Indices: 25548492--25548920 Score: 590
Period size: 178 Copynumber: 2.4 Consensus size: 178
25548482 CTTCAATCCG
* ** * * *
25548492 CTCCACTGCAACTTCAAAGAGATAGGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGAGAG
1 CTCCACTGCAAATTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * *
25548557 ATAGGATTATTGGCTTTAATCTACTCCATTGCAACTTTAGGGAGATAAGATTCACCATTTTTAGT
66 ATAGGATTATTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGT
* * * *
25548622 CTGTCCCACTGCAACATCAGGGGGATAAGACTTGCTTTCTTCAGTCTA
131 CTGTCCAACTGCAACATCAAGGGAATAAGACTTACTTTCTTCAGTCTA
* * *
25548670 CTCCACTACAAATTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTTAGGGAG
1 CTCCACTGCAAATTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * **
25548735 ATAGGATTATTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGT
66 ATAGGATTATTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGT
* *
25548800 CTG-CTCAACTGCAACTTCAAGGGAATAAGACTTACTTTCTTCAGTCTG
131 CTGTC-CAACTGCAACATCAAGGGAATAAGACTTACTTTCTTCAGTCTA
* * * *
25548848 CTCCACTGCAATTTTAGGCAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACCTCAGGGAG
1 CTCCACTGCAAATTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
25548913 ATAGGATT
66 ATAGGATT
25548921 TGTGGTTTCA
Statistics
Matches: 219, Mismatches: 31, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
177 1 0.00
178 218 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (178 bp):
CTCCACTGCAAATTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAGGATTATTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGT
CTGTCCAACTGCAACATCAAGGGAATAAGACTTACTTTCTTCAGTCTA
Found at i:25548823 original size:134 final size:133
Alignment explanation
Indices: 25548570--25548922 Score: 361
Period size: 134 Copynumber: 2.6 Consensus size: 133
25548560 GGATTATTGG
* * * ** *
25548570 CTTTAATCTACTCCATTGCAACTTTAGGGAGATAAGATTCACCATTTTTAGTCTG-TCCCACTGC
1 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-ACTAACTTTAATCTGCT-CCACTGC
* * ** *
25548634 AACATCAGGGGGATAAGACTTGCTTTCTTCAGTCTACTCCACTACAAATTCAGGGAGATAAGACT
64 AACATCAGGGAGATAAGATTTGCCATCTTCAGTCTACTCAACTACAAATTCAGGGA-ATAAGACT
*
25548699 T-GTAA
128 TACTAA
* * * * *
25548704 CTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTAGCTTTAATCTGCTCTACTGCAA
1 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTACTAACTTTAATCTGCTCCACTGCAA
* * * * *
25548769 CTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCTCAACTGCAACTTCAAGGGAATAAGACTTA
66 CATCAGGGAGATAAGATTTGCCATCTTCAGTCTACTCAACTACAAATTC-AGGGAATAAGACTTA
**
25548834 CTTT
130 CTAA
* * * * *
25548838 CTTCAGTCTGCTCCACTGCAATTTTAGGCAGATAAGACTT-GTAACTTTAATCTGCTCCACTGCA
1 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTACTAACTTTAATCTGCTCCACTGCA
* *
25548902 ACCTCAGGGAGATAGGATTTG
65 ACATCAGGGAGATAAGATTTG
25548923 TGGTTTCACC
Statistics
Matches: 180, Mismatches: 35, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
133 66 0.37
134 112 0.62
135 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (133 bp):
CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTACTAACTTTAATCTGCTCCACTGCAA
CATCAGGGAGATAAGATTTGCCATCTTCAGTCTACTCAACTACAAATTCAGGGAATAAGACTTAC
TAA
Found at i:25558931 original size:51 final size:50
Alignment explanation
Indices: 25558746--25559038 Score: 320
Period size: 50 Copynumber: 5.7 Consensus size: 50
25558736 GGTAAAGATA
*
25558746 TCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCCTTGAGATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGAGG
* *
25558802 TCCCATGTACGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*
25558852 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * **
25558902 TCCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGAAC
1 T-CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * **
25558953 TCCCATGTAAGACCATATCTGGGATATGGAATTTGCA--GTACATGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
*
25559002 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
25559039 TATTGTTATC
Statistics
Matches: 205, Mismatches: 30, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
