Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 227 of 438
Found at i:69937970 original size:46 final size:44
Alignment explanation
Indices: 69937827--69937970 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 44
69937817 CCCGCCCATA
69937827 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
69937874 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
69937920 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
69937966 AGTGA
1 AGTGA
69937971 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:69940371 original size:29 final size:29
Alignment explanation
Indices: 69940332--69940419 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
69940322 CAAAGATAAC
*
69940332 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
69940361 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
69940390 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
69940420 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:69940390 original size:15 final size:15
Alignment explanation
Indices: 69940332--69940410 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
69940322 CAAAGATAAC
*
69940332 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
69940346 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
69940361 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
69940375 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
69940390 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
69940405 AAGAAA
1 AAGAAA
69940411 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:69940419 original size:15 final size:15
Alignment explanation
Indices: 69940343--69940419 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
69940333 AGAAAACCGA
69940343 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
69940358 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
69940372 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
69940386 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
69940402 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
69940417 ATA
1 ATA
69940420 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:69943483 original size:93 final size:93
Alignment explanation
Indices: 69943371--69943541 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
69943361 GCCCATAAGT
* *
69943371 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69943436 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
69943464 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
69943529 CGAGTTCGGATGC
66 CGAGTTCGGATGC
69943542 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:69943538 original size:46 final size:46
Alignment explanation
Indices: 69943363--69943538 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
69943353 TGTAACCCGC
* * *
69943363 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
69943409 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
69943459 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
69943502 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
69943539 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:69950040 original size:39 final size:38
Alignment explanation
Indices: 69949997--69950078 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 38
69949987 ATTTATTTCT
69949997 ATAAATTGAATTATTAGCCATTAAATCGCATATTTTAAA
1 ATAAATTGAATTATTAGCCATTAAATCGCATATTTT-AA
*
69950036 ATAAATTGAATTATTAGCCATTAAATCGCATGTTTTAA
1 ATAAATTGAATTATTAGCCATTAAATCGCATATTTTAA
69950074 ATAAA
1 ATAAA
69950079 ACCTGAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 7 0.17
39 35 0.83
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (38 bp):
ATAAATTGAATTATTAGCCATTAAATCGCATATTTTAA
Found at i:69950060 original size:20 final size:20
Alignment explanation
Indices: 69949998--69950061 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
69949988 TTTATTTCTA
69949998 TAAATTGAATTATTAGCCAT
1 TAAATTGAATTATTAGCCAT
* * *
69950018 TAAATCGCATATT-TTA--AAA
1 TAAATTG-A-ATTATTAGCCAT
69950037 TAAATTGAATTATTAGCCAT
1 TAAATTGAATTATTAGCCAT
69950057 TAAAT
1 TAAAT
69950062 CGCATGTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 3 0.09
18 4 0.12
19 7 0.21
20 12 0.36
21 4 0.12
22 3 0.09
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (20 bp):
TAAATTGAATTATTAGCCAT
Found at i:69950746 original size:8 final size:8
Alignment explanation
Indices: 69950733--69950766 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
69950723 ATATGTATAC
69950733 TTGTGAAA
1 TTGTGAAA
69950741 TTGTGAAA
1 TTGTGAAA
*
69950749 CTGTGAAA
1 TTGTGAAA
69950757 TTGTGAAA
1 TTGTGAAA
69950765 TT
1 TT
69950767 ATAAATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (8 bp):
TTGTGAAA
Found at i:69953300 original size:2 final size:2
Alignment explanation
Indices: 69953295--69953319 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
69953285 ACATACACAC
69953295 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
69953320 AACAATAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:69956513 original size:26 final size:26
Alignment explanation
Indices: 69956483--69956616 Score: 259
Period size: 26 Copynumber: 5.2 Consensus size: 26
69956473 TGAAATTCCC
69956483 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
69956509 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
69956535 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
69956561 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
69956587 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
69956613 ATCA
1 ATCA
69956617 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:69957217 original size:17 final size:17
Alignment explanation
Indices: 69957195--69957289 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 17
69957185 TAAACCATAG
69957195 TAATAAAAATAATATAA
1 TAATAAAAATAATATAA
*
69957212 TAATAATAATAATATAA
1 TAATAAAAATAATATAA
* *
69957229 -AATTGGATAA-AATATAA
1 TAA-T-AAAAATAATATAA
*
69957246 TGATATAAAAATAAAATAA
1 T-A-ATAAAAATAATATAA
* *
69957265 GAAT-AAAGTAATAGGTAA
1 TAATAAAAATAATA--TAA
69957283 TAATAAA
1 TAATAAA
69957290 TACAATAACA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
16 9 0.15
17 26 0.43
18 14 0.23
19 10 0.17
20 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.28
Consensus pattern (17 bp):
TAATAAAAATAATATAA
Found at i:69962961 original size:46 final size:46
Alignment explanation
Indices: 69962892--69963020 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
69962882 TGTAACCCGC
* * *
69962892 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
69962938 CTATAAGTGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
69962984 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
69963021 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:69963039 original size:46 final size:44
Alignment explanation
Indices: 69962897--69963039 Score: 119
Period size: 46 Copynumber: 3.1 Consensus size: 44
69962887 CCCGCCCATA
* ** * *
69962897 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCTAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATC--T
* * * *
69962942 AAGTGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCA-CCATCT
69962989 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCAT-CT
69963035 AGTGA
1 AGTGA
69963040 CATGTCACTT
Statistics
Matches: 77, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
44 8 0.10
45 1 0.01
46 64 0.83
48 1 0.01
50 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCT
Found at i:69966903 original size:5 final size:5
Alignment explanation
Indices: 69966893--69967054 Score: 283
Period size: 5 Copynumber: 32.6 Consensus size: 5
69966883 TTTAGAAGAA
* *
69966893 AATAC AATAC AATTC AGA-A- AATAC AATTC AATAC AATAC AATAC AATAC
1 AATAC AATAC AATAC A-ATAC AATAC AATAC AATAC AATAC AATAC AATAC
69966942 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
1 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
69966992 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
1 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
69967042 AATAC AATAC AAT
1 AATAC AATAC AAT
69967055 TTAGTTATTA
Statistics
Matches: 150, Mismatches: 4, Indels: 6
0.94 0.03 0.04
Matches are distributed among these distances:
3 1 0.01
4 2 0.01
5 146 0.97
6 1 0.01
ACGTcount: A:0.59, C:0.19, G:0.01, T:0.21
Consensus pattern (5 bp):
AATAC
Found at i:69970419 original size:40 final size:40
Alignment explanation
Indices: 69970357--69970503 Score: 204
Period size: 40 Copynumber: 3.7 Consensus size: 40
69970347 CGTTTGACAA
*
69970357 AAAACACCGCTATGGATCGAGCATTAGTGGCGCTTTTTGG
1 AAAACACCGCTATAGATCGAGCATTAGTGGCGCTTTTTGG
* *
69970397 AAAACGCCGCTATAGATTGAGCATTAGTGGCGCTTTTTGG
1 AAAACACCGCTATAGATCGAGCATTAGTGGCGCTTTTTGG
* *** *
69970437 AAAACGCCGCTATAGATCGAGCATTAGCAACGCTTTTTAG
1 AAAACACCGCTATAGATCGAGCATTAGTGGCGCTTTTTGG
* *
69970477 AAAACACCACTATAAATCGAGCATTAG
1 AAAACACCGCTATAGATCGAGCATTAG
69970504 GTTTGAGAAA
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (40 bp):
AAAACACCGCTATAGATCGAGCATTAGTGGCGCTTTTTGG
Found at i:69970674 original size:40 final size:40
Alignment explanation
Indices: 69970601--69970683 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
69970591 GCTTTATGGG
* * *
69970601 AAACGCCGCTATAGATTGAGCATTATCGGTGCTTTTTGAA
1 AAACGCCGCTATAGATCGAGCATTAGCGATGCTTTTTGAA
* *
69970641 AAACGCCGCTATAGGTCGAGCTTTAGCGATGCTTTTTGAA
1 AAACGCCGCTATAGATCGAGCATTAGCGATGCTTTTTGAA
69970681 AAA
1 AAA