48 1 0.00
49 38 0.19
50 85 0.41
51 42 0.20
53 3 0.01
55 2 0.01
56 34 0.17
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:25558960 original size:101 final size:103
Alignment explanation
Indices: 25558746--25558981 Score: 298
Period size: 101 Copynumber: 2.3 Consensus size: 103
25558736 GGTAAAGATA
*
25558746 TCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCCTTGAGATCATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCC-TGAGA--ATGAGAGGTCCCACGTA
* * * **
25558811 CGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGG
63 AGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * *
25558852 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCCCCCGTAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCCTGAGAATGAGAGGT-CCCACGTAAG
* *
25558914 ACCATGTCTGGGACATGGCATGGGCATCGATATGAGAAC
65 ACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* *
25558953 TCCCATGTAAGACCATATCTGGGATATGG
1 TCCCATGTAAGACCATGTCTGGGACATGG
25558982 AATTTGCAGT
Statistics
Matches: 116, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
100 9 0.08
101 67 0.58
103 3 0.03
105 2 0.02
106 35 0.30
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.22
Consensus pattern (103 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCCTGAGAATGAGAGGTCCCACGTAAGA
CCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:25570994 original size:5 final size:6
Alignment explanation
Indices: 25570978--25571003 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25570968 ATATTAAATT
25570978 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
25571004 TTTATTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:25586760 original size:22 final size:21
Alignment explanation
Indices: 25586735--25586777 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
25586725 ATAACATAGC
25586735 TTCA-AACTCTCAACCATAATTT
1 TTCACAAC-CTCAACCA-AATTT
*
25586757 TTCACCACCTCAACCAAATTT
1 TTCACAACCTCAACCAAATTT
25586778 ATAATGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 12 0.63
23 2 0.11
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (21 bp):
TTCACAACCTCAACCAAATTT
Found at i:25600617 original size:10 final size:10
Alignment explanation
Indices: 25600602--25600631 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
25600592 TTACCAATTC
25600602 GGTTAATTTT
1 GGTTAATTTT
*
25600612 GGTTAATTTC
1 GGTTAATTTT
25600622 GGTTAATTTT
1 GGTTAATTTT
25600632 AATTTGGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.20, T:0.57
Consensus pattern (10 bp):
GGTTAATTTT
Found at i:25600640 original size:25 final size:25
Alignment explanation
Indices: 25600604--25600651 Score: 80
Period size: 24 Copynumber: 1.9 Consensus size: 25
25600594 ACCAATTCGG
25600604 TTAATTTTGGTTAATTTCGGTTAATT
1 TTAATTTTGGTTAA-TTCGGTTAATT
25600630 TTAA-TTTGGTTAATTCGGTTAA
1 TTAATTTTGGTTAATTCGGTTAA
25600652 ATGAACATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 9 0.41
25 9 0.41
26 4 0.18
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.54
Consensus pattern (25 bp):
TTAATTTTGGTTAATTCGGTTAATT
Found at i:25600642 original size:15 final size:16
Alignment explanation
Indices: 25600614--25600644 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
25600604 TTAATTTTGG
25600614 TTAATTTCGGTTAATT
1 TTAATTTCGGTTAATT
25600630 TTAATTT-GGTTAATT
1 TTAATTTCGGTTAATT
25600645 CGGTTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (16 bp):
TTAATTTCGGTTAATT
Found at i:25600644 original size:9 final size:9
Alignment explanation
Indices: 25600597--25600651 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
25600587 ATATATTACC
*
25600597 AATTCGGTT
1 AATTTGGTT
25600606 AATTTTGGTT
1 AA-TTTGGTT
25600616 AATTTCGGTT
1 AATTT-GGTT
25600626 AA-TT--TT
1 AATTTGGTT
25600632 AATTTGGTT
1 AATTTGGTT
*
25600641 AATTCGGTT
1 AATTTGGTT
25600650 AA
1 AA
25600652 ATGAACATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
6 4 0.10
7 2 0.05
9 19 0.49
10 14 0.36
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.51
Consensus pattern (9 bp):
AATTTGGTT
Found at i:25607881 original size:48 final size:47