69970684 TGCCAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (40 bp):
AAACGCCGCTATAGATCGAGCATTAGCGATGCTTTTTGAA
Found at i:69971017 original size:7 final size:7
Alignment explanation
Indices: 69970989--69971169 Score: 53
Period size: 7 Copynumber: 25.4 Consensus size: 7
69970979 TTAATTAACA
*
69970989 TTATAGT
1 TTATGGT
69970996 TT-TGGAT
1 TTATGG-T
*
69971003 TTAGGGT
1 TTATGGT
69971010 TTATGGT
1 TTATGGT
*
69971017 TTAGGGT
1 TTATGGT
* *
69971024 ATATAGT
1 TTATGGT
*
69971031 TTAGGGT
1 TTATGGT
*
69971038 TTAAGGT
1 TTATGGT
**
69971045 TTAAAAGT
1 TT-ATGGT
69971053 TACTAT--T
1 T--TATGGT
*
69971060 TTAAGGT
1 TTATGGT
*
69971067 TTATGGA
1 TTATGGT
69971074 TTATGAGT
1 TTATG-GT
* *
69971082 TTAGGGA
1 TTATGGT
69971089 TTATGGT
1 TTATGGT
69971096 TTATGGT
1 TTATGGT
* *
69971103 TTAAGGA
1 TTATGGT
**
69971110 TTGGGGT
1 TTATGGT
*
69971117 TTATGGG
1 TTATGGT
* * *
69971124 CTAGGGG
1 TTATGGT
*
69971131 ATATGGGT
1 TTAT-GGT
*
69971139 TTAGGGT
1 TTATGGT
*
69971146 TTATGTT
1 TTATGGT
*
69971153 TTATGAT
1 TTATGGT
*
69971160 TTAAGGT
1 TTATGGT
69971167 TTA
1 TTA
69971170 CGGGATAGGG
Statistics
Matches: 124, Mismatches: 41, Indels: 18
0.68 0.22 0.10
Matches are distributed among these distances:
5 2 0.02
6 2 0.02
7 102 0.82
8 16 0.13
9 1 0.01
10 1 0.01
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:69971019 original size:14 final size:14
Alignment explanation
Indices: 69971002--69971169 Score: 66
Period size: 14 Copynumber: 11.3 Consensus size: 14
69970992 TAGTTTTGGA
69971002 TTTAGGGTTTATGG
1 TTTAGGGTTTATGG
* *
69971016 TTTAGGGTATATAG
1 TTTAGGGTTTATGG
*
69971030 TTTAGGGTTTAAGG
1 TTTAGGGTTTATGG
**
69971044 TTTAAAAGTTACTATTTTAAGG
1 TTT-AGGGTT--TA---T--GG
* *
69971066 TTTATGGATTATGAG
1 TTTAGGGTTTATG-G
*
69971081 TTTAGGGATTATGG
1 TTTAGGGTTTATGG
* *
69971095 TTTATGGTTTAAGG
1 TTTAGGGTTTATGG
* *
69971109 ATTGGGGTTTATGG
1 TTTAGGGTTTATGG
** **
69971123 GCTAGGGGATATGGG
1 TTTAGGGTTTAT-GG
*
69971138 TTTAGGGTTTATGT
1 TTTAGGGTTTATGG
* * *
69971152 TTTATGATTTAAGG
1 TTTAGGGTTTATGG
69971166 TTTA
1 TTTA
69971170 CGGGATAGGG
Statistics
Matches: 111, Mismatches: 33, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
14 71 0.64
15 27 0.24
16 1 0.01
17 2 0.02
19 2 0.02
21 3 0.03
22 5 0.05
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:69971084 original size:22 final size:21
Alignment explanation
Indices: 69971059--69971111 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
69971049 AAGTTACTAT
*
69971059 TTTAAGGTTTATGGATTATGAG
1 TTTAAGGATTATGGATTATG-G
* *
69971081 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
69971102 TTTAAGGATT
1 TTTAAGGATT
69971112 GGGGTTTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:69971089 original size:15 final size:14
Alignment explanation
Indices: 69971064--69971098 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
69971054 ACTATTTTAA
*
69971064 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
69971078 GAGTTTAGGGATTAT
1 G-GTTTAGGGATTAT
69971093 GGTTTA
1 GGTTTA
69971099 TGGTTTAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:69971110 original size:21 final size:21
Alignment explanation
Indices: 69971059--69971122 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
69971049 AAGTTACTAT
* *
69971059 TTTAAGGTTTATGGATTATGAG
1 TTTAAGGATTATGGTTTATG-G
*
69971081 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGTTTATGG
**
69971102 TTTAAGGATTGGGGTTTATGG
1 TTTAAGGATTATGGTTTATGG
69971123 GCTAGGGGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (21 bp):
TTTAAGGATTATGGTTTATGG
Found at i:69976611 original size:42 final size:43
Alignment explanation
Indices: 69976504--69976689 Score: 173
Period size: 43 Copynumber: 4.4 Consensus size: 43
69976494 TTTGATATGA
* * * *
69976504 TCTTTAGTGGC-TTTTT-GGGAAAAGAGTCGCTAAAGGTCAT-A
1 TCTTTAGCGGCGTTTTTAGGG-AAAGCGCCGCTAAAGGTCATGT
* ** * * * **
69976545 TCTTTAGCGGCATTTGAAGAGAAAGTGCCGTTAAATATCATG-
1 TCTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCATGT
*
69976587 TCTTTAGCGGCGTTTTTAGGGAAAGCGACGCTAAAGGTCATGT
1 TCTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCATGT
** * *
69976630 TCTTTAGCGATGTTTCTGGGGAAAGCGCCGCTAAAGGTCATGT
1 TCTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCATGT
*
69976673 TCTTTAGTGGCGTTTTT
1 TCTTTAGCGGCGTTTTT
69976690 GGCAAATAAA
Statistics
Matches: 114, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
41 10 0.09
42 51 0.45
43 53 0.46
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCATGT
Found at i:69977623 original size:23 final size:24
Alignment explanation
Indices: 69977597--69977653 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
69977587 ATAATTTTAA
69977597 TAAATAATTATGG-ATTTTGAACC
1 TAAATAATTATGGAATTTTGAACC
* *
69977620 TAAAAGAATT-TGGAATTTTGAACG
1 T-AAATAATTATGGAATTTTGAACC
*
69977644 TAAATTATTA
1 TAAATAATTA
69977654 ATGTATATGC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (24 bp):
TAAATAATTATGGAATTTTGAACC
Found at i:69977629 original size:24 final size:24
Alignment explanation
Indices: 69977602--69977647 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
69977592 TTTAATAAAT
69977602 AATTATGG-ATTTTGAACCTAAAAG
1 AATT-TGGAATTTTGAACCTAAAAG
*
69977626 AATTTGGAATTTTGAACGTAAA
1 AATTTGGAATTTTGAACCTAAA
69977648 TTATTAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (24 bp):
AATTTGGAATTTTGAACCTAAAAG
Found at i:69978959 original size:27 final size:27
Alignment explanation
Indices: 69978929--69978990 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
69978919 TATATACCAA
69978929 TTTTAA-A-TGTTTAAACTAAATCTATTT
1 TTTTAATATTGTTTAAA-T-AATCTATTT
* *
69978956 TTTTCAATATTTTTTAAATAATTTATTT
1 TTTT-AATATTGTTTAAATAATCTATTT
69978984 TTTTAAT
1 TTTTAAT
69978991 TATCAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
27 7 0.23
28 14 0.47
29 2 0.07
30 7 0.23
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTAATATTGTTTAAATAATCTATTT
Found at i:69979338 original size:21 final size:22
Alignment explanation
Indices: 69979300--69979340 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
69979290 TTTTTGCGTA
* *
69979300 TTAATTTTTTATTCAAATATTC
1 TTAAATTTTGATTCAAATATTC
69979322 TTAAATTTTGATT-AAATAT
1 TTAAATTTTGATTCAAATAT
69979341 CTGCATCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAAATTTTGATTCAAATATTC
Found at i:69981154 original size:332 final size:332
Alignment explanation
Indices: 69980558--69981222 Score: 1296
Period size: 332 Copynumber: 2.0 Consensus size: 332
69980548 ATTTTTACTA
69980558 TAGTAAAAATATATAATTTAATTCCGACCCCCCTAAAAAAAGTTTGGCTACGCCCTTGTCTGTTT
1 TAGTAAAAATATATAATTTAATTCCGACCCCCCTAAAAAAAGTTTGGCTACGCCCTTGTCTGTTT
69980623 GTAGTCTTCCAAGAATTTTTGAAGATGCTAGCAAGGATTGACAACTTCGAGGTCACGACCAAAGT
66 GTAGTCTTCCAAGAATTTTTGAAGATGCTAGCAAGGATTGACAACTTCGAGGTCACGACCAAAGT
69980688 AGCTGATGATGTAGAGTTCGGTGAGCTATACATAGTGAAATGGGCAACACTATTGGTGGTGGTGG
131 AGCTGATGATGTAGAGTTCGGTGAGCTATACATAGTGAAATGGGCAACACTATTGGTGGTGGTGG
69980753 TAGGGTGGCAGTAGTGTTACGCTTACAGGCGGGCCCATCGAAAAGGGGTGGATCATAATCATGGT
196 TAGGGTGGCAGTAGTGTTACGCTTACAGGCGGGCCCATCGAAAAGGGGTGGATCATAATCATGGT
69980818 TCGTTGTCATCATGTTGGATTCCCTTAAAAAGGATTCAAATGTTGATGATGTCACTATCGAAATT
261 TCGTTGTCATCATGTTGGATTCCCTTAAAAAGGATTCAAATGTTGATGATGTCACTATCGAAATT
69980883 TTTATGT
326 TTTATGT
69980890 TAGTAAAAATGATATAATTTAATTCCGA-CCCCCTAAAAAAAGTTTGGCTACGCCCTTGTCTGTT
1 TAGTAAAAAT-ATATAATTTAATTCCGACCCCCCTAAAAAAAGTTTGGCTACGCCCTTGTCTGTT
69980954 TGTAGTCTTCCAAGAATTTTTGAAGATGCTAGCAAGGATTGACAACTTCGAGGTCACGACCAAAG
65 TGTAGTCTTCCAAGAATTTTTGAAGATGCTAGCAAGGATTGACAACTTCGAGGTCACGACCAAAG
69981019 TAGCTGATGATGTAGAGTTCGGTGAGCTATACATAGTGAAATGGGCAACACTATTGGTGGTGGTG
130 TAGCTGATGATGTAGAGTTCGGTGAGCTATACATAGTGAAATGGGCAACACTATTGGTGGTGGTG
* *
69981084 GTAGGGTGGCGGTAGTGTTACGCTTACAGGCGGGCTCATCGAAAAGGGGTGGATCATAATCATGG
195 GTAGGGTGGCAGTAGTGTTACGCTTACAGGCGGGCCCATCGAAAAGGGGTGGATCATAATCATGG
69981149 TTCGTTGTCATCATGTTGGATTCCCTTAAAAAGGATTCAAATGTTGATGATGTCACTATCGAAAT
260 TTCGTTGTCATCATGTTGGATTCCCTTAAAAAGGATTCAAATGTTGATGATGTCACTATCGAAAT
69981214 TTTTATGT
325 TTTTATGT
69981222 T
1 T
69981223 GCAATTAAAT
Statistics
Matches: 330, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
332 313 0.95
333 17 0.05
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (332 bp):
TAGTAAAAATATATAATTTAATTCCGACCCCCCTAAAAAAAGTTTGGCTACGCCCTTGTCTGTTT
GTAGTCTTCCAAGAATTTTTGAAGATGCTAGCAAGGATTGACAACTTCGAGGTCACGACCAAAGT
AGCTGATGATGTAGAGTTCGGTGAGCTATACATAGTGAAATGGGCAACACTATTGGTGGTGGTGG
TAGGGTGGCAGTAGTGTTACGCTTACAGGCGGGCCCATCGAAAAGGGGTGGATCATAATCATGGT
TCGTTGTCATCATGTTGGATTCCCTTAAAAAGGATTCAAATGTTGATGATGTCACTATCGAAATT
TTTATGT
Found at i:69996131 original size:3 final size:3
Alignment explanation
Indices: 69996123--69996164 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
69996113 TTTCTTTTGG
69996123 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
69996165 TACATTTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:70010345 original size:6 final size:6
Alignment explanation
Indices: 70010323--70010438 Score: 207
Period size: 6 Copynumber: 19.2 Consensus size: 6
70010313 AAAGTGCTTT
70010323 TATATG -ATATG TATATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG --TATATG TATATG TATATG TATATG TATATG TATATG
70010372 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
70010420 TATATG TATATG TATATG T
1 TATATG TATATG TATATG T
70010439 TAATGGCTTC
Statistics
Matches: 107, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.05