Alignment explanation
Indices: 25607787--25607881 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 47
25607777 GTAAAATTAT
* * * **
25607787 CGAAATACCTTCAATGGGTAAAATT-GTAGAAATACCCTTAATGGGTAC
1 CGAAATACCTTCGATGGGTAAAATTACTA-AAATCCCCCGAA-GGGTAC
25607835 CGAAATACCTTCGATGGGTAAAATTACTAAAATGCCCCCGAAGGGTA
1 CGAAATACCTTCGATGGGTAAAATTACTAAAAT-CCCCCGAAGGGTA
25607882 AAATTATCGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 33 0.82
49 7 0.17
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (47 bp):
CGAAATACCTTCGATGGGTAAAATTACTAAAATCCCCCGAAGGGTAC
Found at i:25607886 original size:102 final size:102
Alignment explanation
Indices: 25607736--25607925 Score: 299
Period size: 102 Copynumber: 1.9 Consensus size: 102
25607726 AAACTATTGT
* * **
25607736 AATACCCTCGATGGGTAAAATTACTAAAATACCCTCGATGGGTAAAATTATCGAAATACCTTCAA
1 AATACCCTCGATGGGTAAAATTACTAAAATACCCCCGAAGGGTAAAATTATCGAAATACCCCCAA
*
25607801 TGGGTAAAATTGTAGAAATACCCTTAATGGGTACCGA
66 TGGGTAAAATTATAGAAATACCCTTAATGGGTACCGA
* * *
25607838 AATACCTTCGATGGGTAAAATTACTAAAATGCCCCCGAAGGGTAAAATTATCGAAATACCCCCGA
1 AATACCCTCGATGGGTAAAATTACTAAAATACCCCCGAAGGGTAAAATTATCGAAATACCCCCAA
*
25607903 TGGGTAAAATTATCGAAATACCC
66 TGGGTAAAATTATAGAAATACCC
25607926 CCATAGGGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 79 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (102 bp):
AATACCCTCGATGGGTAAAATTACTAAAATACCCCCGAAGGGTAAAATTATCGAAATACCCCCAA
TGGGTAAAATTATAGAAATACCCTTAATGGGTACCGA
Found at i:25607927 original size:27 final size:27
Alignment explanation
Indices: 25607591--25607925 Score: 319
Period size: 27 Copynumber: 12.6 Consensus size: 27
25607581 TAATAAGCCT
*
25607591 AAATTATCGAAATACCCTCGATAGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
* *
25607618 AAATTACCGAAATACTCTCGATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
* * *
25607645 AAATTATTGAAATACCCTCAATGGGTC
1 AAATTATCGAAATACCCTCGATGGGTA
* *
25607672 AAATTA-CTAAAATACCTTCGATGGGTA
1 AAATTATC-GAAATACCCTCGATGGGTA
* * * *
25607699 AAGTTACCAAAATACCTTCGATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
* * *
25607726 AAACTATTGTAATACCCTCGATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
*
25607753 AAATTA-CTAAAATACCCTCGATGGGTA
1 AAATTATC-GAAATACCCTCGATGGGTA
* *
25607780 AAATTATCGAAATACCTTCAATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
* * **
25607807 AAATTGTAGAAATACCCTTAATGGG--
1 AAATTATCGAAATACCCTCGATGGGTA
* *
25607832 ----TACCGAAATACCTTCGATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
* * * *
25607855 AAATTA-CTAAAATGCCCCCGAAGGGTA
1 AAATTATC-GAAATACCCTCGATGGGTA
*
25607882 AAATTATCGAAATACCCCCGATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
25607909 AAATTATCGAAATACCC
1 AAATTATCGAAATACCC
25607926 CCATAGGGTA
Statistics
Matches: 250, Mismatches: 46, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
21 15 0.06
26 1 0.00
27 231 0.92
28 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATGGGTA
Found at i:25607934 original size:27 final size:28
Alignment explanation
Indices: 25607835--25607937 Score: 126
Period size: 27 Copynumber: 3.8 Consensus size: 28
25607825 TAATGGGTAC
**
25607835 CGAAATACCTTCGAT-GGGTAAAATTA-
1 CGAAATACCCCCGATAGGGTAAAATTAT
* *
25607861 CTAAAATGCCCCCGA-AGGGTAAAATTAT
1 C-GAAATACCCCCGATAGGGTAAAATTAT
25607889 CGAAATACCCCCGAT-GGGTAAAATTAT
1 CGAAATACCCCCGATAGGGTAAAATTAT
25607916 CGAAATACCCCC-ATAGGGTAAA
1 CGAAATACCCCCGATAGGGTAAA
25607938 CTGACTATTA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
26 3 0.05
27 62 0.94
28 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (28 bp):
CGAAATACCCCCGATAGGGTAAAATTAT
Found at i:25607955 original size:129 final size:129
Alignment explanation
Indices: 25607600--25607937 Score: 326
Period size: 129 Copynumber: 2.6 Consensus size: 129
25607590 TAAATTATCG
* ** * * * *
25607600 AAATACCCTCGATA-GGTAAAATTACCGAAATACTCTCGATGGGTAAAATTATTGAAATACCCTC
1 AAATACCCCCGA-AGGGTAAAATTACTAAAATACCCCCGATGGGTAAAATTATCGAAATACCCCC
* * * *
25607664 AATGGGTCAAATTACTA-AAATA-CCTTCGATGGGTAAAGTTACCAAAATACCTTCGATGGGTAA
65 AATGGGTAAAACT-GTAGAAATACCCTT-AAT-GG----G-TACCAAAATACCTTCGATGGGTAA
* *
25607727 AACTATTG
122 AACTACTA
* * * * **
25607735 TAATACCCTCGATGGGTAAAATTACTAAAATACCCTCGATGGGTAAAATTATCGAAATACCTTCA
1 AAATACCCCCGAAGGGTAAAATTACTAAAATACCCCCGATGGGTAAAATTATCGAAATACCCCCA
* * *
25607800 ATGGGTAAAATTGTAGAAATACCCTTAATGGGTACCGAAATACCTTCGATGGGTAAAATTACTA
66 ATGGGTAAAACTGTAGAAATACCCTTAATGGGTACCAAAATACCTTCGATGGGTAAAACTACTA
* *
25607864 AAATGCCCCCGAAGGGTAAAATTA-TCGAAATACCCCCGATGGGTAAAATTATCGAAATACCCCC
1 AAATACCCCCGAAGGGTAAAATTACT-AAAATACCCCCGATGGGTAAAATTATCGAAATACCCCC
25607928 -ATAGGGTAAA
65 AAT-GGGTAAA
25607938 CTGACTATTA
Statistics
Matches: 176, Mismatches: 22, Indels: 16
0.82 0.10 0.07
Matches are distributed among these distances:
128 3 0.02
129 89 0.51
130 1 0.01
134 4 0.02
135 75 0.43
136 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (129 bp):
AAATACCCCCGAAGGGTAAAATTACTAAAATACCCCCGATGGGTAAAATTATCGAAATACCCCCA
ATGGGTAAAACTGTAGAAATACCCTTAATGGGTACCAAAATACCTTCGATGGGTAAAACTACTA
Found at i:25613733 original size:17 final size:19
Alignment explanation
Indices: 25613707--25613744 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
25613697 ATTTTAATGT
25613707 AATTTATATAT-TTTT-AA
1 AATTTATATATATTTTGAA
*
25613724 AATTTTTATATATTTTGAA
1 AATTTATATATATTTTGAA
25613743 AA
1 AA
25613745 ATATTGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 4 0.22
19 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
AATTTATATATATTTTGAA
Found at i:25616371 original size:15 final size:16
Alignment explanation
Indices: 25616349--25616390 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
25616339 TGTTAATTTA
25616349 AGAAGAAAAGAGAGAA-
1 AGAAGAAAAGAGA-AAG
25616365 A-AAGAAAAGAGAAAG
1 AGAAGAAAAGAGAAAG
25616380 AGAAGAAAAGA
1 AGAAGAAAAGA
25616391 AACGGTTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 12 0.50
16 10 0.42
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AGAAGAAAAGAGAAAG
Found at i:25616377 original size:22 final size:21
Alignment explanation
Indices: 25616351--25616392 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
25616341 TTAATTTAAG
25616351 AAGA-AAAGAG-AGAAAAAGAA
1 AAGAGAAAGAGAAG-AAAAGAA
25616371 AAGAGAAAGAGAAGAAAAGAA
1 AAGAGAAAGAGAAGAAAAGAA
25616392 A
1 A
25616393 CGGTTGCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 14 0.70
22 2 0.10
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
AAGAGAAAGAGAAGAAAAGAA
Found at i:25618719 original size:14 final size:14
Alignment explanation
Indices: 25618700--25618730 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25618690 AGGATAAGAC
25618700 GACTGATCGGGGAT
1 GACTGATCGGGGAT
25618714 GACTGATCGGGGAT
1 GACTGATCGGGGAT
25618728 GAC
1 GAC
25618731 AATGGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.16, G:0.42, T:0.19
Consensus pattern (14 bp):
GACTGATCGGGGAT
Found at i:25635539 original size:45 final size:45
Alignment explanation
Indices: 25635471--25635652 Score: 260
Period size: 45 Copynumber: 4.1 Consensus size: 45
25635461 TACTACGTGT
* *
25635471 ACCGGGTACCATTGATTACAAAGGTGGTTGCTATGCGCTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
25635516 ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*
25635561 ACTGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*** ** * *
25635606 ACTAAGTATTATTGACTATAAAGGTGG-TGCTGTGTGCTGA-TCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
25635649 ACCG
1 ACCG
25635653 TGTATCTGTT
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
43 5 0.04
44 12 0.10
45 109 0.87
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (45 bp):
ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:25635982 original size:21 final size:22
Alignment explanation
Indices: 25635946--25635991 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
25635936 TATTTGCTGG
25635946 AATAAAATTAGTTTAAGTATTT
1 AATAAAATTAGTTTAAGTATTT
* *
25635968 AATAAATTTAG-TTAAGTGTTT
1 AATAAAATTAGTTTAAGTATTT
25635989 AAT
1 AAT
25635992 TTGTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (22 bp):
AATAAAATTAGTTTAAGTATTT