6 97 0.91
8 5 0.05
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:70020579 original size:24 final size:24
Alignment explanation
Indices: 70020551--70020603 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
70020541 ATTTTGTTAA
*
70020551 CATTTTCTCATATTATAAAATTAT
1 CATTTTCCCATATTATAAAATTAT
70020575 CATTTTCCCATATTATAAAATTAT
1 CATTTTCCCATATTATAAAATTAT
70020599 C-TTTT
1 CATTTT
70020604 GATATATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (24 bp):
CATTTTCCCATATTATAAAATTAT
Found at i:70021268 original size:15 final size:15
Alignment explanation
Indices: 70021237--70021265 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
70021227 ACTATTAGTA
70021237 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
70021252 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
70021266 TATCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:70023216 original size:62 final size:62
Alignment explanation
Indices: 70023119--70023245 Score: 209
Period size: 62 Copynumber: 2.0 Consensus size: 62
70023109 TATTAATGTA
** * *
70023119 ACACCCCTTACCCGCATCCGACTCTGGGACAGGGTACGAGGCATTACCAAACTTCTACTCAT
1 ACACCCCTTACCCGCATCCGAAGCCGGGACAGGGTACGAGGCATTACCAAACTTATACTCAT
*
70023181 ACACCCCTTATCCGCATCCGAAGCCGGGACAGGGTACGAGGCATTACCAAACTTATACTCAT
1 ACACCCCTTACCCGCATCCGAAGCCGGGACAGGGTACGAGGCATTACCAAACTTATACTCAT
70023243 ACA
1 ACA
70023246 TTCATGCAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (62 bp):
ACACCCCTTACCCGCATCCGAAGCCGGGACAGGGTACGAGGCATTACCAAACTTATACTCAT
Found at i:70023442 original size:22 final size:22
Alignment explanation
Indices: 70023414--70023465 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
70023404 ATACAAAGCC
70023414 ACACGCCCATGTGAGACAGGGG
1 ACACGCCCATGTGAGACAGGGG
70023436 ACACGCCCATGTGAGACAGGGG
1 ACACGCCCATGTGAGACAGGGG
70023458 ACACGCCC
1 ACACGCCC
70023466 GTGTACTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.27, C:0.33, G:0.33, T:0.08
Consensus pattern (22 bp):
ACACGCCCATGTGAGACAGGGG
Found at i:70025024 original size:44 final size:44
Alignment explanation
Indices: 70024959--70025043 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
70024949 ACATGTATCT
* * * *
70024959 CATCCATTATGAACTCGGACCAACTCAATGAGTTTGGATGCTTG
1 CATCCATAATGAACTCAGACCAACTCAACGAGTTCGGATGCTTG
70025003 CATCCATAATGAACTCAGACCAACTCAACGAGTTCGGATGC
1 CATCCATAATGAACTCAGACCAACTCAACGAGTTCGGATGC
70025044 CTAATATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (44 bp):
CATCCATAATGAACTCAGACCAACTCAACGAGTTCGGATGCTTG
Found at i:70044405 original size:10 final size:8
Alignment explanation
Indices: 70044381--70044410 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
70044371 AATCCCATAA
70044381 CATTCTCT
1 CATTCTCT
70044389 CATTCTCT
1 CATTCTCT
70044397 CATTCTCT
1 CATTCTCT
70044405 C-TTCTC
1 CATTCTC
70044411 ATCTTTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.23
8 17 0.77
ACGTcount: A:0.10, C:0.40, G:0.00, T:0.50
Consensus pattern (8 bp):
CATTCTCT
Found at i:70049144 original size:15 final size:15
Alignment explanation
Indices: 70049124--70049153 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
70049114 CATTGCATTA
70049124 CCCGTTGAACACTTG
1 CCCGTTGAACACTTG
70049139 CCCGTTGAACACTTG
1 CCCGTTGAACACTTG
70049154 GAATACTATT
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:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (15 bp):
CCCGTTGAACACTTG
Found at i:70049461 original size:44 final size:44
Alignment explanation
Indices: 70049398--70049481 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
70049388 TACATGTATT
* * *
70049398 GCATCCGTTATGAACTCGGACAAACTCAACGAGTTCGAATACTA
1 GCATCCATAATGAACTCGGACAAACTCAACGAGCTCGAATACTA
* *
70049442 GCATCCATAATGAATTCGGACCAACTCAACGAGCTCGAAT
1 GCATCCATAATGAACTCGGACAAACTCAACGAGCTCGAAT
70049482 GCCTTATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (44 bp):
GCATCCATAATGAACTCGGACAAACTCAACGAGCTCGAATACTA
Found at i:70052953 original size:37 final size:38
Alignment explanation
Indices: 70052912--70052992 Score: 89
Period size: 36 Copynumber: 2.2 Consensus size: 38
70052902 TTATATTTAT
*
70052912 AATAAAATAATT-ATAATGTAAATTTAGCAT-AATAT-AA
1 AATAAAATAATTAATAATG-AAATATA-CATGAATATAAA
* *
70052949 AAT-AAGTAATTAATGATGAAATATACATGAATATAAA
1 AATAAAATAATTAATAATGAAATATACATGAATATAAA
70052986 AATAAAA
1 AATAAAA
70052993 ATGACATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
35 3 0.08
36 18 0.50
37 13 0.36
38 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (38 bp):
AATAAAATAATTAATAATGAAATATACATGAATATAAA
Found at i:70053061 original size:24 final size:24
Alignment explanation
Indices: 70053010--70053055 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
70053000 AATAATATAG
*
70053010 AATAATATATAATATGTATATAAA
1 AATAATATATAATATATATATAAA
* *
70053034 AATAATGTATAGTATATATATA
1 AATAATATATAATATATATATA
70053056 TCAATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
AATAATATATAATATATATATAAA
Found at i:70053114 original size:30 final size:30
Alignment explanation
Indices: 70053080--70053140 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
70053070 AAGCACAAAT
*
70053080 ATAATAACCATATATAAATAATA-ATGTAAA
1 ATAATAACAATATA-AAATAATATATGTAAA
* *
70053110 ATAATAATAATATAAAATAATATATTTAAA
1 ATAATAACAATATAAAATAATATATGTAAA
70053140 A
1 A
70053141 CGTAAGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (30 bp):
ATAATAACAATATAAAATAATATATGTAAA
Found at i:70053117 original size:16 final size:16
Alignment explanation
Indices: 70053096--70053131 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
70053086 ACCATATATA
*
70053096 AATAATAATGTAAAAT
1 AATAATAATATAAAAT
70053112 AATAATAATATAAAAT
1 AATAATAATATAAAAT
70053128 AATA
1 AATA
70053132 TATTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAATAATATAAAAT
Found at i:70054263 original size:13 final size:13
Alignment explanation
Indices: 70054245--70054270 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70054235 TGATTCGAAA
70054245 CCTGGAATCACGG
1 CCTGGAATCACGG
70054258 CCTGGAATCACGG
1 CCTGGAATCACGG
70054271 TGCTGATGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
CCTGGAATCACGG
Found at i:70055280 original size:205 final size:205
Alignment explanation
Indices: 70054844--70055474 Score: 847
Period size: 205 Copynumber: 3.1 Consensus size: 205
70054834 CAAATCTGCT
** * * * *
70054844 TCTTCGATTTATTCCTTGTAAGCACAAGAATGCCAAATCATCTTAGATGTTGCTTTAGTGTAATC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTGTAATC
* * *
70054909 GTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGAAATGCCAGACTTCTATTTG
66 GTCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATAG-AGTGGAAATGCCAGACTTCGATTTG
* * * * *
70054974 TTCTCTGACACTACAGAGACGACAAAATCATCTTAGATTTGCTTCATCGTAAGCAGGTGAAA-GC
130 TTCTCTGACAATACAGAGATG-CCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGGC
*
70055038 TAAATCAGATATG
194 -AAATCAGCTATG
*
70055051 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTCTAATC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTGTAATC
* * * * *
70055116 GTCCGAAAGTGAGATCTGCTATGTATCTGCTCTCCATCGATTGGAGATGCCAGACTTCGATTT-T
66 GTCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATAGAGTGGAAATGCCAGACTTCGATTTGT
* *
70055180 CTCTTTGCCAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGGCA
131 -TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGGCA
70055245 AATCAGCTATG
195 AATCAGCTATG
* *
70055256 TCTTCGATTTGCTCCTTATAAGCACAAGGATGCCAAATCATCTTGGATC-TGCTTCAGTGTAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTGTAATC
* * * * *
70055320 ATTTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATTAAAGTGGAAATGCCAGACTTTGATTTG
66 GTCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCA-TAGAGTGGAAATGCCAGACTTCGATTTG
* * * * *
70055385 TTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGTTTTGA-CGTAAACACGCGAAAGCC
130 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTG-CTTCATCGTAAACACGTGAAAGGC
70055449 AAATCAGCTATG
194 AAATCAGCTATG
* *
70055461 TCTTTGATCTGCTC
1 TCTTCGATTTGCTC
70055475 TCCGCCAATA
Statistics
Matches: 375, Mismatches: 44, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
204 44 0.12
205 195 0.52
206 43 0.11
207 93 0.25
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (205 bp):
TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTGTAATC
GTCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATAGAGTGGAAATGCCAGACTTCGATTTGT
TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGGCAA
ATCAGCTATG
Found at i:70055517 original size:44 final size:44
Alignment explanation
Indices: 70055461--70055553 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 44
70055451 ATCAGCTATG
* *
70055461 TCTTTGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGGTA
1 TCTTCGATCTGCTCTCCGACAATACAGAGATGCCAAATCTGGTA
* *
70055505 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGTTA
1 TCTTCGATCTGCTCTCCGACAATACAGAGATGCCAAATCTGGTA
70055549 TCTTC
1 TCTTC
70055554 AACTTGTTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCCGACAATACAGAGATGCCAAATCTGGTA
Found at i:70055576 original size:44 final size:44
Alignment explanation
Indices: 70055484--70055853 Score: 213
Period size: 44 Copynumber: 8.4 Consensus size: 44
70055474 CTCCGCCAAT
* * * * * *
70055484 ACAGAGATGCCAAATCTGGTATCTTCGA-TCTGCTCTCTGA-CAAT
1 ACAGAGATGCCAAATCTGCTATCTTCAACT-TGTTCCCT-ATAAAC
* *
70055528 ACAGAGATGCCAAATCTGTTATCTTCAACTTGTTCCCTATAACC
1 ACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
* ** * * * ** * *
70055572 ACAGAGATACC--ATGCTGGAATCCTCGATCTGGTTTGCTGTAAGC
1 ACAGAGATGCCAAAT-CTGCTATCTTC-AACTTGTTCCCTATAAAC
* * * * *
70055616 ACAGA-AGTGTCAGATCTGTTATTTTGCGA-TATGTTCCCTATAAAC
1 ACAGAGA-TGCCAAATCTGCTATCTT-CAACT-TGTTCCCTATAAAC
*
70055661 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
1 ACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
*
70055705 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
1 ACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
* * ** * * * *
70055749 ACGGGGATGCC--ATGCTGAAATCTTCGA-TCTGCTTCGCTTTAAGC
1 ACAGAGATGCCAAAT-CTGCTATCTTCAACT-TG-TTCCCTATAAAC
** * *
70055793 ACA-AGAATATCAGATTTGCTATCTTCAA-TCTGTTCCCTATAAAC
1 ACAGAG-ATGCCAAATCTGCTATCTTCAACT-TGTTCCCTATAAAC
*
70055837 ACAGGGATGCCAAATCT
1 ACAGAGATGCCAAATCT
70055854 TGTTTCTATG
Statistics
Matches: 249, Mismatches: 59, Indels: 36
0.72 0.17 0.10
Matches are distributed among these distances:
42 5 0.02
43 23 0.09
44 166 0.67
45 49 0.20
46 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
ACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
Found at i:70055794 original size:177 final size:176
Alignment explanation
Indices: 70055528--70055853 Score: 474
Period size: 177 Copynumber: 1.8 Consensus size: 176
70055518 CTCTGACAAT
* * *
70055528 ACAGAGATGCCAAATCTGTTATCTTCAACTTGTTCCCTATAACCACAGAGATACCATGCTGGAAT
1 ACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGAGATACCATGCTGAAAT
* * * * * *
70055593 CCTCGATCTGGTTTGCTGTAAGCAC-AGAAGTGTCAGATCTGTTATTTTGCGATATGTTCCCTAT
66 CCTCGATCTGCTTCGCTGTAAGCACAAGAA-TATCAGATCTGCTATCTT-CAATATGTTCCCTAT
70055657 AAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
129 AAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
* * * *
70055705 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACGGGGATGCCATGCTGAAAT
1 ACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGAGATACCATGCTGAAAT
* * * *
70055770 CTTCGATCTGCTTCGCTTTAAGCACAAGAATATCAGATTTGCTATCTTCAATCTGTTCCCTATAA
66 CCTCGATCTGCTTCGCTGTAAGCACAAGAATATCAGATCTGCTATCTTCAATATGTTCCCTATAA
70055835 ACACAGGGATGCCAAATCT
131 ACACAGGGATGCCAAATCT
70055854 TGTTTCTATG
Statistics
Matches: 131, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
176 34 0.26
177 93 0.71
178 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (176 bp):
ACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGAGATACCATGCTGAAAT
CCTCGATCTGCTTCGCTGTAAGCACAAGAATATCAGATCTGCTATCTTCAATATGTTCCCTATAA
ACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
Found at i:70055813 original size:88 final size:87
Alignment explanation
Indices: 70055541--70055848 Score: 275
Period size: 88 Copynumber: 3.5 Consensus size: 87
70055531 GAGATGCCAA
* * * * * *
70055541 ATCTGTTATCTTCAACT-TGTTCCCTATAACCACAGAGATACCATGCTGGAATCCTCGATCTGGT
1 ATCTGCTATCTTCAA-TATGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCT-GT
* *
70055605 TTGCTGTAAGCAC-AGAAGTGTCAG
64 TCGCTATAAGCACAAGAA-TGTCAG
* * * ** *
70055629 ATCTGTTATTTTGCGATATGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCTTC-AACTT
1 ATCTGCTATCTT-CAATATGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTTCGATC-T
* * * * * *
70055692 GTTCCCTATAAACACAGGGATGCCAA
62 GTTCGCTATAAGCACAAGAATGTCAG
*
70055718 ATCTGCTATCTTCAACT-TGTTCCCTATAAACACGGGGATGCCATGCTGAAATCTTCGATCTGCT
1 ATCTGCTATCTTCAA-TATGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTG-T
* *
70055782 TCGCTTTAAGCACAAGAATATCAG
64 TCGCTATAAGCACAAGAATGTCAG
* *
70055806 ATTTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCA
1 ATCTGCTATCTTCAATATGTTCCCTATAAACACAGGGATGCCA
70055849 AATCTTGTTT
Statistics
Matches: 175, Mismatches: 34, Indels: 22
0.76 0.15 0.10
Matches are distributed among these distances:
86 2 0.01
87 12 0.07
88 96 0.55
89 52 0.30
90 11 0.06
91 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (87 bp):
ATCTGCTATCTTCAATATGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGTTC
GCTATAAGCACAAGAATGTCAG
Found at i:70068632 original size:40 final size:39
Alignment explanation
Indices: 70068577--70068765 Score: 227
Period size: 40 Copynumber: 4.8 Consensus size: 39
70068567 GGATATAGCT
* * *
70068577 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAGTA
* *
70068617 ACTCGCACAATTGCCTTCGGGACTTAGCCCGAATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG-GTTTAGTA
70068657 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* ** *
70068697 ACTCGCACAAATGCCTTCAGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* * *
70068736 ACTAGCGCAGATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
70068766 AATTATCATC
Statistics
Matches: 131, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 32 0.24
40 97 0.74
41 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGTA
Found at i:70071226 original size:30 final size:30
Alignment explanation
Indices: 70071192--70071252 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
70071182 AAGCAAAAAT
*
70071192 ATAATAACCATATATAAATAATA-ATGTAAA
1 ATAATAACAATATA-AAATAATATATGTAAA
* *
70071222 ATAATAATAATATAAAATAATATATTTAAA
1 ATAATAACAATATAAAATAATATATGTAAA
70071252 A
1 A
70071253 CGTAAGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (30 bp):
ATAATAACAATATAAAATAATATATGTAAA
Found at i:70071229 original size:16 final size:16
Alignment explanation
Indices: 70071208--70071243 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
70071198 ACCATATATA
*
70071208 AATAATAATGTAAAAT
1 AATAATAATATAAAAT
70071224 AATAATAATATAAAAT
1 AATAATAATATAAAAT
70071240 AATA
1 AATA
70071244 TATTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAATAATATAAAAT
Found at i:70071366 original size:24 final size:24
Alignment explanation
Indices: 70071334--70071386 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
70071324 ATAATATATG
70071334 ATAAAAATATAAGTAGTA-TTTTTT
1 ATAAAAATATAAGTA-TATTTTTTT
* *
70071358 ATAATAATATATGTATATTTTTTT
1 ATAAAAATATAAGTATATTTTTTT
70071382 ATAAA
1 ATAAA
70071387 TAGATTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (24 bp):
ATAAAAATATAAGTATATTTTTTT
Found at i:70071395 original size:21 final size:24
Alignment explanation
Indices: 70071352--70071396 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
70071342 ATAAGTAGTA
*
70071352 TTTTTTATAATAATATATGTATAT
1 TTTTTTATAATAATAGATGTATAT
70071376 TTTTTTAT-A-AATAGAT-TATAT
1 TTTTTTATAATAATAGATGTATAT
70071397 AAAATAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 6 0.30
23 1 0.05
24 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTTTTATAATAATAGATGTATAT
Found at i:70072373 original size:13 final size:13
Alignment explanation
Indices: 70072355--70072380 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
70072345 TGATTCGAAA
70072355 CCTGGAATCACGG
1 CCTGGAATCACGG
70072368 CCTGGAATCACGG
1 CCTGGAATCACGG
70072381 TGCTGATGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
CCTGGAATCACGG
Found at i:70075241 original size:13 final size:13
Alignment explanation
Indices: 70075223--70075259 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 13
70075213 TCTCTGACTT
70075223 AGGTCACACGGTC
1 AGGTCACACGGTC
70075236 AGGTCACACACGGTC
1 AGGT--CACACGGTC
70075251 AGGTCACAC
1 AGGTCACAC
70075260 ACCCGTGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.41
15 13 0.59
ACGTcount: A:0.27, C:0.32, G:0.27, T:0.14
Consensus pattern (13 bp):
AGGTCACACGGTC
Found at i:70075247 original size:15 final size:15
Alignment explanation
Indices: 70075227--70075261 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
70075217 TGACTTAGGT
70075227 CACACGGTCAGGTCA
1 CACACGGTCAGGTCA
70075242 CACACGGTCAGGTCA
1 CACACGGTCAGGTCA
70075257 CACAC
1 CACAC
70075262 CCGTGTGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.37, G:0.23, T:0.11
Consensus pattern (15 bp):
CACACGGTCAGGTCA
Found at i:70078137 original size:16 final size:13
Alignment explanation
Indices: 70078103--70078130 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
70078093 TCTTTTTTTA
70078103 TTATTTATCATCT
1 TTATTTATCATCT
70078116 TTATTTATCATCT
1 TTATTTATCATCT
70078129 TT
1 TT
70078131 TCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:70084576 original size:21 final size:21
Alignment explanation
Indices: 70084550--70084589 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
70084540 ACACAATAGA
* *
70084550 CCTAGGGTAGGTATGTCATTT
1 CCTAGGATAAGTATGTCATTT
70084571 CCTAGGATAAGTATGTCAT
1 CCTAGGATAAGTATGTCAT
70084590 CTACATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (21 bp):
CCTAGGATAAGTATGTCATTT
Found at i:70092635 original size:41 final size:40
Alignment explanation
Indices: 70092590--70092671 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
70092580 GCTAGGTTTA
* * *
70092590 AAGCCCAAATCCAATTACCACCACAAGGCATGCGGGACTTT
1 AAGCCCAAATACAA-TACCACCACAAAGCATACGGGACTTT
* * * *
70092631 AAGCCCGAATATAATACCAGCACAAAGCCTACGGGACTTT
1 AAGCCCAAATACAATACCACCACAAAGCATACGGGACTTT
70092671 A
1 A
70092672 TAACACTAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 23 0.68
41 11 0.32
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (40 bp):
AAGCCCAAATACAATACCACCACAAAGCATACGGGACTTT
Found at i:70092724 original size:39 final size:39
Alignment explanation
Indices: 70092670--70092908 Score: 379
Period size: 39 Copynumber: 6.1 Consensus size: 39
70092660 TACGGGACTT
* *
70092670 TATAACACTAGCACGAATGCCTTCGGGGCTTAGCCCGGA