Found at i:25644473 original size:20 final size:22
Alignment explanation
Indices: 25644448--25644487 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25644438 GTACTTAAGT
25644448 ACATTTT-GTT-GCATTTTTGG
1 ACATTTTAGTTAGCATTTTTGG
25644468 ACATTTTAGTTAGCATTTTT
1 ACATTTTAGTTAGCATTTTT
25644488 AATATTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.55
Consensus pattern (22 bp):
ACATTTTAGTTAGCATTTTTGG
Found at i:25652684 original size:51 final size:50
Alignment explanation
Indices: 25652563--25652747 Score: 185
Period size: 51 Copynumber: 3.7 Consensus size: 50
25652553 AAAGTGATGG
* * * * * * *
25652563 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGAAAG-ATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTATA-A
* *
25652613 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT-TCAA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAG-TAT-AA
* * * **
25652664 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGT-ATAA
*
25652715 TCACATGTGTAGTACTATGTGTAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
25652748 TGAATCGGTA
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
50 38 0.34
51 72 0.64
52 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTATAA
Found at i:25652700 original size:101 final size:102
Alignment explanation
Indices: 25652563--25652747 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
25652553 AAAGTGATGG
* *
25652563 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGAAA--GATAGGTCGCATGTGTAGT
1 TCACATGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGAAAGTGAT-GGTCACATGTGTAGT
25652626 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
* * * *
25652664 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGAAAGTGATGGTCACATGTGTAGTA
*
25652729 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
25652748 TGAATCGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 39 0.52
102 33 0.44
103 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (102 bp):
TCACATGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGAAAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
Found at i:25662555 original size:51 final size:49
Alignment explanation
Indices: 25662392--25662573 Score: 147
Period size: 51 Copynumber: 3.6 Consensus size: 49
25662382 TGAAAGTGAT
* * * *
25662392 GGTCACGTGTGTAGTACTTTGTGCAGGCTACTACGTGTACCGGAATG-ATG
1 GGTCACATGTGTAGTACTATGTGCAGGCTATTACGTGTA-CGG-ATGTATC
* * * *
25662442 GGTCGCATATGTAGTACTATGTGTAGGCTACTATAC--GTACTGGATAGTTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTA-T-TACGTGTAC-GGAT-GTATC
* *
25662493 GATCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTATCGGATGGTAAT-
1 GGTCACATGTGTAGTACTATGTGCAGGCTATTACGTGTA-CGGAT-GT-ATC
* *
25662544 GGTCACATGTGTAGTATTATGTGTAGGCTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTA
25662574 CAATGTGAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
49 6 0.06
50 32 0.31
51 61 0.59
52 5 0.05
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.34
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTATTACGTGTACGGATGTATC
Found at i:25667312 original size:50 final size:50
Alignment explanation
Indices: 25667165--25667451 Score: 333
Period size: 50 Copynumber: 5.6 Consensus size: 50
25667155 GATGAGATCC
* * ** *
25667165 CATGTAAGACCATTTCTGGGACATGGCATTCGCATAATTGAGATTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGAG---ATGAGAGGTCT
*
25667221 CATGTAAGACCATG-CTGGGACATGGCGTTGGCACCGAGATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
*
25667270 CATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* * *
25667320 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
** * * * * **
25667370 CCCGTAAGACCAAGTCTGGGACATGGCATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
* *
25667420 CATGTAAGACCATATCTGGGATATGGCATTGG
1 CATGTAAGACCATGTCTGGGACATGGCATTGG
25667452 TAGTACAAGA
Statistics
Matches: 202, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
49 24 0.12
50 145 0.72
52 4 0.02
55 16 0.08
56 13 0.06
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCT
Done.