1 TATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGA
*
70092709 TATAACACCAGCACGAATGCCTTCGGGGCTTAGCCCGGA
1 TATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGA
70092748 TATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGA
1 TATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGA
* * *
70092787 TATAACACCAACACGAATGCCTTTGGGACTTAGCTCGGA
1 TATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGA
* * * *
70092826 TATAACACCAGCATGAATGCCTTTGGGACTTATCCTGGA
1 TATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGA
*
70092865 TATAACACCAGCACGAATGCCTTCGGAACTTAGCCCGGA
1 TATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGA
70092904 TATAA
1 TATAA
70092909 TTCTCCATTA
Statistics
Matches: 185, Mismatches: 15, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 185 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (39 bp):
TATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGA
Found at i:70100173 original size:25 final size:27
Alignment explanation
Indices: 70100145--70100207 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
70100135 AGTTATAAAT
70100145 ATTTTAATTTTGA-ATG-TAAAAATTC
1 ATTTTAATTTTGATATGATAAAAATTC
* * *
70100170 ATTTTACTTTT-ATATGATTACAATTC
1 ATTTTAATTTTGATATGATAAAAATTC
*
70100196 AATTTAATTTTG
1 ATTTTAATTTTG
70100208 TCTTACAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 1 0.03
25 13 0.43
26 16 0.53
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (27 bp):
ATTTTAATTTTGATATGATAAAAATTC
Found at i:70100364 original size:24 final size:24
Alignment explanation
Indices: 70100337--70100390 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
70100327 TATTGTTCAC
70100337 TATTATATTATATTGATAATTAAA
1 TATTATATTATATTGATAATTAAA
* * * *
70100361 TATTTTTTTATATTTATTATTAAA
1 TATTATATTATATTGATAATTAAA
70100385 T-TTATA
1 TATTATA
70100391 AAACCTAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TATTATATTATATTGATAATTAAA
Found at i:70100497 original size:11 final size:11
Alignment explanation
Indices: 70100481--70100516 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
70100471 ATTATTACCC
70100481 AAATTTAAAAT
1 AAATTTAAAAT
70100492 AAATTTAAAAT
1 AAATTTAAAAT
70100503 AAATTTAAAAT
1 AAATTTAAAAT
70100514 AAA
1 AAA
70100517 AAGAAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATTTAAAAT
Found at i:70100527 original size:22 final size:22
Alignment explanation
Indices: 70100481--70100527 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
70100471 ATTATTACCC
***
70100481 AAATTTAAAATAAATTTAAAAT
1 AAATTTAAAATAAAAAGAAAAT
*
70100503 AAATTTAAAATAAAAAGAAATT
1 AAATTTAAAATAAAAAGAAAAT
70100525 AAA
1 AAA
70100528 CTCAATACCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AAATTTAAAATAAAAAGAAAAT
Found at i:70100992 original size:17 final size:17
Alignment explanation
Indices: 70100960--70101002 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
70100950 AGGGTTAAAC
70100960 ATTATAATATTATATTAT
1 ATTAT-ATATTATATTAT
*
70100978 ATTATATATTTTATTAT
1 ATTATATATTATATTAT
*
70100995 AATATATA
1 ATTATATA
70101003 ATTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATATATTATATTAT
Found at i:70101184 original size:257 final size:257
Alignment explanation
Indices: 70100810--70101283 Score: 611
Period size: 257 Copynumber: 1.8 Consensus size: 257
70100800 GTATATTATA
* * * * * * *
70100810 TATTATATATTATTATATTGGTTGAAATATGCTTTAAGTCCCTATACTTTTCATATATTTGAAAG
1 TATTATATATTATTATACTAGTTAAAATATGCTCTAAGTCCATATACATTTCATAAATTTGAAAG
* * *
70100875 TTAACCCTCGTACTATATTATATAATATCATTTCATATAGTATACAATATATTAATAGTTTATAT
66 TTAACCCTCCTACTATATTATATAATATCATATCATATAGTATACAATATATTAAAAGTTTATAT
* * * * * *
70100940 ATATCCATCAAGGGTTAAACATTATAATATTATA-TTATATTATATATTTTATTATAATATATAA
131 ATATCCATAAAGGATTAAACATTATAATATCA-AGTAACACTATATATTTTATTATAATATAT-A
*
70101004 TTA-A-TAATAGTTACATATAATAAAATTACATTATATATTGCATTTTGTTATTTATTGTTGTT
194 TTATACTAAGAGTTACATATAATAAAATTACATTATATATTGCATTTTGTTATTTATTGTTGTT
* *
70101066 TATTATTTATTATTATACTAGTTAAAATATGCTCTAAGTTCATATACATTTCATACAATTTGAAA
1 TATTATATATTATTATACTAGTTAAAATATGCTCTAAGTCCATATACATTTCATA-AATTTGAAA
*
70101131 GTTAACCCTCCTACTATATTATATAAT-GCTATATCATA-A-TCATA-ATCATATATTAAAAGTT
65 GTTAACCCTCCTACTATATTATATAATATC-ATATCATATAGT-ATACA--ATATATTAAAAGTT
* * * *
70101192 TATATATATGCATAAATGATTAAACATTATAATATCAAGTAACACTATATTTTTTATTATAATCT
126 TATATATATCCATAAAGGATTAAACATTATAATATCAAGTAACACTATATATTTTATTATAATAT
*
70101257 ATATTATACTAAGAGTTATATATAATA
191 ATATTATACTAAGAGTTACATATAATA
70101284 GCCATACACT
Statistics
Matches: 185, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
255 2 0.01
256 57 0.31
257 110 0.59
258 16 0.09
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.45
Consensus pattern (257 bp):
TATTATATATTATTATACTAGTTAAAATATGCTCTAAGTCCATATACATTTCATAAATTTGAAAG
TTAACCCTCCTACTATATTATATAATATCATATCATATAGTATACAATATATTAAAAGTTTATAT
ATATCCATAAAGGATTAAACATTATAATATCAAGTAACACTATATATTTTATTATAATATATATT
ATACTAAGAGTTACATATAATAAAATTACATTATATATTGCATTTTGTTATTTATTGTTGTT
Found at i:70101323 original size:17 final size:16
Alignment explanation
Indices: 70101293--70101326 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
70101283 AGCCATACAC
70101293 TATATATTACTTATTA
1 TATATATTACTTATTA
*
70101309 TATATCATTATTTATTA
1 TATAT-ATTACTTATTA
70101326 T
1 T
70101327 TATGCTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATATTACTTATTA
Found at i:70101563 original size:41 final size:42
Alignment explanation
Indices: 70101473--70101566 Score: 120
Period size: 41 Copynumber: 2.2 Consensus size: 42
70101463 TACTACATCT
*
70101473 TTTATTATAATTTATATCATATTATGTATTAGTAATAGTTATA
1 TTTATTAT-ATTTATATCATATTATGTATTAGTAATAGTAATA
* * *
70101516 TATATTAT-TTTATATTATTTTATGTATTAGTAATA-TAATAA
1 TTTATTATATTTATATCATATTATGTATTAGTAATAGTAAT-A
70101557 TTTATTATAT
1 TTTATTATAT
70101567 CGGCTTAAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
40 3 0.07
41 33 0.75
42 1 0.02
43 7 0.16
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.56
Consensus pattern (42 bp):
TTTATTATATTTATATCATATTATGTATTAGTAATAGTAATA
Found at i:70103216 original size:5 final size:5
Alignment explanation
Indices: 70103203--70103240 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
70103193 TTGTGTGTTC
*
70103203 TTTAT TTTAC TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
70103241 TCACAAATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:70110043 original size:36 final size:36
Alignment explanation
Indices: 70109996--70110070 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
70109986 GCCCAAAGTT
*
70109996 AATCACACAAATTCTTAACATGTCTTCTAGGAATTG
1 AATCACACAAATTCTTAACATGTCTTCCAGGAATTG
70110032 AATCACACAAATTCTTAACATGTCTTCCAGGAATTG
1 AATCACACAAATTCTTAACATGTCTTCCAGGAATTG
70110068 AAT
1 AAT
70110071 AACTCTTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (36 bp):
AATCACACAAATTCTTAACATGTCTTCCAGGAATTG
Found at i:70114035 original size:32 final size:32
Alignment explanation
Indices: 70113994--70114055 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
70113984 TATTTAAAAT
70113994 TATGGAAAATGGAATTCCATGAAGGCACACTA
1 TATGGAAAATGGAATTCCATGAAGGCACACTA
70114026 TATGGAAAATGGAATTCCATGAAGGCACAC
1 TATGGAAAATGGAATTCCATGAAGGCACAC
70114056 GATCTTAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (32 bp):
TATGGAAAATGGAATTCCATGAAGGCACACTA
Found at i:70116287 original size:13 final size:13
Alignment explanation
Indices: 70116265--70116298 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
70116255 TAGCAGAAAA
*
70116265 TGAGCTGACTTAG
1 TGAGCCGACTTAG
70116278 TGAGCCGACTTAG
1 TGAGCCGACTTAG
70116291 TGAGCCGA
1 TGAGCCGA
70116299 TCCACTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (13 bp):
TGAGCCGACTTAG
Found at i:70121783 original size:46 final size:46
Alignment explanation
Indices: 70121730--70121903 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
70121720 TGTTTGGGCA
*
70121730 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACG
* * * *
70121776 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAA--A--CG
* * *
70121823 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACG
* * *
70121869 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
70121904 GGCGGGTTAC
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 8 0.07
44 1 0.01
45 1 0.01
46 62 0.58
47 27 0.25
48 1 0.01
49 1 0.01
50 6 0.06
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACG
Found at i:70121885 original size:93 final size:93
Alignment explanation
Indices: 70121726--70121897 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
70121716 AGGATGTTTG
* * *
70121726 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCATTGAG
70121791 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
70121819 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCATTGAG
70121884 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
70121898 ACTTATGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:70124914 original size:14 final size:15
Alignment explanation
Indices: 70124865--70124914 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
70124855 GTATCTTGGG
*
70124865 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
70124880 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
70124895 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
70124909 TTTCTT
1 TTTCTT
70124915 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:70128445 original size:37 final size:37
Alignment explanation
Indices: 70128395--70128474 Score: 160
Period size: 37 Copynumber: 2.2 Consensus size: 37
70128385 AAGGCCGATA
70128395 ACTCATTTATCATCGGAGCGAATACGCACATACACTT
1 ACTCATTTATCATCGGAGCGAATACGCACATACACTT
70128432 ACTCATTTATCATCGGAGCGAATACGCACATACACTT
1 ACTCATTTATCATCGGAGCGAATACGCACATACACTT
70128469 ACTCAT
1 ACTCAT
70128475 AGTGTGCAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (37 bp):
ACTCATTTATCATCGGAGCGAATACGCACATACACTT
Found at i:70128781 original size:39 final size:39
Alignment explanation
Indices: 70128653--70128795 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
70128643 CCGCACAAAG
* *
70128653 GCCTTCGAGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCG-GGCTTAGCCCGGATATCACAATTTGCACAATT
* * *
70128693 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCA-AATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
70128731 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
70128770 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
70128796 TCGAACATTC
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
38 35 0.37
39 52 0.55
40 7 0.07
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:70130563 original size:46 final size:46
Alignment explanation
Indices: 70130513--70130688 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
70130503 TGTTTGGGCA
*
70130513 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
70130559 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
70130606 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
70130652 CCCGAGCTCATTGATTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70130689 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 68 0.66
47 35 0.34
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:70130671 original size:93 final size:93
Alignment explanation
Indices: 70130509--70130680 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
70130499 AGGATGTTTG
* * * *
70130509 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCATTGAG
70130574 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
70130602 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAGCTCATTGAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCATTGAG
70130667 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
70130681 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:70132385 original size:12 final size:11
Alignment explanation
Indices: 70132351--70132389 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
70132341 TAAAATTAAA
70132351 AAATTAAAAC-
1 AAATTAAAACT
*
70132361 AAATTATAACT
1 AAATTAAAACT
70132372 AAATTAAGAACT
1 AAATTAA-AACT
70132384 AAATTA
1 AAATTA
70132390 TATTAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 6 0.24
12 10 0.40
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (11 bp):
AAATTAAAACT
Found at i:70137363 original size:27 final size:26
Alignment explanation
Indices: 70137325--70137382 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
70137315 TTTTTTCCAT
**
70137325 ATTTTTTATTTTTCTAATTCATATAA
1 ATTTTTTATTTTAATAATTCATATAA
* *
70137351 TTTTTTTAGTTTTAATAATTTATATAA
1 ATTTTTTA-TTTTAATAATTCATATAA
70137378 ATTTT
1 ATTTT
70137383 GAGTCATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (26 bp):
ATTTTTTATTTTAATAATTCATATAA
Found at i:70137407 original size:30 final size:31
Alignment explanation
Indices: 70137363--70137427 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
70137353 TTTTTAGTTT
70137363 TAAT-AATTTATATAAAT-TTTGAGTCATTTA
1 TAATAAATTTATAT-AATGTTTGAGTCATTTA
70137393 TAATAAATTT-TATAATGTTTGAGTCATTTA
1 TAATAAATTTATATAATGTTTGAGTCATTTA
70137423 TAATA
1 TAATA
70137428 TTTTTTCCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 3 0.09
30 25 0.76
31 5 0.15
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (31 bp):
TAATAAATTTATATAATGTTTGAGTCATTTA
Found at i:70137451 original size:10 final size:9
Alignment explanation
Indices: 70137438--70137498 Score: 59
Period size: 10 Copynumber: 6.3 Consensus size: 9
70137428 TTTTTTCCAC
70137438 TTTTATATAT
1 TTTTATA-AT
70137448 TTTTATAAT
1 TTTTATAAT
**
70137457 TTTCTATGAGC
1 TTT-TAT-AAT
*
70137468 TTCTATAAT
1 TTTTATAAT
70137477 TTTTATAATT
1 TTTTATAA-T
70137487 TTTTATAAT
1 TTTTATAAT
70137496 TTT
1 TTT
70137499 AAGTATAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
9 17 0.40
10 22 0.52
11 3 0.07
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:70138047 original size:13 final size:13
Alignment explanation
Indices: 70138029--70138056 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
70138019 AACTCATTAA
70138029 TTTTTATATAATT
1 TTTTTATATAATT
70138042 TTTTTATATAATT
1 TTTTTATATAATT
70138055 TT
1 TT
70138057 AAAATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTATATAATT
Found at i:70138841 original size:39 final size:39
Alignment explanation
Indices: 70138766--70138850 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
70138756 AATTGACCCA
70138766 TAATGAAACGTATTACTAAATATTTAAAATAAAATATGG
1 TAATGAAACGTATTACTAAATATTTAAAATAAAATATGG
70138805 TAATGAAACGTATTACTAAATATTTAAAATAAAATATGG
1 TAATGAAACGTATTACTAAATATTTAAAATAAAATATGG
*
70138844 CAATGAA
1 TAATGAA
70138851 TCTAGGCAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.32
Consensus pattern (39 bp):
TAATGAAACGTATTACTAAATATTTAAAATAAAATATGG
Found at i:70139047 original size:72 final size:72
Alignment explanation
Indices: 70138930--70139073 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
70138920 GATTCAAGCA
70138930 AGTTGAATTAAAAAATGATAATGTAATGTTAATTGAATTCATTCAGAATGGTTGAGCATCAGTAA
1 AGTTGAATTAAAAAATGATAATGTAATGTTAATTGAATTCATTCAGAATGGTTGAGCATCAGTAA
70138995 GTCATGT
66 GTCATGT
*
70139002 AGTTGAATTAAAAAATGATAATGTAATGTTAATTGAATTCATTCAGAATGGTTGGGCATCAGTAA
1 AGTTGAATTAAAAAATGATAATGTAATGTTAATTGAATTCATTCAGAATGGTTGAGCATCAGTAA
70139067 GTCATGT
66 GTCATGT
70139074 TGATGAAATT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (72 bp):
AGTTGAATTAAAAAATGATAATGTAATGTTAATTGAATTCATTCAGAATGGTTGAGCATCAGTAA
GTCATGT
Found at i:70140669 original size:2 final size:2
Alignment explanation
Indices: 70140662--70140691 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
70140652 GGCTTAAAGT
70140662 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70140692 ATTAAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:70141549 original size:16 final size:17
Alignment explanation
Indices: 70141520--70141553 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
70141510 AGGCTCAAAT
70141520 ATTATTTTAATTTTAAA
1 ATTATTTTAATTTTAAA
*
70141537 ATTA-TTTATTTTTAAA
1 ATTATTTTAATTTTAAA
70141553 A
1 A
70141554 CCCTATTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATTTTAATTTTAAA
Found at i:70145049 original size:17 final size:17
Alignment explanation
Indices: 70145027--70145061 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
70145017 ATGCTGTGAT
70145027 ATACCATACCCGGATCC
1 ATACCATACCCGGATCC
*
70145044 ATACCATACTCGGATCC
1 ATACCATACCCGGATCC
70145061 A
1 A
70145062 ATTATTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.37, G:0.11, T:0.20
Consensus pattern (17 bp):
ATACCATACCCGGATCC
Found at i:70147641 original size:25 final size:25
Alignment explanation
Indices: 70147604--70147744 Score: 210
Period size: 25 Copynumber: 5.6 Consensus size: 25
70147594 TGTAAACAGT
* * *
70147604 AAGCTCTTCCGAGCTGAATAACGGG
1 AAGCTCATGCGAGCTGAATAATGGG
*
70147629 AAGCTCATGCGAGTTGAATAATGGG
1 AAGCTCATGCGAGCTGAATAATGGG
*
70147654 AAGCTCATGCGAGTTGAATAATGGG
1 AAGCTCATGCGAGCTGAATAATGGG
*
70147679 AAGCTCATGCAAGCTGAATAATGGG
1 AAGCTCATGCGAGCTGAATAATGGG
70147704 AAGCTCATGCGAGCTGAATAATGGG
1 AAGCTCATGCGAGCTGAATAATGGG
* *
70147729 AAGCTGATACGAGCTG
1 AAGCTCATGCGAGCTG
70147745 TGGTGTGTCC
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 107 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.21
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGAATAATGGG
Found at i:70154517 original size:3 final size:3
Alignment explanation
Indices: 70154509--70154557 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
70154499 AAATAAATAT
*
70154509 TTA TTA TTA TAA TTA TTAA TTA TTA TTA TT- TATA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA TTA TTA TTA
70154554 TTA T
1 TTA T
70154558 GGAATAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 3 0.08
3 33 0.82
4 4 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:70154525 original size:16 final size:16
Alignment explanation
Indices: 70154501--70154557 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
70154491 TTGTTATTAA
*
70154501 ATAAATATTTATTATT
1 ATAATTATTTATTATT
*
70154517 ATAATTATTAATTATT
1 ATAATTATTTATTATT
*
70154533 ATTATTTATATTATTATT
1 A-TAATTAT-TTATTATT
70154551 AT-ATTAT
1 ATAATTAT
70154558 GGAATAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 19 0.56
17 7 0.21
18 8 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATAATTATTTATTATT
Found at i:70160837 original size:2 final size:2
Alignment explanation
Indices: 70160830--70160866 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
70160820 ATGATCCAAA
70160830 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
70160867 GAAAGATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70163933 original size:24 final size:24
Alignment explanation
Indices: 70163906--70163959 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
70163896 TGTTCTAGGG
*
70163906 ATAGTTAGTGTTCCTTCTTAATAT
1 ATAGTTAGTGTTCCTTCTCAATAT
70163930 ATAGTTAGTGTTCCTTCTCAATAT
1 ATAGTTAGTGTTCCTTCTCAATAT
70163954 ATAGTT
1 ATAGTT
70163960 GATAAGGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (24 bp):
ATAGTTAGTGTTCCTTCTCAATAT
Found at i:70180061 original size:146 final size:140
Alignment explanation
Indices: 70179795--70180069 Score: 338
Period size: 146 Copynumber: 1.9 Consensus size: 140
70179785 ACATTGAGAC
**
70179795 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAGTGTAAAACAT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATCAAAGCCAGTGTAAAACAT
* * * *
70179860 GTTTGGGACATGCATCGGCTATGAGATGTGTCAGTGTAAGACCATGTCTAGGACATGGAATCGGC
66 GTTTGGGACATGCATCGCCTATGAGATGAGCCAATGTAAGACCATGTCTAGGACATGGAATCGGC
70179925 ACAGATATGT
131 ACAGATATGT
* ** ** * *
70179935 GAGAGCTAGTGTAAGACAATGTCTGGGACATGGCGTTGGCCTCGATTTCAATAGTCAGTGTAAGA
1 GAGAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCCTCGAGATCAA-AGCCAGTGTAAAA
70180000 CGATGTTTGGGACATGGCATCGACCTGATG-GATGAGCCAATGTAAGACCATGTCT-GAGACATG
63 C-ATGTTTGGGACAT-GCATCG-CCT-ATGAGATGAGCCAATGTAAGACCATGTCTAG-GACATG
*
70180063 GCATCGG
123 GAATCGG
70180070 TGTTATACCC
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
140 17 0.15
141 13 0.12
142 12 0.11
143 12 0.11
144 13 0.12
145 7 0.06
146 36 0.32
147 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (140 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATCAAAGCCAGTGTAAAACAT
GTTTGGGACATGCATCGCCTATGAGATGAGCCAATGTAAGACCATGTCTAGGACATGGAATCGGC
ACAGATATGT
Found at i:70188232 original size:56 final size:56
Alignment explanation
Indices: 70188157--70188265 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 56
70188147 ACCATGGCAT
*
70188157 CGATATATGTGGGCCAGTAAGACTACATTTAATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGGGCCAGTAAGACAACATTTAATACGTTGGCATCGATATGTGACTC
* * * *
70188213 CGATATATGTGTGCGAGTAAGACAACGTTTAGTACGTTGGCATCGATATGTGA
1 CGATATATGTGGGCCAGTAAGACAACATTTAATACGTTGGCATCGATATGTGA
70188266 TTTCATGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (56 bp):
CGATATATGTGGGCCAGTAAGACAACATTTAATACGTTGGCATCGATATGTGACTC
Found at i:70195477 original size:13 final size:13
Alignment explanation
Indices: 70195459--70195492 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
70195449 ACCATTTAAG
70195459 GGCACACGGCTAA
1 GGCACACGGCTAA
70195472 GGCACACGGCTAA
1 GGCACACGGCTAA
70195485 GGCACACG
1 GGCACACG
70195493 CCTGTGTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.32, T:0.06
Consensus pattern (13 bp):
GGCACACGGCTAA
Found at i:70196623 original size:48 final size:49
Alignment explanation
Indices: 70196454--70196978 Score: 536
Period size: 48 Copynumber: 10.9 Consensus size: 49
70196444 AAAAGGTAAG
* * *
70196454 ATGCCGATGCCATGTCCCATACATGGTCTTACACTGGCT-TTCATATATCA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATA--A
* * * * * * * **
70196504 GTGCCAATGCCATGTTCCAAACATGGTCTTA-ACAATCTC-ACCTGTTG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATAA
* *
70196551 AGGCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTA-ATATAA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATAA
* *
70196599 ATGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATATAA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATAA
* **
70196647 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTC-ACATATCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATAA
* * * *
70196695 AGGTCGATGCCATATCCCAGACATGGTCTTACACTAGCTCT-CATATAA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATAA
* * * * * **
70196743 ATGTCGATACTATGTTCCAAACATGGTCTTACACTGGCTC-ACATATCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATAA
* * *
70196791 AGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATTTAA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATAA
* * * **
70196839 ATGCCGATACCATGTTCCAAACATGGTCTTACACTGGCTC-ACATATCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATAA
* * * *
70196887 AGGCC-ATGCCATGTCCCAGACATGGTCTTATACAAGCTCT-CATATAA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATAA
* * *
70196934 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTC-ACATA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATA
70196979 CCCCTAGTAT
Statistics
Matches: 381, Mismatches: 82, Indels: 26
0.78 0.17 0.05
Matches are distributed among these distances:
47 62 0.16
48 284 0.75
49 8 0.02
50 27 0.07
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (49 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATAA
Found at i:70196677 original size:96 final size:96
Alignment explanation
Indices: 70196454--70196978 Score: 698
Period size: 96 Copynumber: 5.5 Consensus size: 96
70196444 AAAAGGTAAG
* * *
70196454 ATGCCGATGCCATGTCCCATACATGGTCTTACACTGGCTTTCATATATC-AGTGCCAATGCCATG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGC--TCACATATCGAG-GCCAATGCCATG
* * * * * * * **
70196518 TTCCAAACATGGTCTTA-ACAATCTCACCTGTTG
63 TCCCAGACATGGTCTTACACTAGCTCTCATATAA
* * * * ** *
70196551 AGGCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTA-ATATAAATGCCAATGCCATGTC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC-ACATATCGAGGCCAATGCCATGTC
70196615 CCAGACATGGTCTTACACTAGCTCTCATATAA
65 CCAGACATGGTCTTACACTAGCTCTCATATAA
* * * *
70196647 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGTCGATGCCATATCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCC
70196712 CAGACATGGTCTTACACTAGCTCTCATATAA
66 CAGACATGGTCTTACACTAGCTCTCATATAA
* * * *
70196743 ATGTCGATACTATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCC
*
70196808 CAGACATGGTCTTACACTAGCTCTCATTTAA
66 CAGACATGGTCTTACACTAGCTCTCATATAA
*
70196839 ATGCCGATACCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCC-ATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCC
* *
70196903 CAGACATGGTCTTATACAAGCTCTCATATAA
66 CAGACATGGTCTTACACTAGCTCTCATATAA
*
70196934 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
70196979 CCCCTAGTAT
Statistics
Matches: 386, Mismatches: 38, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
95 116 0.30
96 236 0.61
97 34 0.09
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (96 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCC
CAGACATGGTCTTACACTAGCTCTCATATAA
Found at i:70196741 original size:144 final size:143
Alignment explanation
Indices: 70196454--70196978 Score: 613
Period size: 144 Copynumber: 3.7 Consensus size: 143
70196444 AAAAGGTAAG
* * * * *
70196454 ATGCCGATGCCATGTCCCATACATGGTCTTACACTGGCTTTCATATATCAGTGCCAATGCCATGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGT
* * * * *
70196519 TCCAAACATGGTCTTA-ACAATCTCACCTGTTGAGGCTGATGCCATGTCCCAAACATGGTCTTAC
64 TCCAAACATGGTCTTACACTAGCTCACATATAGAGGC-GATGCCATGTCCCAAACATGGTCTTAC
*
70196583 ACTAGCTCTAATATAA
128 ACTAGCTCTCATATAA
*
70196599 ATGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTC
* * *
70196664 CAAACATGGTCTTACACTAGCTCACATATCGAGGTCGATGCCATATCCCAGACATGGTCTTACAC
66 CAAACATGGTCTTACACTAGCTCACATATAGAGG-CGATGCCATGTCCCAAACATGGTCTTACAC
70196729 TAGCTCTCATATAA
130 TAGCTCTCATATAA
* * * * * * * ** * *
70196743 ATGTCGATACTATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTC
* * * * * * *
70196808 CAGACATGGTCTTACACTAGCTCTCATTTAAATGCCGATACCATGTTCCAAACATGGTCTTACAC
66 CAAACATGGTCTTACACTAGCTCACATATAGA-GGCGATGCCATGTCCCAAACATGGTCTTACAC
* * **
70196873 TGGCTCACATATCG
130 TAGCTCTCATATAA
* * * *
70196887 AGGCC-ATGCCATGTCCCAGACATGGTCTTATACAAGCTCTCATATAAATGCTGATGCCATGTTC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTC
*
70196951 CAAACATGGTCTTACACTGGCTCACATA
66 CAAACATGGTCTTACACTAGCTCACATA
70196979 CCCCTAGTAT
Statistics
Matches: 318, Mismatches: 59, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
143 100 0.31
144 173 0.54
145 45 0.14
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (143 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTC
CAAACATGGTCTTACACTAGCTCACATATAGAGGCGATGCCATGTCCCAAACATGGTCTTACACT
AGCTCTCATATAA
Found at i:70207781 original size:2 final size:2
Alignment explanation
Indices: 70207733--70207762 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
70207723 ACGCACCTGC
*
70207733 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70207763 GTTGATTAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70218062 original size:24 final size:24
Alignment explanation
Indices: 70218030--70218082 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
70218020 TCGGTTGGTG
*
70218030 AATGAATAAATTGTGTATCATTGA
1 AATGTATAAATTGTGTATCATTGA
70218054 AATGTATAAATTGTGTATCATTGA
1 AATGTATAAATTGTGTATCATTGA
70218078 AATGT
1 AATGT
70218083 TCTTAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.40
Consensus pattern (24 bp):
AATGTATAAATTGTGTATCATTGA
Found at i:70220550 original size:40 final size:40
Alignment explanation
Indices: 70220505--70220671 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
70220495 CGGAATATAA
*
70220505 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
70220545 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
70220585 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
70220625 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
70220664 CCGGATAT
1 CCGGATAT
70220672 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.86
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:70234549 original size:31 final size:31
Alignment explanation
Indices: 70234514--70234590 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
70234504 TTCATAACAG
70234514 TGGGCCGAAGCCTTTTCAAGTTTCATATTAC
1 TGGGCCGAAGCCTTTTCAAGTTTCATATTAC
70234545 TGGGCCGAAGCCTTTTCAAGTTTCATATTAC
1 TGGGCCGAAGCCTTTTCAAGTTTCATATTAC
*
70234576 TGGGCCAAAGCCTTT
1 TGGGCCGAAGCCTTT
70234591 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTTCAAGTTTCATATTAC
Found at i:70234834 original size:24 final size:24
Alignment explanation
Indices: 70234783--70234971 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
70234773 GCTTTATCAT
*
70234783 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
70234808 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
70234832 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
70234855 ATAATTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
70234878 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
70234902 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
70234926 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
70234949 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
70234972 GCACTTCCTC
Statistics
Matches: 154, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
23 66 0.43
24 76 0.49
25 12 0.08
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:70234858 original size:23 final size:23
Alignment explanation
Indices: 70234804--70234970 Score: 271
Period size: 23 Copynumber: 7.1 Consensus size: 23
70234794 CCTAGCCTCT
*
70234804 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
70234827 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
70234851 TTTAATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
70234874 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
70234897 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
70234921 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
70234945 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
70234968 TTT
1 TTT
70234971 TGCACTTCCT
Statistics
Matches: 137, Mismatches: 5, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
23 69 0.50
24 68 0.50
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:70234909 original size:94 final size:95
Alignment explanation
Indices: 70234783--70234970 Score: 308
Period size: 94 Copynumber: 2.0 Consensus size: 95
70234773 GCTTTATCAT
*
70234783 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAG
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAG
*
70234848 CCCTTTAATAATTGGGGCATAAGCCCTTTA
66 CCCTTTAATAACTGGGGCATAAGCCCTTTA
* * *
70234878 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAA
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
70234941 GCCCTTTAATAACTGGGGCATAAGCCCTTT
65 GCCCTTTAATAACTGGGGCATAAGCCCTTT
70234971 TGCACTTCCT
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
94 75 0.86
95 12 0.14
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (95 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAG
CCCTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:70234972 original size:47 final size:47
Alignment explanation
Indices: 70234804--70234971 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
70234794 CCTAGCCTCT
*
70234804 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
70234851 TTTAATAATTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
70234897 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
70234945 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
70234972 GCACTTCCTC
Statistics
Matches: 113, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
46 23 0.20
47 68 0.60
48 22 0.19
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:70235043 original size:9 final size:9
Alignment explanation
Indices: 70235029--70235085 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
70235019 ATCTCATGTG
70235029 CATATCATA
1 CATATCATA
*
70235038 CATATCATGTG
1 CATATCA--TA
70235049 CATATCATA
1 CATATCATA
* *
70235058 CATGTCATGTG
1 CATATCA--TA
70235069 CATATCATA
1 CATATCATA
70235078 CATATCAT
1 CATATCAT
70235086 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:70235045 original size:20 final size:20
Alignment explanation
Indices: 70235017--70235087 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
70235007 GCATTTATGA
*
70235017 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
70235037 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
70235057 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
70235077 ACATATCATGT
1 ACATATCATGT
70235088 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:70235052 original size:11 final size:11
Alignment explanation
Indices: 70235022--70235076 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
70235012 TATGAACATC
70235022 TCATGTGCATA
1 TCATGTGCATA
*
70235033 TCA--TACATA
1 TCATGTGCATA
70235042 TCATGTGCATA
1 TCATGTGCATA
* *
70235053 TCA--TACATG
1 TCATGTGCATA
70235062 TCATGTGCATA
1 TCATGTGCATA
70235073 TCAT
1 TCAT
70235077 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:70245631 original size:25 final size:25
Alignment explanation
Indices: 70245597--70245647 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
70245587 TGAGTGGCTC
*
70245597 AATGAGAAAATGTTACATGATAACT
1 AATGAGAAAACGTTACATGATAACT
70245622 AATGAGAAAACGTTACATGATAACT
1 AATGAGAAAACGTTACATGATAACT
70245647 A
1 A
70245648 CGGGGTCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (25 bp):
AATGAGAAAACGTTACATGATAACT
Found at i:70248049 original size:16 final size:16
Alignment explanation
Indices: 70248028--70248060 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
70248018 TTTCTAAACA
70248028 TTTTTCTGTGCAATTG
1 TTTTTCTGTGCAATTG
70248044 TTTTTCTGTGCAATTG
1 TTTTTCTGTGCAATTG
70248060 T
1 T
70248061 CATGGCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (16 bp):
TTTTTCTGTGCAATTG
Found at i:70249062 original size:73 final size:73
Alignment explanation
Indices: 70248943--70249090 Score: 260
Period size: 73 Copynumber: 2.0 Consensus size: 73
70248933 AGAATGTTGG
70248943 AGGACTTTGGGCACATCCTTAAGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCTGTTTCA
1 AGGACTTTGGGCACATCCTTAAGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCTGTTTCA
*
70249008 TAACGAGA
66 AAACGAGA
** *
70249016 AGGACTTTGGGTGCATCCTTAGGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCTGTTTCA
1 AGGACTTTGGGCACATCCTTAAGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCTGTTTCA
70249081 AAACGAGA
66 AAACGAGA
70249089 AG
1 AG
70249091 TTGCCAGCAC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (73 bp):
AGGACTTTGGGCACATCCTTAAGATATGGATCTTTGGAGCACAAGATCAAAGATTGTCTGTTTCA
AAACGAGA
Found at i:70253036 original size:68 final size:70
Alignment explanation
Indices: 70252964--70253161 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
70252954 ACACCCTGTA
* * * *
70252964 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
70253026 ATAAAT
65 ATAAAT
*
70253032 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
70253097 ATAAAT
65 ATAAAT
*
70253103 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
70253162 CTAGGTCGAG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:70253075 original size:41 final size:41
Alignment explanation
Indices: 70253030--70253147 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
70253020 TGAAAGATAA
70253030 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
70253071 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70253101 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70253142 ATGTAG
1 ATGTAG
70253148 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:70253087 original size:71 final size:71
Alignment explanation
Indices: 70252998--70253161 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70252988 GAGATGTATC
70252998 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70253063 AGGACA
66 AGGACA
70253069 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70253134 AGGACA
66 AGGACA
70253140 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
70253162 CTAGGTCGAG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:70260616 original size:68 final size:70
Alignment explanation
Indices: 70260544--70260741 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
70260534 ACACCCTGTA
* * * *
70260544 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
70260606 ATAAAT
65 ATAAAT
*
70260612 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
70260677 ATAAAT
65 ATAAAT
*
70260683 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
70260742 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:70260655 original size:41 final size:41
Alignment explanation
Indices: 70260610--70260727 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
70260600 TGAAAGATAA
70260610 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
70260651 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70260681 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70260722 ATGTAG
1 ATGTAG
70260728 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:70260667 original size:71 final size:71
Alignment explanation
Indices: 70260578--70260741 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70260568 GAGATGTATC
70260578 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70260643 AGGACA
66 AGGACA
70260649 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70260714 AGGACA
66 AGGACA
70260720 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
70260742 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Done.